Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 68 of 204
Found at i:20108023 original size:18 final size:17
Alignment explanation
Indices: 20107995--20108028 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
20107985 GACAAAGAAT
20107995 CAATAAATACAAATAAA
1 CAATAAATACAAATAAA
*
20108012 CAATACAATACACATAA
1 CAATA-AATACAAATAA
20108029 GAGCAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (17 bp):
CAATAAATACAAATAAA
Found at i:20108746 original size:3 final size:3
Alignment explanation
Indices: 20108732--20108764 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
20108722 AAACAAACCT
*
20108732 TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20108765 AGTTAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20110592 original size:44 final size:44
Alignment explanation
Indices: 20110533--20111132 Score: 195
Period size: 44 Copynumber: 13.7 Consensus size: 44
20110523 CTGATGCGAT
* * *
20110533 CCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAAC
1 CCACTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCAAC
* * * *
20110577 CCACTCCACTACAACTTCAAGGAGATAGGAT-TA-TAGGCTTCAAT
1 CCACTCCACTGCAACTTCAGGGAGATAAGATCTATTA--CTTCAAC
** * * ***
20110621 CTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAA-
1 CCACTCCACTGCAACTTCAGGGAGATAAGATCTATTA-CTTCAAC
* ** * * * * * *
20110665 TCGGTCCCACTGCAACTTCAGGGGGATAACACCTA--A-TGCGAT
1 CCACT-CCACTGCAACTTCAGGGAGATAAGATCTATTACTTCAAC
* * *
20110707 CCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAAC
1 CCACTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCAAC
* * * ** *
20110751 CCACTCCACTACAACTTTAGGGAGATAGGAT-TATCGGCTTCAAT
1 CCACTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTCAAC
** * * * *** *
20110795 CTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCGA-
1 CCACTCCACTGCAACTTCAGGGAGATAAGATCTATTA-CTTCAAC
* ** * * * *
20110839 TCGGTCCCACTGCAACTTCAGAGAGATAATATCTGTTACTTTAAC
1 CCACT-CCACTGCAACTTCAGGGAGATAAGATCTATTACTTCAAC
* * * ** * *
20110884 CCACTCAACTACAACTTCAGGGAGATAGGAT-TATCGGCTTTAAT
1 CCACTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTCAAC
** * * *** *
20110928 CTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGA-
1 CCACTCCACTGCAACTTCAGGGAGATAAGATCTATTA-CTTCAAC
* ** * * * * * *
20110972 TCGGTCCCACTGAAACTTTAGGGGGATAAGACCTA--A-TGT-GAT
1 CCACT-CCACTGCAACTTCAGGGAGATAAGATCTATTACT-TCAAC
** * ** * *
20111014 CCACTATACTGTAACTTCAAAGAGATATGATCTATTACTTTAAC
1 CCACTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCAAC
* * ** *
20111058 CCACTCCACTACAACTTCAGGGAGATAGGAT-TATCGGCTTCAAT
1 CCACTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTCAAC
** * *
20111102 CTGCTCCACTACAACCTCAGGGAGATAAGAT
1 CCACTCCACTGCAACTTCAGGGAGATAAGAT
20111133 TTGCCACATT
Statistics
Matches: 398, Mismatches: 133, Indels: 50
0.69 0.23 0.09
Matches are distributed among these distances:
41 50 0.13
42 7 0.02
43 15 0.04
44 235 0.59
45 90 0.23
46 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (44 bp):
CCACTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCAAC
Found at i:20110706 original size:174 final size:174
Alignment explanation
Indices: 20110500--20110867 Score: 646
Period size: 174 Copynumber: 2.1 Consensus size: 174
20110490 GTCTGCTCCG
* * *
20110500 CTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATC
1 CTGCAACTTCAGGGAGATAACACCTAATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATC
20110565 TATTACTTTAACCCACTCCACTACAACTTCAAGGAGATAGGATTATAGGCTTCAATCTGCTCCAC
66 TATTACTTTAACCCACTCCACTACAACTTCAAGGAGATAGGATTATAGGCTTCAATCTGCTCCAC
*
20110630 TGCAACCTCAGGGAGATAAGATTTGCCATCTTCAATCGGTCCCA
131 TACAACCTCAGGGAGATAAGATTTGCCATCTTCAATCGGTCCCA
*
20110674 CTGCAACTTCAGGGGGATAACACCTAATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATC
1 CTGCAACTTCAGGGAGATAACACCTAATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATC
* * *
20110739 TATTACTTTAACCCACTCCACTACAACTTTAGGGAGATAGGATTATCGGCTTCAATCTGCTCCAC
66 TATTACTTTAACCCACTCCACTACAACTTCAAGGAGATAGGATTATAGGCTTCAATCTGCTCCAC
*
20110804 TACAACCTCAGGGAGATAAGATTTGCCATCTTCGATCGGTCCCA
131 TACAACCTCAGGGAGATAAGATTTGCCATCTTCAATCGGTCCCA
*
20110848 CTGCAACTTCAGAGAGATAA
1 CTGCAACTTCAGGGAGATAA
20110868 TATCTGTTAC
Statistics
Matches: 183, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
174 183 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (174 bp):
CTGCAACTTCAGGGAGATAACACCTAATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATC
TATTACTTTAACCCACTCCACTACAACTTCAAGGAGATAGGATTATAGGCTTCAATCTGCTCCAC
TACAACCTCAGGGAGATAAGATTTGCCATCTTCAATCGGTCCCA
Found at i:20110865 original size:133 final size:133
Alignment explanation
Indices: 20110714--20110989 Score: 489
Period size: 133 Copynumber: 2.1 Consensus size: 133
20110704 GATCCACTCT
* *
20110714 ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCACTCCACTACAACTTTAGGGAGATAG
1 ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCACTCAACTACAACTTCAGGGAGATAG
20110779 GATTATCGGCTTCAATCTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCGATCGGT
66 GATTATCGGCTTCAATCTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCGATCGGT
20110844 CCC
131 CCC
* *
20110847 ACTGCAACTTCAGAGAGATAATATCTGTTACTTTAACCCACTCAACTACAACTTCAGGGAGATAG
1 ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCACTCAACTACAACTTCAGGGAGATAG
* *
20110912 GATTATCGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCGGT
66 GATTATCGGCTTCAATCTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCGATCGGT
20110977 CCC
131 CCC
*
20110980 ACTGAAACTT
1 ACTGCAACTT
20110990 TAGGGGGATA
Statistics
Matches: 136, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
133 136 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (133 bp):
ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCACTCAACTACAACTTCAGGGAGATAG
GATTATCGGCTTCAATCTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCGATCGGT
CCC
Found at i:20110897 original size:307 final size:307
Alignment explanation
Indices: 20110540--20111175 Score: 1087
Period size: 307 Copynumber: 2.1 Consensus size: 307
20110530 GATCCACTCT
*
20110540 ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCACTCCACTACAACTTCAAGGAGATAG
1 ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCACTCAACTACAACTTCAAGGAGATAG
20110605 GATTATAGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAATCGGT
66 GATTATAGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAATCGGT
* * *
20110670 CCCACTGCAACTTCAGGGGGATAACACCTAATGCGATCCACTCTACTGCAACTTCAGAGAGATAA
131 CCCACTGAAACTTCAGGGGGATAACACCTAATGCGATCCACTATACTGCAACTTCAAAGAGATAA
*
20110735 GATCTATTACTTTAACCCACTCCACTACAACTTTAGGGAGATAGGATTATCGGCTTCAATCTGCT
196 GATCTATTACTTTAACCCACTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCT
20110800 CCACTACAACCTCAGGGAGATAAGATTTGCCATC-TTCGATCGGTCCC
261 CCACTACAACCTCAGGGAGATAAGATTTGCCA-CATTCGATCGGTCCC
* * *
20110847 ACTGCAACTTCAGAGAGATAATATCTGTTACTTTAACCCACTCAACTACAACTTCAGGGAGATAG
1 ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCACTCAACTACAACTTCAAGGAGATAG
* * *
20110912 GATTATCGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCGGT
66 GATTATAGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAATCGGT
* * * * *
20110977 CCCACTGAAACTTTAGGGGGATAAGACCTAATGTGATCCACTATACTGTAACTTCAAAGAGATAT
131 CCCACTGAAACTTCAGGGGGATAACACCTAATGCGATCCACTATACTGCAACTTCAAAGAGATAA
20111042 GATCTATTACTTTAACCCACTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCT
196 GATCTATTACTTTAACCCACTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCT
20111107 CCACTACAACCTCAGGGAGATAAGATTTGCCACATTCGATCGGTCCC
261 CCACTACAACCTCAGGGAGATAAGATTTGCCACATTCGATCGGTCCC
* *
20111154 ACTACAACTTCAG-GGGATAAGA
1 ACTGCAACTTCAGAGAGATAAGA
20111176 CTTGCTTACT
Statistics
Matches: 309, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
306 8 0.03
307 301 0.97
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (307 bp):
ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCACTCAACTACAACTTCAAGGAGATAG
GATTATAGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAATCGGT
CCCACTGAAACTTCAGGGGGATAACACCTAATGCGATCCACTATACTGCAACTTCAAAGAGATAA
GATCTATTACTTTAACCCACTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCT
CCACTACAACCTCAGGGAGATAAGATTTGCCACATTCGATCGGTCCC
Found at i:20111032 original size:174 final size:174
Alignment explanation
Indices: 20110847--20111529 Score: 644
Period size: 174 Copynumber: 3.9 Consensus size: 174
20110837 GATCGGTCCC
* * *
20110847 ACTGCAACTTCAGAGAGATAATATCTGTTACTTTAACCCACTCAACTACAACTTCAGGGAGATAG
1 ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCACTCCACTACAACTTCAGGGAGATAG
*
20110912 GATTATCGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCGGT
66 GATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCGGT
* * *
20110977 CCCACTGA-AACTTTAGGGGGATAAGACCTAATGTGATCCACTAT
131 CCCACT-ACAACCTCAGGGGGATAAGACCTAATGTGATCCACTCT
* * *
20111021 ACTGTAACTTCAAAGAGATATGATCTATTACTTTAACCCACTCCACTACAACTTCAGGGAGATAG
1 ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCACTCCACTACAACTTCAGGGAGATAG
*
20111086 GATTATCGGCTTCAATCTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCA-CATTCGATCGG
66 GATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATC-TTCGATCGG
* * * * ** *
20111150 TCCCACTACAACTTCA-GGGGATAAGACTTGCTTA-CTCAGTCTGCTCC
130 TCCCACTACAACCTCAGGGGGATAAGAC---CTAATGTGA-TCCACTCT
* * * * *
20111197 ACTGTAACCTCAGGGAGATAAGA-CT-TGT-CTTCT--CCGATCTGCCCCACTACAACCTCAGGG
1 ACTGCAACTTCAGAGAGATAAGATCTAT-TACTT-TAACCCA-CT---CCACTACAACTTCAGGG
* * * * * * * * * *
20111257 GGATA--A-GACCTGCTTACTTAGTCTGCTCCACGGCAACCTCAGGGAGATAAAACTTGTCTTC-
60 AGATAGGATTATCGGCTT-C--AATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCT
** * * *
20111318 TC-AGTC--TACTCCACTGTAACCTCAGGGAGATAAGACCTGATGTGGTCCACTCT
122 TCGA-TCGGT-C-CCACTACAACCTCAGGGGGATAAGACCTAATGTGATCCACTCT
* * * * *
20111371 ACTGCAACTTCAGAGTGATAAGATCTATTACTTTAATCCGCTCCAGTACAGCTTCAGGGAGATAG
1 ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCACTCCACTACAACTTCAGGGAGATAG
* * * *
20111436 GATTATCAGCTTCAATCTGTTCTACTGCAACCTCAGGGAGATAAGATTTGTCATCTTCGATCTGG
66 GATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGATC-GG
*
20111501 -CCCACTACAACCTCAAGGGGATAAGACCT
130 TCCCACTACAACCTCAGGGGGATAAGACCT
20111530 GCTTACTCAG
Statistics
Matches: 406, Mismatches: 69, Indels: 68
0.75 0.13 0.13
Matches are distributed among these distances:
173 69 0.17
174 200 0.49
175 19 0.05
176 53 0.13
177 64 0.16
178 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (174 bp):
ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCACTCCACTACAACTTCAGGGAGATAG
GATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCGGT
CCCACTACAACCTCAGGGGGATAAGACCTAATGTGATCCACTCT
Found at i:20111217 original size:44 final size:44
Alignment explanation
Indices: 20111101--20111623 Score: 299
Period size: 44 Copynumber: 11.9 Consensus size: 44
20111091 TCGGCTTCAA
* * *
20111101 TCTGCTCCACTACAACCTCAGGGAGATAAGATTTGC-CACATTC-G
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCTTAC--TCAG
* * *
20111145 ATC-GGTCCCACTACAACTTCAGGG-GATAAGACTTGCTTACTCAG
1 -TCTGCT-CCACTGCAACCTCAGGGAGATAAGACTTGCTTACTCAG
* *
20111189 TCTGCTCCACTGTAACCTCAGGGAGATAAGACTTGTCTT-CTCCG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTG-CTTACTCAG
* * * * *
20111233 ATCTGCCCCACTACAACCTCAGGGGGATAAGACCTGCTTACTTAG
1 -TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCTTACTCAG
* *
20111278 TCTGCTCCACGGCAACCTCAGGGAGATAAAACTTGTCTT-CTCAG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTG-CTTACTCAG
* * * * * *
20111322 TCTACTCCACTGTAACCTCAGGGAGATAAGACCTG-AT-GT-GG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCTTACTCAG
** * * * * * * *
20111363 TCCACTCTACTGCAACTTCAGAGTGATAAGA-TCT-ATTACTTTAA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACT-TGCTTAC-TCAG
* * * * * * * * *
20111407 TCCGCTCCAGTACAGCTTCAGGGAGATAGGA-TT-ATCAGCTTCAA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCTTA-C-TCAG
* * * *
20111451 TCTGTTCTACTGCAACCTCAGGGAGATAAGATTTG-TCATCTTC-G
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCTTA-C-TCAG
* *
20111495 ATCTGGC-CCACTACAACCTCAAGGG-GATAAGACCTGCTTACTCAG
1 -TCT-GCTCCACTGCAACCTC-AGGGAGATAAGACTTGCTTACTCAG
* * *
20111540 TCTGCTCCACTACAACCTTAGGGAGATAAGACTTGTCTT-CTCCG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTG-CTTACTCAG
* *
20111584 ATCTGCCCCACTGCAACCTCAGGGGGGATAAGACTTGCTT
1 -TCTGCTCCACTGCAACCTCA-GGGAGATAAGACTTGCTT
20111624 GAAAAACTTA
Statistics
Matches: 376, Mismatches: 75, Indels: 54
0.74 0.15 0.11
Matches are distributed among these distances:
41 28 0.07
42 2 0.01
43 29 0.08
44 180 0.48
45 116 0.31
46 21 0.06
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (44 bp):
TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCTTACTCAG
Found at i:20111252 original size:307 final size:307
Alignment explanation
Indices: 20110544--20111264 Score: 1018
Period size: 307 Copynumber: 2.3 Consensus size: 307
20110534 CACTCTACTG
* * * * * *
20110544 CAACTTCAGAGAGATAAGATCTATTACTTTAACCCACTCCACTACAACTTCAAGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTGTTACTTCAACCCACTCAACTACAACCTCAGGGAGATAAGATT
* *
20110609 ATAGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAATCGGTCCCA
66 ATCGGCTCCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAATCGGTCCCA
* * *
20110674 CTGCAACTTCAGGGGGATAACACCTAATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATC
131 CTGAAACTTCAGGGGGATAACACCTAATGCGATCCACTATACTGCAACTTCAAAGAGATAAGATC
*
20110739 TATTACTTTAACCCACTCCACTACAACTTTAGGGAGATAGGATTATCGGCTTCAATCTGCTCCAC
196 TATTACTTTAACCCACTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCAC
*
20110804 TACAACCTCAGGGAGATAAGATTTGCCATCTTCGATCGGTCCCACTG
261 TACAACCTCAGGGAGATAAGATTTGCCATCTTCGATCGGTCCCACTA
* * * *
20110851 CAACTTCAGAGAGATAATATCTGTTACTTTAACCCACTCAACTACAACTTCAGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTGTTACTTCAACCCACTCAACTACAACCTCAGGGAGATAAGATT
** *
20110916 ATCGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCGGTCCCA
66 ATCGGCTCCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAATCGGTCCCA
* * * * *
20110981 CTGAAACTTTAGGGGGATAAGACCTAATGTGATCCACTATACTGTAACTTCAAAGAGATATGATC
131 CTGAAACTTCAGGGGGATAACACCTAATGCGATCCACTATACTGCAACTTCAAAGAGATAAGATC
20111046 TATTACTTTAACCCACTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCAC
196 TATTACTTTAACCCACTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCAC
20111111 TACAACCTCAGGGAGATAAGATTTGCCA-CATTCGATCGGTCCCACTA
261 TACAACCTCAGGGAGATAAGATTTGCCATC-TTCGATCGGTCCCACTA
* ** ** * **
20111158 CAACTTCAG-GGGATAAGA-CTTGCTTAC-TCAGTCTGCTCCACTGTAACCTCAGGGAGATAAGA
1 CAACTTCAGAGAGATAAGATC-TG-TTACTTCAACCCACTCAACTACAACCTCAGGGAGATAAGA
* ** * * * *
20111220 CTTGTCTTCTCCGATCTGCCCCACTACAACCTCAGGGGGATAAGA
64 -TTATCGGCTCCAATCTGCTCCACTGCAACCTCAGGGAGATAAGA
20111265 CCTGCTTACT
Statistics
Matches: 372, Mismatches: 38, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
305 1 0.00
306 35 0.09
307 336 0.90
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (307 bp):
CAACTTCAGAGAGATAAGATCTGTTACTTCAACCCACTCAACTACAACCTCAGGGAGATAAGATT
ATCGGCTCCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAATCGGTCCCA
CTGAAACTTCAGGGGGATAACACCTAATGCGATCCACTATACTGCAACTTCAAAGAGATAAGATC
TATTACTTTAACCCACTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCAC
TACAACCTCAGGGAGATAAGATTTGCCATCTTCGATCGGTCCCACTA
Found at i:20111264 original size:133 final size:133
Alignment explanation
Indices: 20111100--20111620 Score: 375
Period size: 133 Copynumber: 3.9 Consensus size: 133
20111090 ATCGGCTTCA
* ** * * *
20111100 ATCTGCTCCACTACAACCTCAGGGAGATAAGATTTGC-CACATTCGATCGG-TCCCACTACAACT
1 ATCTGCCCCACTACAACCTCAGGGAGATAAGACCTGCTCAC-TTAG-TCGGCT-CCACGACAACC
* *
20111163 TCAGGG-GATAAGACTTG-CTTACTCAGTCTGCTCCACTGTAACCTCAGGGAGATAAGACTTGTC
63 TCAGGGAGATAAAACTTGTCTT-CTCAGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGTC
20111226 TTCTCCG
127 TTCTCCG
* * * *
20111233 ATCTGCCCCACTACAACCTCAGGGGGATAAGACCTGCTTACTTAGTCTGCTCCACGGCAACCTCA
1 ATCTGCCCCACTACAACCTCAGGGAGATAAGACCTGCTCACTTAGTCGGCTCCACGACAACCTCA
* * **
20111298 GGGAGATAAAACTTGTCTTCTCAGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGTGG
66 GGGAGATAAAACTTGTCTTCTCAGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTG-TCTTC
20111363 TCC-
130 TCCG
* * * * * * * * * * * *
20111366 A-CT---CTACTGCAACTTCAGAGTGATAAGATCT-ATTACTTTAATCCGCTCCA-GTACAGCTT
1 ATCTGCCCCACTACAACCTCAGGGAGATAAGACCTGCTCAC-TTAGTCGGCTCCACG-ACAACCT
** * ** * ** * * * *
20111425 CAGGGAGATAGGA-TTATCAGCTTCAATCTGTTCTACTGCAACCTCAGGGAGATAAGATTTGTCA
64 CAGGGAGATAAAACTTGTCTTC-TCAGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGTCT
*
20111489 TCTTCG
128 TCTCCG
* * * * * *
20111495 ATCTGGCCCACTACAACCTCAAGGG-GATAAGACCTGCTTACTCAGTCTGCTCCACTACAACCTT
1 ATCTGCCCCACTACAACCTC-AGGGAGATAAGACCTGCTCACTTAGTCGGCTCCACGACAACCTC
* * * * * *
20111559 AGGGAGATAAGACTTGTCTTCTCCGATCTGCCCCACTGCAACCTCAGGGGGGATAAGACTTG
65 AGGGAGATAAAACTTGTCTTCTCAG-TCTACTCCACTGTAACCTCA-GGGAGATAAGACTTG
20111621 CTTGAAAAAC
Statistics
Matches: 300, Mismatches: 69, Indels: 36
0.74 0.17 0.09
Matches are distributed among these distances:
128 13 0.04
129 81 0.27
130 2 0.01
132 19 0.06
133 133 0.44
134 39 0.13
135 13 0.04
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (133 bp):
ATCTGCCCCACTACAACCTCAGGGAGATAAGACCTGCTCACTTAGTCGGCTCCACGACAACCTCA
GGGAGATAAAACTTGTCTTCTCAGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGTCTTCT
CCG
Found at i:20111300 original size:89 final size:89
Alignment explanation
Indices: 20111101--20111623 Score: 433
Period size: 89 Copynumber: 5.9 Consensus size: 89
20111091 TCGGCTTCAA
* * ** * * * *
20111101 TCTGCTCCACTACAACCTCAGGGAGATAAGATTTG-CCACATTCGATCGGTCCCACTACAACTTC
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTCTTC-TCCGATCTGCCCCACTACAACCTC
* *
20111165 A-GGGGATAAGACTTGCTTACTCAG
65 AGGGGGATAAGACCTGCTTACTTAG
*
20111189 TCTGCTCCACTGTAACCTCAGGGAGATAAGACTTGTCTTCTCCGATCTGCCCCACTACAACCTCA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTCTTCTCCGATCTGCCCCACTACAACCTCA
20111254 GGGGGATAAGACCTGCTTACTTAG
66 GGGGGATAAGACCTGCTTACTTAG
* * * * * **
20111278 TCTGCTCCACGGCAACCTCAGGGAGATAAAACTTGTCTTCTCAG-TCTACTCCACTGTAACCTCA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTCTTCTCCGATCTGCCCCACTACAACCTCA
* *
20111342 GGGAGATAAGACCTG---A-TGTGG
66 GGGGGATAAGACCTGCTTACT-TAG
** * * * * * * * * * *
20111363 TCCACTCTACTGCAACTTCAGAGTGATAAGATCTAT-TACTT-T--AATCCGCTCCAGTACAGCT
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGA-CT-TGT-CTTCTCCGATCTGCCCCACTACAACC
* * ** * *
20111424 TCAGGGAGATAGGA--TTATCAGCTTCAA
63 TCAGGGGGATAAGACCTGCTTA-CTT-AG
* * * * * *
20111451 TCTGTTCTACTGCAACCTCAGGGAGATAAGATTTGTCATCTTCGATCTGGCCCACTACAACCTCA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTCTTCTCCGATCTGCCCCACTACAACCTCA
* *
20111516 AGGGGATAAGACCTGCTTACTCAG
66 GGGGGATAAGACCTGCTTACTTAG
* * *
20111540 TCTGCTCCACTACAACCTTAGGGAGATAAGACTTGTCTTCTCCGATCTGCCCCACTGCAACCTCA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTCTTCTCCGATCTGCCCCACTACAACCTCA
*
20111605 GGGGGGATAAGACTTGCTT
66 -GGGGGATAAGACCTGCTT
20111624 GAAAAACTTA
Statistics
Matches: 340, Mismatches: 75, Indels: 38
0.75 0.17 0.08
Matches are distributed among these distances:
83 1 0.00
84 1 0.00
85 49 0.14
86 8 0.02
87 8 0.02
88 109 0.32
89 143 0.42
90 18 0.05
91 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (89 bp):
TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTCTTCTCCGATCTGCCCCACTACAACCTCA
GGGGGATAAGACCTGCTTACTTAG
Found at i:20111450 original size:350 final size:352
Alignment explanation
Indices: 20110991--20111623 Score: 1004
Period size: 350 Copynumber: 1.8 Consensus size: 352
20110981 CTGAAACTTT
* * *
20110991 AGGGGGATAAGACCTAATGTGATCCACTATACTGTAACTTCAAAGAGATATGATCTATTACTTTA
1 AGGGAGATAAGACCTAATGTGATCCACTATACTGCAACTTCAAAGAGATAAGATCTATTACTTTA
*
20111056 ACCCACTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTACAACCTCA
66 ACCCACTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTCAATCTGCTCCACTACAACCTCA
* *
20111121 GGGAGATAAGATTTGCCA-CATTCGATC-GGTCCCACTACAACTTC-AGGGGATAAGACTTGCTT
131 GGGAGATAAGATTTGCCATC-TTCGATCTGG-CCCACTACAACCTCAAGGGGATAAGACCTGCTT
**
20111183 ACTCAGTCTGCTCCACTGTAACCTCAGGGAGATAAGACTTGTCTTCTCCGATCTGCCCCACTACA
194 ACTCAGTCTGCTCCACTACAACCTCAGGGAGATAAGACTTGTCTTCTCCGATCTGCCCCACTACA
20111248 ACCTCA-GGGGGATAAGACCTGCTTACTTAGTCTGCTCCACGGCAACCTCAGGGAGATAAAACTT
259 ACCTCAGGGGGGATAAGACCTGCTTACTTAGTCTGCTCCACGGCAACCTCAGGGAGATAAAACTT
20111312 GTCTTCTCAGTCTACTCCACTGTAACCTC
324 GTCTTCTCAGTCTACTCCACTGTAACCTC
* * * * *
20111341 AGGGAGATAAGACCTGATGTGGTCCACTCTACTGCAACTTCAGAGTGATAAGATCTATTACTTTA
1 AGGGAGATAAGACCTAATGTGATCCACTATACTGCAACTTCAAAGAGATAAGATCTATTACTTTA
* * * * * * *
20111406 ATCCGCTCCAGTACAGCTTCAGGGAGATAGGATTATCAGCTTCAATCTGTTCTACTGCAACCTCA
66 ACCCACTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTCAATCTGCTCCACTACAACCTCA
*
20111471 GGGAGATAAGATTTGTCATCTTCGATCTGGCCCACTACAACCTCAAGGGGATAAGACCTGCTTAC
131 GGGAGATAAGATTTGCCATCTTCGATCTGGCCCACTACAACCTCAAGGGGATAAGACCTGCTTAC
* *
20111536 TCAGTCTGCTCCACTACAACCTTAGGGAGATAAGACTTGTCTTCTCCGATCTGCCCCACTGCAAC
196 TCAGTCTGCTCCACTACAACCTCAGGGAGATAAGACTTGTCTTCTCCGATCTGCCCCACTACAAC
*
20111601 CTCAGGGGGGATAAGACTTGCTT
261 CTCAGGGGGGATAAGACCTGCTT
20111624 GAAAAACTTA
Statistics
Matches: 255, Mismatches: 24, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
350 151 0.59
351 87 0.34
352 17 0.07
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (352 bp):
AGGGAGATAAGACCTAATGTGATCCACTATACTGCAACTTCAAAGAGATAAGATCTATTACTTTA
ACCCACTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTCAATCTGCTCCACTACAACCTCA
GGGAGATAAGATTTGCCATCTTCGATCTGGCCCACTACAACCTCAAGGGGATAAGACCTGCTTAC
TCAGTCTGCTCCACTACAACCTCAGGGAGATAAGACTTGTCTTCTCCGATCTGCCCCACTACAAC
CTCAGGGGGGATAAGACCTGCTTACTTAGTCTGCTCCACGGCAACCTCAGGGAGATAAAACTTGT
CTTCTCAGTCTACTCCACTGTAACCTC
Found at i:20112845 original size:8 final size:8
Alignment explanation
Indices: 20112834--20112884 Score: 54
Period size: 8 Copynumber: 6.4 Consensus size: 8
20112824 CCATTTTTAC
20112834 TTTTTCAT
1 TTTTTCAT
20112842 TTTTTCA-
1 TTTTTCAT
20112849 TTTTTCA-
1 TTTTTCAT
20112856 -TTTTCAT
1 TTTTTCAT
20112863 TTTTCATCATT
1 TTTT--TCA-T
20112874 TTTTTCAT
1 TTTTTCAT
20112882 TTT
1 TTT
20112885 GACTCAAAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
6 6 0.16
7 7 0.18
8 14 0.37
9 3 0.08
10 3 0.08
11 5 0.13
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTTCAT
Found at i:20112852 original size:15 final size:15
Alignment explanation
Indices: 20112825--20112869 Score: 60
Period size: 13 Copynumber: 3.2 Consensus size: 15
20112815 TTAGCCTCTC
*
20112825 CATTTTTAC-TTTTT
1 CATTTTTTCATTTTT
20112839 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
20112854 CA--TTTTCATTTTT
1 CATTTTTTCATTTTT
20112867 CAT
1 CAT
20112870 CATTTTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 13 0.46
14 8 0.29
15 7 0.25
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (15 bp):
CATTTTTTCATTTTT
Found at i:20112884 original size:7 final size:7
Alignment explanation
Indices: 20112825--20112869 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
20112815 TTAGCCTCTC
20112825 CATTTTT
1 CATTTTT
20112832 -ACTTTTT
1 CA-TTTTT
20112839 CATTTTTT
1 CA-TTTTT
20112847 CATTTTT
1 CATTTTT
20112854 CA-TTTT
1 CATTTTT
20112860 CATTTTT
1 CATTTTT
20112867 CAT
1 CAT
20112870 CATTTTTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
6 7 0.21
7 19 0.56
8 8 0.24
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:20113825 original size:33 final size:34
Alignment explanation
Indices: 20113770--20113845 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 34
20113760 TTGACATTGA
* * *
20113770 TTTTGATTTTT--CTTTTTCTTCTTTTTTTTTGT
1 TTTTGATTTTTGATTTTTTCTTCTTCTATTTTGT
*
20113802 TTTTG-TTTTTGATTTTTTTTTCTTCTATTTTGT
1 TTTTGATTTTTGATTTTTTCTTCTTCTATTTTGT
20113835 TTTTGATTTTT
1 TTTTGATTTTT
20113846 TTTGGGGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 5 0.14
32 5 0.14
33 22 0.59
34 5 0.14
ACGTcount: A:0.05, C:0.07, G:0.08, T:0.80
Consensus pattern (34 bp):
TTTTGATTTTTGATTTTTTCTTCTTCTATTTTGT
Found at i:20117171 original size:21 final size:23
Alignment explanation
Indices: 20117147--20117188 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
20117137 ACAACTTTTT
20117147 AATTT-AAAA-AAAACGGGATCG
1 AATTTGAAAACAAAACGGGATCG
*
20117168 AATTTGAAAACAAAATGGGAT
1 AATTTGAAAACAAAACGGGAT
20117189 TCGCCACCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 4 0.22
23 9 0.50
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.21
Consensus pattern (23 bp):
AATTTGAAAACAAAACGGGATCG
Found at i:20117991 original size:18 final size:17
Alignment explanation
Indices: 20117963--20117996 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
20117953 GACAAAGAAT
20117963 CAATAAATACAAATAAA
1 CAATAAATACAAATAAA
*
20117980 CAATACAATACACATAA
1 CAATA-AATACAAATAA
20117997 GAGCAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (17 bp):
CAATAAATACAAATAAA
Found at i:20121876 original size:19 final size:19
Alignment explanation
Indices: 20121829--20121884 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
20121819 CATTTGTTTG
* *
20121829 CAGTTTGGTGCCTCTTTTA
1 CAGTTTGGTGTCTCTGTTA
*
20121848 CACTTTGGTGTCTCTGTTA
1 CAGTTTGGTGTCTCTGTTA
* *
20121867 CAGTTCGGTGTCTTTGTT
1 CAGTTTGGTGTCTCTGTT
20121885 TGCACTTCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.09, C:0.20, G:0.23, T:0.48
Consensus pattern (19 bp):
CAGTTTGGTGTCTCTGTTA
Found at i:20122653 original size:11 final size:11
Alignment explanation
Indices: 20122637--20122661 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
20122627 TACACTCCTC
20122637 TCATTTTCTTT
1 TCATTTTCTTT
20122648 TCATTTTCTTT
1 TCATTTTCTTT
20122659 TCA
1 TCA
20122662 GCAACCTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.68
Consensus pattern (11 bp):
TCATTTTCTTT
Found at i:20125611 original size:25 final size:24
Alignment explanation
Indices: 20125578--20125632 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
20125568 TTGGTTTATT
*
20125578 TTTAGTTATA-TTTAAAATATTTTAA
1 TTTATTTATACTTT-AAA-ATTTTAA
*
20125603 TTTATTTATACTTTTAAATTTTAA
1 TTTATTTATACTTTAAAATTTTAA
20125627 TTTATT
1 TTTATT
20125633 AACATTATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 13 0.48
25 11 0.41
26 3 0.11
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
TTTATTTATACTTTAAAATTTTAA
Found at i:20126530 original size:21 final size:20
Alignment explanation
Indices: 20126506--20126568 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
20126496 ATTGGATAAA
*
20126506 TTTAAAAAATAAATCTAAGTT
1 TTTAAAAAATAAATATAA-TT
**
20126527 TTTATTAAATAAATATAA-T
1 TTTAAAAAATAAATATAATT
*
20126546 TTTAAATATATAAATATAATT
1 TTTAAA-AAATAAATATAATT
20126567 TT
1 TT
20126569 ATTTTAAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 5 0.15
20 11 0.32
21 18 0.53
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
TTTAAAAAATAAATATAATT
Found at i:20126560 original size:41 final size:40
Alignment explanation
Indices: 20126501--20126578 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 40
20126491 ATATAATTGG
*
20126501 ATAAATTTAAAAAATAAATCTAAGTTTT-TATTAAATAAAT
1 ATAAATTTAAAAAATAAATATAA-TTTTATATTAAATAAAT
* * *
20126541 ATAATTTTAAATATATAAATATAATTTTATTTTAAATA
1 ATAAATTTAAA-AAATAAATATAATTTTATATTAAATA
20126579 TGATAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 14 0.44
41 18 0.56
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (40 bp):
ATAAATTTAAAAAATAAATATAATTTTATATTAAATAAAT
Found at i:20127987 original size:12 final size:11
Alignment explanation
Indices: 20127964--20127994 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
20127954 TTCTCCGTTC
20127964 TTCTTTTCTTT
1 TTCTTTTCTTT
20127975 TTCTTTGTCTTT
1 TTCTTT-TCTTT
20127987 TTCTTTTC
1 TTCTTTTC
20127995 CTTTCTTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.77
Consensus pattern (11 bp):
TTCTTTTCTTT
Found at i:20128985 original size:14 final size:14
Alignment explanation
Indices: 20128966--20128992 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20128956 GTATGCTTAT
20128966 ATCTATATCTGTAC
1 ATCTATATCTGTAC
20128980 ATCTATATCTGTA
1 ATCTATATCTGTA
20128993 TTGGGGTTGG
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:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (14 bp):
ATCTATATCTGTAC
Found at i:20137237 original size:50 final size:50
Alignment explanation
Indices: 20137080--20137238 Score: 248
Period size: 50 Copynumber: 3.2 Consensus size: 50
20137070 TTTGAGACAT
* ** *
20137080 GACATTGGCATTGG-CACCGAGATGAGAGGTCCCCTGTAAGACCATATCTGG
1 GACA-TGGCA-TGGCCACCGATATGAGAACTCCCATGTAAGACCATATCTGG
*
20137131 GACATGACATGGCCACCGATATGAGAACTCCCATGTAAGACCATATCTGG
1 GACATGGCATGGCCACCGATATGAGAACTCCCATGTAAGACCATATCTGG
20137181 GACATGGCATGGCCACCGATATGAGAACTCCCATGTAAGACCATATCTGG
1 GACATGGCATGGCCACCGATATGAGAACTCCCATGTAAGACCATATCTGG
20137231 GACATGGC
1 GACATGGC
20137239 TTTGGCATGT
Statistics
Matches: 101, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
49 3 0.03
50 94 0.93
51 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (50 bp):
GACATGGCATGGCCACCGATATGAGAACTCCCATGTAAGACCATATCTGG
Found at i:20144022 original size:50 final size:53
Alignment explanation
Indices: 20143920--20144035 Score: 139
Period size: 56 Copynumber: 2.2 Consensus size: 53
20143910 GGTAAAAAGA
* **
20143920 TCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTATAGGACATGGCATTGGCA-CACCGAG--TATGAGAGG
*
20143976 TCCCATGTAAGACCATGTCTAGGACATGGCATTGG-A-ACCGAG-ATGAGAGG
1 TCCCATGTAAGACCATGTATAGGACATGGCATTGGCACACCGAGTATGAGAGG
*
20144026 TCCCCTGTAA
1 TCCCATGTAA
20144036 ACTTACTAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
50 17 0.31
53 4 0.07
55 1 0.02
56 33 0.60
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (53 bp):
TCCCATGTAAGACCATGTATAGGACATGGCATTGGCACACCGAGTATGAGAGG
Found at i:20147645 original size:61 final size:61
Alignment explanation
Indices: 20147550--20147677 Score: 202
Period size: 61 Copynumber: 2.1 Consensus size: 61
20147540 GAGTCCAGTC
* *
20147550 CGTGTGCCTCCAAACAAGGTCGTGTGGTTAACCTACACACCCATGTACGACCTCACATGCA
1 CGTGTGACTCCAAAAAAGGTCGTGTGGTTAACCTACACACCCATGTACGACCTCACATGCA
* * * *
20147611 CGTGTGACTCCAAAAAAGGTCGTGTGGTTAACCTATACGCCCATGTACGACCTTACATGCC
1 CGTGTGACTCCAAAAAAGGTCGTGTGGTTAACCTACACACCCATGTACGACCTCACATGCA
20147672 CGTGTG
1 CGTGTG
20147678 CATGGACCAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (61 bp):
CGTGTGACTCCAAAAAAGGTCGTGTGGTTAACCTACACACCCATGTACGACCTCACATGCA
Found at i:20157947 original size:25 final size:25
Alignment explanation
Indices: 20157919--20157998 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
20157909 ATGCTCATGT
*
20157919 GAGCTATGGATCGGTATGCTCTCAC
1 GAGCTATGGATCGGTAAGCTCTCAC
20157944 GAGC--TGGAAATCGGTAAGCTCAT-AC
1 GAGCTATGG--ATCGGTAAGCTC-TCAC
* *
20157969 GAGCTGA-GAATCGGTAAGCTCTCAT
1 GAGCT-ATGGATCGGTAAGCTCTCAC
20157994 GAGCT
1 GAGCT
20157999 GGTGTGTCTG
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
23 3 0.07
24 1 0.02
25 39 0.87
26 1 0.02
27 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (25 bp):
GAGCTATGGATCGGTAAGCTCTCAC
Found at i:20157999 original size:25 final size:25
Alignment explanation
Indices: 20157928--20158000 Score: 96
Period size: 25 Copynumber: 2.9 Consensus size: 25
20157918 TGAGCTATGG
*
20157928 ATCGGTATGCTCTCACGAGCTGGAA
1 ATCGGTAAGCTCTCACGAGCTGGAA
20157953 ATCGGTAAGCTCAT-ACGAGCT-GAGA
1 ATCGGTAAGCTC-TCACGAGCTGGA-A
*
20157978 ATCGGTAAGCTCTCATGAGCTGG
1 ATCGGTAAGCTCTCACGAGCTGG
20158001 TGTGTCTGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 3 0.07
25 37 0.88
26 2 0.05
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (25 bp):
ATCGGTAAGCTCTCACGAGCTGGAA
Found at i:20159634 original size:40 final size:40
Alignment explanation
Indices: 20159483--20159658 Score: 194
Period size: 40 Copynumber: 4.4 Consensus size: 40
20159473 TTCTTTTAAA
* * *
20159483 TAGATTCAATAGGTATGACT-TAAGAGCGCATACATTTCAA
1 TAGATTCAATAGGTATGACTCGAA-AGCGCATACGTTTCAG
* * *
20159523 TAAATTCAATAGGTATGGCTCGAAAGCACATACGTTTCAG
1 TAGATTCAATAGGTATGACTCGAAAGCGCATACGTTTCAG
* * *
20159563 TACATTCAATAGGTATGGCTCGAAAGTGCATACGTTTCAG
1 TAGATTCAATAGGTATGACTCGAAAGCGCATACGTTTCAG
* * * *
20159603 TAGATTCAGTAGGTATCACTCGAAATCGCATATGTATT-AG
1 TAGATTCAATAGGTATGACTCGAAAGCGCATACGT-TTCAG
*
20159643 TAGATTCAGTAGGTAT
1 TAGATTCAATAGGTAT
20159659 TGCTCATTCG
Statistics
Matches: 118, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
40 114 0.97
41 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (40 bp):
TAGATTCAATAGGTATGACTCGAAAGCGCATACGTTTCAG
Found at i:20167458 original size:18 final size:16
Alignment explanation
Indices: 20167433--20167482 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 16
20167423 GCAACCCAAT
20167433 TTTTATTTTAGTTATTA
1 TTTTATTTTA-TTATTA
20167450 TTATTA-TTTATTACTTTA
1 TT-TTATTTTATTA--TTA
20167468 TTTTATTTTATTATT
1 TTTTATTTTATTATT
20167483 TACTACTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
16 5 0.17
17 9 0.31
18 15 0.52
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTTATTTTATTATTA
Found at i:20167462 original size:13 final size:12
Alignment explanation
Indices: 20167431--20167479 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
20167421 AGGCAACCCA
20167431 ATTT-TTATTTT
1 ATTTATTATTTT
*
20167442 AGTTATTATTATT
1 ATTTATTATT-TT
*
20167455 ATTTATTACTTT
1 ATTTATTATTTT
20167467 A-TT-TTATTTT
1 ATTTATTATTTT
20167477 ATT
1 ATT
20167480 ATTTACTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
10 7 0.23
11 6 0.19
12 8 0.26
13 10 0.32
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (12 bp):
ATTTATTATTTT
Found at i:20167478 original size:25 final size:25
Alignment explanation
Indices: 20167444--20167494 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
20167434 TTTATTTTAG
*
20167444 TTATTATTATTATTTATTACTTTATT
1 TTATTATTATTATTTACTAC-TTATT
20167470 TTATT-TTATTATTTACTACTTATT
1 TTATTATTATTATTTACTACTTATT
20167494 T
1 T
20167495 GGATATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 6 0.25
25 13 0.54
26 5 0.21
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (25 bp):
TTATTATTATTATTTACTACTTATT
Found at i:20169434 original size:15 final size:15
Alignment explanation
Indices: 20169409--20169443 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
20169399 GACTCTATTT
*
20169409 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
20169423 TAATTAATATTAAGA
1 TAATTAATATTAAGA
20169438 TAATTA
1 TAATTA
20169444 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:20170256 original size:15 final size:16
Alignment explanation
Indices: 20170236--20170265 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20170226 TTCAATATTC
20170236 TTAATTTT-GTTTTTT
1 TTAATTTTCGTTTTTT
20170251 TTAATTTTCGTTTTT
1 TTAATTTTCGTTTTT
20170266 AGATCCAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.03, G:0.07, T:0.77
Consensus pattern (16 bp):
TTAATTTTCGTTTTTT
Found at i:20181476 original size:21 final size:22
Alignment explanation
Indices: 20181439--20181479 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20181429 GCACCCTAGG
*
20181439 CTTTTATTTTATGATTCCTTTC
1 CTTTTATTTAATGATTCCTTTC
20181461 CTTTTATTTAAT-ATTCCTT
1 CTTTTATTTAATGATTCCTT
20181480 AAAAAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.17, C:0.17, G:0.02, T:0.63
Consensus pattern (22 bp):
CTTTTATTTAATGATTCCTTTC
Found at i:20181709 original size:13 final size:13
Alignment explanation
Indices: 20181691--20181715 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20181681 TAGGTTATAT
20181691 GTGTGAAAATTTC
1 GTGTGAAAATTTC
20181704 GTGTGAAAATTT
1 GTGTGAAAATTT
20181716 AATCGTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:20183431 original size:41 final size:41
Alignment explanation
Indices: 20183374--20183453 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
20183364 TGATCGAATG
* * * *
20183374 TAATTCAGACTTATTGTCCAGGAGGCTTGATGCCGGTGATA
1 TAATTCAGACTCATTGTCCAGCAGGCTTAATGCCAGTGATA
*
20183415 TAATTCAGACTCATTGTCTAGCAGGCTTAATGCCAGTGA
1 TAATTCAGACTCATTGTCCAGCAGGCTTAATGCCAGTGA
20183454 AATTATTCGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (41 bp):
TAATTCAGACTCATTGTCCAGCAGGCTTAATGCCAGTGATA
Found at i:20187444 original size:12 final size:13
Alignment explanation
Indices: 20187427--20187458 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
20187417 GTGGCTATGC
20187427 AAGGGAAA-GGAA
1 AAGGGAAATGGAA
20187439 AAGGGAAATGGAA
1 AAGGGAAATGGAA
20187452 AAGGGAA
1 AAGGGAA
20187459 TGATAGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.03
Consensus pattern (13 bp):
AAGGGAAATGGAA
Found at i:20187972 original size:21 final size:22
Alignment explanation
Indices: 20187934--20187981 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
20187924 ATTATGAATA
*
20187934 TTAATTCATAATATAATTAATT
1 TTAATTCATAATACAATTAATT
* *
20187956 TTAATT-ATAATCCAATTTATT
1 TTAATTCATAATACAATTAATT
20187977 TTAAT
1 TTAAT
20187982 CCAATTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (22 bp):
TTAATTCATAATACAATTAATT
Found at i:20194242 original size:106 final size:106
Alignment explanation
Indices: 20194055--20194247 Score: 307
Period size: 106 Copynumber: 1.8 Consensus size: 106
20194045 ATACATACGA
* *
20194055 ATAGGCTTATCCCGGATCAATCAAAGCAGTAACATTAGTGTCAAAGATAGAAAAAGTACTAGTAA
1 ATAGGCTTATCCCGAATCAATCAAAGCAGTAACATTAGTGTCAAAGATAGAAAAAGTACCAGTAA
*
20194120 TAACATCTGGACCAGAAGCTTCCTATCGTGCACGAATCTAG
66 TAACATCTGGACCAGAAACTTCCTATCGTGCACGAATCTAG
* *
20194161 ATAGG-TTGATCCCGAATCAATCAAAGCAGTAGCATTAGTGTCAAAGATAGAAAAAGTCCCAGTA
1 ATAGGCTT-ATCCCGAATCAATCAAAGCAGTAACATTAGTGTCAAAGATAGAAAAAGTACCAGTA
* *
20194225 ATAATATCTGGAGCAGAAACTTC
65 ATAACATCTGGACCAGAAACTTC
20194248 ATCTTGTGCA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
105 2 0.03
106 77 0.97
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (106 bp):
ATAGGCTTATCCCGAATCAATCAAAGCAGTAACATTAGTGTCAAAGATAGAAAAAGTACCAGTAA
TAACATCTGGACCAGAAACTTCCTATCGTGCACGAATCTAG
Found at i:20199240 original size:38 final size:38
Alignment explanation
Indices: 20199125--20199304 Score: 156
Period size: 39 Copynumber: 4.7 Consensus size: 38
20199115 GCTACTCATT
*
20199125 CAAATGCCTTCGGGAC--AAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAA-CCCGGAT-TAGTAACTCGCA
20199164 CAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAACCCGGATTAGTAACTCGCA
* *
20199203 CAAATGCCTTCGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAACCCGG-ATTAGTAACTCGCA
** * * *
20199241 CAAATG-CTTC-GATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAACCCGGAT-TAGTAAC-TCGCA
*
20199280 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAACCCGGA
20199305 CATCATTCAA
Statistics
Matches: 122, Mismatches: 9, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
36 1 0.01
37 15 0.12
38 35 0.29
39 51 0.42
40 16 0.13
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (38 bp):
CAAATGCCTTCGGACTTAACCCGGATTAGTAACTCGCA
Found at i:20208931 original size:45 final size:45
Alignment explanation
Indices: 20208830--20208958 Score: 152
Period size: 45 Copynumber: 2.9 Consensus size: 45
20208820 GGAATTATAC
* * *
20208830 CAGAAATGAATAAGAACATAGTTGAAAGACACTATGGCACTATTA
1 CAGAAATAAATAAGACCATAGTTGAAAGACACTATGGCAATATTA
* * *
20208875 TAGAAACAAATAAGACCATAGTTGAAAGACACTATGTCAATATGT-
1 CAGAAATAAATAAGACCATAGTTGAAAGACACTATGGCAATAT-TA
* * * *
20208920 CGGAAATAAATAAGACCATGGCTAAAAGACACTATGGCA
1 CAGAAATAAATAAGACCATAGTTGAAAGACACTATGGCA
20208959 TACTTAAACA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
45 69 0.99
46 1 0.01
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.21
Consensus pattern (45 bp):
CAGAAATAAATAAGACCATAGTTGAAAGACACTATGGCAATATTA
Found at i:20224671 original size:45 final size:45
Alignment explanation
Indices: 20224620--20224706 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
20224610 TGAACCGAAC
* * *
20224620 ATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGGAT
1 ATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCCACCGGAT
20224665 ATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCCACCG
1 ATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCCACCG
20224707 AGTATCTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (45 bp):
ATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCCACCGGAT
Found at i:20231440 original size:17 final size:18
Alignment explanation
Indices: 20231418--20231454 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
20231408 TCATTCATCT
20231418 ATCATTC-CTCACT-TCTC
1 ATCATTCTCTC-CTCTCTC
20231435 ATCATTCTCTCCTCTCTC
1 ATCATTCTCTCCTCTCTC
20231453 AT
1 AT
20231455 TTGTCTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.16, C:0.41, G:0.00, T:0.43
Consensus pattern (18 bp):
ATCATTCTCTCCTCTCTC
Found at i:20237054 original size:19 final size:19
Alignment explanation
Indices: 20237025--20237067 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
20237015 TGTTATGAGC
20237025 CTCGT-TGGGCCGAAATGGG
1 CTCGTGTGGGCC-AAATGGG
*
20237044 C-CGTGTGGGCCTAATGGG
1 CTCGTGTGGGCCAAATGGG
20237062 CTCGTG
1 CTCGTG
20237068 AGCCCCTCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.12, C:0.23, G:0.42, T:0.23
Consensus pattern (19 bp):
CTCGTGTGGGCCAAATGGG
Found at i:20237562 original size:134 final size:135
Alignment explanation
Indices: 20237397--20237805 Score: 354
Period size: 134 Copynumber: 3.1 Consensus size: 135
20237387 AAAACTATTG
* * *
20237397 AAATACCCCCGATGGGTAAAATTA-CTAAAATACCCTCGATGGGTAAAATTACTGAAATACCCTT
1 AAATACCCCTGATGGGTAAAATTATC-GAAATACCCTCGAAGGGTAAAATTACTGAAATACCCTT
* *
20237461 AATAGGTAAAATTATTAAAATACCC-T-AAAGCGTAAAATTACTAAAATACCC-CTAAAGCATAA
65 AATAGGTAAAATTACTAAAATACCCTTGAAAG-GTAAAATTACCAAAATACCCTC-AAAGCATAA
20237523 AATTACCA
128 AATTACCA
* * *
20237531 AAATACCCCTAATGGGTAATATTATCGAAATACCC-CTGAAGGGTAAAATTATTGAAATA-CC-T
1 AAATACCCCTGATGGGTAAAATTATCGAAATACCCTC-GAAGGGTAAAATTACTGAAATACCCTT
* * ** * * * **
20237593 ACAAAGGGTAAAATTACTGAAATACCCTTGATTGGTAAACTTACCAAAATACCCTCGATGGGTAA
65 A-ATA-GGTAAAATTACTAAAATACCCTTGAAAGGTAAAATTACCAAAATACCCTCAAAGCATAA
***
20237658 AATTATTG
128 AATTACCA
* * * * * **
20237666 AAAT-GCCTTGATGGGTAAAATTATCGAAATACCCTCGAGGGGTAAAATTAC-CAAATACTCTCG
1 AAATACCCCTGATGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCTTA
* * ** * * **
20237729 ATGGGTAAAATTACCAAAATACCC--GATGGGTAAAATTATCGAAATACCCTCAAAGGGTAAAAT
66 ATAGGTAAAATTACTAAAATACCCTTGAAAGGTAAAATTACCAAAATACCCTCAAAGCATAAAAT
* *
20237792 TATCG
131 TACCA
20237797 AAATACCCC
1 AAATACCCC
20237806 CATAGGGTAA
Statistics
Matches: 221, Mismatches: 43, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
131 41 0.19
132 4 0.02
133 29 0.13
134 109 0.49
135 35 0.16
136 3 0.01
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (135 bp):
AAATACCCCTGATGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCTTA
ATAGGTAAAATTACTAAAATACCCTTGAAAGGTAAAATTACCAAAATACCCTCAAAGCATAAAAT
TACCA
Found at i:20237645 original size:188 final size:185
Alignment explanation
Indices: 20237304--20237804 Score: 492
Period size: 188 Copynumber: 2.7 Consensus size: 185
20237294 CCCTCGATGG
* * * ** * *
20237304 GTAAAATTATCAAAATACCCCCGATGGGTAATATTACCGAAATACCCCCGAA-GGGTAAAATTAT
1 GTAAAATTATCAAAATACCCTCAAAGCATAAAATTACC-AAATA-CCCCTAATGGGTAAAATTAT
* * * * * * *
20237368 TGAAATACCCCCAAAGGGTAAAACTATTGAAATACCCCCGATGGGTAAAATTACTAAAATACCCT
64 CGAAATA-CCCCGAAGGGTAAAATTATTGAAATA-CCTCAAAGGGTAAAATTACTGAAATACCCT
** *
20237433 CGATGGGTAAAATTACTGAAATACCCTTAATAGGTAAAATTATTAAAATACCCTAAAGC
127 CGATGGGTAAAATTACCAAAATACCCTCAATAGGTAAAATTATTAAAATACCCTAAAGC
*
20237492 GTAAAATTA-CTAAAATACCC-CTAAAGCATAAAATTACCAAAATACCCCTAATGGGTAATATTA
1 GTAAAATTATC-AAAATACCCTC-AAAGCATAAAATTACC-AAATACCCCTAATGGGTAAAATTA
20237555 TCGAAATACCCCTGAAGGGTAAAATTATTGAAATACCTACAAAGGGTAAAATTACTGAAATACCC
63 TCGAAATACCCC-GAAGGGTAAAATTATTGAAATACCT-CAAAGGGTAAAATTACTGAAATACCC
* * * * * * * * * * *
20237620 TTGATTGGTAAACTTACCAAAATACCCTCGATGGGTAAAATTATTGAAATGCCTTGATGG
126 TCGATGGGTAAAATTACCAAAATACCCTCAATAGGTAAAATTATTAAAATACCCTAAAGC
* * * ** * * *
20237680 GTAAAATTATCGAAATACCCTCGAGGGGTAAAATTACCAAATA-CTCTCGATGGGTAAAATTACC
1 GTAAAATTATCAAAATACCCTCAAAGCATAAAATTACCAAATACCCCT-AATGGGTAAAATTATC
* * *
20237744 AAAATA-CCCGATGGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTA-TCGAAATACCC
65 GAAATACCCCGAAGGGTAAAATTATTGAAATA-CCTCAAAGGGTAAAATTACT-GAAATACCC
20237805 CCATAGGGTA
Statistics
Matches: 262, Mismatches: 41, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
184 1 0.00
185 44 0.17
186 9 0.03
187 37 0.14
188 169 0.65
189 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (185 bp):
GTAAAATTATCAAAATACCCTCAAAGCATAAAATTACCAAATACCCCTAATGGGTAAAATTATCG
AAATACCCCGAAGGGTAAAATTATTGAAATACCTCAAAGGGTAAAATTACTGAAATACCCTCGAT
GGGTAAAATTACCAAAATACCCTCAATAGGTAAAATTATTAAAATACCCTAAAGC
Found at i:20237684 original size:26 final size:27
Alignment explanation
Indices: 20237278--20237804 Score: 414
Period size: 27 Copynumber: 19.7 Consensus size: 27
20237268 AAAAGGTAGT
* * *
20237278 TAAACTTACCGAAACACCCTCGATGGG
1 TAAAATTATCGAAATACCCTCGATGGG
* *
20237305 TAAAATTATCAAAATACCCCCGATGGG
1 TAAAATTATCGAAATACCCTCGATGGG
* * * *
20237332 TAATATTACCGAAATACCCCCGAAGGG
1 TAAAATTATCGAAATACCCTCGATGGG
* * * *
20237359 TAAAATTATTGAAATACCCCCAAAGGG
1 TAAAATTATCGAAATACCCTCGATGGG
* * *
20237386 TAAAACTATTGAAATACCCCCGATGGG
1 TAAAATTATCGAAATACCCTCGATGGG
*
20237413 TAAAATTA-CTAAAATACCCTCGATGGG
1 TAAAATTATC-GAAATACCCTCGATGGG
** *
20237440 TAAAATTA-CTGAAATACCCTTAATAGG
1 TAAAATTATC-GAAATACCCTCGATGGG
** * * *
20237467 TAAAATTATTAAAATACCCT-AAAGCG
1 TAAAATTATCGAAATACCCTCGATGGG
* * * **
20237493 TAAAATTA-CTAAAATACCC-CTAAAGCA
1 TAAAATTATC-GAAATACCCTC-GATGGG
* * *
20237520 TAAAATTACCAAAATACCC-CTAATGGG
1 TAAAATTATCGAAATACCCTC-GATGGG
* *
20237547 TAATATTATCGAAATACCC-CTGAAGGG
1 TAAAATTATCGAAATACCCTC-GATGGG
* * *
20237574 TAAAATTATTGAAATA-CCTACAAAGGG
1 TAAAATTATCGAAATACCCT-CGATGGG
* *
20237601 TAAAATTA-CTGAAATACCCTTGATTGG
1 TAAAATTATC-GAAATACCCTCGATGGG
* * *
20237628 TAAACTTACCAAAATACCCTCGATGGG
1 TAAAATTATCGAAATACCCTCGATGGG
* * *
20237655 TAAAATTATTGAAAT-GCCTTGATGGG
1 TAAAATTATCGAAATACCCTCGATGGG
*
20237681 TAAAATTATCGAAATACCCTCGAGGGG
1 TAAAATTATCGAAATACCCTCGATGGG
* *
20237708 TAAAATTA-CCAAATACTCTCGATGGG
1 TAAAATTATCGAAATACCCTCGATGGG
* *
20237734 TAAAATTACCAAAATA-CC-CGATGGG
1 TAAAATTATCGAAATACCCTCGATGGG
* *
20237759 TAAAATTATCGAAATACCCTCAAAGGG
1 TAAAATTATCGAAATACCCTCGATGGG
20237786 TAAAATTATCGAAATACCC
1 TAAAATTATCGAAATACCC
20237805 CCATAGGGTA
Statistics
Matches: 415, Mismatches: 70, Indels: 30
0.81 0.14 0.06
Matches are distributed among these distances:
25 21 0.05
26 71 0.17
27 317 0.76
28 6 0.01
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.24
Consensus pattern (27 bp):
TAAAATTATCGAAATACCCTCGATGGG
Found at i:20240803 original size:27 final size:28
Alignment explanation
Indices: 20240762--20241052 Score: 246
Period size: 27 Copynumber: 10.7 Consensus size: 28
20240752 TCACACGAGC
**
20240762 GTAAAATTATTAAAATACCCTC-AATGG
1 GTAAAATTACCAAAATACCCTCGAATGG
* *
20240789 GTAATATTACCAAAATACCC-CTAATGG
1 GTAAAATTACCAAAATACCCTCGAATGG
* * *
20240816 GTAATATTATCGAAATA-CCTCCGAA-GG
1 GTAAAATTACCAAAATACCCT-CGAATGG
*
20240843 GTAAAATTACTAAAATACCC-CTG-ATGG
1 GTAAAATTACCAAAATACCCTC-GAATGG
* **
20240870 GTAAAATTACCATAATACTATC-AATGG
1 GTAAAATTACCAAAATACCCTCGAATGG
* * *
20240897 GTAAAATTATCGAAATACCC-CTAATGG
1 GTAAAATTACCAAAATACCCTCGAATGG
* *
20240924 GTAAAATTATCGAAATACCCTCGAA-GG
1 GTAAAATTACCAAAATACCCTCGAATGG
**
20240951 GTAAAATTACTGAAATACCCTCGAA-GG
1 GTAAAATTACCAAAATACCCTCGAATGG
**
20240978 GTAAAATTACTGAAATACCCTC-AATGG
1 GTAAAATTACCAAAATACCCTCGAATGG
** *
20241005 GTAAAATTTTCAAAATACCCCCCG-ATGG
1 GTAAAATTACCAAAATA-CCCTCGAATGG
* *
20241033 GTAAAATTATCAGAATACCC
1 GTAAAATTACCAAAATACCC
20241053 CTATAGGGTA
Statistics
Matches: 222, Mismatches: 29, Indels: 26
0.80 0.10 0.09
Matches are distributed among these distances:
26 8 0.04
27 182 0.82
28 32 0.14
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (28 bp):
GTAAAATTACCAAAATACCCTCGAATGG
Found at i:20240832 original size:54 final size:54
Alignment explanation
Indices: 20240762--20241052 Score: 299
Period size: 54 Copynumber: 5.4 Consensus size: 54
20240752 TCACACGAGC
** *
20240762 GTAAAATTATTAAAATACCCTCAATGGGTAATATTACCAAAATACCCCTAATGG
1 GTAAAATTATCGAAATACCCTCAATGGGTAAAATTACCAAAATACCCCTAATGG
* * *
20240816 GTAATATTATCGAAATA-CCTCCGAA-GGGTAAAATTACTAAAATACCCCTGATGG
1 GTAAAATTATCGAAATACCCT-C-AATGGGTAAAATTACCAAAATACCCCTAATGG
* ** * *
20240870 GTAAAATTA-CCATAATACTATCAATGGGTAAAATTATCGAAATACCCCTAATGG
1 GTAAAATTATCGA-AATACCCTCAATGGGTAAAATTACCAAAATACCCCTAATGG
** *
20240924 GTAAAATTATCGAAATACCCTCGAA-GGGTAAAATTACTGAAATACCCTCGAA-GG
1 GTAAAATTATCGAAATACCCTC-AATGGGTAAAATTACCAAAATACCC-CTAATGG
** **
20240978 GTAAAATTA-CTGAAATACCCTCAATGGGTAAAATTTTCAAAATACCCCCCGATGG
1 GTAAAATTATC-GAAATACCCTCAATGGGTAAAATTACCAAAATA-CCCCTAATGG
20241033 GTAAAATTATC-AGAATACCC
1 GTAAAATTATCGA-AATACCC
20241053 CTATAGGGTA
Statistics
Matches: 197, Mismatches: 26, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
53 10 0.05
54 155 0.79
55 31 0.16
56 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (54 bp):
GTAAAATTATCGAAATACCCTCAATGGGTAAAATTACCAAAATACCCCTAATGG
Found at i:20240897 original size:81 final size:80
Alignment explanation
Indices: 20240762--20241051 Score: 292
Period size: 81 Copynumber: 3.6 Consensus size: 80
20240752 TCACACGAGC
* * * * *
20240762 GTAAAATTATT-AAAATACCCTCAATGGGTAATATTACCAAAATACCCCTAATGGGTAATATTAT
1 GTAAAATTATTCAAAATACCCTCGATGGGTAAAATTACC-AAATACCTCGAATGGGTAAAATTAT
20240826 CGAAATACCTCCGAA-GG
65 CGAAATACC-CC-AATGG
* *
20240843 GTAAAATTACT-AAAATACCC-CTGATGGGTAAAATTACCATAATACTATC-AATGGGTAAAATT
1 GTAAAATTATTCAAAATACCCTC-GATGGGTAAAATTACCA-AATAC-CTCGAATGGGTAAAATT
20240905 ATCGAAATACCCCTAATGG
63 ATCGAAATACCCC-AATGG
* * *
20240924 GTAAAATTA-TCGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCTCGAA-GGGTAAAATTA
1 GTAAAATTATTCAAAATACCCTCGATGGGTAAAATTAC-CAAATA-CCTCGAATGGGTAAAATTA
20240987 -CTGAAATACCCTCAATGG
64 TC-GAAATACCC-CAATGG
* *
20241005 GTAAAATT-TTCAAAATACCCCCCGATGGGTAAAATTATCAGAATACC
1 GTAAAATTATTCAAAATA-CCCTCGATGGGTAAAATTACCA-AATACC
20241052 CCTATAGGGT
Statistics
Matches: 179, Mismatches: 16, Indels: 28
0.80 0.07 0.13
Matches are distributed among these distances:
80 8 0.04
81 143 0.80
82 28 0.16
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (80 bp):
GTAAAATTATTCAAAATACCCTCGATGGGTAAAATTACCAAATACCTCGAATGGGTAAAATTATC
GAAATACCCCAATGG
Found at i:20255013 original size:56 final size:50
Alignment explanation
Indices: 20254777--20255025 Score: 184
Period size: 50 Copynumber: 4.9 Consensus size: 50
20254767 TGATAATAAC
* * * * *
20254777 ATGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGA--TGTT-TCTTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATCTCG
* * * ** *
20254824 TACTGCCAATGTCATATCCCAGATATGGTCTTACATGGGTGTTCTCATAT-T-G
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACA-GGG-GACCTCTTATCTCG
* * * ** *
20254876 GTGCCCATGCCATGTCCCAGACATGATCTTATGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATCTCG
* *
20254926 GTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATAACTTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTAT--C-TC---G
* *
20254982 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTT
20255026 TACCCAAATG
Statistics
Matches: 158, Mismatches: 29, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
48 7 0.04
49 33 0.21
50 68 0.43
51 1 0.01
52 2 0.01
53 5 0.03
54 1 0.01
56 41 0.26
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATCTCG
Found at i:20268392 original size:29 final size:29
Alignment explanation
Indices: 20268356--20268417 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
20268346 CATACATTTG
20268356 AAATTTAGTC-CCCTACTTTTATT-TTTGAA
1 AAATTTAGTCTCCCTACTTTT-TTATTT-AA
*
20268385 AAATTTAGTCTCTCTACTTTTTTATTTAA
1 AAATTTAGTCTCCCTACTTTTTTATTTAA
20268414 AAAT
1 AAAT
20268418 ACATGTCCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.50
Consensus pattern (29 bp):
AAATTTAGTCTCCCTACTTTTTTATTTAA
Found at i:20271769 original size:13 final size:13
Alignment explanation
Indices: 20271751--20271786 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
20271741 CCATTTGTTA
*
20271751 TGTCACCATACTT
1 TGTCACCAAACTT
20271764 TGTCACCAAACTT
1 TGTCACCAAACTT
*
20271777 TGCCACCAAA
1 TGTCACCAAA
20271787 TCATTTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.28
Consensus pattern (13 bp):
TGTCACCAAACTT
Found at i:20278409 original size:16 final size:16
Alignment explanation
Indices: 20278388--20278420 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
20278378 TTTCCAGTCG
20278388 ATTTGATGCTATTACC
1 ATTTGATGCTATTACC
20278404 ATTTGATGCTATTACC
1 ATTTGATGCTATTACC
20278420 A
1 A
20278421 GTCGATTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.42
Consensus pattern (16 bp):
ATTTGATGCTATTACC
Found at i:20288018 original size:25 final size:25
Alignment explanation
Indices: 20287976--20288029 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
20287966 TTTTCTCAAA
*
20287976 AATTTAATTAATATAAAATATTA-AT
1 AATTTAATAAATATAAAA-ATTAGAT
20288001 AATTTAATAAAT-TGAAAAATTAGAT
1 AATTTAATAAATAT-AAAAATTAGAT
20288026 AATT
1 AATT
20288030 AAGTTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (25 bp):
AATTTAATAAATATAAAAATTAGAT
Found at i:20288749 original size:29 final size:30
Alignment explanation
Indices: 20288694--20288754 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
20288684 GCTTTTTTAA
* *
20288694 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCAACAAATTTTT
20288724 AATATTTAC-AAAAGA-GCAACAAAATTTTT
1 AATATTTACAAAAAGAGGCAAC-AAATTTTT
20288753 AA
1 AA
20288755 AAATAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 4 0.14
29 15 0.54
30 9 0.32
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCAACAAATTTTT
Found at i:20300021 original size:30 final size:30
Alignment explanation
Indices: 20299964--20300025 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
20299954 GGTTTTTGAA
* * *
20299964 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGAACCAAATTTTT
*
20299994 AATATTTACAAAAAGAGTAACCAAATTTTT
1 AATATTTACAAAAAGAGGAACCAAATTTTT
20300024 AA
1 AA
20300026 AAATAATTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGAACCAAATTTTT
Found at i:20308891 original size:17 final size:16
Alignment explanation
Indices: 20308866--20308906 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
20308856 TTTAGCCATT
*
20308866 TTTTATTTTTATTTTAA
1 TTTT-TTTTTAATTTAA
20308883 TATTTTTTTTAATTTAA
1 T-TTTTTTTTAATTTAA
20308900 TTTTTTT
1 TTTTTTT
20308907 ATATGCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 13 0.59
18 3 0.14
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTTTTAATTTAA
Found at i:20314772 original size:9 final size:10
Alignment explanation
Indices: 20314749--20314773 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
20314739 AAGTTTTTTA
20314749 AAAAATATGC
1 AAAAATATGC
20314759 AAAAATATGC
1 AAAAATATGC
20314769 AAAAA
1 AAAAA
20314774 AATTGTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (10 bp):
AAAAATATGC
Found at i:20315784 original size:3 final size:3
Alignment explanation
Indices: 20315778--20315853 Score: 59
Period size: 3 Copynumber: 25.7 Consensus size: 3
20315768 CTCCCCTTAT
* * *
20315778 TTA TTA TTA -TA TT- TTA TTA TTA TTA CTA TTA TTA CTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
20315824 TTC TGT- TTA TTA TATG TTG TTA TTA TTA TT
1 TTA T-TA TTA TTA T-TA TTA TTA TTA TTA TT
20315854 TGTTTAGTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
2 5 0.08
3 52 0.87
4 3 0.05
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:20316871 original size:37 final size:37
Alignment explanation
Indices: 20316821--20316897 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
20316811 ATGATGCATA
* * * *
20316821 CTTTCTTTGGAGCACGGTGATGCGACGCCAATTTAAT
1 CTTTCTTTCGAGCACAGCGATGCGACCCCAATTTAAT
* *
20316858 CTTTCTTTCGAGCACAGCGATGTGACCCCAATTTGAT
1 CTTTCTTTCGAGCACAGCGATGCGACCCCAATTTAAT
20316895 CTT
1 CTT
20316898 GCATATTTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (37 bp):
CTTTCTTTCGAGCACAGCGATGCGACCCCAATTTAAT
Found at i:20330784 original size:43 final size:43
Alignment explanation
Indices: 20330736--20330996 Score: 206
Period size: 43 Copynumber: 6.1 Consensus size: 43
20330726 AAAAACTGCT
* *
20330736 GCTAAAGATCATGGTCTTTAGTGGCGCTTCTTCCACAAATGCC
1 GCTAAAGATCATGGCCTTTAGCGGCGCTTCTTCCACAAATGCC
* * ** * *** *
20330779 GCTAAATATCATGGCCTTTAGCAGTACTTTTTTTGCAAACGCC
1 GCTAAAGATCATGGCCTTTAGCGGCGCTTCTTCCACAAATGCC
* * *
20330822 GTTAAAGATCATGAG-CTTTAGCGGCGCTTCTACCACAAACGCC
1 GCTAAAGATCATG-GCCTTTAGCGGCGCTTCTTCCACAAATGCC
* * *
20330865 ACTAAAGATCATGGTCTTTAGCGGCGCTT-TTACCACAAATGTC
1 GCTAAAGATCATGGCCTTTAGCGGCGCTTCTT-CCACAAATGCC
* * * * * ** *
20330908 ACTAAAAAT-ATGACCTTTGGCGACATTTCTACCACAAATGCC
1 GCTAAAGATCATGGCCTTTAGCGGCGCTTCTTCCACAAATGCC
* * * *
20330950 GCTAAAGATCATGACCTTTAGTGGTGCTTCTAT-TACAAATGCC
1 GCTAAAGATCATGGCCTTTAGCGGCGCTTCT-TCCACAAATGCC
20330993 GCTA
1 GCTA
20330997 TAAAAATGAT
Statistics
Matches: 167, Mismatches: 45, Indels: 12
0.75 0.20 0.05
Matches are distributed among these distances:
42 32 0.19
43 134 0.80
44 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (43 bp):
GCTAAAGATCATGGCCTTTAGCGGCGCTTCTTCCACAAATGCC
Found at i:20341419 original size:21 final size:21
Alignment explanation
Indices: 20341393--20341438 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
20341383 CATGTTAGTG
20341393 TTGGTATGTTGAGTAATTGAA
1 TTGGTATGTTGAGTAATTGAA
20341414 TTGGTATGTTGAGTAATTGAA
1 TTGGTATGTTGAGTAATTGAA
20341435 TTGG
1 TTGG
20341439 AACTTTAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.43
Consensus pattern (21 bp):
TTGGTATGTTGAGTAATTGAA
Found at i:20347444 original size:7 final size:7
Alignment explanation
Indices: 20347432--20347458 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
20347422 ATTTTGATAT
20347432 TTTAAAA
1 TTTAAAA
20347439 TTTAAAA
1 TTTAAAA
20347446 TTTAAAA
1 TTTAAAA
20347453 TTTAAA
1 TTTAAA
20347459 TATAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TTTAAAA
Found at i:20347639 original size:31 final size:31
Alignment explanation
Indices: 20347601--20347684 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
20347591 GAATATATTA
*
20347601 TTGGGTGACTAAAACGAAAGTGACCTAG-GAG
1 TTGGGTGACCAAAACGAAAGTGA-CTAGCGAG
* * *
20347632 TTGGGTGACCAAAATGAAAGTCACTTGCGAG
1 TTGGGTGACCAAAACGAAAGTGACTAGCGAG
20347663 TTGGGTGACCAAAACGAAAGTG
1 TTGGGTGACCAAAACGAAAGTG
20347685 CAAACATGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 3 0.07
31 43 0.93
ACGTcount: A:0.35, C:0.14, G:0.31, T:0.20
Consensus pattern (31 bp):
TTGGGTGACCAAAACGAAAGTGACTAGCGAG
Found at i:20352245 original size:21 final size:21
Alignment explanation
Indices: 20352216--20352265 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
20352206 AACAAAATAT
* *
20352216 ATAAAATTATTATAAAGATAA
1 ATAATATTATCATAAAGATAA
*
20352237 ATAATATTATCATAAATATAA
1 ATAATATTATCATAAAGATAA
*
20352258 ATATTATT
1 ATAATATT
20352266 CAATTAACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
ATAATATTATCATAAAGATAA
Found at i:20356006 original size:25 final size:25
Alignment explanation
Indices: 20355969--20356112 Score: 166
Period size: 25 Copynumber: 5.7 Consensus size: 25
20355959 AACACACAAT
* *
20355969 AGCTCGT-ATGAGCTTACCAATTTAT
1 AGCTCGTGA-GAGCATACCAATTTAC
20355994 AGCTCGTGAGAGCATACCAATTTAC
1 AGCTCGTGAGAGCATACCAATTTAC
*
20356019 AGCTCGTGAGAGCATACCAATTTATAT
1 AGCTCGTGAGAGCATACCAA-TT-TAC
**
20356046 AGCTCGTGAGAGCATACGGATTTAC
1 AGCTCGTGAGAGCATACCAATTTAC
* * *
20356071 AGCTCGAGAGAGCATACCGATTCAC
1 AGCTCGTGAGAGCATACCAATTTAC
20356096 AGCTCGT-ATGAGCATAC
1 AGCTCGTGA-GAGCATAC
20356113 ATATACATGA
Statistics
Matches: 105, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
24 1 0.01
25 79 0.75
26 5 0.05
27 20 0.19
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (25 bp):
AGCTCGTGAGAGCATACCAATTTAC
Found at i:20356061 original size:52 final size:50
Alignment explanation
Indices: 20355969--20356112 Score: 175
Period size: 52 Copynumber: 2.8 Consensus size: 50
20355959 AACACACAAT
*
20355969 AGCTCGT-ATGAGCTTACCAATTTATAGCTCGTGAGAGCATACCAATTTAC
1 AGCTCGTGA-GAGCATACCAATTTATAGCTCGTGAGAGCATACCAATTTAC
**
20356019 AGCTCGTGAGAGCATACCAATTTATATAGCTCGTGAGAGCATACGGATTTAC
1 AGCTCGTGAGAGCATACCAA-TT-TATAGCTCGTGAGAGCATACCAATTTAC
* * * *
20356071 AGCTCGAGAGAGCATACCGATTCACAGCTCGT-ATGAGCATAC
1 AGCTCGTGAGAGCATACCAATTTATAGCTCGTGA-GAGCATAC
20356113 ATATACATGA
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
49 1 0.01
50 33 0.40
51 5 0.06
52 44 0.53
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (50 bp):
AGCTCGTGAGAGCATACCAATTTATAGCTCGTGAGAGCATACCAATTTAC
Found at i:20362814 original size:25 final size:25
Alignment explanation
Indices: 20362746--20362826 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
20362736 TATGCTCGTA
* *
20362746 CGAGCTATGAATCGGTATGGT-TACT
1 CGAGCTATGAATCAGTATGCTCT-CT
* * *
20362771 TGAGCTATAGATTGA-TATGCTCTCT
1 CGAGCTAT-GAATCAGTATGCTCTCT
* *
20362796 CGAGCTATGAATCAGTATGCTCACA
1 CGAGCTATGAATCAGTATGCTCTCT
20362821 CGAGCT
1 CGAGCT
20362827 GTAGGTCAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
24 4 0.09
25 35 0.81
26 4 0.09
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (25 bp):
CGAGCTATGAATCAGTATGCTCTCT
Found at i:20373078 original size:72 final size:72
Alignment explanation
Indices: 20372996--20373130 Score: 198
Period size: 72 Copynumber: 1.9 Consensus size: 72
20372986 CACCTACACG
* * *
20372996 TATACGCCAAAATAATAATTTTGGAGGATAACACCACACCAAATAGACTGTTTACTGCTATACGT
1 TATACACCAAAATAATAATTTGGGAGGATAACACCACACCAAACAGACTGTTTACTGCTATACGT
20373061 CAACGCT
66 CAACGCT
* * ** *
20373068 TATACACCAAAATAATCATTTGGGTGGATAACACCACGTCAGACAGACTGTTTACTGCTATAC
1 TATACACCAAAATAATAATTTGGGAGGATAACACCACACCAAACAGACTGTTTACTGCTATAC
20373131 TCCCAAAACC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (72 bp):
TATACACCAAAATAATAATTTGGGAGGATAACACCACACCAAACAGACTGTTTACTGCTATACGT
CAACGCT
Found at i:20375405 original size:22 final size:22
Alignment explanation
Indices: 20375380--20375424 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
20375370 AATAGAACTA
20375380 AACTAAACAAACGTTAGTGGTT
1 AACTAAACAAACGTTAGTGGTT
20375402 AACTAAACAAACGTTAGTGGTT
1 AACTAAACAAACGTTAGTGGTT
20375424 A
1 A
20375425 GTTTAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (22 bp):
AACTAAACAAACGTTAGTGGTT
Found at i:20376482 original size:23 final size:24
Alignment explanation
Indices: 20376438--20376496 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
20376428 TTAATGTTCA
**
20376438 CGAACATGTTCATTTAACTT-AAT
1 CGAACATGTTCATCGAACTTAAAT
20376461 CGAACATGTTCA-CGAACATTAAAT
1 CGAACATGTTCATCGAAC-TTAAAT
20376485 -GAACATGTTCAT
1 CGAACATGTTCAT
20376497 GAATAATGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 3 0.10
23 25 0.81
24 3 0.10
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (24 bp):
CGAACATGTTCATCGAACTTAAAT
Found at i:20387746 original size:17 final size:17
Alignment explanation
Indices: 20387726--20387758 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20387716 TGTTGACATA
20387726 AAACT-CTTAAATAATTT
1 AAACTACTT-AATAATTT
20387743 AAACTACTTAATAATT
1 AAACTACTTAATAATT
20387759 ATTAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (17 bp):
AAACTACTTAATAATTT
Found at i:20396864 original size:21 final size:21
Alignment explanation
Indices: 20396839--20396881 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
20396829 TGTAATTAAA
*
20396839 TAATTATGAGT-GAAAAATAAT
1 TAATT-TGAGTCGAAAAAGAAT
*
20396860 TAATTTGGGTCGAAAAAGAAT
1 TAATTTGAGTCGAAAAAGAAT
20396881 T
1 T
20396882 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (21 bp):
TAATTTGAGTCGAAAAAGAAT
Found at i:20405324 original size:46 final size:47
Alignment explanation
Indices: 20405225--20405336 Score: 133
Period size: 49 Copynumber: 2.4 Consensus size: 47
20405215 GTTATTAAAT
* *
20405225 TTTAATAAGATTATTATTAAATATAATTTAATAAAAAAATTAATCATAT
1 TTTAAT-A-ATTATTATTAAATACAATTTAATAAAAAAATTAATCATAA
*
20405274 TTTAACATAATTATTATTAAATACAATTTAATAAAATAA-T-AT-ATAA
1 TTT-A-ATAATTATTATTAAATACAATTTAATAAAAAAATTAATCATAA
20405320 TTTAATAA-TATTATTAA
1 TTTAATAATTATTATTAA
20405337 TATTATTATT
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
43 9 0.16
44 4 0.07
45 1 0.02
46 6 0.10
47 2 0.03
48 1 0.02
49 31 0.53
50 2 0.03
51 2 0.03
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (47 bp):
TTTAATAATTATTATTAAATACAATTTAATAAAAAAATTAATCATAA
Found at i:20405325 original size:12 final size:13
Alignment explanation
Indices: 20405310--20405384 Score: 54
Period size: 12 Copynumber: 6.2 Consensus size: 13
20405300 TTTAATAAAA
20405310 TAATATATAAT-T
1 TAATATATAATAT
*
20405322 TAATA-ATATTAT
1 TAATATATAATAT
*
20405334 TAATAT-TATTAT
1 TAATATATAATAT
* *
20405346 TAAAATATGA-AT
1 TAATATATAATAT
*
20405358 TAATA-AAAATCA-
1 TAATATATAAT-AT
20405370 TAATATATAATAT
1 TAATATATAATAT
20405383 TA
1 TA
20405385 TAAAAATAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 13
0.70 0.12 0.19
Matches are distributed among these distances:
11 6 0.12
12 34 0.71
13 8 0.17
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (13 bp):
TAATATATAATAT
Found at i:20405377 original size:24 final size:23
Alignment explanation
Indices: 20405350--20405399 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
20405340 TATTATTAAA
*
20405350 ATATGAAT-TAATAAAAATCATAAT
1 ATAT-AATATAATAAAAATAAT-AT
*
20405374 ATATAATATTATAAAAATAATAT
1 ATATAATATAATAAAAATAATAT
20405397 ATA
1 ATA
20405400 ACCTACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATAATATAATAAAAATAATAT
Found at i:20407533 original size:3 final size:3
Alignment explanation
Indices: 20407525--20407555 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
20407515 TTTCAACATG
*
20407525 GTT GTT GTT TTT GTT GTT GTT GTT GTT GTT G
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT G
20407556 GTATTCATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
GTT
Found at i:20408410 original size:21 final size:22
Alignment explanation
Indices: 20408374--20408417 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
20408364 ATAAGTGCTT
*
20408374 TGATTTTTTTAATTATTTTGGA
1 TGATTTTTTTAATTATTCTGGA
*
20408396 TGATTTTTTT-CTTATTCTGGA
1 TGATTTTTTTAATTATTCTGGA
20408417 T
1 T
20408418 TGGTTGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.18, C:0.05, G:0.14, T:0.64
Consensus pattern (22 bp):
TGATTTTTTTAATTATTCTGGA
Found at i:20411908 original size:32 final size:32
Alignment explanation
Indices: 20411844--20411909 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
20411834 TAAATTGAAT
*
20411844 AAAAGTAAAATATTAGGGGCAATTTTATAAAA
1 AAAAGTAAAATATTAGGGGCAATTTTACAAAA
* * *
20411876 AAAAGTAAAATGTTAGGGGTAATTTTGCAAAA
1 AAAAGTAAAATATTAGGGGCAATTTTACAAAA
20411908 AA
1 AA
20411910 GTCAAAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.52, C:0.03, G:0.18, T:0.27
Consensus pattern (32 bp):
AAAAGTAAAATATTAGGGGCAATTTTACAAAA
Found at i:20412668 original size:101 final size:101
Alignment explanation
Indices: 20412488--20412699 Score: 325
Period size: 101 Copynumber: 2.1 Consensus size: 101
20412478 AGTCGACAAC
* * * *
20412488 TTGTGTGAGCAGCATTGTGTAGCCTCCATTCTGACTGTCAGCTTTTATTAGCAGGCCCATTTTAC
1 TTGTGTGAGCAACATTGTGTAGCCTCCATTCTGACCGTCAGCTTATATGAGCAGGCCCATTTTAC
* *
20412553 TGCTCATATGAGCTACGACTATATGTTTACCACACT
66 AGCTCATATAAGCTACGACTATATGTTTACCACACT
* * *
20412589 TTGTGTGAGCAACATTGTGTAGCTTCCATTCTGACCGTTAGCTTATGTGAGCAGGCCCATTTTAC
1 TTGTGTGAGCAACATTGTGTAGCCTCCATTCTGACCGTCAGCTTATATGAGCAGGCCCATTTTAC
* *
20412654 AGCTCGTATAAGCTATGACTATATGTTTACCACACT
66 AGCTCATATAAGCTACGACTATATGTTTACCACACT
20412690 TTGTGTGAGC
1 TTGTGTGAGC
20412700 TTTACCGTGT
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 100 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (101 bp):
TTGTGTGAGCAACATTGTGTAGCCTCCATTCTGACCGTCAGCTTATATGAGCAGGCCCATTTTAC
AGCTCATATAAGCTACGACTATATGTTTACCACACT
Found at i:20419787 original size:23 final size:23
Alignment explanation
Indices: 20419760--20419858 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
20419750 AGTGTTATTG
20419760 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
20419783 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
20419806 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
20419829 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
20419852 ATCAGTG
1 ATCAGTG
20419859 TGGCACTTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:20420108 original size:23 final size:25
Alignment explanation
Indices: 20420062--20420109 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
20420052 GAAATTGCTA
* *
20420062 AGAAATGTTTGATTAGTTATATGAG
1 AGAAATGTTTAATTAGTTAAATGAG
20420087 AGAAATG-TTAATT-GTTAAATGAG
1 AGAAATGTTTAATTAGTTAAATGAG
20420110 TATTTATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 5 0.24
25 7 0.33
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.38
Consensus pattern (25 bp):
AGAAATGTTTAATTAGTTAAATGAG
Found at i:20423792 original size:9 final size:9
Alignment explanation
Indices: 20423778--20423802 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20423768 GAGACGAAAA
20423778 AAAGAAATG
1 AAAGAAATG
20423787 AAAGAAATG
1 AAAGAAATG
20423796 AAAGAAA
1 AAAGAAA
20423803 AGGAACAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (9 bp):
AAAGAAATG
Found at i:20423947 original size:18 final size:18
Alignment explanation
Indices: 20423909--20423950 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
20423899 AAACTGAAAG
* **
20423909 AAAAGAAAAAGAGATTGA
1 AAAAGAAAAAGAAATCAA
20423927 AAAAGAAAAAGAAATCAA
1 AAAAGAAAAAGAAATCAA
20423945 AAAAGA
1 AAAAGA
20423951 GAGTGAGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCAA
Found at i:20426442 original size:30 final size:32
Alignment explanation
Indices: 20426387--20426456 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
20426377 AAATGTTCCC
* *
20426387 TTCACACACTAAGGCCTTTCAATTTCGTGT-G
1 TTCACACACTAAGGCCTATCAATTTCCTGTAG
*
20426418 TTCACACAC-AAGGCCTGATC-ATTTCCTTTAG
1 TTCACACACTAAGGCCT-ATCAATTTCCTGTAG
20426449 TTCACACA
1 TTCACACA
20426457 TAGAAACGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 14 0.41
31 20 0.59
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.33
Consensus pattern (32 bp):
TTCACACACTAAGGCCTATCAATTTCCTGTAG
Found at i:20436424 original size:20 final size:20
Alignment explanation
Indices: 20436374--20436424 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
20436364 TAAGAACGAA
*
20436374 CTGAATGAGCGAAGGATGAG
1 CTGAATGAGCTAAGGATGAG
* * *
20436394 CTCAATGAGCTATGGTTGAG
1 CTGAATGAGCTAAGGATGAG
20436414 CTGAATGAGCT
1 CTGAATGAGCT
20436425 TGAAGTAGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (20 bp):
CTGAATGAGCTAAGGATGAG
Found at i:20436729 original size:14 final size:15
Alignment explanation
Indices: 20436710--20436750 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
20436700 GTTGTAAAGT
20436710 TTTATTTTTATTTA-
1 TTTATTTTTATTTAG
*
20436724 TTTATTTTTACTTAG
1 TTTATTTTTATTTAG
20436739 TTTAATTTTTAT
1 TTT-ATTTTTAT
20436751 GTAAATATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 13 0.57
15 3 0.13
16 7 0.30
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTATTTTTATTTAG
Found at i:20440596 original size:23 final size:22
Alignment explanation
Indices: 20440545--20440596 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
20440535 CCTCGTCTTT
*
20440545 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
20440567 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
20440590 TTCTTTT
1 TTCTTTT
20440597 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:20449606 original size:20 final size:20
Alignment explanation
Indices: 20449583--20449636 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
20449573 AACTAAGAAC
20449583 GAGCTGAATGAGCTAAGGAT
1 GAGCTGAATGAGCTAAGGAT
* * * *
20449603 GAGCTCAATGGGCTATGGTT
1 GAGCTGAATGAGCTAAGGAT
20449623 GAGCTGAATGAGCT
1 GAGCTGAATGAGCT
20449637 TGAAGTAGAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.28, C:0.13, G:0.35, T:0.24
Consensus pattern (20 bp):
GAGCTGAATGAGCTAAGGAT
Found at i:20454176 original size:22 final size:21
Alignment explanation
Indices: 20454145--20454186 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
20454135 CTCATTTAAC
*
20454145 ACTTAACTAAATTAATTAAAT
1 ACTTAACTAAATTAACTAAAT
20454166 ACTTAAACTAAATTAACTAAA
1 ACTT-AACTAAATTAACTAAA
20454187 ATTTATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTTAACTAAATTAACTAAAT
Found at i:20454204 original size:19 final size:20
Alignment explanation
Indices: 20454180--20454226 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
20454170 AAACTAAATT
*
20454180 AACTAAAATT-TATTTAAGC
1 AACTAAAATTCTATTCAAGC
* *
20454199 AACT-AAGTTCTATTCCAGC
1 AACTAAAATTCTATTCAAGC
20454218 AACTAAAAT
1 AACTAAAAT
20454227 GCATGAGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 4 0.18
19 15 0.68
20 3 0.14
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (20 bp):
AACTAAAATTCTATTCAAGC
Found at i:20456074 original size:15 final size:15
Alignment explanation
Indices: 20456053--20456110 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
20456043 AGTCTCACTC
20456053 TCTTTTTCAATTTCT
1 TCTTTTTCAATTTCT
20456068 T-TCTTTT---TTTCT
1 TCT-TTTTCAATTTCT
**
20456080 TCTTTTTCTTTTTCT
1 TCTTTTTCAATTTCT
20456095 TCTTTTTCAATTTCT
1 TCTTTTTCAATTTCT
20456110 T
1 T
20456111 TTTCACTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
12 10 0.28
13 1 0.03
14 1 0.03
15 24 0.67
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (15 bp):
TCTTTTTCAATTTCT
Found at i:20456078 original size:12 final size:12
Alignment explanation
Indices: 20456063--20456113 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
20456053 TCTTTTTCAA
20456063 TTTCTTTCTTTT
1 TTTCTTTCTTTT
20456075 TTTC-TTCTTTT
1 TTTCTTTCTTTT
20456086 TCTT-TTTCTTCTT
1 T-TTCTTTCTT-TT
20456099 TTTCAATTTCTTTT
1 TTTC--TTTCTTTT
20456113 T
1 T
20456114 CACTTTCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
11 8 0.24
12 13 0.39
13 3 0.09
14 3 0.09
15 6 0.18
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTCTTTCTTTT
Found at i:20456120 original size:27 final size:27
Alignment explanation
Indices: 20456053--20456120 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
20456043 AGTCTCACTC
*
20456053 TCTTTTTCAATTTCTTTCTTTTTTTCT
1 TCTTTTTCAATTTCTTTCTTTTTATCT
**
20456080 TCTTTTTCTTTTTC-TTCTTTTTCAAT-T
1 TCTTTTTCAATTTCTTTCTTTTT--ATCT
*
20456107 TCTTTTTCACTTTC
1 TCTTTTTCAATTTC
20456121 ATTTTTCTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 8 0.24
27 25 0.74
28 1 0.03
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (27 bp):
TCTTTTTCAATTTCTTTCTTTTTATCT
Found at i:20456125 original size:13 final size:12
Alignment explanation
Indices: 20456094--20456127 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
20456084 TTTCTTTTTC
20456094 TTCTTTTTCAAT
1 TTCTTTTTCAAT
*
20456106 TTCTTTTTCACT
1 TTCTTTTTCAAT
20456118 TTCATTTTTC
1 TTC-TTTTTC
20456128 TCTTCTCGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.68
Consensus pattern (12 bp):
TTCTTTTTCAAT
Found at i:20457314 original size:22 final size:20
Alignment explanation
Indices: 20457281--20457329 Score: 80
Period size: 21 Copynumber: 2.4 Consensus size: 20
20457271 ATTTTTTTAA
*
20457281 TTTTTTTATTTTTTTGAATT
1 TTTTTTTATTTTTTTGAAAT
20457301 TTTATTTTATTTTTTTGAAAT
1 TTT-TTTTATTTTTTTGAAAT
20457322 TTTTTTTA
1 TTTTTTTA
20457330 CAATATCGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTTTTATTTTTTTGAAAT
Found at i:20457323 original size:11 final size:10
Alignment explanation
Indices: 20457271--20457327 Score: 57
Period size: 11 Copynumber: 5.8 Consensus size: 10
20457261 AATTTCTATG
20457271 ATTTTTTT-A
1 ATTTTTTTGA
20457280 ATTTTTTT--
1 ATTTTTTTGA
20457288 ATTTTTTTGA
1 ATTTTTTTGA
**
20457298 ATTTTTATTTT
1 ATTTTT-TTGA
20457309 ATTTTTTTGAA
1 ATTTTTTTG-A
20457320 ATTTTTTT
1 ATTTTTTT
20457328 TACAATATCG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
8 8 0.20
9 8 0.20
10 8 0.20
11 16 0.40
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (10 bp):
ATTTTTTTGA
Found at i:20457606 original size:31 final size:31
Alignment explanation
Indices: 20457563--20457627 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
20457553 AAGGCTGAAG
20457563 AAAGAACAGATATTATATGCAATATCAACCC
1 AAAGAACAGATATTATATGCAATATCAACCC
* *
20457594 AAAGAACCGATATTATATTCAATATCAACCC
1 AAAGAACAGATATTATATGCAATATCAACCC
20457625 AAA
1 AAA
20457628 TCTTGCGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.49, C:0.20, G:0.08, T:0.23
Consensus pattern (31 bp):
AAAGAACAGATATTATATGCAATATCAACCC
Found at i:20469351 original size:19 final size:20
Alignment explanation
Indices: 20469299--20469352 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 20
20469289 AGCTCAATTC
* *
20469299 AGCTCAATTTTAGCTCAATA
1 AGCTCATTTTTAGCTCAACA
**
20469319 AGCTCATTCCTAGCTC-ACA
1 AGCTCATTTTTAGCTCAACA
*
20469338 AGCTCGTTTTTAGCT
1 AGCTCATTTTTAGCT
20469353 TACTTTAGTT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (20 bp):
AGCTCATTTTTAGCTCAACA
Found at i:20471545 original size:23 final size:23
Alignment explanation
Indices: 20471518--20471574 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
20471508 AAATAAATAT
* *
20471518 TAAA-CTATAATTACAATTGAAAA
1 TAAACCTA-AATTACAAGTAAAAA
20471541 TAAACCTAAATTACAAGTAAAAA
1 TAAACCTAAATTACAAGTAAAAA
*
20471564 TAAAACTAAAT
1 TAAACCTAAAT
20471575 AGGAAACGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 27 0.90
24 3 0.10
ACGTcount: A:0.60, C:0.11, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAACCTAAATTACAAGTAAAAA
Found at i:20480282 original size:24 final size:24
Alignment explanation
Indices: 20480255--20480301 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
20480245 CACACTTGTG
20480255 TGAATACTTTAGTTTTGGTGTGCA
1 TGAATACTTTAGTTTTGGTGTGCA
20480279 TGAATACTTTAGTTTTGGTGTGC
1 TGAATACTTTAGTTTTGGTGTGC
20480302 CAGTTTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.19, C:0.09, G:0.26, T:0.47
Consensus pattern (24 bp):
TGAATACTTTAGTTTTGGTGTGCA
Found at i:20484094 original size:15 final size:15
Alignment explanation
Indices: 20484074--20484119 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
20484064 CTTAAATTAC
20484074 GTTTAAGTCACTTAT
1 GTTTAAGTCACTTAT
*
20484089 GTTTAAAT-A-TTAT
1 GTTTAAGTCACTTAT
*
20484102 ATTTAAGTCACTTAT
1 GTTTAAGTCACTTAT
20484117 GTT
1 GTT
20484120 AACATGTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 10 0.40
14 2 0.08
15 13 0.52
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (15 bp):
GTTTAAGTCACTTAT
Found at i:20486743 original size:35 final size:34
Alignment explanation
Indices: 20486703--20486890 Score: 128
Period size: 35 Copynumber: 5.4 Consensus size: 34
20486693 ATCTTTTTGC
*
20486703 GCCCAGTACTAGTTGGATATACCAACGATAAGTGT
1 GCCCAGCACTAGTTGGATA-ACCAACGATAAGTGT
* * * * ** *
20486738 GCCCAGTACTAGTCGAATAATCGCCAATG-T-TTTGC
1 GCCCAGCACTAGTTGGATAA---CCAACGATAAGTGT
* *
20486773 GCCCAGCGCTAGTTGGATAAGCCAACGATAGGTGT
1 GCCCAGCACTAGTTGGATAA-CCAACGATAAGTGT
* * * * *** *
20486808 GCCCAGCACTAGTCGAATAATCGACGATGTTTTGC
1 GCCCAGCACTAGTTGGATAACCAACGAT-AAGTGT
*
20486843 GCCCAGCGCTAGTTGGATAAGCCAACGATAAGTGT
1 GCCCAGCACTAGTTGGATAA-CCAACGATAAGTGT
20486878 GCCCAGCACTAGT
1 GCCCAGCACTAGT
20486891 CAAGTAATCG
Statistics
Matches: 113, Mismatches: 33, Indels: 14
0.71 0.21 0.09
Matches are distributed among these distances:
33 6 0.05
34 8 0.07
35 87 0.77
36 7 0.06
37 5 0.04
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.23
Consensus pattern (34 bp):
GCCCAGCACTAGTTGGATAACCAACGATAAGTGT
Found at i:20486785 original size:70 final size:70
Alignment explanation
Indices: 20486697--20486931 Score: 341
Period size: 70 Copynumber: 3.3 Consensus size: 70
20486687 AAAATAATCT
** *
20486697 TTTTGCGCCCAGTACTAGTTGGATATA-CCAACGATAAGTGTGCCCAGTACTAGTCGAATAATCG
1 TTTTGCGCCCAGCGCTAGTTGGATA-AGCCAACGATAAGTGTGCCCAGCACTAGTCGAATAATCG
*
20486761 CCAATG
65 ACAATG
*
20486767 TTTTGCGCCCAGCGCTAGTTGGATAAGCCAACGATAGGTGTGCCCAGCACTAGTCGAATAATCGA
1 TTTTGCGCCCAGCGCTAGTTGGATAAGCCAACGATAAGTGTGCCCAGCACTAGTCGAATAATCGA
*
20486832 CGATG
66 CAATG
20486837 TTTTGCGCCCAGCGCTAGTTGGATAAGCCAACGATAAGTGTGCCCAGCACTAGTC-AAGTAATCG
1 TTTTGCGCCCAGCGCTAGTTGGATAAGCCAACGATAAGTGTGCCCAGCACTAGTCGAA-TAATCG
20486901 ACAA-G
65 ACAATG
* *
20486906 ATTTTTGCGCCTAGCGCTAGTCGGAT
1 --TTTTGCGCCCAGCGCTAGTTGGAT
20486932 TAACCGACAA
Statistics
Matches: 151, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
69 4 0.03
70 125 0.83
71 22 0.15
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (70 bp):
TTTTGCGCCCAGCGCTAGTTGGATAAGCCAACGATAAGTGTGCCCAGCACTAGTCGAATAATCGA
CAATG
Found at i:20487955 original size:27 final size:27
Alignment explanation
Indices: 20487917--20487980 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
20487907 TTATTTTTAT
*
20487917 TATA-ATAGTATTA-ACATCACATATATA
1 TATATATA-TATTATACATAACATA-ATA
*
20487944 TATATATATATTATACTTAACATAATA
1 TATATATATATTATACATAACATAATA
*
20487971 CATATATATA
1 TATATATATA
20487981 GAATATACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 21 0.66
28 11 0.34
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (27 bp):
TATATATATATTATACATAACATAATA
Found at i:20490185 original size:23 final size:24
Alignment explanation
Indices: 20490153--20490197 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
20490143 CAAAAAAATC
*
20490153 TGCT-ATTTTTTTTGTTGTTTTAA
1 TGCTAATTTTTTTTGTTATTTTAA
20490176 TGCTAATTTTTTTTGTTATTTT
1 TGCTAATTTTTTTTGTTATTTT
20490198 CTTCCTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.13, C:0.04, G:0.11, T:0.71
Consensus pattern (24 bp):
TGCTAATTTTTTTTGTTATTTTAA
Found at i:20490207 original size:23 final size:23
Alignment explanation
Indices: 20490155--20490208 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
20490145 AAAAAATCTG
* *
20490155 CTATTTTTTTTGTTGTTTTAATG
1 CTATTTTTTTTGTTATTTTAATC
**
20490178 CTAATTTTTTTTGTTATTTTCTTC
1 CT-ATTTTTTTTGTTATTTTAATC
20490202 CTATTTT
1 CTATTTT
20490209 GCTACCATTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.13, C:0.09, G:0.07, T:0.70
Consensus pattern (23 bp):
CTATTTTTTTTGTTATTTTAATC
Found at i:20497445 original size:98 final size:98
Alignment explanation
Indices: 20497276--20497473 Score: 317
Period size: 98 Copynumber: 2.0 Consensus size: 98
20497266 AATAATCCTT
* *
20497276 AGCAAATTGAAGGATGAAAAATGAATTCCCACGGCTCCTTAAAGAAAATCAAGAAGAAAACTAAT
1 AGCAAATTGAAGGATGAAAAATAAATTCCCACGACTCCTTAAAGAAAATCAAGAAGAAAACTAAT
*
20497341 TCTAAAAATCACAAGAAAGCAATCTTGCACAAA
66 TCTAAAAACCACAAGAAAGCAATCTTGCACAAA
* * *
20497374 AGCAATTTGAAGGATGAAGAATAAATTCCCACGACTCCTTAAAGAAAATCAAGAAGAAAAC-AGC
1 AGCAAATTGAAGGATGAAAAATAAATTCCCACGACTCCTTAAAGAAAATCAAGAAGAAAACTA-A
*
20497438 TTCTAAAAACCATAAGAAAGCAATCTTGCACAAA
65 TTCTAAAAACCACAAGAAAGCAATCTTGCACAAA
20497472 AG
1 AG
20497474 AACTAACTCT
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
97 1 0.01
98 91 0.99
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.18
Consensus pattern (98 bp):
AGCAAATTGAAGGATGAAAAATAAATTCCCACGACTCCTTAAAGAAAATCAAGAAGAAAACTAAT
TCTAAAAACCACAAGAAAGCAATCTTGCACAAA
Found at i:20500055 original size:20 final size:20
Alignment explanation
Indices: 20500004--20500045 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
20499994 TGGAAAGAAA
*
20500004 CTAAATCAAGCTCAAACGAG
1 CTAAATTAAGCTCAAACGAG
*
20500024 CTAAATTAAGCTCAAATGAG
1 CTAAATTAAGCTCAAACGAG
20500044 CT
1 CT
20500046 GATTTGAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.21
Consensus pattern (20 bp):
CTAAATTAAGCTCAAACGAG
Found at i:20502838 original size:13 final size:13
Alignment explanation
Indices: 20502822--20502846 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20502812 ACTTAATTAA
20502822 ATTATTATATTTT
1 ATTATTATATTTT
20502835 ATTATTATATTT
1 ATTATTATATTT
20502847 CATGTCCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTATTATATTTT
Found at i:20503720 original size:126 final size:126
Alignment explanation
Indices: 20503495--20503920 Score: 671
Period size: 126 Copynumber: 3.4 Consensus size: 126
20503485 ATAAAATATC
* * * *
20503495 AGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
20503560 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGCAAGCAGGATGCTATTTG
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGCAAGCAGGATGCTATTTG
*
20503621 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
*
20503686 TTTCGAGTTCACGTTTCTGAGCAAATAGTATAAAACAACGCTGCAAGCAGGATGCTATTTG
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGCAAGCAGGATGCTATTTG
* * *
20503747 AGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCTTGGAAAAATAA
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
* * * * *
20503812 TTTTGACTTGACGTTTCTGAGCAAATAGTATAAAATC-A--CTTCTAGTAGGATGCT-TTATG
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAA-CAACGCTGCAAGCAGGATGCTATT-TG
*
20503871 AGAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTAG
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
20503921 CATGTTTGGG
Statistics
Matches: 280, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
123 2 0.01
124 63 0.22
126 214 0.76
127 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (126 bp):
AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGCAAGCAGGATGCTATTTG
Found at i:20504553 original size:22 final size:22
Alignment explanation
Indices: 20504522--20504927 Score: 486
Period size: 22 Copynumber: 18.5 Consensus size: 22
20504512 GCTCGAAAGA
*
20504522 GTTTATGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
20504544 GTTTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
* * *
20504566 G-TTATGGATTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
20504587 GTTTATGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
20504609 GTTTAGGGTTTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
* *
20504631 G-TTATGGTTTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
20504652 GTTTATGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
* *
20504674 GTTTAGGGGTTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
20504696 G-TTAGGGTTTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
20504717 GTTTATGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
20504739 GTTTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*** *
20504761 G-TTACTATTTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
20504782 GTTTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
20504804 GTTTAAGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
20504826 GTTTATGGTTTTTAAGTT--GG
1 GTTTAGGGTTTTTAAGTTAAGG
*
20504846 GTTTAGGGTTTTTAAGTTGAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
20504868 G-TTAGGATTTTTAGGTTAAGAATTAAGG
1 GTTTAGG--GTTT---TTAAG--TTAAGG
*
20504896 G-TTAGGGTTTTTAGGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGG
*
20504917 GTTTAAGGTTT
1 GTTTAGGGTTT
20504928 GTCAATTAAA
Statistics
Matches: 337, Mismatches: 33, Indels: 28
0.85 0.08 0.07
Matches are distributed among these distances:
20 19 0.06
21 87 0.26
22 205 0.61
23 7 0.02
26 8 0.02
28 11 0.03
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (22 bp):
GTTTAGGGTTTTTAAGTTAAGG
Found at i:20504628 original size:65 final size:65
Alignment explanation
Indices: 20504522--20504927 Score: 577
Period size: 65 Copynumber: 6.2 Consensus size: 65
20504512 GCTCGAAAGA
*
20504522 GTTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTATGGATTTTAGGTTAAGG
1 GTTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTATGGTTTTTAGGTTAAGG
*
20504587 GTTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTTATGGTTTTTAGGTTAAGG
1 GTTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTATGGTTTTTAGGTTAAGG
* * *
20504652 GTTTATGGTTTTTAAGTTAAGGGTTTAGGGGTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGG
1 GTTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTATGGTTTTTAGGTTAAGG
*
20504717 GTTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTACT-ATTTTTAGGTTAAG
1 GTTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTA-TGGTTTTTAGGTTAAG
20504781 G
65 G
* * *
20504782 GTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTTATGGTTTTTAAGTT--G
1 GTTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTATGGTTTTTAGGTTAAG
20504845 G
65 G
* * * *
20504846 GTTTAGGGTTTTTAAGTTGAGGG-TTAGGATTTTTAGGTTAAGAATTAAGGGTTAGGGTTTTTAG
1 GTTTATGGTTTTTAAGTTAAGGGTTTAGG--GTTT---TTAAG--TTAAGGGTTATGGTTTTTAG
20504910 GTTAAGG
59 GTTAAGG
*
20504917 GTTTAAGGTTT
1 GTTTATGGTTT
20504928 GTCAATTAAA
Statistics
Matches: 311, Mismatches: 18, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
63 4 0.01
64 24 0.08
65 233 0.75
66 12 0.04
68 5 0.02
69 14 0.05
70 7 0.02
71 12 0.04
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (65 bp):
GTTTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTATGGTTTTTAGGTTAAGG
Found at i:20505497 original size:18 final size:18
Alignment explanation
Indices: 20505471--20505513 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
20505461 GACTCGAAAA
* *
20505471 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
20505489 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
20505507 AGGAAAC
1 AGGAAAC
20505514 GCACCTGACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:20506342 original size:20 final size:20
Alignment explanation
Indices: 20506305--20506342 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20506295 TTTATTTTTA
*
20506305 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
20506325 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
20506343 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:20507324 original size:51 final size:51
Alignment explanation
Indices: 20507280--20507379 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
20507270 AATTATTTAA
*
20507280 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAGATT
1 AAATAGGAATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAGATT
* * * *
20507331 AAATATGAATTTAAGAGAAATTTGGAAGGAATTTGAGAGTAAATTGAGA
1 AAATAGGAATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAGA
20507380 GGATATTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.25, T:0.27
Consensus pattern (51 bp):
AAATAGGAATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAGATT
Done.