Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009645.1 Hibiscus syriacus cultivar Beakdansim tig00117063_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: 1081801
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:849305 original size:23 final size:23
Alignment explanation
Indices: 849275--849337 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
849265 ACTTTACAAC
849275 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
849298 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
849321 TACCTATTACATCATAT
1 TACCTATTACATTATAT
849338 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:849804 original size:23 final size:23
Alignment explanation
Indices: 849751--849813 Score: 101
Period size: 22 Copynumber: 2.8 Consensus size: 23
849741 ACACTTACAA
849751 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATAAACG
*
849774 -TACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAACG
*
849796 CTACCTATTACATCATAT
1 CTACCTATTACATTATAT
849814 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 21 0.57
23 16 0.43
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.37
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:850068 original size:477 final size:482
Alignment explanation
Indices: 848871--853171 Score: 7731
Period size: 478 Copynumber: 9.0 Consensus size: 482
848861 TTATAATATG
* *
848871 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
* * *
848936 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
849001 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
* *
849066 TAACCAAAGATAATAATAAATATGTAATATATATTTTTATTATTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
849131 ATCCTAACGTAAAAAATAAATCATTAGACGCCTA-AATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
849195 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAATGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
849260 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
849325 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
* *
849352 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACATTTTTTTTTAAAGTTATGTAATATATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACA-CTTTTTTTAAAGTTATGTAATTTATGT
849417 TTCAA-TTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
849481 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAA-AATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
*
849545 TTAACCAAAGATAATAATAAATA-GT-A-ATATATGTTTATTATTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
849607 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
* * * *
849672 TTAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGTATACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
849737 ATAGACAC-TTACAACTACCTATTACATTATATAAACG-TACCTATTACATTATATAAGCGCTAC
390 ATAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
849800 CTATTACATCATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
849828 TTGAAAGTGTCCATACTTTTTAT-AAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
849892 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
849957 CAAAAAATTATTTGATTGTTTTGATA-TTTAT-AAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
850020 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
* *
850085 ATCGTAACGTAAAATATAAATCATTAGACGACTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
850150 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTAT-AAAATGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
850214 TAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
850279 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
850306 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACAC-TTTTTTTAAAGTTATGTAATTTATGT
850371 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
*
850436 ACAAAAAATTATTTGATTGTTTTAATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
*
850501 TTAACCAAAGATAATAATAAATATGTAATATATAT-TTTATTTATTTTAATAATTAATAATAATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTA-TTGTTTT--TAATT--TAATAATA
850565 TATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAA
255 -ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAA
850630 ACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATA
319 ACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATA
850695 AAAAGGATAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAG
384 AAAAGGATAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAG
850760 CGCTACCTATTACATCATATTTTTACCTATTATA
449 CGCTACCTATTACATCATATTTTTACCTATTATA
*
850794 TTGAAAGTGTCGATACTTTTTATAAAAAGGATCGACACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACAC-TTTTTTTAAAGTTATGTAATTTATGT
850859 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
*
850924 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAAT-AT-TTT-GAATTTAAATTTAACAACA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
850986 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAAT-A-ATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
851049 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
*
851114 TCAAAAGATAACCTTAAATTAATGTTTTACACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
851179 ATAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
390 ATAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
851244 CTATTACATCATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
*
851272 TTGAAAGTGTCGATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
851337 TCAA-TTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
851401 CAAAAAATTATTTGATTGTTTTGATCTTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
851466 TAACCAAAGATAATAATAAATA--T-ATATATATATTTATTGTTTTTAA--T-ATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
851525 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
851590 CAAAAGATAACCTTAAATTAATGTTTTCCACAATG-AAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
* *
851654 TAAATACTTTACAACTACCTATTACATTATAT-AACGATACCTATTACA-T-TATAAGCGCTACC
391 TAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
*
851716 TATTATATCATA-TTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
*
851742 TTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTCATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
* *
851806 TCAATTTTTTTTAATAGTATTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* *
851871 C-AAAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAAC-ATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
851933 TAACCAAAG---ATAAT-AATATGTAATATATATGTTTATTGTTTTTAATTTAATAAT-A-ATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
851992 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
852057 C-AAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACAC-TTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
852120 TAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
852185 TATTACATCATA-TTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
852211 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
852276 TCAA-TTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
852340 CAAAAAATTATTTGATTGTTTTGATA-TTTATAAAATAATATTTTGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
852404 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAA-TT--TAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
852466 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT-AATTAATATATTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
852530 CAAAAGATAACCTTAAATTAATGTTTTACACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
852595 TAGACACTTTAC-A--A-CTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
852656 TATTACATC--ATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
852681 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACAC-TTTTTTTAAAGTTATGTAATTTATGT
852746 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
852811 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
* * *
852876 TTAACCAAAGATAATAATAAATATATAATATATATATTTATTGTTTTTAATATAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
852941 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
853006 TCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
*
853071 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
390 ATAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
*
853136 CTATTATATCATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
853164 TTGAAAGT
1 TTGAAAGT
853172 CATGTTTTCC
Statistics
Matches: 3689, Mismatches: 68, Indels: 124
0.95 0.02 0.03
Matches are distributed among these distances:
463 4 0.00
464 5 0.00
465 1 0.00
466 98 0.03
467 114 0.03
468 42 0.01
469 185 0.05
470 237 0.06
471 131 0.04
472 92 0.02
473 131 0.04
474 249 0.07
475 260 0.07
476 262 0.07
477 409 0.11
478 441 0.12
479 58 0.02
480 168 0.05
481 200 0.05
482 102 0.03
483 29 0.01
484 5 0.00
485 59 0.02
486 15 0.00
487 128 0.03
488 264 0.07
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (482 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
TAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
TATTACATCATATTTTTACCTATTATA
Found at i:850259 original size:23 final size:23
Alignment explanation
Indices: 850229--850291 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
850219 ACTTTACAAC
850229 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
850252 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
850275 TACCTATTACATCATAT
1 TACCTATTACATTATAT
850292 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:850747 original size:23 final size:23
Alignment explanation
Indices: 850717--850779 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
850707 ACTTTACAAC
850717 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
850740 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
850763 TACCTATTACATCATAT
1 TACCTATTACATTATAT
850780 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:851225 original size:23 final size:23
Alignment explanation
Indices: 851195--851257 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
851185 ACTTTACAAC
851195 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
851218 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
851241 TACCTATTACATCATAT
1 TACCTATTACATTATAT
851258 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:851717 original size:21 final size:22
Alignment explanation
Indices: 851668--851720 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
851658 TACTTTACAA
851668 CTACCTATTACATTATATAACG
1 CTACCTATTACATTATATAACG
* *
851690 ATACCTATTACATTATA-AGCG
1 CTACCTATTACATTATATAACG
851711 CTACCTATTA
1 CTACCTATTA
851721 TATCATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.36
Consensus pattern (22 bp):
CTACCTATTACATTATATAACG
Found at i:852117 original size:20 final size:20
Alignment explanation
Indices: 852092--852130 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
852082 TCCACAATGA
* *
852092 AAAAAGTATGGACACTTTAT
1 AAAAAGGATAGACACTTTAT
852112 AAAAAGGATAGACACTTTA
1 AAAAAGGATAGACACTTTA
852131 CAACTACCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:852165 original size:23 final size:23
Alignment explanation
Indices: 852135--852197 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
852125 ACTTTACAAC
852135 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
852158 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
852181 TACCTATTACATCATAT
1 TACCTATTACATTATAT
852198 TTTACCTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:852639 original size:23 final size:23
Alignment explanation
Indices: 852609--852663 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
852599 CACTTTACAA
852609 CTATTACATTATATAAACGATAC
1 CTATTACATTATATAAACGATAC
* *
852632 CTATTACATTATATAAGCGCTAC
1 CTATTACATTATATAAACGATAC
852655 CTATTACAT
1 CTATTACAT
852664 CATTTTTACC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.36
Consensus pattern (23 bp):
CTATTACATTATATAAACGATAC
Found at i:853149 original size:23 final size:23
Alignment explanation
Indices: 853086--853141 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
853076 TACTTTACAA
853086 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATAAACG
* *
853109 ATACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAACG
853132 CTACCTATTA
1 CTACCTATTA
853142 TATCATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:853568 original size:228 final size:229
Alignment explanation
Indices: 853171--853811 Score: 1187
Period size: 228 Copynumber: 2.8 Consensus size: 229
853161 ATATTGAAAG
*
853171 TCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTATTT
1 TCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTTTTT
853236 GATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATA
66 GATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATA
853301 TGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTA
131 TGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTA
853366 TGTAATTTATGTTTCAA-ATTTTTTAATAGTGTT
196 TGTAATTTATGTTTCAATATTTTTTAATAGTGTT
853399 TCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTTTTT
1 TCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTTTTT
853464 GATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATA
66 GATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATA
**
853529 TGTTTTCCACAGTGAAATAAGTATAAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTA
131 TGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTA
*
853594 TGTAATTTATGTTTCAATTTTTTTTAATAGTGTT
196 TGTAATTTATGTTTCAATATTTTTTAATAGTGTT
*
853628 TCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACATAAAATTATTTGATTGTTT
1 TCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATT-TTT
853693 TGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAAT
65 TGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAAT
* * *
853758 ATATTTT-CACAGTGAAATAAGTATGGACACTTTTATAAAAAGGATAGATACTTT
130 ATGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATGATATATACTTT
853812 ACAATATAAC
Statistics
Matches: 401, Mismatches: 10, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
228 209 0.52
229 118 0.29
230 74 0.18
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (229 bp):
TCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTTTTT
GATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATA
TGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTA
TGTAATTTATGTTTCAATATTTTTTAATAGTGTT
Found at i:856514 original size:23 final size:23
Alignment explanation
Indices: 856480--856525 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
856470 CATTATTATA
*
856480 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
*
856503 TGGCACTTCGGTGCAATTATACG
1 TGGCACTACGGTGCAATTATACG
856526 AGATGTGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:860917 original size:2 final size:2
Alignment explanation
Indices: 860910--860934 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
860900 GACGGTCCAA
860910 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
860935 AACGAGAATT
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:875844 original size:140 final size:140
Alignment explanation
Indices: 875577--875853 Score: 465
Period size: 140 Copynumber: 2.0 Consensus size: 140
875567 ACTGATCTAA
875577 GAATTTTCTTTAAACAAATGTCGTTTGTACTTACCTCATATAAAAAAAAGTTAATATATAACATA
1 GAATTTTCTTTAAACAAATGTCGTTTGTACTTACCTCATATAAAAAAAAGTTAATATATAACATA
*
875642 AAGATCCTATAATTTAGCCACAACGAATTTACAATCATTCCTATAATCGGTTTTATCAGATGATG
66 AAGATCCTATAATTTAGCCACAACGAATTTACAATCATTCATATAATCGGTTTTATCAGATGATG
875707 ATATACGATT
131 ATATACGATT
** *
875717 GAATTTTCTTTAAACAAATGTTTTTTGTACTTACCTCATATAAAAAAAAAAGTTAATATGTAACA
1 GAATTTTCTTTAAACAAATGTCGTTTGTACTTACCTCATAT--AAAAAAAAGTTAATATATAACA
875782 TAAAGATCCTATAA-TTAGCCACAACGAA-TTAC-ATCATTCATAT-ATCGG-TTTATCAGATGA
64 TAAAGATCCTATAATTTAGCCACAACGAATTTACAATCATTCATATAATCGGTTTTATCAGATGA
875842 TGATATACGATT
129 TGATATACGATT
875854 TTAAGCTCGC
Statistics
Matches: 131, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
137 24 0.18
138 5 0.04
139 10 0.08
140 43 0.33
141 14 0.11
142 35 0.27
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (140 bp):
GAATTTTCTTTAAACAAATGTCGTTTGTACTTACCTCATATAAAAAAAAGTTAATATATAACATA
AAGATCCTATAATTTAGCCACAACGAATTTACAATCATTCATATAATCGGTTTTATCAGATGATG
ATATACGATT
Found at i:879159 original size:38 final size:38
Alignment explanation
Indices: 879109--879239 Score: 149
Period size: 38 Copynumber: 3.5 Consensus size: 38
879099 ACTCGATCTG
*
879109 AAAA-TATGTATCTTTCATCCGAATCCGTCACGATTTA
1 AAAATTATATATCTTTCATCCGAATCCGTCACGATTTA
** * ** * ***
879146 AAAATTATATATCTTTCAT-ATAACCCAACTCGACCCA
1 AAAATTATATATCTTTCATCCGAATCCGTCACGATTTA
*
879183 AAAAATATATATCTTTCATCCGAATCCGTCACGATTTA
1 AAAATTATATATCTTTCATCCGAATCCGTCACGATTTA
879221 AAAATTATATATCTTTCAT
1 AAAATTATATATCTTTCAT
879240 ATAACCCAAC
Statistics
Matches: 71, Mismatches: 21, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
37 31 0.44
38 40 0.56
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.35
Consensus pattern (38 bp):
AAAATTATATATCTTTCATCCGAATCCGTCACGATTTA
Found at i:879214 original size:75 final size:75
Alignment explanation
Indices: 879092--879270 Score: 315
Period size: 75 Copynumber: 2.4 Consensus size: 75
879082 GTTTTTTGGT
* ** *
879092 TAACCCAACTCGA-TCTGAAAATATGTATCTTTCATCCGAATCCGTCACGATTTAAAAATTATAT
1 TAACCCAACTCGACCCAAAAAATATATATCTTTCATCCGAATCCGTCACGATTTAAAAATTATAT
879156 ATCTTTCATA
66 ATCTTTCATA
879166 TAACCCAACTCGACCCAAAAAATATATATCTTTCATCCGAATCCGTCACGATTTAAAAATTATAT
1 TAACCCAACTCGACCCAAAAAATATATATCTTTCATCCGAATCCGTCACGATTTAAAAATTATAT
879231 ATCTTTCATA
66 ATCTTTCATA
879241 TAACCCAACTCGACCCAAAAAATATATATC
1 TAACCCAACTCGACCCAAAAAATATATATC
879271 CTTTATTCGA
Statistics
Matches: 100, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
74 13 0.13
75 87 0.87
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.31
Consensus pattern (75 bp):
TAACCCAACTCGACCCAAAAAATATATATCTTTCATCCGAATCCGTCACGATTTAAAAATTATAT
ATCTTTCATA
Found at i:879262 original size:38 final size:37
Alignment explanation
Indices: 879145--879270 Score: 144
Period size: 37 Copynumber: 3.4 Consensus size: 37
879135 GTCACGATTT
*
879145 AAAAATTATATATCTTTCATATAACCCAACTCGACCC
1 AAAAAATATATATCTTTCATATAACCCAACTCGACCC
** * ** * ***
879182 AAAAAATATATATCTTTCATCCGAATCCGTCACGATTT
1 AAAAAATATATATCTTTCAT-ATAACCCAACTCGACCC
*
879220 AAAAATTATATATCTTTCATATAACCCAACTCGACCC
1 AAAAAATATATATCTTTCATATAACCCAACTCGACCC
879257 AAAAAATATATATC
1 AAAAAATATATATC
879271 CTTTATTCGA
Statistics
Matches: 67, Mismatches: 21, Indels: 2
0.74 0.23 0.02
Matches are distributed among these distances:
37 40 0.60
38 27 0.40
ACGTcount: A:0.42, C:0.23, G:0.04, T:0.31
Consensus pattern (37 bp):
AAAAAATATATATCTTTCATATAACCCAACTCGACCC
Found at i:887463 original size:60 final size:60
Alignment explanation
Indices: 887389--887541 Score: 207
Period size: 60 Copynumber: 2.5 Consensus size: 60
887379 TATTTATTTA
* *
887389 TTAAGTCCTTCGACTATTAAGAGTTATAAAATGATCATTTGACTATAGAGTGTTGTTTTG
1 TTAAGTCTTTCGACTATTAAAAGTTATAAAATGATCATTTGACTATAGAGTGTTGTTTTG
* * * * ** *
887449 TTGAGTCTTTCGACTATCAAAAGTTACAAAATGGTGTTTTGACTATGGAGTGTTGTTTTG
1 TTAAGTCTTTCGACTATTAAAAGTTATAAAATGATCATTTGACTATAGAGTGTTGTTTTG
* *
887509 TTAAGTCTATCAACTATTAAAAGTTATAAAATG
1 TTAAGTCTTTCGACTATTAAAAGTTATAAAATG
887542 GTAATCGACT
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 79 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (60 bp):
TTAAGTCTTTCGACTATTAAAAGTTATAAAATGATCATTTGACTATAGAGTGTTGTTTTG
Found at i:891598 original size:29 final size:29
Alignment explanation
Indices: 891566--891655 Score: 153
Period size: 29 Copynumber: 3.1 Consensus size: 29
891556 ATTCCCGGCC
*
891566 AACCAAATATGAGAATGTGAGATTCCTTG
1 AACCAAACATGAGAATGTGAGATTCCTTG
*
891595 AACCAAACATGAGAATGTGGGATTCCTTG
1 AACCAAACATGAGAATGTGAGATTCCTTG
*
891624 AACCAAACATGAGAATGTGAGATTCATTG
1 AACCAAACATGAGAATGTGAGATTCCTTG
891653 AAC
1 AAC
891656 TAAAAAGCCC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (29 bp):
AACCAAACATGAGAATGTGAGATTCCTTG
Found at i:893189 original size:20 final size:18
Alignment explanation
Indices: 893148--893190 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
893138 CTAATAATCT
*
893148 TATTCCCATATAATTTTA
1 TATTCCCATATAATATTA
*
893166 TATTCCCACTAATAATATTC
1 TATTCCCA-T-ATAATATTA
893186 TATTC
1 TATTC
893191 AGTTAACCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 1 0.05
20 12 0.57
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTCCCATATAATATTA
Found at i:894771 original size:15 final size:15
Alignment explanation
Indices: 894753--894782 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
894743 AATAAAATAT
*
894753 AATTTTATTCATTTA
1 AATTATATTCATTTA
894768 AATTATATTCATTTA
1 AATTATATTCATTTA
894783 CGTACCTAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
AATTATATTCATTTA
Found at i:894965 original size:17 final size:17
Alignment explanation
Indices: 894943--894975 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
894933 TTAGTATTTC
*
894943 AATATATATTTGTTATA
1 AATATATATTTATTATA
894960 AATATATATTTATTAT
1 AATATATATTTATTAT
894976 GATTAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
AATATATATTTATTATA
Found at i:908411 original size:28 final size:29
Alignment explanation
Indices: 908379--908441 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
908369 AAATTTAGAA
*
908379 AAAATAGTC-ATAATCTAAAAATTAAATT
1 AAAATAGTCAAAAATCTAAAAATTAAATT
* * * *
908407 GAAATGGTCAAAAATTTAAAAATTAATTT
1 AAAATAGTCAAAAATCTAAAAATTAAATT
908436 AAAATA
1 AAAATA
908442 AGAATTATAA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (29 bp):
AAAATAGTCAAAAATCTAAAAATTAAATT
Found at i:914502 original size:19 final size:20
Alignment explanation
Indices: 914478--914521 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
914468 AGGTACGACA
* *
914478 TATAAAATA-ATTTTAAAAT
1 TATAAAATAGATATAAAAAT
914497 TAT-AAATAGATATAAAAAT
1 TATAAAATAGATATAAAAAT
914516 TATAAA
1 TATAAA
914522 TAAAGTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 5 0.24
19 14 0.67
20 2 0.10
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
TATAAAATAGATATAAAAAT
Found at i:916791 original size:20 final size:22
Alignment explanation
Indices: 916741--916798 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 22
916731 TTCGAACCTC
*
916741 AATTTATTGAATATTATATTTAG
1 AATTTATT-AATATTATATGTAG
916764 ACATTTATTAATATT-TATGTA-
1 A-ATTTATTAATATTATATGTAG
916785 AATTTATTAA-ATTA
1 AATTTATTAATATTA
916799 AATTTTGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
19 3 0.09
20 9 0.28
21 1 0.03
22 5 0.16
23 7 0.22
24 7 0.22
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (22 bp):
AATTTATTAATATTATATGTAG
Found at i:917890 original size:19 final size:20
Alignment explanation
Indices: 917866--917904 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
917856 ATTTCTGTGT
*
917866 TTTTTAAAT-ATAATTTTAA
1 TTTTTAAATAAAAATTTTAA
917885 TTTTTAAATAAAAATTTTAA
1 TTTTTAAATAAAAATTTTAA
917905 AATTACCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTTAAATAAAAATTTTAA
Found at i:922384 original size:21 final size:21
Alignment explanation
Indices: 922360--922405 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
922350 TGTTTTGAAA
922360 AAAATTAAAAATTTAAGTACT
1 AAAATTAAAAATTTAAGTACT
* * *
922381 AAAATTGATAGTTTAAGTACT
1 AAAATTAAAAATTTAAGTACT
922402 AAAA
1 AAAA
922406 GCGTAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (21 bp):
AAAATTAAAAATTTAAGTACT
Found at i:922416 original size:21 final size:20
Alignment explanation
Indices: 922368--922416 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
922358 AAAAAATTAA
**
922368 AAATTTAAGTACTAAAATTG
1 AAATTTAAGTACTAAAAGCG
*
922388 ATAGTTTAAGTACTAAAAGCG
1 A-AATTTAAGTACTAAAAGCG
922409 TAAATTTA
1 -AAATTTA
922417 TCTTAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (20 bp):
AAATTTAAGTACTAAAAGCG
Found at i:922898 original size:23 final size:23
Alignment explanation
Indices: 922872--922919 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
922862 AAACTTTAGA
922872 TATAATTTTAAAAATTTTAAGAC
1 TATAATTTTAAAAATTTTAAGAC
922895 TATAATTTTAAAAATTTTAAGAC
1 TATAATTTTAAAAATTTTAAGAC
922918 TA
1 TA
922920 AGACTAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (23 bp):
TATAATTTTAAAAATTTTAAGAC
Found at i:927004 original size:2 final size:2
Alignment explanation
Indices: 926997--927027 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
926987 CAAATAAATA
926997 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
927028 ATCAATGTCT
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:932308 original size:29 final size:29
Alignment explanation
Indices: 932245--932310 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
932235 AAAGTATGTC
932245 CTTAATAACAAATATTGAAAAATTGAACA
1 CTTAATAACAAATATTGAAAAATTGAACA
* * * *
932274 CCTAATAATAAGTATTGAAAAATT-AAGA
1 CTTAATAACAAATATTGAAAAATTGAACA
932302 CTTTAATAA
1 C-TTAATAA
932311 AAAAATGATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 4 0.13
29 27 0.87
ACGTcount: A:0.53, C:0.09, G:0.08, T:0.30
Consensus pattern (29 bp):
CTTAATAACAAATATTGAAAAATTGAACA
Found at i:932397 original size:29 final size:30
Alignment explanation
Indices: 932354--932421 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
932344 ACATTTATAC
**
932354 AAATATTAGAAAAAATAGGCCCATAATAATT
1 AAATATTAGAAAAAATAAACCCATAATAA-T
932385 AAA-ATTA-AAAAAATAAACCCATAATAAT
1 AAATATTAGAAAAAATAAACCCATAATAAT
932413 AAATATTAG
1 AAATATTAG
932422 GGAAAATTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 4 0.12
29 22 0.67
30 4 0.12
31 3 0.09
ACGTcount: A:0.60, C:0.09, G:0.06, T:0.25
Consensus pattern (30 bp):
AAATATTAGAAAAAATAAACCCATAATAAT
Found at i:933941 original size:17 final size:16
Alignment explanation
Indices: 933910--933950 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
933900 ATAATTAAGA
*
933910 GAAAACAACAATCAAC
1 GAAAACAAAAATCAAC
933926 GAAAACGAAAAATCAAC
1 GAAAAC-AAAAATCAAC
*
933943 GACAACAA
1 GAAAACAA
933951 CAACAATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.63, C:0.22, G:0.10, T:0.05
Consensus pattern (16 bp):
GAAAACAAAAATCAAC
Found at i:933951 original size:256 final size:256
Alignment explanation
Indices: 933496--934008 Score: 963
Period size: 256 Copynumber: 2.0 Consensus size: 256
933486 GAAGAATCAA
933496 ACAATGATTTTTAAATCGGGAGGTCAACGAACAACGGATGATAGTAATGGGTGAAAGAATAATCT
1 ACAATGATTTTTAAATCGGGAGGTCAACGAACAACGGATGATAGTAATGGGTGAAAGAATAATCT
*
933561 GGTGATTAACGACGATCAATGAAGAGAACAACAGCAGATGAACCCATACAATGGTAACAATTGAA
66 GGTGATTAACGACGATCAATGAAGAGAACAACAGCAGATGAACCCATACAATGATAACAATTGAA
**
933626 GACGAATGAGATGAAAACATAATTAAGAGAAAACAACAATCAACGAAAACGAAAAATTGACGACA
131 GACGAATGAGATGAAAACATAATTAAGAGAAAACAACAATCAACGAAAACGAAAAATCAACGACA
*
933691 ACAACAACAATGAAACAGAAGTACTAACATGATTACTGAGAAATGATATCATAAACACCAT
196 ACAACAACAATGAAACAGAAGTACTAACATGATTACTGAGAAATAATATCATAAACACCAT
933752 ACAATGATTTTTAAATCGGGAGGTCAACGAACAACGGATGATAGTAATGGGTGAAAGAATAATCT
1 ACAATGATTTTTAAATCGGGAGGTCAACGAACAACGGATGATAGTAATGGGTGAAAGAATAATCT
*
933817 GGTGATTAACGACGATCAATGAAGAGAACAACATCAGATGAACCCATACAATGATAACAATTGAA
66 GGTGATTAACGACGATCAATGAAGAGAACAACAGCAGATGAACCCATACAATGATAACAATTGAA
*
933882 GATGAATGAGATGAAAACATAATTAAGAGAAAACAACAATCAACGAAAACGAAAAATCAACGACA
131 GACGAATGAGATGAAAACATAATTAAGAGAAAACAACAATCAACGAAAACGAAAAATCAACGACA
*
933947 ACAACAACAATGAAACAGAAGTACTAACATGATTACTTAGAAATAATATCATAAACACCAT
196 ACAACAACAATGAAACAGAAGTACTAACATGATTACTGAGAAATAATATCATAAACACCAT
934008 A
1 A
934009 ATGTAAATGA
Statistics
Matches: 250, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
256 250 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.19
Consensus pattern (256 bp):
ACAATGATTTTTAAATCGGGAGGTCAACGAACAACGGATGATAGTAATGGGTGAAAGAATAATCT
GGTGATTAACGACGATCAATGAAGAGAACAACAGCAGATGAACCCATACAATGATAACAATTGAA
GACGAATGAGATGAAAACATAATTAAGAGAAAACAACAATCAACGAAAACGAAAAATCAACGACA
ACAACAACAATGAAACAGAAGTACTAACATGATTACTGAGAAATAATATCATAAACACCAT
Found at i:935555 original size:31 final size:32
Alignment explanation
Indices: 935493--935555 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
935483 TACCCACAGG
*
935493 AGTTTAACAAAGTTAAAAAAAGACACGAATTC
1 AGTTTAACAAAGTTAAAAAAAGACACCAATTC
* **
935525 AGTTTAGCAAAGTT-AACGAAGACACCAATTC
1 AGTTTAACAAAGTTAAAAAAAGACACCAATTC
935556 CATCACTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (32 bp):
AGTTTAACAAAGTTAAAAAAAGACACCAATTC
Found at i:939918 original size:34 final size:35
Alignment explanation
Indices: 939875--939950 Score: 118
Period size: 34 Copynumber: 2.2 Consensus size: 35
939865 AACACATTCA
*
939875 TCAATTACATTCTAAACCCCAAA-TCCAAAATACT
1 TCAATTACATTATAAACCCCAAATTCCAAAATACT
* *
939909 TCAATTACATTATAAATCTCAAATTCCAAAATACT
1 TCAATTACATTATAAACCCCAAATTCCAAAATACT
939944 TCAATTA
1 TCAATTA
939951 TATGCCCAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
34 20 0.53
35 18 0.47
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.32
Consensus pattern (35 bp):
TCAATTACATTATAAACCCCAAATTCCAAAATACT
Found at i:939967 original size:35 final size:35
Alignment explanation
Indices: 939875--939969 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 35
939865 AACACATTCA
*
939875 TCAATTACAT-TCTAAACCCCAAA-TCCAAAATACT
1 TCAATTACATGAC-AAACCCCAAATTCCAAAATACT
* * * *
939909 TCAATTACATTATAAATCTCAAATTCCAAAATACT
1 TCAATTACATGACAAACCCCAAATTCCAAAATACT
* * *
939944 TCAATTATATGCCCAACCCCAAATTC
1 TCAATTACATGACAAACCCCAAATTC
939970 ATAATCCATG
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
34 18 0.38
35 30 0.62
ACGTcount: A:0.42, C:0.27, G:0.01, T:0.29
Consensus pattern (35 bp):
TCAATTACATGACAAACCCCAAATTCCAAAATACT
Found at i:940347 original size:148 final size:148
Alignment explanation
Indices: 940125--940417 Score: 514
Period size: 148 Copynumber: 2.0 Consensus size: 148
940115 AAATACTTAA
940125 TTCAGTTTATAAAATAGTTGAATCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTC
1 TTCAGTTTATAAAATAGTTGAATCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTC
* * * * * *
940190 GAATTGAATTGAATTTTTGAGTTTCTGTTTAAATTTAATTATAAATATTTATCATATTATAATAT
66 AAATTGAATTAAATTTTCGAGTTTATGTTTAAATTTAATTATAAATATTTATAATACTATAATAT
940255 TATTTGATTCTAATTCAG
131 TATTTGATTCTAATTCAG
* *
940273 TTCAGTTTATAAAATAGTTGACTTGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTC
1 TTCAGTTTATAAAATAGTTGAATCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTC
940338 AAATTGAATTAAATTTTCGAGTTTATGTTTAAATTTAATTATAAATATTTATAATACTATAATAT
66 AAATTGAATTAAATTTTCGAGTTTATGTTTAAATTTAATTATAAATATTTATAATACTATAATAT
940403 TATTTGATTCTAATT
131 TATTTGATTCTAATT
940418 TAAATAGTTT
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
148 137 1.00
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (148 bp):
TTCAGTTTATAAAATAGTTGAATCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTC
AAATTGAATTAAATTTTCGAGTTTATGTTTAAATTTAATTATAAATATTTATAATACTATAATAT
TATTTGATTCTAATTCAG
Found at i:940987 original size:34 final size:35
Alignment explanation
Indices: 940915--940993 Score: 115
Period size: 34 Copynumber: 2.3 Consensus size: 35
940905 AGGGTTGGGC
* *
940915 ATGTAATTGAAGTATTTTGGAATTTGAGATTTATA
1 ATGTAATTGAAGCATTTTGGAATTTGAGATTTAGA
* *
940950 ATGTAATTGAAGCATTTTGG-ATTTGGGGTTTAGA
1 ATGTAATTGAAGCATTTTGGAATTTGAGATTTAGA
940984 ATGTAATTGA
1 ATGTAATTGA
940994 TGATTGTGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
34 21 0.52
35 19 0.47
ACGTcount: A:0.32, C:0.01, G:0.24, T:0.43
Consensus pattern (35 bp):
ATGTAATTGAAGCATTTTGGAATTTGAGATTTAGA
Found at i:942015 original size:227 final size:228
Alignment explanation
Indices: 941620--942075 Score: 880
Period size: 227 Copynumber: 2.0 Consensus size: 228
941610 TTATTTTTTT
941620 AAATTACGTGATAAAAAGTAAACATTTATATAACAGAATGACCATTTCAGTAACTTAACCATAAT
1 AAATTACGTGATAAAAAGTAAACATTTATATAACAGAATGACCATTTCAGTAACTTAACCATAAT
941685 AATTGGGTGATTTGTTTAACCAAATTTCCGGGAAACTTTAAGGACTATTTTAAAAAGGTTCCCCC
66 AATTGGGTGATTTGTTTAACCAAATTTCCGGGAAACTTTAAGGACTATTTTAAAAAGGTTCCCCC
941750 ATTAACATTTTGTTCTTCCACTCCTTTTTGAAAGACCAAACTCCTTGTCTACTAAGTTACCTTAG
131 ATTAACATTTTGTTCTTCCACTCCTTTTTGAAAGACCAAACTCCTTGTCTACTAAGTTACCTTAG
941815 CGATTGGGTTTCCTAAGCTCACC-TTAAGTTCA
196 CGATTGGGTTTCCTAAGCTCACCTTTAAGTTCA
941847 AAATTACGTGATAAAAAGTAAACATTTATATAACAGAATGACCATTTCAGTAACTTAACCATAAT
1 AAATTACGTGATAAAAAGTAAACATTTATATAACAGAATGACCATTTCAGTAACTTAACCATAAT
941912 AATTGGGTGATTTGTTTAACCAAATTTCCGGGAAACTTTAAGGACTATTTTAAAAAGGTT-CCCC
66 AATTGGGTGATTTGTTTAACCAAATTTCCGGGAAACTTTAAGGACTATTTTAAAAAGGTTCCCCC
941976 ATTAACATTTTGTTCTTCCACTCCTTTTTGAAAAGACCAAACTCCTTGTCTACTAAGTTACCTTA
131 ATTAACATTTTGTTCTTCCACTCCTTTTTG-AAAGACCAAACTCCTTGTCTACTAAGTTACCTTA
942041 GCGATTGGGTTTCCTAAGCTCACCTTTTAAGTTCA
195 GCGATTGGGTTTCCTAAGCTCACC-TTTAAGTTCA
942076 CGCTCATTCT
Statistics
Matches: 226, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
226 34 0.15
227 183 0.81
229 9 0.04
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (228 bp):
AAATTACGTGATAAAAAGTAAACATTTATATAACAGAATGACCATTTCAGTAACTTAACCATAAT
AATTGGGTGATTTGTTTAACCAAATTTCCGGGAAACTTTAAGGACTATTTTAAAAAGGTTCCCCC
ATTAACATTTTGTTCTTCCACTCCTTTTTGAAAGACCAAACTCCTTGTCTACTAAGTTACCTTAG
CGATTGGGTTTCCTAAGCTCACCTTTAAGTTCA
Found at i:942975 original size:18 final size:18
Alignment explanation
Indices: 942952--942989 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
942942 GGCATAGAAG
942952 AATAATTTCAGTAATATA
1 AATAATTTCAGTAATATA
942970 AATAATTTCAGTAATATA
1 AATAATTTCAGTAATATA
942988 AA
1 AA
942990 GCAAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (18 bp):
AATAATTTCAGTAATATA
Found at i:943718 original size:22 final size:25
Alignment explanation
Indices: 943692--943738 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 25
943682 TTAGTATCAT
943692 TTTAATT-A-AATATTAA-AATATA
1 TTTAATTGATAATATTAATAATATA
*
943714 TTTAATTGATAATTTTAATAATATA
1 TTTAATTGATAATATTAATAATATA
943739 ATATTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 1 0.05
24 7 0.33
25 6 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
TTTAATTGATAATATTAATAATATA
Found at i:943936 original size:24 final size:26
Alignment explanation
Indices: 943909--943959 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
943899 TCATATTCTT
*
943909 ATTTTAAT-ATTATAAT-TTTTAATA
1 ATTTTAATAATAATAATATTTTAATA
*
943933 ATTTTAATAATAATATTATTTTAATA
1 ATTTTAATAATAATAATATTTTAATA
943959 A
1 A
943960 ATAATTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 8 0.35
25 6 0.26
26 9 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
ATTTTAATAATAATAATATTTTAATA
Found at i:943964 original size:21 final size:21
Alignment explanation
Indices: 943938--944005 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
943928 TAATAATTTT
943938 AATAATAATATTATTTTAATA
1 AATAATAATATTATTTTAATA
*
943959 AATAATTAATA-TAATTT-A-A
1 AATAA-TAATATTATTTTAATA
943978 AATAAT--T-TTATTTTAATA
1 AATAATAATATTATTTTAATA
943996 AA-ATATAATA
1 AATA-ATAATA
944006 GTCATAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 16
0.67 0.04 0.29
Matches are distributed among these distances:
16 6 0.16
17 2 0.05
18 6 0.16
19 6 0.16
20 2 0.05
21 10 0.27
22 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AATAATAATATTATTTTAATA
Found at i:944000 original size:19 final size:17
Alignment explanation
Indices: 943933--943997 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 17
943923 ATTTTTAATA
943933 ATTTTAAT-AATAATATT
1 ATTTTAATAAATAAT-TT
943950 ATTTTAATAAATAATTAAT
1 ATTTTAATAAATAATT--T
943969 ATAATTT-A-AAATAATTTT
1 AT--TTTAATAAATAA-TTT
943987 ATTTTAATAAA
1 ATTTTAATAAA
943998 ATATAATAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
16 3 0.08
17 10 0.25
18 12 0.30
19 9 0.22
20 3 0.08
21 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTTAATAAATAATTT
Found at i:944004 original size:40 final size:39
Alignment explanation
Indices: 943907--943997 Score: 114
Period size: 37 Copynumber: 2.3 Consensus size: 39
943897 TATCATATTC
* **
943907 TTATTTTAATATTATAATTTTTAATAATTTTAATAATAATA
1 TTATTTTAATA-AATAATTAAT-ATAATTTTAATAATAATA
*
943948 TTATTTTAATAAATAATTAATATAA-TTTAA-AATAATT
1 TTATTTTAATAAATAATTAATATAATTTTAATAATAATA
943985 TTATTTTAATAAA
1 TTATTTTAATAAA
943998 ATATAATAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
37 19 0.41
38 5 0.11
39 4 0.09
40 7 0.15
41 11 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (39 bp):
TTATTTTAATAAATAATTAATATAATTTTAATAATAATA
Found at i:944013 original size:40 final size:38
Alignment explanation
Indices: 943930--944005 Score: 102
Period size: 37 Copynumber: 2.0 Consensus size: 38
943920 ATAATTTTTA
*
943930 ATAATTTTAATAATAATATTATTTTAATAAATAATTAAT
1 ATAA-TTTAATAATAATATTATTTTAATAAATAAATAAT
* *
943969 ATAATTTAA-AATAATTTTATTTTAATAAA-ATATAAT
1 ATAATTTAATAATAATATTATTTTAATAAATAAATAAT
944005 A
1 A
944006 GTCATAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 6 0.18
37 19 0.56
38 5 0.15
39 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (38 bp):
ATAATTTAATAATAATATTATTTTAATAAATAAATAAT
Found at i:944276 original size:14 final size:14
Alignment explanation
Indices: 944238--944268 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
944228 TAGGAAATGT
944238 AATTCATTTTTTAG
1 AATTCATTTTTTAG
*
944252 AATTCATTTTTTGG
1 AATTCATTTTTTAG
944266 AAT
1 AAT
944269 CTATTTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (14 bp):
AATTCATTTTTTAG
Found at i:949365 original size:14 final size:14
Alignment explanation
Indices: 949337--949412 Score: 50
Period size: 14 Copynumber: 5.1 Consensus size: 14
949327 TAAAACTCTC
*
949337 AAAAAGGAAATGAAA
1 AAAAATGAAA-GAAA
949352 AAAAATGAAAGAAA
1 AAAAATGAAAGAAA
949366 TTAAAAA-GTAAA-AATA
1 --AAAAATG-AAAGAA-A
949382 AAAAATGAAA-AATA
1 AAAAATGAAAGAA-A
*
949396 AAAAATAAAAGGAAA
1 AAAAATGAAA-GAAA
949411 AA
1 AA
949413 GCAAAGAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
14 25 0.48
15 16 0.31
16 11 0.21
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (14 bp):
AAAAATGAAAGAAA
Found at i:956468 original size:69 final size:69
Alignment explanation
Indices: 956357--956495 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
956347 AGAACAGACG
956357 ACACGAGAGACCGAAAGCGGGTAGAGGAACGTGTTGGCATACTGGAACGAGAGTGTCCCACCATT
1 ACACGAGAGACCGAAAGCGGGTAGAGGAACGTGTTGGCATACTGGAACGAGAGTGTCCCACCATT
956422 GATC
66 GATC
956426 ACACGAGAGACCGAAAGCGGGTAGAGGAACGTGTTGGCATACTGGAACGAGAGTGTCCCACCATT
1 ACACGAGAGACCGAAAGCGGGTAGAGGAACGTGTTGGCATACTGGAACGAGAGTGTCCCACCATT
956491 GATC
66 GATC
956495 A
1 A
956496 ACGGCTTGCC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.31, C:0.22, G:0.32, T:0.16
Consensus pattern (69 bp):
ACACGAGAGACCGAAAGCGGGTAGAGGAACGTGTTGGCATACTGGAACGAGAGTGTCCCACCATT
GATC
Found at i:960157 original size:54 final size:53
Alignment explanation
Indices: 960075--960184 Score: 211
Period size: 54 Copynumber: 2.1 Consensus size: 53
960065 CCACCCTAAA
960075 TGTAAAAAGATTGGGTTAACTCATCTCACCTTTGCAGATGACTTGCTTATTTTC
1 TGTAAAAAGATTGGGTTAACTCATCTCACCTTTGCAGATGACTT-CTTATTTTC
960129 TGTAAAAAGATTGGGTTAACTCATCTCACCTTTGCAGATGACTTCTTATTTTC
1 TGTAAAAAGATTGGGTTAACTCATCTCACCTTTGCAGATGACTTCTTATTTTC
960182 TGT
1 TGT
960185 CGAGGAATGT
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 12 0.21
54 44 0.79
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.40
Consensus pattern (53 bp):
TGTAAAAAGATTGGGTTAACTCATCTCACCTTTGCAGATGACTTCTTATTTTC
Found at i:976131 original size:20 final size:20
Alignment explanation
Indices: 976089--976131 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
976079 AAATGAAAGA
*
976089 TTAAATACAAAATTAATAGT
1 TTAAATACAAAATTAATAAT
*
976109 TTAAATACTAAA-TACATAAT
1 TTAAATACAAAATTA-ATAAT
976129 TTA
1 TTA
976132 CCCAATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (20 bp):
TTAAATACAAAATTAATAAT
Found at i:976527 original size:21 final size:21
Alignment explanation
Indices: 976488--976527 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
976478 ATTTTAGTCA
* * *
976488 AACCAAAAGTAATCTGAACTG
1 AACCAAAAGCAACCCGAACTG
976509 AACCAAAAGCAACCCGAAC
1 AACCAAAAGCAACCCGAAC
976528 CGAAAGCAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.28, G:0.12, T:0.10
Consensus pattern (21 bp):
AACCAAAAGCAACCCGAACTG
Found at i:976533 original size:16 final size:15
Alignment explanation
Indices: 976508--976547 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
976498 AATCTGAACT
*
976508 GAACCAAAAGCAACCC
1 GAACCGAAAGCAA-CC
976524 GAACCGAAAGCAACC
1 GAACCGAAAGCAACC
*
976539 GAACTGAAA
1 GAACCGAAA
976548 ATAATTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.50, C:0.30, G:0.17, T:0.03
Consensus pattern (15 bp):
GAACCGAAAGCAACC
Found at i:977195 original size:60 final size:59
Alignment explanation
Indices: 977067--977224 Score: 142
Period size: 60 Copynumber: 2.6 Consensus size: 59
977057 GAAAGATCTA
* * * * **
977067 AAAATTT-AGGGACCAATTTAGAATGAGATTCATATTTTGGGGATGAAATTCAATTATTC
1 AAAATTTAAGGG-CTAATTTAGAATGAAAGTCATAGTTTAAGGATGAAATTCAATTATTC
* *
977126 AAAAGTTTAAGGGCTAATTTAGAATGAAAGTCATAGTTTAAGGATGAAATT-AGAATATTTG
1 AAAA-TTTAAGGGCTAATTTAGAATGAAAGTCATAGTTTAAGGATGAAATTCA-ATTA-TTC
* ** *
977187 AAAATTTAACGATTAATTT-GAAATGATAGTCATAGTTT
1 AAAATTTAAGGGCTAATTTAG-AATGAAAGTCATAGTTT
977225 TGAGACATGA
Statistics
Matches: 82, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
59 6 0.07
60 66 0.80
61 10 0.12
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (59 bp):
AAAATTTAAGGGCTAATTTAGAATGAAAGTCATAGTTTAAGGATGAAATTCAATTATTC
Found at i:977791 original size:12 final size:14
Alignment explanation
Indices: 977768--977800 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
977758 GTGTACCGAA
977768 AAAAATTAATAA-T
1 AAAAATTAATAATT
977781 AAAAATT-ATAATT
1 AAAAATTAATAATT
977794 AAAAATT
1 AAAAATT
977801 TTGTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAAATTAATAATT
Found at i:980097 original size:28 final size:29
Alignment explanation
Indices: 980060--980114 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
980050 TAATAAAAAG
* *
980060 AGCTACTG-AAAACCAGTAGCATTACAAA
1 AGCTACTGAAAAACCAGCAGCAGTACAAA
*
980088 AGCTGCTGAAAAACCAGCAGCAGTACA
1 AGCTACTGAAAAACCAGCAGCAGTACA
980115 CATAATCTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.15
Consensus pattern (29 bp):
AGCTACTGAAAAACCAGCAGCAGTACAAA
Found at i:991021 original size:15 final size:15
Alignment explanation
Indices: 991001--991031 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
990991 ATTATACACC
*
991001 TAACTCATTATCATA
1 TAACTCATTAGCATA
991016 TAACTCATTAGCATA
1 TAACTCATTAGCATA
991031 T
1 T
991032 TAATATCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.19, G:0.03, T:0.39
Consensus pattern (15 bp):
TAACTCATTAGCATA
Found at i:998020 original size:18 final size:18
Alignment explanation
Indices: 997997--998034 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
997987 ACTCTAACCA
* *
997997 AAGTCAATGGGTTGGGTC
1 AAGTCAACGGGTCGGGTC
998015 AAGTCAACGGGTCGGGTC
1 AAGTCAACGGGTCGGGTC
998033 AA
1 AA
998035 AGAGGTTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.37, T:0.21
Consensus pattern (18 bp):
AAGTCAACGGGTCGGGTC
Found at i:998995 original size:19 final size:18
Alignment explanation
Indices: 998971--999006 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
998961 ATATTTTTTA
998971 AAATTTGAAAATAGAATTT
1 AAATTTGAAAATA-AATTT
998990 AAATTTGAAAATAAATT
1 AAATTTGAAAATAAATT
999007 CTCTTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (18 bp):
AAATTTGAAAATAAATTT
Found at i:1000935 original size:23 final size:25
Alignment explanation
Indices: 1000899--1000954 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
1000889 TTTATAAATA
1000899 TTTAAA-AT-TGTTATCAA-TAT-T
1 TTTAAACATATGTTATCAATTATAT
* *
1000920 TTTAAACATATGTTATTAATTTTAT
1 TTTAAACATATGTTATCAATTATAT
1000945 TTTAAACATA
1 TTTAAACATA
1000955 AACTATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 6 0.21
22 2 0.07
23 8 0.28
24 2 0.07
25 11 0.38
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (25 bp):
TTTAAACATATGTTATCAATTATAT
Found at i:1006325 original size:19 final size:18
Alignment explanation
Indices: 1006301--1006336 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
1006291 ATATTTTTTA
1006301 AAATTTGAAAATAGAATTT
1 AAATTTGAAAATA-AATTT
1006320 AAATTTGAAAATAAATT
1 AAATTTGAAAATAAATT
1006337 CTCTTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (18 bp):
AAATTTGAAAATAAATTT
Found at i:1019758 original size:18 final size:18
Alignment explanation
Indices: 1019735--1019772 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1019725 ACTCTAACCA
* *
1019735 AAGTCAATGGGTTGGGTC
1 AAGTCAACGGGTCGGGTC
1019753 AAGTCAACGGGTCGGGTC
1 AAGTCAACGGGTCGGGTC
1019771 AA
1 AA
1019773 AGAGGTTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.37, T:0.21
Consensus pattern (18 bp):
AAGTCAACGGGTCGGGTC
Found at i:1026367 original size:6 final size:6
Alignment explanation
Indices: 1026356--1026387 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
1026346 TACACCTATC
*
1026356 TATTTA TATTTA TATTTA TATTTA TATCTA TA
1 TATTTA TATTTA TATTTA TATTTA TATTTA TA
1026388 AAAAGTATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (6 bp):
TATTTA
Found at i:1026908 original size:33 final size:35
Alignment explanation
Indices: 1026823--1026908 Score: 86
Period size: 36 Copynumber: 2.5 Consensus size: 35
1026813 TGACATGGAC
* * **
1026823 AAAACGACTTCATTTTGCCTACGACTATTGATGTCT
1 AAAA-GACGTCATTTTGCCAACGACTATTGATACCT
* *
1026859 AAAATGACGTCGTTTTGCCAATGACTATTGATACCT
1 AAAA-GACGTCATTTTGCCAACGACTATTGATACCT
1026895 -AAA-ACGTCATTTTG
1 AAAAGACGTCATTTTG
1026909 GACACAAAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
33 10 0.24
35 3 0.07
36 29 0.69
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (35 bp):
AAAAGACGTCATTTTGCCAACGACTATTGATACCT
Found at i:1033834 original size:5 final size:5
Alignment explanation
Indices: 1033824--1033856 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
1033814 ATTTCTATGG
1033824 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1033857 AGAATTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:1053622 original size:60 final size:60
Alignment explanation
Indices: 1053505--1053637 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 60
1053495 TTTGGAAGGT
* ** * *
1053505 AAAA-TATACAAATGATCATTTGACTATAAGATATTGTTTTATTAAGTTCCTCAACTATTA
1 AAAATTATA-AAATAATCATTCAACTATAAGATATTGTTTTATTAAATACCTCAACTATTA
* * **
1053565 AATATTATAAAATAATCATTCAACTATAAGGA-ATTGTTTTATTAAATACTTTGACTATTA
1 AAAATTATAAAATAATCATTCAACTATAA-GATATTGTTTTATTAAATACCTCAACTATTA
*
1053625 AAAATTACAAAAT
1 AAAATTATAAAAT
1053638 GATTACTCAA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
60 54 0.90
61 6 0.10
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (60 bp):
AAAATTATAAAATAATCATTCAACTATAAGATATTGTTTTATTAAATACCTCAACTATTA
Found at i:1054058 original size:2 final size:2
Alignment explanation
Indices: 1054051--1054091 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1054041 AGACTACTTA
*
1054051 AC AC AC AC AC AG AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1054092 TATATATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.46, G:0.02, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1054096 original size:2 final size:2
Alignment explanation
Indices: 1054091--1054139 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
1054081 ACACACACAC
1054091 AT AT AT AT AT 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 AT AT AT AT AT
1054133 AT AT AT A
1 AT AT AT A
1054140 AATAGCATCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1057926 original size:154 final size:153
Alignment explanation
Indices: 1057687--1057976 Score: 420
Period size: 154 Copynumber: 1.9 Consensus size: 153
1057677 TAGATGTACA
* *
1057687 CAAATGATATCTGATATAGAGTATTATTTTATTAAATTCATCGACTATTAAAAGTTATAAAATAA
1 CAAATGATATCTGATATAGAGGATTATTTTATTAAATTCATCGAATATTAAAAGTTATAAAATAA
* * * * *
1057752 TCATCCAATTATAGAGTGTTGCTTTATTGAGTTTCTTAATTATTAAAAGTTACAAAATGGTTACT
66 TCATCCAACTATAGAATGTTGCTTTATTGAGTCTCTTAACTATTAAAAGTTACAAAATGGTCACT
1057817 CGACTATTAAAAATATAAATACT
131 CGACTATTAAAAATATAAATACT
* * *
1057840 CAAATGATCTCTGATTATA-AGGGATTATTTTATTAAGTTTATCGAATATTAAAAGTTATAAAAT
1 CAAATGATATCTGA-TATAGA-GGATTATTTTATTAAATTCATCGAATATTAAAAGTTATAAAAT
** * * *
1057904 GGTCTTCTAACTATATAATGTTGCTTTATTGAGTCTCTTAACTATTAAAAGTTACAAAATGGTCA
64 AATCATCCAACTATAGAATGTTGCTTTATTGAGTCTCTTAACTATTAAAAGTTACAAAATGGTCA
1057969 CTCGACTA
129 CTCGACTA
1057977 GTCATCGTGT
Statistics
Matches: 120, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
153 14 0.12
154 106 0.88
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (153 bp):
CAAATGATATCTGATATAGAGGATTATTTTATTAAATTCATCGAATATTAAAAGTTATAAAATAA
TCATCCAACTATAGAATGTTGCTTTATTGAGTCTCTTAACTATTAAAAGTTACAAAATGGTCACT
CGACTATTAAAAATATAAATACT
Found at i:1059872 original size:15 final size:15
Alignment explanation
Indices: 1059852--1059881 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1059842 CCCTCGTCTC
1059852 TGCAGTATCCGATCT
1 TGCAGTATCCGATCT
1059867 TGCAGTATCCGATCT
1 TGCAGTATCCGATCT
1059882 GGATTAGTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (15 bp):
TGCAGTATCCGATCT
Found at i:1061088 original size:156 final size:155
Alignment explanation
Indices: 1060715--1061083 Score: 419
Period size: 156 Copynumber: 2.4 Consensus size: 155
1060705 TTCCTCATTC
* * * *
1060715 ATTTTAAGT-TCACTTTAACCAAAATTGAACTGCATGCTCCTAAACTATAATAGAATACATGTGT
1 ATTTTAAGTCT-ATTTTTACCAAATTTGAACTACATGCTCCTAAACTATAATAGAATACATGTGT
* *
1060779 ACTTTTAATTCATCTTTTGATAATAACACTTTTATTTTTCAATTTAGTCCTTCAATTTTTCATAA
65 ACTTTCAATTCATCTTTT-ATAATAACACTTTTATTTTTCAATTTAGTCATTCAATTTTTCATAA
* **
1060844 TTTCCTTATTTCTTCAATTTGTCATTT
129 TTTCCTTATTCCTTCAATTTGTCAGGT
* * * *
1060871 ATTTTAAGTCTATTTTTACCAAATTTG-AGTCACATTCTCCTAAACCATAGTAGAATACATGTGT
1 ATTTTAAGTCTATTTTTACCAAATTTGAACT-ACATGCTCCTAAACTATAATAGAATACATGTGT
* * * *
1060935 ACTTTCAATTCCTCTTTT-TGATAACATTTTTTTATTTTTCAATTTAGTCATTCAGTTTTTCATA
65 ACTTTCAATTCATCTTTTATAATAACA--CTTTTATTTTTCAATTTAGTCATTCAATTTTTCATA
* *
1060999 ATCTT-CTTATTCCTTTAATTTGT-GGGT
128 AT-TTCCTTATTCCTTCAATTTGTCAGGT
* * * *
1061026 -TTTTAAGT-TATTTTTTATCAAATTTGAACTACATGCTCATATACTACAATAGAATACA
1 ATTTTAAGTCTA-TTTTTACCAAATTTGAACTACATGCTCCTAAACTATAATAGAATACA
1061084 CATGTAACAT
Statistics
Matches: 179, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
153 2 0.01
154 51 0.28
155 5 0.03
156 118 0.66
157 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.47
Consensus pattern (155 bp):
ATTTTAAGTCTATTTTTACCAAATTTGAACTACATGCTCCTAAACTATAATAGAATACATGTGTA
CTTTCAATTCATCTTTTATAATAACACTTTTATTTTTCAATTTAGTCATTCAATTTTTCATAATT
TCCTTATTCCTTCAATTTGTCAGGT
Found at i:1061347 original size:2 final size:2
Alignment explanation
Indices: 1061340--1061366 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1061330 AATATGAAAT
1061340 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 T
1061367 TACGGTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1065547 original size:45 final size:44
Alignment explanation
Indices: 1065496--1065632 Score: 125
Period size: 45 Copynumber: 3.3 Consensus size: 44
1065486 CTCCTAATAC
1065496 TATGGGTACATTAATGGCATGAAAAGATGCCTTAGCTGATATGTA
1 TATGGGTACATTAATGGCATGAAAAGAT-CCTTAGCTGATATGTA
* *
1065541 TATGGGTACATT-ATCGGCAT-AACAGA-----A--T-A-ATGCA
1 TATGGGTACATTAAT-GGCATGAAAAGATCCTTAGCTGATATGTA
* * *
1065575 TATGGGTGCATTAGTGGCATGAAAGGATACCTTAGCTGATATGTA
1 TATGGGTACATTAATGGCATGAAAAGAT-CCTTAGCTGATATGTA
1065620 TATGGGTACATTA
1 TATGGGTACATTA
1065633 TCGGCATAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 26
0.68 0.08 0.25
Matches are distributed among these distances:
34 20 0.28
35 6 0.08
36 1 0.01
38 1 0.01
41 1 0.01
43 1 0.01
44 8 0.11
45 33 0.46
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.31
Consensus pattern (44 bp):
TATGGGTACATTAATGGCATGAAAAGATCCTTAGCTGATATGTA
Found at i:1065587 original size:34 final size:34
Alignment explanation
Indices: 1065540--1065746 Score: 87
Period size: 34 Copynumber: 5.4 Consensus size: 34
1065530 GCTGATATGT
1065540 ATATGGGTACATTATCGGCATAACAGAATAATGC
1 ATATGGGTACATTATCGGCATAACAGAATAATGC
* *
1065574 ATATGGGTGCATTAGT-GGCATGAA-AGGATACCTTAGCTGATATGT
1 ATATGGGTACATTA-TCGGCAT-AACA-G--A----A--T-A-ATGC
* *
1065619 ATATGGGTACATTATCGGCATAATAGAATAATGA
1 ATATGGGTACATTATCGGCATAACAGAATAATGC
* * *
1065653 ATATGGGTGCATTAGT-GGCATGAAATGATGTTTTAACTGATATGT
1 ATATGGGTACATTA-TCGGCAT--AA-CA-G----AA-T-A-ATGC
*
1065698 ATATGGGTACATTATCGGCATAACAAAATAATGC
1 ATATGGGTACATTATCGGCATAACAGAATAATGC
*
1065732 ATATGGGTGCATTAT
1 ATATGGGTACATTAT
1065747 TGACATGAAA
Statistics
Matches: 133, Mismatches: 12, Indels: 56
0.66 0.06 0.28
Matches are distributed among these distances:
34 57 0.43
35 7 0.05
36 4 0.03
37 4 0.03
38 2 0.02
41 1 0.01
42 4 0.03
43 4 0.03
44 7 0.05
45 43 0.32
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (34 bp):
ATATGGGTACATTATCGGCATAACAGAATAATGC
Found at i:1065762 original size:79 final size:79
Alignment explanation
Indices: 1065496--1065761 Score: 415
Period size: 79 Copynumber: 3.4 Consensus size: 79
1065486 CTCCTAATAC
* * *
1065496 TATGGGTACATTAATGGCATGAAAAGATGCCTTAGCTGATATGTATATGGGTACATTATCGGCAT
1 TATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTACATTATCGGCAT
1065561 AACAGAATAATGCA
66 AACAGAATAATGCA
*
1065575 TATGGGTGCATTAGTGGCATGAAAGGATACCTTAGCTGATATGTATATGGGTACATTATCGGCAT
1 TATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTACATTATCGGCAT
* *
1065640 AATAGAATAATGAA
66 AACAGAATAATGCA
* ** *
1065654 TATGGGTGCATTAGTGGCATGAAATGATGTTTTAACTGATATGTATATGGGTACATTATCGGCAT
1 TATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTACATTATCGGCAT
*
1065719 AACAAAATAATGCA
66 AACAGAATAATGCA
* *
1065733 TATGGGTGCATTATTGACATGAAAGGATG
1 TATGGGTGCATTAGTGGCATGAAAGGATG
1065762 TCAAAGTTGA
Statistics
Matches: 170, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 170 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (79 bp):
TATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTACATTATCGGCAT
AACAGAATAATGCA
Found at i:1065784 original size:158 final size:158
Alignment explanation
Indices: 1065496--1065792 Score: 441
Period size: 158 Copynumber: 1.9 Consensus size: 158
1065486 CTCCTAATAC
*
1065496 TATGGGTACATTAATGGCATGAAAAGATGCCTTAGCTGATATGTATATGGGTACATTATCGGCAT
1 TATGGGTACATTAATGGCATGAAAAGATGCCTTAACTGATATGTATATGGGTACATTATCGGCAT
* * ** * *
1065561 AACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATACCTTAGCTGATATGTATATGGG
66 AACAAAATAATGCATATGGGTGCATTAGTGACATGAAAGGATACCAAAGCTGAAATGCATATGGG
1065626 TACATTATCGGCATAATAGAATAATGAA
131 TACATTATCGGCATAATAGAATAATGAA
* * * **
1065654 TATGGGTGCATTAGTGGCATGAAATGATGTTTTAACTGATATGTATATGGGTACATTATCGGCAT
1 TATGGGTACATTAATGGCATGAAAAGATGCCTTAACTGATATGTATATGGGTACATTATCGGCAT
* ** *
1065719 AACAAAATAATGCATATGGGTGCATTATTGACATGAAAGGATGTCAAAGTTGAAATGCATATGGG
66 AACAAAATAATGCATATGGGTGCATTAGTGACATGAAAGGATACCAAAGCTGAAATGCATATGGG
*
1065784 TGCATTATC
131 TACATTATC
1065793 AACATAAAAG
Statistics
Matches: 122, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
158 122 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (158 bp):
TATGGGTACATTAATGGCATGAAAAGATGCCTTAACTGATATGTATATGGGTACATTATCGGCAT
AACAAAATAATGCATATGGGTGCATTAGTGACATGAAAGGATACCAAAGCTGAAATGCATATGGG
TACATTATCGGCATAATAGAATAATGAA
Found at i:1065799 original size:79 final size:79
Alignment explanation
Indices: 1065496--1065792 Score: 398
Period size: 79 Copynumber: 3.8 Consensus size: 79
1065486 CTCCTAATAC
* * * * *
1065496 TATGGGTACATTAATGGCATGAAAAGATGCCTTAGCTGATATGTATATGGGTACATTATCGGCAT
1 TATGGGTGCATTAGTGGCATGAAAGGATGTCTAAGCTGATATGTATATGGGTACATTATCGGCAT
1065561 AACAGAATAATGCA
66 AACAGAATAATGCA
** *
1065575 TATGGGTGCATTAGTGGCATGAAAGGATACCTTAGCTGATATGTATATGGGTACATTATCGGCAT
1 TATGGGTGCATTAGTGGCATGAAAGGATGTCTAAGCTGATATGTATATGGGTACATTATCGGCAT
* *
1065640 AATAGAATAATGAA
66 AACAGAATAATGCA
* *
1065654 TATGGGTGCATTAGTGGCATGAAATGATGTTTTAA-CTGATATGTATATGGGTACATTATCGGCA
1 TATGGGTGCATTAGTGGCATGAAAGGATG-TCTAAGCTGATATGTATATGGGTACATTATCGGCA
*
1065718 TAACAAAATAATGCA
65 TAACAGAATAATGCA
* * * * * * *
1065733 TATGGGTGCATTATTGACATGAAAGGATGTCAAAGTTGAAATGCATATGGGTGCATTATC
1 TATGGGTGCATTAGTGGCATGAAAGGATGTCTAAGCTGATATGTATATGGGTACATTATC
1065793 AACATAAAAG
Statistics
Matches: 193, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
78 3 0.02
79 188 0.97
80 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (79 bp):
TATGGGTGCATTAGTGGCATGAAAGGATGTCTAAGCTGATATGTATATGGGTACATTATCGGCAT
AACAGAATAATGCA
Found at i:1066555 original size:81 final size:81
Alignment explanation
Indices: 1066419--1066567 Score: 226
Period size: 81 Copynumber: 1.8 Consensus size: 81
1066409 CTTAGCAATG
* **
1066419 CAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAA
1 CAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAACACCGTTGAGTAAAAGAA
1066484 TAATGGTCTAACTGTA
66 TAATGGTCTAACTGTA
* * ** *
1066500 CAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAGGGTTAAACATTGTTGAGTAAGAGAA
1 CAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAACACCGTTGAGTAAAAGAA
1066565 TAA
66 TAA
1066568 AGAAATTTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 60 1.00
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.28
Consensus pattern (81 bp):
CAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAACACCGTTGAGTAAAAGAA
TAATGGTCTAACTGTA
Found at i:1066628 original size:2 final size:2
Alignment explanation
Indices: 1066621--1066677 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
1066611 GAAGAGAATG
1066621 AT AT AT AT AT 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 AT AT AT AT AT
1066663 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
1066678 ATGTATAACC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1075763 original size:31 final size:30
Alignment explanation
Indices: 1075728--1075805 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 30
1075718 AAATTAAGGG
1075728 TTTAATACTTAAACTATCAATTTTGATTCGT
1 TTTAATAC-TAAACTATCAATTTTGATTCGT
1075759 TTTAATA-T---CTA--AACTTTTGATTCGT
1 TTTAATACTAAACTATCAA-TTTTGATTCGT
*
1075784 TTTAATACCTAAACTTTCAATT
1 TTTAATA-CTAAACTATCAATT
1075806 CTTTCAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 16
0.69 0.02 0.29
Matches are distributed among these distances:
24 2 0.05
25 18 0.47
26 3 0.08
27 1 0.03
29 1 0.03
30 2 0.05
31 9 0.24
32 2 0.05
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.49
Consensus pattern (30 bp):
TTTAATACTAAACTATCAATTTTGATTCGT
Found at i:1075776 original size:25 final size:25
Alignment explanation
Indices: 1075748--1075800 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
1075738 AAACTATCAA
*
1075748 TTTTGATTCGTTTTAATATCTAAAC
1 TTTTGATTCGTTTTAATACCTAAAC
1075773 TTTTGATTCGTTTTAATACCTAAAC
1 TTTTGATTCGTTTTAATACCTAAAC
1075798 TTT
1 TTT
1075801 CAATTCTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.53
Consensus pattern (25 bp):
TTTTGATTCGTTTTAATACCTAAAC
Found at i:1075806 original size:25 final size:25
Alignment explanation
Indices: 1075753--1075806 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
1075743 ATCAATTTTG
* **
1075753 ATTCGTTTTAATATCTAAACTTTTG
1 ATTCGTTTTAATACCTAAACTTTCA
1075778 ATTCGTTTTAATACCTAAACTTTCA
1 ATTCGTTTTAATACCTAAACTTTCA
1075803 ATTC
1 ATTC
1075807 TTTCAAAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.48
Consensus pattern (25 bp):
ATTCGTTTTAATACCTAAACTTTCA
Found at i:1076424 original size:2 final size:2
Alignment explanation
Indices: 1076417--1076442 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1076407 AACGTGTTGC
1076417 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
1076443 GCTAGAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1078724 original size:14 final size:14
Alignment explanation
Indices: 1078705--1078738 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
1078695 CAATGATATC
1078705 AACAAAGCTTAGTT
1 AACAAAGCTTAGTT
1078719 AACAAAGCTTAGTT
1 AACAAAGCTTAGTT
1078733 AACAAA
1 AACAAA
1078739 CCTGGGATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.24
Consensus pattern (14 bp):
AACAAAGCTTAGTT
Done.