Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 57 of 130
Found at i:12269671 original size:988 final size:987
Alignment explanation
Indices: 12265719--12274604 Score: 17403
Period size: 987 Copynumber: 9.0 Consensus size: 987
12265709 TGGGGAAGGA
12265719 TTAGGTGGGGAATAGACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
1 TTAGGTGGGGAATAGACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
12265784 TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
66 TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
12265849 CCATCGTTTCATTGCACGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCAGC
131 CCATCGTTTCATTGCACGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCAGC
12265914 CTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTTA
196 CTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTTA
12265979 AATTAATTTAAATTTATTTGATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAGC
261 AATTAATTTAAATTTATTTGATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAGC
12266044 ATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTATTTTTAATTATTATTATTATT
326 ATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTATTTTTAATTATTATTATTATT
12266109 ATATATTTTTATTTACAATTAATCAAATTAATTAAAATTAAATTAAAAAAATAAAAAAAATAAAA
391 ATATATTTTTATTTACAATTAATCAAATTAATTAAAATTAAATTAAAAAAATAAAAAAAATAAAA
12266174 ATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGCT
456 ATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGCT
12266239 TGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGGA
521 TGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGGA
12266304 AAACACTAAAGGAGA-GGGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATGGGTC
586 AAACACTAAAGGAGAGGGGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATGGGTC
12266368 GAAACTCAAGTTTTGAACTCGTGCGTCTTCGAGACCCGAGCATTCACCCTTCCGACGTCCCAGAT
651 GAAACTCAAGTTTTGAACTCGTGCGTCTTCGAGACCCGAGCATTCACCCTTCCGACGTCCCAGAT
12266433 CAGCCTTCCTGCCACGGTTCATACCCTTGTGAGGTATTGTCCACTCTGGCCTCTATGGCCTCACG
716 CAGCCTTCCTGCCACGGTTCATACCCTTGTGAGGTATTGTCCACTCTGGCCTCTATGGCCTCACG
12266498 ATTTTGTCCTACAAAAGACGCCTCACAAAGCGGAGGTGGTGTGAACCCTTTTATACCCCAGTGAC
781 ATTTTGTCCTACAAAAGACGCCTCACAAAGCGGAGGTGGTGTGAACCCTTTTATACCCCAGTGAC
12266563 CCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAAGTCCGTGACATTCTCCCGCACCC
846 CCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAAGTCCGTGACATTCTCCCGCACCC
*
12266628 AACCTCGTGACGCCCTCGTCACGGAGGCTGACCACCCTGTCTACCTCCCTCGAGGTACTTAGCGT
911 AACCTCGTGACGCCCTCGTCACGGAGGCTGGCCACCCTGTCTACCTCCCTCGAGGTACTTAGCGT
12266693 GGATCGAACGGT
976 GGATCGAACGGT
12266705 TTAGGTGGGGAATAGACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
1 TTAGGTGGGGAATAGACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
12266770 TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
66 TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
12266835 CCATCGTTTCATTGCACGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCAGC
131 CCATCGTTTCATTGCACGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCAGC
12266900 CTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTTA
196 CTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTTA
12266965 AATTAATTTAAATTTATTTGATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAGC
261 AATTAATTTAAATTTATTTGATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAGC
12267030 ATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTATTTTTAATTATTATTATTATT
326 ATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTATTTTTAATTATTATTATTATT
12267095 ATATATTTTTATTTACAATTAATCAAATTAATTAAAATTAAATTAAAAAAATAAAAAAAATAAAA
391 ATATATTTTTATTTACAATTAATCAAATTAATTAAAATTAAATTAAAAAAATAAAAAAAATAAAA
12267160 ATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGCT
456 ATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGCT
12267225 TGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGGA
521 TGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGGA
12267290 AAACACTAAAGGAGAGGGGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATGGGTC
586 AAACACTAAAGGAGAGGGGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATGGGTC
12267355 GAAACTCAAGTTTTGAACTCGTGCGTCTTCGAGACCCGAGCATTCACCCTTCCGACGTCCCAGAT
651 GAAACTCAAGTTTTGAACTCGTGCGTCTTCGAGACCCGAGCATTCACCCTTCCGACGTCCCAGAT
*
12267420 CAGCCTTCCTACCACGGTTCATACCCTTGTGAGGTATTGTCCACTCTGGCCTCTATGGCCTCACG
716 CAGCCTTCCTGCCACGGTTCATACCCTTGTGAGGTATTGTCCACTCTGGCCTCTATGGCCTCACG
12267485 ATTTTGTCCTACAAAAGACGCCTCACAAAGCGGAGGTGGTGTGAACCCTTTTATACCCCAGTGAC
781 ATTTTGTCCTACAAAAGACGCCTCACAAAGCGGAGGTGGTGTGAACCCTTTTATACCCCAGTGAC
12267550 CCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAAGTCCGTGACATTCTCCCGCACCC
846 CCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAAGTCCGTGACATTCTCCCGCACCC
*
12267615 AACCTCGTGACGCCCTCGTCACGGAGGCTGGCCACCCTGTCTACCTCCCTCGAGCTACTTAGCGT
911 AACCTCGTGACGCCCTCGTCACGGAGGCTGGCCACCCTGTCTACCTCCCTCGAGGTACTTAGCGT
12267680 GGATCGAACGGT
976 GGATCGAACGGT
12267692 TTAGGTGGGGAATAGACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
1 TTAGGTGGGGAATAGACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
12267757 TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
66 TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
12267822 CCATCGTTTCATTGCACGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCAGC
131 CCATCGTTTCATTGCACGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCAGC
12267887 CTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTTA
196 CTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTTA
12267952 AATTAATTTAAATTTATTTGATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAGC
261 AATTAATTTAAATTTATTTGATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAGC
12268017 ATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTA-TTTTAATTATTATTATTATT
326 ATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTATTTTTAATTATTATTATTATT
12268081 ATATATTTTTATTTACAATTAATCAAATTAATTAAAATTAAATTAAAAAAAT-AAAAAAATAAAA
391 ATATATTTTTATTTACAATTAATCAAATTAATTAAAATTAAATTAAAAAAATAAAAAAAATAAAA
12268145 ATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGCT
456 ATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGCT
12268210 TGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGGA
521 TGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGGA
12268275 AAACACTAAAGGAGAGGGGGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATGGGT
586 AAACACTAAAGGAGA-GGGGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATGGGT
12268340 CGAAACTCAAGTTTTGAACTCGTGCGTCTTCGAGACCCGAGCATTCACCCTTCCGACGTCCCAGA
650 CGAAACTCAAGTTTTGAACTCGTGCGTCTTCGAGACCCGAGCATTCACCCTTCCGACGTCCCAGA
12268405 TCAGCCTTCCTGCCACGGTTCATACCCTTGTGAGGTATTGTCCACTCTGGCCTCTATGGCCTCAC
715 TCAGCCTTCCTGCCACGGTTCATACCCTTGTGAGGTATTGTCCACTCTGGCCTCTATGGCCTCAC
12268470 GATTTTGTCCTACAAAAGACGCCTCACAAAGCGGAGGTGGTGTGAACCCTTTTATACCCCAGTGA
780 GATTTTGTCCTACAAAAGACGCCTCACAAAGCGGAGGTGGTGTGAACCCTTTTATACCCCAGTGA
12268535 CCCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAAGTCCGTGACATTCTCCCGCACC
845 CCCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAAGTCCGTGACATTCTCCCGCACC
*
12268600 CAACCTCGTGACGCCCTCGTCACGGAGGCTGGCCACCCTGTCTACCTCCCTCGAGCTACTTAGCG
910 CAACCTCGTGACGCCCTCGTCACGGAGGCTGGCCACCCTGTCTACCTCCCTCGAGGTACTTAGCG
12268665 TGGATCGAACGGT
975 TGGATCGAACGGT
12268678 TTAGGTGGGGAATAGACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
1 TTAGGTGGGGAATAGACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
12268743 TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
66 TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
12268808 CCATCGTTTCATTGCACGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCAGG
131 CCATCGTTTCATTGCACGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCA-G
12268873 CCTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTT
195 CCTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTT
12268938 AAATTAATTTAAATTTATTTGATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAG
260 AAATTAATTTAAATTTATTTGATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAG
12269003 CATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTATTTTTAATTATTATTATTAT
325 CATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTATTTTTAATTATTATTATTAT
*
12269068 TATATATTTTTATTTACAATTAATCAAATTAATTAAAATTAAATTAAAAAAATTAAAAAAATAAA
390 TATATATTTTTATTTACAATTAATCAAATTAATTAAAATTAAATTAAAAAAATAAAAAAAATAAA
12269133 AATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGC
455 AATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGC
12269198 TTGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGG
520 TTGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGG
12269263 AAAACACTAAAGGAGAGGGGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATGGGT
585 AAAACACTAAAGGAGAGGGGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATGGGT
12269328 CGAAACTCAAGTTTTGAACTCGTGCGTCTTCGAGACCCGAGCATTCACCCTTCCGACGTCCCAGA
650 CGAAACTCAAGTTTTGAACTCGTGCGTCTTCGAGACCCGAGCATTCACCCTTCCGACGTCCCAGA
*
12269393 TCAGCCTTCCTGCCACGGTTCATACCCTTGTGAGGTATTGTCCATTCTGGCCTCTATGGCCTCAC
715 TCAGCCTTCCTGCCACGGTTCATACCCTTGTGAGGTATTGTCCACTCTGGCCTCTATGGCCTCAC
*
12269458 GATTTTGTCCTACAAAAGACGCCTCACAAAGCGGAGGTGGTGTGAACCCTTTTATACCACAGTGA
780 GATTTTGTCCTACAAAAGACGCCTCACAAAGCGGAGGTGGTGTGAACCCTTTTATACCCCAGTGA
12269523 CCCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAAGTCCGTGACATTCTCCCGCACC
845 CCCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAAGTCCGTGACATTCTCCCGCACC
12269588 CAACCTCGTGACGCCCTCGTCACGGAGGCTGGCCACCCTGTCTACCTCCCTCGAGGTACTTAGCG
910 CAACCTCGTGACGCCCTCGTCACGGAGGCTGGCCACCCTGTCTACCTCCCTCGAGGTACTTAGCG
12269653 TGGATCGAACGGT
975 TGGATCGAACGGT
*
12269666 TTAGGTGGGGAATAAACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
1 TTAGGTGGGGAATAGACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
12269731 TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
66 TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
12269796 CCATCGTTTCATTGCACGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCAGC
131 CCATCGTTTCATTGCACGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCAGC
12269861 CTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTTA
196 CTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTTA
12269926 AATTAATTTAAATTTATTTGATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAGC
261 AATTAATTTAAATTTATTTGATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAGC
12269991 ATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTATTTTTAATTATTATTATTATT
326 ATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTATTTTTAATTATTATTATTATT
12270056 ATATATTTTTATTTACAATTAATCAAATTAATTAAAATTAAATTAAAAAAATAAAAAAAATAAAA
391 ATATATTTTTATTTACAATTAATCAAATTAATTAAAATTAAATTAAAAAAATAAAAAAAATAAAA
12270121 ATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGCT
456 ATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGCT
12270186 TGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGGA
521 TGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGGA
12270251 AAACACTAAAGGAGA-GGGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATGGGTC
586 AAACACTAAAGGAGAGGGGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATGGGTC
12270315 GAAACTCAAGTTTTGAACTCGTGCGTCTTCGAGA-CCGAGCATTCACCCTTCCGACGTCCCAGAT
651 GAAACTCAAGTTTTGAACTCGTGCGTCTTCGAGACCCGAGCATTCACCCTTCCGACGTCCCAGAT
12270379 CAGCCTTCCTGCCACGGTTCATACCCTTGTGAGGTATTGTCCACTCTGGCCTCTATGGCCTCACG
716 CAGCCTTCCTGCCACGGTTCATACCCTTGTGAGGTATTGTCCACTCTGGCCTCTATGGCCTCACG
12270444 ATTTTGTCCTACAAAAGACGCCTCACAAAGCGGAGGTGGTGTGAACCCTTTTATACCCCAGTGAC
781 ATTTTGTCCTACAAAAGACGCCTCACAAAGCGGAGGTGGTGTGAACCCTTTTATACCCCAGTGAC
12270509 CCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAAGTCCGTGACATTCTCCCGCACCC
846 CCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAAGTCCGTGACATTCTCCCGCACCC
* *
12270574 AACCTCGTGACGCCCTCGTCACGAAGGCTGGCCACCCTATCTACCTCCCTCGAGGTACTTAGCGT
911 AACCTCGTGACGCCCTCGTCACGGAGGCTGGCCACCCTGTCTACCTCCCTCGAGGTACTTAGCGT
12270639 GGATCGAACGGT
976 GGATCGAACGGT
12270651 TTAGGTGGGGAATAGACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
1 TTAGGTGGGGAATAGACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
12270716 TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
66 TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
12270781 CCATCGTTTCATTGCACGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCAGC
131 CCATCGTTTCATTGCACGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCAGC
12270846 CTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTTA
196 CTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTTA
*
12270911 AATTAATTTAAATTTATTTCATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAGC
261 AATTAATTTAAATTTATTTGATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAGC
12270976 ATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTATTTTTAATTATTATTATTATT
326 ATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTATTTTTAATTATTATTATTATT
*
12271041 ATATATTTTTATTTACAATTAATCAAATTAATTAAAATTAAACTAAAAAAATAAAAAAAATAAAA
391 ATATATTTTTATTTACAATTAATCAAATTAATTAAAATTAAATTAAAAAAATAAAAAAAATAAAA
12271106 ATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGCT
456 ATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGCT
12271171 TGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGGA
521 TGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGGA
12271236 AAACACTAAAGGAGAGGGGGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATGGGT
586 AAACACTAAAGGAGA-GGGGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATGGGT
12271301 CGAAACTCAAGTTTTGAACTCGTGCGTCTTCGAGACCCGAGCATTCACCCTTCCGACGTCCCAGA
650 CGAAACTCAAGTTTTGAACTCGTGCGTCTTCGAGACCCGAGCATTCACCCTTCCGACGTCCCAGA
*
12271366 TCAGCCTTCCTGTCACGGTTCATACCCTTGTGAGGTATTGTCCACTCTGGCCTCTATGGCCTCAC
715 TCAGCCTTCCTGCCACGGTTCATACCCTTGTGAGGTATTGTCCACTCTGGCCTCTATGGCCTCAC
12271431 GATTTTGTCCTACAAAAGACGCCTCACAAAGCGGAGGTGGTGTGAACCCTTTTATACCCCAGTGA
780 GATTTTGTCCTACAAAAGACGCCTCACAAAGCGGAGGTGGTGTGAACCCTTTTATACCCCAGTGA
12271496 CCCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAAGTCCGTGACATTCTCCCGCACC
845 CCCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAAGTCCGTGACATTCTCCCGCACC
12271561 CAACCTCGTGACGCCCTCGTCACGGAGGCTGGCCACCCTGTCTACCTCCCTCGAGGTACTTAGCG
910 CAACCTCGTGACGCCCTCGTCACGGAGGCTGGCCACCCTGTCTACCTCCCTCGAGGTACTTAGCG
12271626 TGGATCGAACGGT
975 TGGATCGAACGGT
*
12271639 TTAGGTGGGGAATAAACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
1 TTAGGTGGGGAATAGACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
12271704 TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
66 TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
12271769 CCATCGTTTCATTGCACGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCAGC
131 CCATCGTTTCATTGCACGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCAGC
12271834 CTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTTA
196 CTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTTA
*
12271899 AATTAATTTAAATTAATTTGATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAGC
261 AATTAATTTAAATTTATTTGATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAGC
12271964 ATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTATTTTTAATTATTATTATTATT
326 ATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTATTTTTAATTATTATTATTATT
12272029 ATATATTTTTATTTACAATTAATCAAATTAATTAAAATTAAATTAAAAAAATAAAAAAAATAAAA
391 ATATATTTTTATTTACAATTAATCAAATTAATTAAAATTAAATTAAAAAAATAAAAAAAATAAAA
12272094 ATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGCT
456 ATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGCT
12272159 TGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGGA
521 TGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGGA
12272224 AAACACTAAAGGAGAGGGGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATGGGTC
586 AAACACTAAAGGAGAGGGGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATGGGTC
12272289 GAAACTCAAGTTTTGAACTCGTGCGTCTTCGAGACCCGAGCATTCACCCTTCCGACGTCCCAGAT
651 GAAACTCAAGTTTTGAACTCGTGCGTCTTCGAGACCCGAGCATTCACCCTTCCGACGTCCCAGAT
* *
12272354 CAGCCTTCCTGCCACGGTTCATACCCTTGTGAGGTATTGTCCATTCTGGCCTCTATTGCCTCACG
716 CAGCCTTCCTGCCACGGTTCATACCCTTGTGAGGTATTGTCCACTCTGGCCTCTATGGCCTCACG
12272419 ATTTTGTCCTACAAAAGACGCCTCACAAAGCGGAGGTGGTGTGAACCCTTTTATACCCCAGTGAC
781 ATTTTGTCCTACAAAAGACGCCTCACAAAGCGGAGGTGGTGTGAACCCTTTTATACCCCAGTGAC
12272484 CCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAAGTCCGTGACATTCTCCCGCACCC
846 CCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAAGTCCGTGACATTCTCCCGCACCC
12272549 AACCTCGTGACGCCCTCGTCACGGAGGCTGGCCACCCTGTCTACCTCCCTCGAGGTACTTAGCGT
911 AACCTCGTGACGCCCTCGTCACGGAGGCTGGCCACCCTGTCTACCTCCCTCGAGGTACTTAGCGT
12272614 GGATCGAACGGT
976 GGATCGAACGGT
*
12272626 TTAGGTGGGGAATAAACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
1 TTAGGTGGGGAATAGACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
12272691 TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
66 TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
12272756 CCATCGTTTCATTGCACGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCAGC
131 CCATCGTTTCATTGCACGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCAGC
12272821 CTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTTA
196 CTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTTA
12272886 AATTAATTTAAATTTATTTGATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAGC
261 AATTAATTTAAATTTATTTGATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAGC
12272951 ATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTATTTTT-ATTATTATTATTATT
326 ATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTATTTTTAATTATTATTATTATT
12273015 ATAT-TTTTTATTTACAATTAATCAAATTAATTAAAATTAAATTAAAAAAATAAAAAAAAATAAA
391 ATATATTTTTATTTACAATTAATCAAATTAATTAAAATTAAATTAAAAAAAT-AAAAAAAATAAA
12273079 AATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGC
455 AATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGC
12273144 TTGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGG
520 TTGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGG
12273209 AAAACACTAAAGGAGAGGGGGGGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATG
585 AAAACACTAAAGGAGA---GGGGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATG
12273274 GGTCGAAACTCAAGTTTTGAACTCGTGCGTCTTCGAGACCCGAGCATTCACCCTTCCGACGTCCC
647 GGTCGAAACTCAAGTTTTGAACTCGTGCGTCTTCGAGACCCGAGCATTCACCCTTCCGACGTCCC
12273339 AGATCAGCCTTCCTGCCACGGTTCATACCCTTGTGAGGTATTGTCCACTCTGGCCTCTATGGCCT
712 AGATCAGCCTTCCTGCCACGGTTCATACCCTTGTGAGGTATTGTCCACTCTGGCCTCTATGGCCT
12273404 CACGATTTTGTCCTACAAAAGACGCCTCACAAAGCGGAGGTGGTGTGAACCCTTTTATACCCCAG
777 CACGATTTTGTCCTACAAAAGACGCCTCACAAAGCGGAGGTGGTGTGAACCCTTTTATACCCCAG
12273469 TGACCCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAAGTCCGTGACATTCTCCCGC
842 TGACCCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAAGTCCGTGACATTCTCCCGC
12273534 ACCCAACCTCGTGACGCCCTCGTCACGGAGGCTGGCCACCCTGTCTACCTCCCTCGAGGTACTTA
907 ACCCAACCTCGTGACGCCCTCGTCACGGAGGCTGGCCACCCTGTCTACCTCCCTCGAGGTACTTA
12273599 GCGTGGATCGAACGGT
972 GCGTGGATCGAACGGT
12273615 TTAGGTGGGGAATAGACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
1 TTAGGTGGGGAATAGACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
12273680 TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
66 TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
*
12273745 CCATCGTTTCATTGCCCGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCAGC
131 CCATCGTTTCATTGCACGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCAGC
12273810 CTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTTA
196 CTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTTA
12273875 AATTAATTTAAATTTATTTGATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAGC
261 AATTAATTTAAATTTATTTGATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAGC
12273940 ATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTATTTTTAATTATTATTATTATT
326 ATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTATTTTTAATTATTATTATTATT
12274005 ATATATTTTTATTTACAATTAATCAAATTAATTAAAATTAAATTAAAAAAATAAAAAAAATAAAA
391 ATATATTTTTATTTACAATTAATCAAATTAATTAAAATTAAATTAAAAAAATAAAAAAAATAAAA
12274070 ATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGCT
456 ATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGCT
12274135 TGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGGA
521 TGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGGA
12274200 AAACACTAAAGGAGA--GGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATGGGTC
586 AAACACTAAAGGAGAGGGGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATGGGTC
* *
12274263 GAAACTCAAGCTTTGAACTCGTGCGTCTTCGAGACCCGGGCATTCACCCTTCCGACGTCCCAGAT
651 GAAACTCAAGTTTTGAACTCGTGCGTCTTCGAGACCCGAGCATTCACCCTTCCGACGTCCCAGAT
*
12274328 CAGCCTTCCTGCCACGGTTCATACCCTTGTGAGGTATTGTCCACTCTGGCCCCTATGGCCTCACG
716 CAGCCTTCCTGCCACGGTTCATACCCTTGTGAGGTATTGTCCACTCTGGCCTCTATGGCCTCACG
* *
12274393 ATTTTGTCCTATAAAAGACGCCTCACAAAACGGAGGTGGTGTGAACCCTTTTATACCCCAGTGAC
781 ATTTTGTCCTACAAAAGACGCCTCACAAAGCGGAGGTGGTGTGAACCCTTTTATACCCCAGTGAC
*
12274458 CCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAGGTCCGTGACATTCTCCCGCACCC
846 CCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAAGTCCGTGACATTCTCCCGCACCC
*
12274523 AACCTCGTGACACCCTCGTCACGGAGGCTGGCCACCCTGTCTACCTCCCTCGAGGTACTTAGCGT
911 AACCTCGTGACGCCCTCGTCACGGAGGCTGGCCACCCTGTCTACCTCCCTCGAGGTACTTAGCGT
*
12274588 GGATTGAACGGT
976 GGATCGAACGGT
12274600 TTAGG
1 TTAGG
12274605 GCTGGCTCTG
Statistics
Matches: 7847, Mismatches: 39, Indels: 29
0.99 0.00 0.00
Matches are distributed among these distances:
985 1481 0.19
986 1511 0.19
987 2174 0.28
988 1543 0.20
989 914 0.12
990 177 0.02
991 47 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (987 bp):
TTAGGTGGGGAATAGACATTTTGAATATTTGTCAAATTAAGAATTCCAATTTTGAATATTAGGCT
TTTGACCAACATCCAAGTTTAATGCCAATCAAAATGGAAAATCGGTAAAGTGAAAGTTCTCTGGT
CCATCGTTTCATTGCACGCGAGCCAGAGAGACCACAAATTGCAGAGTTGTGTTTCCCAAATCAGC
CTCTAATTCTTCTTAAGGCTATTTTAATATCGGTTATAAAAATTATAGATACTTAATTTTATTTA
AATTAATTTAAATTTATTTGATTTTTATCTTTAATTTACATAATCTTATTTGAGTTGATTTAAGC
ATTAAATCGAATTGAATTAGTTCAAATTTAATTCGGATTAATTATTTTTAATTATTATTATTATT
ATATATTTTTATTTACAATTAATCAAATTAATTAAAATTAAATTAAAAAAATAAAAAAAATAAAA
ATCATGCTGGCAATTCAGGCCATATAAGGCTAATATTTTCAGGCACTACCTTGCAATTAGGAGCT
TGAGCTTAACTACCTTAGAATTTTTGTCAATTATGGAGATTTACAAATTAAAAAGACTAAAGGGA
AAACACTAAAGGAGAGGGGGGGGGAGGTTCCAACATCCATTCTTTTCCTGCAAGTGTCATGGGTC
GAAACTCAAGTTTTGAACTCGTGCGTCTTCGAGACCCGAGCATTCACCCTTCCGACGTCCCAGAT
CAGCCTTCCTGCCACGGTTCATACCCTTGTGAGGTATTGTCCACTCTGGCCTCTATGGCCTCACG
ATTTTGTCCTACAAAAGACGCCTCACAAAGCGGAGGTGGTGTGAACCCTTTTATACCCCAGTGAC
CCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAAGTCCGTGACATTCTCCCGCACCC
AACCTCGTGACGCCCTCGTCACGGAGGCTGGCCACCCTGTCTACCTCCCTCGAGGTACTTAGCGT
GGATCGAACGGT
Found at i:12274941 original size:371 final size:371
Alignment explanation
Indices: 12274252--12275251 Score: 1453
Period size: 371 Copynumber: 2.7 Consensus size: 371
12274242 TTCCTGCAAG
* * * * * * *
12274252 TGTCATGGGTCGAAACTCAAGCTTTGAACTCGTGCGTCTTCGAGACCCGGGCATTCACCCTTCCG
1 TGTCACGGGTCGAGACTCAAGCTCTGAACTCGCGCGGCTCCGGGACCCGGGCATTCACCCTTCCG
* *
12274317 ACGTCCCAGATCAGCCTTCCTGCCACGGTTCATACCCTTGTGAGGTATTGTCCACTCTGGCCCCT
66 ACGTCCCAGATCAGCCTTCCTGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCT
* * ** **
12274382 ATGGCCTCACGATTTTGTCCTATAAAAGACGCCTCACAAAACGGAGGTGGTGTGAACCCTTTTAT
131 ATGACCTCACGATTTTGTCCTACAAAAGGTGCCTCACAAGGCGGAGGTGGTGTGAACCCTTTTAT
* * *
12274447 ACCCCAGTGACCCTCTTATTATGTTCGATGTGGGATTCAGGACTCTTTTTTAGGTCCGTGACATT
196 ACCCCAGTGACCTTCCTATTATGTTCGATGTGGGATTCAGGACTCTTTCTTAGGTCCGTGACATT
*
12274512 CTCCCGCACCCAACCTCGTGACACCCTCGTCACGGAGGCTGGCCACCCTGTCTACCTCCCTCGAG
261 CTCCCGCACCCAACCTCGTGACACCCTCGTCACGGAGGCTGACCACCCTGTCTACCTCCCTCGAG
* * *
12274577 GTACTTAGCGTGGATTGAACGGTTTAGGGCTGGCTCTGATACCACT
326 GTACTTAGCGTGGATCGAACGGTTTAGGACTGACTCTGATACCACT
* *
12274623 TGTCACGGGTCGAGACTTAAGCTCTAAACTCGCGCGGCTCCGGGACCCGGGCATTCACCCTTCCG
1 TGTCACGGGTCGAGACTCAAGCTCTGAACTCGCGCGGCTCCGGGACCCGGGCATTCACCCTTCCG
12274688 ACGTCCCAGATCAGCCTTCCTGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCT
66 ACGTCCCAGATCAGCCTTCCTGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCT
* * *
12274753 ATGACCTCACGGTTTTGTCCTACAAAAGGTGCCTCACAAGGCGGAGGTGGTGTAAACCTTTTTAT
131 ATGACCTCACGATTTTGTCCTACAAAAGGTGCCTCACAAGGCGGAGGTGGTGTGAACCCTTTTAT
* * *
12274818 ACCCCAGTGACCTTCCTATTATGTTCGATGTGGAATTTAGAACTCTTTCTTAGGTCCGTGACATT
196 ACCCCAGTGACCTTCCTATTATGTTCGATGTGGGATTCAGGACTCTTTCTTAGGTCCGTGACATT
* ** * *
12274883 TTCCCGCACCCAACCTCGTGACGTCCTCGTTATGGAGGCTGACCACCCTG-CTTACCTCCCTCGA
261 CTCCCGCACCCAACCTCGTGACACCCTCGTCACGGAGGCTGACCACCCTGTC-TACCTCCCTCGA
* * *
12274947 GGTGCTTGGCGTGGATCGAACGGTTTAGGACTGACTTTGATACCACT
325 GGTACTTAGCGTGGATCGAACGGTTTAGGACTGACTCTGATACCACT
* * * * *
12274994 TGTCACGGATCGAGACTCAAGCTCCGAACCCGCGCAGCTCCGGGACCTGGGCATTCACCCTTCCG
1 TGTCACGGGTCGAGACTCAAGCTCTGAACTCGCGCGGCTCCGGGACCCGGGCATTCACCCTTCCG
* * * * * * * *
12275059 GCGTCCCAGATCAACCTTCCTGCCACGGTTCACACCCTTGAGAGGTATTATCCGTTTTGACCCCC
66 ACGTCCCAGATCAGCCTTCCTGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCT
* * ** *
12275124 ATGACCTCACGATTTTGTCCTACAAACGGTGCCTCACAAGGCGAAAATGGTATGAACCCTTTTAT
131 ATGACCTCACGATTTTGTCCTACAAAAGGTGCCTCACAAGGCGGAGGTGGTGTGAACCCTTTTAT
** *
12275189 ACCTTAGTGACCTTCCTATTATGTTCGATGTGGGATTCAGGACTCTTCCTTAGGTCCGTGACA
196 ACCCCAGTGACCTTCCTATTATGTTCGATGTGGGATTCAGGACTCTTTCTTAGGTCCGTGACA
12275252 CAAGCACCAA
Statistics
Matches: 561, Mismatches: 67, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
370 1 0.00
371 560 1.00
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.27
Consensus pattern (371 bp):
TGTCACGGGTCGAGACTCAAGCTCTGAACTCGCGCGGCTCCGGGACCCGGGCATTCACCCTTCCG
ACGTCCCAGATCAGCCTTCCTGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCCCT
ATGACCTCACGATTTTGTCCTACAAAAGGTGCCTCACAAGGCGGAGGTGGTGTGAACCCTTTTAT
ACCCCAGTGACCTTCCTATTATGTTCGATGTGGGATTCAGGACTCTTTCTTAGGTCCGTGACATT
CTCCCGCACCCAACCTCGTGACACCCTCGTCACGGAGGCTGACCACCCTGTCTACCTCCCTCGAG
GTACTTAGCGTGGATCGAACGGTTTAGGACTGACTCTGATACCACT
Found at i:12278732 original size:16 final size:18
Alignment explanation
Indices: 12278711--12278749 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
12278701 ATAGTGTAAA
*
12278711 AAAAAGGA-AAA-CAAAG
1 AAAAAGGAGAAATAAAAG
12278727 AAAAAGGAGAAATAAAAG
1 AAAAAGGAGAAATAAAAG
12278745 AAAAA
1 AAAAA
12278750 TACTGTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 3 0.15
18 9 0.45
ACGTcount: A:0.77, C:0.03, G:0.18, T:0.03
Consensus pattern (18 bp):
AAAAAGGAGAAATAAAAG
Found at i:12284097 original size:146 final size:147
Alignment explanation
Indices: 12283926--12284289 Score: 455
Period size: 147 Copynumber: 2.4 Consensus size: 147
12283916 AAAACAAAAT
* *
12283926 TCAAGAAAGTAGAATGCTAAAGTTGAAGTCAAATGTTTCCAAAAAGGAAAAGCAAAGAAAGAAAT
1 TCAATAAAGTAGAATGCTAAAGTTGAAGTCAAATGTTTCCAAAAAGGAAAAGCAAAGAAAGAAAG
*
12283991 ATATACACCTCGA-AGATAAGGATCCAAGGCAAAAAATAAATAAAGCTTCAATTAGAATCCCAAG
66 ATATACACCT-GAGAGATAAGGATCCAAGACAAAAAATAAATAAAGCTTCAATTAGAATCCCAAG
*
12284055 TAAAAAAGAATATAGAAA
130 TAAAAAAGAACATAGAAA
** * * * *
12284073 TCAATAAAGTAGAACACT-AAGTTGAAGTTAGATGTTTCCAAAAAGAAAAAAGTAAAGAAAGAAA
1 TCAATAAAGTAGAATGCTAAAGTTGAAGTCAAATGTTTCCAAAAAG-GAAAAGCAAAGAAAGAAA
* * * * * * * *
12284137 GATATGCACCTTAGAGATAAGGATCCAAGACAAAAAATGAATAAAGTTTTAGTTAGAATTCTAAG
65 GATATACACCTGAGAGATAAGGATCCAAGACAAAAAATAAATAAAGCTTCAATTAGAATCCCAAG
* *
12284202 TAAAAAGGAACATAGAAT
130 TAAAAAAGAACATAGAAA
12284220 TC-ATGAAAGTAGAATGCTAAAGTTGAAGTCAAATGTTTTCAAACAAAAAGGAAAAGCAAAGAAA
1 TCAAT-AAAGTAGAATGCTAAAGTTGAAGTCAAATG-TTTC---CAAAAAGGAAAAGCAAAGAAA
*
12284284 GGAAGA
61 GAAAGA
12284290 CATGCTGTTC
Statistics
Matches: 182, Mismatches: 27, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
146 28 0.15
147 112 0.62
148 14 0.08
149 4 0.02
151 17 0.09
152 7 0.04
ACGTcount: A:0.52, C:0.10, G:0.18, T:0.20
Consensus pattern (147 bp):
TCAATAAAGTAGAATGCTAAAGTTGAAGTCAAATGTTTCCAAAAAGGAAAAGCAAAGAAAGAAAG
ATATACACCTGAGAGATAAGGATCCAAGACAAAAAATAAATAAAGCTTCAATTAGAATCCCAAGT
AAAAAAGAACATAGAAA
Found at i:12285752 original size:22 final size:21
Alignment explanation
Indices: 12285727--12285769 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
12285717 AATAAACAGA
12285727 AAAGAGAAAAAAAAGAATAAAG
1 AAAGAGAAAAAAAA-AATAAAG
*
12285749 AAAGAGAAAAATAAAATAAAG
1 AAAGAGAAAAAAAAAATAAAG
12285770 GTAAAAAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (21 bp):
AAAGAGAAAAAAAAAATAAAG
Found at i:12285758 original size:21 final size:22
Alignment explanation
Indices: 12285727--12285769 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
12285717 AATAAACAGA
12285727 AAAGAGAAAAAA-AAGAATAAAG
1 AAAGAGAAAAAATAA-AATAAAG
12285749 AAAGAG-AAAAATAAAATAAAG
1 AAAGAGAAAAAATAAAATAAAG
12285770 GTAAAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (22 bp):
AAAGAGAAAAAATAAAATAAAG
Found at i:12286249 original size:21 final size:22
Alignment explanation
Indices: 12286208--12286264 Score: 89
Period size: 21 Copynumber: 2.6 Consensus size: 22
12286198 GTTTGTACTT
12286208 TAAGCTCAGATTAGTTGGCACC
1 TAAGCTCAGATTAGTTGGCACC
*
12286230 TAAGCTCAGATTAG-TGGCACT
1 TAAGCTCAGATTAGTTGGCACC
*
12286251 TAAGCTTAGATTAG
1 TAAGCTCAGATTAG
12286265 CTAGCACCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
21 19 0.58
22 14 0.42
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (22 bp):
TAAGCTCAGATTAGTTGGCACC
Found at i:12286550 original size:49 final size:48
Alignment explanation
Indices: 12286495--12286623 Score: 134
Period size: 49 Copynumber: 2.6 Consensus size: 48
12286485 AAAACACTTT
*
12286495 AGATTTTAAAGTTTCAAAGCCTCTGTTTAGGAGAAGCTATTTTCAAATA
1 AGATTTTAAAG-TTCAAAGCCTCTGTTTAGGAGAAGCTATTTTCAAACA
* * * ** *
12286544 AGATTTTTAAGTTCTAAAGCTTTTGTTTAGG-GGGGCTATTTTCAGACA
1 AGATTTTAAAGTTC-AAAGCCTCTGTTTAGGAGAAGCTATTTTCAAACA
* * *
12286592 AAATTTTTAAAGTCCAAAGCCTCTTTTTAGGA
1 AGA-TTTTAAAGTTCAAAGCCTCTGTTTAGGA
12286624 AGAGTCATTG
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
48 31 0.48
49 33 0.52
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (48 bp):
AGATTTTAAAGTTCAAAGCCTCTGTTTAGGAGAAGCTATTTTCAAACA
Found at i:12286611 original size:48 final size:50
Alignment explanation
Indices: 12286498--12286623 Score: 141
Period size: 48 Copynumber: 2.6 Consensus size: 50
12286488 ACACTTTAGA
* * *
12286498 TTTTAAAGTTTCAAAGCCTCTGTTTAGGAGAAGCTATTTTCAAATAAGAT
1 TTTTAAAGTTCCAAAGCCTCTGTTTAGGAGAAGCTATTTTCAAACAAAAT
* * * ** *
12286548 TTTT-AAGTTCTAAAGCTTTTGTTTAGG-GGGGCTATTTTCAGACAAAAT
1 TTTTAAAGTTCCAAAGCCTCTGTTTAGGAGAAGCTATTTTCAAACAAAAT
*
12286596 TTTTAAAG-TCCAAAGCCTCTTTTTAGGA
1 TTTTAAAGTTCCAAAGCCTCTGTTTAGGA
12286624 AGAGTCATTG
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
48 35 0.57
49 22 0.36
50 4 0.07
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (50 bp):
TTTTAAAGTTCCAAAGCCTCTGTTTAGGAGAAGCTATTTTCAAACAAAAT
Found at i:12286785 original size:8 final size:8
Alignment explanation
Indices: 12286772--12286823 Score: 74
Period size: 8 Copynumber: 6.9 Consensus size: 8
12286762 TTAAATTAAA
12286772 AAAATAAC
1 AAAATAAC
12286780 AAAATAAC
1 AAAATAAC
12286788 AAAAT-A-
1 AAAATAAC
*
12286794 AAAAGAA-
1 AAAATAAC
12286801 AAAATAAC
1 AAAATAAC
12286809 AAAATAAC
1 AAAATAAC
12286817 AAAATAA
1 AAAATAA
12286824 AACTTTTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 4 0.10
7 8 0.20
8 28 0.70
ACGTcount: A:0.79, C:0.08, G:0.02, T:0.12
Consensus pattern (8 bp):
AAAATAAC
Found at i:12286803 original size:29 final size:29
Alignment explanation
Indices: 12286770--12286825 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
12286760 CATTAAATTA
12286770 AAAAAATAACAAAATAACAAAATAAAAAG
1 AAAAAATAACAAAATAACAAAATAAAAAG
12286799 AAAAAATAACAAAATAACAAAATAAAA
1 AAAAAATAACAAAATAACAAAATAAAA
12286826 CTTTTGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.11
Consensus pattern (29 bp):
AAAAAATAACAAAATAACAAAATAAAAAG
Found at i:12287081 original size:3 final size:3
Alignment explanation
Indices: 12287060--12287158 Score: 180
Period size: 3 Copynumber: 33.0 Consensus size: 3
12287050 ATTTGTAATT
* *
12287060 TTA TTG TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12287108 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12287156 TTA
1 TTA
12287159 ATCAAATTAA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 92 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:12291784 original size:3 final size:3
Alignment explanation
Indices: 12291776--12291822 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
12291766 CAAAAAACCA
* *
12291776 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAA AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
12291822 A
1 A
12291823 GCTTGGCCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:12292780 original size:3 final size:3
Alignment explanation
Indices: 12292772--12292809 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
12292762 CATGCAACTC
12292772 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
12292810 CCTTGCCTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:12293603 original size:47 final size:45
Alignment explanation
Indices: 12293552--12293649 Score: 137
Period size: 47 Copynumber: 2.2 Consensus size: 45
12293542 TCTCTTTTCA
* *
12293552 ATTTCTAAAATTTTC-GCCATTTGGGTCTATTTAGAAATTTCTTTTT
1 ATTTCTAAAATTTTCTACCATTTGAGTCTATTTAGAAA-TT-TTTTT
12293598 GATTTCT-AAATTTTCTACCATTTGAGTCTATTTAGAAATTTTTTT
1 -ATTTCTAAAATTTTCTACCATTTGAGTCTATTTAGAAATTTTTTT
12293643 ATTTCTA
1 ATTTCTA
12293650 TTTAGAAAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
44 6 0.13
45 5 0.11
46 10 0.21
47 26 0.55
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (45 bp):
ATTTCTAAAATTTTCTACCATTTGAGTCTATTTAGAAATTTTTTT
Found at i:12295324 original size:43 final size:43
Alignment explanation
Indices: 12295130--12295716 Score: 537
Period size: 43 Copynumber: 13.5 Consensus size: 43
12295120 TTTCACAAGT
* * ** * * * *
12295130 TTTGAGAAATAAATAAGGCTTATTTAAGCAGAGGCTCAACGAGT
1 TTTGAAAAATAAATAAAGCTCCTCTAAGTAGAGGCTCAATGA-C
* **
12295174 TTTGAAAAATAAATAAAGCTCTTCTAAGTAGAGGCTCAACAAC
1 TTTGAAAAATAAATAAAGCTCCTCTAAGTAGAGGCTCAATGAC
* * * * * * *
12295217 TTTTAAAAAATATATGAGGCTTCTCTAAGCAGAGGCTCAATAAC
1 -TTTGAAAAATAAATAAAGCTCCTCTAAGTAGAGGCTCAATGAC
* * * *
12295261 TTTTGAATAATAAATAAAGCTCCTCTAAGCAGAGGCTTAACGAC
1 -TTTGAAAAATAAATAAAGCTCCTCTAAGTAGAGGCTCAATGAC
* * * * * * *
12295305 ATTGAAAAATAAATTAAGCTCTTTTAAGCATAGGCTCAATGAT
1 TTTGAAAAATAAATAAAGCTCCTCTAAGTAGAGGCTCAATGAC
* * *
12295348 TTTAAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAATAAC
1 TTTGAAAAATAAATAAAGCTCCTCTAAGTAGAGGCTCAATGAC
* * ** *
12295391 TTTGAAAAATAAATAAGGCTCCTCTAATTAGAGGCTCAACAATT
1 TTTGAAAAATAAATAAAGCTCCTCTAAGTAGAGGCTCAATGA-C
* * *
12295435 TTTGAAAAATAAATAAAGCTCGTCTTAGTAGAGGTTCAATGAC
1 TTTGAAAAATAAATAAAGCTCCTCTAAGTAGAGGCTCAATGAC
* * *
12295478 TTTGAAAAATAAATAAAGCTTCT-TAAAGTAGATGCTCAATGAT
1 TTTGAAAAATAAATAAAGCTCCTCT-AAGTAGAGGCTCAATGAC
* * * *
12295521 TTTGAAAAATAAATAAAGGTCCTCTAAATAGAGGCTCAACGAT
1 TTTGAAAAATAAATAAAGCTCCTCTAAGTAGAGGCTCAATGAC
* * * * *
12295564 TTTGAAAAATAAATAAGGCTCCTTTAAATAGAGGCTTAATGGC
1 TTTGAAAAATAAATAAAGCTCCTCTAAGTAGAGGCTCAATGAC
* * * * * **
12295607 TATGAAAAATAAATAAAGCTCCTCTAAATAGCGGTTTAACAAC
1 TTTGAAAAATAAATAAAGCTCCTCTAAGTAGAGGCTCAATGAC
* * ** *
12295650 TTTAGAAGAATAAATAAGGCTTTTCTAAGCAGAGGCTCAATGAC
1 TTT-GAAAAATAAATAAAGCTCCTCTAAGTAGAGGCTCAATGAC
12295694 TTTGAAAAATAAATAAAGCTCCT
1 TTTGAAAAATAAATAAAGCTCCT
12295717 TTATAATCGT
Statistics
Matches: 440, Mismatches: 98, Indels: 11
0.80 0.18 0.02
Matches are distributed among these distances:
42 1 0.00
43 266 0.60
44 173 0.39
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (43 bp):
TTTGAAAAATAAATAAAGCTCCTCTAAGTAGAGGCTCAATGAC
Found at i:12295390 original size:130 final size:130
Alignment explanation
Indices: 12295129--12295719 Score: 614
Period size: 130 Copynumber: 4.5 Consensus size: 130
12295119 GTTTCACAAG
* * ** *
12295129 TTTTGAGAAATAAATAAGGCTTATTTAAGCAGAGGCTCAACGAGTTTTGAAAAATAAATAAAGCT
1 TTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACGA-TTTTGAAAAATAAATAAAGCT
* ** * * * *
12295194 CTTCTAAGTAGAGGCTCAACAACTTTTAAAAAATATATGAGGCTTCTCTAAGCAGAGGCTCAATA
65 CTTTTAAGTAGAGGCTCAATGAC-TTTAAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAATA
12295259 AC
129 AC
* * ** *
12295261 TTTTGAATAATAAATAAAGCTCCTCTAAGCAGAGGCTTAACGACATTGAAAAATAAATTAAGCTC
1 TTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACGATTTTGAAAAATAAATAAAGCTC
* * *
12295326 TTTTAAGCATAGGCTCAATGATTTTAAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAATAAC
66 TTTTAAGTAGAGGCTCAATGACTTTAAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAATAAC
* ** *
12295391 -TTTGAAAAATAAATAAGGCTCCTCTAATTAGAGGCTCAACAATTTTTGAAAAATAAATAAAGCT
1 TTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACGA-TTTTGAAAAATAAATAAAGCT
* * * * * *
12295455 CGTCTT-AGTAGAGGTTCAATGACTTTGAAAAATAAATAAAGCTTCT-TAAAGTAGATGCTCAAT
65 C-TTTTAAGTAGAGGCTCAATGACTTTAAAAAATAAATAAAGCTCCTCT-AAGCAGAGGCTCAAT
*
12295518 GA-
128 AAC
* ** *
12295520 TTTTGAAAAATAAATAAAGGTCCTCTAAATAGAGGCTCAACGATTTTGAAAAATAAATAAGGCTC
1 TTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACGATTTTGAAAAATAAATAAAGCTC
* * * * * * ** * * * *
12295585 CTTTAAATAGAGGCTTAATGGCTATGAAAAATAAATAAAGCTCCTCTAAATAGCGGTTTAACAAC
66 TTTTAAGTAGAGGCTCAATGACTTTAAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAATAAC
* * * ** * *
12295650 TTTAGAAGAATAAATAAGGCTTTTCTAAGCAGAGGCTCAATGACTTTGAAAAATAAATAAAGCTC
1 TTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACGATTTTGAAAAATAAATAAAGCTC
*
12295715 CTTTA
66 TTTTA
12295720 TAATCGTGTC
Statistics
Matches: 382, Mismatches: 70, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
128 2 0.01
129 102 0.27
130 204 0.53
131 38 0.10
132 36 0.09
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.29
Consensus pattern (130 bp):
TTTTGAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAACGATTTTGAAAAATAAATAAAGCTC
TTTTAAGTAGAGGCTCAATGACTTTAAAAAATAAATAAAGCTCCTCTAAGCAGAGGCTCAATAAC
Found at i:12295448 original size:173 final size:171
Alignment explanation
Indices: 12295130--12295716 Score: 678
Period size: 173 Copynumber: 3.4 Consensus size: 171
12295120 TTTCACAAGT
* *
12295130 TTTGAGAAATAAATAAGGCTTATTTAAGCAGAGGCTCAACGAGTTTTGAAAAATAAATAAAGCTC
1 TTTGAAAAATAAATAAGGCTTATTTAAGCAGAGGCTCAATGA-TTTTGAAAAATAAATAAAGCTC
* * * * * **
12295195 TTCTAAGTAGAGGCTCAACAACTTTTAAAAAATATATGAGGCTTCTCTAAGCAGAGGCTCAATAA
65 CTCTAAGTAGAGGCTCAACAAC-TTTGAAAAATAAATAAGGCTCCTCTAAATAGAGGCTCAA-AA
* *
12295260 CTTTTGAATAATAAATAAAGCTCCTCTAAGCAGAGGCTTAACGAC
128 CTTTTGAAAAATAAATAAAGCTCCTCTAAGTAGAGG-TTAACGAC
* * *
12295305 ATTGAAAAATAAATTAA-GCTCT-TTTAAGCATAGGCTCAATGATTTTAAAAAATAAATAAAGCT
1 TTTGAAAAATAAA-TAAGGCT-TATTTAAGCAGAGGCTCAATGATTTTGAAAAATAAATAAAGCT
* * *
12295368 CCTCTAAGCAGAGGCTCAATAACTTTGAAAAATAAATAAGGCTCCTCTAATTAGAGGCTCAACAA
64 CCTCTAAGTAGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTCTAAATAGAGGCTCAA-AA
* * * *
12295433 TTTTTGAAAAATAAATAAAGCTCGTCTTAGTAGAGGTTCAATGAC
128 CTTTTGAAAAATAAATAAAGCTCCTCTAAGTAGAGGTT-AACGAC
* * * * * *
12295478 TTTGAAAAATAAATAAAGCTTCTTAAAGTAGATGCTCAATGATTTTGAAAAATAAATAAAGGTCC
1 TTTGAAAAATAAATAAGGCTTATTTAAGCAGAGGCTCAATGATTTTGAAAAATAAATAAAGCTCC
* * * * * **
12295543 TCTAAATAGAGGCTCAACGATTTTGAAAAATAAATAAGGCTCCTTTAAATAGAGGCTTAATGGC-
66 TCTAAGTAGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTCTAAATAGAGGCTCAA-AACT
* * * *
12295607 TATGAAAAATAAATAAAGCTCCTCTAAATAGCGGTTTAACAAC
130 TTTGAAAAATAAATAAAGCTCCTCTAAGTAGAGG-TTAACGAC
* *
12295650 TTTAGAAGAATAAATAAGGCTT-TTCTAAGCAGAGGCTCAATGACTTTGAAAAATAAATAAAGCT
1 TTT-GAAAAATAAATAAGGCTTATT-TAAGCAGAGGCTCAATGATTTTGAAAAATAAATAAAGCT
12295714 CCT
64 CCT
12295717 TTATAATCGT
Statistics
Matches: 350, Mismatches: 54, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
172 44 0.13
173 230 0.66
174 40 0.11
175 32 0.09
176 4 0.01
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (171 bp):
TTTGAAAAATAAATAAGGCTTATTTAAGCAGAGGCTCAATGATTTTGAAAAATAAATAAAGCTCC
TCTAAGTAGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTCTAAATAGAGGCTCAAAACTT
TTGAAAAATAAATAAAGCTCCTCTAAGTAGAGGTTAACGAC
Found at i:12296995 original size:81 final size:81
Alignment explanation
Indices: 12296860--12297022 Score: 326
Period size: 81 Copynumber: 2.0 Consensus size: 81
12296850 TCTCTATCCA
12296860 TCTTAGCTAATATTAATGCTCCACCTAAGAAAGCATGTTTCACAACATATGGCCCTTTCCAATTT
1 TCTTAGCTAATATTAATGCTCCACCTAAGAAAGCATGTTTCACAACATATGGCCCTTTCCAATTT
12296925 GAAGTCTACTTTCCTC
66 GAAGTCTACTTTCCTC
12296941 TCTTAGCTAATATTAATGCTCCACCTAAGAAAGCATGTTTCACAACATATGGCCCTTTCCAATTT
1 TCTTAGCTAATATTAATGCTCCACCTAAGAAAGCATGTTTCACAACATATGGCCCTTTCCAATTT
12297006 GAAGTCTACTTTCCTC
66 GAAGTCTACTTTCCTC
12297022 T
1 T
12297023 ATTATCATGT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (81 bp):
TCTTAGCTAATATTAATGCTCCACCTAAGAAAGCATGTTTCACAACATATGGCCCTTTCCAATTT
GAAGTCTACTTTCCTC
Found at i:12300172 original size:18 final size:18
Alignment explanation
Indices: 12300146--12300215 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
12300136 ATATTTCATT
* *
12300146 TGAAGAAAAAAGGAAAAA
1 TGAAAAAAAAAGAAAAAA
12300164 TGAAAAAAAAGAGAAAAAAA
1 TGAAAAAAAA-AG-AAAAAA
* *
12300184 TAAAAAACAAAATAAAAAA
1 TGAAAAA-AAAAGAAAAAA
12300203 -GAAAAAAAAAGAA
1 TGAAAAAAAAAGAA
12300216 GAAGATTCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
17 6 0.14
18 14 0.33
19 8 0.19
20 12 0.28
21 3 0.07
ACGTcount: A:0.80, C:0.01, G:0.13, T:0.06
Consensus pattern (18 bp):
TGAAAAAAAAAGAAAAAA
Found at i:12300183 original size:12 final size:12
Alignment explanation
Indices: 12300148--12300218 Score: 54
Period size: 13 Copynumber: 5.4 Consensus size: 12
12300138 ATTTCATTTG
12300148 AAGAAAAAAGGAAA
1 AAGAAAAAA--AAA
12300162 AATGAAAAAAAAGA
1 AA-GAAAAAAAA-A
12300176 GAA-AAAAATAAAA
1 -AAGAAAAA-AAAA
* *
12300189 AACAAAATAAAA
1 AAGAAAAAAAAA
12300201 AAGAAAAAAAAA
1 AAGAAAAAAAAA
12300213 GAAGAA
1 -AAGAA
12300219 GATTCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
12 16 0.33
13 17 0.35
14 6 0.12
15 9 0.19
ACGTcount: A:0.82, C:0.01, G:0.13, T:0.04
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:12300188 original size:26 final size:27
Alignment explanation
Indices: 12300148--12300210 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
12300138 ATTTCATTTG
* **
12300148 AAGAAAAAAGGAAAAATGAAAA-AAAA
1 AAGAAAAAAAGAAAAAACAAAATAAAA
* *
12300174 GAGAAAAAAATAAAAAACAAAATAAAA
1 AAGAAAAAAAGAAAAAACAAAATAAAA
12300201 AAGAAAAAAA
1 AAGAAAAAAA
12300211 AAGAAGAAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 17 0.57
27 13 0.43
ACGTcount: A:0.83, C:0.02, G:0.11, T:0.05
Consensus pattern (27 bp):
AAGAAAAAAAGAAAAAACAAAATAAAA
Found at i:12302114 original size:1 final size:1
Alignment explanation
Indices: 12302110--12302183 Score: 58
Period size: 1 Copynumber: 74.0 Consensus size: 1
12302100 AACAAAAACC
* * * ** ** * **
12302110 AAAAAAAAAAAAAACAAAACAAAAAAAAAACAAAAACCAAAAAAACCAAAACAAAAAAAGCAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
12302175 AAAAAAAAA
1 AAAAAAAAA
12302184 TCACCTTAAG
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.86, C:0.12, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:12302114 original size:7 final size:6
Alignment explanation
Indices: 12302100--12302166 Score: 61
Period size: 6 Copynumber: 11.3 Consensus size: 6
12302090 TAACTTAAAT
*
12302100 AACAAA AACCAA AA-AAA AA-AAA AAC-AA AACAAA AA-AAA AACAAA
1 AACAAA AACAAA AACAAA AACAAA AACAAA AACAAA AACAAA AACAAA
*
12302144 AACCAAAAA AACCAA AACAAA AA
1 AA-C--AAA AACAAA AACAAA AA
12302167 AAGCAAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
5 19 0.37
6 25 0.49
7 1 0.02
8 1 0.02
9 5 0.10
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
AACAAA
Found at i:12302127 original size:15 final size:15
Alignment explanation
Indices: 12302103--12302183 Score: 99
Period size: 15 Copynumber: 5.3 Consensus size: 15
12302093 CTTAAATAAC
*
12302103 AAAAACCAAAAAAAA
1 AAAAAACAAAAAAAA
12302118 AAAAAACAAAACAAAA
1 AAAAAACAAAA-AAAA
**
12302134 AAAAAACAAAAACCA
1 AAAAAACAAAAAAAA
* *
12302149 AAAAAACCAAAACAA
1 AAAAAACAAAAAAAA
*
12302164 AAAAAGCAAAAAAAA
1 AAAAAACAAAAAAAA
12302179 AAAAA
1 AAAAA
12302184 TCACCTTAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
15 42 0.74
16 15 0.26
ACGTcount: A:0.85, C:0.14, G:0.01, T:0.00
Consensus pattern (15 bp):
AAAAAACAAAAAAAA
Found at i:12302151 original size:38 final size:40
Alignment explanation
Indices: 12302100--12302180 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 40
12302090 TAACTTAAAT
12302100 AACAAAAACCAAAAAAA-AAAA-AAACAAAA-CAAAAAAAA
1 AACAAAAACCAAAAAAACAAAACAAA-AAAAGCAAAAAAAA
12302138 AACAAAAACCAAAAAAACCAAAACAAAAAAAGCAAAAAAAA
1 AACAAAAACCAAAAAAA-CAAAACAAAAAAAGCAAAAAAAA
12302179 AA
1 AA
12302181 AAATCACCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
38 17 0.44
40 8 0.21
41 14 0.36
ACGTcount: A:0.84, C:0.15, G:0.01, T:0.00
Consensus pattern (40 bp):
AACAAAAACCAAAAAAACAAAACAAAAAAAGCAAAAAAAA
Found at i:12302173 original size:9 final size:8
Alignment explanation
Indices: 12302103--12302183 Score: 75
Period size: 8 Copynumber: 10.6 Consensus size: 8
12302093 CTTAAATAAC
*
12302103 AAAAACCA
1 AAAAAACA
12302111 AAAAAA-A
1 AAAAAACA
12302118 AAAAAACA
1 AAAAAACA
12302126 AAACAAA-A
1 AAA-AAACA
12302134 AAAAAAC-
1 AAAAAACA
*
12302141 AAAAACCA
1 AAAAAACA
12302149 AAAAAAC-
1 AAAAAACA
*
12302156 -CAAAACA
1 AAAAAACA
12302163 AAAAAAGCA
1 AAAAAA-CA
12302172 AAAAAA-A
1 AAAAAACA
12302179 AAAAA
1 AAAAA
12302184 TCACCTTAAG
Statistics
Matches: 61, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
6 5 0.08
7 22 0.36
8 23 0.38
9 11 0.18
ACGTcount: A:0.85, C:0.14, G:0.01, T:0.00
Consensus pattern (8 bp):
AAAAAACA
Found at i:12304004 original size:3 final size:3
Alignment explanation
Indices: 12303996--12304041 Score: 83
Period size: 3 Copynumber: 15.0 Consensus size: 3
12303986 TGTAACTCTA
12303996 AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
12304042 GTAAAAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:12304022 original size:22 final size:22
Alignment explanation
Indices: 12303994--12304040 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
12303984 CATGTAACTC
12303994 TAAATAATAATAATAATAATAA
1 TAAATAATAATAATAATAATAA
12304016 TAAATAATAATAATAATAATAA
1 TAAATAATAATAATAATAATAA
12304038 TAA
1 TAA
12304041 TGTAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAATAATAATAATAATAATAA
Found at i:12304179 original size:14 final size:13
Alignment explanation
Indices: 12304159--12304203 Score: 63
Period size: 14 Copynumber: 3.3 Consensus size: 13
12304149 GAGAATTATT
12304159 AAATAAAAATAAA
1 AAATAAAAATAAA
12304172 ATAATAAAATATAAA
1 A-AATAAAA-ATAAA
*
12304187 AAATAATAATAAA
1 AAATAAAAATAAA
12304200 AAAT
1 AAAT
12304204 TTTAATGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 10 0.34
14 13 0.45
15 6 0.21
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAATAAAAATAAA
Found at i:12304194 original size:20 final size:21
Alignment explanation
Indices: 12304161--12304200 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
12304151 GAATTATTAA
12304161 ATAAAAATAAAATAATAAAAT
1 ATAAAAATAAAATAATAAAAT
*
12304182 ATAAAAA-ATAATAATAAAA
1 ATAAAAATAAAATAATAAAA
12304201 AATTTTAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (21 bp):
ATAAAAATAAAATAATAAAAT
Found at i:12306623 original size:18 final size:17
Alignment explanation
Indices: 12306523--12306624 Score: 61
Period size: 16 Copynumber: 6.1 Consensus size: 17
12306513 TATGTATTGC
12306523 TTATGTATTATTAT-TA-
1 TTATGTA-TATTATATAT
*
12306539 TTATGTAT-TAATATAT
1 TTATGTATATTATATAT
* * *
12306555 GTATATAT-TTATTTAT
1 TTATGTATATTATATAT
* * *
12306571 TTATTTTTGTTA-ATAT
1 TTATGTATATTATATAT
* *
12306587 TTATGTGTATTTTATTAT
1 TTATGTATATTATA-TAT
12306605 TTATGTATATATATATAT
1 TTATGTATAT-TATATAT
12306623 TT
1 TT
12306625 TTATCTTTTT
Statistics
Matches: 65, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
14 3 0.05
15 3 0.05
16 35 0.54
17 4 0.06
18 17 0.26
19 3 0.05
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (17 bp):
TTATGTATATTATATAT
Found at i:12307065 original size:26 final size:24
Alignment explanation
Indices: 12307023--12307076 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
12307013 CTGGGAGTGA
*
12307023 GAAAAATTTTTTAGAAATTTTTGG
1 GAAAAATTTTTTAGAAATTTCTGG
*
12307047 CGAAAATTTTTTCTAGAAATTTCTGG
1 -GAAAAATTTTT-TAGAAATTTCTGG
12307073 GAAA
1 GAAA
12307077 TTTCCAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.41
Consensus pattern (24 bp):
GAAAAATTTTTTAGAAATTTCTGG
Found at i:12307768 original size:59 final size:56
Alignment explanation
Indices: 12307610--12307846 Score: 244
Period size: 59 Copynumber: 3.9 Consensus size: 56
12307600 AAATAAAAAT
* *
12307610 AAAA-AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAG
1 AAAATAAATTTC-CAAAAAA-ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-T---AG
12307671 AAAAATAAATTTCCAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAG
1 -AAAATAAATTTCC---AAAAAA-ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT-AG
* * * *
12307733 -AAATAAATTTTCAAAAAAAGGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAATTTCCAAAAAAA---TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAG
12307791 AAAATCGAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAT--AAATTTCCAAAAAA-ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
12307847 CTACAAAAAA
Statistics
Matches: 154, Mismatches: 10, Indels: 25
0.81 0.05 0.13
Matches are distributed among these distances:
56 1 0.01
57 6 0.04
58 1 0.01
59 67 0.44
60 11 0.07
61 13 0.08
62 7 0.05
63 7 0.05
64 1 0.01
65 40 0.26
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (56 bp):
AAAATAAATTTCCAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAG
Found at i:12312491 original size:39 final size:39
Alignment explanation
Indices: 12312407--12312496 Score: 99
Period size: 39 Copynumber: 2.3 Consensus size: 39
12312397 GAGGCACACC
* * *
12312407 ACTTAAAAAATAAAGGCTCCTCATCAATACAGGAATACA
1 ACTTTAAAAATAAAGGCTCCTCATAAATAAAGGAATACA
* * ** *
12312446 ATTTTAAAAATAATGGCTCCTCATAAATAAAGGCTTATA
1 ACTTTAAAAATAAAGGCTCCTCATAAATAAAGGAATACA
*
12312485 GCTTTAAAAATA
1 ACTTTAAAAATA
12312497 GGTGCCCAGA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.28
Consensus pattern (39 bp):
ACTTTAAAAATAAAGGCTCCTCATAAATAAAGGAATACA
Found at i:12314163 original size:16 final size:16
Alignment explanation
Indices: 12314142--12314187 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 16
12314132 TGCATTTTTC
12314142 ATCATTTTTCTTCTTT
1 ATCATTTTTCTTCTTT
12314158 ATCATTTTTTCTT-TTT
1 ATCA-TTTTTCTTCTTT
*
12314174 -TC-TTTTTTTTCTTT
1 ATCATTTTTCTTCTTT
12314188 TTCCTTTCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 7 0.26
14 3 0.11
15 2 0.07
16 7 0.26
17 8 0.30
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (16 bp):
ATCATTTTTCTTCTTT
Found at i:12314188 original size:16 final size:16
Alignment explanation
Indices: 12314162--12314194 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12314152 TTCTTTATCA
*
12314162 TTTTTTCTTTTTTCTT
1 TTTTTTCTTTTTCCTT
12314178 TTTTTTCTTTTTCCTT
1 TTTTTTCTTTTTCCTT
12314194 T
1 T
12314195 CCCCCCTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTCTTTTTCCTT
Found at i:12322875 original size:25 final size:23
Alignment explanation
Indices: 12322828--12322881 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
12322818 CACAATATTG
12322828 TCATAAAAAATACTATCAAAATA
1 TCATAAAAAATACTATCAAAATA
*
12322851 TTATAAAAAATA-TCATACAATAATA
1 TCATAAAAAATACT-AT-CAA-AATA
12322876 TCATAA
1 TCATAA
12322882 TTAAAACATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 13 0.50
24 3 0.12
25 9 0.35
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (23 bp):
TCATAAAAAATACTATCAAAATA
Found at i:12323006 original size:24 final size:24
Alignment explanation
Indices: 12322948--12323070 Score: 92
Period size: 24 Copynumber: 5.1 Consensus size: 24
12322938 AAATTCACAC
**
12322948 AAAATATCATGC-AA-AAATATTGT
1 AAAA-ATCATGCAAATAAATATAAT
12322971 AATAAATCATGCAAATAAATATAAT
1 AA-AAATCATGCAAATAAATATAAT
* *
12322996 AAAAATTATGCAAGT-AATCATGCAA-
1 AAAAATCATGCAAATAAAT-AT--AAT
** * *
12323021 AAGTATCATGTAAATAAACATAAT
1 AAAAATCATGCAAATAAATATAAT
*
12323045 AAAAATTATGCAAATAAATATAAT
1 AAAAATCATGCAAATAAATATAAT
12323069 AA
1 AA
12323071 TAAAAATCCT
Statistics
Matches: 77, Mismatches: 15, Indels: 15
0.72 0.14 0.14
Matches are distributed among these distances:
23 14 0.18
24 38 0.49
25 21 0.27
26 4 0.05
ACGTcount: A:0.57, C:0.08, G:0.07, T:0.28
Consensus pattern (24 bp):
AAAAATCATGCAAATAAATATAAT
Found at i:12323181 original size:14 final size:14
Alignment explanation
Indices: 12323162--12323188 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12323152 CAGAAAAGAA
12323162 AAATCAAAAATAAG
1 AAATCAAAAATAAG
12323176 AAATCAAAAATAA
1 AAATCAAAAATAA
12323189 AATTAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (14 bp):
AAATCAAAAATAAG
Found at i:12323994 original size:20 final size:22
Alignment explanation
Indices: 12323932--12324001 Score: 94
Period size: 22 Copynumber: 3.3 Consensus size: 22
12323922 ACACTTTTCA
*
12323932 AAAG-TTCCCAACTTGAAATTC
1 AAAGATTCACAACTTGAAATTC
12323953 AAATG-TTCACAACTTGAAATTC
1 AAA-GATTCACAACTTGAAATTC
12323975 AAAGATTCACAA-TT-AAATTC
1 AAAGATTCACAACTTGAAATTC
12323995 AAAGATT
1 AAAGATT
12324002 TGCAAGATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
20 13 0.28
21 6 0.13
22 27 0.59
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (22 bp):
AAAGATTCACAACTTGAAATTC
Found at i:12324136 original size:19 final size:19
Alignment explanation
Indices: 12324098--12324258 Score: 94
Period size: 19 Copynumber: 8.8 Consensus size: 19
12324088 GCAAGATTTT
*
12324098 AAAGGTTCACAAGATTTGCA
1 AAAGATTCA-AAGATTTGCA
*
12324118 AAAGATTCAAAGGTTTGCA
1 AAAGATTCAAAGATTTGCA
12324137 AAAGATTCAAAGA-TT-CA
1 AAAGATTCAAAGATTTGCA
12324154 TAACAGATTC-AAGA-TT-CA
1 -AA-AGATTCAAAGATTTGCA
** *
12324172 CATTGATTC-AAGA-GT-CA
1 -AAAGATTCAAAGATTTGCA
* *
12324189 TAAAGATTCAAAGGTTTACA
1 -AAAGATTCAAAGATTTGCA
12324209 AAAGATTCAAA-A-TT-CA
1 AAAGATTCAAAGATTTGCA
* **
12324225 CAAAGATTCAAAAATGCGCA
1 -AAAGATTCAAAGATTTGCA
12324245 AAAGATTC-AAGATT
1 AAAGATTCAAAGATT
12324259 CATAAGAGAA
Statistics
Matches: 115, Mismatches: 17, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
16 2 0.02
17 33 0.29
18 21 0.18
19 47 0.41
20 12 0.10
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (19 bp):
AAAGATTCAAAGATTTGCA
Found at i:12324196 original size:17 final size:17
Alignment explanation
Indices: 12324137--12324263 Score: 87
Period size: 17 Copynumber: 7.1 Consensus size: 17
12324127 AAGGTTTGCA
12324137 AAAGATTCAAAGATTCAT
1 AAAGATTC-AAGATTCAT
*
12324155 AACAGATTCAAGATTCAC
1 AA-AGATTCAAGATTCAT
** *
12324173 ATTGATTCAAGAGTCAT
1 AAAGATTCAAGATTCAT
*
12324190 AAAGATTCAAAGGTTTACA-
1 AAAGATTC-AA-GATT-CAT
* *
12324209 AAAGATTCAAAATTCAC
1 AAAGATTCAAGATTCAT
* *
12324226 AAAGATTCAAAAATGCGCA-
1 AAAGATTC-AAGAT--TCAT
12324245 AAAGATTCAAGATTCAT
1 AAAGATTCAAGATTCAT
12324262 AA
1 AA
12324264 GAGAATTTAA
Statistics
Matches: 86, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
16 4 0.05
17 30 0.35
18 24 0.28
19 24 0.28
20 4 0.05
ACGTcount: A:0.48, C:0.14, G:0.13, T:0.25
Consensus pattern (17 bp):
AAAGATTCAAGATTCAT
Found at i:12324216 original size:36 final size:36
Alignment explanation
Indices: 12324118--12324277 Score: 144
Period size: 36 Copynumber: 4.4 Consensus size: 36
12324108 AAGATTTGCA
* **
12324118 AAAGATTCAAAGGTTTGCAAAAGATTCAAAGATTCAT
1 AAAGATTCAAAGATTCACAAAAGATTC-AAGATTCAT
** *
12324155 AACAGATTC-AAGATTCAC-ATTGATTCAAGAGTCAT
1 AA-AGATTCAAAGATTCACAAAAGATTCAAGATTCAT
* * * *
12324190 AAAGATTCAAAGGTTTACAAAAGATTCAAAATTCAC
1 AAAGATTCAAAGATTCACAAAAGATTCAAGATTCAT
* * *
12324226 AAAGATTCAAAAATGCGCAAAAGATTCAAGATTCAT
1 AAAGATTCAAAGATTCACAAAAGATTCAAGATTCAT
*
12324262 AAGAGAATTTAAAGAT
1 AA-AG-ATTCAAAGAT
12324278 AATTTTGAAA
Statistics
Matches: 96, Mismatches: 22, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
34 6 0.06
35 17 0.18
36 49 0.51
37 10 0.10
38 14 0.15
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.26
Consensus pattern (36 bp):
AAAGATTCAAAGATTCACAAAAGATTCAAGATTCAT
Found at i:12324252 original size:72 final size:72
Alignment explanation
Indices: 12324118--12324263 Score: 188
Period size: 72 Copynumber: 2.0 Consensus size: 72
12324108 AAGATTTGCA
* * * * **
12324118 AAAGATTCAAAGGTTTGCAAAAGATTCAAAGATTCATAACAGATTCAAGATTCACATTGATTCAA
1 AAAGATTCAAAGGTTTACAAAAGATTCAAAGATTCACAACAGATTCAAAATGCACAAAGATTCAA
12324183 GAGTCAT
66 GAGTCAT
*
12324190 AAAGATTCAAAGGTTTACAAAAGATTCAAA-ATTCACAA-AGATTCAAAAATGCGCAAAAGATTC
1 AAAGATTCAAAGGTTTACAAAAGATTCAAAGATTCACAACAGATTC-AAAATGCAC-AAAGATTC
*
12324253 AAGATTCAT
64 AAGAGTCAT
12324262 AA
1 AA
12324264 GAGAATTTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
70 6 0.09
71 13 0.20
72 45 0.70
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (72 bp):
AAAGATTCAAAGGTTTACAAAAGATTCAAAGATTCACAACAGATTCAAAATGCACAAAGATTCAA
GAGTCAT
Found at i:12324489 original size:24 final size:23
Alignment explanation
Indices: 12324424--12324489 Score: 55
Period size: 24 Copynumber: 2.9 Consensus size: 23
12324414 ATTGAAAGTC
*
12324424 TTAGAGATTTACATC-AAAAAAT
1 TTAGAGATTCACATCTAAAAAAT
* * **
12324446 TGAAAGATTCTTAT-TGAAAAAATT
1 TTAGAGATTCACATCT-AAAAAA-T
12324470 TTAGAGATTCACATCTAAAA
1 TTAGAGATTCACATCTAAAA
12324490 TTCAAAGATT
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
22 9 0.29
23 6 0.19
24 15 0.48
25 1 0.03
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (23 bp):
TTAGAGATTCACATCTAAAAAAT
Found at i:12324505 original size:45 final size:46
Alignment explanation
Indices: 12324304--12324589 Score: 151
Period size: 46 Copynumber: 6.4 Consensus size: 46
12324294 AAATGAAGTT
** ** *
12324304 TCTAAAATTCAAAGATTCATATTTGAAAAA-TTTTTTAGATTAACA
1 TCTAAAATTCAAAGATTTTTATTTGAAAAACTTTTAGAGATTCACA
* * * ** *
12324349 TCCAAATTTTCAAAGAGTTAAATTTG--AAA-TTGTAGAGATTCACA
1 TCTAAA-ATTCAAAGATTTTTATTTGAAAAACTTTTAGAGATTCACA
* * * * *** * * * *
12324393 TCCAAGATGCAAAGGTTCACAATTG--AAAGTCTTAGAGATTTACA
1 TCTAAAATTCAAAGATTTTTATTTGAAAAACTTTTAGAGATTCACA
* * * *
12324437 TCAAAAAATTGAAAGATTCTTA-TTGAAAAAATTTTAGAGATTCACA
1 TC-TAAAATTCAAAGATTTTTATTTGAAAAACTTTTAGAGATTCACA
* * **
12324483 TCTAAAATTCAAAGATTTTTATTTGAAAAACTTTAAGCG-TAGACA
1 TCTAAAATTCAAAGATTTTTATTTGAAAAACTTTTAGAGATTCACA
* * * *
12324528 TCCAAAATTTCAAAGATTTATATTTG--AAACTTTTAGAAATTCATA
1 TCTAAAA-TTCAAAGATTTTTATTTGAAAAACTTTTAGAGATTCACA
* *
12324573 TCTAACATTTAAAGATT
1 TCTAAAATTCAAAGATT
12324590 CGAATTTAAA
Statistics
Matches: 184, Mismatches: 49, Indels: 17
0.74 0.20 0.07
Matches are distributed among these distances:
43 15 0.08
44 54 0.29
45 51 0.28
46 64 0.35
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (46 bp):
TCTAAAATTCAAAGATTTTTATTTGAAAAACTTTTAGAGATTCACA
Found at i:12324633 original size:179 final size:179
Alignment explanation
Indices: 12324304--12324634 Score: 380
Period size: 179 Copynumber: 1.8 Consensus size: 179
12324294 AAATGAAGTT
* * * *
12324304 TCTAAAATTCAAAGATTCATATTTGAAAAATTTTTTAGATTAACATCCAAATTTTCAAAGAGTTA
1 TCTAAAATTCAAAGATTCATATTTGAAAAATCTTTAAGAGTAACATCCAAAATTTCAAAGAGTTA
* * * * * *
12324369 AATTTGAAATTGTAGAGATTCACATCCAAGATGCAAAGGTTCACAATTGAAAGTCTTAGAGATTT
66 AATTTGAAATTGTAGAAATTCACATCCAACATGCAAAGATTCACAATTGAAAGACTCAAAGATTT
12324434 ACATCAAAAAATTGAAAGATTCTTATTGAAAAAATTTTAGAGATTCACA
131 ACATCAAAAAATTGAAAGATTCTTATTGAAAAAATTTTAGAGATTCACA
** * *
12324483 TCTAAAATTCAAAGATTTTTATTTGAAAAA-CTTTAAGCGTAGACATCCAAAATTTCAAAGATTT
1 TCTAAAATTCAAAGATTCATATTTGAAAAATCTTTAAGAGTA-ACATCCAAAATTTCAAAGAGTT
* * * * ** * *
12324547 ATATTTGAAACTTTTAGAAATTCATATCTAACATTTAAAGATTC-GAATTTAAA-ACTCAAAGAT
65 AAATTTGAAA-TTGTAGAAATTCACATCCAACATGCAAAGATTCACAATTGAAAGACTCAAAGAT
* * * *
12324610 TTTCATTTAAAAATTTTAAAGATTC
129 TTACA-TCAAAAAATTGAAAGATTC
12324635 ACATCTAAAA
Statistics
Matches: 123, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
178 18 0.15
179 80 0.65
180 25 0.20
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (179 bp):
TCTAAAATTCAAAGATTCATATTTGAAAAATCTTTAAGAGTAACATCCAAAATTTCAAAGAGTTA
AATTTGAAATTGTAGAAATTCACATCCAACATGCAAAGATTCACAATTGAAAGACTCAAAGATTT
ACATCAAAAAATTGAAAGATTCTTATTGAAAAAATTTTAGAGATTCACA
Found at i:12324651 original size:21 final size:21
Alignment explanation
Indices: 12324566--12324659 Score: 64
Period size: 21 Copynumber: 4.4 Consensus size: 21
12324556 ACTTTTAGAA
* * *
12324566 ATTCATATCTAACATTTAAAG
1 ATTCACATCTAAAATTCAAAG
* *
12324587 ATTCGA-ATTTAAAACTCAAAG
1 ATTC-ACATCTAAAATTCAAAG
** * *
12324608 ATTTTCATTTAAAAATTTTAAAG
1 ATTCACATCT-AAAA-TTCAAAG
12324631 ATTCACATCTAAAATTCAAAG
1 ATTCACATCTAAAATTCAAAG
*
12324652 AATCACAT
1 ATTCACAT
12324660 TTGAAAAAAA
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
21 35 0.62
22 9 0.16
23 12 0.21
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (21 bp):
ATTCACATCTAAAATTCAAAG
Found at i:12324661 original size:44 final size:45
Alignment explanation
Indices: 12324579--12324697 Score: 125
Period size: 44 Copynumber: 2.6 Consensus size: 45
12324569 CATATCTAAC
* * * **
12324579 ATTTAAAGATTCGA-ATTTAAAACTCAAAGATTTTCATTT-AAAAA
1 ATTTAAAGATTC-ACATCTAAAATTCAAAGAATCACATTTAAAAAA
*
12324623 TTTTAAAGATTCACATCTAAAATTCAAAGAATCACATTTGAAAAAA
1 ATTTAAAGATTCACATCTAAAATTCAAAGAATCACATTT-AAAAAA
* *
12324669 ATTTAGAGATTCACATCCAAAATTTCAAA
1 ATTTAAAGATTCACATCTAAAA-TTCAAA
12324698 AATTCGCATT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
43 1 0.02
44 31 0.50
46 24 0.39
47 6 0.10
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (45 bp):
ATTTAAAGATTCACATCTAAAATTCAAAGAATCACATTTAAAAAA
Found at i:12324666 original size:22 final size:22
Alignment explanation
Indices: 12324613--12324666 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
12324603 CAAAGATTTT
* *
12324613 CATTTAAAAATTTTAAAGATTCA
1 CATTT-AAAATTTCAAAGAATCA
*
12324636 CATCTAAAA-TTCAAAGAATCA
1 CATTTAAAATTTCAAAGAATCA
12324657 CATTTGAAAA
1 CATTT-AAAA
12324667 AAATTTAGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 14 0.54
22 8 0.31
23 4 0.15
ACGTcount: A:0.50, C:0.13, G:0.06, T:0.31
Consensus pattern (22 bp):
CATTTAAAATTTCAAAGAATCA
Found at i:12324713 original size:46 final size:46
Alignment explanation
Indices: 12324618--12324713 Score: 115
Period size: 46 Copynumber: 2.1 Consensus size: 46
12324608 ATTTTCATTT
* * *
12324618 AAAAATTTTAAAGATTCACATCTAAAATTCAAAGAATCACATTTGA
1 AAAAAATTTAAAGATTCACATCCAAAATTCAAAGAATCACATTTCA
* *
12324664 AAAAAATTTAGAGATTCACATCCAAAATTTCAAA-AATTCGCA-TTCA
1 AAAAAATTTAAAGATTCACATCCAAAA-TTCAAAGAA-TCACATTTCA
12324710 AAAA
1 AAAA
12324714 GTTCAAAGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
46 33 0.77
47 10 0.23
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (46 bp):
AAAAAATTTAAAGATTCACATCCAAAATTCAAAGAATCACATTTCA
Found at i:12324936 original size:41 final size:42
Alignment explanation
Indices: 12324868--12324956 Score: 103
Period size: 41 Copynumber: 2.1 Consensus size: 42
12324858 AAAGCTCAGC
*
12324868 AACTCTAAAATATGAAATAATTCCTCTCAATAGAA-GCTATGA
1 AACTCTAAAATATGAAATAATTCCTCTCAATA-AAGGCTACGA
* * *
12324910 AACTTTAAAA-ATGAAATAGCTT-CTCTCACTAAAGGCTACGA
1 AACTCTAAAATATGAAATA-ATTCCTCTCAATAAAGGCTACGA
12324951 AACTCT
1 AACTCT
12324957 GAAAGTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
40 2 0.05
41 27 0.68
42 11 0.28
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (42 bp):
AACTCTAAAATATGAAATAATTCCTCTCAATAAAGGCTACGA
Found at i:12325033 original size:22 final size:22
Alignment explanation
Indices: 12324998--12325049 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
12324988 ATCATGACTT
12324998 AAGGTCTTGAAGATTATGCTCAG
1 AAGGTCTTGAAGATTATGCTC-G
*
12325021 AA-GTCTTGGAGATTATGCTCG
1 AAGGTCTTGAAGATTATGCTCG
12325042 AAGGTCTT
1 AAGGTCTT
12325050 ACAAATCGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 3 0.11
22 22 0.81
23 2 0.07
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (22 bp):
AAGGTCTTGAAGATTATGCTCG
Found at i:12325305 original size:32 final size:33
Alignment explanation
Indices: 12325219--12325308 Score: 101
Period size: 32 Copynumber: 2.8 Consensus size: 33
12325209 GATTCAATTA
* *
12325219 ATGCCAGCTAATCTAAGCTTAAGTCTCAATCAT
1 ATGCCAGCTAATCTAGGCTTAAATCTCAATCAT
** * * *
12325252 ATGTTAGCGAATTTAGACTTAAATCTC-ATCAT
1 ATGCCAGCTAATCTAGGCTTAAATCTCAATCAT
*
12325284 ATGCCAGCTAATCTGGGCTTAAATC
1 ATGCCAGCTAATCTAGGCTTAAATC
12325309 AAATCTTTGT
Statistics
Matches: 44, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
32 24 0.55
33 20 0.45
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (33 bp):
ATGCCAGCTAATCTAGGCTTAAATCTCAATCAT
Found at i:12326770 original size:17 final size:17
Alignment explanation
Indices: 12326740--12326777 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
12326730 TTTTTATATT
* *
12326740 TTTTCTTTCTTTTTTCA
1 TTTTCATTCCTTTTTCA
12326757 TTTTCATTCCTTTTTCA
1 TTTTCATTCCTTTTTCA
12326774 TTTT
1 TTTT
12326778 TTTTCTTGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCATTCCTTTTTCA
Found at i:12328363 original size:139 final size:138
Alignment explanation
Indices: 12327944--12328427 Score: 517
Period size: 138 Copynumber: 3.5 Consensus size: 138
12327934 AAAATATGTA
* * * * * * * * *
12327944 CAAATACATGTATTCAAAACACAATGAAAAATAAAAATTCATATTCAAAACTTATGTGCTAAAAC
1 CAAATACATGTATGCAATACATAGT-AAAAACAAGAATTTATATTCAAAAC-TATGTAC-AAAAT
* *** * * *
12328009 TAAAAAAAAAAAAATTACCCC-AAATAAATGAAATAATGTACATACAAAAATATTTACATGGATA
63 TGAAAAGGTAAAGATTGCCCCTAAACAAATGAAATAATGTACATACAAAAATATTTACATGGAT-
12328073 AAAAATGTATATG
127 -AAAATGTATATG
* * * ** **
12328086 CAAATACATGTAGGGAATACATAGTAAAAACAAGAATTCATATTCAAAACTATGTATGAAACCGA
1 CAAATACATGTATGCAATACATAGTAAAAACAAGAATTTATATTCAAAACTATGTACAAAATTGA
*
12328151 GAAGGTAAAGATTG-CCCTCAAACAAATGAAATAATGTACATACAAAAATATTTACATGGATAAA
66 AAAGGTAAAGATTGCCCCT-AAACAAATGAAATAATGTACATACAAAAATATTTACATGGATAAA
* * *
12328215 GTATTTATG
130 ATGTATATG
* * * *
12328224 CAAATACATGTATGCAACACATAGTAACAATAAGAATTTATATTTAAAACTATGTACAAAATTGA
1 CAAATACATGTATGCAATACATAGTAAAAACAAGAATTTATATTCAAAACTATGTACAAAATTGA
* * **
12328289 AAAGTGTAAAGATTGCCCCTAAACAAATGAAATAATGTAAAATA-AAAAATGTTTACATTCATAA
66 AAAG-GTAAAGATTGCCCCTAAACAAATGAAATAATGT-ACATACAAAAATATTTACATGGATAA
12328353 AATGTATATG
129 AATGTATATG
* * * *
12328363 CAAATGCATG-ATGCAATACATAGTAATAACCAGAATTTATATTCACAACTATGTACAAAATTGA
1 CAAATACATGTATGCAATACATAGTAAAAACAAGAATTTATATTCAAAACTATGTACAAAATTGA
12328427 A
66 A
12328428 GAAAAAAGAA
Statistics
Matches: 288, Mismatches: 49, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
138 118 0.41
139 74 0.26
140 54 0.19
141 23 0.08
142 19 0.07
ACGTcount: A:0.50, C:0.12, G:0.11, T:0.27
Consensus pattern (138 bp):
CAAATACATGTATGCAATACATAGTAAAAACAAGAATTTATATTCAAAACTATGTACAAAATTGA
AAAGGTAAAGATTGCCCCTAAACAAATGAAATAATGTACATACAAAAATATTTACATGGATAAAA
TGTATATG
Found at i:12329138 original size:44 final size:44
Alignment explanation
Indices: 12329084--12329223 Score: 147
Period size: 43 Copynumber: 3.1 Consensus size: 44
12329074 TGCCAATCCA
* ** *
12329084 AATAATCAAATAAATTAGTACACATGTAAAATCAAAATCTACAT
1 AATAAACAAATAGGTTAGTACACATGAAAAATCAAAATCTACAT
* * * *
12329128 AATAAACAAATAGGTTAGTATACAT-AAAAATCATAAGCTACAA
1 AATAAACAAATAGGTTAGTACACATGAAAAATCAAAATCTACAT
* * *
12329171 AATAAAAAAATAGGTTAGTGCACATGAAAAATCATAAATAATAACAT
1 AATAAACAAATAGGTTAGTACACATGAAAAATCA-AAAT-CT-ACAT
12329218 AATAAA
1 AATAAA
12329224 ACCATCCAAT
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
43 36 0.47
44 29 0.38
45 2 0.03
46 1 0.01
47 9 0.12
ACGTcount: A:0.57, C:0.11, G:0.08, T:0.24
Consensus pattern (44 bp):
AATAAACAAATAGGTTAGTACACATGAAAAATCAAAATCTACAT
Found at i:12329175 original size:43 final size:44
Alignment explanation
Indices: 12329083--12329207 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 44
12329073 ATGCCAATCC
* ** * * *
12329083 AAATAATCAAATAAATTAGTACACATGTAAAATCAAAATCTACA
1 AAATAAACAAATAGGTTAGTACACATGAAAAATCATAAGCTACA
* *
12329127 TAATAAACAAATAGGTTAGTATACAT-AAAAATCATAAGCTACA
1 AAATAAACAAATAGGTTAGTACACATGAAAAATCATAAGCTACA
* *
12329170 AAATAAAAAAATAGGTTAGTGCACATGAAAAATCATAA
1 AAATAAACAAATAGGTTAGTACACATGAAAAATCATAA
12329208 ATAATAACAT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 36 0.53
44 32 0.47
ACGTcount: A:0.56, C:0.11, G:0.09, T:0.24
Consensus pattern (44 bp):
AAATAAACAAATAGGTTAGTACACATGAAAAATCATAAGCTACA
Found at i:12329817 original size:13 final size:14
Alignment explanation
Indices: 12329799--12329835 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
12329789 AAAATCTATC
12329799 AAAATATCATAG-A
1 AAAATATCATAGCA
12329812 AAAATATCAT-GCA
1 AAAATATCATAGCA
*
12329825 ATAATATCATA
1 AAAATATCATA
12329836 ATTAAAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 1 0.05
13 20 0.95
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (14 bp):
AAAATATCATAGCA
Found at i:12329935 original size:23 final size:24
Alignment explanation
Indices: 12329903--12329958 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
12329893 AACTCCATGC
*
12329903 AAAATATCATGC-AA-AAATATCAT
1 AAAA-ATCATGCAAATAAATATAAT
12329926 AACAAATCATGCAAATAAATATAAT
1 AA-AAATCATGCAAATAAATATAAT
12329951 AAAAATCA
1 AAAAATCA
12329959 CACAAACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 9 0.31
24 10 0.34
25 10 0.34
ACGTcount: A:0.61, C:0.12, G:0.04, T:0.23
Consensus pattern (24 bp):
AAAAATCATGCAAATAAATATAAT
Found at i:12329964 original size:24 final size:25
Alignment explanation
Indices: 12329917--12329980 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
12329907 TATCATGCAA
* ** *
12329917 AAATATCATAACAAATCATGCAAAT
1 AAATATAATAACAAATCACACAAAC
12329942 AAATATAATAA-AAATCACACAAAC
1 AAATATAATAACAAATCACACAAAC
* *
12329966 AAATGTAATTACAAA
1 AAATATAATAACAAA
12329981 AATCCACAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 19 0.59
25 13 0.41
ACGTcount: A:0.61, C:0.14, G:0.03, T:0.22
Consensus pattern (25 bp):
AAATATAATAACAAATCACACAAAC
Found at i:12330073 original size:13 final size:14
Alignment explanation
Indices: 12330055--12330094 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
12330045 TAAAATAGAA
*
12330055 AAAACAAAAA-AAT
1 AAAACAAAAATAAG
12330068 AAAACAAAAATAAG
1 AAAACAAAAATAAG
*
12330082 AAATCAAAAATAA
1 AAAACAAAAATAA
12330095 AAATAAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (14 bp):
AAAACAAAAATAAG
Found at i:12330091 original size:20 final size:19
Alignment explanation
Indices: 12330064--12330121 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 19
12330054 AAAAACAAAA
*
12330064 AAAT-AAAACAAAAATAAG
1 AAATCAAAAAAAAAATAAG
12330082 AAATCAAAAATAAAAAT-A-
1 AAATCAAAAA-AAAAATAAG
12330100 AAATCAAAAAAGAAAA-AAG
1 AAATCAAAAAA-AAAATAAG
12330119 AAA
1 AAA
12330122 AACTTACGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
17 1 0.03
18 19 0.56
19 8 0.24
20 6 0.18
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.10
Consensus pattern (19 bp):
AAATCAAAAAAAAAATAAG
Found at i:12331784 original size:201 final size:200
Alignment explanation
Indices: 12331378--12331889 Score: 559
Period size: 200 Copynumber: 2.5 Consensus size: 200
12331368 TTAACCCGTT
* ** *
12331378 TGTTAAGCATCTAACTTAAAACTAATTGGCGGTAAGTGGAGAGGCCCAA-TCTGAATATAAGATT
1 TGTTAAGCATCCAACTTAAAACTAATTGGCAATAAGTGGAG-GGCCCAACT-TGAATATAAGACT
* * * *
12331442 ACAGAAAATTGAATATTTATTAGATGTGAGATAACAACACACTAACAGGCCCACTTTACGTGTAG
64 ACAGGAAATTGAATATTTATTAGATGTGGGATAACAACACACTAACAGGCCCACATAACGTGTAG
** * *
12331507 GTGGAAATGGAAGAAATTTACTACATGACAGATTTGGAAAGGGTAACAGAAAGAAATCCTGACCT
129 GTGGAAATGGAAGAAACCTACTACACGACAAATTTGGAAAGGGTAACAGAAAGAAATCCTGACCT
*
12331572 GATACCA
194 GATAACA
* *
12331579 TGTTATGCATCCAACTTAAAACTAATTAGCAATAAGTGGATGGGCCCAACTTGAATATAAGACTA
1 TGTTAAGCATCCAACTTAAAACTAATTGGCAATAAGTGGA-GGGCCCAACTTGAATATAAGACTA
* * * * * ** * * *
12331644 CAGGATATTGGATATTTATTAAATGTGGGATCAC-CCACTTTAATAGGCCCCCATAAGGTGTAGG
65 CAGGAAATTGAATATTTATTAGATGTGGGATAACAACACACTAACAGGCCCACATAACGTGTAGG
* * **
12331708 TGGAGATGGAA-AAAGCCTACTACACGACAAATTTGGAAAGGGTAATAGATGGAAATCCT-AGCT
130 TGGAAATGGAAGAAA-CCTACTACACGACAAATTTGGAAAGGGTAACAGAAAGAAATCCTGA-C-
*
12331771 TTGATAACA
192 CTGATAACA
* * ** ** *
12331780 TGTTAAGCAACC-ACTTTAAACCCATTGGTTATAAGTGGAGGGGCCCAACCT-AATTATAAGACT
1 TGTTAAGCATCCAACTTAAAACTAATTGGCAATAAGTGGA-GGGCCCAACTTGAA-TATAAGACT
* *
12331843 ATAGGAAATTGAATATTTATTAGATGTGGGATAACATCACACTAACA
64 ACAGGAAATTGAATATTTATTAGATGTGGGATAACAACACACTAACA
12331890 CCATTGAAGC
Statistics
Matches: 255, Mismatches: 49, Indels: 14
0.80 0.15 0.04
Matches are distributed among these distances:
199 6 0.02
200 140 0.55
201 107 0.42
202 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.26
Consensus pattern (200 bp):
TGTTAAGCATCCAACTTAAAACTAATTGGCAATAAGTGGAGGGCCCAACTTGAATATAAGACTAC
AGGAAATTGAATATTTATTAGATGTGGGATAACAACACACTAACAGGCCCACATAACGTGTAGGT
GGAAATGGAAGAAACCTACTACACGACAAATTTGGAAAGGGTAACAGAAAGAAATCCTGACCTGA
TAACA
Found at i:12337947 original size:12 final size:12
Alignment explanation
Indices: 12337930--12337961 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
12337920 AGATTAAAAT
12337930 AAAAAAAAAAGA
1 AAAAAAAAAAGA
*
12337942 AAAAAAGAAAGA
1 AAAAAAAAAAGA
12337954 AAAAAAAA
1 AAAAAAAA
12337962 GACAATTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:12339078 original size:35 final size:35
Alignment explanation
Indices: 12339039--12339115 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 35
12339029 AAATCACTTA
12339039 TTTGACTTACAA-TTCAACCCCAGTCATATTTT-TTC
1 TTTGACTT-CAAGTTCAACCCCAGTCAT-TTTTATTC
*
12339074 TTTGAC-TCAAGGTTCAATCCCAGTCATTTTTATTC
1 TTTGACTTCAA-GTTCAACCCCAGTCATTTTTATTC
12339109 TTTGACT
1 TTTGACT
12339116 CATGGTTTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
33 3 0.08
34 5 0.14
35 29 0.78
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.44
Consensus pattern (35 bp):
TTTGACTTCAAGTTCAACCCCAGTCATTTTTATTC
Found at i:12339116 original size:35 final size:35
Alignment explanation
Indices: 12339051--12339454 Score: 162
Period size: 35 Copynumber: 11.7 Consensus size: 35
12339041 TGACTTACAA
*
12339051 TTCAACCCCAGTCATATTTT-TTCTTTGACTCAAGG
1 TTCAATCCCAGTCAT-TTTTATTCTTTGACTCAAGG
*
12339086 TTCAATCCCAGTCATTTTTATTCTTTGACTCATGG
1 TTCAATCCCAGTCATTTTTATTCTTTGACTCAAGG
* * * * * ** **
12339121 TTTAGTCCTAATTATACTTATTCTTCAACTCATA-G
1 TTCAATCCCAGTCATTTTTATTCTTTGACTCA-AGG
* * * *
12339156 TTCAATCTCAGTCATTTTCATTCTTTGAATCACA-A
1 TTCAATCCCAGTCATTTTTATTCTTTGACTCA-AGG
*** * * **** * *
12339191 TTCAATTTTATTCATGTTTATTCCCCAACT-TACG
1 TTCAATCCCAGTCATTTTTATTCTTTGACTCAAGG
* * * * * *
12339225 TTTAATCCCAATCATTTTTATCCTTTGAATCATGA
1 TTCAATCCCAGTCATTTTTATTCTTTGACTCAAGG
* * * * *
12339260 TTC-ATTCCTGATCATTTTCATTTTTTGACTCATGG
1 TTCAATCCCAG-TCATTTTTATTCTTTGACTCAAGG
** * **
12339295 TTCAATCCTGGTCATTTTTCATTCTTTAACTTGTA-G
1 TTCAATCCCAGTCATTTTT-ATTCTTTGAC-TCAAGG
*** * *
12339331 TTCAATCTTGGTCATTTTTATTCTTTGACTCATGA
1 TTCAATCCCAGTCATTTTTATTCTTTGACTCAAGG
** *
12339366 TTCAAT-CCAGTCATTTTT-TT-TTCAACTCATGG
1 TTCAATCCCAGTCATTTTTATTCTTTGACTCAAGG
* * * * ***
12339398 TTCAGTCTCAATCATTTTCATTCTTTGACTTGCGG
1 TTCAATCCCAGTCATTTTTATTCTTTGACTCAAGG
*
12339433 TTCAAT-CCGGTCATTTTTATTC
1 TTCAATCCCAGTCATTTTTATTC
12339455 CCAAACTTGT
Statistics
Matches: 259, Mismatches: 98, Indels: 25
0.68 0.26 0.07
Matches are distributed among these distances:
32 14 0.05
33 12 0.05
34 50 0.19
35 151 0.58
36 31 0.12
37 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.09, T:0.47
Consensus pattern (35 bp):
TTCAATCCCAGTCATTTTTATTCTTTGACTCAAGG
Found at i:12339550 original size:35 final size:35
Alignment explanation
Indices: 12339464--12339551 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
12339454 CCCAAACTTG
* * *
12339464 TAATTCAATCT-AAGTCATTTTTATTCTTCGACTCA
1 TAATTCAATCTCGA-TCATATTTATTCTTCAACTCA
* *
12339499 TACTTTAAT-TCTGATCATATTTATTCTTCAACTCA
1 TAATTCAATCTC-GATCATATTTATTCTTCAACTCA
12339534 TAATTCAATCTCGATCAT
1 TAATTCAATCTCGATCAT
12339552 TTTCATTTCT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
34 1 0.02
35 39 0.91
36 3 0.07
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (35 bp):
TAATTCAATCTCGATCATATTTATTCTTCAACTCA
Found at i:12339589 original size:70 final size:70
Alignment explanation
Indices: 12339512--12339703 Score: 183
Period size: 70 Copynumber: 2.8 Consensus size: 70
12339502 TTTAATTCTG
*
12339512 ATCATATTTATTCTTCAACTCATAATTCAATCTCGATCATTTTCATTTCTTGACATGAGATTCAA
1 ATCATATTTATTCTTCAACTCATAATTCAATCTCGATCATTTTCATTTCTTGACATGAGACTCAA
12339577 TCCCA
66 TCCCA
* * * * * * * * * *
12339582 ATTATATTTACTCTTCAAATCACAATTCAAAC-CTGCTCATTTTCATTTCCTAACTTGTGACTCA
1 ATCATATTTATTCTTCAACTCATAATTCAATCTC-GATCATTTTCATTTCTTGACATGAGACTCA
*
12339646 ATCCTA
65 ATCCCA
* * * * * *
12339652 GTCATATTTATTCATCGACTCATAGTTTAATCT-AAGTCATTTTCATTT-TTGA
1 ATCATATTTATTCTTCAACTCATAATTCAATCTCGA-TCATTTTCATTTCTTGA
12339704 GCTTGTAGCT
Statistics
Matches: 93, Mismatches: 26, Indels: 7
0.74 0.21 0.06
Matches are distributed among these distances:
69 3 0.03
70 90 0.97
ACGTcount: A:0.29, C:0.22, G:0.06, T:0.43
Consensus pattern (70 bp):
ATCATATTTATTCTTCAACTCATAATTCAATCTCGATCATTTTCATTTCTTGACATGAGACTCAA
TCCCA
Found at i:12340361 original size:19 final size:20
Alignment explanation
Indices: 12340331--12340377 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
12340321 TCAAATTTGA
* *
12340331 TCAAACTTAGTC-AATAAAG
1 TCAAAATTAGTCAAACAAAG
*
12340350 TTAAAATTAGTCAAACAAAG
1 TCAAAATTAGTCAAACAAAG
12340370 TCAAAATT
1 TCAAAATT
12340378 GCACAAAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.28
Consensus pattern (20 bp):
TCAAAATTAGTCAAACAAAG
Found at i:12341305 original size:10 final size:10
Alignment explanation
Indices: 12341290--12341322 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
12341280 ATTATTATTA
12341290 TTTTTCTTTC
1 TTTTTCTTTC
12341300 TTTTTCTTTC
1 TTTTTCTTTC
*
12341310 TTCTTCTTTC
1 TTTTTCTTTC
12341320 TTT
1 TTT
12341323 ATCTGGTTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:12341475 original size:23 final size:23
Alignment explanation
Indices: 12341449--12341513 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
12341439 TTTTGGGTTG
* *
12341449 AAAATATGAGATTTGAATCTCAA
1 AAAATCTGAGATTTGAATCTAAA
12341472 AAAATCTGAGATTTGAATCTAAA
1 AAAATCTGAGATTTGAATCTAAA
12341495 AAAATCTGAGATTTGAATC
1 AAAATCTGAGATTTGAATC
12341514 CCATAAAGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (23 bp):
AAAATCTGAGATTTGAATCTAAA
Found at i:12361478 original size:16 final size:16
Alignment explanation
Indices: 12361457--12361498 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
12361447 TCCTTTCTTT
12361457 CATTGTCATGACATAA
1 CATTGTCATGACATAA
**
12361473 CATTGTTGTGACATAA
1 CATTGTCATGACATAA
12361489 CATTGTCATG
1 CATTGTCATG
12361499 TTACAAACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (16 bp):
CATTGTCATGACATAA
Found at i:12365806 original size:16 final size:17
Alignment explanation
Indices: 12365785--12365818 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12365775 TTCTGATAGA
12365785 TTTGGA-TCAAATTATT
1 TTTGGATTCAAATTATT
*
12365801 TTTGGATTTAAATTATT
1 TTTGGATTCAAATTATT
12365818 T
1 T
12365819 GAATTATGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.56
Consensus pattern (17 bp):
TTTGGATTCAAATTATT
Found at i:12372624 original size:19 final size:20
Alignment explanation
Indices: 12372580--12372634 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
12372570 AAAGGGTGGT
12372580 TCAAGGTTTTAGGGTTTAGGG
1 TCAAGG-TTTAGGGTTTAGGG
12372601 T--AGGTTTAGGGTTTA-GG
1 TCAAGGTTTAGGGTTTAGGG
*
12372618 TCAAGGTTTGGGGTTTA
1 TCAAGGTTTAGGGTTTA
12372635 ACTTAGGGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 3 0.10
18 11 0.35
19 16 0.52
21 1 0.03
ACGTcount: A:0.18, C:0.04, G:0.38, T:0.40
Consensus pattern (20 bp):
TCAAGGTTTAGGGTTTAGGG
Found at i:12372658 original size:29 final size:30
Alignment explanation
Indices: 12372624--12372691 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
12372614 TAGGTCAAGG
12372624 TTTGGGGTTTAACTTAGGGGTT-GGGTTAC
1 TTTGGGGTTTAACTTAGGGGTTAGGGTTAC
* * * **
12372653 TTTGGGGTCTAAGTTAGGGTTTAGGGTTGG
1 TTTGGGGTTTAACTTAGGGGTTAGGGTTAC
12372683 TTTGGGGTT
1 TTTGGGGTT
12372692 AAGGTTAAGG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 19 0.59
30 13 0.41
ACGTcount: A:0.12, C:0.04, G:0.41, T:0.43
Consensus pattern (30 bp):
TTTGGGGTTTAACTTAGGGGTTAGGGTTAC
Found at i:12372687 original size:30 final size:29
Alignment explanation
Indices: 12372622--12372722 Score: 105
Period size: 30 Copynumber: 3.4 Consensus size: 29
12372612 TTTAGGTCAA
* *
12372622 GGTTTGGGGTTTAACTTAGGGGTT-GGGTT
1 GGTTTGGGG-TTAAGTTAGGGTTTAGGGTT
**
12372651 ACTTTGGGGTCTAAGTTAGGGTTTAGGGTT
1 GGTTTGGGGT-TAAGTTAGGGTTTAGGGTT
*
12372681 GGTTTGGGGTTAAGGTTAAGGTTTAGGGTTT
1 GGTTTGGGGTTAA-GTTAGGGTTTAGGG-TT
*
12372712 GGTTTAGGGTT
1 GGTTTGGGGTT
12372723 TAGGATTTGG
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.02
29 21 0.35
30 26 0.43
31 12 0.20
ACGTcount: A:0.14, C:0.03, G:0.42, T:0.42
Consensus pattern (29 bp):
GGTTTGGGGTTAAGTTAGGGTTTAGGGTT
Found at i:12372715 original size:12 final size:12
Alignment explanation
Indices: 12372700--12372750 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
12372690 TTAAGGTTAA
12372700 GGTTTAGGGTTT
1 GGTTTAGGGTTT
12372712 GGTTTAGGGTTT
1 GGTTTAGGGTTT
*
12372724 AGGATTT-GGGTGGT
1 -GG-TTTAGGGT-TT
*
12372738 GGTTTAAGGTTT
1 GGTTTAGGGTTT
12372750 G
1 G
12372751 TATGGTGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
12 17 0.53
13 11 0.34
14 4 0.12
ACGTcount: A:0.12, C:0.00, G:0.43, T:0.45
Consensus pattern (12 bp):
GGTTTAGGGTTT
Found at i:12372741 original size:19 final size:19
Alignment explanation
Indices: 12372719--12372786 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
12372709 TTTGGTTTAG
*
12372719 GGTTTAGGATTTGGGTGGT
1 GGTTTAGGATTTGTGTGGT
*
12372738 GGTTTAAGG-TTTGTATGGT
1 GGTTT-AGGATTTGTGTGGT
*
12372757 GGTTTAGGGTTT-TGTGGT
1 GGTTTAGGATTTGTGTGGT
* *
12372775 AGTTTATGATTT
1 GGTTTAGGATTT
12372787 TATAATGGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
18 17 0.41
19 21 0.51
20 3 0.07
ACGTcount: A:0.13, C:0.00, G:0.38, T:0.49
Consensus pattern (19 bp):
GGTTTAGGATTTGTGTGGT
Found at i:12372986 original size:49 final size:49
Alignment explanation
Indices: 12372878--12372986 Score: 139
Period size: 49 Copynumber: 2.2 Consensus size: 49
12372868 ATGCAATGAC
*
12372878 AAAAATAAATAACAAGAATGCTATTAGTAAAAATGTAAATATTGATGCAT
1 AAAAA-AAATAACAAGAATGCCATTAGTAAAAATGTAAATATTGATGCAT
*** * *
12372928 GTGACAAATAACGAA-AATGCCATTGGTAAAAATGTAAATATTGATGCAT
1 AAAAAAAATAAC-AAGAATGCCATTAGTAAAAATGTAAATATTGATGCAT
12372977 AAAAAAAATA
1 AAAAAAAATA
12372987 CATGACTAAG
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
49 45 0.94
50 3 0.06
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (49 bp):
AAAAAAAATAACAAGAATGCCATTAGTAAAAATGTAAATATTGATGCAT
Found at i:12374810 original size:30 final size:30
Alignment explanation
Indices: 12374776--12374850 Score: 73
Period size: 31 Copynumber: 2.5 Consensus size: 30
12374766 TTTTTCAAAT
* *
12374776 AAATTCATAT-AATTCTACCAAACTATTGGG
1 AAATTCATATGAA-TCCACCAAACTATTAGG
**
12374806 AAATTTTTATGGAATCCACCAAACTATTAGG
1 AAATTCATAT-GAATCCACCAAACTATTAGG
*
12374837 AAATTC-CATGAATC
1 AAATTCATATGAATC
12374851 TTTTAAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
29 5 0.14
30 10 0.27
31 20 0.54
32 2 0.05
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (30 bp):
AAATTCATATGAATCCACCAAACTATTAGG
Found at i:12376858 original size:53 final size:51
Alignment explanation
Indices: 12376740--12377052 Score: 382
Period size: 50 Copynumber: 6.1 Consensus size: 51
12376730 CTTAATGAGA
* * * * *
12376740 AAAAATGCTCCTATAGACATAGGTAAGTGAC-TTTATAAAATCTCAATTTG
1 AAAAGTGCTCATATAGACATAAGCAAGTGACTTTTAAAAAATCTCAATTTG
* * *
12376790 AAAAGGGCTCATATAAACATAAGCAAGTGACTTGTTAAAAAAATCTCAAATTG
1 AAAAGTGCTCATATAGACATAAGCAAGTGACTT-TT-AAAAAATCTCAATTTG
* *
12376843 AAAAGTGCT-ATTATAAACATAAGCAAGTGACTCTTTTAAAAATTCTCAATTTG
1 AAAAGTGCTCA-TATAGACATAAGCAAGTGA--CTTTTAAAAAATCTCAATTTG
* * *
12376896 AAAAGTGCTCTTATAGACATAGGCAAGTGACTTTTAAAAAATCTTAATTTG
1 AAAAGTGCTCATATAGACATAAGCAAGTGACTTTTAAAAAATCTCAATTTG
* *
12376947 AAAAGTGGTCATATAGACATAAGCAAATGAC-TTTAAAAAATCTCAATTTG
1 AAAAGTGCTCATATAGACATAAGCAAGTGACTTTTAAAAAATCTCAATTTG
* * * *
12376997 AAAAGTGGTCATATAGACATAAGCAAATGAC-TTTAAAAAATCTCAATCTA
1 AAAAGTGCTCATATAGACATAAGCAAGTGACTTTTAAAAAATCTCAATTTG
12377047 AAAAGT
1 AAAAGT
12377053 TTTGAAGTTT
Statistics
Matches: 233, Mismatches: 23, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
50 97 0.42
51 47 0.20
52 3 0.01
53 81 0.35
54 2 0.01
55 3 0.01
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (51 bp):
AAAAGTGCTCATATAGACATAAGCAAGTGACTTTTAAAAAATCTCAATTTG
Found at i:12377522 original size:18 final size:19
Alignment explanation
Indices: 12377501--12377545 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
12377491 CTCATTATTG
*
12377501 TCATTCCATCATTTAT-CT
1 TCATTCCATCATTCATCCT
12377519 TCATT-CACTCATTCATCCT
1 TCATTCCA-TCATTCATCCT
12377538 TCA-TCCAT
1 TCATTCCAT
12377546 TTTTGCATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 2 0.09
18 14 0.61
19 7 0.30
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.44
Consensus pattern (19 bp):
TCATTCCATCATTCATCCT
Found at i:12377886 original size:32 final size:33
Alignment explanation
Indices: 12377798--12377919 Score: 99
Period size: 33 Copynumber: 3.8 Consensus size: 33
12377788 CTCATCTTAG
* * * * *
12377798 TGCCAGCGAACCTAAGCTTAAATATTATCATGG
1 TGCCAGCTAAACTAGGCTTAAATCTTATCATGA
* * *
12377831 TGTCAGCTAAATTAGGCTTAAATCTTATCTTGA
1 TGCCAGCTAAACTAGGCTTAAATCTTATCATGA
*
12377864 TGCCAGCTAAACT-GGCTTAAATC--CTCATAGA
1 TGCCAGCTAAACTAGGCTTAAATCTTATCAT-GA
* * *
12377895 TGCTAGTTAGACTA-GCTTAAATCTT
1 TGCCAGCTAAACTAGGCTTAAATCTT
12377920 TTTAGTGTTA
Statistics
Matches: 70, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
30 3 0.04
31 21 0.30
32 10 0.14
33 36 0.51
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (33 bp):
TGCCAGCTAAACTAGGCTTAAATCTTATCATGA
Found at i:12378066 original size:31 final size:31
Alignment explanation
Indices: 12377993--12378074 Score: 80
Period size: 31 Copynumber: 2.6 Consensus size: 31
12377983 TCGTGCTAGC
*
12377993 TAAACTA-AGCTTAATTCTTCTTGGTGCAGGT
1 TAAACTAGA-CTTAATTCTTCTTGATGCAGGT
* *
12378024 TAGACTGGACTTAATT-TTCTTTGATGCCA-GT
1 TAAACTAGACTTAATTCTTC-TTGATG-CAGGT
*
12378055 TAAACTAGACTTAAATCTTC
1 TAAACTAGACTTAATTCTTC
12378075 ATAAATGATA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
30 3 0.07
31 32 0.78
32 6 0.15
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (31 bp):
TAAACTAGACTTAATTCTTCTTGATGCAGGT
Found at i:12382283 original size:24 final size:25
Alignment explanation
Indices: 12382247--12382293 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
12382237 AAATGCACAA
12382247 AAAATTATGAAATATT-ATGAAATT
1 AAAATTATGAAATATTCATGAAATT
*
12382271 AAAATT-TGAAAATTTTCATGAAA
1 AAAATTATG-AAATATTCATGAAA
12382294 ATGCAAGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 12 0.60
25 6 0.30
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (25 bp):
AAAATTATGAAATATTCATGAAATT
Found at i:12382303 original size:136 final size:135
Alignment explanation
Indices: 12382042--12382311 Score: 319
Period size: 136 Copynumber: 2.0 Consensus size: 135
12382032 AATTTACGAA
* * * *
12382042 AATACCTTTATAAGGGTATTTTGGTAATTTTAGACTTCTTGGGGTACTGCTGTGATTTCAAACAC
1 AATACCCTTATAAGGGTATTTTGGTAATTTCAGACTTCTTAGGGTACTGCTATGATTTCAAACAC
* * * *** *
12382107 ACCAAAAATTATGAAATATTATAAAATTAAGATCTAAAAAGTTTTATGGAAATTTGAGCTTAGGA
66 ACAAAAAATTATGAAATATTATAAAATTAAAATCTAAAAAGTTTTATGAAAATGCAAGCTTAGAA
12382172 AAGAT
131 AAGAT
* * * * *
12382177 AATACCCTTAT-AGGTGTATTTTGGTAATTTCATATTTTTTTAGGGTACTGCTATGCTTTCAAAT
1 AATACCCTTATAAGG-GTATTTTGGTAATTTCAGA-CTTCTTAGGGTACTGCTATGATTTCAAAC
* * * *
12382241 GCACAAAAAATTATGAAATATTATGAAATTAAAATTTGAAAA-TTTTCATGAAAATGCAAGCTTA
64 ACACAAAAAATTATGAAATATTATAAAATTAAAATCTAAAAAGTTTT-ATGAAAATGCAAGCTTA
12382305 GAAAAGA
128 GAAAAGA
12382312 CCAAATTATA
Statistics
Matches: 112, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
134 3 0.03
135 31 0.28
136 78 0.70
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.36
Consensus pattern (135 bp):
AATACCCTTATAAGGGTATTTTGGTAATTTCAGACTTCTTAGGGTACTGCTATGATTTCAAACAC
ACAAAAAATTATGAAATATTATAAAATTAAAATCTAAAAAGTTTTATGAAAATGCAAGCTTAGAA
AAGAT
Found at i:12384561 original size:21 final size:21
Alignment explanation
Indices: 12384527--12384567 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12384517 TTCATCTTCC
*
12384527 TTGTTTTTTATTTTTTTATTT
1 TTGTTTTTTATTTTATTATTT
12384548 TTGTTGTTTT-TTTTATTATT
1 TTGTT-TTTTATTTTATTATT
12384568 ATACCATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (21 bp):
TTGTTTTTTATTTTATTATTT
Found at i:12384911 original size:46 final size:47
Alignment explanation
Indices: 12384861--12384950 Score: 123
Period size: 46 Copynumber: 1.9 Consensus size: 47
12384851 AATCATTCAT
* *
12384861 TTTTTCTTCTT-TTTTTCTTTTTTCTTCTTCTTC-TTC-TTTTCTTTTG
1 TTTTTCTT-TTATTCTTCATTTTTCTTCTT-TTCTTTCATTTTCTTTTG
12384907 TTTTTCTTTTATTCTTCATTTTTCTTCTTTTCTTTCATTTTCTT
1 TTTTTCTTTTATTCTTCATTTTTCTTCTTTTCTTTCATTTTCTT
12384951 CTCTTTTCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
45 5 0.13
46 27 0.69
47 7 0.18
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.77
Consensus pattern (47 bp):
TTTTTCTTTTATTCTTCATTTTTCTTCTTTTCTTTCATTTTCTTTTG
Found at i:12384943 original size:19 final size:18
Alignment explanation
Indices: 12384862--12384952 Score: 82
Period size: 18 Copynumber: 5.1 Consensus size: 18
12384852 ATCATTCATT
*
12384862 TTTTCTTCTTTTTTTCTT-
1 TTTTCTTC-ATTTTTCTTC
*
12384880 TTTTCTTC-TTCTTCTTC
1 TTTTCTTCATTTTTCTTC
**
12384897 TTTTCTTTTGTTTTTCTT-
1 TTTTC-TTCATTTTTCTTC
12384915 TTATTCTTCATTTTTCTTC
1 TT-TTCTTCATTTTTCTTC
12384934 TTTTCTTTCA-TTTTCTTC
1 TTTTC-TTCATTTTTCTTC
12384952 T
1 T
12384953 CTTTTCTCTA
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
16 7 0.11
17 5 0.08
18 34 0.55
19 16 0.26
ACGTcount: A:0.03, C:0.20, G:0.01, T:0.76
Consensus pattern (18 bp):
TTTTCTTCATTTTTCTTC
Found at i:12384952 original size:3 final size:3
Alignment explanation
Indices: 12384864--12384940 Score: 51
Period size: 3 Copynumber: 27.7 Consensus size: 3
12384854 CATTCATTTT
* *
12384864 TTC TTC TT- TTT TTC TT- TT- TTC TTC TTC TTC TTC TT- TTC TT- TTG
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * *
12384907 TTT TTC TT- TTA TTC TTC ATTT TTC TTC TT- TTC TT
1 TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TT
12384941 TCATTTTCTT
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
2 14 0.23
3 45 0.74
4 2 0.03
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.77
Consensus pattern (3 bp):
TTC
Found at i:12384958 original size:46 final size:46
Alignment explanation
Indices: 12384862--12384968 Score: 112
Period size: 46 Copynumber: 2.3 Consensus size: 46
12384852 ATCATTCATT
* * * *
12384862 TTTTCTTCTTTTTTTCTTTTTTCTTCTTCTTCTTCTTTTCTTTTGT
1 TTTTCTTCTTTTCTTCATTTTTCTTCTTCTTCTTCTTTTCTTCTGC
12384908 TTTTCTT-TTATTCTTCATTTTTCTTCTT-TTCTTTCATTTTCTTCT-C
1 TTTTCTTCTT-TTCTTCATTTTTCTTCTTCTTC-TTC-TTTTCTTCTGC
*
12384954 TTTTCTCTATTTTCT
1 TTTTCT-TCTTTTCT
12384969 CCTTCTTAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
45 5 0.10
46 32 0.62
47 13 0.25
48 2 0.04
ACGTcount: A:0.04, C:0.21, G:0.01, T:0.75
Consensus pattern (46 bp):
TTTTCTTCTTTTCTTCATTTTTCTTCTTCTTCTTCTTTTCTTCTGC
Found at i:12384975 original size:20 final size:21
Alignment explanation
Indices: 12384918--12384975 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
12384908 TTTTCTTTTA
12384918 TTCT-TCATTTT-T-CTTCTT
1 TTCTCTCATTTTCTCCTTCTT
* *
12384936 TTCTTTCATTTTCTTC-TCTT
1 TTCTCTCATTTTCTCCTTCTT
12384956 TTCTCT-ATTTTCTCCTTCTT
1 TTCTCTCATTTTCTCCTTCTT
12384976 AATTTCACCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 4 0.12
19 15 0.44
20 14 0.41
21 1 0.03
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (21 bp):
TTCTCTCATTTTCTCCTTCTT
Found at i:12390543 original size:28 final size:29
Alignment explanation
Indices: 12390493--12390549 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
12390483 CATTTTTTTA
* *
12390493 TTTTGTGATTTTTCACTTTTAATTAAATTT
1 TTTTGTAATTTTTCAC-ATTAATTAAATTT
*
12390523 TTTTGTAATTTTTCA-ATTAATTTAATT
1 TTTTGTAATTTTTCACATTAATTAAATT
12390550 AATTCTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 10 0.42
30 14 0.58
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.63
Consensus pattern (29 bp):
TTTTGTAATTTTTCACATTAATTAAATTT
Found at i:12392870 original size:13 final size:14
Alignment explanation
Indices: 12392852--12392880 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
12392842 TAATAATTAT
12392852 AAAATTATAA-TAA
1 AAAATTATAAGTAA
12392865 AAAATTATAAGTAA
1 AAAATTATAAGTAA
12392879 AA
1 AA
12392881 TACTCCCTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (14 bp):
AAAATTATAAGTAA
Found at i:12393309 original size:26 final size:26
Alignment explanation
Indices: 12393273--12393336 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
12393263 TTACATTCTT
*
12393273 ATAATTAATTAAATAATCAATTATTAA
1 ATAACTAATTAAATAA-CAATTATTAA
* * *
12393300 ATTA-TAATTAAATTACAATTATTGA
1 ATAACTAATTAAATAACAATTATTAA
12393325 ATAACTAATTAA
1 ATAACTAATTAA
12393337 TAAACTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 12 0.38
26 17 0.53
27 3 0.09
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (26 bp):
ATAACTAATTAAATAACAATTATTAA
Found at i:12393512 original size:1 final size:1
Alignment explanation
Indices: 12393506--12393533 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
12393496 TTTCAATCTT
12393506 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
12393534 GGGCCCTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:12395704 original size:12 final size:12
Alignment explanation
Indices: 12395687--12395757 Score: 61
Period size: 12 Copynumber: 5.7 Consensus size: 12
12395677 AAATAATTTT
12395687 TTTAATTATATA
1 TTTAATTATATA
*
12395699 TTTAATTTTATA
1 TTTAATTATATA
* *
12395711 ATTATTTATATA
1 TTTAATTATATA
**
12395723 TATTTTTATATATA
1 T-TTAAT-TATATA
*
12395737 TTTAATTTTATA
1 TTTAATTATATA
12395749 TTTATATTA
1 TTTA-ATTA
12395758 AAAATAATAT
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
12 29 0.63
13 10 0.22
14 7 0.15
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTAATTATATA
Found at i:12395731 original size:16 final size:17
Alignment explanation
Indices: 12395712--12395755 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
12395702 AATTTTATAA
12395712 TTATTTATATAT-ATTT
1 TTATTTATATATAATTT
* *
12395728 TTATATATATTTAATTT
1 TTATTTATATATAATTT
12395745 TATATTTATAT
1 T-TATTTATAT
12395756 TAAAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 10 0.43
17 5 0.22
18 8 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATTTATATATAATTT
Found at i:12396991 original size:2 final size:2
Alignment explanation
Indices: 12396984--12397031 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
12396974 AAACGTACAT
* *
12396984 TA TA TA TA T- TA TA T- TA TA TA -A TA TA TA CA AA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12397023 TA TA TA TA T
1 TA TA TA TA T
12397032 GCTTAGAACA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
1 3 0.08
2 37 0.93
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:12398429 original size:18 final size:20
Alignment explanation
Indices: 12398386--12398430 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
12398376 TCTTCTCATT
*
12398386 TTTATTACTTATATTTTTAA
1 TTTATTAATTATATTTTTAA
*
12398406 TATATTAATTA-ATTTTT-A
1 TTTATTAATTATATTTTTAA
12398424 TTTATTA
1 TTTATTA
12398431 CTATTTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 7 0.32
19 6 0.27
20 9 0.41
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTATTAATTATATTTTTAA
Found at i:12399705 original size:10 final size:10
Alignment explanation
Indices: 12399689--12399727 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
12399679 GCCATCCTCG
12399689 ATTTTTTTTT
1 ATTTTTTTTT
*
12399699 CTTTTTTTTT
1 ATTTTTTTTT
12399709 ATTTTTTTTGT
1 ATTTTTTTT-T
12399720 ATTTTTTT
1 ATTTTTTT
12399728 GGTATTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.08, C:0.03, G:0.03, T:0.87
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:12399706 original size:11 final size:11
Alignment explanation
Indices: 12399690--12399786 Score: 52
Period size: 11 Copynumber: 8.2 Consensus size: 11
12399680 CCATCCTCGA
*
12399690 TTTTTTTTT-C
1 TTTTTTTTTAT
12399700 TTTTTTTTTAT
1 TTTTTTTTTAT
*
12399711 TTTTTTTGTAT
1 TTTTTTTTTAT
**
12399722 TTTTTTGGTAT
1 TTTTTTTTTAT
12399733 TTTGTATTATTTGAT
1 TTT-T-TT-TTT-AT
*
12399748 ATTTTTTTGTAT
1 -TTTTTTTTTAT
*
12399760 TTTGTATTTTGTAA
1 TTT-T-TTTT-TAT
*
12399774 TTTTTTTATAT
1 TTTTTTTTTAT
12399785 TT
1 TT
12399787 CGTATTTTGT
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
10 9 0.13
11 30 0.44
12 7 0.10
13 8 0.12
14 8 0.12
15 3 0.04
16 3 0.04
ACGTcount: A:0.13, C:0.01, G:0.08, T:0.77
Consensus pattern (11 bp):
TTTTTTTTTAT
Found at i:12399770 original size:25 final size:24
Alignment explanation
Indices: 12399714--12399806 Score: 123
Period size: 25 Copynumber: 3.7 Consensus size: 24
12399704 TTTTTATTTT
12399714 TTTTGTATTTTTTTGGTATTTTGTA
1 TTTTGTATTTTTTT-GTATTTTGTA
12399739 TTATTTGATATTTTTTTGTATTTTGTA
1 -T-TTTG-TATTTTTTTGTATTTTGTA
* *
12399766 TTTTGTAATTTTTTTATATTTCGTA
1 TTTTGT-ATTTTTTTGTATTTTGTA
12399791 TTTTGTATTTTTTTGT
1 TTTTGTATTTTTTTGT
12399807 CTGGACAAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
24 10 0.16
25 26 0.43
26 2 0.03
27 14 0.23
28 9 0.15
ACGTcount: A:0.15, C:0.01, G:0.12, T:0.72
Consensus pattern (24 bp):
TTTTGTATTTTTTTGTATTTTGTA
Found at i:12399780 original size:18 final size:17
Alignment explanation
Indices: 12399714--12399794 Score: 69
Period size: 17 Copynumber: 4.6 Consensus size: 17
12399704 TTTTTATTTT
12399714 TTTTGTATTTTTTTGGTA
1 TTTTGTATTTTTTT-GTA
*
12399732 TTTTGTA-TTATTTGATA
1 TTTTGTATTTTTTTG-TA
12399749 TTTT-T-TTGTATTTTGTA
1 TTTTGTATT-T-TTTTGTA
*
12399766 TTTTGTAATTTTTTTATA
1 TTTTGT-ATTTTTTTGTA
*
12399784 TTTCGTATTTT
1 TTTTGTATTTT
12399795 GTATTTTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
16 3 0.06
17 23 0.44
18 23 0.44
19 1 0.02
20 2 0.04
ACGTcount: A:0.16, C:0.01, G:0.11, T:0.72
Consensus pattern (17 bp):
TTTTGTATTTTTTTGTA
Found at i:12399806 original size:10 final size:10
Alignment explanation
Indices: 12399689--12399762 Score: 57
Period size: 10 Copynumber: 7.5 Consensus size: 10
12399679 GCCATCCTCG
*
12399689 ATTTTTTTTT
1 ATTTTTTTGT
* *
12399699 CTTTTTTTTT
1 ATTTTTTTGT
12399709 ATTTTTTTTGT
1 A-TTTTTTTGT
12399720 ATTTTTTTGGT
1 ATTTTTTT-GT
12399731 A---TTTTGT
1 ATTTTTTTGT
*
12399738 A-TTATTTGAT
1 ATTTTTTTG-T
12399748 ATTTTTTTGT
1 ATTTTTTTGT
12399758 ATTTT
1 ATTTT
12399763 GTATTTTGTA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
7 3 0.06
8 4 0.08
9 4 0.08
10 24 0.45
11 18 0.34
ACGTcount: A:0.12, C:0.01, G:0.08, T:0.78
Consensus pattern (10 bp):
ATTTTTTTGT
Found at i:12400153 original size:20 final size:19
Alignment explanation
Indices: 12400128--12400169 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
12400118 AATTTCTCAT
* *
12400128 TTTCTTTTGTTTCCTTTCCC
1 TTTCTTTTCTTT-CTCTCCC
12400148 TTTCTTTTCTTTCTCTCCC
1 TTTCTTTTCTTTCTCTCCC
12400167 TTT
1 TTT
12400170 ATCTCAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTCTTTTCTTTCTCTCCC
Found at i:12401255 original size:2 final size:2
Alignment explanation
Indices: 12401248--12401273 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12401238 ATTTTATGTA
12401248 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
12401274 GTGTGTGTGT
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:12402038 original size:17 final size:17
Alignment explanation
Indices: 12402016--12402062 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
12402006 TATAATATAA
12402016 TATATTAGTAT-TCTTAT
1 TATATTAGTATAT-TTAT
*
12402033 TATATTATTATATTTAT
1 TATATTAGTATATTTAT
*
12402050 TATTATTACTATA
1 TA-TATTAGTATA
12402063 CCATACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 16 0.62
18 10 0.38
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (17 bp):
TATATTAGTATATTTAT
Found at i:12402096 original size:3 final size:3
Alignment explanation
Indices: 12402084--12402112 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
12402074 TACTATTACA
12402084 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12402113 GTTTTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:12403055 original size:28 final size:29
Alignment explanation
Indices: 12403008--12403067 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
12402998 CCATTTTTAT
* *
12403008 TTTATTTTTTGATTTCATTTTATTTTCCA
1 TTTATTTTGTGATTTCATTTTATTTTCAA
*
12403037 TTTATTTTGTG-TTTTATTTTATTTTCAA
1 TTTATTTTGTGATTTCATTTTATTTTCAA
12403065 TTT
1 TTT
12403068 TTATTTTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.72
Consensus pattern (29 bp):
TTTATTTTGTGATTTCATTTTATTTTCAA
Found at i:12403844 original size:29 final size:29
Alignment explanation
Indices: 12403811--12403880 Score: 131
Period size: 29 Copynumber: 2.4 Consensus size: 29
12403801 ATTATTACAA
12403811 AATCTCAAAAAAGAAAGGGTTATGTAGCT
1 AATCTCAAAAAAGAAAGGGTTATGTAGCT
*
12403840 AATCTAAAAAAAGAAAGGGTTATGTAGCT
1 AATCTCAAAAAAGAAAGGGTTATGTAGCT
12403869 AATCTCAAAAAA
1 AATCTCAAAAAA
12403881 TTATTTGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (29 bp):
AATCTCAAAAAAGAAAGGGTTATGTAGCT
Found at i:12406500 original size:42 final size:41
Alignment explanation
Indices: 12406439--12406530 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 41
12406429 TTAAGCTAAA
*
12406439 AAAAAAAATTAAAGCTGAAAACCCAAAAGGGAAGCTTGAAC
1 AAAAAAAAGTAAAGCTGAAAACCCAAAAGGGAAGCTTGAAC
* *** *
12406480 AAAAAAAAGTACAAGTTGAAAACTTGAAAGGGTAGCTTGAAC
1 AAAAAAAAGTA-AAGCTGAAAACCCAAAAGGGAAGCTTGAAC
*
12406522 CAAAAAAAG
1 AAAAAAAAG
12406531 AAGAAAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 10 0.23
42 33 0.77
ACGTcount: A:0.55, C:0.12, G:0.18, T:0.14
Consensus pattern (41 bp):
AAAAAAAAGTAAAGCTGAAAACCCAAAAGGGAAGCTTGAAC
Found at i:12406548 original size:20 final size:19
Alignment explanation
Indices: 12406523--12406560 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
12406513 AGCTTGAACC
*
12406523 AAAAAAAGAAGAAAAAAAAT
1 AAAAAAACAA-AAAAAAAAT
12406543 AAAAAAACAAAAAAAAAA
1 AAAAAAACAAAAAAAAAA
12406561 GAAGTTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.89, C:0.03, G:0.05, T:0.03
Consensus pattern (19 bp):
AAAAAAACAAAAAAAAAAT
Found at i:12408176 original size:23 final size:21
Alignment explanation
Indices: 12408146--12408204 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 21
12408136 TATTACAATA
*
12408146 TATTATTATTTATGTGATATTAT
1 TATTATTATTTATGT-ATA-AAT
12408169 TATTATTATTCATATGTATAAAT
1 TATTATTATT--TATGTATAAAT
*
12408192 TATTATTTTTTAT
1 TATTATTATTTAT
12408205 TTCTTTTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 3 0.09
23 21 0.66
24 3 0.09
25 5 0.16
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (21 bp):
TATTATTATTTATGTATAAAT
Found at i:12413085 original size:59 final size:59
Alignment explanation
Indices: 12413008--12413344 Score: 240
Period size: 59 Copynumber: 5.5 Consensus size: 59
12412998 GCTTTTGTAC
*
12413008 AAGAGAAAATTGACACTTTCAA-TTTTTCTCCAAAATTTTTTTTTTGGAAACTTTAATTTT
1 AAGA-AAAATTGATACTTTCAACTTTTTCTCCAAAATTTTTTTTTTGGAAA-TTTAATTTT
* * * *
12413068 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTTTTT-GAAATTTTATCTTT
1 AAGAAAAATTGATACTTTCAACTTTTTCTC---CAAAA-TTTTTTTTTTGGAAATTTAAT-TTT
* * *
12413131 AAGAAAAATTGATAC-TTCAACTTTTTCT-CAAAAATATTTTTTTGGAAATTTTAATTTC
1 AAGAAAAATTGATACTTTCAACTTTTTCTCCAAAATTTTTTTTTTGGAAA-TTTAATTTT
* * * ** **
12413189 GAGAAAAATTGATACTTTCAACTTCTCCTAAAAAAAAAAAAACCTTTTTTTTGGAAATTT-ATTC
1 AAGAAAAATTGATACTTTCAACTTTTTCT-------CCAAAATTTTTTTTTTGGAAATTTAATT-
12413253 TT
58 TT
*
12413255 AAGAAAAATTGATACTTTCAAC-TTTTC-CCTAAAAATATTTTTTTTT-GAAATTCTTAATTTC
1 AAGAAAAATTGATACTTTCAACTTTTTCTCC--AAAAT-TTTTTTTTTGGAAA-T-TTAATTTT
* * * * *
12413316 GAGGAAAATTAATATTTTTAACTTTTTCT
1 AAGAAAAATTGATACTTTCAACTTTTTCT
12413345 AAAAAAAAAA
Statistics
Matches: 218, Mismatches: 33, Indels: 49
0.73 0.11 0.16
Matches are distributed among these distances:
57 8 0.04
58 24 0.11
59 40 0.18
60 19 0.09
61 20 0.09
62 25 0.11
63 25 0.11
64 10 0.05
65 6 0.03
66 25 0.11
67 16 0.07
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (59 bp):
AAGAAAAATTGATACTTTCAACTTTTTCTCCAAAATTTTTTTTTTGGAAATTTAATTTT
Found at i:12413501 original size:247 final size:247
Alignment explanation
Indices: 12413008--12413546 Score: 668
Period size: 248 Copynumber: 2.2 Consensus size: 247
12412998 GCTTTTGTAC
* *
12413008 AAGAGAAAATTGACACTTTCAATTTTTCTCC--AAAATTTTTTTTTTGGAAACTTTAATTTTAAG
1 AAGAGAAAATTGATACTTTCAA-TTTTC-CCTAAAAATTTTTTTTTTGGAAACTTTAATTTCAAG
* ******
12413071 GAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTTTTTGAAATTTTATCTTTAAGAA
64 GAAAATTAATACTTTCAACTTTTCCTCAAAAAAAAAAAACATTTTTGAAATTTTATCTTTAAGAA
* * * *
12413136 AAATTGATACTTCAACTTTTTCTCAAAAATATTTTTTTGGAAATTTTAATTTCGAGAAAAATTGA
129 AAATTGATACTTCAACTTTTCCTCAAAAATATATTTTTGAAAATTTTAATTTCGAAAAAAATTGA
*
12413201 TACTTTCAACTTCTCCTAAAAAAAAAAAAACCTTTTTTTTGGAAATTTATTCTT
194 TACTTTCAACTTCTCCTAAAAAAAAAAAAACCTTTTTTTTGAAAATTTATTCTT
* *
12413255 AAGA-AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTT-GAAATTCTTAATTTCGA
1 AAGAGAAAATTGATACTTTCAA-TTTTCCCTAAAAAT-TTTTTTTTTGGAAACT-TTAATTTCAA
* * *
12413318 GGAAAATTAATATTTTTAACTTTTTCT-AAAAAAAAAAAACATTTTTGAAGA-TTTAT-TCTTAA
63 GGAAAATTAATACTTTCAACTTTTCCTCAAAAAAAAAAAACATTTTTGAA-ATTTTATCT-TTAA
* *
12413380 GGAAAATTGATACTTTTAACTTTTCC-CTAAAAATATATTTTT-AAAATTTTTAATTTCGAAAAA
126 GAAAAATTGATAC-TTCAACTTTTCCTC-AAAAATATATTTTTGAAAA-TTTTAATTTCGAAAAA
* * *
12413443 AATTGATATTTTCAACTTTTCTTAAAAAAAAAAAAACC-TTTTTTTGAAAATTTATTCTT
188 AATTGATACTTTCAACTTCTCCTAAAAAAAAAAAAACCTTTTTTTTGAAAATTTATTCTT
* *
12413502 AA-AGAAAATTGATACTTTCAATTTTTCCTCAAAAATGTTTTTTTT
1 AAGAGAAAATTGATACTTTCAATTTTCCCT-AAAAATTTTTTTTTT
12413547 ATTTTTTTTT
Statistics
Matches: 254, Mismatches: 27, Indels: 23
0.84 0.09 0.08
Matches are distributed among these distances:
245 2 0.01
246 38 0.15
247 100 0.39
248 114 0.45
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (247 bp):
AAGAGAAAATTGATACTTTCAATTTTCCCTAAAAATTTTTTTTTTGGAAACTTTAATTTCAAGGA
AAATTAATACTTTCAACTTTTCCTCAAAAAAAAAAAACATTTTTGAAATTTTATCTTTAAGAAAA
ATTGATACTTCAACTTTTCCTCAAAAATATATTTTTGAAAATTTTAATTTCGAAAAAAATTGATA
CTTTCAACTTCTCCTAAAAAAAAAAAAACCTTTTTTTTGAAAATTTATTCTT
Found at i:12413569 original size:124 final size:126
Alignment explanation
Indices: 12413008--12413548 Score: 503
Period size: 121 Copynumber: 4.4 Consensus size: 126
12412998 GCTTTTGTAC
* * * ** * *
12413008 AAGAGAAAATTGACACTTTCAATTTTTCTCC--AAAATTTTTTTTTTGGAAA-CTTTAATTTTAA
1 AAGA-AAAATTGATACTTTCAACTTTTC-CCTAAAAATATTTTTTTTATAAATTTTTAATTTCAA
* * * * **** * *
12413070 GGAAAATTGATACTTTCAACTTTTCCT--CAAAAAAAACTTTTTTTTTTGAAATTTTA-TCTTT
64 -AAAAATTGATATTTTCAACTTTTCTTAAAAAAAAAAAAACCTTTTTTTGAAAATTTATTCTTA
* ** *
12413131 AAGAAAAATTGATAC-TTCAACTTTT-TCTCAAAAATA-TTTTTTTGGAAA-TTTTAATTTCGAG
1 AAGAAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTATAAATTTTTAATTTC-AA
* * * *
12413192 AAAAATTGATACTTTCAACTTCTCCTAAAAAAAAAAAAACCTTTTTTTTGGAAATTTATTCTT-
64 AAAAATTGATATTTTCAACTTTTCTTAAAAAAAAAAAAACC-TTTTTTTGAAAATTTATTCTTA
* *
12413255 AAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT-TGAAATTCTTAATTTCGAG
1 AAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTAT-AAATTTTTAATTTC-AA
* * * * *
12413319 GAAAATTAATATTTTTAACTTTT-TCT-AAAAAAAAAAAA-C-ATTTTTGAAGATTTATTCTT-
64 AAAAATTGATATTTTCAACTTTTCT-TAAAAAAAAAAAAACCTTTTTTTGAAAATTTATTCTTA
* * *
12413378 AAGGAAAATTGATACTTTTAACTTTTCCCTAAAAATA-TATTTTTA-AAATTTTTAATTTCGAAA
1 AAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTATAAATTTTTAATTTC-AAA
12413441 AAAATTGATATTTTCAACTTTTCTTAAAAAAAAAAAAACCTTTTTTTGAAAATTTATTCTTA
65 AAAATTGATATTTTCAACTTTTCTTAAAAAAAAAAAAACCTTTTTTTGAAAATTTATTCTTA
* *
12413503 AAG-AAAATTGATACTTTCAA-TTTTTCCTCAAAAATGTTTTTTTTAT
1 AAGAAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTAT
12413549 TTTTTTTTTA
Statistics
Matches: 353, Mismatches: 42, Indels: 43
0.81 0.10 0.10
Matches are distributed among these distances:
119 1 0.00
121 89 0.25
122 35 0.10
123 72 0.20
124 69 0.20
125 32 0.09
126 24 0.07
127 31 0.09
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (126 bp):
AAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTATAAATTTTTAATTTCAAAA
AAATTGATATTTTCAACTTTTCTTAAAAAAAAAAAAACCTTTTTTTGAAAATTTATTCTTA
Found at i:12413589 original size:15 final size:15
Alignment explanation
Indices: 12413571--12413628 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
12413561 TAAAAAAATG
12413571 AAATAAATAAAATAA
1 AAATAAATAAAATAA
*
12413586 AAATTAAA-AAAA-AT
1 AAA-TAAATAAAATAA
* *
12413600 AAATAAGTAAAATGA
1 AAATAAATAAAATAA
*
12413615 AAATGAATAAAATA
1 AAATAAATAAAATA
12413629 TAGAAAAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
13 3 0.09
14 8 0.24
15 18 0.55
16 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (15 bp):
AAATAAATAAAATAA
Done.