Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007938.1 Hibiscus syriacus cultivar Beakdansim tig00110348_pilon, whole genome shotgun sequence
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: 2808856
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 14
Found at i:2178945 original size:123 final size:122
Alignment explanation
Indices: 2178726--2178972 Score: 379
Period size: 123 Copynumber: 2.0 Consensus size: 122
2178716 AACGCATCTA
* * * *
2178726 GTAAAATTATATCATACTCCAGTTCTTCCCCAATATTCTAGCCCAAATCCTTTCTTCAGCTGAAT
1 GTAAAAATATAGCATACTCCAGTTCTTCCCCAATATTCTAGCCCAAATCCTTTCCTCAGCGGAAT
*
2178791 CAATAGTTAAATCCTTTTTCTATACTACTCTTCAAGGTGAAGCTATCAAATATACCAT
66 CAATAGTTAAATCATTTTTCTATACTACTCTTCAAGGTGAAGCTATCAAA-ATACCAT
*
2178849 GTAAAAATATAGCATACTCCAGTTCTTCTCCAATATTCTAGCCCAAATCCTTTCCTCAGCCGGAA
1 GTAAAAATATAGCATACTCCAGTTCTTCCCCAATATTCTAGCCCAAATCCTTTCCTCAG-CGGAA
* * * *
2178914 -CAATAGTTAAATCATTTTTCTATATTACTCTTCGAGGTGAAGCTCTCGAAATACCAT
65 TCAATAGTTAAATCATTTTTCTATACTACTCTTCAAGGTGAAGCTATCAAAATACCAT
2178971 GT
1 GT
2178973 CCACTAGTCT
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
122 9 0.08
123 100 0.88
124 4 0.04
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (122 bp):
GTAAAAATATAGCATACTCCAGTTCTTCCCCAATATTCTAGCCCAAATCCTTTCCTCAGCGGAAT
CAATAGTTAAATCATTTTTCTATACTACTCTTCAAGGTGAAGCTATCAAAATACCAT
Found at i:2181225 original size:13 final size:14
Alignment explanation
Indices: 2181200--2181229 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2181190 AAACAATAAC
2181200 AAAATTAACAGGAA
1 AAAATTAACAGGAA
2181214 AAAATTAA-AGGAA
1 AAAATTAACAGGAA
2181227 AAA
1 AAA
2181230 GAAAATGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.70, C:0.03, G:0.13, T:0.13
Consensus pattern (14 bp):
AAAATTAACAGGAA
Found at i:2182165 original size:13 final size:14
Alignment explanation
Indices: 2182140--2182169 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2182130 AAACAATAAC
2182140 AAAATTAACAGGAA
1 AAAATTAACAGGAA
2182154 AAAATTAA-AGGAA
1 AAAATTAACAGGAA
2182167 AAA
1 AAA
2182170 GAAAATAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.70, C:0.03, G:0.13, T:0.13
Consensus pattern (14 bp):
AAAATTAACAGGAA
Found at i:2182866 original size:937 final size:934
Alignment explanation
Indices: 2180867--2183496 Score: 4378
Period size: 937 Copynumber: 2.8 Consensus size: 934
2180857 TTAACAGAAA
* *
2180867 AGAGAGAAAACAAATCAAAACTTGTTGTGCATAACATAATTCTTCCTTTCTGTTAGGCGATCCAG
1 AGAGAGAAAACAAATCAAAACTTGTTGTGCTTAACACAATTCTTCCTTTCTGTTAGGCGATCCAG
2180932 AAAATATAAAAGAATTAATGTAAAATATACGCTAACTCAAGTCTCAATATGTAGTTC-TTTGTCT
66 AAAATATAAAAGAATTAATGTAAAATATACGCTAACTCAAGTCTCAATATGTAGTTCATTT-TCT
* * * *
2180996 TCCTTTTTCTGTTTCTGAACAACAAAATTTTCTTAATCCGGATATAAAACATAAGAAAAATATAT
130 TCCTTTTTCTGTTTCTGAACACCAAAATTTTCTTAACCCGGATAGAAAACAGAAGAAAAATATAT
*
2181061 GTATAAAAACCAGTGGTGCTTCACAAGGCTCTTCCGTTTTTGCTAGTTTATGATCGATAATATTT
195 GTATAAAAACCAGTGGTGCTTCACAAGGCTCTTCCTTTTTTGCTAGTTTATGATCGATAATATTT
* *
2181126 TTTAAAAAATGAAGTAAAATCCCAAAGTATCATTTTCCTGTTTCTGACCAACAAAATCTTCTGAA
260 TTTTAAAAATGAAGTAAAATCCCAAAGTATCATTTTCCTGTTTCTTACCAACAAAATCTTCTGAA
*
2181191 AACAATAACAAAATTAACAGGAAAAAATTAAAGGAAAAAGAAAATGAAGATATCGATCAAAACCT
325 AACAATAACAAAATTAACAGGAAAAAATTAAAGGAAAAAGAAAATAAAGATATCGATCAAAACC-
* * *
2181256 ATTGTGCTTGAGGTGACTCTTCCTTTTTACCTGTCATTTTCTGATAAAAAAATAATGTAAAATAT
389 --T-TGC-TGAGGTGGCTCTTCCTTTTTACCCGTTATTTTCTGATAAAAAAATAATGTAAAATAT
* * * *
2181321 CTATTAATTCACATTATAGTTTTTAAAACATATTCTGTTTCTGAACATCAAATTCTCCTAAAACC
450 CCATTAAATCACATTGTAGTTTTTAAAACATATTCTGTTTCTGAACACCAAATTCTCCTAAAACC
2181386 GAATTAGGATAAAAGAGAAAATCAAACCAGCTGTGTTTTAGACGGATCTTCCTTTTTGCAAGCTA
515 GAATTAGGATAAAAGAGAAAATCAAACCAGCTGTGTTTTAGACGGATCTTCCTTTTTGCAAGCTA
* * *
2181451 TTTTCTGAAAATAAAAGAAAAACAAAGTAAAATCTCCATTAAAAATACAAAATTTTGCTACATTT
580 ATTTCTGAAAATAAAAGAAAAACAAAGTAAAATCTCTATTAAAAATACAAAATGTTGCTAC-TTT
2181516 TCTGCTTCTTGAGAATGAACATCAAAGCCTTGTGTAAACCATCTTGAAATTCAACCGAAAA-AGA
644 TCTGCTTCTTGAGAATGAACATCAAAGCCTTGTGTAAACCATCTTGAAATTCAACCGAAAACA-A
* *
2181580 AGAAAAATCAAT-AAATCATGTTGTGATTCATCCTTTTTGGTAGCCATAATAATCCTTGACTTTC
708 AGAAAAATCAGTAAAATCATGTTGTGATTCATCCTTTTTGGTAGCCATAATAATCCTTGAATTTC
* * *
2181644 TGAATTCAAAAAAATCACATCCCAAATGGATCACAAAATCAACAAACAGCACCGACCTTTCACTC
773 GGAATTAAAAAAAATCACATCCCAAACGGATCACAAAATCAACAAACAGCACCGACCTTTCACTC
2181709 ATCAATCTCGGTAATGCCACTCATTCACAACATTTAAACAAGCAAACACTTAGATTCAAACCGAA
838 ATCAATCTCGGTAATGCCACTCATTCACAACATTTAAACAAGCAAACACTTAGATTCAAACCGAA
*
2181774 ATAACCCTTTGAAACTAACATAATGTGAAAAG
903 ATAACCCTTTGAAACGAACATAATGTGAAAAG
* *
2181806 AGAGAGAAAACAAATCAAAACTTGTTGTGCTTAACACAATTCTTCCTTTCTGTTAGACGATGCAG
1 AGAGAGAAAACAAATCAAAACTTGTTGTGCTTAACACAATTCTTCCTTTCTGTTAGGCGATCCAG
*
2181871 AAAATATAAGAGAATTAATGTAAAATATACGCTAACTCAAGTCTCAATATGTAGTTCATTTTCTT
66 AAAATATAAAAGAATTAATGTAAAATATACGCTAACTCAAGTCTCAATATGTAGTTCATTTTCTT
* *
2181936 CCTTTTTATGTTTCTGAACACCAAAATTTTCTTAACCCGGATAGAAAACAGAAGAAAAAGATATG
131 CCTTTTTCTGTTTCTGAACACCAAAATTTTCTTAACCCGGATAGAAAACAGAAGAAAAATATATG
* *
2182001 TATAAAAACCAGTGGTGTTTCACAAGGCTCTTCCTTTTTTGATAGTTTATGATCGATAATATTTT
196 TATAAAAACCAGTGGTGCTTCACAAGGCTCTTCCTTTTTTGCTAGTTTATGATCGATAATATTTT
* *
2182066 TTTAAAAATGAAGTAAAAACCCAAAGTATCATTTTTCCTGTTTCTTACCAATAAAATCTTCTGAA
261 TTTAAAAATGAAGTAAAATCCCAAAGTATCA-TTTTCCTGTTTCTTACCAACAAAATCTTCTGAA
2182131 AACAATAACAAAATTAACAGGAAAAAATTAAAGGAAAAAGAAAATAAAGATATCGATCAAAACC-
325 AACAATAACAAAATTAACAGGAAAAAATTAAAGGAAAAAGAAAATAAAGATATCGATCAAAACCT
*
2182195 T-C-GAGGTGGCTATTCCTTTTTACCCGTTATTTTCTGATAAAAAAATAATGTAAAATATCCATT
390 TGCTGAGGTGGCTCTTCCTTTTTACCCGTTATTTTCTGATAAAAAAATAATGTAAAATATCCATT
* *
2182258 AAATCACATTGTAGTTTTTAAAACATATTCTGTTTCTAAACACCAAATTCTCCTAAAATCGAATT
455 AAATCACATTGTAGTTTTTAAAACATATTCTGTTTCTGAACACCAAATTCTCCTAAAACCGAATT
* * *
2182323 AGGATAAAAGAGAAAATCAAACCAACTGTGTTTTAGACGGGTCTTCCTTTCTGCAAGCTAATTTC
520 AGGATAAAAGAGAAAATCAAACCAGCTGTGTTTTAGACGGATCTTCCTTTTTGCAAGCTAATTTC
* * * *
2182388 TGGGAAAAAAAAAGAAAAACGAAGTAAAACCTCTATTAAAAATACAAAATGTTGCTATCGTTTCT
585 T--GAAAATAAAAGAAAAACAAAGTAAAATCTCTATTAAAAATACAAAATGTTGCTA-CTTTTCT
*
2182453 GCTTCTTGAGAATGAACATCAAATCCTTGTGTAAACCATCTTGAAATTCAACCGAAAACAAAGAA
647 GCTTCTTGAGAATGAACATCAAAGCCTTGTGTAAACCATCTTGAAATTCAACCGAAAACAAAGAA
* *
2182518 ATATCAGTAAAATCCTGTTGTGATTCATCCTTTTTGGTAGCCATAATAATCCTTGATATTTCGGA
712 AAATCAGTAAAATCATGTTGTGATTCATCCTTTTTGGTAGCCATAATAATCCTTGA-ATTTCGGA
*
2182583 ATTAAAAAAAATCACATCCCAAACGGATCACAAAATCAACAAATAGCACCGACCTTTCACTCATC
776 ATTAAAAAAAATCACATCCCAAACGGATCACAAAATCAACAAACAGCACCGACCTTTCACTCATC
*
2182648 AATCTCGGTAAATGCCTCTCATTCACAACATTTAAACAAGCAAACACTTAGATTCAAACCGAAAT
841 AATCTCGGT-AATGCCACTCATTCACAACATTTAAACAAGCAAACACTTAGATTCAAACCGAAAT
* * *
2182713 AACTCTTTGAAACGAACATAGTGTTAAAAG
905 AACCCTTTGAAACGAACATAATGTGAAAAG
* * *
2182743 AGAGAGAAAACAAATCAAAACTTGTTGTGCTTAACACAATTCTTACTTTCTGTTAGGTGATCCAT
1 AGAGAGAAAACAAATCAAAACTTGTTGTGCTTAACACAATTCTTCCTTTCTGTTAGGCGATCCAG
*
2182808 AAAATATAAAAGAATTAATATAAAATATACGCTAACTCAAGTCTCAATATGTAGTTCATTTTCTT
66 AAAATATAAAAGAATTAATGTAAAATATACGCTAACTCAAGTCTCAATATGTAGTTCATTTTCTT
2182873 CCTTTTTCTGTTTCTGAACACCAAAATTTTCTTAACCCGGATAGAAAACAGAAGAAAAATATATG
131 CCTTTTTCTGTTTCTGAACACCAAAATTTTCTTAACCCGGATAGAAAACAGAAGAAAAATATATG
2182938 TATAAAAACCAGTGGTGCTTCACAAGGCTCTTCCTTTTTTGCTAGTTTATGATCGATAATA-TTT
196 TATAAAAACCAGTGGTGCTTCACAAGGCTCTTCCTTTTTTGCTAGTTTATGATCGATAATATTTT
2183002 TTTAAAATATGAAGTAAAATCCCAAAGTATCATTTTCCTGTTTCTTACCAACAAAATCTTCTGAA
261 TTTAAAA-ATGAAGTAAAATCCCAAAGTATCATTTTCCTGTTTCTTACCAACAAAATCTTCTGAA
2183067 AACAATAACAAAATTAACAGGAAAAAATTAAAGGAAAAAGAAAATAAAGATATCGATCAAAACCT
325 AACAATAACAAAATTAACAGGAAAAAATTAAAGGAAAAAGAAAATAAAGATATCGATCAAAACC-
2183132 ATTGTGCTTGAGGTGGCTCTTCCTTTTTACCC-TTCATTTTCTGATAAAAAAATAATGTAAAATA
389 --T-TGC-TGAGGTGGCTCTTCCTTTTTACCCGTT-ATTTTCTGATAAAAAAATAATGTAAAATA
* *
2183196 CCCATTAAATCACATTGTAGTGTTTAAAACATATTCTGTTTCTGAACACCAAATTCTCCTAAAAC
449 TCCATTAAATCACATTGTAGTTTTTAAAACATATTCTGTTTCTGAACACCAAATTCTCCTAAAAC
* *
2183261 CGAATTTGGATAAAAGAGAAAATCAAACCAGCTGTGTTTTAGACGGATCTTCTTTTTTGCAAGCT
514 CGAATTAGGATAAAAGAGAAAATCAAACCAGCTGTGTTTTAGACGGATCTTCCTTTTTGCAAGCT
* *
2183326 ATTTTATGAAAATAAAAGAAAAACAAAGTAAAATCT-TCATTAAAAATACAAAATGTTGCTACCT
579 AATTTCTGAAAATAAAAGAAAAACAAAGTAAAATCTCT-ATTAAAAATACAAAATGTTGCTA-CT
* *
2183390 TTTCTGCTTCTTGAGAATGAACATCAAAGCCTTGTGTAAAACATCTTGAAATTCAACCGAAAACG
642 TTTCTGCTTCTTGAGAATGAACATCAAAGCCTTGTGTAAACCATCTTGAAATTCAACCGAAAACA
* * *
2183455 AAGAAAGATCAGTAAAAACATGTTGCGATTCATCCTTTTTGG
707 AAGAAAAATCAGTAAAATCATGTTGTGATTCATCCTTTTTGG
2183497 CCGGGGAAAA
Statistics
Matches: 1581, Mismatches: 90, Indels: 37
0.93 0.05 0.02
Matches are distributed among these distances:
932 178 0.11
934 123 0.08
935 49 0.03
936 183 0.12
937 348 0.22
939 271 0.17
940 97 0.06
941 2 0.00
942 151 0.10
943 2 0.00
944 177 0.11
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (934 bp):
AGAGAGAAAACAAATCAAAACTTGTTGTGCTTAACACAATTCTTCCTTTCTGTTAGGCGATCCAG
AAAATATAAAAGAATTAATGTAAAATATACGCTAACTCAAGTCTCAATATGTAGTTCATTTTCTT
CCTTTTTCTGTTTCTGAACACCAAAATTTTCTTAACCCGGATAGAAAACAGAAGAAAAATATATG
TATAAAAACCAGTGGTGCTTCACAAGGCTCTTCCTTTTTTGCTAGTTTATGATCGATAATATTTT
TTTAAAAATGAAGTAAAATCCCAAAGTATCATTTTCCTGTTTCTTACCAACAAAATCTTCTGAAA
ACAATAACAAAATTAACAGGAAAAAATTAAAGGAAAAAGAAAATAAAGATATCGATCAAAACCTT
GCTGAGGTGGCTCTTCCTTTTTACCCGTTATTTTCTGATAAAAAAATAATGTAAAATATCCATTA
AATCACATTGTAGTTTTTAAAACATATTCTGTTTCTGAACACCAAATTCTCCTAAAACCGAATTA
GGATAAAAGAGAAAATCAAACCAGCTGTGTTTTAGACGGATCTTCCTTTTTGCAAGCTAATTTCT
GAAAATAAAAGAAAAACAAAGTAAAATCTCTATTAAAAATACAAAATGTTGCTACTTTTCTGCTT
CTTGAGAATGAACATCAAAGCCTTGTGTAAACCATCTTGAAATTCAACCGAAAACAAAGAAAAAT
CAGTAAAATCATGTTGTGATTCATCCTTTTTGGTAGCCATAATAATCCTTGAATTTCGGAATTAA
AAAAAATCACATCCCAAACGGATCACAAAATCAACAAACAGCACCGACCTTTCACTCATCAATCT
CGGTAATGCCACTCATTCACAACATTTAAACAAGCAAACACTTAGATTCAAACCGAAATAACCCT
TTGAAACGAACATAATGTGAAAAG
Found at i:2183101 original size:13 final size:14
Alignment explanation
Indices: 2183076--2183105 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2183066 AAACAATAAC
2183076 AAAATTAACAGGAA
1 AAAATTAACAGGAA
2183090 AAAATTAA-AGGAA
1 AAAATTAACAGGAA
2183103 AAA
1 AAA
2183106 GAAAATAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.70, C:0.03, G:0.13, T:0.13
Consensus pattern (14 bp):
AAAATTAACAGGAA
Found at i:2183823 original size:23 final size:23
Alignment explanation
Indices: 2183788--2183835 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2183778 ATCAAGTACA
*
2183788 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
* *
2183811 ATAATGTAATAGGTAGCGTTTAT
1 ATAATATAATAGGTAGCGCTTAT
2183834 AT
1 AT
2183836 TGACATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:2184733 original size:182 final size:182
Alignment explanation
Indices: 2184426--2184768 Score: 668
Period size: 182 Copynumber: 1.9 Consensus size: 182
2184416 ACTTTTTTAC
*
2184426 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTATCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAAACCGATTTTGTCATATTTTTATCTGTTATATTGTTATGGATCGA
2184491 TACATTTTTATAAAGTATCGACACTTTATTGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
*
2184556 TGTCTATAGTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTT
131 TGTCGATAGTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTT
2184608 TACCGGTTTTGTCATTTCGAAACCGATTTTGTCATATTTTTATCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAAACCGATTTTGTCATATTTTTATCTGTTATATTGTTATGGATCGA
2184673 TACATTTTTATAAAGTATCGACACTTTATTGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
2184738 TGTCGATAGTTATAATAAAGTATCGACACTT
131 TGTCGATAGTTATAATAAAGTATCGACACTT
2184769 ATAATAAAGT
Statistics
Matches: 159, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 159 1.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (182 bp):
TACCGGTTTTGTCATTTCGAAACCGATTTTGTCATATTTTTATCTGTTATATTGTTATGGATCGA
TACATTTTTATAAAGTATCGACACTTTATTGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
TGTCGATAGTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTT
Found at i:2184763 original size:20 final size:20
Alignment explanation
Indices: 2184747--2184788 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
2184737 GTGTCGATAG
2184747 TTATAATAAAGTATCGACAC
1 TTATAATAAAGTATCGACAC
2184767 TTATAATAAAGTATCGACAC
1 TTATAATAAAGTATCGACAC
2184787 TT
1 TT
2184789 TCAACATAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (20 bp):
TTATAATAAAGTATCGACAC
Found at i:2184817 original size:202 final size:202
Alignment explanation
Indices: 2184565--2184969 Score: 733
Period size: 202 Copynumber: 2.0 Consensus size: 202
2184555 GTGTCTATAG
* *
2184565 TTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTTTACCGGTTTTGTCATTTCGAAA
1 TTATAATAAAGTATCGACACTTTCAACATAACTGGTAGCGCTTTACCGGTTTTGTCATTTCGAAA
2184630 CCGATTTTGTCATATTTTTA-TCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
66 CCGATTTTGTCATATTTTTACT-TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
*
2184694 CACTTTATT-GACGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAGTTATAATAAAG
130 CACTTTATTAG-CGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAG
2184758 TATCGACAC
194 TATCGACAC
*
2184767 TTATAATAAAGTATCGACACTTTCAACATAACTGGTAGCGCTTTACCGGTTTTGTCATTTCGAGA
1 TTATAATAAAGTATCGACACTTTCAACATAACTGGTAGCGCTTTACCGGTTTTGTCATTTCGAAA
2184832 CCGATTTTGTCATATTTTTACTTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGAC
66 CCGATTTTGTCATATTTTTACTTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGAC
*
2184897 ACTTTATTAGCTCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTA
131 ACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTA
2184962 TCGACAC
196 TCGACAC
2184969 T
1 T
2184970 ATCAACATAT
Statistics
Matches: 196, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
202 194 0.99
203 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (202 bp):
TTATAATAAAGTATCGACACTTTCAACATAACTGGTAGCGCTTTACCGGTTTTGTCATTTCGAAA
CCGATTTTGTCATATTTTTACTTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGAC
ACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTA
TCGACAC
Found at i:2185003 original size:182 final size:182
Alignment explanation
Indices: 2184754--2185083 Score: 552
Period size: 182 Copynumber: 1.8 Consensus size: 182
2184744 TAGTTATAAT
* * *
2184754 AAAGTATCGACACTTATAATAAAGTATCGACACTTTCAACATAACTGGTAGCGCTTTACCGGTTT
1 AAAGTATCGACACTTATAATAAAGTATCGACACTATCAACATAACCGGTAGCACTTTACCGGTTT
* *
2184819 TGTCATTTCGAGACCGATTTTGTCATATTTTTACTTGTTATATTGTTATGGATCGATACATTTTT
66 TGTCATTTAGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
2184884 ATAAAGTATCGACACTTTATTAGCTCTATAACTTCTTCTCTTTTAAATTCCA
131 ATAAAGTATCGACACTTTATTAGCTCTATAACTTCTTCTCTTTTAAATTCCA
* * * *
2184936 AAAGTGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCACTTTACCTGTTT
1 AAAGTATCGACACTTATAATAAAGTATCGACACTATCAACATAACCGGTAGCACTTTACCGGTTT
* * *
2185001 TGTCATTTATAGACCGATTTTGTCTTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TGTCATTTAGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
2185066 ATAAAGTATCGACACTTT
131 ATAAAGTATCGACACTTT
2185084 CAATATATTC
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
182 136 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTATAATAAAGTATCGACACTATCAACATAACCGGTAGCACTTTACCGGTTT
TGTCATTTAGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
ATAAAGTATCGACACTTTATTAGCTCTATAACTTCTTCTCTTTTAAATTCCA
Found at i:2185024 original size:202 final size:200
Alignment explanation
Indices: 2184565--2185083 Score: 693
Period size: 202 Copynumber: 2.7 Consensus size: 200
2184555 GTGTCTATAG
* *
2184565 TTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTTTACCGGTTTTGTCATTTCGAAA
1 TTATAATAAAGTATCGACACTTT-AACATAACTGGTA-CACTTTACCGGTTTTGTCATTTCGAAA
2184630 CCGATTTTGTCATATTTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGAC
64 CCGATTTTGTCATATTTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGAC
*
2184695 ACTTTATTGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAGTTATAATAAAGTA
129 ACTTTATTGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTA
2184760 TCGACAC
194 TCGACAC
* *
2184767 TTATAATAAAGTATCGACACTTTCAACATAACTGGTAGCGCTTTACCGGTTTTGTCATTTCGAGA
1 TTATAATAAAGTATCGACACTTT-AACATAACTGGTA-CACTTTACCGGTTTTGTCATTTCGAAA
2184832 CCGATTTTGTCATATTTTTA-CTTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
64 CCGATTTTGTCATATTTTTATC-TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
*
2184896 CACTTTATT-AGCTCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAG
128 CACTTTATTGA-CGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAG
2184960 TATCGACAC
192 TATCGACAC
* * * ** *
2184969 -----------TAT-----C---AACATATCCGGTAGCACTTTACCTGTTTTGTCATTTATAGAC
1 TTATAATAAAGTATCGACACTTTAACATAACTGGTA-CACTTTACCGGTTTTGTCATTTCGAAAC
* * *
2185015 CGATTTTGTCTTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACA
65 CGATTTTGTCATATTTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACA
2185080 CTTT
130 CTTT
2185084 CAATATATTC
Statistics
Matches: 301, Mismatches: 13, Indels: 26
0.89 0.04 0.08
Matches are distributed among these distances:
182 101 0.34
183 1 0.00
186 1 0.00
191 3 0.01
201 2 0.01
202 193 0.64
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.42
Consensus pattern (200 bp):
TTATAATAAAGTATCGACACTTTAACATAACTGGTACACTTTACCGGTTTTGTCATTTCGAAACC
GATTTTGTCATATTTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
TTTATTGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATC
GACAC
Found at i:2185156 original size:112 final size:112
Alignment explanation
Indices: 2184954--2185303 Score: 531
Period size: 112 Copynumber: 3.1 Consensus size: 112
2184944 GATACTTATA
* * * *
2184954 ATAAAGTATCGACACTATCAACATATCCGGTAGCACTTTACCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
2185019 TTTGTCTTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
*
2185066 ATAAAGTATCGACACTTTCAATATATTCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
** * *
2185131 TTTGTCATTTTTTTAAATGTCATATTGTTATGGGTCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
** * *
2185178 ATAAAGTATTAACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAATCGG-
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
2185242 TTTGTCATTTTTTTACCTGTTATATTATTATGAATCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
2185289 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
2185304 AAACCGACAA
Statistics
Matches: 213, Mismatches: 25, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
111 54 0.25
112 159 0.75
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
Found at i:2188925 original size:186 final size:186
Alignment explanation
Indices: 2188598--2188986 Score: 690
Period size: 186 Copynumber: 2.1 Consensus size: 186
2188588 TTTTCTAATT
* * *
2188598 TATATAA-AAATTAAATATTTTATAATTCAAAAAAACAATTTATAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTATAATTCAAAAAAACAATTTACAATTAATTTAAATAATATATA
2188662 ATTATAAAATAAAAATTTTATATAAAATTTTTAATAAATTAACATTGATTTAGGTTTAAAAGTTA
66 ATTATAAAATAAAAATTTTATATAAAATTTTTAATAAATTAACATTGATTTAGGTTTAAAAGTTA
*
2188727 TTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGTTGAGCCCATATGTTA
131 TTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGATGAGCCCATATGTTA
* * *
2188783 TATATAATATATTTAATATTTTTTAATTCAGAAAAACAGTTTACAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTATAATTCAAAAAAACAATTTACAATTAATTTAAATAATATATA
* *
2188848 ATTATAAAATAAAAATTTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
66 ATTATAAAATAAAAATTTTATATAAAATTTTTAATAAATTAACATTGATTTAGGTTTAAAAGTTA
2188913 TTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGATGAGCCCATATGTTA
131 TTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGATGAGCCCATATGTTA
2188969 TATATAATATATTTAATA
1 TATATAATATATTTAATA
2188987 AAAAAAAAGT
Statistics
Matches: 194, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
185 7 0.04
186 187 0.96
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (186 bp):
TATATAATATATTTAATATTTTATAATTCAAAAAAACAATTTACAATTAATTTAAATAATATATA
ATTATAAAATAAAAATTTTATATAAAATTTTTAATAAATTAACATTGATTTAGGTTTAAAAGTTA
TTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGATGAGCCCATATGTTA
Found at i:2189457 original size:24 final size:23
Alignment explanation
Indices: 2189429--2189512 Score: 66
Period size: 24 Copynumber: 3.6 Consensus size: 23
2189419 TGTAGAAATT
2189429 ATAATAAAAAATATAAAAGAGAAA
1 ATAATAAAAAATA-AAAAGAGAAA
* *
2189453 ATAATGTAATAAA-GAAAAG-GAAA
1 ATAA--TAAAAAATAAAAAGAGAAA
* *
2189476 ATAAAAAGAAAATAAAAAAAGAAA
1 ATAATAA-AAAATAAAAAGAGAAA
*
2189500 GTAA-AAAAAATAA
1 ATAATAAAAAATAA
2189513 CAAAAACCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
21 2 0.04
22 10 0.21
23 14 0.29
24 16 0.33
26 6 0.12
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (23 bp):
ATAATAAAAAATAAAAAGAGAAA
Found at i:2189493 original size:17 final size:17
Alignment explanation
Indices: 2189436--2189538 Score: 54
Period size: 17 Copynumber: 6.1 Consensus size: 17
2189426 ATTATAATAA
2189436 AAAATATAAAAGAGAAAAT
1 AAAA-ATAAAA-AGAAAAT
** *
2189455 -AATGTAATAAAGAAAAG
1 AAAAATAA-AAAGAAAAT
*
2189472 GAAAATAAAAAGAAAAT
1 AAAAATAAAAAGAAAAT
*
2189489 AAAAA-AAGAAAGTAAA-
1 AAAAATAA-AAAGAAAAT
* **
2189505 AAAAATAACAA-AAACC
1 AAAAATAAAAAGAAAAT
2189521 AAAAATCAAAAA-AAAAT
1 AAAAAT-AAAAAGAAAAT
2189538 A
1 A
2189539 TATGTAGTGC
Statistics
Matches: 64, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
15 2 0.03
16 15 0.23
17 38 0.59
18 9 0.14
ACGTcount: A:0.76, C:0.04, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAAATAAAAAGAAAAT
Found at i:2189496 original size:13 final size:13
Alignment explanation
Indices: 2189460--2189508 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
2189450 AAAATAATGT
2189460 AATAAAGAAAAGGAA
1 AATAAA-AAAA-GAA
2189475 AAT--AAAAAGAA
1 AATAAAAAAAGAA
2189486 AATAAAAAAAGAA
1 AATAAAAAAAGAA
*
2189499 AGTAAAAAAA
1 AATAAAAAAA
2189509 ATAACAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
11 6 0.19
12 4 0.13
13 18 0.58
15 3 0.10
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (13 bp):
AATAAAAAAAGAA
Found at i:2191594 original size:30 final size:30
Alignment explanation
Indices: 2191573--2191655 Score: 112
Period size: 30 Copynumber: 2.8 Consensus size: 30
2191563 TATATTCCAT
** *
2191573 TCCTTTAAAATTGTAATATTTACATTTTAG
1 TCCTTTAAAATTCCAATATTTACATTTCAG
*
2191603 TACTTTAAAATTCCAATATTTACATTTCAG
1 TCCTTTAAAATTCCAATATTTACATTTCAG
* *
2191633 TCCTTTAAGATTCCAACATTTAC
1 TCCTTTAAAATTCCAATATTTAC
2191656 TTTTATGCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.34, C:0.17, G:0.05, T:0.45
Consensus pattern (30 bp):
TCCTTTAAAATTCCAATATTTACATTTCAG
Found at i:2192626 original size:26 final size:27
Alignment explanation
Indices: 2192575--2192626 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
2192565 CTAACTGCTT
* *
2192575 AATACATGTGCATATTTCTTTAACAGC
1 AATACACGTGCATAGTTCTTTAACAGC
2192602 AATACACGTGCAT-GTTCTTTAACAG
1 AATACACGTGCATAGTTCTTTAACAG
2192627 TCTAACATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (27 bp):
AATACACGTGCATAGTTCTTTAACAGC
Found at i:2192723 original size:36 final size:36
Alignment explanation
Indices: 2192676--2192888 Score: 322
Period size: 36 Copynumber: 5.9 Consensus size: 36
2192666 AGATGAACAA
* *
2192676 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACT
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
*
2192712 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC-TT
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
* *
2192747 CTTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACT
1 -TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
*
2192784 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC-TT
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
2192819 CTTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
1 -TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
**
2192856 TTGAATCGAAAGTGATGATGCTTCCTTTCGTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC
2192889 TTCTTATTCA
Statistics
Matches: 161, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
35 2 0.01
36 157 0.98
37 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.37
Consensus pattern (36 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
Found at i:2192793 original size:72 final size:72
Alignment explanation
Indices: 2192676--2192893 Score: 400
Period size: 72 Copynumber: 3.0 Consensus size: 72
2192666 AGATGAACAA
2192676 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
1 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
2192741 GTTCTTC
66 GTTCTTC
2192748 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
1 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
2192813 GTTCTTC
66 GTTCTTC
* * **
2192820 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACTTTGAATCGAAAGTGATGATGCTTCCTTTC
1 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
2192885 GTTCTTC
66 GTTCTTC
2192892 TT
1 TT
2192894 ATTCACCTTC
Statistics
Matches: 142, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 142 1.00
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (72 bp):
TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
GTTCTTC
Found at i:2194533 original size:26 final size:27
Alignment explanation
Indices: 2194482--2194533 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
2194472 CTAACTGCTT
* *
2194482 AATACATGTGCATATTTCTTTAACAGC
1 AATACACGTGCATAGTTCTTTAACAGC
2194509 AATACACGTGCAT-GTTCTTTAACAG
1 AATACACGTGCATAGTTCTTTAACAG
2194534 TCTAACATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (27 bp):
AATACACGTGCATAGTTCTTTAACAGC
Found at i:2197450 original size:30 final size:30
Alignment explanation
Indices: 2197436--2197494 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
2197426 TAGTATTTTT
2197436 ATTTCAGTCCTTTAAAATTCTAGCATTTAC
1 ATTTCAGTCCTTTAAAATTCTAGCATTTAC
* * *
2197466 ATTTCAGTCCTTTAAGATTCCAACATTTA
1 ATTTCAGTCCTTTAAAATTCTAGCATTTA
2197495 TTTTTATGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (30 bp):
ATTTCAGTCCTTTAAAATTCTAGCATTTAC
Found at i:2206497 original size:21 final size:21
Alignment explanation
Indices: 2206473--2206520 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
2206463 CTTTTTTAAT
*
2206473 AAAACTATAGATTTCTATAAG
1 AAAACTAGAGATTTCTATAAG
2206494 AAAACTAGAGATTTCTATAAG
1 AAAACTAGAGATTTCTATAAG
2206515 AAAACT
1 AAAACT
2206521 TTTTAAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.29
Consensus pattern (21 bp):
AAAACTAGAGATTTCTATAAG
Found at i:2207248 original size:22 final size:22
Alignment explanation
Indices: 2207223--2207271 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
2207213 ATATATTTAT
2207223 TAATATTTATAATAATATAATA
1 TAATATTTATAATAATATAATA
* *
2207245 TAATATTTTTAATATTATAATA
1 TAATATTTATAATAATATAATA
*
2207267 AAATA
1 TAATA
2207272 ATAAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATATTTATAATAATATAATA
Found at i:2207258 original size:31 final size:31
Alignment explanation
Indices: 2207215--2207357 Score: 105
Period size: 31 Copynumber: 4.8 Consensus size: 31
2207205 TATTTAAAAT
2207215 ATATTTATTAATATTTATAATAATATAATATA
1 ATATTT-TTAATATTTATAATAATATAATATA
*
2207247 ATATTTTTAATA-TTATAATAAAAT-A-ATA
1 ATATTTTTAATATTTATAATAATATAATATA
*
2207275 A-A---TT-ATA-TTATAATAATATAAGATA
1 ATATTTTTAATATTTATAATAATATAATATA
* *
2207300 TTATTTTT-TTATTTAATAA-ATATATAATA-A
1 ATATTTTTAATATTT-ATAATA-ATATAATATA
2207330 A-ATTTTTATATATTTAATAATGAATATA
1 ATATTTTTA-ATATTT-ATAAT-AATATA
2207358 TATTTATATA
Statistics
Matches: 91, Mismatches: 7, Indels: 26
0.73 0.06 0.21
Matches are distributed among these distances:
23 14 0.15
24 3 0.03
25 3 0.03
26 1 0.01
27 1 0.01
28 4 0.04
29 11 0.12
30 15 0.16
31 27 0.30
32 11 0.12
33 1 0.01
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (31 bp):
ATATTTTTAATATTTATAATAATATAATATA
Found at i:2207281 original size:18 final size:18
Alignment explanation
Indices: 2207258--2207292 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2207248 TATTTTTAAT
2207258 ATTATAATAAAATAATAA
1 ATTATAATAAAATAATAA
* *
2207276 ATTATATTATAATAATA
1 ATTATAATAAAATAATA
2207293 TAAGATATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTATAATAAAATAATAA
Found at i:2207302 original size:23 final size:23
Alignment explanation
Indices: 2207256--2207303 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2207246 AATATTTTTA
*
2207256 ATATTATAATAAAATAATAAATT
1 ATATTATAATAAAATAAGAAATT
* *
2207279 ATATTATAATAATATAAGATATT
1 ATATTATAATAAAATAAGAAATT
2207302 AT
1 AT
2207304 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
ATATTATAATAAAATAAGAAATT
Found at i:2207544 original size:33 final size:33
Alignment explanation
Indices: 2207475--2207545 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
2207465 ATATAATTTA
* **
2207475 TAATATTTTTATTTCACTAAAATATACCAATAT
1 TAATATTTTTATTTCAATAAAATATAAAAATAT
2207508 TAATATTTTTA-TT-AATAAAATTATAAAAATATT
1 TAATATTTTTATTTCAATAAAA-TATAAAAATA-T
2207541 TAATA
1 TAATA
2207546 ATAAATAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 6 0.18
32 10 0.30
33 17 0.52
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (33 bp):
TAATATTTTTATTTCAATAAAATATAAAAATAT
Found at i:2207764 original size:14 final size:14
Alignment explanation
Indices: 2207740--2207780 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
2207730 AAATGTAATT
*
2207740 CATTTTACGGAAAA
1 CATTTTCCGGAAAA
*
2207754 TATTTTCCGGAAAA
1 CATTTTCCGGAAAA
*
2207768 CATTTTCCAGAAA
1 CATTTTCCGGAAA
2207781 TGTAATTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (14 bp):
CATTTTCCGGAAAA
Found at i:2207807 original size:20 final size:20
Alignment explanation
Indices: 2207768--2207808 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2207758 TTCCGGAAAA
**
2207768 CATTTTCCAGAAATGTAATT
1 CATTTTCCAGAAATCAAATT
*
2207788 CATTTTCCAGAATTCAAATT
1 CATTTTCCAGAAATCAAATT
2207808 C
1 C
2207809 CAGTAATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (20 bp):
CATTTTCCAGAAATCAAATT
Found at i:2207818 original size:15 final size:15
Alignment explanation
Indices: 2207782--2207826 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
2207772 TTCCAGAAAT
**
2207782 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
2207797 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
*
2207811 GTAATTCAAACTCCA
1 GTAATTCAAATTCCA
2207826 G
1 G
2207827 AAAACCAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:2211533 original size:2 final size:2
Alignment explanation
Indices: 2211522--2211570 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
2211512 TGAATATCCT
2211522 TA TA -A TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2211561 TA TA TA TA TA
1 TA TA TA TA TA
2211571 ATGCATTTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2211559 original size:25 final size:24
Alignment explanation
Indices: 2211522--2211572 Score: 81
Period size: 21 Copynumber: 2.2 Consensus size: 24
2211512 TGAATATCCT
2211522 TATAATATATATAATATATATATA
1 TATAATATATATAATATATATATA
2211546 TAT-ATATATAT-ATAT-TATATA
1 TATAATATATATAATATATATATA
2211567 TATAAT
1 TATAAT
2211573 GCATTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.35
22 6 0.23
23 8 0.31
24 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TATAATATATATAATATATATATA
Found at i:2215893 original size:12 final size:12
Alignment explanation
Indices: 2215872--2215911 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
2215862 TCTTCATCTC
*
2215872 CTTCCACTTCAT
1 CTTCCTCTTCAT
*
2215884 CTTCCTCTTCCT
1 CTTCCTCTTCAT
*
2215896 CTTCTTCTTCAT
1 CTTCCTCTTCAT
2215908 CTTC
1 CTTC
2215912 AGCAACAACG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.07, C:0.42, G:0.00, T:0.50
Consensus pattern (12 bp):
CTTCCTCTTCAT
Found at i:2215899 original size:18 final size:18
Alignment explanation
Indices: 2215872--2215911 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2215862 TCTTCATCTC
*
2215872 CTTCCACTTCATCTTCCT
1 CTTCCACTTCATCTTCAT
* *
2215890 CTTCCTCTTCTTCTTCAT
1 CTTCCACTTCATCTTCAT
2215908 CTTC
1 CTTC
2215912 AGCAACAACG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.42, G:0.00, T:0.50
Consensus pattern (18 bp):
CTTCCACTTCATCTTCAT
Found at i:2224396 original size:35 final size:35
Alignment explanation
Indices: 2224356--2224457 Score: 177
Period size: 35 Copynumber: 2.9 Consensus size: 35
2224346 TTTATTTTCT
*
2224356 TAAAAGTCGTGAGTTTGAATAATTACGTTTATTCC
1 TAAAAGTCATGAGTTTGAATAATTACGTTTATTCC
*
2224391 TAAAAGTCATGAGTTTGAATAATTACATTTATTCC
1 TAAAAGTCATGAGTTTGAATAATTACGTTTATTCC
*
2224426 TAGAAGTCATGAGTTTGAATAATTACGTTTAT
1 TAAAAGTCATGAGTTTGAATAATTACGTTTAT
2224458 ATTGTCAATT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 63 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (35 bp):
TAAAAGTCATGAGTTTGAATAATTACGTTTATTCC
Found at i:2229271 original size:21 final size:20
Alignment explanation
Indices: 2229237--2229280 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
2229227 TATCCCTAAA
* *
2229237 ATAATATTTTTTAATATAAT
1 ATAATATATTTTAAGATAAT
2229257 ATAATATAATTTTAAGATAAT
1 ATAATAT-ATTTTAAGATAAT
2229278 ATA
1 ATA
2229281 CATTTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
ATAATATATTTTAAGATAAT
Found at i:2229929 original size:185 final size:185
Alignment explanation
Indices: 2229708--2230087 Score: 609
Period size: 185 Copynumber: 2.1 Consensus size: 185
2229698 ATAAAAATTA
* *
2229708 AATATTTTATAATTAAAAAAATAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAA
1 AATATTTTATAATTAAAAAAATAATTTACAATTAATTTAAATAATATATAATTATAAAATAAAAA
* *
2229773 TTTTATATAAATTTTTTAATTAATTAATATTGATTTAAGTTT-AAAGTTATTAGATCTTAAATTA
66 TTTTATATAAAATTTTTAATTAATTAATATTAATTTAAGTTTAAAAGTTATTAGATCTTAAATTA
*
2229837 TTAATTAAATTTTAAATGGTTTGGACTGAACCCATATGTTATATATAATATATAT
131 TTAATTAAATTTTAAATGGTTTGGACTGAACCCATATATTATATATAATATATAT
* *
2229892 AATATTTTTTAATTCAGAAAAATAATTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
1 AATATTTTATAATT-AAAAAAATAATTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
* *
2229957 ATTTTATATAAAATTTTTAATTAATTAATATTAATTTAGGTTTAAAAGTTATTGGATCTTAAATT
65 ATTTTATATAAAATTTTTAATTAATTAATATTAATTTAAGTTTAAAAGTTATTAGATCTTAAATT
* * * * *
2230022 ATTAATTGAGTTTTAAATGGTTTGGGCTGAACTCATATATTATATATAATATATTT
130 ATTAATTAAATTTTAAATGGTTTGGACTGAACCCATATATTATATATAATATATAT
*
2230078 AAAATTTTAT
1 AATATTTTAT
2230088 TTCAGTTAAT
Statistics
Matches: 178, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
184 13 0.07
185 87 0.49
186 78 0.44
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.46
Consensus pattern (185 bp):
AATATTTTATAATTAAAAAAATAATTTACAATTAATTTAAATAATATATAATTATAAAATAAAAA
TTTTATATAAAATTTTTAATTAATTAATATTAATTTAAGTTTAAAAGTTATTAGATCTTAAATTA
TTAATTAAATTTTAAATGGTTTGGACTGAACCCATATATTATATATAATATATAT
Found at i:2232666 original size:2 final size:2
Alignment explanation
Indices: 2232659--2232683 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2232649 CCATAATTTA
2232659 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2232684 AAAGAGGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2233087 original size:12 final size:12
Alignment explanation
Indices: 2233072--2233101 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
2233062 TTGTCAAACT
2233072 TATATATGTATG
1 TATATATGTATG
2233084 TATATATGTATG
1 TATATATGTATG
2233096 TATATA
1 TATATA
2233102 CGAATTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (12 bp):
TATATATGTATG
Found at i:2235411 original size:33 final size:32
Alignment explanation
Indices: 2235364--2235428 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
2235354 ACAAAATATG
2235364 AAGTGCACAAAAGCACTTAAGTGTAAAACACTA
1 AAGTGCACAAAAGCACTTAAGT-TAAAACACTA
* *
2235397 AAGTGCACATAAGCACTTAAGTTGAAACACTA
1 AAGTGCACAAAAGCACTTAAGTTAAAACACTA
2235429 TCAACCTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 9 0.30
33 21 0.70
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.20
Consensus pattern (32 bp):
AAGTGCACAAAAGCACTTAAGTTAAAACACTA
Found at i:2235418 original size:18 final size:17
Alignment explanation
Indices: 2235364--2235418 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
2235354 ACAAAATATG
2235364 AAGTGCACAAAAGCACTT
1 AAGTGCAC-AAAGCACTT
* *
2235382 AAGTGTA-AAA-CACTA
1 AAGTGCACAAAGCACTT
2235397 AAGTGCACATAAGCACTT
1 AAGTGCACA-AAGCACTT
2235415 AAGT
1 AAGT
2235419 TGAAACACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 10 0.33
16 4 0.13
17 2 0.07
18 14 0.47
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.20
Consensus pattern (17 bp):
AAGTGCACAAAGCACTT
Found at i:2235815 original size:15 final size:15
Alignment explanation
Indices: 2235795--2235826 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2235785 TAAAGATAAG
2235795 TGGACTAGCATGTGA
1 TGGACTAGCATGTGA
*
2235810 TGGACTAGCTTGTGA
1 TGGACTAGCATGTGA
2235825 TG
1 TG
2235827 TTGTAGCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.12, G:0.34, T:0.31
Consensus pattern (15 bp):
TGGACTAGCATGTGA
Found at i:2236947 original size:36 final size:36
Alignment explanation
Indices: 2236900--2236986 Score: 156
Period size: 36 Copynumber: 2.4 Consensus size: 36
2236890 CTTAGAATAA
*
2236900 AACAATCAGAATTCTGAATTCAGAATCCTACATCTT
1 AACAATCAGAATTCAGAATTCAGAATCCTACATCTT
2236936 AACAATCAGAATTCAGAATTCAGAATCCTACATCTT
1 AACAATCAGAATTCAGAATTCAGAATCCTACATCTT
*
2236972 AACAATGAGAATTCA
1 AACAATCAGAATTCA
2236987 TTTTAAATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.28
Consensus pattern (36 bp):
AACAATCAGAATTCAGAATTCAGAATCCTACATCTT
Found at i:2238374 original size:19 final size:18
Alignment explanation
Indices: 2238350--2238396 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
2238340 GAATATATAT
2238350 TAATATAATATTAAAAATA
1 TAATAT-ATATTAAAAATA
*
2238369 TAATAT-TATTAAAATTA
1 TAATATATATTAAAAATA
*
2238386 TATTATATATT
1 TAATATATATT
2238397 TTTAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 15 0.60
18 4 0.16
19 6 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATATATATTAAAAATA
Found at i:2245515 original size:24 final size:24
Alignment explanation
Indices: 2245483--2245606 Score: 108
Period size: 24 Copynumber: 5.2 Consensus size: 24
2245473 CATTTAAATG
* *
2245483 ATAAACGAATACAAATGAACGAAC
1 ATAAACGAACACAAATAAACGAAC
*** **
2245507 ATAAACGAATGGATGTAAACGAAC
1 ATAAACGAACACAAATAAACGAAC
* *
2245531 ATAAATGGACAC-AATAAACGAAC
1 ATAAACGAACACAAATAAACGAAC
* **
2245554 ATTAACGAACACAAACGAACGAAC
1 ATAAACGAACACAAATAAACGAAC
* *
2245578 GTAAACGAACAC-AATAAATGAAC
1 ATAAACGAACACAAATAAACGAAC
2245601 ATAAAC
1 ATAAAC
2245607 CAAAACGGTG
Statistics
Matches: 76, Mismatches: 23, Indels: 3
0.75 0.23 0.03
Matches are distributed among these distances:
23 31 0.41
24 45 0.59
ACGTcount: A:0.56, C:0.18, G:0.14, T:0.13
Consensus pattern (24 bp):
ATAAACGAACACAAATAAACGAAC
Found at i:2247005 original size:2 final size:2
Alignment explanation
Indices: 2247000--2247108 Score: 65
Period size: 2 Copynumber: 57.0 Consensus size: 2
2246990 AATATGTAAT
* * * *
2247000 TA TA TA TA TA TG TA TG TA TG TA TA GTA TA CA TA T- TA GTA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA
*
2247042 TA TA TA TA TA TA TA T- TA TA -A TA TA TA GTA TA TA TA -A TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
*
2247082 TCA TA T- TA TA -A TA GA TA T- TA TA T- TA TA
1 T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2247109 GTAGAATATA
Statistics
Matches: 82, Mismatches: 12, Indels: 26
0.68 0.10 0.22
Matches are distributed among these distances:
1 9 0.11
2 65 0.79
3 8 0.10
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2247010 original size:31 final size:31
Alignment explanation
Indices: 2246947--2247010 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
2246937 ATTGTATACA
* *
2246947 ATATTTTTATTATATATATATTATATCCTAT
1 ATATTTTTATTAAATATATATTATATCATAT
* *
2246978 ATATTTTTTTTAAATATGTAATTATAT-ATAT
1 ATATTTTTATTAAATATAT-ATTATATCATAT
2247009 AT
1 AT
2247011 GTATGTATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (31 bp):
ATATTTTTATTAAATATATATTATATCATAT
Found at i:2247064 original size:12 final size:11
Alignment explanation
Indices: 2246954--2247108 Score: 76
Period size: 12 Copynumber: 14.2 Consensus size: 11
2246944 ACAATATTTT
2246954 TATTATATATA
1 TATTATATATA
*
2246965 TATTATATCCTA
1 TATTATAT-ATA
*
2246977 TA-TAT-T-TT
1 TATTATATATA
* * *
2246985 TTTTAAATATG
1 TATTATATATA
2246996 TAATTATATATA
1 T-ATTATATATA
* *
2247008 TATGTATGTATG
1 TAT-TATATATA
*
2247020 TA-TAGTATACA
1 TATTA-TATATA
2247031 TATTAGTATA-A
1 TATTA-TATATA
2247042 TATATATATATA
1 TAT-TATATATA
2247054 TATTATAATATA
1 TATTAT-ATATA
*
2247066 TAGTATATATA
1 TATTATATATA
*
2247077 -ATT-TAT-CA
1 TATTATATATA
*
2247085 TATTATAATAGA
1 TATTAT-ATATA
2247097 TATTATAT-TA
1 TATTATATATA
2247107 TA
1 TA
2247109 GTAGAATATA
Statistics
Matches: 111, Mismatches: 18, Indels: 31
0.69 0.11 0.19
Matches are distributed among these distances:
8 3 0.03
9 8 0.07
10 10 0.09
11 40 0.36
12 50 0.45
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (11 bp):
TATTATATATA
Found at i:2247082 original size:23 final size:22
Alignment explanation
Indices: 2247002--2247087 Score: 77
Period size: 23 Copynumber: 3.8 Consensus size: 22
2246992 TATGTAATTA
* * *
2247002 TATATATATGTATGTATGTATAG
1 TATATATATTTAT-AATATATAG
*
2247025 TATACATATTAGTATAATATATA-
1 TATATATATT--TATAATATATAG
2247048 TATATATA-TTATAATATATAG
1 TATATATATTTATAATATATAG
*
2247069 TATATATAATTTATCATAT
1 TATATAT-ATTTATAATAT
2247088 TATAATAGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
20 11 0.21
21 7 0.13
22 2 0.04
23 23 0.44
24 6 0.12
25 3 0.06
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (22 bp):
TATATATATTTATAATATATAG
Found at i:2247088 original size:31 final size:31
Alignment explanation
Indices: 2247000--2247108 Score: 100
Period size: 31 Copynumber: 3.5 Consensus size: 31
2246990 AATATGTAAT
* * * *
2247000 TATATA-TATATGTATGTATGTATAGTATACA
1 TATATAGTATATATATATATATATATTATA-A
2247031 TAT-TAGTATAATATATATATATATATTATAA
1 TATATAGTAT-ATATATATATATATATTATAA
*
2247062 TATATAGTATATATA-ATTTATCATATTATAA
1 TATATAGTATATATATATATAT-ATATTATAA
* *
2247093 TAGATATTATAT-TATA
1 TATATAGTATATATATA
2247109 GTAGAATATA
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
30 9 0.14
31 35 0.53
32 22 0.33
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (31 bp):
TATATAGTATATATATATATATATATTATAA
Found at i:2247183 original size:33 final size:36
Alignment explanation
Indices: 2247145--2247245 Score: 154
Period size: 37 Copynumber: 2.9 Consensus size: 36
2247135 TTTCGTCCTA
2247145 CTAGGATTCAAACTCCT-AAAATATGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATATGATAGAATTTT
*
2247179 -TAGGATTCAAACTCCTAAAAATATGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATATGATAGAATTTT
*
2247214 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATATGATAGA
2247246 GTTCTACTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
33 16 0.27
34 13 0.22
35 3 0.05
37 28 0.47
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.30
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATATGATAGAATTTT
Found at i:2247692 original size:2 final size:2
Alignment explanation
Indices: 2247687--2247727 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2247677 TTAGTGTTAT
2247687 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2247728 TTCCTATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2247853 original size:16 final size:18
Alignment explanation
Indices: 2247832--2247866 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
2247822 TTTACTCATT
2247832 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
2247848 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
2247866 T
1 T
2247867 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:2251070 original size:16 final size:16
Alignment explanation
Indices: 2251044--2251094 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
2251034 AGATCCAATC
2251044 AAGAACAAAAAAG-AA
1 AAGAACAAAAAAGCAA
2251059 AAGAAGCAAAAAAGCAA
1 AAGAA-CAAAAAAGCAA
*
2251076 AA-AA-AAACAAAGAAA
1 AAGAACAAA-AAAGCAA
2251091 AAGA
1 AAGA
2251095 GAAACAAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 3 0.10
15 13 0.42
16 11 0.35
17 4 0.13
ACGTcount: A:0.78, C:0.08, G:0.14, T:0.00
Consensus pattern (16 bp):
AAGAACAAAAAAGCAA
Found at i:2251089 original size:41 final size:40
Alignment explanation
Indices: 2251044--2251140 Score: 96
Period size: 40 Copynumber: 2.4 Consensus size: 40
2251034 AGATCCAATC
2251044 AAGAACAAAAAAGAAAAGAAGCAAAA-AAGCAAAAAAAAACA
1 AAGAACAAAAAAGAAAAGAA-CAAAAGAAG-AAAAAAAAACA
* *
2251085 AAGAA-AAAGAGAA-ACAAGAACAAAAGAAGAAAAAAAAGCA
1 AAGAACAAA-A-AAGAAAAGAACAAAAGAAGAAAAAAAAACA
2251125 AA-AATC-AAAAAGAAAA
1 AAGAA-CAAAAAAGAAAA
2251141 AGGGACAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
38 2 0.04
39 6 0.13
40 22 0.47
41 15 0.32
42 2 0.04
ACGTcount: A:0.77, C:0.08, G:0.13, T:0.01
Consensus pattern (40 bp):
AAGAACAAAAAAGAAAAGAACAAAAGAAGAAAAAAAAACA
Found at i:2251112 original size:15 final size:15
Alignment explanation
Indices: 2251053--2251112 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
2251043 CAAGAACAAA
2251053 AAAGAAAAGAAGCAAA-
1 AAAGAAAA-AAG-AAAC
2251069 AAAGCAAAAAA-AAAC
1 AAAG-AAAAAAGAAAC
2251084 AAAGAAAAAGAGAAAC
1 AAAGAAAAA-AGAAAC
2251100 -AAGAACAAAAGAA
1 AAAGAA-AAAAGAA
2251113 GAAAAAAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
14 8 0.21
15 14 0.36
16 13 0.33
17 4 0.10
ACGTcount: A:0.77, C:0.08, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAGAAAC
Found at i:2251791 original size:22 final size:22
Alignment explanation
Indices: 2251766--2251814 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
2251756 CCATCAATCT
* *
2251766 TTTGAGCATCCAATGTCAAACC
1 TTTGAGCATCAAATGCCAAACC
2251788 TTTGAGCATCAAATGCCAAACC
1 TTTGAGCATCAAATGCCAAACC
2251810 TTTGA
1 TTTGA
2251815 CCAAACACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (22 bp):
TTTGAGCATCAAATGCCAAACC
Found at i:2252788 original size:36 final size:36
Alignment explanation
Indices: 2252745--2253026 Score: 312
Period size: 36 Copynumber: 8.0 Consensus size: 36
2252735 ACTAGAAGAG
2252745 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
2252781 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * *
2252817 TTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
2252853 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * * * *
2252889 ------ATAT-TTGA-ATATGTTTTCTTTGAAACAAA
1 TTTTGTCTCTCTTGAGACA-GTTTCCCTTGAAACAAA
** * ** * *
2252918 TTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAA
*
2252955 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
2252990 TTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTT-GTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
2253027 ACCTTTGAAT
Statistics
Matches: 205, Mismatches: 29, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
28 2 0.01
29 19 0.09
30 2 0.01
35 6 0.03
36 142 0.69
37 34 0.17
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:2252788 original size:71 final size:73
Alignment explanation
Indices: 2252703--2253026 Score: 239
Period size: 72 Copynumber: 4.6 Consensus size: 73
2252693 GGTTTTCTTA
* * * * * *
2252703 AAACAAGA-TTTGTCTCGCTTGAGACCGTTTTCACTAG-AA-GAGTTTTGTCTCTCTTGAGACAG
1 AAACAA-ATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAG
2252765 TTTCCCTTG
65 TTTCCCTTG
* *
2252774 AAACAAATTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
2252838 TTCCCTTG
66 TTCCCTTG
* * * * *
2252846 AAATAAATTTTGTCTCTCTTGAGACAG-TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACA-G
* *
2252902 TTTTCTTTG
65 TTTCCCTTG
** * ** * * * * *
2252911 AAACAAATTCCGTCTCCCTTGAGACAG-TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAAC-AAATTTCGTCTATCTTGAGACAG
*
2252975 TTTCTCTTG
65 TTTCCCTTG
* * *
2252984 AAAC-AATTTTCGTCTATCTTGAGACAG-TTTCCCTTGAAACAAA
1 AAACAAATTTT-GTCTCTCTTGAGACAGTTTTCACTAGAAACAAA
2253027 ACCTTTGAAT
Statistics
Matches: 203, Mismatches: 36, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
64 2 0.01
65 45 0.22
66 5 0.02
70 8 0.04
71 25 0.12
72 77 0.38
73 39 0.19
74 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (73 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
TTCCCTTG
Found at i:2252986 original size:102 final size:102
Alignment explanation
Indices: 2252801--2252989 Score: 290
Period size: 102 Copynumber: 1.9 Consensus size: 102
2252791 CTTGAGACAG
* *
2252801 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
1 TTTCTCTTGAAACAAATTCCGTCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
2252866 GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
66 GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
* ** * *
2252903 TTTCT-TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTCCGTCTACCTTGAGACAGTTTCCCTT-GAAATAAATTTTGTCTCTCT
*
2252967 TGAGACAGTTTCTCTTGAAACAA
65 TGAGACAGTTTCCCTTGAAACAA
2252990 TTTTCGTCTA
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 33 0.42
102 45 0.58
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (102 bp):
TTTCTCTTGAAACAAATTCCGTCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
Found at i:2253018 original size:138 final size:137
Alignment explanation
Indices: 2252765--2253089 Score: 445
Period size: 138 Copynumber: 2.4 Consensus size: 137
2252755 CTTGAGACAG
*
2252765 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
* *
2252830 GAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTT
66 GAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATTT
*
2252895 GAATATG
131 GAATATA
* * ** * * * * *
2252902 TTTTCTTTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATCT
* * *
2252967 TGAGACAGTTTCTCTTGAAA-CAATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACCT
65 TGAGACAGTTTCCCTTGAAATAAATTTT-GTCTATCTTGAGACAGTTTCCCTTGAAACAAAACAT
*
2253031 TTGAATTTA
129 TTGAATATA
* * *
2253040 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACA
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
2253090 CAAAATCTTC
Statistics
Matches: 160, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
137 49 0.31
138 111 0.69
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (137 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTT
GAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATTT
GAATATA
Found at i:2253088 original size:65 final size:65
Alignment explanation
Indices: 2252984--2253159 Score: 201
Period size: 67 Copynumber: 2.6 Consensus size: 65
2252974 GTTTCTCTTG
** * **
2252984 AAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACCTTTGAATTTATTTCCCCT
1 AAACAAATTTT-GTCTCCCTTGAGACAGTTTCTCTTGAAACAAAACCTTCAAATTTATTTCCCCT
2253048 A
65 A
* * *
2253049 AAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAACCTTCAAATTTATTTCCCC
2253114 TA
64 TA
* * *
2253116 AAACATAATTTTGTTTCCCCTTGAGACCGTTTCTCATGAAACAA
1 AAACA-AATTTTGTCT-CCCTTGAGACAGTTTCTCTTGAAACAA
2253160 CAGATATCTT
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
65 25 0.27
66 8 0.09
67 32 0.34
68 11 0.12
69 18 0.19
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (65 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAACCTTCAAATTTATTTCCCCTA
Found at i:2253119 original size:67 final size:67
Alignment explanation
Indices: 2252975--2253158 Score: 203
Period size: 65 Copynumber: 2.7 Consensus size: 67
2252965 CTTGAGACAG
* * ** * **
2252975 TTTCTCTTGAAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAACCTTTGAAT
1 TTTCCCTTAAAACAAATTTT-GTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAAT
2253037 TTA
65 TTA
* * *
2253040 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATT
1 TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATT
2253105 TA
66 TA
* * *
2253107 TTTCCCTTAAAACATAATTTTGTTTCCCCTTGAGACCGTTTCTCATGAAACA
1 TTTCCCTTAAAACA-AATTTTGTCT-CCCTTGAGACAGTTTCTCTTGAAACA
2253159 ACAGATATCT
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
65 31 0.31
66 8 0.08
67 28 0.28
68 9 0.09
69 23 0.23
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (67 bp):
TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATT
TA
Found at i:2253343 original size:29 final size:29
Alignment explanation
Indices: 2253310--2253376 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
2253300 GAATGTGCAC
* *
2253310 ATCAGATTTGAACATTTGAAGAATTCAAG-
1 ATCAGATTTCAAAATTTGAAG-ATTCAAGA
**
2253339 ATCAGAGATCAAAATTTGAAGATTCAAGA
1 ATCAGATTTCAAAATTTGAAGATTCAAGA
2253368 ATCAAGATT
1 ATC-AGATT
2253377 CCAGCAGGCA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 7 0.23
29 20 0.67
30 3 0.10
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.28
Consensus pattern (29 bp):
ATCAGATTTCAAAATTTGAAGATTCAAGA
Found at i:2253985 original size:105 final size:105
Alignment explanation
Indices: 2253801--2254737 Score: 1506
Period size: 105 Copynumber: 9.0 Consensus size: 105
2253791 GCACTCGAGG
* * ** *
2253801 CAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
* *
2253866 AGACAATTTTAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
2253907 CAACGCAATTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
2253972 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
2254012 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* * *
2254077 GCCAATTTCAACTTCACAATGAAGGATATTGGAGTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
2254117 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
2254182 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
2254222 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
2254287 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
2254327 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
2254392 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * *
2254432 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
2254497 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
2254537 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** *
2254597 TTCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * * * * ** *
2254637 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
* *
2254702 AGCCAATTTCAACTTCACGACGGAGGATATTGGACT
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACT
2254738 TGGAACAATG
Statistics
Matches: 786, Mismatches: 39, Indels: 12
0.94 0.05 0.01
Matches are distributed among these distances:
100 83 0.11
101 3 0.00
102 3 0.00
103 4 0.01
104 3 0.00
105 616 0.78
106 74 0.09
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Found at i:2255329 original size:34 final size:36
Alignment explanation
Indices: 2255285--2255386 Score: 163
Period size: 34 Copynumber: 2.9 Consensus size: 36
2255275 TTTCGTCCTA
*
2255285 CTAGGATTCAAACTCCTAAAAATATGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
2255320 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
2255355 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
2255387 GTTCTACTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
34 29 0.48
35 3 0.05
37 29 0.48
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:2255410 original size:37 final size:37
Alignment explanation
Indices: 2255282--2255420 Score: 158
Period size: 37 Copynumber: 3.8 Consensus size: 37
2255272 ATTTTTCGTC
* *
2255282 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
2255319 -T--TAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
2255353 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
** * * *
2255390 CTACTATTATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
2255421 CCACAAGCAC
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
34 31 0.35
35 1 0.01
36 1 0.01
37 55 0.62
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:2255981 original size:16 final size:18
Alignment explanation
Indices: 2255960--2255994 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
2255950 TTTACTCATT
2255960 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
2255976 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
2255994 T
1 T
2255995 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:2257256 original size:45 final size:42
Alignment explanation
Indices: 2257186--2257278 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 42
2257176 CGATTAAGAA
*
2257186 GAAAATATGCATCTCTAAGCACCTATAAAGCCACTGCAAAAACAT
1 GAAAATATGCATCTCCAAGCACCTATAAAG-CA--GCAAAAACAT
*
2257231 GAAAATATGCATCTCCAAGCGCCTATAAAGCAGCAAAAACAT
1 GAAAATATGCATCTCCAAGCACCTATAAAGCAGCAAAAACAT
2257273 GAAAAT
1 GAAAAT
2257279 GAGGTGAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 16 0.35
44 2 0.04
45 28 0.61
ACGTcount: A:0.46, C:0.23, G:0.13, T:0.18
Consensus pattern (42 bp):
GAAAATATGCATCTCCAAGCACCTATAAAGCAGCAAAAACAT
Found at i:2257490 original size:21 final size:21
Alignment explanation
Indices: 2257438--2257492 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
2257428 GAAATAAAAG
2257438 TTTAAGATTTATGATTTAAGA
1 TTTAAGATTTATGATTTAAGA
* *
2257459 -TTAAGGGTTTATGTTTTAAGA
1 TTTAA-GATTTATGATTTAAGA
*
2257480 TTTAAGCTTTATG
1 TTTAAGATTTATG
2257493 GTGGGATCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 4 0.14
21 21 0.72
22 4 0.14
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49
Consensus pattern (21 bp):
TTTAAGATTTATGATTTAAGA
Found at i:2260209 original size:4 final size:4
Alignment explanation
Indices: 2260200--2260230 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
2260190 TAAGAAGCTT
2260200 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA
2260231 GCTGGCCTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:2260267 original size:112 final size:115
Alignment explanation
Indices: 2260050--2260285 Score: 415
Period size: 112 Copynumber: 2.1 Consensus size: 115
2260040 CAAGGAACAC
* *
2260050 AAAATGGTAAAAAAATATGGAGAATAAGAAGCTTGAAAGATTGAAAGAAAGAAAGAAGGAAGGAA
1 AAAATGGTAAAAAAATATGGAGAATAAGAAGCTTGAAAGA-TGAAAGAAAGAAAGAAAGAAAGAA
*
2260115 GGAAGCTGGCCTGAGGAGGAGAAGACATGCTCAGAGTGAAGAGAGTTTGCG
65 AGAAGCTGGCCTGAGGAGGAGAAGACATGCTCAGAGTGAAGAGAGTTTGCG
2260166 AAAATGGTAAAAAAATATGGAGAATAAGAAGCTTG-AA-A-GAAAGAAAGAAAGAAAGAAAGAAA
1 AAAATGGTAAAAAAATATGGAGAATAAGAAGCTTGAAAGATGAAAGAAAGAAAGAAAGAAAGAAA
2260228 GAAGCTGGCCTGAGGAGGAGAAGACATGCTCAGAGTGAAGAGAGTTTGCG
66 GAAGCTGGCCTGAGGAGGAGAAGACATGCTCAGAGTGAAGAGAGTTTGCG
2260278 AAAATGGT
1 AAAATGGT
2260286 GCTGTGGACT
Statistics
Matches: 117, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
112 79 0.68
114 1 0.01
115 2 0.02
116 35 0.30
ACGTcount: A:0.47, C:0.07, G:0.31, T:0.14
Consensus pattern (115 bp):
AAAATGGTAAAAAAATATGGAGAATAAGAAGCTTGAAAGATGAAAGAAAGAAAGAAAGAAAGAAA
GAAGCTGGCCTGAGGAGGAGAAGACATGCTCAGAGTGAAGAGAGTTTGCG
Found at i:2260846 original size:16 final size:15
Alignment explanation
Indices: 2260814--2260856 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
2260804 AATCTTTAAA
2260814 TTAATTTTTAATAAT
1 TTAATTTTTAATAAT
*
2260829 TTAATTTTGTAGTAAT
1 TTAATTTT-TAATAAT
* *
2260845 TTTATATTTAAT
1 TTAATTTTTAAT
2260857 TTATTGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (15 bp):
TTAATTTTTAATAAT
Found at i:2263947 original size:36 final size:36
Alignment explanation
Indices: 2263897--2264034 Score: 222
Period size: 36 Copynumber: 3.8 Consensus size: 36
2263887 GAAGAAAAGG
* *
2263897 GTAATTTAGTGCAAAGATTACTGAAAGAAATTAAGT
1 GTAACTTAGTGCAAAGATTACAGAAAGAAATTAAGT
* *
2263933 GTAACTTAGCGCAAAGGTTACAGAAAGAAATTAAGT
1 GTAACTTAGTGCAAAGATTACAGAAAGAAATTAAGT
*
2263969 GGAACTTAGTGCAAAGATTACAGAAAGAAATTAAGT
1 GTAACTTAGTGCAAAGATTACAGAAAGAAATTAAGT
*
2264005 GTAACTTAGTGCAAAGATTACTGAAAGAAA
1 GTAACTTAGTGCAAAGATTACAGAAAGAAA
2264035 CTCATATGCA
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 93 1.00
ACGTcount: A:0.46, C:0.09, G:0.21, T:0.25
Consensus pattern (36 bp):
GTAACTTAGTGCAAAGATTACAGAAAGAAATTAAGT
Found at i:2269330 original size:32 final size:25
Alignment explanation
Indices: 2269273--2269373 Score: 202
Period size: 25 Copynumber: 4.0 Consensus size: 25
2269263 AAACTTAATG
2269273 TTAAGTTTTAAAAAAATTAAAAGTT
1 TTAAGTTTTAAAAAAATTAAAAGTT
2269298 TTAAGTTTTAAAAAAATTAAAAGTT
1 TTAAGTTTTAAAAAAATTAAAAGTT
2269323 TTAAGTTTTAAAAAAATTAAAAGTT
1 TTAAGTTTTAAAAAAATTAAAAGTT
2269348 TTAAGTTTTAAAAAAATTAAAAGTT
1 TTAAGTTTTAAAAAAATTAAAAGTT
2269373 T
1 T
2269374 AGGTACTGAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 76 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (25 bp):
TTAAGTTTTAAAAAAATTAAAAGTT
Found at i:2273106 original size:2 final size:2
Alignment explanation
Indices: 2273101--2273132 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2273091 TTGAGAGATG
2273101 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2273133 GGTTCCACGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2273402 original size:12 final size:12
Alignment explanation
Indices: 2273385--2273409 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2273375 AAGAATTGAT
2273385 AAGTTAAATTTG
1 AAGTTAAATTTG
2273397 AAGTTAAATTTG
1 AAGTTAAATTTG
2273409 A
1 A
2273410 CTTGTTATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
AAGTTAAATTTG
Found at i:2274283 original size:2 final size:2
Alignment explanation
Indices: 2274276--2274306 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2274266 TTTTGTATGA
2274276 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2274307 CTAGTGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2274718 original size:32 final size:32
Alignment explanation
Indices: 2274677--2274773 Score: 108
Period size: 32 Copynumber: 3.1 Consensus size: 32
2274667 CCAAAAGTCG
2274677 AGGATTACCTATGTCTTTCGAGACATATGGAC
1 AGGATTACCTATGTCTTTCGAGACATATGGAC
* * *
2274709 AGGATTACCTATTTCCTTCGAGATATATGGAC
1 AGGATTACCTATGTCTTTCGAGACATATGGAC
* * * *
2274741 A-GTTTACCTAGGTTCTTT-GGGACCTATGGAC
1 AGGATTACCTATG-TCTTTCGAGACATATGGAC
2274772 AG
1 AG
2274774 TTGTTGAGGT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
31 19 0.36
32 34 0.64
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (32 bp):
AGGATTACCTATGTCTTTCGAGACATATGGAC
Found at i:2276421 original size:43 final size:43
Alignment explanation
Indices: 2276313--2276523 Score: 176
Period size: 43 Copynumber: 4.9 Consensus size: 43
2276303 ATATTAATGG
* * * * ***
2276313 ACTCAACTTATTCTGTGATGGAATCTAGCGAAATGTTGATTTTG
1 ACTCAACTTCTTCTATGATGGAATCAAGCAAAATGTTGA-TGAA
* * * *
2276357 ACCCAAC-TCTCTGTGTGATGGAATCAAGCAAAATATTGATGAA
1 ACTCAACTTCT-TCTATGATGGAATCAAGCAAAATGTTGATGAA
* ** *
2276400 ACTCAACTTCTTATATGATGGAATTGAGCGAAATGTTGATGAA
1 ACTCAACTTCTTCTATGATGGAATCAAGCAAAATGTTGATGAA
* * * *
2276443 ACTCAAC-TCTTTCTGTGATAGAATCAAGCGAAATGCTGATGAA
1 ACTCAACTTC-TTCTATGATGGAATCAAGCAAAATGTTGATGAA
* *
2276486 ACTCAA-TTGTTTCTATGATGGAATCGAGCAAAATGTTG
1 ACTCAACTT-CTTCTATGATGGAATCAAGCAAAATGTTG
2276524 GTTCTAACCC
Statistics
Matches: 134, Mismatches: 28, Indels: 11
0.77 0.16 0.06
Matches are distributed among these distances:
42 2 0.01
43 99 0.74
44 33 0.25
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (43 bp):
ACTCAACTTCTTCTATGATGGAATCAAGCAAAATGTTGATGAA
Found at i:2276488 original size:86 final size:86
Alignment explanation
Indices: 2276313--2276564 Score: 267
Period size: 86 Copynumber: 2.9 Consensus size: 86
2276303 ATATTAATGG
* * * * * *
2276313 ACTCAACTTATTCTGTGATGGAATCT-AGCGAAATGTTGATTTTGACCCAACTCTCTGTGTGATG
1 ACTCAACTTATTCTATGATGGAAT-TGAGCGAAATGTTGA-TCTAACCCAACTCTTTCTGTGATA
* **
2276377 GAATCAAGCAAAATATTGATGAA
64 GAATCAAGCGAAATGCTGATGAA
* * ** *
2276400 ACTCAACTTCTTATATGATGGAATTGAGCGAAATGTTGATGAAACTCAACTCTTTCTGTGATAGA
1 ACTCAACTTATTCTATGATGGAATTGAGCGAAATGTTGATCTAACCCAACTCTTTCTGTGATAGA
2276465 ATCAAGCGAAATGCTGATGAA
66 ATCAAGCGAAATGCTGATGAA
* * * * *
2276486 ACTCAA-TTGTTTCTATGATGGAATCGAGCAAAATGTTGGTTCTAACCCAACTCTTTCTGTGA-C
1 ACTCAACTT-ATTCTATGATGGAATTGAGCGAAATGTT-GATCTAACCCAACTCTTTCTGTGATA
2276549 GAAATCAAGCGAAATG
64 G-AATCAAGCGAAATG
2276565 TTTATGCTGA
Statistics
Matches: 139, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
85 2 0.01
86 69 0.50
87 68 0.49
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (86 bp):
ACTCAACTTATTCTATGATGGAATTGAGCGAAATGTTGATCTAACCCAACTCTTTCTGTGATAGA
ATCAAGCGAAATGCTGATGAA
Found at i:2276566 original size:44 final size:42
Alignment explanation
Indices: 2276323--2276566 Score: 123
Period size: 43 Copynumber: 5.6 Consensus size: 42
2276313 ACTCAACTTA
* * ***
2276323 TTCTGTGATGGAATCTAGCGAAATGTTGATTTTGACCCAACTCT
1 TTCTGTGA-GAAATCAAGCGAAATGTTGA-TCAAACCCAACTCT
* * * * * * *
2276367 CTGTGTGATGGAATCAAGCAAAATATTGATGAAACTCAACTTCT
1 TTCTGTGA-GAAATCAAGCGAAATGTTGATCAAACCCAAC-TCT
* ** * *
2276411 TATATGATG-G-AATTGAGCGAAATGTTGATGAAACTCAACTCT
1 T-TCTG-TGAGAAATCAAGCGAAATGTTGATCAAACCCAACTCT
* * * * * *
2276453 TTCTGTGATAGAATCAAGCGAAATGCTGATGAAACTCAATTGT
1 TTCTGTGAGA-AATCAAGCGAAATGTTGATCAAACCCAACTCT
* * * * * *
2276496 TTCTATGATGGAATCGAGCAAAATGTTGGTTCTAACCCAACTCT
1 TTCTGTGA-GAAATCAAGCGAAATGTT-GATCAAACCCAACTCT
2276540 TTCTGTGACGAAATCAAGCGAAATGTT
1 TTCTGTGA-GAAATCAAGCGAAATGTT
2276567 TATGCTGATC
Statistics
Matches: 153, Mismatches: 39, Indels: 16
0.74 0.19 0.08
Matches are distributed among these distances:
40 2 0.01
41 3 0.02
42 4 0.03
43 79 0.52
44 60 0.39
45 3 0.02
46 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (42 bp):
TTCTGTGAGAAATCAAGCGAAATGTTGATCAAACCCAACTCT
Found at i:2277084 original size:52 final size:52
Alignment explanation
Indices: 2276944--2277086 Score: 216
Period size: 51 Copynumber: 2.8 Consensus size: 52
2276934 CCGAAGTATT
* * * *
2276944 TAATCATCAAGAAACCTTTGAAAATCAAACTTGGCTTTTCATATTGGTCAAG
1 TAATCATCAAGAAACCTCTGAAAATCAGACTTGGCTTTTTATATTGGTAAAG
* *
2276996 TAATCAT-AAAAAACCTCTGAAAATTAGACTTGGCTTTTTATATTGGTAAAG
1 TAATCATCAAGAAACCTCTGAAAATCAGACTTGGCTTTTTATATTGGTAAAG
*
2277047 TAATCATCAAGAAACCTCTCAAAATCAGACTTGGCTTTTT
1 TAATCATCAAGAAACCTCTGAAAATCAGACTTGGCTTTTT
2277087 TTAAGAATTC
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 45 0.56
52 36 0.44
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (52 bp):
TAATCATCAAGAAACCTCTGAAAATCAGACTTGGCTTTTTATATTGGTAAAG
Found at i:2280157 original size:19 final size:22
Alignment explanation
Indices: 2280133--2280186 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
2280123 TGTAAAAATG
*
2280133 GTATCGATACCGTA-TA-AG-A
1 GTATCGATACCATATTATAGTA
*
2280152 GTATCGGTACCATATTATAGTA
1 GTATCGATACCATATTATAGTA
2280174 GTATCGATACCAT
1 GTATCGATACCAT
2280187 GGTGGGGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 12 0.41
20 2 0.07
21 2 0.07
22 13 0.45
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (22 bp):
GTATCGATACCATATTATAGTA
Found at i:2280478 original size:15 final size:15
Alignment explanation
Indices: 2280458--2280489 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2280448 GTGCATGTAA
2280458 TTGTGTAACTATATG
1 TTGTGTAACTATATG
*
2280473 TTGTGTAATTATATG
1 TTGTGTAACTATATG
2280488 TT
1 TT
2280490 ATATTATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.53
Consensus pattern (15 bp):
TTGTGTAACTATATG
Found at i:2280626 original size:54 final size:54
Alignment explanation
Indices: 2280543--2280937 Score: 583
Period size: 54 Copynumber: 7.3 Consensus size: 54
2280533 TTACCAAATA
* *
2280543 GGCACTAAGTGTGCATTTCACGAAATTCATCATATATTGATGAATGACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCATATGTTGATGAATGACCGTTTC
* * * * *
2280597 AGCACTAAGAGTTCATTTCACGGAATTCATCATATGTTGATGAATGATCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCATATGTTGATGAATGACCGTTTC
*
2280651 GGCACTAAGTGTGCATTTCACGGAATTCATCATATGTTGATGAATGACTGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCATATGTTGATGAATGACCGTTTC
2280705 GGCACTAAGTGTGCATTTCACGGAATTCATCATATGTTGATGAATGACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCATATGTTGATGAATGACCGTTTC
** * * *
2280759 GATACTAAGTATGCATTTCACGAAATTCATCATATGTTGATGAATGATCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCATATGTTGATGAATGACCGTTTC
** * *
2280813 AACACGAAGTGTGCATTTCACCGAATTCATCATATGTTGATGAATGACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCATATGTTGATGAATGACCGTTTC
* * * *
2280867 GGCACTAAGTGTGCATTTCACCGAATTCATCATATGTTTATGAATGACCGTATG
1 GGCACTAAGTGTGCATTTCACGGAATTCATCATATGTTGATGAATGACCGTTTC
* *
2280921 GGCACTACGGGTGCATT
1 GGCACTAAGTGTGCATT
2280938 ATAAAGAAAT
Statistics
Matches: 307, Mismatches: 34, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 307 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACGGAATTCATCATATGTTGATGAATGACCGTTTC
Found at i:2281640 original size:10 final size:9
Alignment explanation
Indices: 2281618--2281654 Score: 56
Period size: 10 Copynumber: 3.9 Consensus size: 9
2281608 CTAAATAATC
2281618 AAATAAATA
1 AAATAAATA
2281627 AAATAAATTA
1 AAATAAA-TA
2281637 AAATAAATA
1 AAATAAATA
2281646 AATATAAAT
1 AA-ATAAAT
2281655 TTGAAAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 11 0.42
10 15 0.58
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
AAATAAATA
Found at i:2282184 original size:2 final size:2
Alignment explanation
Indices: 2282177--2282351 Score: 156
Period size: 2 Copynumber: 88.5 Consensus size: 2
2282167 TAGCTTCATT
*
2282177 TC TC TC TC TC TC TC TC TC TC TC TC TC TC -C TC TC TC TC CC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * * * * * * *
2282218 TC CC CC TC TC TC CC TC TC CC CC TC CC TC TC CC CC CC CC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * * * * * *
2282260 TC CC TC CC TC CC TC TC -C CC CC CC TC TC TC CC TC CC TC CC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2282301 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2282343 TC TC TC TC T
1 TC TC TC TC T
2282352 TTATTTCCAG
Statistics
Matches: 146, Mismatches: 25, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
1 2 0.01
2 144 0.99
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (2 bp):
TC
Found at i:2283342 original size:36 final size:37
Alignment explanation
Indices: 2283302--2283389 Score: 108
Period size: 38 Copynumber: 2.4 Consensus size: 37
2283292 TTATTATTTT
*
2283302 GGGTCGGGTCGGGTCGG-ATTTCTAATTCAT-ATATTC
1 GGGTCGGGTCGGGTCGGTATTTCTAAGT-ATGATATTC
* * *
2283338 GGGTCGGGTCGGGTCGGTTTTTTTTAAGTGTGATATTC
1 GGGTCGGGTCGGGTCGG-TATTTCTAAGTATGATATTC
2283376 GGGTCGGGTCGGGT
1 GGGTCGGGTCGGGT
2283390 TCGGGTTTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
36 17 0.38
37 1 0.02
38 27 0.60
ACGTcount: A:0.11, C:0.14, G:0.39, T:0.36
Consensus pattern (37 bp):
GGGTCGGGTCGGGTCGGTATTTCTAAGTATGATATTC
Found at i:2283590 original size:248 final size:236
Alignment explanation
Indices: 2283100--2283595 Score: 744
Period size: 245 Copynumber: 2.1 Consensus size: 236
2283090 ACTTTATTTT
2283100 GGTCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCAAGTTTAGGGTGA
1 GGTCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCAAGTTTAGGGTGA
* * *
2283165 AAAATACTCGACCCTAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATAC
66 AAAATACCCGACCCAAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATAC
* * * * *
2283230 CCCTTTATATATAATTTTTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTTA
131 CCCTTTATATATAATATTTTTTCCAATTAAGTAACTATTTTTATTGAATAAAAATAAATTTTTTA
2283295 TTATTTTGGGTCGGGTCGGGTCGGATTTCTAATTCATATATTCG
196 TTA-TTT--GTCGGGTCGGGTCGGATTTCTAATTCATATATTCG
* **
2283339 GGTCGGGTCGGGTCGGTTTTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCGGGTTTAGGGTG
1 GGTCGGGTCGGGTCGG-TTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCAAGTTTAGGGTG
*
2283404 AAAAATACCCGACCCGACCCAAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAT
65 AAAAAT-----ACCCGACCCAAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAA
*
2283469 TAATACCCCTCTCTATATATATATATTTTTTCCAATTAAGTAATTATTTTTATTGAATAAAAATA
125 TAATACCCCT-T-TATATATA-ATATTTTTTCCAATTAAGTAACTATTTTTATTGAATAAAAATA
*
2283534 AATTTTTTATTA-TT-TCGGGTCGGGTCGGGTTTCTAATTCATATATTCG
187 AATTTTTTATTATTTGTCGGGTCGGGTCGGATTTCTAATTCATATATTCG
2283582 GGTCGGGTCGGGTC
1 GGTCGGGTCGGGTC
2283596 TCGGATGGAG
Statistics
Matches: 234, Mismatches: 14, Indels: 14
0.89 0.05 0.05
Matches are distributed among these distances:
239 16 0.07
240 51 0.22
243 47 0.20
245 60 0.26
246 3 0.01
247 8 0.03
248 49 0.21
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (236 bp):
GGTCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCAAGTTTAGGGTGA
AAAATACCCGACCCAAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATAC
CCCTTTATATATAATATTTTTTCCAATTAAGTAACTATTTTTATTGAATAAAAATAAATTTTTTA
TTATTTGTCGGGTCGGGTCGGATTTCTAATTCATATATTCG
Found at i:2284006 original size:18 final size:18
Alignment explanation
Indices: 2283961--2284024 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
2283951 ATAGAATTGG
* *
2283961 ATTCCAATTCC-TGACAG
1 ATTCCAATTCCTTCACAA
*
2283978 ATTCTAATTCCTTCACAA
1 ATTCCAATTCCTTCACAA
* *
2283996 ATTTCAATTCCTTCATAA
1 ATTCCAATTCCTTCACAA
2284014 ATTCCAATTCC
1 ATTCCAATTCC
2284025 CTCATAAACG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
17 10 0.26
18 29 0.74
ACGTcount: A:0.31, C:0.28, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTCCAATTCCTTCACAA
Found at i:2284029 original size:18 final size:18
Alignment explanation
Indices: 2283978--2284032 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
2283968 TTCCTGACAG
* *
2283978 ATTCTAATTCCTTCACAA
1 ATTCCAATTCCTTCATAA
*
2283996 ATTTCAATTCCTTCATAA
1 ATTCCAATTCCTTCATAA
*
2284014 ATTCCAATTCCCTCATAA
1 ATTCCAATTCCTTCATAA
2284032 A
1 A
2284033 CGTTCCAACG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.35, C:0.27, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTCCAATTCCTTCATAA
Found at i:2286411 original size:11 final size:12
Alignment explanation
Indices: 2286391--2286423 Score: 52
Period size: 10 Copynumber: 2.9 Consensus size: 12
2286381 TTTGTTTACT
2286391 TTATTTATTTTC
1 TTATTTATTTTC
2286403 TTA-TTA-TTTC
1 TTATTTATTTTC
2286413 TTATTTATTTT
1 TTATTTATTTT
2286424 TATTATTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.37
11 6 0.32
12 6 0.32
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATTTATTTTC
Found at i:2286416 original size:22 final size:20
Alignment explanation
Indices: 2286391--2286430 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2286381 TTTGTTTACT
2286391 TTATTTATTTTCTTATTATTTC
1 TTATTTA-TTT-TTATTATTTC
2286413 TTATTTATTTTTATTATT
1 TTATTTATTTTTATTATT
2286431 GTATCACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 7 0.39
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (20 bp):
TTATTTATTTTTATTATTTC
Found at i:2289281 original size:25 final size:24
Alignment explanation
Indices: 2289236--2289283 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 24
2289226 CATTTTACTA
2289236 TTATTTATTTATTTATTTATTTTGG
1 TTATTTATTTATTTA-TTATTTTGG
2289261 TTATTTATTTTTATTTA-TATTTT
1 TTATTTA--TTTATTTATTATTTT
2289284 AAGGTACACC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 13 0.62
27 8 0.38
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (24 bp):
TTATTTATTTATTTATTATTTTGG
Found at i:2289283 original size:12 final size:11
Alignment explanation
Indices: 2289236--2289284 Score: 55
Period size: 12 Copynumber: 4.3 Consensus size: 11
2289226 CATTTTACTA
2289236 TTATTTATTTAT
1 TTATTTATTT-T
2289248 TTATTTATTTT
1 TTATTTATTTT
2289259 GGTTATTTA-TTT
1 --TTATTTATTTT
*
2289271 TTATTTATATT
1 TTATTTATTTT
2289282 TTA
1 TTA
2289285 AGGTACACCA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
10 7 0.21
11 6 0.18
12 13 0.39
13 7 0.21
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (11 bp):
TTATTTATTTT
Found at i:2289553 original size:21 final size:23
Alignment explanation
Indices: 2289519--2289568 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
2289509 TTTTGGTATG
* *
2289519 TTGTAGTTCGAATATGTT-AATT
1 TTGTTGTTCGAATATATTGAATT
*
2289541 TTGTTGTT-GAATATATTGAGTT
1 TTGTTGTTCGAATATATTGAATT
2289563 TTGTTG
1 TTGTTG
2289569 AATATCTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.22, C:0.02, G:0.22, T:0.54
Consensus pattern (23 bp):
TTGTTGTTCGAATATATTGAATT
Found at i:2294475 original size:13 final size:13
Alignment explanation
Indices: 2294453--2294509 Score: 60
Period size: 13 Copynumber: 4.0 Consensus size: 13
2294443 TTTCTTTCAA
2294453 CTTTATTTTTCTTT
1 CTTTA-TTTTCTTT
2294467 CTTTATTTTCTTT
1 CTTTATTTTCTTT
2294480 CTTTCATTATTTTCTTT
1 C--T--TTATTTTCTTT
*
2294497 CATTATTTTCTTT
1 CTTTATTTTCTTT
2294510 TCACAATGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
13 20 0.53
14 5 0.13
15 1 0.03
17 12 0.32
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (13 bp):
CTTTATTTTCTTT
Found at i:2294476 original size:30 final size:30
Alignment explanation
Indices: 2294442--2294509 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
2294432 GAAGTTCTAC
* *
2294442 TTTTCTTTC-AACTTTATTTTTCTTTCTTTA
1 TTTTCTTTCTAACATTA-TTTTCTTTCATTA
**
2294472 TTTTCTTTCTTTCATTATTTTCTTTCATTA
1 TTTTCTTTCTAACATTATTTTCTTTCATTA
2294502 TTTTCTTT
1 TTTTCTTT
2294510 TCACAATGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 29 0.88
31 4 0.12
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (30 bp):
TTTTCTTTCTAACATTATTTTCTTTCATTA
Found at i:2294480 original size:17 final size:17
Alignment explanation
Indices: 2294460--2294497 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
2294450 CAACTTTATT
*
2294460 TTTCTTTCTTTATTTTC
1 TTTCTTTCATTATTTTC
2294477 TTTCTTTCATTATTTTC
1 TTTCTTTCATTATTTTC
2294494 TTTC
1 TTTC
2294498 ATTATTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTTCATTATTTTC
Found at i:2295677 original size:26 final size:26
Alignment explanation
Indices: 2295644--2295722 Score: 135
Period size: 26 Copynumber: 3.1 Consensus size: 26
2295634 TTTCTTCTCT
2295644 TAAAATTTTATAAGTTCACTTTCCTC
1 TAAAATTTTATAAGTTCACTTTCCTC
2295670 TAAAATTTTATAAGTTCACTTTCCTC
1 TAAAATTTTATAAGTTCACTTTCCTC
*
2295696 TAAAATTTTATTAGTTCA--TTCCTC
1 TAAAATTTTATAAGTTCACTTTCCTC
2295720 TAA
1 TAA
2295723 CATAAAATTA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
24 9 0.17
26 43 0.83
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.47
Consensus pattern (26 bp):
TAAAATTTTATAAGTTCACTTTCCTC
Found at i:2300883 original size:22 final size:22
Alignment explanation
Indices: 2300856--2300901 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
2300846 TGCATAGTAT
2300856 TATAAATTATCATTGTATTAAA
1 TATAAATTATCATTGTATTAAA
* * *
2300878 TATAAATTATTATTTTATTTAA
1 TATAAATTATCATTGTATTAAA
2300900 TA
1 TA
2300902 ACTAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
TATAAATTATCATTGTATTAAA
Found at i:2306148 original size:14 final size:14
Alignment explanation
Indices: 2306129--2306158 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2306119 GAACTAATTC
2306129 GGTTAATTCGGTCG
1 GGTTAATTCGGTCG
2306143 GGTTAATTCGGTCG
1 GGTTAATTCGGTCG
2306157 GG
1 GG
2306159 GAACGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.40, T:0.33
Consensus pattern (14 bp):
GGTTAATTCGGTCG
Found at i:2306763 original size:28 final size:30
Alignment explanation
Indices: 2306708--2306765 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
2306698 TAATATTTTC
*
2306708 GAAAAAAAGTTCGGTTCAATTAACGGTTAAA
1 GAAAAAAAGTTCAGTTCAATT-ACGGTTAAA
*
2306739 GAAAAAAAGTTTAGTT-AATT-CGGTTAA
1 GAAAAAAAGTTCAGTTCAATTACGGTTAA
2306766 TGGTAGTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.28
30 4 0.16
31 14 0.56
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.29
Consensus pattern (30 bp):
GAAAAAAAGTTCAGTTCAATTACGGTTAAA
Found at i:2307014 original size:23 final size:24
Alignment explanation
Indices: 2306983--2307042 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 24
2306973 TAAACTACCA
*
2306983 AAAGTCAGAGAA-AAACATGTCAC
1 AAAGACAGAGAATAAACATGTCAC
** *
2307006 AAAGACAGA-AATAAATGTGTCAT
1 AAAGACAGAGAATAAACATGTCAC
*
2307029 AAAGAGAGAGAATA
1 AAAGACAGAGAATA
2307043 TGTCACAAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 2 0.07
23 24 0.80
24 4 0.13
ACGTcount: A:0.55, C:0.10, G:0.20, T:0.15
Consensus pattern (24 bp):
AAAGACAGAGAATAAACATGTCAC
Found at i:2307023 original size:21 final size:21
Alignment explanation
Indices: 2306991--2307053 Score: 51
Period size: 23 Copynumber: 3.0 Consensus size: 21
2306981 CAAAAGTCAG
2306991 AGAAA-AACATGTCACAAAGAC
1 AGAAATAA-ATGTCACAAAGAC
* *
2307012 AGAAATAAATGTGTCATAAAGAG
1 AGAAATAAA--TGTCACAAAGAC
2307035 AGAGAAT--ATGTCACAAAGA
1 AGA-AATAAATGTCACAAAGA
2307054 TATAATTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
20 10 0.29
21 6 0.17
22 3 0.09
23 13 0.37
24 3 0.09
ACGTcount: A:0.54, C:0.11, G:0.19, T:0.16
Consensus pattern (21 bp):
AGAAATAAATGTCACAAAGAC
Found at i:2307329 original size:3 final size:3
Alignment explanation
Indices: 2307323--2307354 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
2307313 CTACTACTAC
2307323 TAT TAT TAT TAT TAT TAT TAT TAT TAT GTAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT T
2307355 CATAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2313021 original size:22 final size:20
Alignment explanation
Indices: 2312972--2313023 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
2312962 GAAAAGGGCT
*
2312972 AGTATCGATACTCTAGTGTG
1 AGTATCGATACTCTAATGTG
2312992 AGTATCGATACTTCTAATATGTG
1 AGTATCGATAC-TCT-A-ATGTG
2313015 -GTATCGATA
1 AGTATCGATA
2313024 TTTTCCTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 11 0.39
21 3 0.11
22 10 0.36
23 4 0.14
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (20 bp):
AGTATCGATACTCTAATGTG
Found at i:2328714 original size:16 final size:15
Alignment explanation
Indices: 2328693--2328735 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
2328683 AATTTTTGTG
2328693 TTTCCTTTTTATTATA
1 TTTCCTTTTTATT-TA
*
2328709 TTTCCTTATGTATTTA
1 TTTCCTT-TTTATTTA
2328725 TTTCCTTTTTA
1 TTTCCTTTTTA
2328736 AATAATTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 3 0.12
16 16 0.67
17 5 0.21
ACGTcount: A:0.16, C:0.14, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTCCTTTTTATTTA
Found at i:2332355 original size:21 final size:21
Alignment explanation
Indices: 2332317--2332356 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2332307 TAAGGTAAAA
*
2332317 TTATTTTTTACTATATTATAT
1 TTATTTTATACTATATTATAT
2332338 TTATTTTATA-TATGATTAT
1 TTATTTTATACTAT-ATTAT
2332357 TTGAAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (21 bp):
TTATTTTATACTATATTATAT
Found at i:2339414 original size:21 final size:21
Alignment explanation
Indices: 2339362--2339419 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
2339352 ACTACAGTGT
*
2339362 CATATGAAATGGTTGT-GTGC
1 CATATGAAATGGTTGTGGTAC
* *
2339382 CATATGATATGGCTGTGGTAC
1 CATATGAAATGGTTGTGGTAC
*
2339403 CATCTGAAATGGTTGTG
1 CATATGAAATGGTTGTG
2339420 CAATGTACAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.34
Consensus pattern (21 bp):
CATATGAAATGGTTGTGGTAC
Found at i:2340177 original size:21 final size:21
Alignment explanation
Indices: 2340151--2340197 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
2340141 TCTATTAAGT
*
2340151 GAAATAAATTTTATT-ATATAC
1 GAAATAAA-ATTATTAATATAC
*
2340172 TAAATAAAATTATTAATATAC
1 GAAATAAAATTATTAATATAC
2340193 GAAAT
1 GAAAT
2340198 CAGTATTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (21 bp):
GAAATAAAATTATTAATATAC
Found at i:2341095 original size:13 final size:13
Alignment explanation
Indices: 2341077--2341103 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2341067 TTATAACTGT
2341077 AAAAATTAATAAA
1 AAAAATTAATAAA
2341090 AAAAATTAATAAA
1 AAAAATTAATAAA
2341103 A
1 A
2341104 TAATAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAATTAATAAA
Found at i:2341728 original size:183 final size:183
Alignment explanation
Indices: 2341420--2341785 Score: 732
Period size: 183 Copynumber: 2.0 Consensus size: 183
2341410 TACGTGACAC
2341420 CAACTCGAACAAGACACCTTTCATGACGTGATGTAAATTCGGACGAAATCCCAAAAAACGTAACA
1 CAACTCGAACAAGACACCTTTCATGACGTGATGTAAATTCGGACGAAATCCCAAAAAACGTAACA
2341485 AAAAAGATGCTAGATCAATAAAATTAAGATAAAGAATTCTGACATATAATTATTTCCTGTCAGGT
66 AAAAAGATGCTAGATCAATAAAATTAAGATAAAGAATTCTGACATATAATTATTTCCTGTCAGGT
2341550 GTAATATTTCGGTAAAATCGACTGAAAACTTGATATATAAAATTAACAATGAT
131 GTAATATTTCGGTAAAATCGACTGAAAACTTGATATATAAAATTAACAATGAT
2341603 CAACTCGAACAAGACACCTTTCATGACGTGATGTAAATTCGGACGAAATCCCAAAAAACGTAACA
1 CAACTCGAACAAGACACCTTTCATGACGTGATGTAAATTCGGACGAAATCCCAAAAAACGTAACA
2341668 AAAAAGATGCTAGATCAATAAAATTAAGATAAAGAATTCTGACATATAATTATTTCCTGTCAGGT
66 AAAAAGATGCTAGATCAATAAAATTAAGATAAAGAATTCTGACATATAATTATTTCCTGTCAGGT
2341733 GTAATATTTCGGTAAAATCGACTGAAAACTTGATATATAAAATTAACAATGAT
131 GTAATATTTCGGTAAAATCGACTGAAAACTTGATATATAAAATTAACAATGAT
2341786 TGGTGCTTTG
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
183 183 1.00
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (183 bp):
CAACTCGAACAAGACACCTTTCATGACGTGATGTAAATTCGGACGAAATCCCAAAAAACGTAACA
AAAAAGATGCTAGATCAATAAAATTAAGATAAAGAATTCTGACATATAATTATTTCCTGTCAGGT
GTAATATTTCGGTAAAATCGACTGAAAACTTGATATATAAAATTAACAATGAT
Found at i:2345918 original size:20 final size:20
Alignment explanation
Indices: 2345893--2345938 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
2345883 AATAAGTCAA
* *
2345893 TAGTATCGCTACCCATAGGT
1 TAGTATCGATACCCAGAGGT
*
2345913 TAGTATTGATACCCAGAGGT
1 TAGTATCGATACCCAGAGGT
*
2345933 CAGTAT
1 TAGTAT
2345939 TATGACGGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (20 bp):
TAGTATCGATACCCAGAGGT
Found at i:2345939 original size:20 final size:20
Alignment explanation
Indices: 2345902--2345939 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2345892 ATAGTATCGC
* *
2345902 TACCCATAGGTTAGTATTGA
1 TACCCAGAGGTCAGTATTGA
2345922 TACCCAGAGGTCAGTATT
1 TACCCAGAGGTCAGTATT
2345940 ATGACGGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (20 bp):
TACCCAGAGGTCAGTATTGA
Found at i:2346681 original size:19 final size:19
Alignment explanation
Indices: 2346657--2346813 Score: 156
Period size: 19 Copynumber: 8.3 Consensus size: 19
2346647 TAAATAAGAG
*
2346657 TTTTAGGTTGGAAACTTGA
1 TTTTAGGTTGGAAACCTGA
* *
2346676 TTTTAGTTTGGAAAACATG-
1 TTTTAGGTTGG-AAACCTGA
*
2346695 TTTTAGGTTGAAAACCTGA
1 TTTTAGGTTGGAAACCTGA
* * *
2346714 TTTTAGGTTAGATACCTTA
1 TTTTAGGTTGGAAACCTGA
* * * *
2346733 TTTTAGTTTGG-AATCAGG
1 TTTTAGGTTGGAAACCTGA
*
2346751 TTTTAGGCTGGAAACCTGA
1 TTTTAGGTTGGAAACCTGA
*
2346770 TTTTGGGTTGGAAACCTGA
1 TTTTAGGTTGGAAACCTGA
* *
2346789 TTTTAAGTTGGAAACTTGA
1 TTTTAGGTTGGAAACCTGA
2346808 TTTTAG
1 TTTTAG
2346814 TAAGGATTAG
Statistics
Matches: 108, Mismatches: 27, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
18 17 0.16
19 85 0.79
20 6 0.06
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.41
Consensus pattern (19 bp):
TTTTAGGTTGGAAACCTGA
Found at i:2346792 original size:56 final size:56
Alignment explanation
Indices: 2346657--2346803 Score: 188
Period size: 56 Copynumber: 2.6 Consensus size: 56
2346647 TAAATAAGAG
* * *
2346657 TTTTAGGTTGGAAACTTGATTTTAGTTTGGAAAACATGTTTTAGGTTGAAAACCTGA
1 TTTTAGGTTGGAAACCTGATTTTAGTTTGG-AAACAGGTTTTAGGCTGAAAACCTGA
* * * * *
2346714 TTTTAGGTTAGATACCTTATTTTAGTTTGGAATCAGGTTTTAGGCTGGAAACCTGA
1 TTTTAGGTTGGAAACCTGATTTTAGTTTGGAAACAGGTTTTAGGCTGAAAACCTGA
*
2346770 TTTTGGGTTGGAAACCTGATTTTAAG-TTGGAAAC
1 TTTTAGGTTGGAAACCTGATTTT-AGTTTGGAAAC
2346804 TTGATTTTAG
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
56 48 0.63
57 28 0.37
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.40
Consensus pattern (56 bp):
TTTTAGGTTGGAAACCTGATTTTAGTTTGGAAACAGGTTTTAGGCTGAAAACCTGA
Found at i:2346924 original size:68 final size:68
Alignment explanation
Indices: 2346815--2346941 Score: 182
Period size: 68 Copynumber: 1.9 Consensus size: 68
2346805 TGATTTTAGT
* * * * *
2346815 AAGGATTAGAGGGACTTACACGGGAGCACCTAATTATATTATTCTAGGTGACTCACACGAGAGAC
1 AAGGATTAGAAGGACTCACACGAGAGCACCTAATCATATTATTCTAGGTAACTCACACGAGAGAC
2346880 TCG
66 TCG
* * *
2346883 AAGGATTAGAATGACTCGCACGAGAGCATCTAATCATATTATTCTAGGTAACTCACACG
1 AAGGATTAGAAGGACTCACACGAGAGCACCTAATCATATTATTCTAGGTAACTCACACG
2346942 GGAGCATCTA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 51 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (68 bp):
AAGGATTAGAAGGACTCACACGAGAGCACCTAATCATATTATTCTAGGTAACTCACACGAGAGAC
TCG
Done.