Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2351
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: 521823
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
File 3 of 4
Found at i:343745 original size:14 final size:14
Alignment explanation
Indices: 343719--343754 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
343709 AAATTTGAAA
343719 AAAATTATAAATATT
1 AAAATT-TAAATATT
343734 AAAATTTAAATATT
1 AAAATTTAAATATT
343748 -AAATTTA
1 AAAATTTA
343755 CAAAATATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.33
14 8 0.38
15 6 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATTTAAATATT
Found at i:344040 original size:403 final size:404
Alignment explanation
Indices: 342583--345250 Score: 4988
Period size: 404 Copynumber: 6.7 Consensus size: 404
342573 GCATGTATGC
* * *
342583 ATAAATAAAGGATTAACTTTGTTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAGAAACACTT
1 ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
*
342648 GATTGCTATAATAAAAAAATAAACTGGTAAAATATTAAATTGTTTTGCTTCTTCATTTTCCTTTT
66 GGTTGCTATAATAAAAAAATAAACTGGTAAAATATTAAATTGTTTTGCTTCTTCATTTTCCTTTT
* *
342713 CCCTTTTCATTTTGGGCATCTCACAATCCACCTCGCTCCCTTCACCATGGTTGGCTATGCTTCTA
131 CCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTA
342778 GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATT
196 GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATT
342843 TTCTTAAATCATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAA
261 TTCTTAAATCATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAA
342908 AGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCTTTTT
326 AGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCTTTTT
342973 TAAAAAGTGATCAT
391 TAAAAAGTGATCAT
*
342987 ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAGAAACACTT
1 ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
* *
343052 GGTTGCTATAATAAAAAAATAAACTGGTAAAATATGAAATTGTTTTGCTTTTTCATTTTCCTTTT
66 GGTTGCTATAATAAAAAAATAAACTGGTAAAATATTAAATTGTTTTGCTTCTTCATTTTCCTTTT
343117 CCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTA
131 CCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTA
343182 GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATT
196 GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATT
*
343247 TTCTTAAATCATGAAATATTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAA
261 TTCTTAAATCATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAA
343312 AGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCTTTTT
326 AGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCTTTTT
343377 TAAAAAGTGATCAT
391 TAAAAAGTGATCAT
343391 ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
1 ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
343456 GGTTGCTATAATAAAAAAATAAAC-----------TAAATTGTTTTGCTTCTTCATTTTCCTTTT
66 GGTTGCTATAATAAAAAAATAAACTGGTAAAATATTAAATTGTTTTGCTTCTTCATTTTCCTTTT
343510 CCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTA
131 CCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTA
*
343575 GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAATCCTGCTTAATCAAATT
196 GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATT
343640 TTCTTAAATCATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAA
261 TTCTTAAATCATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAA
343705 AGCAAAATTTG-AAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCTTTTT
326 AGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCTTTTT
343769 TAAAAAGTGATCAT
391 TAAAAAGTGATCAT
*
343783 ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAGAAACACTT
1 ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
*
343848 GGTTGCTATAATAAAAAAATAAACTGGTAAAATATTAAATTGTTTTGCTTTTTCATTTTCCTTTT
66 GGTTGCTATAATAAAAAAATAAACTGGTAAAATATTAAATTGTTTTGCTTCTTCATTTTCCTTTT
343913 CCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTA
131 CCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTA
343978 GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATT
196 GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATT
*
344043 TTCTTAAATCATGAAATATTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAA
261 TTCTTAAATCATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAA
344108 AGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCTTTTT
326 AGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCTTTTT
344173 TAAAAAGTGATCAT
391 TAAAAAGTGATCAT
344187 ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
1 ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
344252 GGTTGCTATAATAAAAAAATAAAC-----------TAAATTGTTTTGCTTCTTCATTTTCCTTTT
66 GGTTGCTATAATAAAAAAATAAACTGGTAAAATATTAAATTGTTTTGCTTCTTCATTTTCCTTTT
344306 CCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTA
131 CCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTA
*
344371 GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAATCCTGCTTAATCAAATT
196 GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATT
344436 TTCTTAAATCATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAA
261 TTCTTAAATCATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAA
344501 AGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATC-TTTT
326 AGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCTTTTT
344565 TAAAAAGTGATCAT
391 TAAAAAGTGATCAT
344579 ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
1 ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
344644 GGTTGCTATAATAAAAAAATAAACTGGTAAAATATTAAATTGTTTTGCTTCTTCATTTTCCTTTT
66 GGTTGCTATAATAAAAAAATAAACTGGTAAAATATTAAATTGTTTTGCTTCTTCATTTTCCTTTT
344709 CCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTA
131 CCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTA
344774 GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATT
196 GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATT
*
344839 TTCTTAAATCATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATATATATAAAAA
261 TTCTTAAATCATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAA
344904 AGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCTTTTT
326 AGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCTTTTT
344969 TAAAAAGTGATCAT
391 TAAAAAGTGATCAT
* *
344983 ATAAATTAAGGATTAACTTTGTTGCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
1 ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
*
345048 GGTTGCTATAATAAAAAAATAAACTGGTAAAATATGAAATTGTTTTGCTTCTTCATTTTCCTTTT
66 GGTTGCTATAATAAAAAAATAAACTGGTAAAATATTAAATTGTTTTGCTTCTTCATTTTCCTTTT
*
345113 CCCTTTTCATTTTGGGCATCCCACAATCTACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTA
131 CCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTA
345178 GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATT
196 GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATT
345243 TTCTTAAA
261 TTCTTAAA
345251 ATATTGTTTA
Statistics
Matches: 2213, Mismatches: 27, Indels: 48
0.97 0.01 0.02
Matches are distributed among these distances:
392 262 0.12
393 514 0.23
403 516 0.23
404 921 0.42
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (404 bp):
ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
GGTTGCTATAATAAAAAAATAAACTGGTAAAATATTAAATTGTTTTGCTTCTTCATTTTCCTTTT
CCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTA
GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATT
TTCTTAAATCATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAA
AGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCTTTTT
TAAAAAGTGATCAT
Found at i:344149 original size:14 final size:14
Alignment explanation
Indices: 344123--344158 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
344113 AATTTGAAAA
344123 AAAATTATAAATATT
1 AAAATT-TAAATATT
344138 AAAATTTAAATATT
1 AAAATTTAAATATT
344152 -AAATTTA
1 AAAATTTA
344159 CAAAATATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.33
14 8 0.38
15 6 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATTTAAATATT
Found at i:344216 original size:796 final size:798
Alignment explanation
Indices: 342583--345250 Score: 4984
Period size: 796 Copynumber: 3.3 Consensus size: 798
342573 GCATGTATGC
* * *
342583 ATAAATAAAGGATTAACTTTGTTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAGAAACACTT
1 ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
*
342648 GATTGCTATAATAAAAAAATAAACTGGTAAAATATTAAATTGTTTTGCTTCTTCATTTTCCTTTT
66 GGTTGCTATAATAAAAAAATAAAC---------A-TAAATTGTTTTGCTTCTTCATTTTCCTTTT
* *
342713 CCCTTTTCATTTTGGGCATCTCACAATCCACCTCGCTCCCTTCACCATGGTTGGCTATGCTTCTA
121 CCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTA
342778 GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATT
186 GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATT
342843 TTCTTAAATCATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAA
251 TTCTTAAATCATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAA
342908 AGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCTTTTT
316 AGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCTTTTT
342973 TAAAAAGTGATCATATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAA
381 TAAAAAGTGATCATATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAA
*
343038 ATTTAGAAACACTTGGTTGCTATAATAAAAAAATAAACTGGTAAAATATGAAATTGTTTTGCTTT
446 ATTTAGAAACACTTGGTTGCTATAATAAAAAAATAAACTGGTAAAATATTAAATTGTTTTGCTTT
343103 TTCATTTTCCTTTTCCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGT
511 TTCATTTTCCTTTTCCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGT
343168 TGGCTATGCTTCTAGTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCC
576 TGGCTATGCTTCTAGTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCC
343233 TGCTTAATCAAATTTTCTTAAATCATGAAATATTTAGGGATAATGTTAAACTAAAGTGATTTTTT
641 TGCTTAATCAAATTTTCTTAAATCATGAAATATTTAGGGATAATGTTAAACTAAAGTGATTTTTT
343298 TATGTATATAAAAAAGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTA
706 TATGTATATAAAAAAGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTA
343363 CAAAATATCTTTTTTAAAAAGTGATCAT
771 CAAAATATCTTTTTTAAAAAGTGATCAT
343391 ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
1 ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
343456 GGTTGCTATAATAAAAAAATAAAC-TAAATTGTTTTGCTTCTTCATTTTCCTTTTCCCTTTTCAT
66 GGTTGCTATAATAAAAAAATAAACATAAATTGTTTTGCTTCTTCATTTTCCTTTTCCCTTTTCAT
343520 TTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTAGTGTATTTTT
131 TTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTAGTGTATTTTT
*
343585 GGACACGATGACATGATTGGCACAAGTAATCAGCCCAATCCTGCTTAATCAAATTTTCTTAAATC
196 GGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATTTTCTTAAATC
343650 ATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAAAGCAAAATTT
261 ATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAAAGCAAAATTT
343715 G-AAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCTTTTTTAAAAAGTGA
326 GAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCTTTTTTAAAAAGTGA
343779 TCATATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAGAAAC
391 TCATATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAGAAAC
343844 ACTTGGTTGCTATAATAAAAAAATAAACTGGTAAAATATTAAATTGTTTTGCTTTTTCATTTTCC
456 ACTTGGTTGCTATAATAAAAAAATAAACTGGTAAAATATTAAATTGTTTTGCTTTTTCATTTTCC
343909 TTTTCCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCT
521 TTTTCCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCT
343974 TCTAGTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCA
586 TCTAGTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCA
344039 AATTTTCTTAAATCATGAAATATTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATA
651 AATTTTCTTAAATCATGAAATATTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATA
344104 AAAAAGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCT
716 AAAAAGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCT
344169 TTTTTAAAAAGTGATCAT
781 TTTTTAAAAAGTGATCAT
344187 ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
1 ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
344252 GGTTGCTATAATAAAAAAATAAAC-TAAATTGTTTTGCTTCTTCATTTTCCTTTTCCCTTTTCAT
66 GGTTGCTATAATAAAAAAATAAACATAAATTGTTTTGCTTCTTCATTTTCCTTTTCCCTTTTCAT
344316 TTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTAGTGTATTTTT
131 TTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTAGTGTATTTTT
*
344381 GGACACGATGACATGATTGGCACAAGTAATCAGCCCAATCCTGCTTAATCAAATTTTCTTAAATC
196 GGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATTTTCTTAAATC
344446 ATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAAAGCAAAATTT
261 ATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAAAGCAAAATTT
344511 GAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATC-TTTTTAAAAAGTGA
326 GAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCTTTTTTAAAAAGTGA
*
344575 TCATATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAAC
391 TCATATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAGAAAC
*
344640 ACTTGGTTGCTATAATAAAAAAATAAACTGGTAAAATATTAAATTGTTTTGCTTCTTCATTTTCC
456 ACTTGGTTGCTATAATAAAAAAATAAACTGGTAAAATATTAAATTGTTTTGCTTTTTCATTTTCC
344705 TTTTCCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCT
521 TTTTCCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCT
344770 TCTAGTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCA
586 TCTAGTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCA
* *
344835 AATTTTCTTAAATCATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATATATATA
651 AATTTTCTTAAATCATGAAATATTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATA
344900 AAAAAGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCT
716 AAAAAGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCT
344965 TTTTTAAAAAGTGATCAT
781 TTTTTAAAAAGTGATCAT
* *
344983 ATAAATTAAGGATTAACTTTGTTGCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
1 ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
345048 GGTTGCTATAATAAAAAAATAAACTGGTAAAATATGAAATTGTTTTGCTTCTTCATTTTCCTTTT
66 GGTTGCTATAATAAAAAAATAAAC---------AT-AAATTGTTTTGCTTCTTCATTTTCCTTTT
*
345113 CCCTTTTCATTTTGGGCATCCCACAATCTACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTA
121 CCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTA
345178 GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATT
186 GTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATT
345243 TTCTTAAA
251 TTCTTAAA
345251 ATATTGTTTA
Statistics
Matches: 1832, Mismatches: 16, Indels: 25
0.98 0.01 0.01
Matches are distributed among these distances:
796 1300 0.71
797 281 0.15
806 1 0.00
807 165 0.09
808 85 0.05
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (798 bp):
ATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAAAAACACTT
GGTTGCTATAATAAAAAAATAAACATAAATTGTTTTGCTTCTTCATTTTCCTTTTCCCTTTTCAT
TTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCTTCTAGTGTATTTTT
GGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCAAATTTTCTTAAATC
ATGAAATACTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATAAAAAAGCAAAATTT
GAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCTTTTTTAAAAAGTGA
TCATATAAATTAAGGATTAACTTTATTCCTAAATTCCTTAAAATAAATTCGTAAAATTTAGAAAC
ACTTGGTTGCTATAATAAAAAAATAAACTGGTAAAATATTAAATTGTTTTGCTTTTTCATTTTCC
TTTTCCCTTTTCATTTTGGGCATCCCACAATCCACCTCGCTCCCTCCACCATGGTTGGCTATGCT
TCTAGTGTATTTTTGGACACGATGACATGATTGGCACAAGTAATCAGCCCAACCCTGCTTAATCA
AATTTTCTTAAATCATGAAATATTTAGGGATAATGTTAAACTAAAGTGATTTTTTTATGTATATA
AAAAAGCAAAATTTGAAAAAAAATTATAAATATTAAAATTTAAATATTAAATTTACAAAATATCT
TTTTTAAAAAGTGATCAT
Found at i:344542 original size:14 final size:14
Alignment explanation
Indices: 344516--344551 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
344506 AATTTGAAAA
344516 AAAATTATAAATATT
1 AAAATT-TAAATATT
344531 AAAATTTAAATATT
1 AAAATTTAAATATT
344545 -AAATTTA
1 AAAATTTA
344552 CAAAATATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.33
14 8 0.38
15 6 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATTTAAATATT
Found at i:344945 original size:14 final size:14
Alignment explanation
Indices: 344919--344954 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
344909 AATTTGAAAA
344919 AAAATTATAAATATT
1 AAAATT-TAAATATT
344934 AAAATTTAAATATT
1 AAAATTTAAATATT
344948 -AAATTTA
1 AAAATTTA
344955 CAAAATATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.33
14 8 0.38
15 6 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATTTAAATATT
Found at i:346035 original size:22 final size:22
Alignment explanation
Indices: 346009--346050 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
345999 AGTTACTCGT
346009 CCAAAACCCA-TGGATAGCTTGC
1 CCAAAACCCACT-GATAGCTTGC
*
346031 CCAAAATCCACTGATAGCTT
1 CCAAAACCCACTGATAGCTT
346051 AGTTCCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.33, C:0.31, G:0.14, T:0.21
Consensus pattern (22 bp):
CCAAAACCCACTGATAGCTTGC
Found at i:346374 original size:192 final size:186
Alignment explanation
Indices: 346092--346487 Score: 456
Period size: 192 Copynumber: 2.1 Consensus size: 186
346082 GGATTCGGTA
* * *
346092 AGTAGTATGAAAAGTGAAAAATGTGACTGGAGTTAAAATTGAATTCAATGGAGCAAATGTAGTAG
1 AGTAGTATGAAATGTGAAAAATGTGACTGGAATTAAAATTGAATTCAATGGAGCAAATGTAATAG
* * * *
346157 TGATCAGAGTCTCTGGTAAAAAAAG-AATGAAAAAAAAAATCATCGGAATTAACGGAGTTAATCC
66 TGATCAGAGTCTCAGGTAAAAAAAGAAAAG-AAAAAAAAATCATCGGAA-T---GGAATCAATCC
** *
346221 TCCAAAATCTATAGATGAG-TTAGCTTCAAAGTTCACACTGAT-AGAATCAAAAGGGTTGGGCT
126 TCCAAAATCTATAGATG-GTTTAGCTTCAAAGTTCACACCAATCA-AATC-AAAGGGTTGGACT
* *
346283 AGTAGTATGAAATGTGAAAAAGTGTGATTGGAATTAAAATTGAATTCAGTGGAGCAAATGTAATA
1 AGTAGTATGAAATGTGAAAAA-TGTGACTGGAATTAAAATTGAATTCAATGGAGCAAATGTAATA
* * * * ** * ** *
346348 GTGGTTAGAGTTTGAGGTCCAAAAAGAAAAGAAAAAAAAATCATGGGAATGGAATCAATTGTTCA
65 GTGATCAGAGTCTCAGGTAAAAAAAGAAAAGAAAAAAAAATCATCGGAATGGAATCAATCCTCCA
* *
346413 AAATCTTTTGATGGTTTAGCTTCAAAGTTCACACCAATCAAATCAAAGGGTTGGACT
130 AAATCTATAGATGGTTTAGCTTCAAAGTTCACACCAATCAAATCAAAGGGTTGGACT
**
346470 AGTACCATGAAATGTGAA
1 AGTAGTATGAAATGTGAA
346488 TGGCGTGATT
Statistics
Matches: 175, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
187 29 0.17
188 46 0.26
189 1 0.01
191 21 0.12
192 75 0.43
193 3 0.02
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.26
Consensus pattern (186 bp):
AGTAGTATGAAATGTGAAAAATGTGACTGGAATTAAAATTGAATTCAATGGAGCAAATGTAATAG
TGATCAGAGTCTCAGGTAAAAAAAGAAAAGAAAAAAAAATCATCGGAATGGAATCAATCCTCCAA
AATCTATAGATGGTTTAGCTTCAAAGTTCACACCAATCAAATCAAAGGGTTGGACT
Found at i:347020 original size:22 final size:22
Alignment explanation
Indices: 346993--347054 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
346983 TTTATATTTA
* *
346993 TAATAATTTTATTTAATTTATT
1 TAATAATTTTATTTAATTGAAT
*
347015 TAATAAATTTA-TTAATTGAAT
1 TAATAATTTTATTTAATTGAAT
*
347036 TAATAGTATTTAATTTAAT
1 TAATA--ATTTTATTTAAT
347055 CAGATATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 13 0.41
22 10 0.31
23 4 0.12
24 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (22 bp):
TAATAATTTTATTTAATTGAAT
Found at i:354201 original size:38 final size:38
Alignment explanation
Indices: 354122--354214 Score: 98
Period size: 38 Copynumber: 2.4 Consensus size: 38
354112 GCTATGAACA
* * * *
354122 AAAACTACTATTTTAAATCAATGGCACGATTATAAATG
1 AAAACTACTATTCTAAATCAATGACACGATTAGAAACG
* * * *
354160 AAAACTATTATTCTAAATCAGTGACACGGTTCGAAACG
1 AAAACTACTATTCTAAATCAATGACACGATTAGAAACG
354198 AAAA-TCACTATTCTAAA
1 AAAACT-ACTATTCTAAA
354215 CCGGTGGTAC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
37 1 0.02
38 44 0.98
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (38 bp):
AAAACTACTATTCTAAATCAATGACACGATTAGAAACG
Found at i:355136 original size:20 final size:19
Alignment explanation
Indices: 355113--355157 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
355103 AAATGAAGAT
*
355113 AAATTCGTAAATATATACTA
1 AAATT-GTAAAAATATACTA
*
355133 AAATATGTAAAAATTTACTA
1 AAAT-TGTAAAAATATACTA
355153 AAATT
1 AAATT
355158 AATAAAACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 20 0.91
21 1 0.05
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (19 bp):
AAATTGTAAAAATATACTA
Found at i:355192 original size:21 final size:21
Alignment explanation
Indices: 355163--355205 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
355153 AAATTAATAA
* *
355163 AACTGAAATTTATATTATTTTT
1 AACTGAAATATAT-TTAATTTT
355185 AACT-AAATATATTTAATTTT
1 AACTGAAATATATTTAATTTT
355205 A
1 A
355206 GTTGAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 7 0.37
22 4 0.21
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (21 bp):
AACTGAAATATATTTAATTTT
Found at i:356098 original size:3 final size:3
Alignment explanation
Indices: 356090--356131 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
356080 TAGATATACC
356090 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
356132 TTTGTGGGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:361872 original size:2 final size:2
Alignment explanation
Indices: 361865--361901 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
361855 AAGTAAGATA
361865 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
361902 CACACACACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:363556 original size:186 final size:180
Alignment explanation
Indices: 363346--363705 Score: 456
Period size: 186 Copynumber: 2.0 Consensus size: 180
363336 TGAATTTATG
* * * *
363346 TTTTTTTAACTATTTATTTAATAATTTGTTTTTAGTAATATGATTTTTAAGTAAATTAATTTTCT
1 TTTTTTTAACTATTTATCTAATAATTTGTTTTTACTAACATGATTTTGAAGTAAATTAATTTTCT
* * *
363411 CT-AAATAA-AGTTAATCTCAATTTGTGGTTAA-ATTTATTATTGAATCATTTGATTTTTCAAAG
66 CTCAAATAAGA-TTAAT-T-AA---AT--TTAATATTTAATATTGAATCATTTGATTTTCCAAAG
*
363473 GTTAATTGTTATTTTTTCTATAGTAAGTGATCATTTGGCTTTTCAATGCTTAGCTGTGT
123 GTTAATTGTTATTTTTT-TATAGTAAGTGATCATTTGGCTTTTCAATACTTAGCTGTGT
* * * *
363532 TTTTTTTTACTATTTGTCTAATAATTTGTTTTTACTAACATGATTTTGCAGTAAATTTATTTTCT
1 TTTTTTTAACTATTTATCTAATAATTTGTTTTTACTAACATGATTTTGAAGTAAATTAATTTTCT
* * * * **
363597 CTCAAGTAAGATTAGTTAAATTTAATATTTAATATTTAATCATTTGGTTTTCCAATTGTTAATTG
66 CTCAAATAAGATTAATTAAATTTAATATTTAATATTGAATCATTTGATTTTCCAAAGGTTAATTG
363662 TTATTTTTTTATAGTAAGTGATCATTTGGCTTTTCAATACTTAG
131 TTATTTTTTTATAGTAAGTGATCATTTGGCTTTTCAATACTTAG
363706 TTGTTAATTT
Statistics
Matches: 153, Mismatches: 18, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
180 38 0.25
181 42 0.27
182 1 0.01
185 2 0.01
186 60 0.39
187 9 0.06
188 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.53
Consensus pattern (180 bp):
TTTTTTTAACTATTTATCTAATAATTTGTTTTTACTAACATGATTTTGAAGTAAATTAATTTTCT
CTCAAATAAGATTAATTAAATTTAATATTTAATATTGAATCATTTGATTTTCCAAAGGTTAATTG
TTATTTTTTTATAGTAAGTGATCATTTGGCTTTTCAATACTTAGCTGTGT
Found at i:363689 original size:47 final size:47
Alignment explanation
Indices: 363635--363725 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 47
363625 TTAATATTTA
**
363635 ATCATTTGG-TTTTCCAATTGTTAATTGTT-ATTTTTTTATAGTAAGTG
1 ATCATTTGGCTTTT-CAATACTTAATTGTTAATTTTTTT-TAGTAAGTG
*
363682 ATCATTTGGCTTTTCAATACTTAGTTGTTAATTTTTTTTAGTAA
1 ATCATTTGGCTTTTCAATACTTAATTGTTAATTTTTTTTAGTAA
363726 ATTAAAAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
47 27 0.69
48 12 0.31
ACGTcount: A:0.24, C:0.08, G:0.13, T:0.55
Consensus pattern (47 bp):
ATCATTTGGCTTTTCAATACTTAATTGTTAATTTTTTTTAGTAAGTG
Found at i:363801 original size:53 final size:53
Alignment explanation
Indices: 363742--363897 Score: 138
Period size: 53 Copynumber: 3.1 Consensus size: 53
363732 AAGAATATAA
363742 ATAATGATTTAGTTATTGCTTAATTTGTTATCAAATATCATAGATAAACAAAT
1 ATAATGATTTAGTTATTGCTTAATTTGTTATCAAATATCATAGATAAACAAAT
* * * * * * *
363795 ATAATGA-ATATGTTATT-ATT-A-TAG---TGAAGTA--A-A-AAAAATATAA-
1 ATAATGATTTA-GTTATTGCTTAATTTGTTATCAAATATCATAGATAAACA-AAT
*
363838 ATAATGATTTAGTTATTGCTTAATTTATTATCAAATATCATAGATAAACAAAT
1 ATAATGATTTAGTTATTGCTTAATTTGTTATCAAATATCATAGATAAACAAAT
363891 ATAATGA
1 ATAATGA
363898 ATATGTATTT
Statistics
Matches: 74, Mismatches: 15, Indels: 28
0.63 0.13 0.24
Matches are distributed among these distances:
43 18 0.24
44 7 0.09
45 2 0.03
46 1 0.01
47 5 0.07
49 5 0.07
50 2 0.03
51 2 0.03
52 7 0.09
53 25 0.34
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (53 bp):
ATAATGATTTAGTTATTGCTTAATTTGTTATCAAATATCATAGATAAACAAAT
Found at i:363835 original size:96 final size:96
Alignment explanation
Indices: 363728--363911 Score: 334
Period size: 96 Copynumber: 1.9 Consensus size: 96
363718 TTTAGTAAAT
* *
363728 TAAAAAGAATATAAATAATGATTTAGTTATTGCTTAATTTGTTATCAAATATCATAGATAAACAA
1 TAAAAAAAATATAAATAATGATTTAGTTATTGCTTAATTTATTATCAAATATCATAGATAAACAA
363793 ATATAATGAATATGT-TATTATTATAGTGAAG
66 ATATAATGAATATGTAT-TTATTATAGTGAAG
363824 TAAAAAAAATATAAATAATGATTTAGTTATTGCTTAATTTATTATCAAATATCATAGATAAACAA
1 TAAAAAAAATATAAATAATGATTTAGTTATTGCTTAATTTATTATCAAATATCATAGATAAACAA
363889 ATATAATGAATATGTATTTATTA
66 ATATAATGAATATGTATTTATTA
363912 AATGTCTAAG
Statistics
Matches: 85, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
96 84 0.99
97 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.39
Consensus pattern (96 bp):
TAAAAAAAATATAAATAATGATTTAGTTATTGCTTAATTTATTATCAAATATCATAGATAAACAA
ATATAATGAATATGTATTTATTATAGTGAAG
Found at i:369006 original size:45 final size:45
Alignment explanation
Indices: 368858--368994 Score: 256
Period size: 45 Copynumber: 3.0 Consensus size: 45
368848 ACATAACAAA
368858 TAAGTGAATAATCAGATACGATTGCTTTGAGATTATTGTTTGACT
1 TAAGTGAATAATCAGATACGATTGCTTTGAGATTATTGTTTGACT
*
368903 TAAGTGAATAATCAGATACGATTGCTTTGAGATTATTGTCTGACT
1 TAAGTGAATAATCAGATACGATTGCTTTGAGATTATTGTTTGACT
*
368948 TAAGTGAATAATCAGGTACGATTGCTTTGAGATTATTGTTTGACT
1 TAAGTGAATAATCAGATACGATTGCTTTGAGATTATTGTTTGACT
368993 TA
1 TA
368995 GTAAACTAAT
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 89 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (45 bp):
TAAGTGAATAATCAGATACGATTGCTTTGAGATTATTGTTTGACT
Found at i:370359 original size:19 final size:20
Alignment explanation
Indices: 370321--370360 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
370311 ACAATCTCCA
*
370321 AAAAAAAAAAAGGGATGCAT
1 AAAAAAAAAAAGCGATGCAT
*
370341 AAAAGAAAAAAGCGA-GCAT
1 AAAAAAAAAAAGCGATGCAT
370360 A
1 A
370361 CAAGTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.65, C:0.07, G:0.20, T:0.07
Consensus pattern (20 bp):
AAAAAAAAAAAGCGATGCAT
Found at i:370702 original size:2 final size:2
Alignment explanation
Indices: 370690--370732 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
370680 GAATGTCCCG
*
370690 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
370732 T
1 T
370733 TACATGCACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:380754 original size:30 final size:29
Alignment explanation
Indices: 380689--380754 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
380679 CCATTTGAGC
* * * *
380689 CCTCAAATATATATTTTCATCCAATGAGG
1 CCTCAAACATATATTTTCACCCAAAGAGA
*
380718 CTCTCAAACATTTATTTTCACCCAACAGAGA
1 C-CTCAAACATATATTTTCACCCAA-AGAGA
380749 CCTCAA
1 CCTCAA
380755 TTGGGGGGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 1 0.03
30 25 0.83
31 4 0.13
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (29 bp):
CCTCAAACATATATTTTCACCCAAAGAGA
Found at i:383404 original size:11 final size:13
Alignment explanation
Indices: 383385--383414 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
383375 AATTCAGTTA
383385 AATATATATTATT
1 AATATATATTATT
383398 AATATATATTATT
1 AATATATATTATT
383411 AATA
1 AATA
383415 AAATTATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATATATTATT
Found at i:385122 original size:12 final size:10
Alignment explanation
Indices: 385087--385115 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
385077 GCTATTCTCT
385087 AAAAGAAAAA
1 AAAAGAAAAA
385097 AAAAG-AAAA
1 AAAAGAAAAA
385106 AAAAGAAAAA
1 AAAAGAAAAA
385116 GGAAAAGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:386725 original size:10 final size:10
Alignment explanation
Indices: 386710--386745 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
386700 TTTCTTGTAG
386710 ATCTAAAAAA
1 ATCTAAAAAA
386720 ATCTAAAAAGA
1 ATCTAAAAA-A
386731 A-CTAAAAAA
1 ATCTAAAAAA
386740 ATCTAA
1 ATCTAA
386746 CTTCGAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.08
10 20 0.83
11 2 0.08
ACGTcount: A:0.67, C:0.11, G:0.03, T:0.19
Consensus pattern (10 bp):
ATCTAAAAAA
Found at i:388627 original size:96 final size:97
Alignment explanation
Indices: 388500--388740 Score: 369
Period size: 97 Copynumber: 2.5 Consensus size: 97
388490 AAATTTTATT
* * *
388500 TATCGGGGATACTCCAACCCTATTCCTCCGAGGGGATA-TCCAACCTCGCTTTTAAACTCATCAA
1 TATCGAGGACACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACTCATCAA
*
388564 AGTTTAAATCTTATTCTCGCTTAAATTTTCA-
66 AGTTTAAATCTTATTCTCGCTTAAATTGTCAC
* * *
388595 TCATCGAGGACACTCCAACCTTATTCCTCCGAGGGAATACTCCAACCCCGCTTTTAAACTCATTA
1 T-ATCGAGGACACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACTCATCA
388660 AAGTTTAAATCTTATTCTCGCTTAAATTGTCAC
65 AAGTTTAAATCTTATTCTCGCTTAAATTGTCAC
* * *
388693 TATCGAGGACACTTCAACCCCATTCCTCCGAGGAGATACTCCAACCCC
1 TATCGAGGACACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCCC
388741 ATTTTTCACT
Statistics
Matches: 131, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
95 1 0.01
96 33 0.25
97 96 0.73
98 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (97 bp):
TATCGAGGACACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACTCATCAA
AGTTTAAATCTTATTCTCGCTTAAATTGTCAC
Found at i:393845 original size:13 final size:14
Alignment explanation
Indices: 393823--393856 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
393813 TTCTGGTCAT
*
393823 AAAAAGAAAAG-AG
1 AAAAAAAAAAGAAG
393836 AAAAAAAAAAGAAG
1 AAAAAAAAAAGAAG
393850 AAAAAAA
1 AAAAAAA
393857 TTCCATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAAG
Found at i:394985 original size:30 final size:30
Alignment explanation
Indices: 394951--395022 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
394941 GTAACTTCTC
* *
394951 CAAAGTCCATAATTTAGTGGTATTTCTTTT
1 CAAAGTTCATAATTTAGTGGCATTTCTTTT
394981 CAAAGTTCATAATTTAGTGGCATTTCTTTT
1 CAAAGTTCATAATTTAGTGGCATTTCTTTT
395011 CAAAGTTCATAA
1 CAAAGTTCATAA
395023 CTCCATGGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (30 bp):
CAAAGTTCATAATTTAGTGGCATTTCTTTT
Found at i:395032 original size:30 final size:30
Alignment explanation
Indices: 394951--395032 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
394941 GTAACTTCTC
* ** *
394951 CAAAGTCCATAATTTAGTGGTATTTCTTTT
1 CAAAGTTCATAATCCAGTGGCATTTCTTTT
**
394981 CAAAGTTCATAATTTAGTGGCATTTCTTTT
1 CAAAGTTCATAATCCAGTGGCATTTCTTTT
395011 CAAAGTTCATAACTCCA-TGGCA
1 CAAAGTTCATAA-TCCAGTGGCA
395033 ACCTTTTTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
30 45 0.96
31 2 0.04
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (30 bp):
CAAAGTTCATAATCCAGTGGCATTTCTTTT
Found at i:395079 original size:33 final size:35
Alignment explanation
Indices: 395003--395084 Score: 116
Period size: 34 Copynumber: 2.4 Consensus size: 35
394993 TTTAGTGGCA
*
395003 TTTCTTTTCAAAGT-TCATAACTCCATGGCAACCTT
1 TTTCTTTT-AAAGTCTCACAACTCCATGGCAACCTT
*
395038 TTTCTTTTAAAGTCT-ACAACTCCGTGGCAACC-T
1 TTTCTTTTAAAGTCTCACAACTCCATGGCAACCTT
395071 TTTCTTTTAAAGTC
1 TTTCTTTTAAAGTC
395085 CATAACTTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
33 15 0.34
34 20 0.45
35 9 0.20
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.41
Consensus pattern (35 bp):
TTTCTTTTAAAGTCTCACAACTCCATGGCAACCTT
Found at i:395098 original size:33 final size:33
Alignment explanation
Indices: 395003--395106 Score: 127
Period size: 33 Copynumber: 3.1 Consensus size: 33
394993 TTTAGTGGCA
* *
395003 TTTCTTTTCAAAGTTCATAACTCCATGGCAACCTT
1 TTTCTTTT-AAAGTCCATAACTCCGTGGCAACC-T
* *
395038 TTTCTTTTAAAGTCTACAACTCCGTGGCAACCT
1 TTTCTTTTAAAGTCCATAACTCCGTGGCAACCT
** *
395071 TTTCTTTTAAAGTCCATAACTTTGTGGCACCCT
1 TTTCTTTTAAAGTCCATAACTCCGTGGCAACCT
395104 TTT
1 TTT
395107 AAAGTCCACA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
33 32 0.53
34 20 0.33
35 8 0.13
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (33 bp):
TTTCTTTTAAAGTCCATAACTCCGTGGCAACCT
Found at i:395146 original size:27 final size:27
Alignment explanation
Indices: 395074--395567 Score: 417
Period size: 27 Copynumber: 18.0 Consensus size: 27
395064 GCAACCTTTT
* * *
395074 CTTTTAAAGTCCATAACTTTGTGGCACC
1 CTTTT-AAGTCCACAACTCTGTGGCATC
*
395102 CTTTTAAAGTCCACAACTCTATGGCATC
1 CTTTT-AAGTCCACAACTCTGTGGCATC
* * *
395130 GTTTTAAGTTCACAACT-TCGTGGCACC
1 CTTTTAAGTCCACAACTCT-GTGGCATC
* ** *
395157 CTTTAAAGTCCACAACTCCATGGTA-C
1 CTTTTAAGTCCACAACTCTGTGGCATC
* *
395183 TCTTTTAAAGTCCATAACTCCGTGGCATC
1 -CTTTT-AAGTCCACAACTCTGTGGCATC
* *
395212 CTTTAAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCTGTGGCATC
395239 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCTGTGGCATC
* *
395267 CTTTTAAAGTCCACAACT-TCATGGCACC
1 CTTTT-AAGTCCACAACTCT-GTGGCATC
* * *
395295 CCTTTAAGTCCACAACTCCGTGGCAGC
1 CTTTTAAGTCCACAACTCTGTGGCATC
* * * *
395322 CTTTAAAGTCCACAACTCTATGGTA-G
1 CTTTTAAGTCCACAACTCTGTGGCATC
* *
395348 CTTTTAAAGTCCACAACT-TCGTGCCACC
1 CTTTT-AAGTCCACAACTCT-GTGGCATC
* * *
395376 CTTTTAAGTCCACAACTCCGTGGAAGCC
1 CTTTTAAGTCCACAACTCTGTGGCA-TC
* * *
395404 CTTTTAAAGTCCACAGCT-TCGTGGTACC
1 CTTTT-AAGTCCACAACTCT-GTGGCATC
*
395432 CTTTTAAGTCCACAACTCCGTGGCA-C
1 CTTTTAAGTCCACAACTCTGTGGCATC
* * * *
395458 GTTTTTAGGTCCACAACTCCGTGGTATC
1 -CTTTTAAGTCCACAACTCTGTGGCATC
* *
395486 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCTGTGGCATC
* *
395514 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCTGTGGCATC
* *
395541 CTTTTAAGTCCACAAGTCAGTGGCATC
1 CTTTTAAGTCCACAACTCTGTGGCATC
395568 ATTTCAAAGC
Statistics
Matches: 389, Mismatches: 58, Indels: 39
0.80 0.12 0.08
Matches are distributed among these distances:
26 8 0.02
27 222 0.57
28 142 0.37
29 17 0.04
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCTGTGGCATC
Found at i:395160 original size:55 final size:56
Alignment explanation
Indices: 395041--395555 Score: 550
Period size: 55 Copynumber: 9.3 Consensus size: 56
395031 CAACCTTTTT
* * * *
395041 CTTTTAAAGTCTACAACTCCGTGGCAACCTTTTCTTTTAAAGTCCATAACTTTGTGGCACC
1 CTTTTAAAGTCCACAACTCCATGGC-ACC----CTTTTAAAGTCCACAACTTCGTGGCACC
* * * *
395102 CTTTTAAAGTCCACAACTCTATGGCATCGTTTT-AAGTTCACAACTTCGTGGCACC
1 CTTTTAAAGTCCACAACTCCATGGCACCCTTTTAAAGTCCACAACTTCGTGGCACC
* * * * *
395157 C-TTTAAAGTCCACAACTCCATGGTACTCTTTTAAAGTCCATAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCCATGGCACCCTTTTAAAGTCCACAACTTCGTGGCACC
* * *
395212 C-TTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAAC-TCTGTGGCATC
1 CTTTTAAAGTCCACAACTCCATGGCACCCTTTTAAAGTCCACAACTTC-GTGGCACC
* * * *
395267 CTTTTAAAGTCCACAACTTCATGGCACCCCTTT-AAGTCCACAACTCCGTGGCAGC
1 CTTTTAAAGTCCACAACTCCATGGCACCCTTTTAAAGTCCACAACTTCGTGGCACC
* * * *
395322 C-TTTAAAGTCCACAACTCTATGGTA-GCTTTTAAAGTCCACAACTTCGTGCCACC
1 CTTTTAAAGTCCACAACTCCATGGCACCCTTTTAAAGTCCACAACTTCGTGGCACC
* * * *
395376 CTTTT-AAGTCCACAACTCCGTGGAAGCCCTTTTAAAGTCCACAGCTTCGTGGTACC
1 CTTTTAAAGTCCACAACTCCATGGCA-CCCTTTTAAAGTCCACAACTTCGTGGCACC
* * * * * * *
395432 CTTTT-AAGTCCACAACTCCGTGGCA-CGTTTTTAGGTCCACAACTCCGTGGTATC
1 CTTTTAAAGTCCACAACTCCATGGCACCCTTTTAAAGTCCACAACTTCGTGGCACC
* *
395486 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCCATGGCACCCTTTTAAAGTCCACAACTTCGTGGCACC
395541 CTTTT-AAGTCCACAA
1 CTTTTAAAGTCCACAA
395556 GTCAGTGGCA
Statistics
Matches: 389, Mismatches: 55, Indels: 27
0.83 0.12 0.06
Matches are distributed among these distances:
53 4 0.01
54 123 0.32
55 152 0.39
56 86 0.22
60 2 0.01
61 22 0.06
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (56 bp):
CTTTTAAAGTCCACAACTCCATGGCACCCTTTTAAAGTCCACAACTTCGTGGCACC
Found at i:395327 original size:137 final size:135
Alignment explanation
Indices: 395076--395555 Score: 595
Period size: 137 Copynumber: 3.5 Consensus size: 135
395066 AACCTTTTCT
* ** ** * * *
395076 TTTAAAGTCCATAACTTTGTGGCACCCTTTTAAAGTCCACAACTCTATGGCATCGTTTTAAGTTC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * * *
395141 ACAACTTCGTGGCA-CCCTTTAAAGTCCACAACTCCATGGTACTCTTTTAAAGTCCATAACTCCG
65 ACAACTTCGTGGCACCCCTTT-AAGTCCACAACTCCGTGGCACGC-TTTAAAGTCCACAACTCCG
*
395205 TGGCATCC
128 TGGTATCC
* * *
395213 TTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAAGTC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTT-AAGTC
* **
395278 CACAACTTCATGGCACCCCTTTAAGTCCACAACTCCGTGGCA-GCCTTTAAAGTCCACAACTCTA
64 CACAACTTCGTGGCACCCCTTTAAGTCCACAACTCCGTGGCACG-CTTTAAAGTCCACAACTCCG
* *
395342 TGGTAGCT
128 TGGTATCC
* * *
395350 TTTAAAGTCCACAACTTCGTGCCACCCTTTTAAGTCCACAACTCCGTGGAAGCCCTTTTAAAGTC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTT-AAGTC
* * * * * *
395415 CACAGCTTCGTGGTACCCTTTTAAGTCCACAACTCCGTGGCACGTTTTTAGGTCCACAACTCCGT
64 CACAACTTCGTGGCACCCCTTTAAGTCCACAACTCCGTGGCACGCTTTAAAGTCCACAACTCCGT
395480 GGTATCC
129 GGTATCC
395487 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 -TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
395552 ACAA
65 ACAA
395556 GTCAGTGGCA
Statistics
Matches: 299, Mismatches: 38, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
136 27 0.09
137 180 0.60
138 86 0.29
139 6 0.02
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (135 bp):
TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
CAACTTCGTGGCACCCCTTTAAGTCCACAACTCCGTGGCACGCTTTAAAGTCCACAACTCCGTGG
TATCC
Found at i:395327 original size:165 final size:164
Alignment explanation
Indices: 395074--395576 Score: 627
Period size: 165 Copynumber: 3.1 Consensus size: 164
395064 GCAACCTTTT
* * *
395074 CTTTTAAAGTCCATAACTTTGTGGCACCCTTTTAAAGTCCACAAC-TCTATGGCATCGTTTTAAG
1 CTTTTAAAGTCCACAAC-TTGTGGCACCCTTTTAAAGTCCACAACTTC-ATGGCACCCTTTTAAG
* * * *
395138 TTCACAACTTCGTGGCACCCTTTAAAGTCCACAACTCCATGGTACTCTTTTAAAGTCCATAACTC
64 TCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCATGGTACCCTTTTAAAGTCCACAACTC
* *
395203 CGTGGCATCCTTTAAAGTCCACAACTCCGTGGCATC
129 CGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATC
* *
395239 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTTCATGGCACCCCTTTAAGT
1 CTTTTAAAGTCCACAACT-TGTGGCACCCTTTTAAAGTCCACAACTTCATGGCACCCTTTTAAGT
* * * *
395304 CCACAACTCCGTGGCAGCCTTTAAAGTCCACAACTCTATGGTA-GCTTTTAAAGTCCACAACTTC
65 CCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCATGGTACCCTTTTAAAGTCCACAACTCC
* * *
395368 GTGCCACCCTTTTAAGTCCACAACTCCGTGGAAGCC
130 GTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-TC
* * * * ** *
395404 CTTTTAAAGTCCACAGCTTCGTGGTACCCTTTT-AAGTCCACAACTCCGTGGCACGTTTTTAGGT
1 CTTTTAAAGTCCACAACTT-GTGGCACCCTTTTAAAGTCCACAACTTCATGGCACCCTTTTAAGT
* * * *
395468 CCACAACTCCGTGGTATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTC
65 CCACAACTCCGTGGCA-CCCTTTAAAGTCCACAACTCCATGGTACCCTTTTAAAGTCCACAACTC
* *
395532 CGTGGCACCCTTTTAAGTCCACAAGTCAGTGGCATC
129 CGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATC
* *
395568 ATTTCAAAG
1 CTTTTAAAG
395577 CCCATAAGTC
Statistics
Matches: 291, Mismatches: 41, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
164 97 0.33
165 187 0.64
166 7 0.02
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (164 bp):
CTTTTAAAGTCCACAACTTGTGGCACCCTTTTAAAGTCCACAACTTCATGGCACCCTTTTAAGTC
CACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCATGGTACCCTTTTAAAGTCCACAACTCCG
TGGCACCCTTTTAAGTCCACAACTCCGTGGCATC
Found at i:395587 original size:28 final size:28
Alignment explanation
Indices: 395550--396003 Score: 489
Period size: 28 Copynumber: 16.2 Consensus size: 28
395540 CCTTTTAAGT
395550 CCACAAGTCAGTGGCATCATTTCAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGC
* * *
395578 CCATAAGTCAATGGCATCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGC
* * *
395606 TCACAAGTTAGTGGCAACATTTCAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGC
* * *
395634 CTACAAGTTAGTGGCACCATTTCAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGC
* * *
395662 CCACAGGTCAGTGACATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGC
* *
395690 CCACAA-TCAGTAGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGC
* *
395717 CCATAAGTCAGTGGCA-CCTTTCAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGC
* * *
395744 CTACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGC
* * *
395772 TCACAAGTCAGTGGCATCCTTTCATAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGC
* *
395800 CCACAAGTCAATGGCATCATTTGAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGC
* * *
395828 CTACAAGTTAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGC
* * *
395856 CCACAAGTTAGTGGCATCCTTTCATAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGC
* *
395884 CCACAAGTCAATGGCATCATTTGAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGC
* * *
395912 CTACAAGTGAGTGGCATCATTTCAAAAC
1 CCACAAGTCAGTGGCATCATTTCAAAGC
* *
395940 CCACAAGTTAGTGGCATCTACTTTCAAAGT
1 CCACAAGTCAGTGGCATC-A-TTTCAAAGC
* * * * *
395970 TCACAAGTCGGTTGGTACCCTTTCAAAGC
1 CCACAAGTCAG-TGGCATCATTTCAAAGC
395999 CCACA
1 CCACA
396004 TAAGTCGGTG
Statistics
Matches: 358, Mismatches: 63, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
27 49 0.14
28 276 0.77
29 13 0.04
30 15 0.04
31 5 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (28 bp):
CCACAAGTCAGTGGCATCATTTCAAAGC
Found at i:395647 original size:84 final size:84
Alignment explanation
Indices: 395533--395978 Score: 538
Period size: 84 Copynumber: 5.3 Consensus size: 84
395523 CCACAACTCC
* * * * * * *
395533 GTGGCACCCTTT-TAAGTCCACAAGTCAGTGGCATCATTTCAAAGCCCATAAGTCAATGGCATCT
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCTACAAGTCAGTGGCATCC
*
395597 TTTCAAAGCTCACAAGTTA
66 TTTCAAAGCCCACAAGTTA
* * * * * * * *
395616 GTGGCAACATTTCAAAGCCTACAAGTTAGTGGCACCATTTCAAAGCCCACAGGTCAGTGACATCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCTACAAGTCAGTGGCATCC
*
395681 TTTCAAAGCCCACAA-TCA
66 TTTCAAAGCCCACAAGTTA
* * * *
395699 GTAGCATCCTTTCAAAGCCCATAAGTCAGTGGCA-CCTTTCAAAGCCTACAAGTCAGTGGCACCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCTACAAGTCAGTGGCATCC
* *
395763 TTTCAAAGCTCACAAGTCA
66 TTTCAAAGCCCACAAGTTA
* * * *
395782 GTGGCATCCTTTCATAGCCCACAAGTCAATGGCATCATTTGAAAGCCTACAAGTTAGTGGCATCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCTACAAGTCAGTGGCATCC
395847 TTTCAAAGCCCACAAGTTA
66 TTTCAAAGCCCACAAGTTA
* * * * *
395866 GTGGCATCCTTTCATAGCCCACAAGTCAATGGCATCATTTGAAAGCCTACAAGTGAGTGGCATCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCTACAAGTCAGTGGCATCC
*
395931 TTTCAAAACCCACAAGTTA
66 TTTCAAAGCCCACAAGTTA
**
395950 GTGGCATCTACTTTCAAAGTTCACAAGTC
1 GTGGCATC--CTTTCAAAGCCCACAAGTC
395979 GGTTGGTACC
Statistics
Matches: 316, Mismatches: 42, Indels: 7
0.87 0.12 0.02
Matches are distributed among these distances:
82 39 0.12
83 73 0.23
84 188 0.59
86 16 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (84 bp):
GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCTACAAGTCAGTGGCATCC
TTTCAAAGCCCACAAGTTA
Found at i:396094 original size:32 final size:31
Alignment explanation
Indices: 395971--396132 Score: 111
Period size: 31 Copynumber: 5.3 Consensus size: 31
395961 TTTCAAAGTT
* *
395971 CACAAGTCGGTTGGTAC-CCTTTCAAAGCCCA
1 CACAAGTCGG-TGGAACTCTTTTCAAAGCCCA
* *
396002 CATAAGTCGGTGGCAACTCTTTTCAAA---AA
1 CACAAGTCGGTGG-AACTCTTTTCAAAGCCCA
* *
396031 CTACAAGTCAGT-GACACTCTTTT-ACAGCCCA
1 C-ACAAGTCGGTGGA-ACTCTTTTCAAAGCCCA
*
396062 CACAAGTCGGTGGTAAATCTTTTCAAAGCCCA
1 CACAAGTCGGTGG-AACTCTTTTCAAAGCCCA
* ** * * * *
396094 CACAGGTTAGTGGCACTTTTTTTAAAGCTCA
1 CACAAGTCGGTGGAACTCTTTTCAAAGCCCA
396125 CACAAGTC
1 CACAAGTC
396133 AGTGACAATC
Statistics
Matches: 100, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
28 3 0.03
29 11 0.11
30 20 0.20
31 40 0.40
32 26 0.26
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (31 bp):
CACAAGTCGGTGGAACTCTTTTCAAAGCCCA
Found at i:396609 original size:17 final size:19
Alignment explanation
Indices: 396582--396617 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
396572 ACTTATTTGA
396582 AAAAAATAC-AAAATAAAT
1 AAAAAATACAAAAATAAAT
396600 AAAAAA-ACAAAAATAAAT
1 AAAAAATACAAAAATAAAT
396618 GAGTGGCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 15 0.88
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.14
Consensus pattern (19 bp):
AAAAAATACAAAAATAAAT
Found at i:399167 original size:96 final size:97
Alignment explanation
Indices: 398873--399203 Score: 479
Period size: 97 Copynumber: 3.4 Consensus size: 97
398863 TTATTTATCG
* * * * *
398873 GGGATACTCTAACCCTATTCCTTCGA-GAGATTACTCTAACCTCGTTTTTAAACTCATCAAAGTT
1 GGGACACTCTAACCCTATTCCTCCGAGGGGA-TACTCCAACCTCGCTTTTAAACTCATCAAAGTT
* *
398937 TAAATCTTATTCTCCCTTAAATTGTCATCATAA
65 TAAATCTTATTCTCGCTTAAATTGTCATCATCA
* *
398970 GGGACACTGC-AGCCCTATTCCTCCGAGGGGATACTCCAACCTCACTTTTAAACTCATCAAAGTT
1 GGGACACT-CTAACCCTATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACTCATCAAAGTT
* *
399034 TAAATCTTATTCTTGCTTAAATTGTCATCAACA
65 TAAATCTTATTCTCGCTTAAATTGTCATCATCA
*
399067 GGGACACTCTAACCCTATTCCTCCGAGGGGATACTTCAACC-CGCTTTTAAACTCATCAAAGTTT
1 GGGACACTCTAACCCTATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACTCATCAAAGTTT
*
399131 AAATCTTATTCTCGCTTAAATTGTCATCATCG
66 AAATCTTATTCTCGCTTAAATTGTCATCATCA
* * *
399163 GGGACACTCCAACCCCATTCCTCCAAGGGGATACTCCAACC
1 GGGACACTCTAACCCTATTCCTCCGAGGGGATACTCCAACC
399204 CTATTTTTCA
Statistics
Matches: 210, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
96 89 0.42
97 117 0.56
98 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (97 bp):
GGGACACTCTAACCCTATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACTCATCAAAGTTT
AAATCTTATTCTCGCTTAAATTGTCATCATCA
Found at i:401433 original size:23 final size:23
Alignment explanation
Indices: 401406--401456 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
401396 ATCTTAAAAT
401406 AGTCAAAAGGTATTTAAATGTTG
1 AGTCAAAAGGTATTTAAATGTTG
401429 AGTCAAAAGGTATTTAAATGTTG
1 AGTCAAAAGGTATTTAAATGTTG
401452 AGTCA
1 AGTCA
401457 TAGGTCGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (23 bp):
AGTCAAAAGGTATTTAAATGTTG
Found at i:406798 original size:52 final size:52
Alignment explanation
Indices: 406650--406778 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
406640 CGAAATATGA
406650 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
406702 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
406754 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
406779 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:406890 original size:19 final size:19
Alignment explanation
Indices: 406864--406960 Score: 92
Period size: 19 Copynumber: 5.7 Consensus size: 19
406854 AGCGATACAT
406864 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
406883 TATATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
406896 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
406915 TGTATCGATAC---A---A
1 TGTATCGATACAAAACTTA
406928 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
406947 TGTATCGATACAAA
1 TGTATCGATACAAA
406961 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 24
0.71 0.02 0.27
Matches are distributed among these distances:
13 22 0.34
14 1 0.02
16 4 0.06
18 1 0.02
19 36 0.56
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:406897 original size:32 final size:32
Alignment explanation
Indices: 406851--406958 Score: 180
Period size: 32 Copynumber: 3.4 Consensus size: 32
406841 GCAGTAGCTT
*
406851 TGTAGCGATACATTGTATCGATACAAAACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
* *
406883 TATATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
*
406915 TGTATCGATACAATGTATCGATACAAAACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
406947 TGTATCGATACA
1 TGTATCGATACA
406959 AATCGTTGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAAAACTTA
Found at i:406940 original size:13 final size:13
Alignment explanation
Indices: 406914--406940 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
406904 TACAACACTT
406914 ATGTATCGATACA
1 ATGTATCGATACA
406927 ATGTATCGATACA
1 ATGTATCGATACA
406940 A
1 A
406941 AACTTATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:408429 original size:18 final size:18
Alignment explanation
Indices: 408406--408454 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
408396 AACACGTAAA
408406 TTTTTCTTTCTTTCTTTC
1 TTTTTCTTTCTTTCTTTC
* *
408424 TTTTTCTTTTTTTCTTTT
1 TTTTTCTTTCTTTCTTTC
*
408442 TTTTTCTCTCTTT
1 TTTTTCTTTCTTT
408455 ATTGAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTCTTTCTTTC
Found at i:408431 original size:14 final size:14
Alignment explanation
Indices: 408412--408454 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
408402 TAAATTTTTC
408412 TTTCTTTCTTTCTT
1 TTTCTTTCTTTCTT
*
408426 TTTCTTTTTTTCTT
1 TTTCTTTCTTTCTT
* *
408440 TTTTTTTCTCTCTT
1 TTTCTTTCTTTCTT
408454 T
1 T
408455 ATTGAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTCTTTCTTTCTT
Found at i:411440 original size:16 final size:16
Alignment explanation
Indices: 411399--411442 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
411389 AGGAGATTTT
411399 TGTTAGAGATCTTTAA
1 TGTTAGAGATCTTTAA
* * *
411415 TGTCAAAGATCTTTCA
1 TGTTAGAGATCTTTAA
411431 TGTTAGAGATCT
1 TGTTAGAGATCT
411443 CTGATTTAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (16 bp):
TGTTAGAGATCTTTAA
Found at i:415155 original size:155 final size:154
Alignment explanation
Indices: 414969--415554 Score: 532
Period size: 155 Copynumber: 3.8 Consensus size: 154
414959 CTAAAGGACC
414969 AAAAAGGA-TAATAAATGAGG-TGAACCTATCCTAAATACCCACCTTC-AGCATAAAAGCAGACC
1 AAAAAGGACTAA-AAATG-GGATGAACCTATCCTAAATACCCACCTTCGA-CATAAAAGCAGACC
* * *
415031 TGATGGCAACCTAGGACTC-AGTTCTAAAAATTACAAAAATACCCCTATGGGTATACCTTTGACA
63 TGATGACAACCTAGGACTCGA-TTCTAAAAATTACAAAAATACCCCTAAGGG-ATACCTTTGACG
415095 TAAAAGTATCTCGACAACCCTAAAAAACTT
126 TAAAAGTATCTCGA-AACCCTAAAAAACTT
* * **
415125 AAAAA-GACTAAAAATGGGATGAACCTATCCTAAATGCCCACCTTCGACACAAAAGTGGA-CTCG
1 AAAAAGGACTAAAAATGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCT-G
* * * * * *
415188 ATGGCAACCTAGGACTCAATTTCAAAAAATTACGAAAATGCCCCTAAGGGATACC-TTCAGCGTA
65 ATGACAACCTAGGACTCGA-TTCTAAAAATTACAAAAATACCCCTAAGGGATACCTTTGA-CGTA
* * * * *
415252 AAAATACCT-GATACCCCTATAACACTT
128 AAAGTATCTCGA-AACCCTAAAAAACTT
* * * * * * * *
415279 AAAAAGGA-TAATAGATGGGGTGAACATATCCTAAATATCTACCTTCGGCATAAAAGCAAACCCG
1 AAAAAGGACTAA-AAATGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCTG
* * * * * *
415343 GTGAAAACTTAGGACTCGATTTTAAACACTTACAAAAA-AGCCCCT-AGGAAATACCTTTGACGT
65 ATGACAACCTAGGACTCGATTCTAAA-AATTACAAAAATA-CCCCTAAGG-GATACCTTTGACGT
* * * **
415406 AAAAGTATCCCGATACCTTTAAAGGACTT
127 AAAAGTATCTCGAAACC-CTAAAAAACTT
* * * *
415435 AAAAAGGACTACAAA-GGGATGAACCTATCCTAAATACTCACCTTCGACATAAAATCGGATCC-G
1 AAAAAGGACTAAAAATGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGA-CCTG
* * *
415498 ATGATAACCTAAGACTCGATTTTAAAAAATTACAAAAATACCCCTAAGGGATACCTT
65 ATGACAACCTAGGACTCGATTCT-AAAAATTACAAAAATACCCCTAAGGGATACCTT
415555 CGATGCGAAA
Statistics
Matches: 343, Mismatches: 67, Indels: 41
0.76 0.15 0.09
Matches are distributed among these distances:
154 37 0.11
155 236 0.69
156 68 0.20
157 2 0.01
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (154 bp):
AAAAAGGACTAAAAATGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCTGA
TGACAACCTAGGACTCGATTCTAAAAATTACAAAAATACCCCTAAGGGATACCTTTGACGTAAAA
GTATCTCGAAACCCTAAAAAACTT
Found at i:415544 original size:310 final size:309
Alignment explanation
Indices: 414947--415555 Score: 766
Period size: 310 Copynumber: 2.0 Consensus size: 309
414937 GATATAATAG
* *
414947 TACCTGATACCCCTAAAGGACCAAAAAGGATAATAAATGAGGTGAACCTATCCTAAATACCCACC
1 TACCTGATACCCCTAAAGCACCAAAAAGGATAATAAATGAGGTGAACATATCCTAAATACCCACC
* * **
415012 TTCAGCATAAAAGCAGACCTGATGGCAACCTAGGACTCAGTTCTAAAAATTACAAAAATACCCCT
66 TTCAGCATAAAAGCAAACCCGATGAAAACCTAGGACTCAGTTCTAAAAATTACAAAAATACCCCT
** *
415077 ATGGGTATACCTTTGACATAAAAGTATCTCGACAACCCTAAAAAACTTAAAAAGACTAAAAATGG
131 ATGGAAATACCTTTGACATAAAAGTATCCCGACAACCCTAAAAAACTTAAAAAGACTAAAAATGG
* * *
415142 GATGAACCTATCCTAAATGCCCACCTTCGACACAAAAGTGGACTCGATGGCAACCTAGGACTCAA
196 GATGAACCTATCCTAAATACCCACCTTCGACACAAAAGTGGACTCGATGACAACCTAAGACTCAA
* *
415207 TTTCAAAAAATTACGAAAATGCCCCTAAGGGATACCTTCAGCGTAAAAA
261 TTTCAAAAAATTACAAAAATACCCCTAAGGGATACCTTCAGCGTAAAAA
* * * * *
415256 TACCTGATACCCCTATAA-CACTTAAAAAGGATAATAGATGGGGTGAACATATCCTAAATATCTA
1 TACCTGATACCCCTA-AAGCAC-CAAAAAGGATAATAAATGAGGTGAACATATCCTAAATACCCA
* * * * *
415320 CCTTCGGCATAAAAGCAAACCCGGTGAAAACTTAGGACTC-GATTTTAAACACTTACAAAAA-AG
64 CCTTCAGCATAAAAGCAAACCCGATGAAAACCTAGGACTCAG-TTCTAAA-AATTACAAAAATA-
* * * **
415383 CCCCTA-GGAAATACCTTTGACGTAAAAGTATCCCGA-TACCTTTAAAGGACTTAAAAAGGACTA
126 CCCCTATGGAAATACCTTTGACATAAAAGTATCCCGACAACC-CTAAAAAACTTAAAAA-GACTA
* * * *
415446 CAAA-GGGATGAACCTATCCTAAATACTCACCTTCGACATAAAA-TCGGA-TCCGATGATAACCT
189 AAAATGGGATGAACCTATCCTAAATACCCACCTTCGACACAAAAGT-GGACT-CGATGACAACCT
* *
415508 AAGACTCGATTTTAAAAAATTACAAAAATACCCCTAAGGGATACCTTC
252 AAGACTCAATTTCAAAAAATTACAAAAATACCCCTAAGGGATACCTTC
415556 GATGCGAAAG
Statistics
Matches: 256, Mismatches: 35, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
309 23 0.09
310 209 0.82
311 24 0.09
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.22
Consensus pattern (309 bp):
TACCTGATACCCCTAAAGCACCAAAAAGGATAATAAATGAGGTGAACATATCCTAAATACCCACC
TTCAGCATAAAAGCAAACCCGATGAAAACCTAGGACTCAGTTCTAAAAATTACAAAAATACCCCT
ATGGAAATACCTTTGACATAAAAGTATCCCGACAACCCTAAAAAACTTAAAAAGACTAAAAATGG
GATGAACCTATCCTAAATACCCACCTTCGACACAAAAGTGGACTCGATGACAACCTAAGACTCAA
TTTCAAAAAATTACAAAAATACCCCTAAGGGATACCTTCAGCGTAAAAA
Found at i:415589 original size:155 final size:155
Alignment explanation
Indices: 414903--415589 Score: 525
Period size: 155 Copynumber: 4.4 Consensus size: 155
414893 TAAGTTTAAG
* * * *** * *
414903 AAAAATTACGAAAATACCCCT-AGAAGATACATTCGATATAATAGTA-CCTGATAC-CCCTAAAG
1 AAAAATTACAAAAATACCCCTAAG-GGATACCTTCGACGCAAAAGTATCCTGATACTCCCTAAAA
*
414965 GAC-CAAAAAGGA-TAATAAATGAGG-TGAACCTATCCTAAATACCCACCTTC-AGCATAAAAGC
65 GACTTAAAAAGGACT-A-AAATG-GGATGAACCTATCCTAAATACCCACCTTCGA-CATAAAAGC
* *
415026 AGACCTGATGGCAACCTAGGACTC-AGTTCT-
126 AGACC-GATGACAACCTAGGACTCGA-TTTTA
* * ** * *
415056 AAAAATTACAAAAATACCCCTATGGGTATACCTTTGACATAAAAGTAT-CTCGACA-ACCCTAAA
1 AAAAATTACAAAAATACCCCTAAGGG-ATACCTTCGACGCAAAAGTATCCT-GATACTCCCTAAA
* * * **
415119 AAACTTAAAAA-GACTAAAAATGGGATGAACCTATCCTAAATGCCCACCTTCGACACAAAAGTGG
64 AGACTTAAAAAGGACT-AAAATGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAG
* * *
415183 ACTCGATGGCAACCTAGGACTCAATTTCA
128 AC-CGATGACAACCTAGGACTCGATTTTA
* * * * *
415212 AAAAATTACGAAAATGCCCCTAAGGGATACCTTC-AGCGTAAAAATA-CCTGATAC-CCCTATAA
1 AAAAATTACAAAAATACCCCTAAGGGATACCTTCGA-CGCAAAAGTATCCTGATACTCCCTAAAA
* * * * * * *
415274 CACTTAAAAAGGA-TAATAGATGGGGTGAACATATCCTAAATATCTACCTTCGGCATAAAAGCAA
65 GACTTAAAAAGGACTAA-A-ATGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAG
* * *
415338 ACCCGGTGAAAACTTAGGACTCGATTTTA
128 A-CCGATGACAACCTAGGACTCGATTTTA
* * * * * * **
415367 AACACTTACAAAAA-AGCCCCT-AGGAAATACCTTTGACGTAAAAGTATCCCGATAC-CTTTAAA
1 AAAAATTACAAAAATA-CCCCTAAGG-GATACCTTCGACGCAAAAGTATCCTGATACTCCCTAAA
* * * *
415429 GGACTTAAAAAGGACTACAAA-GGGATGAACCTATCCTAAATACTCACCTTCGACATAAAATCGG
64 AGACTTAAAAAGGACTA-AAATGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAG
* *
415493 ATCCGATGATAACCTAAGACTCGATTTTA
128 A-CCGATGACAACCTAGGACTCGATTTTA
* * * * *
415522 AAAAATTACAAAAATACCCCTAAGGGATACCTTCGATGCGAAAGTATTCTGGTACTGCC-AAAAG
1 AAAAATTACAAAAATACCCCTAAGGGATACCTTCGACGCAAAAGTATCCTGATACTCCCTAAAAG
415586 ACTT
66 ACTT
415590 GAAAGGGATG
Statistics
Matches: 423, Mismatches: 83, Indels: 54
0.76 0.15 0.10
Matches are distributed among these distances:
153 23 0.05
154 46 0.11
155 286 0.68
156 64 0.15
157 3 0.01
158 1 0.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (155 bp):
AAAAATTACAAAAATACCCCTAAGGGATACCTTCGACGCAAAAGTATCCTGATACTCCCTAAAAG
ACTTAAAAAGGACTAAAATGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACC
GATGACAACCTAGGACTCGATTTTA
Found at i:417246 original size:31 final size:31
Alignment explanation
Indices: 417210--417311 Score: 104
Period size: 31 Copynumber: 3.3 Consensus size: 31
417200 TTACTGCTAC
*
417210 TTTTCTTTTGTTTGTTTGATGCTTTCTTCCT
1 TTTTCTTTTGTTTGTTTGCTGCTTTCTTCCT
* *
417241 TTTTC-TTT-CTTGCCTTTGCTGCTTACCTT--T
1 TTTTCTTTTGTTTG--TTTGCTGCTT-TCTTCCT
417271 TTTTCTATTTGTTTGTTTGCTGCTTTCTTCCT
1 TTTTCT-TTTGTTTGTTTGCTGCTTTCTTCCT
*
417303 TCTTCTTTT
1 TTTTCTTTT
417312 TCGCCCTTGC
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
29 3 0.05
30 12 0.21
31 27 0.47
32 12 0.21
33 3 0.05
ACGTcount: A:0.03, C:0.21, G:0.11, T:0.66
Consensus pattern (31 bp):
TTTTCTTTTGTTTGTTTGCTGCTTTCTTCCT
Found at i:417295 original size:62 final size:59
Alignment explanation
Indices: 417198--417351 Score: 190
Period size: 62 Copynumber: 2.6 Consensus size: 59
417188 CGAATACGCA
* * *
417198 CCTTACTGCT-AC-TTTTCT-TTTGTTTGTTTGATGCTTTCTTCCTTTTTCTTTCTT-GC
1 CCTTGCTGCTCACTTTTTCTATTTGTTTGTTTGCTGCTTTCTTCCTTCTTCTTT-TTCGC
* *
417254 CTTTGCTGCTTACCTTTTTTTCTATTTGTTTGTTTGCTGCTTTCTTCCTTCTTCTTTTTCGC
1 CCTTGCTGCTCA-C--TTTTTCTATTTGTTTGTTTGCTGCTTTCTTCCTTCTTCTTTTTCGC
417316 CCTTGCTGCTCACTTTTTCTATTTGTTTTGTTTGCT
1 CCTTGCTGCTCACTTTTTCTATTTG-TTTGTTTGCT
417352 TTCTCCACTA
Statistics
Matches: 84, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
56 8 0.10
57 1 0.01
58 1 0.01
59 12 0.14
60 10 0.12
61 9 0.11
62 43 0.51
ACGTcount: A:0.05, C:0.23, G:0.12, T:0.60
Consensus pattern (59 bp):
CCTTGCTGCTCACTTTTTCTATTTGTTTGTTTGCTGCTTTCTTCCTTCTTCTTTTTCGC
Found at i:417483 original size:58 final size:57
Alignment explanation
Indices: 417389--417519 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 57
417379 CTCCATTAAT
* * * *
417389 TGCTTCTTTGTTG-TTCGATCTTTGCAGCTCGATGCTGCTGTCTT-TTGTTCTTCACG
1 TGCTGCTTTGTTGTTTCCATATTTGCAGCTCAATGCTGCTGTCTTCTT-TTCTTCACG
*
417445 CTGCTGCTTTGTTGTTTCCATATTTGCAGCTCAATGCTGCTGTCTTCTTTTTTTCACG
1 -TGCTGCTTTGTTGTTTCCATATTTGCAGCTCAATGCTGCTGTCTTCTTTTCTTCACG
417503 TAGCTGCTTTGTTGTTT
1 T-GCTGCTTTGTTGTTT
417520 AATTTTTTCT
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
57 13 0.20
58 51 0.77
59 2 0.03
ACGTcount: A:0.08, C:0.22, G:0.20, T:0.50
Consensus pattern (57 bp):
TGCTGCTTTGTTGTTTCCATATTTGCAGCTCAATGCTGCTGTCTTCTTTTCTTCACG
Found at i:418117 original size:25 final size:25
Alignment explanation
Indices: 418089--418244 Score: 75
Period size: 25 Copynumber: 6.2 Consensus size: 25
418079 TTTCATCATT
*
418089 TTTTATTTTTTATTTTTTATTTTGA
1 TTTTATTTTTGATTTTTTATTTTGA
*
418114 TTTTAGATTTTTGA--TTTGATGTTTG-
1 TTTT--ATTTTTGATTTTTTAT-TTTGA
418139 TTTTGATTTTTCGATTTTTTTATTCATTGA
1 TTTT-ATTTTT-GA-TTTTTTATT--TTGA
418169 -TTT-TTTTT-ATTTTTTTATTTTTGA
1 TTTTATTTTTGA-TTTTTTA-TTTTGA
*
418193 --TTA-TTATGATTTTTTATCTTTGA
1 TTTTATTTTTGATTTTTTAT-TTTGA
418216 -TTT-TTTTT-ATTATTTTGATTTTTGA
1 TTTTATTTTTGATT-TTTT-A-TTTTGA
418241 TTTT
1 TTTT
418245 TTGATCTTTT
Statistics
Matches: 106, Mismatches: 5, Indels: 39
0.71 0.03 0.26
Matches are distributed among these distances:
22 1 0.01
23 20 0.19
24 21 0.20
25 30 0.28
26 10 0.09
27 13 0.12
28 5 0.05
29 6 0.06
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.73
Consensus pattern (25 bp):
TTTTATTTTTGATTTTTTATTTTGA
Found at i:418125 original size:8 final size:7
Alignment explanation
Indices: 418086--418281 Score: 91
Period size: 7 Copynumber: 28.9 Consensus size: 7
418076 ATTTTTCATC
*
418086 ATTTTTT
1 ATTTTTG
*
418093 ATTTTTT
1 ATTTTTG
*
418100 ATTTTTT
1 ATTTTTG
418107 A-TTTTG
1 ATTTTTG
*
418113 ATTTTAG
1 ATTTTTG
418120 ATTTTTG
1 ATTTTTG
418127 A--TTTG
1 ATTTTTG
*
418132 ATGTTTG
1 ATTTTTG
418139 --TTTTG
1 ATTTTTG
418144 ATTTTTCG
1 ATTTTT-G
*
418152 ATTTTTTT
1 A-TTTTTG
*
418160 ATTCATTG
1 ATT-TTTG
418168 ATTTTT-
1 ATTTTTG
418174 -TTTATT-
1 ATTT-TTG
418180 -TTTTT-
1 ATTTTTG
418185 ATTTTTG
1 ATTTTTG
418192 ATTATTATG
1 ATT-TT-TG
*
418201 ATTTTTT
1 ATTTTTG
*
418208 ATCTTTG
1 ATTTTTG
418215 ATTTTT-
1 ATTTTTG
418221 -TTTATT-
1 ATTT-TTG
418227 A-TTTTG
1 ATTTTTG
418233 ATTTTTG
1 ATTTTTG
418240 ATTTTTTG
1 A-TTTTTG
418248 ATCTTTT-
1 AT-TTTTG
*
418255 -TTTATG
1 ATTTTTG
418261 ATTTTATG
1 ATTTT-TG
*
418269 TTTTTTG
1 ATTTTTG
418276 ATTTTT
1 ATTTTT
418282 TTGATTACTA
Statistics
Matches: 151, Mismatches: 16, Indels: 44
0.72 0.08 0.21
Matches are distributed among these distances:
5 22 0.15
6 21 0.14
7 69 0.46
8 29 0.19
9 10 0.07
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.73
Consensus pattern (7 bp):
ATTTTTG
Found at i:418168 original size:24 final size:23
Alignment explanation
Indices: 418140--418246 Score: 86
Period size: 23 Copynumber: 4.8 Consensus size: 23
418130 TGATGTTTGT
418140 TTTGATTTTTCGATTTTTTTATTC
1 TTTGATTTTT-GATTTTTTTATTC
* *
418164 ATTGATTTTTTTTATTTTTTTATT-
1 TTTGA--TTTTTGATTTTTTTATTC
418188 TTTGATTATTATGA-TTTTTTA-TC
1 TTTGATT-TT-TGATTTTTTTATTC
*
418211 TTTGA-TTTT--TTTTATTA-T-
1 TTTGATTTTTGATTTTTTTATTC
418229 TTTGATTTTTGATTTTTT
1 TTTGATTTTTGATTTTTT
418247 GATCTTTTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
18 5 0.07
19 11 0.16
20 1 0.01
21 7 0.10
22 4 0.06
23 14 0.21
24 10 0.15
25 11 0.16
26 5 0.07
ACGTcount: A:0.16, C:0.03, G:0.07, T:0.74
Consensus pattern (23 bp):
TTTGATTTTTGATTTTTTTATTC
Found at i:418181 original size:33 final size:31
Alignment explanation
Indices: 418129--418288 Score: 100
Period size: 31 Copynumber: 5.0 Consensus size: 31
418119 GATTTTTGAT
418129 TTGATGTTTGTTTTGATTTTTCGATTTTTTTATTCA
1 TTGAT-TTT-TTTT-ATTTTT-GATTTTTTTATT-A
418165 TTGATTTTTTTTATTTTT--TTATTTTTGATTA
1 TTGATTTTTTTTATTTTTGATT-TTTTT-ATTA
* *
418196 TT-ATGATTTTTTATCTTTGATTTTTTTTATTA
1 TTGAT-TTTTTTTATTTTTGA-TTTTTTTATTA
** *
418228 TTTTGATTTTTGAT-TTTTTGATCTTTTT-TTA
1 --TTGATTTTTTTTATTTTTGATTTTTTTATTA
* *
418259 -TGATTTTATGT-TTTTTGATTTTTTTGATTA
1 TTGATTTTTTTTATTTTTGATTTTTTT-ATTA
418289 CTATATTATT
Statistics
Matches: 102, Mismatches: 11, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
28 21 0.21
30 7 0.07
31 22 0.22
32 13 0.13
33 17 0.17
34 12 0.12
35 5 0.05
36 5 0.05
ACGTcount: A:0.16, C:0.03, G:0.10, T:0.72
Consensus pattern (31 bp):
TTGATTTTTTTTATTTTTGATTTTTTTATTA
Found at i:418206 original size:32 final size:30
Alignment explanation
Indices: 418171--418281 Score: 102
Period size: 28 Copynumber: 3.7 Consensus size: 30
418161 TTCATTGATT
418171 TTTTTTATTTTTTTATTTTTGATTATTATGA
1 TTTTTTATTTTTTTATTTTT-ATTATTATGA
*
418202 TTTTTTATCTTTGATTT-TTTTTATTATTTTGA
1 TTTTTTAT-TTT--TTTATTTTTATTATTATGA
* * *
418234 TTTTTGATTTTTTGATCTTT-TT-TTATGA
1 TTTTTTATTTTTTTATTTTTATTATTATGA
* * *
418262 TTTTATGTTTTTTGATTTTT
1 TTTTTTATTTTTTTATTTTT
418282 TTGATTACTA
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
28 21 0.31
29 4 0.06
30 4 0.06
31 11 0.16
32 19 0.28
33 5 0.07
34 3 0.04
ACGTcount: A:0.15, C:0.02, G:0.08, T:0.75
Consensus pattern (30 bp):
TTTTTTATTTTTTTATTTTTATTATTATGA
Found at i:418224 original size:47 final size:48
Alignment explanation
Indices: 418139--418255 Score: 150
Period size: 48 Copynumber: 2.4 Consensus size: 48
418129 TTGATGTTTG
*
418139 TTTTGATTTT-TCGATTTTTTTATTCATTGATTTTTTTTATT-TTTTTAT
1 TTTTGATTTTAT-GA-TTTTTTATTCATTGATTTTTTTTATTATTTTGAT
*
418187 TTTTGATTATTATGATTTTTTA-TCTTTGATTTTTTTTATTATTTTGAT
1 TTTTGATT-TTATGATTTTTTATTCATTGATTTTTTTTATTATTTTGAT
*
418235 TTTTGATTTTTTGATCTTTTT
1 TTTTGATTTTATGAT-TTTTT
418256 TTATGATTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
47 23 0.37
48 34 0.55
49 4 0.06
50 1 0.02
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.74
Consensus pattern (48 bp):
TTTTGATTTTATGATTTTTTATTCATTGATTTTTTTTATTATTTTGAT
Found at i:418242 original size:39 final size:40
Alignment explanation
Indices: 418178--418253 Score: 113
Period size: 39 Copynumber: 1.9 Consensus size: 40
418168 ATTTTTTTTA
418178 TTTTTTTATTTTTGATTATTATGATTTTTT-ATCTTTGAT
1 TTTTTTTATTTTTGATTATTATGATTTTTTGATCTTTGAT
418217 TTTTTTTATTATTTTGATT-TT-TGATTTTTTGATCTTT
1 TTTTTTTA-T-TTTTGATTATTATGATTTTTTGATCTTT
418254 TTTTATGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
39 17 0.50
40 9 0.26
41 8 0.24
ACGTcount: A:0.16, C:0.03, G:0.08, T:0.74
Consensus pattern (40 bp):
TTTTTTTATTTTTGATTATTATGATTTTTTGATCTTTGAT
Found at i:418246 original size:9 final size:9
Alignment explanation
Indices: 418139--418287 Score: 74
Period size: 9 Copynumber: 17.9 Consensus size: 9
418129 TTGATGTTTG
418139 TTTTGA-TT
1 TTTTGATTT
*
418147 TTTCGATTT
1 TTTTGATTT
418156 TTTT-A-TT
1 TTTTGATTT
**
418163 CATTGATTT
1 TTTTGATTT
*
418172 TTTTTATTT
1 TTTTGATTT
418181 TTTT-A--T
1 TTTTGATTT
*
418187 TTTTGATTA
1 TTTTGATTT
*
418196 TTATGA-TT
1 TTTTGATTT
418204 TTTT-A--T
1 TTTTGATTT
*
418210 CTTTGATTT
1 TTTTGATTT
* *
418219 TTTTTATTA
1 TTTTGATTT
418228 TTTTGA--T
1 TTTTGATTT
418235 TTTTGA-TT
1 TTTTGATTT
418243 TTTTGATCTT
1 TTTTGAT-TT
* **
418253 TTTTTATGA
1 TTTTGATTT
418262 TTTT-ATGTT
1 TTTTGAT-TT
418271 TTTTGATTT
1 TTTTGATTT
418280 TTTTGATT
1 TTTTGATT
418288 ACTATATTAT
Statistics
Matches: 105, Mismatches: 22, Indels: 27
0.68 0.14 0.18
Matches are distributed among these distances:
6 9 0.09
7 13 0.12
8 21 0.20
9 52 0.50
10 10 0.10
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.73
Consensus pattern (9 bp):
TTTTGATTT
Found at i:418277 original size:28 final size:27
Alignment explanation
Indices: 418068--418246 Score: 59
Period size: 25 Copynumber: 6.4 Consensus size: 27
418058 TATTCGACCA
* * *
418068 TTTGATTCATTTTTCATCATTTTTTATTT
1 TTTGATT--TTTTTTATGATTTTTGATTT
* *
418097 TTT-ATTTTTTATTTTGATTTTAGA-TT
1 TTTGATTTTTT-TTATGATTTTTGATTT
* *
418123 TTTGATTTGATGTT-TG--TTTTGATTT
1 TTTGATTT-TTTTTATGATTTTTGATTT
* *
418148 TTCGATTTTTTTATTCATTGATTTTTTTTATTT
1 TTTGA-TTTTTT-TT-A-TGA--TTTTTGATTT
* * *
418181 TTTTATTTTTGATTATTATGATTTTTTA-TC
1 TTTGA-TTTT--TT-TTATGATTTTTGATTT
*
418211 TTTGATTTTTTTTATTA-TTTTGA-TT
1 TTTGATTTTTTTTATGATTTTTGATTT
418236 TTTGATTTTTT
1 TTTGATTTTTT
418247 GATCTTTTTT
Statistics
Matches: 116, Mismatches: 19, Indels: 34
0.69 0.11 0.20
Matches are distributed among these distances:
24 5 0.04
25 24 0.21
26 21 0.18
27 16 0.14
28 4 0.03
29 9 0.08
30 5 0.04
31 7 0.06
33 19 0.16
34 1 0.01
35 5 0.04
ACGTcount: A:0.16, C:0.03, G:0.08, T:0.72
Consensus pattern (27 bp):
TTTGATTTTTTTTATGATTTTTGATTT
Found at i:418282 original size:8 final size:8
Alignment explanation
Indices: 418086--418287 Score: 101
Period size: 8 Copynumber: 26.4 Consensus size: 8
418076 ATTTTTCATC
418086 ATTTTTT-
1 ATTTTTTG
418093 ATTTTTT-
1 ATTTTTTG
418100 ATTTTTT-
1 ATTTTTTG
418107 A--TTTTG
1 ATTTTTTG
*
418113 A-TTTTAG
1 ATTTTTTG
418120 A-TTTTTG
1 ATTTTTTG
**
418127 ATTTGATG
1 ATTTTTTG
*
418135 TTTGTTTTG
1 ATT-TTTTG
*
418144 ATTTTTCG
1 ATTTTTTG
*
418152 ATTTTTTT
1 ATTTTTTG
**
418160 ATTCATTG
1 ATTTTTTG
*
418168 ATTTTTTTT
1 A-TTTTTTG
*
418177 ATTTTTTT
1 ATTTTTTG
418185 A-TTTTTG
1 ATTTTTTG
*
418192 ATTATTATG
1 ATT-TTTTG
418201 ATTTTTT-
1 ATTTTTTG
*
418208 A-TCTTTG
1 ATTTTTTG
*
418215 ATTTTTTTT
1 A-TTTTTTG
418224 ATTATTTTG
1 ATT-TTTTG
418233 A-TTTTTG
1 ATTTTTTG
418240 ATTTTTTG
1 ATTTTTTG
*
418248 A-TCTTT-
1 ATTTTTTG
*
418254 -TTTTATG
1 ATTTTTTG
*
418261 ATTTTATG
1 ATTTTTTG
418269 -TTTTTTG
1 ATTTTTTG
418276 ATTTTTTTG
1 A-TTTTTTG
418285 ATT
1 ATT
418288 ACTATATTAT
Statistics
Matches: 150, Mismatches: 28, Indels: 33
0.71 0.13 0.16
Matches are distributed among these distances:
5 4 0.03
6 8 0.05
7 50 0.33
8 53 0.35
9 35 0.23
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.73
Consensus pattern (8 bp):
ATTTTTTG
Found at i:419065 original size:86 final size:85
Alignment explanation
Indices: 418960--419194 Score: 266
Period size: 86 Copynumber: 2.8 Consensus size: 85
418950 GGACAAAGTT
*
418960 GACAGGTAAACAAAGGGTAAGAAAGGTTAACTGAGGACAAAGCCGACAGGTCACCAAGAAGTAAG
1 GACAGGTAAACAAAGGGTAAGAAAGGTTAAC-GAGGACAAAGCCGACAGGTCACCAAGAGGTAAG
419025 AAGTTTACTAG-GGACATAGCC
65 AAGTTTA-TAGAGGACATAGCC
* * * * * * *
419046 GATAGGTAAACAAAAGGTAAGAAAGGCTAACCAGGGATAAAGCCGACAAGTCACCAA-AGGTTAG
1 GACAGGTAAACAAAGGGTAAGAAAGGTTAACGA-GGACAAAGCCGACAGGTCACCAAGAGGTAAG
*
419110 AAGTTTATCGAGGACATAGCC
65 AAGTTTATAGAGGACATAGCC
* * * *
419131 GACA-G-AAATAAAGGGTAA-AAATGGTTGACCGAGGACAAAGCTGATAGGTCACCAAG-GGTAA
1 GACAGGTAAACAAAGGGTAAGAAA-GGTT-AACGAGGACAAAGCCGACAGGTCACCAAGAGGTAA
419192 GAA
64 GAA
419195 AGGTTGACCG
Statistics
Matches: 124, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
82 3 0.02
83 40 0.32
84 6 0.05
85 26 0.21
86 49 0.40
ACGTcount: A:0.43, C:0.15, G:0.28, T:0.14
Consensus pattern (85 bp):
GACAGGTAAACAAAGGGTAAGAAAGGTTAACGAGGACAAAGCCGACAGGTCACCAAGAGGTAAGA
AGTTTATAGAGGACATAGCC
Found at i:419066 original size:42 final size:43
Alignment explanation
Indices: 418912--419215 Score: 142
Period size: 44 Copynumber: 7.1 Consensus size: 43
418902 TACCGAAGAT
* * * * *
418912 AGCCGACAGGTAAACAAAGGGTAAAAAAGGCTGA-TCGGGGACAA
1 AGCCGACAGGTAAACAAAAGGT-AAGAAGGTTAACT-GAGGACAA
** *
418956 AGTTGACAGGTAAACAAAGGGTAAGAAAGGTTAACTGAGGACAA
1 AGCCGACAGGTAAACAAAAGGTAAG-AAGGTTAACTGAGGACAA
* * * *
419000 AGCCGACAGGTCACCAAGAA-GTAAGAA-GTTTACT-AGGGACAT
1 AGCCGACAGGTAAACAA-AAGGTAAGAAGGTTAACTGA-GGACAA
* * * *
419042 AGCCGATAGGTAAACAAAAGGTAAGAAAGGCTAAC-CAGGGATAA
1 AGCCGACAGGTAAACAAAAGGTAAG-AAGGTTAACTGA-GGACAA
* * * * * * *
419086 AGCCGACAAGT-CACCAAAGGTTAGAAGTTTATC-GAGGACAT
1 AGCCGACAGGTAAACAAAAGGTAAGAAGGTTAACTGAGGACAA
* * * * *
419127 AGCCGACA-G-AAATAAAGGGTAAAAATGGTTGACCGAGGACAA
1 AGCCGACAGGTAAACAAAAGGTAAGAA-GGTTAACTGAGGACAA
* * * * * * *
419169 AGCTGATAGGT-CACCAAGGGTAAGAAAGGTTGACCGAGGACAA
1 AGCCGACAGGTAAACAAAAGGTAAG-AAGGTTAACTGAGGACAA
419212 AGCC
1 AGCC
419216 AACAAGTCAA
Statistics
Matches: 198, Mismatches: 48, Indels: 29
0.72 0.17 0.11
Matches are distributed among these distances:
40 10 0.05
41 19 0.10
42 50 0.25
43 45 0.23
44 72 0.36
45 2 0.01
ACGTcount: A:0.42, C:0.16, G:0.29, T:0.14
Consensus pattern (43 bp):
AGCCGACAGGTAAACAAAAGGTAAGAAGGTTAACTGAGGACAA
Found at i:419104 original size:130 final size:125
Alignment explanation
Indices: 418867--419135 Score: 277
Period size: 130 Copynumber: 2.1 Consensus size: 125
418857 GTTACCTAGA
** * * *
418867 GACAAAGCCGACAGGTCACTTAGGAGTAAAAAATTTACCGAAGATAGCCGACAGGTAAACAAAGG
1 GACAAAGCCGACAGGTCACCAAGAAGTAAAAAATTTACCGAACATAGCCGACAGGTAAACAAAAG
* * * ** *
418932 GTAAAAAAGGCTGATCGGGGACAAAGTTGACAGGTAAACAAAGGGTAAGAAAGGTTAACTGAG
66 GTAAAAAAGGCTAACCAGGGACAAAGCCGACAAGTAAACAAA-GGTAAG-AAGGTTAAC-GAG
* * * * *
418995 GACAAAGCCGACAGGTCACCAAGAAGTAAGAAGTTTACTAGGGACATAGCCGATAGGTAAACAAA
1 GACAAAGCCGACAGGTCACCAAGAAGTAAAAAATTTAC--CGAACATAGCCGACAGGTAAACAAA
* * * * * * *
419060 AGGTAAGAAAGGCTAACCAGGGATAAAGCCGACAAGTCACCAAAGGTTAGAAGTTTATCGAG
64 AGGTAAAAAAGGCTAACCAGGGACAAAGCCGACAAGTAAACAAAGGTAAGAAGGTTAACGAG
*
419122 GACATAGCCGACAG
1 GACAAAGCCGACAG
419136 AAATAAAGGG
Statistics
Matches: 115, Mismatches: 24, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
127 16 0.14
128 40 0.35
129 5 0.04
130 54 0.47
ACGTcount: A:0.42, C:0.16, G:0.27, T:0.14
Consensus pattern (125 bp):
GACAAAGCCGACAGGTCACCAAGAAGTAAAAAATTTACCGAACATAGCCGACAGGTAAACAAAAG
GTAAAAAAGGCTAACCAGGGACAAAGCCGACAAGTAAACAAAGGTAAGAAGGTTAACGAG
Found at i:419641 original size:44 final size:44
Alignment explanation
Indices: 419491--419738 Score: 168
Period size: 44 Copynumber: 5.7 Consensus size: 44
419481 GAGACGAGGT
* * * *
419491 AGTCTCCAAGGTCAAAGCTGACAAGCAGACTG-AGGGATATAA-GA
1 AGTCTCTAAGGTCAAAGCCGACAAACAGATTGAAGGG-TA-AAGGA
* * * * *
419535 AGTCTCTAGGGTCAAAGCCGACAGGACAGACTT-AA-GAT-GAGGC
1 AGTCTCTAAGGTCAAAGCCGACA-AACAGA-TTGAAGGGTAAAGGA
* *
419578 AGTCTCTAGGGTCAAAGCCGACAAATAGATTGAAGGGTAAAGGA
1 AGTCTCTAAGGTCAAAGCCGACAAACAGATTGAAGGGTAAAGGA
* ** * *
419622 AGTCTCTAAGGTCAAAGCCGATAGGCAGATTGAAGAGTGAAGGA
1 AGTCTCTAAGGTCAAAGCCGACAAACAGATTGAAGGGTAAAGGA
* * * ** * *
419666 AGTCTCCAAGGTCAAAGCTGATAGGCAGACTT-AATGGTGAA-GA
1 AGTCTCTAAGGTCAAAGCCGACAAACAGA-TTGAAGGGTAAAGGA
* * *
419709 AGTCTCTAGGGTCAAAACCGACAAGCAGAT
1 AGTCTCTAAGGTCAAAGCCGACAAACAGAT
419739 GATGAATGAA
Statistics
Matches: 165, Mismatches: 31, Indels: 18
0.77 0.14 0.08
Matches are distributed among these distances:
41 2 0.01
42 8 0.05
43 51 0.31
44 95 0.58
45 7 0.04
46 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (44 bp):
AGTCTCTAAGGTCAAAGCCGACAAACAGATTGAAGGGTAAAGGA
Found at i:420005 original size:16 final size:16
Alignment explanation
Indices: 419984--420021 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
419974 CAAAGTCGAT
419984 AGGCAGACTTGAGATG
1 AGGCAGACTTGAGATG
420000 AGGCAGACTTGAGATG
1 AGGCAGACTTGAGATG
420016 AGGCAG
1 AGGCAG
420022 TCTCCAGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.32, C:0.13, G:0.39, T:0.16
Consensus pattern (16 bp):
AGGCAGACTTGAGATG
Found at i:420092 original size:102 final size:102
Alignment explanation
Indices: 419899--420095 Score: 227
Period size: 102 Copynumber: 1.9 Consensus size: 102
419889 TAAGCCGACG
* * * *
419899 GGCAGACTTAAGACGAGGTAGTCTCTAGGGTCAAAGCCGACAAGCAAACTGAGAGATATAAGAAG
1 GGCAGACTTAAGACGAGGCAGTCTCCAGGGTCAAAGCCGACAAGCAAACTGAAAGATAGAAGAAG
* * * * * *
419964 TCTCTAGGGTCAAAGTCGATAGGCAGACTTGAGATGA
66 TCTCCAAGGTCAAACTCAACAAGCAGACTTGAGATGA
* * * * *
420001 GGCAGACTTGAGATGAGGCAGTCTCCAGGGTCAAAGCCGACAGGTAGACTGAAAGA-AGAAGGAA
1 GGCAGACTTAAGACGAGGCAGTCTCCAGGGTCAAAGCCGACAAGCAAACTGAAAGATAGAA-GAA
420065 GTCTCCAAGGTCAAAACT-AACAAGCAGACTT
65 GTCTCCAAGGTC-AAACTCAACAAGCAGACTT
420096 ATGGGTGCAG
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
101 3 0.04
102 71 0.91
103 4 0.05
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.17
Consensus pattern (102 bp):
GGCAGACTTAAGACGAGGCAGTCTCCAGGGTCAAAGCCGACAAGCAAACTGAAAGATAGAAGAAG
TCTCCAAGGTCAAACTCAACAAGCAGACTTGAGATGA
Found at i:420302 original size:42 final size:42
Alignment explanation
Indices: 420000--420557 Score: 280
Period size: 42 Copynumber: 13.2 Consensus size: 42
419990 ACTTGAGATG
* * *
420000 AGGCAGACTTGAGATGAGGCAGTCTCCAGGGTCAAAGCCGAC
1 AGGCAGACTTGAGATAAGGAAGTCTCCAAGGTCAAAGCCGAC
* * * **
420042 AGGTAGAC-TGAAAGAAGAAGGAAGTCTCCAAGGTCAAAACTAAC
1 AGGCAGACTTG--AG-ATAAGGAAGTCTCCAAGGTCAAAGCCGAC
* * * * *
420086 AAGCAGACTT-ATGGGTGCA-GAAGTCTCCAAAGTCAAAGCTGAC
1 AGGCAGACTTGA--GAT-AAGGAAGTCTCCAAGGTCAAAGCCGAC
* **
420129 AAGCAGACTTGAGATAAGGTAA-TCTCCAAGGTCAAAGCTAAC
1 AGGCAGACTTGAGATAAGG-AAGTCTCCAAGGTCAAAGCCGAC
* * ** * *
420171 AGGCAAAC-TGAAGGTAAAAAAGTCTTCAAAGTCAAAGCCGAC
1 AGGCAGACTTG-AGATAAGGAAGTCTCCAAGGTCAAAGCCGAC
* *** * * *
420213 AGGCATAAAGGTGA-AA-AAAGTCT-C-AGAGTCAAAGTCGAC
1 AGGCAGACTTGAGATAAGGAAGTCTCCAAG-GTCAAAGCCGAC
** * **
420252 AGATAGACTTGAGATAAGGCAGTCTCCAAGGTCAAAGTTGAC
1 AGGCAGACTTGAGATAAGGAAGTCTCCAAGGTCAAAGCCGAC
* * * ** *
420294 AGGCAGACTTAAGGGTGAA-GAAATCTTTAAGGTCAAAGCCGAT
1 AGGCAGACTTGA-GAT-AAGGAAGTCTCCAAGGTCAAAGCCGAC
* * *
420337 AGGCAGACTTGAGATGAGGCAA-TCTGCAGGGTCAAAGCCGAC
1 AGGCAGACTTGAGATAAGG-AAGTCTCCAAGGTCAAAGCCGAC
* * * * * * *
420379 AGGCA-AATTGAAGGTAAGAAAGTCTGCATGGTTAAAGCCGAT
1 AGGCAGACTTG-AGATAAGGAAGTCTCCAAGGTCAAAGCCGAC
* * * * *
420421 AGGCAGACTTAAGGGTGAA-AAAGTCTCCAAGGTCAAAGTCGAT
1 AGGCAGACTTGA-GAT-AAGGAAGTCTCCAAGGTCAAAGCCGAC
* * * *
420464 AGACAGACTTAAGATAAGGTAA-TCTCCAAGGCCAAAGCCGAT
1 AGGCAGACTTGAGATAAGG-AAGTCTCCAAGGTCAAAGCCGAC
** ** *
420506 AGGCAGACTAAAGATAAAAAAGTCTCCAGGGTCAAAGCCGAC
1 AGGCAGACTTGAGATAAGGAAGTCTCCAAGGTCAAAGCCGAC
* *
420548 AAGTAGACTT
1 AGGCAGACTT
420558 AAAGCCGACA
Statistics
Matches: 394, Mismatches: 92, Indels: 60
0.72 0.17 0.11
Matches are distributed among these distances:
38 1 0.00
39 19 0.05
40 9 0.02
41 25 0.06
42 195 0.49
43 109 0.28
44 35 0.09
45 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.17
Consensus pattern (42 bp):
AGGCAGACTTGAGATAAGGAAGTCTCCAAGGTCAAAGCCGAC
Found at i:420357 original size:85 final size:83
Alignment explanation
Indices: 420000--420559 Score: 269
Period size: 85 Copynumber: 6.7 Consensus size: 83
419990 ACTTGAGATG
* * * *
420000 AGGCAGACTTGAGATGAGGCAGTCTCCAGGGTCAAAGCCGACAGGTAGACTGAAAGAAG-AAGGA
1 AGGCAGACTTGAGATGAGGCAGTCTCCAAGGTCAAAGTCGACAGGCAGACT-TAAG--GTAA-GA
* * ** *
420064 AGTCTCCAAGGTCAAAACTAAC
62 AATCTCCAAGGTCAAAGCCGAT
* * * * * * *
420086 AAGCAGACTT-ATGGGTGCA-GAAGTCTCCAAAGTCAAAG-CTGACAAGCAGACTTGAGATAAGG
1 AGGCAGACTTGA--GATG-AGGCAGTCTCCAAGGTCAAAGTC-GACAGGCAGACTTAAGGTAA-G
* ** *
420148 TAATCTCCAAGGTCAAAGCTAAC
61 AAATCTCCAAGGTCAAAGCCGAT
* * * *** * * * * *
420171 AGGCAAAC-TGAAGGTAAAAAAGTCTTCAAAGTCAAAGCCGACAGGC--A-TAAAGGTGAAAAAA
1 AGGCAGACTTG-AGATGAGGCAGTCTCCAAGGTCAAAGTCGACAGGCAGACTTAAGGT-AAGAAA
* *
420232 GTCT-C-AGAGTCAAAGTCGAC
64 -TCTCCAAG-GTCAAAGCCGAT
** * *
420252 AGATAGACTTGAGATAAGGCAGTCTCCAAGGTCAAAGTTGACAGGCAGACTTAAGGGTGAAGAAA
1 AGGCAGACTTGAGATGAGGCAGTCTCCAAGGTCAAAGTCGACAGGCAGACTTAA-GGT-AAGAAA
**
420317 TCTTTAAGGTCAAAGCCGAT
64 TCTCCAAGGTCAAAGCCGAT
* * * * *
420337 AGGCAGACTTGAGATGAGGCAATCTGCAGGGTCAAAGCCGACAGGCA-AATTGAAGGTAAGAAAG
1 AGGCAGACTTGAGATGAGGCAGTCTCCAAGGTCAAAGTCGACAGGCAGACTT-AAGGTAAGAAA-
* * *
420401 TCTGCATGGTTAAAGCCGAT
64 TCTCCAAGGTCAAAGCCGAT
* * *** * * * *
420421 AGGCAGACTTAAGGGTGAAAAAGTCTCCAAGGTCAAAGTCGATAGACAGACTTAAGATAAGGTAA
1 AGGCAGACTTGA-GATGAGGCAGTCTCCAAGGTCAAAGTCGACAGGCAGACTTAAGGTAA-GAAA
*
420486 TCTCCAAGGCCAAAGCCGAT
64 TCTCCAAGGTCAAAGCCGAT
** * *** * * * *
420506 AGGCAGACTAAAGATAAAAAAGTCTCCAGGGTCAAAGCCGACAAGTAGACTTAA
1 AGGCAGACTTGAGATGAGGCAGTCTCCAAGGTCAAAGTCGACAGGCAGACTTAA
420560 AGCCGACAGG
Statistics
Matches: 367, Mismatches: 83, Indels: 50
0.73 0.17 0.10
Matches are distributed among these distances:
80 2 0.01
81 48 0.13
82 8 0.02
83 8 0.02
84 100 0.27
85 150 0.41
86 21 0.06
87 29 0.08
88 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.17
Consensus pattern (83 bp):
AGGCAGACTTGAGATGAGGCAGTCTCCAAGGTCAAAGTCGACAGGCAGACTTAAGGTAAGAAATC
TCCAAGGTCAAAGCCGAT
Found at i:420467 original size:208 final size:206
Alignment explanation
Indices: 420059--420499 Score: 474
Period size: 208 Copynumber: 2.1 Consensus size: 206
420049 CTGAAAGAAG
* * *
420059 AAGGAAGTCTCCAAGGTCAAAACTAACAAGCAGACTTATGGGTGCAGAAGTCTCCAAAGTCAAAG
1 AAGGAAGTCTCCAAGGTCAAAACTAACAAGCAGACTTAAGGGTGAAGAAATCTCCAAAGTCAAAG
* * *
420124 CTGACAAGCAGACTTGAGATAAGGTAATCTCCAAGGTCAAAGCTAACAGGCAAACTGAAGGTAAA
66 CCGACAAGCAGACTTGAGATAAGGCAATCTCCAAGGTCAAAGCCAACAGGCAAACTGAAGGTAAA
*
420189 AAAGTCTTCAAAGTCAAAGCCGACAGGCATAAAGGTGAAAAAAGTCTCAGAGTCAAAGTCGACAG
131 AAAGTCTGCAAAGTCAAAGCCGACAGGCATAAAGGTGAAAAAAGTCTCAGAGTCAAAGT--ACAG
420254 ATAGACTTGAGAT
194 ATAGACTTGAGAT
* ** * * ** *
420267 AAGGCAGTCTCCAAGGTCAAAGTTGACAGGCAGACTTAAGGGTGAAGAAATCTTTAAGGTCAAAG
1 AAGGAAGTCTCCAAGGTCAAAACTAACAAGCAGACTTAAGGGTGAAGAAATCTCCAAAGTCAAAG
* * * * * * * *
420332 CCGATAGGCAGACTTGAGATGAGGCAATCTGCAGGGTCAAAGCCGACAGGCAAATTGAAGGTAAG
66 CCGACAAGCAGACTTGAGATAAGGCAATCTCCAAGGTCAAAGCCAACAGGCAAACTGAAGGTAAA
** * * *
420397 AAAGTCTGCATGGTTAAAGCCGATAGGCAGACTTAAGGGTG-AAAAAGTCTCCA-AGGTCAAAGT
131 AAAGTCTGCAAAGTCAAAGCCGACAGGC--A--TAAAGGTGAAAAAAGTCT-CAGA-GTCAAAGT
* * *
420460 CGATAGACAGACTTAAGAT
190 --ACAGATAGACTTGAGAT
*
420479 AAGGTAA-TCTCCAAGGCCAAA
1 AAGG-AAGTCTCCAAGGTCAAA
420500 GCCGATAGGC
Statistics
Matches: 193, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
208 131 0.68
210 1 0.01
211 10 0.05
212 50 0.26
213 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (206 bp):
AAGGAAGTCTCCAAGGTCAAAACTAACAAGCAGACTTAAGGGTGAAGAAATCTCCAAAGTCAAAG
CCGACAAGCAGACTTGAGATAAGGCAATCTCCAAGGTCAAAGCCAACAGGCAAACTGAAGGTAAA
AAAGTCTGCAAAGTCAAAGCCGACAGGCATAAAGGTGAAAAAAGTCTCAGAGTCAAAGTACAGAT
AGACTTGAGAT
Found at i:420556 original size:127 final size:127
Alignment explanation
Indices: 420272--420559 Score: 335
Period size: 127 Copynumber: 2.3 Consensus size: 127
420262 GAGATAAGGC
** **
420272 AGTCTCCAAGGTCAAAGTTGACAGGCAGACTTAAGGGTGAAGAAATCTTTAAGGTCAAAGCCGAT
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGGGTGAAGAAATCTCCAAGGTCAAAGCCGAT
* * * * * * * * * *
420337 AGGCAGACTTGAGATGAGGCAATCTGCAGGGTCAAAGCCGACAGGCAAATTGAAGGTAAGAA
66 AGACAGACTTAAGATAAGGCAATCTCCAAGGCCAAAGCCGACAGGCAAACTAAAGATAAAAA
* * * * *
420399 AGTCTGCATGGTTAAAGCCGATAGGCAGACTTAAGGGTGAA-AAAGTCTCCAAGGTCAAAGTCGA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGGGTGAAGAAA-TCTCCAAGGTCAAAGCCGA
* * *
420463 TAGACAGACTTAAGATAAGGTAATCTCCAAGGCCAAAGCCGATAGGCAGACTAAAGATAAAAA
65 TAGACAGACTTAAGATAAGGCAATCTCCAAGGCCAAAGCCGACAGGCAAACTAAAGATAAAAA
* * *
420526 AGTCTCCAGGGTCAAAGCCGACAAGTAGACTTAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAA
420560 AGCCGACAGG
Statistics
Matches: 132, Mismatches: 28, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
126 3 0.02
127 129 0.98
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (127 bp):
AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGGGTGAAGAAATCTCCAAGGTCAAAGCCGAT
AGACAGACTTAAGATAAGGCAATCTCCAAGGCCAAAGCCGACAGGCAAACTAAAGATAAAAA
Found at i:420563 original size:19 final size:19
Alignment explanation
Indices: 420539--420578 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
420529 CTCCAGGGTC
420539 AAAGCCGACAAGTAGACTT
1 AAAGCCGACAAGTAGACTT
* *
420558 AAAGCCGACAGGTAGATTT
1 AAAGCCGACAAGTAGACTT
420577 AA
1 AA
420579 GATGAGGCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (19 bp):
AAAGCCGACAAGTAGACTT
Found at i:420648 original size:43 final size:43
Alignment explanation
Indices: 420587--420690 Score: 172
Period size: 43 Copynumber: 2.4 Consensus size: 43
420577 AAGATGAGGC
* * *
420587 AGTCTCTAAGGTCAAAGCCGATAGGCAGACTTAAGGGTGAATA
1 AGTCTCCAAGGTCAAAGCCGATAGACAGACTTAAGGGTGAAGA
*
420630 AGTCTCCAAGGTCGAAGCCGATAGACAGACTTAAGGGTGAAGA
1 AGTCTCCAAGGTCAAAGCCGATAGACAGACTTAAGGGTGAAGA
420673 AGTCTCCAAGGTCAAAGC
1 AGTCTCCAAGGTCAAAGC
420691 TGACAGGTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (43 bp):
AGTCTCCAAGGTCAAAGCCGATAGACAGACTTAAGGGTGAAGA
Found at i:420845 original size:44 final size:43
Alignment explanation
Indices: 420748--420946 Score: 150
Period size: 44 Copynumber: 4.5 Consensus size: 43
420738 GCAAATCGTT
* * * * ** *
420748 TGACTAGGGTGGTAACCATACATCAAACAGGAAGGAGGCAG-ATT
1 TGACCAGGGTGGTAACCATACATCAAATA-AAATGA-AAAGAATC
* *
420792 TGACTAGGGTGGTAACCTTACATCAAATCAAAATGAAAAGAATC
1 TGACCAGGGTGGTAACCATACATCAAAT-AAAATGAAAAGAATC
* * * * * ** *
420836 TGACCAGGGTAGTAATCATACGTTAGATAAAGATGATGCAGACT-
1 TGACCAGGGTGGTAACCATACATCAAATAAA-ATGA-AAAGAATC
* *
420880 TGACCAAGGTGGTAACCATACATCAAATTAGAATGAAAAGAATC
1 TGACCAGGGTGGTAACCATACATCAAA-TAAAATGAAAAGAATC
*
420924 TGACTAGGGTGGTAACCATACAT
1 TGACCAGGGTGGTAACCATACAT
420947 TAGATAGGAG
Statistics
Matches: 120, Mismatches: 29, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
43 9 0.08
44 103 0.86
45 8 0.07
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (43 bp):
TGACCAGGGTGGTAACCATACATCAAATAAAATGAAAAGAATC
Found at i:420892 original size:88 final size:88
Alignment explanation
Indices: 420785--420952 Score: 246
Period size: 88 Copynumber: 1.9 Consensus size: 88
420775 CAGGAAGGAG
* * * *
420785 GCAGATTTGACTAGGGTGGTAACCTTACATCAAATCAAAATGAAAAGAATCTGACCAGGGTAGTA
1 GCAGACTTGACCAAGGTGGTAACCATACATCAAATCAAAATGAAAAGAATCTGACCAGGGTAGTA
* *
420850 ATCATACGTTAGATAAAGATGAT
66 ACCATACATTAGATAAAGATGAT
* * * *
420873 GCAGACTTGACCAAGGTGGTAACCATACATCAAATTAGAATGAAAAGAATCTGACTAGGGTGGTA
1 GCAGACTTGACCAAGGTGGTAACCATACATCAAATCAAAATGAAAAGAATCTGACCAGGGTAGTA
420938 ACCATACATTAGATA
66 ACCATACATTAGATA
420953 GGAGAGAGGA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 70 1.00
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (88 bp):
GCAGACTTGACCAAGGTGGTAACCATACATCAAATCAAAATGAAAAGAATCTGACCAGGGTAGTA
ACCATACATTAGATAAAGATGAT
Found at i:421033 original size:36 final size:36
Alignment explanation
Indices: 421005--421110 Score: 144
Period size: 36 Copynumber: 2.9 Consensus size: 36
420995 TCAAACGAGG
421005 GATGAGAAA-AGTTTGACCAGGTACAGTCAAATGAAA
1 GATGA-AAAGAGTTTGACCAGGTACAGTCAAATGAAA
* * *
421041 GATAAAAAGAGTTTGACTAGGTACTA-TCAAATAAAA
1 GATGAAAAGAGTTTGACCAGGTAC-AGTCAAATGAAA
*
421077 GATGAAAAGAGTTTGACCAGATACAGTCAAATGA
1 GATGAAAAGAGTTTGACCAGGTACAGTCAAATGA
421111 CGATGGAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
35 4 0.07
36 55 0.92
37 1 0.02
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (36 bp):
GATGAAAAGAGTTTGACCAGGTACAGTCAAATGAAA
Found at i:421584 original size:90 final size:89
Alignment explanation
Indices: 421354--421665 Score: 383
Period size: 90 Copynumber: 3.5 Consensus size: 89
421344 GGGATATCCC
* * * ** * * *
421354 TGCCCCAAGGATATCAGGCTTTGTGATCCATCAATACCATCTAATGATTGTGTGAATGGAATATG
1 TGCCCCAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAATGGTTGAATGAAGGGGATATA
* *
421419 ATTAGGAATGTAGGGGCTGCACCT
66 ATTGGGAATGTAAGGGCTGCACCT
* * * * * * * *
421443 TGCCCCTAGAAAATCAAGCTTTGCGATGTATCAATACCATCTAGTAGTTGAATGAAGGGGATATC
1 TGCCCCAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAATGGTTGAATGAAGGGGATATA
421508 ATTGGGAATGTAAGGGCTGCACCT
66 ATTGGGAATGTAAGGGCTGCACCT
* *
421532 TGCCCCAAAGGAAATTAGGCTTTGTGATGCATCAATAGCATCTAATGGTTGAATGAAGGGGATAT
1 TGCCCC-AAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAATGGTTGAATGAAGGGGATAT
* *
421597 AATTGGGAATGTATGGGTTAG-ACCT
65 AATTGGGAATGTAAGGGCT-GCACCT
*
421622 TGCCTCAAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTA
1 TGCC-CCAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTA
421666 GAAGTTAAGA
Statistics
Matches: 188, Mismatches: 32, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
89 78 0.41
90 108 0.57
91 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (89 bp):
TGCCCCAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAATGGTTGAATGAAGGGGATATA
ATTGGGAATGTAAGGGCTGCACCT
Found at i:422218 original size:89 final size:87
Alignment explanation
Indices: 422114--422315 Score: 219
Period size: 89 Copynumber: 2.3 Consensus size: 87
422104 TAGGTGCACA
* *
422114 TGAAATGATGTAAATGCAAGCATCAGTAAAATG-GCAAATGCATAT-GAGATGATGCAAATACTA
1 TGAAATGATGCAAATGCAAGCATCA-TAAAA-GAGCAAATGCATATGGA-ATAATGCAAATA-TA
* * *
422177 AACGTCATCTAAAGTGCAGATGTATG
62 AACGTCATCTAAAATGCAGATGCAAG
* * * * * *
422203 TGAAATAATGCAAATGCAAACATCTATAGAAGAGCAAATGCATATGGAATAATGCAGATATCAAT
1 TGAAATGATGCAAATGCAAGCATC-ATAAAAGAGCAAATGCATATGGAATAATGCAAATATAAAC
* *
422268 GTTATGTAAAATGCAGATGCAAG
65 GTCATCTAAAATGCAGATGCAAG
*
422291 TGAAATGATGCAAATACAAGCATCA
1 TGAAATGATGCAAATGCAAGCATCA
422316 ATTGGAAGGC
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
87 1 0.01
88 43 0.46
89 47 0.50
90 3 0.03
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (87 bp):
TGAAATGATGCAAATGCAAGCATCATAAAAGAGCAAATGCATATGGAATAATGCAAATATAAACG
TCATCTAAAATGCAGATGCAAG
Found at i:422328 original size:88 final size:87
Alignment explanation
Indices: 422114--422333 Score: 219
Period size: 88 Copynumber: 2.5 Consensus size: 87
422104 TAGGTGCACA
* * *
422114 TGAAATGATGTAAATGCAAGCATCAGTAAAATGGCAAATGCATATGAGATGATGCAAATACTAAA
1 TGAAATGATGCAAATGCAAGCATCA-TAGAA-GGCAAATGCATATGAGATAATGCAAATACTAAA
* * *
422179 CGTCATCTAAAGTGCAGATGTATG
64 CGTCATCTAAAATGCAGATGCAAG
* * * *
422203 TGAAATAATGCAAATGCAAACATCTATAGAAGAGCAAATGCATATG-GAATAATGCAGATA-TCA
1 TGAAATGATGCAAATGCAAGCATC-ATAGAAG-GCAAATGCATATGAG-ATAATGCAAATACTAA
* * *
422266 ATGTTATGTAAAATGCAGATGCAAG
63 ACGTCATCTAAAATGCAGATGCAAG
* * *
422291 TGAAATGATGCAAATACAAGCATCAATTGGAAGGCAAAAGCAT
1 TGAAATGATGCAAATGCAAGCATC-A-TAGAAGGCAAATGCAT
422334 TTGAAAAGAT
Statistics
Matches: 108, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
88 54 0.50
89 53 0.49
90 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.23
Consensus pattern (87 bp):
TGAAATGATGCAAATGCAAGCATCATAGAAGGCAAATGCATATGAGATAATGCAAATACTAAACG
TCATCTAAAATGCAGATGCAAG
Found at i:422459 original size:10 final size:10
Alignment explanation
Indices: 422444--422495 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
422434 AAGTATTCTA
422444 TTTTTTTTTG
1 TTTTTTTTTG
422454 TTTTTTTTTG
1 TTTTTTTTTG
422464 TTTTTTTTT-
1 TTTTTTTTTG
*
422473 TAATTTTTTATG
1 T--TTTTTTTTG
*
422485 TTGTTTTTTG
1 TTTTTTTTTG
422495 T
1 T
422496 GTAAGTCTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 1 0.03
10 27 0.75
11 7 0.19
12 1 0.03
ACGTcount: A:0.06, C:0.00, G:0.10, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:422470 original size:21 final size:21
Alignment explanation
Indices: 422444--422493 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
422434 AAGTATTCTA
** *
422444 TTTTTTTTTGTTTTTTTTTGT
1 TTTTTTTTTAATTTTTTATGT
422465 TTTTTTTTTAATTTTTTATGT
1 TTTTTTTTTAATTTTTTATGT
*
422486 TGTTTTTT
1 TTTTTTTT
422494 GTGTAAGTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.06, C:0.00, G:0.08, T:0.86
Consensus pattern (21 bp):
TTTTTTTTTAATTTTTTATGT
Found at i:423898 original size:13 final size:13
Alignment explanation
Indices: 423880--423905 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
423870 CAATTTTTTG
423880 TGTATCGATACAT
1 TGTATCGATACAT
423893 TGTATCGATACAT
1 TGTATCGATACAT
423906 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:423970 original size:21 final size:21
Alignment explanation
Indices: 423944--424019 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
423934 CTGCCAAGAA
*
423944 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
423965 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
423985 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
424006 ATGTATCGATACAT
1 ATGTATCGATACAT
424020 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:423990 original size:20 final size:20
Alignment explanation
Indices: 423965--424037 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
423955 CATCTTTTTT
423965 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
423985 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
424006 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
424026 ATGTATCGATAC
1 ATGTATCGATAC
424038 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:424001 original size:41 final size:41
Alignment explanation
Indices: 423944--424037 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
423934 CTGCCAAGAA
*
423944 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
423985 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
424026 ATGTATCGATAC
1 ATGTATCGATAC
424038 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:424696 original size:31 final size:31
Alignment explanation
Indices: 424658--424716 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
424648 CCCGTTTATT
424658 AAAAAATCTCCCCCTTAATCAAGTAATTCAA
1 AAAAAATCTCCCCCTTAATCAAGTAATTCAA
424689 AAAAAATCTCCCCCTTAATCAAGTAATT
1 AAAAAATCTCCCCCTTAATCAAGTAATT
424717 AATCAAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.25, G:0.03, T:0.27
Consensus pattern (31 bp):
AAAAAATCTCCCCCTTAATCAAGTAATTCAA
Found at i:424718 original size:12 final size:12
Alignment explanation
Indices: 424703--424728 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
424693 AATCTCCCCC
424703 TTAATCAAGTAA
1 TTAATCAAGTAA
424715 TTAATCAAGTAA
1 TTAATCAAGTAA
424727 TT
1 TT
424729 CAAAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (12 bp):
TTAATCAAGTAA
Found at i:424733 original size:43 final size:43
Alignment explanation
Indices: 424672--424759 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
424662 AATCTCCCCC
424672 TTAATCAAGTAATTCAAAAAAAATCTCCCCCTTAATCAAGTAA
1 TTAATCAAGTAATTCAAAAAAAATCTCCCCCTTAATCAAGTAA
424715 TTAATCAAGTAATTCAAAAAAAATCTCCCCCTTAATCAAGTAA
1 TTAATCAAGTAATTCAAAAAAAATCTCCCCCTTAATCAAGTAA
424758 TT
1 TT
424760 CATATCAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (43 bp):
TTAATCAAGTAATTCAAAAAAAATCTCCCCCTTAATCAAGTAA
Found at i:426575 original size:13 final size:13
Alignment explanation
Indices: 426557--426595 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
426547 ATAATCACCC
*
426557 TGTATCGATACAG
1 TGTATCGATACAA
426570 TGTATCGATACAA
1 TGTATCGATACAA
426583 TGTATCGATACAA
1 TGTATCGATACAA
426596 CAAAAATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:428693 original size:15 final size:15
Alignment explanation
Indices: 428673--428703 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
428663 ATTTCGTTTG
*
428673 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
428688 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
428703 G
1 G
428704 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:432784 original size:13 final size:13
Alignment explanation
Indices: 432766--432791 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
432756 CAATTTTTTG
432766 TGTATCGATACAT
1 TGTATCGATACAT
432779 TGTATCGATACAT
1 TGTATCGATACAT
432792 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:432856 original size:21 final size:21
Alignment explanation
Indices: 432830--432905 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
432820 CTGCCAAGAA
*
432830 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
432851 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
432871 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
432892 ATGTATCGATACAT
1 ATGTATCGATACAT
432906 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:432876 original size:20 final size:20
Alignment explanation
Indices: 432851--432923 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
432841 CATCTTTTTT
432851 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
432871 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
432892 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
432912 ATGTATCGATAC
1 ATGTATCGATAC
432924 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:432887 original size:41 final size:41
Alignment explanation
Indices: 432830--432923 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
432820 CTGCCAAGAA
*
432830 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
432871 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
432912 ATGTATCGATAC
1 ATGTATCGATAC
432924 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:433602 original size:22 final size:22
Alignment explanation
Indices: 433551--433605 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
433541 CGCAACGTTT
*
433551 TTTTTCTTTTTTTTTTCATTTC
1 TTTTTCTTTTTTTTTTCATTGC
* **
433573 CTCATCTTTTTTCTTTTCA-TGC
1 TTTTTCTTTTTT-TTTTCATTGC
433595 TTTTTCTTTTT
1 TTTTTCTTTTT
433606 CAATTTACAC
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTTCTTTTTTTTTTCATTGC
Found at i:437692 original size:309 final size:309
Alignment explanation
Indices: 437109--437694 Score: 689
Period size: 309 Copynumber: 1.9 Consensus size: 309
437099 TAAAGGACCA
* **
437109 AAAAGGATAATAAATGGGGTGAACCTATCCTAAATACCCACCTTCGACATAAAAGCGGACCTAAT
1 AAAAGGATAACAAATGGGGTGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAAACCTAAT
* * * *** *
437174 GGCAACCTAGGACTCAGTTCTAAAAAATTACAAAAATGCCCCTATGGGTATACCTTCGATATAAA
66 GACAACCTAAGACTCAGTTCTAAAAAATTACAAAAATACCCCTATGAAAATACCTTCGACATAAA
* * *
437239 AGTATCCCGGCAACCCTAAAAGACTTAAAAAGACTAAAAATGGGATGAACCTATCCTCAATGCTC
131 AGTATCCCGGCAACCCTAAAAGACTTAAAAAGACTAAAAA-GGGATGAACCTATCCTAAATACCC
* * * * * * *
437304 ACCTTCGACACAAAAATGGACCCGACGGCAACTTAGGACTCAGTTCTAAAAAATTACGAAAATGC
195 ACCTTAGACACAAAAACGGACCCGACGACAACCTAAGACTCAGTTCTAAAAAATTACAAAAATAC
437369 CTCTAAGGGATACCTTCATTGTAAAAGTATCTAATACCTCTATAAGACTT
260 CTCTAAGGGATACCTTCATTGTAAAAGTATCTAATACCTCTATAAGACTT
* * * * * **
437419 AAAAGGATAACAGATGGGGTGAACCTATCCTAAATATCTACCTTTGGCATAAAAGCAAACCTGGT
1 AAAAGGATAACAAATGGGGTGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAAACCTAAT
* * * * * *
437484 GACAACTTAAGACTTAGTTTTAAAAATTTACAAAAATACCCCTA-GAAAATACTTTCGACGTAAA
66 GACAACCTAAGACTCAGTTCTAAAAAATTACAAAAATACCCCTATGAAAATACCTTCGACATAAA
* *
437548 AGTATCCC-G-ATACCTTTAAAGGACTTAAAAAGAACTACAAAA-GGATGAACCTATCCTAAATA
131 AGTATCCCGGCA-ACC-CTAAAAGACTTAAAAAG-ACTA-AAAAGGGATGAACCTATCCTAAATA
* * * * * * *
437610 CCCACCTTAGACATAAAAGCGGACTCGATGATAACCTAAGACT-AGATTTTGAAAAATTACAAAA
192 CCCACCTTAGACACAAAAACGGACCCGACGACAACCTAAGACTCAG-TTCTAAAAAATTACAAAA
437674 ATACCTCT-AGGTGATACCTTC
256 ATACCTCTAAGG-GATACCTTC
437695 GATACGAAAC
Statistics
Matches: 228, Mismatches: 42, Indels: 13
0.81 0.15 0.05
Matches are distributed among these distances:
307 1 0.00
308 9 0.04
309 118 0.52
310 96 0.42
311 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (309 bp):
AAAAGGATAACAAATGGGGTGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAAACCTAAT
GACAACCTAAGACTCAGTTCTAAAAAATTACAAAAATACCCCTATGAAAATACCTTCGACATAAA
AGTATCCCGGCAACCCTAAAAGACTTAAAAAGACTAAAAAGGGATGAACCTATCCTAAATACCCA
CCTTAGACACAAAAACGGACCCGACGACAACCTAAGACTCAGTTCTAAAAAATTACAAAAATACC
TCTAAGGGATACCTTCATTGTAAAAGTATCTAATACCTCTATAAGACTT
Found at i:437696 original size:155 final size:154
Alignment explanation
Indices: 437041--437728 Score: 515
Period size: 155 Copynumber: 4.4 Consensus size: 154
437031 CTAAGTTCAA
** ** * *
437041 AAAAAATTATGAAAATACCCCTAAAAGATACCTTCGACATAATAGTA-CTCGATACC-CTTAAAG
1 AAAAAATTACAAAAATACCCCT-AGGGATACCTTCGACATAAAAGTATCCCGATACCTC-TAAAG
* * *
437104 GAC-CAAAAAGGATAATAAATGGGGTGAACCTATCCTAAATACCCACCTTCGACATAAAAGCGGA
64 GACTTAAAAAGGATAAGAAA-GGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCGGA
* * *
437168 CCTAATGGCAACCTAGGACTCAGTTCT
128 CCTGATGACAACCTAAGACTCAGTTCT
* *
437195 AAAAAATTACAAAAATGCCCCTATGGGTATACCTTCGATATAAAAGTATCCCGGCA-ACC-CTAA
1 AAAAAATTACAAAAATACCCCTA-GGG-ATACCTTCGACATAAAAGTATCCC-G-ATACCTCTAA
* * * * * **
437258 AAGACTTAAAAA-GACTAA-AAATGGGATGAACCTATCCTCAATGCTCACCTTCGACACAAAAAT
62 AGGACTTAAAAAGGA-TAAGAAA-GGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGC
* * * * *
437321 GGACCCGACGGCAACTTAGGACTCAGTTCT
125 GGACCTGATGACAACCTAAGACTCAGTTCT
* * * ** **
437351 AAAAAATTACGAAAATGCCTCTAAGGGATACCTTC-ATTGTAAAAGTAT-CTAATACCTCTATAA
1 AAAAAATTACAAAAATACCCCT-AGGGATACCTTCGA-CATAAAAGTATCCCGATACCTCTA-AA
* * * * * * * **
437414 -GACTT-AAAAGGATAACAGATGGGGTGAACCTATCCTAAATATCTACCTTTGGCATAAAAGCAA
63 GGACTTAAAAAGGATAAGA-AAGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCGG
* * * *
437477 ACCTGGTGACAACTTAAGACTTAGTTTT
127 ACCTGATGACAACCTAAGACTCAGTTCT
* ** * * *
437505 AAAAATTTACAAAAATACCCCTAGAAAATACTTTCGACGTAAAAGTATCCCGATACCTTTAAAGG
1 AAAAAATTACAAAAATACCCCTAG-GGATACCTTCGACATAAAAGTATCCCGATACCTCTAAAGG
* *
437570 ACTTAAAAAGAACTACA-AAA-GGATGAACCTATCCTAAATACCCACCTTAGACATAAAAGCGGA
65 ACTTAAAAAGGA-TA-AGAAAGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCGGA
* *
437633 -CTCGATGATAACCTAAGACT-AGATTTT
128 CCT-GATGACAACCTAAGACTCAG-TTCT
* * * ** * * * *
437660 GAAAAATTACAAAAATACCTCTAGGTGATACCTTCGATACGAAACTATCCTGGTACCCCTAAAGG
1 AAAAAATTACAAAAATACCCCTAGG-GATACCTTCGACATAAAAGTATCCCGATACCTCTAAAGG
437725 ACTT
65 ACTT
437729 GAAGGAGATG
Statistics
Matches: 424, Mismatches: 85, Indels: 49
0.76 0.15 0.09
Matches are distributed among these distances:
152 1 0.00
153 13 0.03
154 125 0.29
155 161 0.38
156 105 0.25
157 17 0.04
158 2 0.00
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.24
Consensus pattern (154 bp):
AAAAAATTACAAAAATACCCCTAGGGATACCTTCGACATAAAAGTATCCCGATACCTCTAAAGGA
CTTAAAAAGGATAAGAAAGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCGGACCT
GATGACAACCTAAGACTCAGTTCT
Found at i:439484 original size:59 final size:58
Alignment explanation
Indices: 439355--439492 Score: 156
Period size: 58 Copynumber: 2.4 Consensus size: 58
439345 TTGCAGTTAC
* * *
439355 TTTTCT-TTTGTTTGTTGGCTACTTTCTTCCTTTTTCTTTTTCGCCTTTGCTCACCTT
1 TTTTCTATTTGTTTGTTTGCTACTCTCTTCCTTCTTCTTTTTCGCCTTTGCTCACCTT
* * * *
439412 TTTTCTATCTGTTTGTTTGCTGCTCTCTTGCTTCTTCTTTTTTGCCCTTGCTGCTCA-C-T
1 TTTTCTATTTGTTTGTTTGCTACTCTCTTCCTTCTTCTTTTTCG-CCTT--TGCTCACCTT
439471 TTTTCTATTTGTTTTGTTTGCT
1 TTTTCTATTTG-TTTGTTTGCT
439493 TTCTCCACTA
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
57 6 0.09
58 30 0.44
59 15 0.22
60 11 0.16
61 6 0.09
ACGTcount: A:0.04, C:0.23, G:0.12, T:0.61
Consensus pattern (58 bp):
TTTTCTATTTGTTTGTTTGCTACTCTCTTCCTTCTTCTTTTTCGCCTTTGCTCACCTT
Found at i:439878 original size:58 final size:59
Alignment explanation
Indices: 439769--439899 Score: 201
Period size: 58 Copynumber: 2.2 Consensus size: 59
439759 CCACTGGCTC
* * * *
439769 CTTCACGTTGCTTCTTTTCTTTTTTTCACGCTGTTTTGTTCTTCTTTGTTCACCAATAG
1 CTTCACGTTGCTTCATTTCTTTTTTTCACGCTGCTTTGTTCTTCTTCGTTCACCAACAG
* *
439828 CTTCACGTTGCTTCATTTC-TTTTTTCACGTTGCTTTGTTCTTCTTCGTTCACCAGCAG
1 CTTCACGTTGCTTCATTTCTTTTTTTCACGCTGCTTTGTTCTTCTTCGTTCACCAACAG
439886 CTTCACGTTGCTTC
1 CTTCACGTTGCTTC
439900 CCCATCATTG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
58 48 0.73
59 18 0.27
ACGTcount: A:0.10, C:0.27, G:0.13, T:0.50
Consensus pattern (59 bp):
CTTCACGTTGCTTCATTTCTTTTTTTCACGCTGCTTTGTTCTTCTTCGTTCACCAACAG
Found at i:440441 original size:6 final size:7
Alignment explanation
Indices: 440378--440457 Score: 54
Period size: 7 Copynumber: 10.7 Consensus size: 7
440368 TTTTTGAATT
440378 TTTTTG-
1 TTTTTGA
440384 TTTTTGA
1 TTTTTGA
440391 TTATTATGA
1 TT-TT-TGA
*
440400 TTTTTTA
1 TTTTTGA
* *
440407 TCTTTGGT
1 T-TTTTGA
*
440415 TTTTTTA
1 TTTTTGA
*
440422 TTATTTTCA
1 -T-TTTTGA
440431 TTTTTGA
1 TTTTTGA
440438 TTTTTTGA
1 -TTTTTGA
440446 TTTTTGA
1 TTTTTGA
440453 TTTTT
1 TTTTT
440458 TTATTACTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
6 6 0.10
7 25 0.43
8 17 0.29
9 10 0.17
ACGTcount: A:0.14, C:0.03, G:0.10, T:0.74
Consensus pattern (7 bp):
TTTTTGA
Found at i:440450 original size:31 final size:30
Alignment explanation
Indices: 440368--440459 Score: 85
Period size: 31 Copynumber: 2.9 Consensus size: 30
440358 TTCATTGTTT
* *
440368 TTTTTGAATTTTTTTGTTTTTGATTATTATGA
1 TTTTTG-A-TTTTTTGTTTTTGATTATTTTCA
* * * *
440400 TTTTTTATCTTTGGTTTTTTTATTATTTTCA
1 TTTTTGATTTTTTG-TTTTTGATTATTTTCA
*
440431 TTTTTGATTTTTTGATTTTTGATTTTTTT
1 TTTTTGATTTTTTG-TTTTTGATTATTTT
440460 ATTACTATAT
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
30 5 0.11
31 37 0.79
32 5 0.11
ACGTcount: A:0.14, C:0.02, G:0.10, T:0.74
Consensus pattern (30 bp):
TTTTTGATTTTTTGTTTTTGATTATTTTCA
Found at i:440457 original size:16 final size:16
Alignment explanation
Indices: 440368--440459 Score: 73
Period size: 15 Copynumber: 5.9 Consensus size: 16
440358 TTCATTGTTT
440368 TTTTTGAATTTTTTTG-
1 TTTTTG-ATTTTTTTGA
* *
440384 TTTTTGATTATTATGA
1 TTTTTGATTTTTTTGA
* * * *
440400 TTTTTTA-TCTTTGGT
1 TTTTTGATTTTTTTGA
* * *
440415 TTTTTTATTATTTTCA
1 TTTTTGATTTTTTTGA
440431 TTTTTGA-TTTTTTGA
1 TTTTTGATTTTTTTGA
440446 TTTTTGATTTTTTT
1 TTTTTGATTTTTTT
440460 ATTACTATAT
Statistics
Matches: 59, Mismatches: 14, Indels: 6
0.75 0.18 0.08
Matches are distributed among these distances:
15 31 0.53
16 28 0.47
ACGTcount: A:0.14, C:0.02, G:0.10, T:0.74
Consensus pattern (16 bp):
TTTTTGATTTTTTTGA
Found at i:448679 original size:35 final size:34
Alignment explanation
Indices: 448635--448746 Score: 136
Period size: 35 Copynumber: 3.2 Consensus size: 34
448625 AATTAAATTT
* *
448635 TTATTTAACATAAATATCATTTTAGTAATTTTTAA
1 TTATTTAACATAAATAT-ATTTTAATTATTTTTAA
* *
448670 TTATTTAACAAAAATATAATTTTATTTATATTTT-A
1 TTATTTAACATAAATAT-ATTTTAATTAT-TTTTAA
*
448705 TTATTTAATATAAATATATTTTTAATTATTTTTAA
1 TTATTTAACATAAATATA-TTTTAATTATTTTTAA
448740 TTATTTA
1 TTATTTA
448747 TATATATACA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
34 5 0.07
35 58 0.87
36 4 0.06
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (34 bp):
TTATTTAACATAAATATATTTTAATTATTTTTAA
Found at i:448736 original size:10 final size:10
Alignment explanation
Indices: 448721--448745 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
448711 AATATAAATA
448721 TATTTTTAAT
1 TATTTTTAAT
448731 TATTTTTAAT
1 TATTTTTAAT
448741 TATTT
1 TATTT
448746 ATATATATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TATTTTTAAT
Found at i:448904 original size:15 final size:14
Alignment explanation
Indices: 448884--448920 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
448874 CACATTATTT
448884 TTAATTTTATCAGAA
1 TTAATTTTATC-GAA
448899 TTAATTTTATCGAA
1 TTAATTTTATCGAA
*
448913 ATAATTTT
1 TTAATTTT
448921 TTTTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (14 bp):
TTAATTTTATCGAA
Found at i:448921 original size:15 final size:15
Alignment explanation
Indices: 448885--448920 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
448875 ACATTATTTT
*
448885 TAATTTTATCAGAAT
1 TAATTTTATCAGAAA
448900 TAATTTTATC-GAAA
1 TAATTTTATCAGAAA
448914 TAATTTT
1 TAATTTT
448921 TTTTTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (15 bp):
TAATTTTATCAGAAA
Found at i:449985 original size:28 final size:28
Alignment explanation
Indices: 449929--449986 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
449919 TTAAATTACT
* ** *
449929 ATTTAATAATAAAAATATTTTTATTTAA
1 ATTTAATAATAAAAATATATAAATATAA
*
449957 ATTTAATTATAAAAATATATAAATATAA
1 ATTTAATAATAAAAATATATAAATATAA
449985 AT
1 AT
449987 ATAAAAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTTAATAATAAAAATATATAAATATAA
Found at i:451631 original size:2 final size:2
Alignment explanation
Indices: 451624--451650 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
451614 CCCATTAGAA
451624 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
451651 AATTAGACGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:452991 original size:19 final size:19
Alignment explanation
Indices: 452948--452991 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
452938 TATAGAATAT
* *
452948 AATTACTTTAAATATAAAA
1 AATTATTTTAAAAATAAAA
452967 AA-TATTTTAAAAATAAAA
1 AATTATTTTAAAAATAAAA
452985 AATTATT
1 AATTATT
452992 ATATCAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTATTTTAAAAATAAAA
Found at i:455368 original size:32 final size:32
Alignment explanation
Indices: 455313--455410 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
455303 TTCAACGATT
*
455313 TGTATCGATACATAAAGTGTTGTATCAATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
455346 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
455378 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
455410 T
1 T
455411 ATAAGCTACT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 50 0.79
33 13 0.21
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:455370 original size:19 final size:18
Alignment explanation
Indices: 455311--455408 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
455301 ATTTCAACGA
455311 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
*
455330 TGTTGTATCAATAC--AA-
1 T-TTGTATCGATACATAAG
455346 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
455362 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
455378 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
455394 TTTTGTATCGATACA
1 -TTTGTATCGATACA
455409 ATATAAGCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
19 24 0.38
20 11 0.17
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:455383 original size:13 final size:13
Alignment explanation
Indices: 455365--455389 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
455355 ACATAAGTGT
455365 TGTATCGATACAA
1 TGTATCGATACAA
455378 TGTATCGATACA
1 TGTATCGATACA
455390 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:459476 original size:80 final size:80
Alignment explanation
Indices: 459343--459502 Score: 320
Period size: 80 Copynumber: 2.0 Consensus size: 80
459333 TCTTATCTCC
459343 TTTAATATATCTACCCTTGTGTTATACACGCAGCATTGTCCTCATAAATATTCGTGAGCAAATCT
1 TTTAATATATCTACCCTTGTGTTATACACGCAGCATTGTCCTCATAAATATTCGTGAGCAAATCT
459408 ATAATCAATTTCATA
66 ATAATCAATTTCATA
459423 TTTAATATATCTACCCTTGTGTTATACACGCAGCATTGTCCTCATAAATATTCGTGAGCAAATCT
1 TTTAATATATCTACCCTTGTGTTATACACGCAGCATTGTCCTCATAAATATTCGTGAGCAAATCT
459488 ATAATCAATTTCATA
66 ATAATCAATTTCATA
459503 CCACAAGAAT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (80 bp):
TTTAATATATCTACCCTTGTGTTATACACGCAGCATTGTCCTCATAAATATTCGTGAGCAAATCT
ATAATCAATTTCATA
Found at i:466216 original size:51 final size:50
Alignment explanation
Indices: 466094--466228 Score: 148
Period size: 52 Copynumber: 2.6 Consensus size: 50
466084 AAAATTAGTA
* * *
466094 TTTTAGAGATAACAACGGGGCTAGAGTATCCCCGATTATGGAAAAACGGTG
1 TTTTAGAAATAA-AACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
* * *
466145 TTCTAAAAAATAAAATCGGGGTTAGAGTATCCCCGATTAT-GAAAAATTGATG
1 TT-TTAGAAATAAAA-CGGGGTTAGAGTATCCCCGATTATGGAAAAA-CGATG
*
466197 TTTTAGAAATAAAACCGGGGTTGGAGTA-CCCC
1 TTTTAGAAATAAAA-CGGGGTTAGAGTATCCCC
466229 TTCGGAAATA
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
50 4 0.06
51 32 0.45
52 35 0.49
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.26
Consensus pattern (50 bp):
TTTTAGAAATAAAACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
Found at i:466292 original size:79 final size:79
Alignment explanation
Indices: 466161--467063 Score: 1470
Period size: 79 Copynumber: 11.4 Consensus size: 79
466151 AAAATAAAAT
*
466161 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTA-
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
466225 CCCCTTCGGAAATAA
66 CCCC-TCGAAAATAA
* * *
466240 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
466305 CCCCTC-AGAAATAA
66 CCCCTCGA-AAATAA
* * * *
466319 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
466384 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* *
466398 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCAGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
466463 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
466477 CGGGGTTGGAGTATCCCCGATTATGAAAAATTTG-TGTTTTAGAAATAAAACCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAA-TTGATGTTTTAGAAATAAAACCGGGGTTGGAGTA
*
466541 TCCCCTCGGAAATAA
65 TCCCCTCGAAAATAA
* * *
466556 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
466621 CCCCTCAAAAATAA
66 CCCCTCGAAAATAA
* *
466635 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
466700 CCTCTCAAAAATAA
66 CCCCTCGAAAATAA
*
466714 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
466779 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
*
466793 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
466858 CCCTTCGGAAATAA
66 CCCCTCGAAAATAA
* * *
466872 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
466937 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* * *
466951 CGGGGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAGATAAAACCGGAGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
467016 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
*
467030 CGGGATTGGAGTATCCCCGATTATGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
467064 GAAACTTAAC
Statistics
Matches: 770, Mismatches: 49, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
78 2 0.00
79 760 0.99
80 8 0.01
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:467695 original size:34 final size:34
Alignment explanation
Indices: 467652--467729 Score: 147
Period size: 34 Copynumber: 2.3 Consensus size: 34
467642 TTGAAAAGAT
*
467652 AATTCAAAGATATTTGAGGGAAAAATACCAAAAA
1 AATTCAAAGATATTTGAGGCAAAAATACCAAAAA
467686 AATTCAAAGATATTTGAGGCAAAAATACCAAAAA
1 AATTCAAAGATATTTGAGGCAAAAATACCAAAAA
467720 AATTCAAAGA
1 AATTCAAAGA
467730 AATCGTTTCC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.56, C:0.10, G:0.13, T:0.21
Consensus pattern (34 bp):
AATTCAAAGATATTTGAGGCAAAAATACCAAAAA
Found at i:468392 original size:35 final size:35
Alignment explanation
Indices: 468299--468482 Score: 261
Period size: 35 Copynumber: 5.3 Consensus size: 35
468289 TCCTTTTTAT
468299 CCATCATTCCATGCCTTCA-TTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
468333 CCATCATTCTATGCCTTCATTTTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCA-TTTTTTTATTCCATGC
*
468369 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
* *
468404 CCATCATCCCATG--TGT--TTTTTTTATTTCATGC
1 CCATCATTCCATGCCT-TCATTTTTTTATTCCATGC
* *
468436 CCGTCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
468471 CCATCATTCCAT
1 CCATCATTCCAT
468483 TTTTTTTTAT
Statistics
Matches: 132, Mismatches: 11, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
32 25 0.19
33 2 0.02
34 20 0.15
35 52 0.39
36 33 0.25
ACGTcount: A:0.18, C:0.30, G:0.07, T:0.45
Consensus pattern (35 bp):
CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
Done.