Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 41
Found at i:4880967 original size:973 final size:977
Alignment explanation
Indices: 4878871--4881883 Score: 5677
Period size: 973 Copynumber: 3.1 Consensus size: 977
4878861 ATATTTAGAA
*
4878871 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
4878936 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
4879001 TATGGACACTTTTATAAAA--ATAGACACTTTACAATATAACCACTACCTATTACATTATATAAA
131 TATGGACACTTTTATAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAA
4879064 CGATACCTATTACATTATAT-AGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGT
196 CGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGT
4879128 GTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTT
261 GTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTT
*
4879193 TTTTAACAGTGTTTCATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTACACAAAAAAT
326 TTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
4879258 TATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAAA
391 TATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAAA
* * *
4879323 GATAATAATAAATATGTAATATATATCTTTATTGTTTTTAATTTAATAATAAAATATACCGTAAT
456 GATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAAC
4879388 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC-AAAGAT
519 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
4879452 AACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTTTTATAAAAAGGATAGACACT
584 AACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACT
*
4879516 TTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTATATTATATAAGCGCTACC
649 TTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
4879581 TATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
714 TATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
4879646 TTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTAC
779 TTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTAC
4879711 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
844 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
4879776 TTATTTAGAATTTAAATTTAACAACATTAACCAAAGATAATAATAAATATGTAATATATATGTTT
909 TTATTTAGAATTTAAATTTAACAACATTAACCAAAGATAATAATAAATATGTAATATATATGTTT
4879841 ATTG
974 ATTG
*
4879845 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
4879910 -AATTAATATCTTAAAACTCACTC-AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
*
4879973 TATGGACACTTTTATAAAAGGATAGACACTTTACAATACAACCACTACCTATTACATTATATAAA
131 TATGGACACTTTTATAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAA
4880038 CGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGT
196 CGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGT
4880103 GTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTTCAATT
261 GTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATG-TTTCAATT
4880168 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
325 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
*
4880233 TTATTTGAATGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
390 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
4880298 AGATAATAAT-AATATGTAATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACG
455 AGATAATAATAAATATGTAATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACG
4880362 T-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATA
520 TAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATA
4880426 ACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTT
585 ACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTT
4880491 TACAATATAACCACTA-CTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCT
650 TACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCT
*
4880555 ATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATATT
715 ATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATA-C
4880620 TTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTAC
779 TTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTAC
4880685 AATATTAATTTAATAATTTCATTTACAC-AAAAATTA-TTGATTGTTTTGATATTTTATAAAATA
844 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
4880748 TTATTTAGAATTTAAATTTAACAACATTAACCAAAGATAATAAT-AATATGTAATATATATGTTT
909 TTATTTAGAATTTAAATTTAACAACATTAACCAAAGATAATAATAAATATGTAATATATATGTTT
4880812 ATTG
974 ATTG
4880816 TTTTTAA-TTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
4880880 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
* *
4880945 TATGGACACTTTTATAAAAAGGATAGAAACTTTACAATATAACCACTATCTATTACATTATATAA
131 TATGGACACTTTTAT-AAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
*
4881010 ACGATACCTATTACATTATATAAGCGCGACCTATTACATCATATGTTTACCTATTATATTGAAAG
195 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
4881075 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAA-T
260 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATT
4881139 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AAAAA
325 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
*
4881203 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAGCATTAACCAA
390 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
4881268 AGATAATAATAAATATGTAATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACG
455 AGATAATAATAAATATGTAATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACG
4881333 TAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATA
520 TAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATA
* *
4881398 ACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGAACATTTTTATAAAAAGGATAGACACTT
585 ACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTT
*
4881463 TACAATATAACCACTACCTATTACATTATATAAACGATATCTATTACATTATATAAGCGCTACCT
650 TACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCT
*
4881528 ATTACATCATATGTTTACCTATTATATTGAAAGTATCCATACTTTTTATAAAAAGGATCGATACT
715 ATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACT
*
4881593 TTTTTTAAAATTTATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACA
780 TTTTTTAAAAGTTATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACA
4881658 ATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAT
845 ATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAT
4881723 TATTTAGAATTTAAATTTAACAACATTAACCAAAGATAATAATAAATATGTAATATATAT-TTTA
910 TATTTAGAATTTAAATTTAACAACATTAACCAAAGATAATAATAAATATGTAATATATATGTTTA
4881787 TTG
975 TTG
4881790 TTTTTAATTTAATAAT-A-ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
4881853 AAATTAATATCTTAAAACTCACTCAAAAGAT
66 AAATTAATATCTTAAAACTCACTCAAAAGAT
4881884 GTATATACCT
Statistics
Matches: 2001, Mismatches: 21, Indels: 35
0.97 0.01 0.02
Matches are distributed among these distances:
970 134 0.07
971 169 0.08
972 480 0.24
973 579 0.29
974 362 0.18
975 131 0.07
976 146 0.07
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.40
Consensus pattern (977 bp):
TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
TATGGACACTTTTATAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAA
CGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGT
GTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTT
TTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
TATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAAA
GATAATAATAAATATGTAATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGT
AAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAA
CCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTT
ACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTA
TTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTT
TTTTTAAAAGTTATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAA
TATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATT
ATTTAGAATTTAAATTTAACAACATTAACCAAAGATAATAATAAATATGTAATATATATGTTTAT
TG
Found at i:4881020 original size:23 final size:23
Alignment explanation
Indices: 4880994--4881053 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
4880984 TAACCACTAT
*
4880994 CTATTACATTATATAAACGATAC
1 CTATTACATTATATAAACGAGAC
* *
4881017 CTATTACATTATATAAGCGCGAC
1 CTATTACATTATATAAACGAGAC
*
4881040 CTATTACATCATAT
1 CTATTACATTATAT
4881054 GTTTACCTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (23 bp):
CTATTACATTATATAAACGAGAC
Found at i:4881506 original size:23 final size:23
Alignment explanation
Indices: 4881477--4881539 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
4881467 ATATAACCAC
4881477 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
4881500 TATCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
4881523 TACCTATTACATCATAT
1 TACCTATTACATTATAT
4881540 GTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:4881591 original size:22 final size:22
Alignment explanation
Indices: 4881557--4881602 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
4881547 TATTATATTG
*
4881557 AAAGTATCCATACTTTTTATAA
1 AAAGGATCCATACTTTTTATAA
* *
4881579 AAAGGATCGATACTTTTTTTAA
1 AAAGGATCCATACTTTTTATAA
4881601 AA
1 AA
4881603 TTTATGTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (22 bp):
AAAGGATCCATACTTTTTATAA
Found at i:4881939 original size:25 final size:25
Alignment explanation
Indices: 4881882--4881947 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
4881872 CACTCAAAAG
*
4881882 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
4881907 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
4881932 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
4881948 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:4884748 original size:183 final size:183
Alignment explanation
Indices: 4884407--4884749 Score: 564
Period size: 183 Copynumber: 1.9 Consensus size: 183
4884397 TTAAAATTAC
*
4884407 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTGAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* *
4884472 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAATCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGAT
* *
4884537 ATATTACAAAATTATCTATTACATTATAATTATGGGTTTCGATGTGTAAATGT
131 ACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTGTAAATGT
*
4884590 CGACACTTTTTGACAAT-GTATTGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTGA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
4884654 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACC-GA
65 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGA
* * **
4884718 TAGCATTGCAAATTTACCTATTTTATTATAAT
130 TA-CATTACAAAATTACCTATTACATTATAAT
4884750 ATGTTGAAAG
Statistics
Matches: 148, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
182 3 0.02
183 142 0.96
184 3 0.02
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
CGACACTTTTTGAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGAT
ACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTGTAAATGT
Found at i:4885133 original size:23 final size:23
Alignment explanation
Indices: 4885106--4885168 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
4885096 ATACAACCAC
4885106 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
4885129 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
4885152 TACCTATTACATCATAT
1 TACCTATTACATTATAT
4885169 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:4885622 original size:23 final size:23
Alignment explanation
Indices: 4885596--4885654 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
4885586 AACCACTACC
4885596 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
4885619 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
4885642 TATTACATCATAT
1 TATTACATTATAT
4885655 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:4886091 original size:486 final size:477
Alignment explanation
Indices: 4884929--4885929 Score: 1506
Period size: 486 Copynumber: 2.1 Consensus size: 477
4884919 AATATTAAGA
* *
4884929 TTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCAATAGACGCCTATAATTAC
1 TTTTTTAATTTAATAATAATATATACCGTAACGT-AAAAATAAAT-ATTAGACGCCTATAATTAC
* * * **
4884994 TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
64 AAAATTAATATATTAAAACTCACTCAAAAGATAACCTTAAATGAATGTTTGACACAGTGAAAAAA
* * * * *
4885059 GTATAGACACTTTTATAAAAAGGATAGACACTTTACAATACAACCACTACCTATTACATTATATA
129 GTATAGACACTTTTAT----ACGATA-ACACTTTACAACATAA-CACTA-CAAATACATTATATA
*
4885124 AACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAA
187 AACGATACATATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAA
*
4885189 GTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTTCAA
252 GTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTTAAA
*
4885254 TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAA
317 TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATT-ATTTAATAATTTCATTAACACAAAA
*
4885319 AATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACC
381 AATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAACATTAACC
4885384 AAAGATAATAATAAATATGTAATATATGTTTT
446 AAAGATAATAATAAATATGTAATATATGTTTT
*
4885416 TTTTTTAATTTAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTTAATTTAATAATAATATATACCGTAACGTAAAAATAAAT-ATTAGACGCCTATAATTACA
* * **
4885481 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
65 AAATTAATATATTAAAACTCACTCAAAAGATAACCTTAAATGAATGTTTGACACAGTGAAAAAAG
* * * * *
4885546 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
130 TATAGACACTTTTAT----ACGATA-ACACTTTACAACATAA-CACTA-CAAATACATTATATAA
*
4885611 ACGATACATATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
188 ACGATACATATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
* *
4885676 TGTCCATACTTTTTATAAAAATGATCGATAC-TTTTTTAAAAGTTATGTAATTTGTG-TTTAAAT
253 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTTAAAT
*
4885739 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATT-TTTAATAA-TTCATTAACACAAAAAA
318 TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTATTTAATAATTTCATTAACACAAAAAA
4885802 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAACATTAACCAA
383 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAACATTAACCAA
4885867 AGATAATAATAAATATGTAATATATATGTTTAT
448 AGATAATAATAAATATGT-A-ATATATGTTT-T
4885900 TGTTTTTAATTTAATAATAATATATACCGT
1 T-TTTTTAATTTAATAATAATATATACCGT
4885930 TATATATGTA
Statistics
Matches: 498, Mismatches: 12, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
481 98 0.20
482 9 0.02
483 10 0.02
484 45 0.09
485 52 0.10
486 251 0.50
487 33 0.07
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (477 bp):
TTTTTTAATTTAATAATAATATATACCGTAACGTAAAAATAAATATTAGACGCCTATAATTACAA
AATTAATATATTAAAACTCACTCAAAAGATAACCTTAAATGAATGTTTGACACAGTGAAAAAAGT
ATAGACACTTTTATACGATAACACTTTACAACATAACACTACAAATACATTATATAAACGATACA
TATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATA
CTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTTAAATTTTTTTAA
CAGTGTTTCATGTTTTCCACCTACAATATTATTTAATAATTTCATTAACACAAAAAATTATTTGA
TTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAACATTAACCAAAGATAATA
ATAAATATGTAATATATGTTTT
Found at i:4887221 original size:9 final size:9
Alignment explanation
Indices: 4887207--4887286 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 9
4887197 CTTGTTTGGA
4887207 TCATCATCT
1 TCATCATCT
4887216 TCATCATCAT
1 TCATCATC-T
*
4887226 CATCATCATCG
1 --TCATCATCT
4887237 TCATCATCT
1 TCATCATCT
* *
4887246 TCATCGTCA
1 TCATCATCT
* * *
4887255 GCTTCATCG
1 TCATCATCT
*
4887264 TCATCATCA
1 TCATCATCT
*
4887273 TCGTCATCT
1 TCATCATCT
4887282 TCATC
1 TCATC
4887287 GTCAGCTTCA
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
9 45 0.83
10 1 0.02
12 8 0.15
ACGTcount: A:0.23, C:0.34, G:0.06, T:0.38
Consensus pattern (9 bp):
TCATCATCT
Found at i:4887223 original size:12 final size:12
Alignment explanation
Indices: 4887210--4887298 Score: 97
Period size: 12 Copynumber: 7.4 Consensus size: 12
4887200 GTTTGGATCA
* *
4887210 TCATCTTCATCA
1 TCATCGTCATCT
* *
4887222 TCATCATCATCA
1 TCATCGTCATCT
* *
4887234 TCGTCATCATCT
1 TCATCGTCATCT
*
4887246 TCATCGTCAGCT
1 TCATCGTCATCT
*
4887258 TCATCGTCATCA
1 TCATCGTCATCT
4887270 TCATCGTCATCT
1 TCATCGTCATCT
*
4887282 TCATCGTCAGCT
1 TCATCGTCATCT
4887294 TCATC
1 TCATC
4887299 TTCTGCGACC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 67 1.00
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.37
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:4887225 original size:6 final size:6
Alignment explanation
Indices: 4887206--4887286 Score: 81
Period size: 6 Copynumber: 13.5 Consensus size: 6
4887196 ACTTGTTTGG
* * * *
4887206 ATCATC ATCTTC ATCATC ATCATC ATCATC GTCATC ATCTTC ATCGTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * * * *
4887254 AGCTTC ATCGTC ATCATC ATCGTC ATCTTC ATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATC
4887287 GTCAGCTTCA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.23, C:0.33, G:0.06, T:0.37
Consensus pattern (6 bp):
ATCATC
Found at i:4887262 original size:36 final size:36
Alignment explanation
Indices: 4887222--4887298 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
4887212 ATCTTCATCA
*
4887222 TCATCATCATCATCGTCATCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
* *
4887258 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
4887294 TCATC
1 TCATC
4887299 TTCTGCGACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.21, C:0.34, G:0.09, T:0.36
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGTCAGCT
Found at i:4887301 original size:6 final size:6
Alignment explanation
Indices: 4887210--4887301 Score: 76
Period size: 6 Copynumber: 15.3 Consensus size: 6
4887200 GTTTGGATCA
* * * * * * *
4887210 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * *
4887258 TCATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
4887302 TGCGACCGCT
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:4889778 original size:197 final size:199
Alignment explanation
Indices: 4888767--4890324 Score: 2931
Period size: 199 Copynumber: 7.9 Consensus size: 199
4888757 TTTAAATTAG
4888767 TATCGACACAAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
4888831 CTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
4888896 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACT
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACT
4888961 AAAA
196 AAAA
4888965 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4889030 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
4889095 CGACACTTTTTATATATAGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACT
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACT
4889160 AAAA
196 AAAA
4889164 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4889229 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
* *
4889294 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACT
4889359 AAAA
196 AAAA
4889363 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4889428 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
4889493 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC-
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACT
4889557 AAAA
196 AAAA
4889561 TATCGACACAAACT-AAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4889625 CTTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
4889689 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAC-
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACT
4889753 AAAA
196 AAAA
4889757 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4889822 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
4889886 CGACAC--TTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACT
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACT
4889948 AAAA
196 AAAA
4889952 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4890017 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
* *
4890082 CGACAC-TTTTATATACGGATCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACT
4890145 AAAA
196 AAAA
4890149 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
4890214 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
* *
4890279 CGACAGTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
4890325 GGCCATATTG
Statistics
Matches: 1335, Mismatches: 16, Indels: 17
0.98 0.01 0.01
Matches are distributed among these distances:
194 50 0.04
195 113 0.08
196 155 0.12
197 325 0.24
198 123 0.09
199 569 0.43
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (199 bp):
TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACT
AAAA
Found at i:4890488 original size:19 final size:19
Alignment explanation
Indices: 4890442--4890490 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
4890432 TTATATTCAC
*
4890442 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
4890461 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
4890480 ATACAAAATTA
1 ATACAAAATTA
4890491 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:4892294 original size:33 final size:33
Alignment explanation
Indices: 4892257--4892322 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
4892247 CATCTTAATA
* *
4892257 TCACCCCTTAACACCCCAACTTGTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
4892290 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
4892323 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.47, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:4892381 original size:21 final size:21
Alignment explanation
Indices: 4892356--4892399 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
4892346 CCCCTTATGC
4892356 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
4892377 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
4892398 CT
1 CT
4892400 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:4894654 original size:20 final size:20
Alignment explanation
Indices: 4894612--4894659 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
4894602 CATTTTACTG
*
4894612 GTTTTATCATTTTGATACTT
1 GTTTTATCATTTTGATACCT
*
4894632 GTTTTATCATATTT-TTACCT
1 GTTTTATCAT-TTTGATACCT
*
4894652 GTTATATC
1 GTTTTATC
4894660 GTTGTGGATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.21, C:0.12, G:0.08, T:0.58
Consensus pattern (20 bp):
GTTTTATCATTTTGATACCT
Found at i:4894826 original size:19 final size:19
Alignment explanation
Indices: 4894783--4894827 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
4894773 TCCGGTAACG
4894783 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
4894802 TGTTACCGG-TTTATCATAT
1 TTTTACCGGTTTTATCAT-T
4894821 TTTTACC
1 TTTTACC
4894828 TGGTATATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.18, C:0.18, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:4894836 original size:20 final size:18
Alignment explanation
Indices: 4894785--4894836 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
4894775 CGGTAACGTT
*
4894785 TTACCGGTTTTATCATTTG
1 TTACCGG-TATATCATTTG
* *
4894804 TTACCGGTTTATCATATTT
1 TTACCGGTATATCAT-TTG
4894823 TTACCTGGTATATC
1 TTACC-GGTATATC
4894837 GTTTTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 8 0.28
19 14 0.48
20 7 0.24
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.50
Consensus pattern (18 bp):
TTACCGGTATATCATTTG
Found at i:4895340 original size:229 final size:229
Alignment explanation
Indices: 4894876--4895594 Score: 1279
Period size: 229 Copynumber: 3.1 Consensus size: 229
4894866 ACTTTTATAC
4894876 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
4894941 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-ACAAA
*
4895006 ATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
130 ATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
4895071 AGATAATAATAAATATGTTTTCCACAGTGAAATAA
195 AGATAATAATAAATATGTTTTCCACAGTGAAATAA
4895106 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
4895171 TTTTTAATAGTGTTTCATGTTTTCCACTTACAATATTAATTTAATAATTTCATTTACACACAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
4895236 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
*
4895301 GATAATAATAAATATGTTTTCCACAGTAAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
*
4895335 GTATGGACACTTTTATAAAAATGATATATA-TATTTTTTAAAGTTATGTAATTTATATTTCAA-T
1 GTATGGACACTTTTATAAAAATGATATATACT-TTTTTTAAAGTTATGTAATTTATGTTTCAATT
*
4895398 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAAATATTAATTTAATAATTTAATTTACACACAA
65 TTTTTTAATAGTGTTTCATGTTTTCCACCTAC-AATATTAATTTAATAATTTCATTTACACACAA
4895463 AATTA-TTGATTGTTTTGATA-TTTATAAAATATT-TTTAGAATTTAAATTTAACAATATTAACC
129 AATTATTTGATT-TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACC
*
4895525 AAAGATAATAATAAATATATTTT-CACAGTGAAATAA
193 AAAGATAATAATAAATATGTTTTCCACAGTGAAATAA
* *
4895561 GTATGGACACTTTTATAAAAAAGATAGATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
4895595 ACAATATAAC
Statistics
Matches: 474, Mismatches: 11, Indels: 12
0.95 0.02 0.02
Matches are distributed among these distances:
226 42 0.09
227 52 0.11
228 52 0.11
229 205 0.43
230 123 0.26
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.45
Consensus pattern (229 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
GATAATAATAAATATGTTTTCCACAGTGAAATAA
Found at i:4909048 original size:10 final size:10
Alignment explanation
Indices: 4909021--4909052 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
4909011 TATTTGGGTG
4909021 TTATATAAGC
1 TTATATAAGC
4909031 TTAT-TAAGC
1 TTATATAAGC
4909040 TTATATAAGC
1 TTATATAAGC
4909050 TTA
1 TTA
4909053 AAACATCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (10 bp):
TTATATAAGC
Found at i:4909528 original size:24 final size:24
Alignment explanation
Indices: 4909501--4909559 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
4909491 ACATAGGCAG
4909501 TGTACCGATACACCAGTGAAGGGA
1 TGTACCGATACACCAGTGAAGGGA
* *
4909525 TGTATCAATACACCAGTGAAGGGA
1 TGTACCGATACACCAGTGAAGGGA
4909549 TGTACCGATAC
1 TGTACCGATAC
4909560 CCTATAATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (24 bp):
TGTACCGATACACCAGTGAAGGGA
Found at i:4910209 original size:15 final size:15
Alignment explanation
Indices: 4910189--4910218 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4910179 GTGAATGATA
*
4910189 TGATAAGAAGCTATG
1 TGATAAGAAGATATG
4910204 TGATAAGAAGATATG
1 TGATAAGAAGATATG
4910219 AGTTTATGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.03, G:0.27, T:0.27
Consensus pattern (15 bp):
TGATAAGAAGATATG
Found at i:4910450 original size:18 final size:18
Alignment explanation
Indices: 4910427--4910461 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4910417 GTTCTTAAGG
4910427 AGTGGTCATTCGGGACAT
1 AGTGGTCATTCGGGACAT
*
4910445 AGTGGTCCTTCGGGACA
1 AGTGGTCATTCGGGACA
4910462 AATTCAGTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:4928106 original size:12 final size:12
Alignment explanation
Indices: 4928085--4928118 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4928075 GCCACATTTC
*
4928085 CAATACCAAACA
1 CAATATCAAACA
4928097 CAATATCAAACA
1 CAATATCAAACA
*
4928109 CAATCTCAAA
1 CAATATCAAA
4928119 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:4928295 original size:24 final size:24
Alignment explanation
Indices: 4928244--4928297 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4928234 GTATTTGAAA
*
4928244 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* * *
4928268 TTTGATCTTTGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
4928292 TTTGAT
1 TTTGAT
4928298 GATGTGATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:4931220 original size:24 final size:24
Alignment explanation
Indices: 4931175--4931224 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4931165 TGGTGGTTGG
4931175 TTTAATGGATGTTTAAAATTTATT
1 TTTAATGGATGTTTAAAATTTATT
*
4931199 TTTAATGGTATGTTT-AAGTTTATT
1 TTTAATGG-ATGTTTAAAATTTATT
4931223 TT
1 TT
4931225 GGTTCTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (24 bp):
TTTAATGGATGTTTAAAATTTATT
Found at i:4936844 original size:24 final size:24
Alignment explanation
Indices: 4936799--4936848 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4936789 TGGTGGTTGG
4936799 TTTAATGGATGTTTAAACTTTATT
1 TTTAATGGATGTTTAAACTTTATT
*
4936823 TTTAATGGTATGTTT-AAGTTTATT
1 TTTAATGG-ATGTTTAAACTTTATT
4936847 TT
1 TT
4936849 GGTTATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (24 bp):
TTTAATGGATGTTTAAACTTTATT
Found at i:4937822 original size:18 final size:18
Alignment explanation
Indices: 4937799--4937834 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4937789 AAGCAAAAGG
*
4937799 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
4937817 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
4937835 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:4938188 original size:20 final size:20
Alignment explanation
Indices: 4938165--4938222 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
4938155 TTGCGATAGT
*
4938165 CAAATTTGCAACGCGAAAGA
1 CAAATTCGCAACGCGAAAGA
* *
4938185 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGA
*
4938205 CAAATTCGCAACGTGAAA
1 CAAATTCGCAACGCGAAA
4938223 TCGCAAACCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGA
Found at i:4938394 original size:25 final size:25
Alignment explanation
Indices: 4938356--4938405 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4938346 AAATCAATTA
*
4938356 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
4938381 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
4938406 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:4938822 original size:39 final size:39
Alignment explanation
Indices: 4938779--4938865 Score: 131
Period size: 39 Copynumber: 2.2 Consensus size: 39
4938769 TACGATGCTC
* *
4938779 ATCAAAATTCAAAGCTCATATGGTG-CAAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAA-CAAAAGGAA
*
4938818 ATCAAAATCCAAATCTCATATGATGCCAAACAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAACAAAAGGAA
4938857 ATCAAAATC
1 ATCAAAATC
4938866 TACAACTTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 40 0.91
40 4 0.09
ACGTcount: A:0.51, C:0.18, G:0.13, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAACAAAAGGAA
Found at i:4939555 original size:16 final size:16
Alignment explanation
Indices: 4939530--4939565 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
4939520 CTAGGTACTT
4939530 AACC-AAATATTTTCA
1 AACCAAAATATTTTCA
4939545 AACCAAAATATTTTCA
1 AACCAAAATATTTTCA
4939561 AACCA
1 AACCA
4939566 TTTAAAGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (16 bp):
AACCAAAATATTTTCA
Found at i:4940755 original size:21 final size:21
Alignment explanation
Indices: 4940711--4940829 Score: 98
Period size: 21 Copynumber: 5.7 Consensus size: 21
4940701 GTGAATCGGG
* * * *
4940711 CTCTTGAACGACGGGTGGGAC
1 CTCTTGAACGATGAGAGGGGC
* *
4940732 CTCTTGAACGATGACATGGGC
1 CTCTTGAACGATGAGAGGGGC
* *
4940753 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
* *
4940774 TTCTTCG-ATGATGAGAGGGGC
1 CTCTT-GAACGATGAGAGGGGC
*
4940795 CTCTTGAACGAT-ATGAGGCGC
1 CTCTTGAACGATGA-GAGGGGC
*
4940816 CTCTTGAATGATGA
1 CTCTTGAACGATGA
4940830 TAGGTGCATC
Statistics
Matches: 76, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
20 2 0.03
21 72 0.95
22 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:4940827 original size:42 final size:42
Alignment explanation
Indices: 4940731--4940829 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 42
4940721 ACGGGTGGGA
* * * * *
4940731 CCTCTTGAACGATGACATGGGCCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAATGATGACAGGGGCCTCTTGAACGATAGGAGGCG
* * *
4940773 CTTCTTCG-ATGATGAGAGGGGCCTCTTGAACGATATGAGGCG
1 CCTCTT-GAATGATGACAGGGGCCTCTTGAACGATAGGAGGCG
4940815 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
4940830 TAGGTGCATC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.25
Consensus pattern (42 bp):
CCTCTTGAATGATGACAGGGGCCTCTTGAACGATAGGAGGCG
Found at i:4941265 original size:21 final size:21
Alignment explanation
Indices: 4941237--4941286 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
4941227 ACCATTATCT
* * *
4941237 TCACGTAAAGTACCGACCTCA
1 TCACGTAAAGCAACAACCTCA
*
4941258 TGACGTAAAGCAACAACCTCA
1 TCACGTAAAGCAACAACCTCA
4941279 TCACGTAA
1 TCACGTAA
4941287 TTCCCCTAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.30, G:0.14, T:0.18
Consensus pattern (21 bp):
TCACGTAAAGCAACAACCTCA
Found at i:4943528 original size:20 final size:20
Alignment explanation
Indices: 4943424--4943528 Score: 165
Period size: 20 Copynumber: 5.2 Consensus size: 20
4943414 GCGTAAAAAT
*
4943424 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
*
4943444 ATTTAACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
*
4943464 ATTTAACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
* *
4943484 ATTTGACTTTCGCGTAGCGA
1 ATTTGACTATCGCGTTGCGA
4943504 ATTTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
4943524 ATTTG
1 ATTTG
4943529 GAAAATCGCA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 78 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (20 bp):
ATTTGACTATCGCGTTGCGA
Found at i:4943601 original size:20 final size:20
Alignment explanation
Indices: 4943552--4943607 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
4943542 CGATTTATAT
4943552 ATTCGCGTTGCGAAATTGGA
1 ATTCGCGTTGCGAAATTGGA
* *
4943572 A-ACTGAGTTGCGAAATTGGA
1 ATTC-GCGTTGCGAAATTGGA
4943592 ATTCGCGTTGC-AAATT
1 ATTCGCGTTGCGAAATT
4943608 TGTTGGTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 6 0.20
20 23 0.77
21 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (20 bp):
ATTCGCGTTGCGAAATTGGA
Found at i:4945110 original size:58 final size:55
Alignment explanation
Indices: 4945018--4945126 Score: 191
Period size: 58 Copynumber: 1.9 Consensus size: 55
4945008 GATAACAACG
4945018 AAAAGGGAAGTATCAAAGAATGAGCTTTGAGGTCACACCTATCCCCATCCTTACGA
1 AAAAGGGAAGTATCAAAGAATGAGCTTTGAGGTCACACCTAT-CCCATCCTTACGA
4945074 AAAAGGGAAGTATCAAAGAGAATGAGCTTTGAGGTCACACCTATCCCATCCTT
1 AAAAGGGAAGTATC-AA-AGAATGAGCTTTGAGGTCACACCTATCCCATCCTT
4945127 TATGCCGTCT
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
56 14 0.27
57 11 0.22
58 26 0.51
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (55 bp):
AAAAGGGAAGTATCAAAGAATGAGCTTTGAGGTCACACCTATCCCATCCTTACGA
Found at i:4959262 original size:12 final size:13
Alignment explanation
Indices: 4959238--4959262 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4959228 TAAACACTTG
4959238 TATTCGTTTTTTT
1 TATTCGTTTTTTT
4959251 TATTCGTTTTTT
1 TATTCGTTTTTT
4959263 ATGTGCGGTT
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:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (13 bp):
TATTCGTTTTTTT
Found at i:4959542 original size:11 final size:11
Alignment explanation
Indices: 4959526--4959588 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
4959516 AAAATTACAT
4959526 TATTAAAAATA
1 TATTAAAAATA
4959537 TATTAAAAATA
1 TATTAAAAATA
* * ***
4959548 CACTATTGATA
1 TATTAAAAATA
4959559 -ATTATAAAAT-
1 TATTA-AAAATA
4959569 T-TTAAAAATA
1 TATTAAAAATA
4959579 TATTAAAAAT
1 TATTAAAAAT
4959589 TTTATAATAC
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 27 0.69
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:4960160 original size:21 final size:21
Alignment explanation
Indices: 4960134--4960208 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 21
4960124 ATCCCTCAAC
*
4960134 CCTAAACATTAATTCCTAACT
1 CCTAAACATTAATTCCTAAAT
* * * *
4960155 CCTAAACACTAAATCATAAAG
1 CCTAAACATTAATTCCTAAAT
* * *
4960176 CCTAATCCTTAATTCCTAATT
1 CCTAAACATTAATTCCTAAAT
* *
4960197 ACTAAACCTTAA
1 CCTAAACATTAA
4960209 ACCCTAAACA
Statistics
Matches: 40, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.41, C:0.27, G:0.01, T:0.31
Consensus pattern (21 bp):
CCTAAACATTAATTCCTAAAT
Found at i:4960600 original size:3 final size:3
Alignment explanation
Indices: 4960589--4960620 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
4960579 ACAATAGTAC
4960589 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4960621 GTGTCAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4962025 original size:23 final size:23
Alignment explanation
Indices: 4961993--4962144 Score: 214
Period size: 23 Copynumber: 6.6 Consensus size: 23
4961983 CATTAACCTG
*
4961993 TCGAGCTTGAATCCAGCTCCAAA
1 TCGAGCTTGAATCGAGCTCCAAA
* * *
4962016 TAGAGTTTGAATCAAGCTCCAAA
1 TCGAGCTTGAATCGAGCTCCAAA
*
4962039 TCGAGCTTGAATCGAACTCCAAA
1 TCGAGCTTGAATCGAGCTCCAAA
*
4962062 TCGAGCTTGAATCGAACTCCAAA
1 TCGAGCTTGAATCGAGCTCCAAA
4962085 TCGAGCTTGAATCGAGCTCCAAA
1 TCGAGCTTGAATCGAGCTCCAAA
* * *
4962108 TCGAGCTTGAATTGAGTTCTAAA
1 TCGAGCTTGAATCGAGCTCCAAA
*
4962131 TCGAGCTTTAATCG
1 TCGAGCTTGAATCG
4962145 GCTTAAGTTT
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 116 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (23 bp):
TCGAGCTTGAATCGAGCTCCAAA
Found at i:4962045 original size:12 final size:12
Alignment explanation
Indices: 4962025--4962114 Score: 78
Period size: 12 Copynumber: 7.8 Consensus size: 12
4962015 ATAGAGTTTG
*
4962025 AATCAAGCTCCA
1 AATCGAGCTCCA
**
4962037 AATCGAGCT-TG
1 AATCGAGCTCCA
*
4962048 AATCGAACTCCA
1 AATCGAGCTCCA
**
4962060 AATCGAGCT-TG
1 AATCGAGCTCCA
*
4962071 AATCGAACTCCA
1 AATCGAGCTCCA
**
4962083 AATCGAGCT-TG
1 AATCGAGCTCCA
4962094 AATCGAGCTCCA
1 AATCGAGCTCCA
4962106 AATCGAGCT
1 AATCGAGCT
4962115 TGAATTGAGT
Statistics
Matches: 58, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
11 25 0.43
12 33 0.57
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (12 bp):
AATCGAGCTCCA
Found at i:4962731 original size:22 final size:22
Alignment explanation
Indices: 4962701--4962742 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4962691 CTAAAACATA
4962701 TAAACGAATGA-TAAACGAACGT
1 TAAACGAAT-ATTAAACGAACGT
*
4962723 TAAATGAATATTAAACGAAC
1 TAAACGAATATTAAACGAAC
4962743 ACGTTCGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.52, C:0.12, G:0.14, T:0.21
Consensus pattern (22 bp):
TAAACGAATATTAAACGAACGT
Found at i:4962765 original size:23 final size:23
Alignment explanation
Indices: 4962727--4962810 Score: 89
Period size: 23 Copynumber: 3.7 Consensus size: 23
4962717 GAACGTTAAA
* * *
4962727 TGAATATTAAACGAACACGTTCG
1 TGAACATTAAATGAACACATTCG
* *
4962750 TGAACATCAAATGAACACATTTG
1 TGAACATTAAATGAACACATTCG
* *
4962773 TAAACATTAAATGATA-ATATTCG
1 TGAACATTAAATGA-ACACATTCG
4962796 TGAACATTAAATGAA
1 TGAACATTAAATGAA
4962811 TAAACACAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
22 1 0.02
23 48 0.96
24 1 0.02
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (23 bp):
TGAACATTAAATGAACACATTCG
Found at i:4970568 original size:9 final size:9
Alignment explanation
Indices: 4970539--4970602 Score: 67
Period size: 9 Copynumber: 6.9 Consensus size: 9
4970529 CTGGAAAACC
4970539 GTTTGACCG
1 GTTTGACCG
*
4970548 GTTCGAACCG
1 GTTTG-ACCG
4970558 GTTTGACCG
1 GTTTGACCG
*
4970567 GTCTGAACCG
1 GTTTG-ACCG
4970577 GTTTGACC-
1 GTTTGACCG
4970585 GTTTGAACCG
1 GTTTG-ACCG
*
4970595 GGTTGACC
1 GTTTGACC
4970603 CGACCCGACC
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
8 5 0.11
9 21 0.46
10 20 0.43
ACGTcount: A:0.16, C:0.25, G:0.31, T:0.28
Consensus pattern (9 bp):
GTTTGACCG
Found at i:4970593 original size:18 final size:19
Alignment explanation
Indices: 4970535--4970602 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
4970525 GCTGCTGGAA
*
4970535 AACC-GTTTGACCGGTTCG
1 AACCGGTTTGACCGGTTTG
*
4970553 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTTTG
4970572 AACCGGTTTGACC-GTTTG
1 AACCGGTTTGACCGGTTTG
*
4970590 AACCGGGTTGACC
1 AACCGGTTTGACC
4970603 CGACCCGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
18 20 0.44
19 25 0.56
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.26
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTTG
Found at i:4970638 original size:6 final size:7
Alignment explanation
Indices: 4970609--4970657 Score: 61
Period size: 7 Copynumber: 7.6 Consensus size: 7
4970599 GACCCGACCC
4970609 GACCGTT
1 GACCGTT
*
4970616 GACC--C
1 GACCGTT
4970621 GACCGTT
1 GACCGTT
4970628 GACCG-T
1 GACCGTT
4970634 GACCGTT
1 GACCGTT
4970641 GACCG-T
1 GACCGTT
4970647 GACCGTT
1 GACCGTT
4970654 GACC
1 GACC
4970658 ATGACTTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
5 4 0.11
6 12 0.33
7 20 0.56
ACGTcount: A:0.16, C:0.35, G:0.29, T:0.20
Consensus pattern (7 bp):
GACCGTT
Found at i:4970639 original size:13 final size:13
Alignment explanation
Indices: 4970609--4970662 Score: 83
Period size: 13 Copynumber: 4.2 Consensus size: 13
4970599 GACCCGACCC
*
4970609 GACCGTTGACC-C
1 GACCGTTGACCGT
4970621 GACCGTTGACCGT
1 GACCGTTGACCGT
4970634 GACCGTTGACCGT
1 GACCGTTGACCGT
*
4970647 GACCGTTGACCAT
1 GACCGTTGACCGT
4970660 GAC
1 GAC
4970663 TTTCTTTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
12 11 0.28
13 28 0.72
ACGTcount: A:0.19, C:0.33, G:0.28, T:0.20
Consensus pattern (13 bp):
GACCGTTGACCGT
Found at i:4970662 original size:19 final size:19
Alignment explanation
Indices: 4970609--4970662 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
4970599 GACCCGACCC
*
4970609 GACCGTTGACCCGACCGTT
1 GACCGTTGACCTGACCGTT
4970628 GACCG-TGACCGTTGACCG-T
1 GACCGTTGACC--TGACCGTT
4970647 GACCGTTGACCATGAC
1 GACCGTTGACC-TGAC
4970663 TTTCTTTGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 5 0.17
19 15 0.50
20 10 0.33
ACGTcount: A:0.19, C:0.33, G:0.28, T:0.20
Consensus pattern (19 bp):
GACCGTTGACCTGACCGTT
Found at i:4977085 original size:19 final size:20
Alignment explanation
Indices: 4977047--4977094 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
4977037 CTGGAAAACT
* *
4977047 GGTTTGACCAGTTTTGAACC
1 GGTTTGACCAGGTCTGAACC
4977067 GGTTTGACC-GGTCTGAACC
1 GGTTTGACCAGGTCTGAACC
*
4977086 GGGTTGACC
1 GGTTTGACC
4977095 CGACCCAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.17, C:0.23, G:0.31, T:0.29
Consensus pattern (20 bp):
GGTTTGACCAGGTCTGAACC
Found at i:4977139 original size:7 final size:7
Alignment explanation
Indices: 4977129--4977165 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
4977119 GACCCGACCC
4977129 GACCGTT
1 GACCGTT
4977136 GACCGTT
1 GACCGTT
4977143 GACCG-T
1 GACCGTT
4977149 GACCGTT
1 GACCGTT
4977156 GACCGTT
1 GACCGTT
4977163 GAC
1 GAC
4977166 TTTCTTTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:4977153 original size:13 final size:13
Alignment explanation
Indices: 4977129--4977161 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4977119 GACCCGACCC
4977129 GACCGTTGACCGTT
1 GACCG-TGACCGTT
4977143 GACCGTGACCGTT
1 GACCGTGACCGTT
4977156 GACCGT
1 GACCGT
4977162 TGACTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.24
Consensus pattern (13 bp):
GACCGTGACCGTT
Found at i:4979240 original size:2 final size:2
Alignment explanation
Indices: 4979233--4979314 Score: 164
Period size: 2 Copynumber: 41.0 Consensus size: 2
4979223 AACGATATCA
4979233 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4979275 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4979315 TACTGTCGGA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 80 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4981090 original size:3 final size:3
Alignment explanation
Indices: 4981077--4981106 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
4981067 AATGAATTAA
4981077 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4981107 TACTAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:4981147 original size:30 final size:31
Alignment explanation
Indices: 4981111--4981174 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
4981101 ATAATATACT
*
4981111 AAATATTATTTATA-TA-ATATATATATTTCA
1 AAATATTATTTAAACTATATAT-TATATTTCA
* *
4981141 AAATATTTTTTAAACTATATATTATATTTTA
1 AAATATTATTTAAACTATATATTATATTTCA
4981172 AAA
1 AAA
4981175 AGTTTTCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 12 0.41
31 13 0.45
32 4 0.14
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (31 bp):
AAATATTATTTAAACTATATATTATATTTCA
Found at i:4981187 original size:31 final size:31
Alignment explanation
Indices: 4981127--4981267 Score: 92
Period size: 31 Copynumber: 4.4 Consensus size: 31
4981117 TATTTATATA
**
4981127 ATATA-TATATTTCAAAATATTTTTTAAACT
1 ATATATTATATTTCAAAATATTTTCAAAACT
*
4981157 ATATATTATATTTTAAAA-AGTTTTCAAAACT
1 ATATATTATATTTCAAAATA-TTTTCAAAACT
* * * *
4981188 ATATGTTATATAGTTTTCAAAATGTTTTAAAAAAT
1 ATAT-AT-TATA--TTTCAAAATATTTTCAAAACT
*
4981223 AT-TATCTA-AGTTTTCAAAAACTATTTTTAAAACT
1 ATATAT-TATA--TTTC-AAAA-TATTTTCAAAACT
4981257 ATATATTATAT
1 ATATATTATAT
4981268 AATTTTTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
30 6 0.07
31 24 0.28
32 8 0.09
33 12 0.14
34 15 0.17
35 22 0.25
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (31 bp):
ATATATTATATTTCAAAATATTTTCAAAACT
Found at i:4981333 original size:39 final size:38
Alignment explanation
Indices: 4981221--4981383 Score: 229
Period size: 39 Copynumber: 4.2 Consensus size: 38
4981211 GTTTTAAAAA
* *
4981221 ATATTATCTAAGTTTTCAAAAACTA-TTTTTAAAACTAT
1 ATATTATATAATTTTTCAAAAA-TATTTTTTAAAACTAT
*
4981259 ATATTATATAATTTTTCAAAAATGTTTTTTAAAACTAT
1 ATATTATATAATTTTTCAAAAATATTTTTTAAAACTAT
* * *
4981297 ATACTATAGAATTTTTCAAAAAATATTTTTTTAAACTAT
1 ATATTATATAATTTTTC-AAAAATATTTTTTAAAACTAT
*
4981336 ATATTATATAATTTTTCAAAAATCTTTTTTTAAAACTAT
1 ATATTATATAATTTTTCAAAAAT-ATTTTTTAAAACTAT
4981375 ATATTATAT
1 ATATTATAT
4981384 TTTAAAAATA
Statistics
Matches: 111, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
37 1 0.01
38 54 0.49
39 56 0.50
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.48
Consensus pattern (38 bp):
ATATTATATAATTTTTCAAAAATATTTTTTAAAACTAT
Found at i:4981340 original size:77 final size:77
Alignment explanation
Indices: 4981233--4981382 Score: 248
Period size: 77 Copynumber: 1.9 Consensus size: 77
4981223 ATTATCTAAG
*
4981233 TTTTCAAAAACTATTTTTAAAACTATATATTATATAATTTTTCAAAAAT-GTTTTTTAAAACTAT
1 TTTTCAAAAAATATTTTTAAAACTATATATTATATAATTTTTCAAAAATCGTTTTTTAAAACTAT
4981297 ATACTATAGAAT
66 ATACTATAGAAT
* *
4981309 TTTTCAAAAAATATTTTTTTAAACTATATATTATATAATTTTTCAAAAATCTTTTTTTAAAACTA
1 TTTTCAAAAAATA-TTTTTAAAACTATATATTATATAATTTTTCAAAAATCGTTTTTTAAAACTA
*
4981374 TATATTATA
65 TATACTATA
4981383 TTTTAAAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
76 12 0.18
77 35 0.51
78 21 0.31
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.49
Consensus pattern (77 bp):
TTTTCAAAAAATATTTTTAAAACTATATATTATATAATTTTTCAAAAATCGTTTTTTAAAACTAT
ATACTATAGAAT
Found at i:4981399 original size:62 final size:65
Alignment explanation
Indices: 4981331--4981451 Score: 167
Period size: 62 Copynumber: 1.9 Consensus size: 65
4981321 ATTTTTTTAA
* * **
4981331 ACTATATATTATATAATTTTTCAAAAATC-TTTT-T-TTAAAACTATATATTATATTTTAAAAAT
1 ACTATATAATATATAAATTTTCAAAAATCATTTTCTGAAAAAACTATATATTATATTTTAAAAAT
* *
4981393 ACTATATAATATATAAATTTTCGAAAATCATTTTCTGAAAAAATTATATATTATATTTT
1 ACTATATAATATATAAATTTTCAAAAATCATTTTCTGAAAAAACTATATATTATATTTT
4981452 GTCAAAAACA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
62 26 0.52
63 4 0.08
64 1 0.02
65 19 0.38
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.48
Consensus pattern (65 bp):
ACTATATAATATATAAATTTTCAAAAATCATTTTCTGAAAAAACTATATATTATATTTTAAAAAT
Found at i:4981488 original size:2 final size:2
Alignment explanation
Indices: 4981481--4981526 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
4981471 ACTATATTAC
4981481 TA TA TA 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
4981523 TA TA
1 TA TA
4981527 ACAAACAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4982220 original size:164 final size:162
Alignment explanation
Indices: 4981995--4982536 Score: 628
Period size: 164 Copynumber: 3.3 Consensus size: 162
4981985 GGTATTGGGC
* * * *
4981995 TATGCTGTAAATGATGTGTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGAC
1 TATGCTGCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGCAGATAGAC
* * * *
4982060 CTTCTAGCCTTGAGTTATACCGCAAATGATGTGCCGTTGAGCTGAGCGTAATCGAACTCAAAGGT
66 CTTATAGCCTTGAGTTATACTGCAAATGATGTGCC-TTGAGCTGAGCGTAGTCGAACTCGAAGGT
* * *
4982125 CTTTGTTGGCAGATAACCCTTCTAGCCTTGAGT
130 CTTTGTTGGCAGATAACCCTTCTCGACTTAAGT
* * * *
4982158 TATGCTGCAAATGATGTGCACTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGCAGATAGC
1 TATGCTGCAAATGATGTGC-CTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGCAGATAGA
* * * * *
4982223 CCTTATCGACTTAAGTCATACTGCAAATGATGTTCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG
65 CCTTATAGCCTTGAGTTATACTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGAACTCGAAGG
* *
4982288 TCTTGGGTTGGCAGATAACCC-TCATCGATTTAAGT
129 TCTT-TGTTGGCAGATAACCCTTC-TCGACTTAAGT
* * *
4982323 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTAGAAGGTCTTTGGTGACAGATA
1 TATGCTGCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTT--TG-CAGATA
* ** *
4982388 -ACCCTTATAGCCTTGAGTTATACTGTAAATGATGTGCCCTCAAAGTTGAGCGTAGTCGAACTCG
63 GA-CCTTATAGCCTTGAGTTATACTGCAAATGATGTG-CCT-TGAGCTGAGCGTAGTCGAACTCG
* * * *
4982452 AGGGTC-TT-TT-ACAGATAGCCCTTCTCGACTTAAGC
125 AAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGT
*
4982487 TATGCTGCAAATGATGTGCCTTGGAA-CTGAGCGTGGTCGAACTCGAAGGT
1 TATGCTGCAAATGATGTGCCTT-GAAGCTGAGCGTAGTCGAACTCGAAGGT
4982537 ATTTGGTTGG
Statistics
Matches: 319, Mismatches: 48, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
163 19 0.06
164 189 0.59
165 46 0.14
166 2 0.01
167 35 0.11
168 28 0.09
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (162 bp):
TATGCTGCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGCAGATAGAC
CTTATAGCCTTGAGTTATACTGCAAATGATGTGCCTTGAGCTGAGCGTAGTCGAACTCGAAGGTC
TTTGTTGGCAGATAACCCTTCTCGACTTAAGT
Found at i:4982449 original size:248 final size:246
Alignment explanation
Indices: 4981993--4982557 Score: 730
Period size: 248 Copynumber: 2.3 Consensus size: 246
4981983 CTGGTATTGG
* *
4981993 GCTATGCTGTAAATGATGTGT-CTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-T--TTGGCAG
1 GCTATACTGCAAATGATGT-TCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTTGGCAG
* * * *
4982054 ATAGACCTTCTAGCCTTGAGTTATACCGCAAATGATGTGCCGTTGAGCTGAGCGTAATCGAACTC
65 ATA-ACCCTCTAGACTTAAGTTATACCGCAAATGATATGCCGTTGAGCTGAGCGTAATCGAACTC
* * * * *
4982119 AAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCACTCGAA
129 AAAGGTCTTTGGTGACAGATAACCCTTATAGCCTTGAGTTATACTGCAAATGATGTGCACTCAAA
* *
4982184 GCTGAGTGTAATCGAACTCGAAGGTCTTTTGCAGATAGCCCTTATCGACTTAA
194 GCTGAGCGTAATCGAACTCGAAGGTCTTTTACAGATAGCCCTTATCGACTTAA
4982237 G-TCATACTGCAAATGATGTTCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGGTTGGCA
1 GCT-ATACTGCAAATGATGTTCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT-GGTTGGCA
* * * * *
4982301 GATAACCCTCATCGATTTAAGTTATGCTGCAAATGATATGCC-TTGGAGCTGAGCGTAGTCGAAC
64 GATAACCCTC-TAGACTTAAGTTATACCGCAAATGATATGCCGTT-GAGCTGAGCGTAATCGAAC
* *
4982365 T-AGAAGGTCTTTGGTGACAGATAACCCTTATAGCCTTGAGTTATACTGTAAATGATGTGCCCTC
127 TCA-AAGGTCTTTGGTGACAGATAACCCTTATAGCCTTGAGTTATACTGCAAATGATGTGCACTC
* * * *
4982429 AAAGTTGAGCGTAGTCGAACTCGAGGGTCTTTTACAGATAGCCCTTCTCGACTTAA
191 AAAGCTGAGCGTAATCGAACTCGAAGGTCTTTTACAGATAGCCCTTATCGACTTAA
* * * * * *
4982485 GCTATGCTGCAAATGATGTGCCTTGGAACTGAGCGTGGTCGAACTCGAAGGTATTTGGTTGGCAA
1 GCTATACTGCAAATGATGTTCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-CTTGGTTGGCAG
*
4982550 ATAGCCCT
65 ATAACCCT
4982558 TCTTTTCTTG
Statistics
Matches: 279, Mismatches: 31, Indels: 18
0.85 0.09 0.05
Matches are distributed among these distances:
243 2 0.01
244 47 0.17
245 1 0.00
247 8 0.03
248 218 0.78
249 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (246 bp):
GCTATACTGCAAATGATGTTCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTTGGCAGA
TAACCCTCTAGACTTAAGTTATACCGCAAATGATATGCCGTTGAGCTGAGCGTAATCGAACTCAA
AGGTCTTTGGTGACAGATAACCCTTATAGCCTTGAGTTATACTGCAAATGATGTGCACTCAAAGC
TGAGCGTAATCGAACTCGAAGGTCTTTTACAGATAGCCCTTATCGACTTAA
Found at i:4982573 original size:84 final size:82
Alignment explanation
Indices: 4981995--4982560 Score: 545
Period size: 84 Copynumber: 6.9 Consensus size: 82
4981985 GGTATTGGGC
* * *
4981995 TATGCTGTAAATGATGTGTCTTGGAGCTGAGCGTAGTCGAACTCGAAGG-TCT-TTGGCAGATAG
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTGTTGGCAGATAG
*
4982058 ACCTTCTAGCCTTGAGT
66 CCCTTCTAGCCTTGAGT
* * * *
4982075 TATACCGCAAATGATGTGCCGTT-GAGCTGAGCGTAATCGAACTCAAAGGTCTTTGTTGGCAGAT
1 TATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGT-TTTGTTGGCAGAT
*
4982139 AACCCTTCTAGCCTTGAGT
64 AGCCCTTCTAGCCTTGAGT
* * * * *
4982158 TATGCTGCAAATGATGTGCACTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTT-TT-GCAGATA
1 TATGCTGCAAATGATGTGC-CTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTGTTGGCAGATA
* * * *
4982221 GCCCTTATCGACTTAAGT
65 GCCCTTCTAGCCTTGAGT
* * * *
4982239 CATACTGCAAATGATGTTCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGGTTGGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-TT-TGTTGGCAGAT
* * ** *
4982304 AACCC-TCATCGATTTAAGT
64 AGCCCTTC-TAGCCTTGAGT
* * * *
4982323 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTAGAAGGTCTTTGGTGACAGATA
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-TTTGTTGGCAGATA
* *
4982388 ACCCTTATAGCCTTGAGT
65 GCCCTTCTAGCCTTGAGT
* * *** * * * *
4982406 TATACTGTAAATGATGTGCCCTCAAAGTTGAGCGTAGTCGAACTCGAGGGTCTT-TT-ACAGATA
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTGTTGGCAGATA
* * * *
4982469 GCCCTTCTCGACTTAAGC
65 GCCCTTCTAGCCTTGAGT
* * *
4982487 TATGCTGCAAATGATGTGCCTTGGAACTGAGCGTGGTCGAACTCGAAGGTATTTGGTTGGCAAAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-TTT-GTTGGCAGAT
4982552 AGCCCTTCT
64 AGCCCTTCT
4982561 TTTCTTGAGC
Statistics
Matches: 394, Mismatches: 75, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
80 92 0.23
81 76 0.19
82 5 0.01
83 88 0.22
84 133 0.34
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (82 bp):
TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTGTTGGCAGATAG
CCCTTCTAGCCTTGAGT
Found at i:4984331 original size:31 final size:31
Alignment explanation
Indices: 4984293--4984448 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
4984283 CCCGAAGGAC
* * *
4984293 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
4984324 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4984355 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4984386 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4984417 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4984448 C
1 C
4984449 CCTCGACCCT
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 118 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:4985409 original size:21 final size:21
Alignment explanation
Indices: 4985379--4985423 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
4985369 TGTTGTTCGT
*
4985379 TTGAAGGGGTATCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
4985400 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
4985421 TTG
1 TTG
4985424 CCCAGAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:4991715 original size:19 final size:19
Alignment explanation
Indices: 4991673--4991709 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4991663 TGGAAAAGAA
* *
4991673 AAATGAAATGAATTAAAAT
1 AAATAAAATGAATAAAAAT
4991692 AAATAAAATGAATAAAAA
1 AAATAAAATGAATAAAAA
4991710 ATAATATACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (19 bp):
AAATAAAATGAATAAAAAT
Found at i:4991873 original size:38 final size:37
Alignment explanation
Indices: 4991749--4992098 Score: 252
Period size: 38 Copynumber: 9.6 Consensus size: 37
4991739 TATATAATTC
*
4991749 AAAATATTTTTTTAAACTATATA-T-TAT-A-TTTT-A
1 AAAATA-TTTTTAAAACTATATATTATATAATTTTTCA
* * * *
4991782 AAAA-GTTTTCAAAACTATATGTTATAT-AGTTTTCA
1 AAAATATTTTTAAAACTATATATTATATAATTTTTCA
* *
4991817 AAAA-A-ATTTAAAA--A-ATATTATATAAGTTTTCA
1 AAAATATTTTTAAAACTATATATTATATAATTTTTCA
*
4991849 AAAACTATTTTTAAAACTATATATTATATAATTATTCA
1 AAAA-TATTTTTAAAACTATATATTATATAATTTTTCA
* * *
4991887 AAAATGTTTTTTAAAACTATATACTATAGAATTTTTCA
1 AAAAT-ATTTTTAAAACTATATATTATATAATTTTTCA
*
4991925 AAAATTATTTTTTTAAACTATATATTATATAATTTTTCA
1 AAAA-TA-TTTTTAAAACTATATATTATATAATTTTTCA
*
4991964 AAAATGTTTTTTTAAAACTATATA-T-TAT-A-TTTTC-
1 AAAA--TATTTTTAAAACTATATATTATATAATTTTTCA
* * * *
4991998 AAAATATTTTCAAAAAACTATATAATATATAAATTTTCT
1 AAAATATTTT--TAAAACTATATATTATATAATTTTTCA
*
4992037 AAAATCATTTTCTGAAAAAATTATATATTATAT--TTTTTCA
1 AAAAT-ATTTT-T---AAAACTATATATTATATAATTTTTCA
* *
4992077 AAAACATTTTCACAAACTATAT
1 AAAATATTTTTA-AAACTATAT
4992099 TACCATATAC
Statistics
Matches: 257, Mismatches: 33, Indels: 51
0.75 0.10 0.15
Matches are distributed among these distances:
31 21 0.08
32 19 0.07
33 8 0.03
34 26 0.10
35 19 0.07
36 12 0.05
37 6 0.02
38 58 0.23
39 58 0.23
40 15 0.06
42 15 0.06
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (37 bp):
AAAATATTTTTAAAACTATATATTATATAATTTTTCA
Found at i:4991953 original size:77 final size:77
Alignment explanation
Indices: 4991843--4991992 Score: 248
Period size: 77 Copynumber: 1.9 Consensus size: 77
4991833 ATTATATAAG
4991843 TTTTCAAAAACTATTTTTAAAACTATATATTATATAATTATTCAAAAATG-TTTTTTAAAACTAT
1 TTTTCAAAAACTATTTTTAAAACTATATATTATATAATTATTCAAAAATGTTTTTTTAAAACTAT
4991907 ATACTATAGAAT
66 ATACTATAGAAT
* * *
4991919 TTTTCAAAAATTATTTTTTTAAACTATATATTATATAATTTTTCAAAAATGTTTTTTTAAAACTA
1 TTTTCAAAAACTA-TTTTTAAAACTATATATTATATAATTATTCAAAAATGTTTTTTTAAAACTA
*
4991984 TATATTATA
65 TATACTATA
4991993 TTTTCAAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
76 12 0.18
77 35 0.51
78 21 0.31
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.49
Consensus pattern (77 bp):
TTTTCAAAAACTATTTTTAAAACTATATATTATATAATTATTCAAAAATGTTTTTTTAAAACTAT
ATACTATAGAAT
Found at i:4992075 original size:40 final size:35
Alignment explanation
Indices: 4991977--4992098 Score: 122
Period size: 39 Copynumber: 3.3 Consensus size: 35
4991967 ATGTTTTTTT
4991977 AAAACTATATATTATATTTTCAAAAT-ATTTTCAA
1 AAAACTATATATTATATTTTCAAAATCATTTTCAA
4992011 AAAACTATATAATATATAAATTTTCTAAAATCATTTTCTGAA
1 AAAACTATAT-AT-TAT--ATTTTC-AAAATCATTTTC--AA
* *
4992053 AAAATTATATATTATATTTTTTCAAAAACATTTTC-A
1 AAAACTATATATTATA--TTTTCAAAATCATTTTCAA
*
4992089 CAAACTATAT
1 AAAACTATAT
4992099 TACCATATAC
Statistics
Matches: 74, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
34 10 0.14
35 2 0.03
36 12 0.16
38 7 0.09
39 16 0.22
40 14 0.19
41 2 0.03
42 11 0.15
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.43
Consensus pattern (35 bp):
AAAACTATATATTATATTTTCAAAATCATTTTCAA
Found at i:4992903 original size:2 final size:2
Alignment explanation
Indices: 4992896--4992945 Score: 84
Period size: 2 Copynumber: 25.0 Consensus size: 2
4992886 TCTAATCATA
4992896 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4992937 CAT AT AT AT
1 -AT AT AT AT
4992946 TTTTTATCTG
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 44 0.96
3 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5004769 original size:65 final size:65
Alignment explanation
Indices: 5004665--5004797 Score: 185
Period size: 65 Copynumber: 2.0 Consensus size: 65
5004655 AGCTAAACTG
* ** *
5004665 AGGTTGACAGAAATGGATTAGAGAAATCTAATTTTTAGTTTTGATTATGGTTCAATTAAAATTTA
1 AGGTTGACAGAAATGGATTAGACAAATCTAATTTTTAGTTCCGATTATGATTCAATTAAAATTTA
* * * * *
5004730 AGGTTGACGGTAATGGATTAGACAACTTTAATTTTTAGTTCCGATTATGATTTAATTAAAATTTA
1 AGGTTGACAGAAATGGATTAGACAAATCTAATTTTTAGTTCCGATTATGATTCAATTAAAATTTA
5004795 AGG
1 AGG
5004798 AGATTGGAAG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (65 bp):
AGGTTGACAGAAATGGATTAGACAAATCTAATTTTTAGTTCCGATTATGATTCAATTAAAATTTA
Found at i:5005039 original size:15 final size:15
Alignment explanation
Indices: 5005024--5005076 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
5005014 CCGGTTTCGG
*
5005024 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACC-G-A
*
5005041 TTTTTAAAAAACCGA
1 TTTTAAAAAAACCGA
*
5005056 TTATAAAAAAACCGA
1 TTTTAAAAAAACCGA
5005071 TTTTAA
1 TTTTAA
5005077 TATTTCAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 18 0.58
16 1 0.03
17 12 0.39
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (15 bp):
TTTTAAAAAAACCGA
Found at i:5005546 original size:33 final size:33
Alignment explanation
Indices: 5005499--5005597 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
5005489 AACTCAACAT
* * *
5005499 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
5005532 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
5005565 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
5005597 A
1 A
5005598 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:5005616 original size:21 final size:21
Alignment explanation
Indices: 5005592--5005631 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5005582 ACTTCAAGTT
5005592 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
5005613 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
5005632 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:5007956 original size:11 final size:12
Alignment explanation
Indices: 5007935--5007965 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
5007925 TCCGGATAAA
5007935 AACCGGTTTTTT
1 AACCGGTTTTTT
5007947 AACCGGTTTTTT
1 AACCGGTTTTTT
*
5007959 ATCCGGT
1 AACCGGT
5007966 AAAAAAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.45
Consensus pattern (12 bp):
AACCGGTTTTTT
Found at i:5009983 original size:13 final size:14
Alignment explanation
Indices: 5009955--5009982 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5009945 TAATAGAGGG
5009955 ATTATTTTAAAAAA
1 ATTATTTTAAAAAA
5009969 ATTATTTTAAAAAA
1 ATTATTTTAAAAAA
5009983 TAAACTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTATTTTAAAAAA
Found at i:5012993 original size:18 final size:17
Alignment explanation
Indices: 5012972--5013009 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
5012962 CGAGTAACTC
5012972 AATTT-ATTTTTATTATAA
1 AATTTAATTTTT-TTA-AA
5012990 AATTTAATTTTTTTAAA
1 AATTTAATTTTTTTAAA
5013007 AAT
1 AAT
5013010 CAATTCGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 8 0.42
19 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AATTTAATTTTTTTAAA
Found at i:5018468 original size:44 final size:44
Alignment explanation
Indices: 5018405--5018489 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
5018395 AAAATCAAGG
5018405 AACCATCAGAAACTATATTCTTTGCCTATTCACCGTCTTTCAGT
1 AACCATCAGAAACTATATTCTTTGCCTATTCACCGTCTTTCAGT
**
5018449 AACCATCAGAAACTATATTCTTTGTTTATTCACCGTCTTTC
1 AACCATCAGAAACTATATTCTTTGCCTATTCACCGTCTTTC
5018490 TTCCCAAAGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (44 bp):
AACCATCAGAAACTATATTCTTTGCCTATTCACCGTCTTTCAGT
Found at i:5019344 original size:42 final size:42
Alignment explanation
Indices: 5019290--5019393 Score: 154
Period size: 42 Copynumber: 2.5 Consensus size: 42
5019280 TACATATTCG
* *
5019290 CATTGCGGTAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
1 CATTGCGATAGTCCAAGTTCGCGTTGCGATTTATTACAAATT
*
5019332 TATTGCGATAGTCCAAGTTCGCGTTGCGATTTATTACAAATT
1 CATTGCGATAGTCCAAGTTCGCGTTGCGATTTATTACAAATT
* * *
5019374 CGTTGCAATAGTCGAAGTTC
1 CATTGCGATAGTCCAAGTTC
5019394 TCTAAAAAGA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (42 bp):
CATTGCGATAGTCCAAGTTCGCGTTGCGATTTATTACAAATT
Found at i:5019358 original size:21 final size:21
Alignment explanation
Indices: 5019286--5019361 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
5019276 GATTTACATA
*
5019286 TTCGCATTGCGGTAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* * *
5019307 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCATTGCGA--TAGTCCAAG
*
5019330 TT--TATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
5019349 TTCGCGTTGCGAT
1 TTCGCATTGCGAT
5019362 TTATTACAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
19 9 0.22
21 23 0.56
23 9 0.22
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:5020223 original size:21 final size:21
Alignment explanation
Indices: 5020197--5020492 Score: 155
Period size: 21 Copynumber: 14.3 Consensus size: 21
5020187 ATTTTGGACT
* *
5020197 ATCGCAACGAATTTTGAATAA
1 ATCGCAACGAACTTGGAATAA
*
5020218 ATCGCAACGCAAACTT-CAACT--
1 ATCGCAACG--AACTTGGAA-TAA
5020239 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
5020260 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
*
5020281 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
**
5020302 ATCGCAACGCGAACTTGGGCT--
1 ATCGCAA--CGAACTTGGAATAA
*
5020323 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
5020344 ATCGCAATGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
* *
5020365 GTCGCAACGAACTTGGACT--
1 ATCGCAACGAACTTGGAATAA
*
5020384 ATCGCAACGCGAACTTGG-AT-T
1 ATCGCAA--CGAACTTGGAATAA
5020405 ATCGCAACGCGAACTT-GAACT--
1 ATCGCAA--CGAACTTGGAA-TAA
*
5020426 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
*
5020447 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAACTTGGAATAA
*
5020468 ATCGCAACGAA-TTTGAA-AA
1 ATCGCAACGAACTTGGAATAA
5020487 ATCGCA
1 ATCGCA
5020493 TTGCGATAGT
Statistics
Matches: 221, Mismatches: 26, Indels: 58
0.72 0.09 0.19
Matches are distributed among these distances:
18 4 0.02
19 58 0.26
20 7 0.03
21 106 0.48
22 3 0.01
23 43 0.19
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:5020258 original size:42 final size:42
Alignment explanation
Indices: 5020193--5020413 Score: 320
Period size: 42 Copynumber: 5.3 Consensus size: 42
5020183 TGCGATTTTG
* *
5020193 GACTATCGCAACGAATTTTGAATAAATCGCAACGCAAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* *
5020235 AACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
5020277 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* *
5020319 GGCTATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* * * *
5020361 GACTGTCGCAACGAACTTGGACT--ATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
5020401 GATTATCGCAACG
1 GACTATCGCAACG
5020414 CGAACTTGAA
Statistics
Matches: 161, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 26 0.16
42 135 0.84
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:5020415 original size:103 final size:103
Alignment explanation
Indices: 5020260--5020478 Score: 316
Period size: 103 Copynumber: 2.1 Consensus size: 103
5020250 CTTGGAATAA
* **
5020260 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGGCTAT
1 ATCGCAA--CGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGAACTAT
*
5020325 CGCAACGAATTTGGAATAAATCGCAATGCGAACTTCGACT
64 CGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
* * *
5020365 GTCGCAACGAACTTGGACTATCGCAACGCGAACTTGG-AT-TATCGCAACGCGAACTTGAACTAT
1 ATCGCAACGAACTTCGACTATCGCAA--CGAACTTGGAATAAATCGCAACGCGAACTTGAACTAT
*
5020428 CGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACT
64 CGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
5020468 ATCGCAACGAA
1 ATCGCAACGAA
5020479 TTTGAAAAAT
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
103 87 0.84
104 2 0.02
105 14 0.14
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (103 bp):
ATCGCAACGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGAACTATCG
CAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
Found at i:5020490 original size:19 final size:19
Alignment explanation
Indices: 5020426--5020492 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
5020416 AACTTGAACT
5020426 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTT-GAA-AA
* * **
5020447 ATCGCAACGCGAACTTGGACT
1 ATCGCAA--CGAATTTGAAAA
5020468 ATCGCAACGAATTTGAAAA
1 ATCGCAACGAATTTGAAAA
5020487 ATCGCA
1 ATCGCA
5020493 TTGCGATAGT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 14 0.39
21 14 0.39
22 2 0.06
23 6 0.17
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (19 bp):
ATCGCAACGAATTTGAAAA
Found at i:5020519 original size:21 final size:21
Alignment explanation
Indices: 5020488--5020540 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
5020478 ATTTGAAAAA
*
5020488 TCGCATTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
* *
5020509 TTGCGTTGCGATAGTCGATGT
1 TCGCGTTGCGATAGTCGAAGT
5020530 TCGCGTTGCGA
1 TCGCGTTGCGA
5020541 ATCTGGAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.17, C:0.19, G:0.32, T:0.32
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCGAAGT
Found at i:5022431 original size:28 final size:28
Alignment explanation
Indices: 5022400--5022456 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
5022390 CTTCCTTCAA
5022400 TTTATCATGTAAAACATTTAACACTTAT
1 TTTATCATGTAAAACATTTAACACTTAT
5022428 TTTATCATGTAAAACATTTAACACTTAT
1 TTTATCATGTAAAACATTTAACACTTAT
5022456 T
1 T
5022457 CTTCTCCCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.44
Consensus pattern (28 bp):
TTTATCATGTAAAACATTTAACACTTAT
Found at i:5022730 original size:17 final size:17
Alignment explanation
Indices: 5022708--5022751 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
5022698 TTCATTTATC
5022708 CAAAATCCAACAATCCA
1 CAAAATCCAACAATCCA
*
5022725 CAAAATCAAACAATCCA
1 CAAAATCCAACAATCCA
5022742 -AAATATCCAA
1 CAAA-ATCCAA
5022752 AATGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCCAACAATCCA
Found at i:5024286 original size:19 final size:19
Alignment explanation
Indices: 5024255--5024295 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
5024245 ATGTATAGTT
5024255 TTTAACAACAACA-ACATAA
1 TTTAACAACAACACA-ATAA
5024274 TTTAATCAA-AACACAATAA
1 TTTAA-CAACAACACAATAA
5024293 TTT
1 TTT
5024296 GAAAAATAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (19 bp):
TTTAACAACAACACAATAA
Found at i:5024734 original size:21 final size:21
Alignment explanation
Indices: 5024708--5024788 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
5024698 CAGAACCCCA
*
5024708 GGGGGGTATCGATTCCCCTAT
1 GGGGGGAATCGATTCCCCTAT
* *
5024729 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGATTCCCC-T-AT
* *
5024752 AGGGGGAATCGGTT-CCCTCA-
1 GGGGGGAATCGATTCCCCT-AT
*
5024772 GGGGGGGATCGATTCCC
1 GGGGGGAATCGATTCCC
5024789 TCTGCACCAA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
20 11 0.22
21 21 0.42
22 4 0.08
23 14 0.28
ACGTcount: A:0.16, C:0.25, G:0.37, T:0.22
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTAT
Found at i:5032349 original size:21 final size:21
Alignment explanation
Indices: 5032320--5032363 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
5032310 ATTCTGACTA
5032320 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
5032341 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
5032362 TC
1 TC
5032364 ACAATACGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:5032440 original size:20 final size:20
Alignment explanation
Indices: 5032415--5032541 Score: 168
Period size: 20 Copynumber: 6.3 Consensus size: 20
5032405 GCAATGCGAA
5032415 TACGTAACCGCATTGCGATT
1 TACGTAACCGCATTGCGATT
**
5032435 TACGTATTCGCATTGCGATTT
1 TACGTAACCGCATTGCGA-TT
* *
5032456 TTC-TAATTCGCATTGCGATT
1 TACGTAA-CCGCATTGCGATT
* *
5032476 TACGTAACCACATTGCAATT
1 TACGTAACCGCATTGCGATT
5032496 TACGTAACCGCATTGCGATT
1 TACGTAACCGCATTGCGATT
5032516 TACGTAACCGCATTGCGATT
1 TACGTAACCGCATTGCGATT
5032536 TA-GTAA
1 TACGTAA
5032542 ATCGCAACGA
Statistics
Matches: 94, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.04
20 72 0.77
21 18 0.19
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (20 bp):
TACGTAACCGCATTGCGATT
Found at i:5032467 original size:81 final size:80
Alignment explanation
Indices: 5032382--5032536 Score: 195
Period size: 81 Copynumber: 1.9 Consensus size: 80
5032372 AATACGTAAA
* * * **
5032382 TCGCAATGCGAATTAGGAAAATCGCAATGCGAA-TACGTAACCGCATTGCGATTTACGTATTCGC
1 TCGCAATGCGAATTACG-AAACCACAATGC-AATTACGTAACCGCATTGCGATTTACGTAACCGC
5032446 ATTGCGATTTTTCTAAT
64 ATTGCGATTTTTCTAAT
* * * *
5032463 TCGCATTGCGATTTACGTAACCACATTGCAATTTACGTAACCGCATTGCGATTTACGTAACCGCA
1 TCGCAATGCGAATTACGAAACCACAATGCAA-TTACGTAACCGCATTGCGATTTACGTAACCGCA
5032528 TTGCGATTT
65 TTGCGATTT
5032537 AGTAAATCGC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
79 2 0.03
80 8 0.13
81 53 0.84
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (80 bp):
TCGCAATGCGAATTACGAAACCACAATGCAATTACGTAACCGCATTGCGATTTACGTAACCGCAT
TGCGATTTTTCTAAT
Found at i:5032490 original size:61 final size:60
Alignment explanation
Indices: 5032415--5032541 Score: 168
Period size: 61 Copynumber: 2.1 Consensus size: 60
5032405 GCAATGCGAA
* * ** * *
5032415 TACGTAACCGCATTGCGATTTACGTATTCGCATTGCGATTTTTC-TAATTCGCATTGCGATT
1 TACGTAACCACATTGCAATTTACGTAACCGCATTGCGA-TTTACGTAA-CCGCATTGCGATT
5032476 TACGTAACCACATTGCAATTTACGTAACCGCATTGCGATTTACGTAACCGCATTGCGATT
1 TACGTAACCACATTGCAATTTACGTAACCGCATTGCGATTTACGTAACCGCATTGCGATT
5032536 TA-GTAA
1 TACGTAA
5032542 ATCGCAACGA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
59 4 0.07
60 18 0.31
61 37 0.63
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (60 bp):
TACGTAACCACATTGCAATTTACGTAACCGCATTGCGATTTACGTAACCGCATTGCGATT
Found at i:5032547 original size:20 final size:20
Alignment explanation
Indices: 5032401--5032547 Score: 156
Period size: 20 Copynumber: 7.3 Consensus size: 20
5032391 GAATTAGGAA
* *
5032401 AATCGCAATGCGA-ATACGT
1 AATCGCATTGCGATTTACGT
*
5032420 AACCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
* *
5032440 ATTCGCATTGCGATTTTTC-T
1 AATCGCATTGCGA-TTTACGT
5032460 AATTCGCATTGCGATTTACGT
1 AA-TCGCATTGCGATTTACGT
* * *
5032481 AACCACATTGCAATTTACGT
1 AATCGCATTGCGATTTACGT
*
5032501 AACCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
*
5032521 AACCGCATTGCGATTTA-GT
1 AATCGCATTGCGATTTACGT
5032540 AAATCGCA
1 -AATCGCA
5032548 ACGAGATTCT
Statistics
Matches: 109, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
19 13 0.12
20 78 0.72
21 18 0.17
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (20 bp):
AATCGCATTGCGATTTACGT
Found at i:5036012 original size:14 final size:14
Alignment explanation
Indices: 5035993--5036064 Score: 72
Period size: 14 Copynumber: 4.8 Consensus size: 14
5035983 AACGCGAAAT
5035993 GAAAATCGCAACGA
1 GAAAATCGCAACGA
5036007 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
5036021 GAGAATCGCAATGCGAAA
1 GAAAATCGCAA--CG--A
5036039 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
**
5036054 GGGAATCGCAA
1 GAAAATCGCAA
5036065 AGCGAAATGA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
14 33 0.67
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 10 0.20
ACGTcount: A:0.46, C:0.19, G:0.25, T:0.10
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:5036044 original size:33 final size:33
Alignment explanation
Indices: 5036007--5036085 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
5035997 ATCGCAACGA
*
5036007 GAAAATCGCAACGAGAGAATCGCAATGCGAAAT
1 GAAAATCGCAACGAGAGAATCGCAAAGCGAAAT
*
5036040 GAAAATCGCAACGAGGGAATCGCAAAGCGAAAT
1 GAAAATCGCAACGAGAGAATCGCAAAGCGAAAT
5036073 GAAAATCGCAACG
1 GAAAATCGCAACG
5036086 CGAATTAAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.46, C:0.19, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAAATCGCAACGAGAGAATCGCAAAGCGAAAT
Found at i:5036267 original size:14 final size:14
Alignment explanation
Indices: 5036248--5036284 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
5036238 CACCAATTAA
5036248 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
5036262 ACAAATCATCTTTT
1 ACAAATCAACTTTT
5036276 ACAAATCAA
1 ACAAATCAA
5036285 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:5037678 original size:21 final size:21
Alignment explanation
Indices: 5037649--5037729 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
5037639 TAATGGTGGG
*
5037649 AGGGACCTCTTCAACGATGAC
1 AGGGGCCTCTTCAACGATGAC
* * * *
5037670 AGTGGCCTCTTGAACGGTGAG
1 AGGGGCCTCTTCAACGATGAC
* * * *
5037691 AGGGGACTC-TCGAGGAATGAT
1 AGGGGCCTCTTCAACG-ATGAC
5037712 AGGGGCCTCTTCAACGAT
1 AGGGGCCTCTTCAACGAT
5037730 AGGAGTGGAC
Statistics
Matches: 43, Mismatches: 15, Indels: 4
0.69 0.24 0.06
Matches are distributed among these distances:
20 3 0.07
21 36 0.84
22 4 0.09
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.21
Consensus pattern (21 bp):
AGGGGCCTCTTCAACGATGAC
Found at i:5038186 original size:19 final size:19
Alignment explanation
Indices: 5038146--5038202 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
5038136 AATGGAACTT
*
5038146 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
5038167 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
5038186 AAAATCGCAACGCGAAA
1 AAAATCGCAACGCGAAA
5038203 CCAAAAATCG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 20 0.65
21 11 0.35
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:5038208 original size:19 final size:19
Alignment explanation
Indices: 5038170--5038208 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
5038160 AAAAATGACT
**
5038170 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAACCAAA
5038189 ATCGCAACGCGAAACCAAA
1 ATCGCAACGCGAAACCAAA
5038208 A
1 A
5038209 ATCGTAATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.26, G:0.18, T:0.08
Consensus pattern (19 bp):
ATCGCAACGCGAAACCAAA
Found at i:5038464 original size:94 final size:93
Alignment explanation
Indices: 5038352--5038653 Score: 550
Period size: 94 Copynumber: 3.2 Consensus size: 93
5038342 ATGGATTGCA
* *
5038352 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
*
5038417 TAGCAGAATTGGCAGCAAACGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
5038445 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
5038510 TTAGCAGAATTGGCAGCAACCGAACAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
5038539 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
5038604 TTAGCAGAATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
5038633 TTACTTCAACCAAAAGACAAA
1 TTACTTCAACCAAAAGACAAA
5038654 TACTAACTTC
Statistics
Matches: 204, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
93 21 0.10
94 183 0.90
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.20
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:5038706 original size:78 final size:79
Alignment explanation
Indices: 5038563--5038715 Score: 254
Period size: 78 Copynumber: 1.9 Consensus size: 79
5038553 AAGACAAAAC
*
5038563 AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
1 AAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGCAGAATTGGCAGCAACCGAA
5038628 TAAATTTACTTCAACCA
63 TAAATTTACTTCAACCA
*
5038645 AAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCAGTATTGGCAGCAACCGAATAA
1 AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAATTGGCAGCAACCGAATAA
5038709 ATTTACT
66 ATTTACT
5038716 AAGCAATCTA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
78 42 0.61
82 27 0.39
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (79 bp):
AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAATTGGCAGCAACCGAATAA
ATTTACTTCAACCA
Found at i:5040454 original size:19 final size:19
Alignment explanation
Indices: 5040390--5040463 Score: 103
Period size: 20 Copynumber: 3.8 Consensus size: 19
5040380 TCTTTTGGTT
*
5040390 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
5040409 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
5040429 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
5040449 GAAATGAAAATCGCA
1 GAAATGAAAATCGCA
5040464 GCGATTTTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 15 0.31
20 31 0.65
21 2 0.04
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:5041062 original size:20 final size:20
Alignment explanation
Indices: 5041039--5041132 Score: 125
Period size: 20 Copynumber: 4.7 Consensus size: 20
5041029 CGATAGTCAG
5041039 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * *
5041059 ATTCGCATTACGATTTTCAT
1 ATTCGCATTGCGATTTACGT
*
5041079 AATTCGCATTGCGATTTACTT
1 -ATTCGCATTGCGATTTACGT
* *
5041100 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
5041120 ATTCGCATTGCGA
1 ATTCGCATTGCGA
5041133 ATTATGAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
20 45 0.73
21 17 0.27
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:5041085 original size:21 final size:20
Alignment explanation
Indices: 5041021--5041132 Score: 118
Period size: 20 Copynumber: 5.5 Consensus size: 20
5041011 GCTATGTAAA
* *
5041021 TCGCATTGCGATAGT-CAGAT
1 TCGCATTGCGAT-TTACATAT
*
5041041 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACATAT
* *
5041061 TCGCATTACGATTTTCATAAT
1 TCGCATTGCGATTTACAT-AT
* *
5041082 TCGCATTGCGATTTACTTAA
1 TCGCATTGCGATTTACATAT
* *
5041102 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACATAT
5041122 TCGCATTGCGA
1 TCGCATTGCGA
5041133 ATTATGAAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
19 1 0.01
20 58 0.76
21 17 0.22
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:5041086 original size:41 final size:40
Alignment explanation
Indices: 5041039--5041132 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 40
5041029 CGATAGTCAG
* *
5041039 ATTCGCATTGCGATTTACGTATTCGCATTACGATTTTCAT
1 ATTCGCATTGCGATTTACGTAATCGCATTACGATTTACAT
* * * *
5041079 AATTCGCATTGCGATTTACTTAATCGCGTTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGTAATCGCATTACGATTTACAT
5041120 ATTCGCATTGCGA
1 ATTCGCATTGCGA
5041133 ATTATGAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 13 0.28
41 34 0.72
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACGTAATCGCATTACGATTTACAT
Found at i:5041155 original size:21 final size:21
Alignment explanation
Indices: 5041122--5041196 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
5041112 ATTTACGTAT
* *
5041122 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* * *
5041143 TGGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
5041163 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
5041184 TCGCAATGCGAAT
1 TCGCAATGCGAAT
5041197 ACGTAATCGC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 28 0.64
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:5041168 original size:20 final size:20
Alignment explanation
Indices: 5041140--5041207 Score: 84
Period size: 21 Copynumber: 3.4 Consensus size: 20
5041130 CGAATTATGA
* *
5041140 AAATGGCAACGCGAATACGT
1 AAATCGCAATGCGAATACGT
* *
5041160 AAATCGCAATGCGAATTAGGA
1 AAATCGCAATGCGAA-TACGT
5041181 AAATCGCAATGCGAATACGT
1 AAATCGCAATGCGAATACGT
5041201 -AATCGCA
1 AAATCGCA
5041208 TTTCCTAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 7 0.17
20 16 0.39
21 18 0.44
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.18
Consensus pattern (20 bp):
AAATCGCAATGCGAATACGT
Found at i:5041173 original size:41 final size:40
Alignment explanation
Indices: 5041115--5041207 Score: 132
Period size: 41 Copynumber: 2.3 Consensus size: 40
5041105 CGTTGCGATT
* * * *
5041115 TACGTATTCGCATTGCGAATTATGAAAATGGCAACGCGAA
1 TACGTAATCGCAATGCGAATTAGGAAAATCGCAACGCGAA
*
5041155 TACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCGAA
1 TACGT-AATCGCAATGCGAATTAGGAAAATCGCAACGCGAA
5041196 TACGTAATCGCA
1 TACGTAATCGCA
5041208 TTTCCTAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 12 0.26
41 35 0.74
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.23
Consensus pattern (40 bp):
TACGTAATCGCAATGCGAATTAGGAAAATCGCAACGCGAA
Found at i:5041240 original size:20 final size:20
Alignment explanation
Indices: 5041217--5041267 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
5041207 ATTTCCTAAT
5041217 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAA
* *
5041237 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAA
5041257 TCGCATTGCGA
1 TCGCATTGCGA
5041268 ATTAGGGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAA
Found at i:5041288 original size:21 final size:21
Alignment explanation
Indices: 5041264--5041309 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
5041254 TATTCGCATT
5041264 GCGAATTAGGGAAATCGCAAC
1 GCGAATTAGGGAAATCGCAAC
* *
5041285 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGGAAATCGCAAC
5041306 GCGA
1 GCGA
5041310 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGGAAATCGCAAC
Found at i:5041860 original size:20 final size:21
Alignment explanation
Indices: 5041835--5041874 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5041825 TTATTTGTTG
5041835 TTATTAA-TTATTTTATATTA
1 TTATTAACTTATTTTATATTA
*
5041855 TTATTAACTTTTTTTATATT
1 TTATTAACTTATTTTATATT
5041875 TATAATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATTAACTTATTTTATATTA
Found at i:5042778 original size:2 final size:2
Alignment explanation
Indices: 5042771--5042797 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5042761 AAGATTTAAA
5042771 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
5042798 CATGAAACGT
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:5044693 original size:2 final size:2
Alignment explanation
Indices: 5044686--5044712 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5044676 AAGAATATCA
5044686 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
5044713 ATAATTAAAT
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:5045131 original size:2 final size:2
Alignment explanation
Indices: 5045119--5045162 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
5045109 TTTTGAAGTT
5045119 TA TA T- 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
5045160 TA T
1 TA T
5045163 TAAAATTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.