Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007935.1 Hibiscus syriacus cultivar Beakdansim tig00110345_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: 1073174
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
File 4 of 6
Found at i:689868 original size:89 final size:89
Alignment explanation
Indices: 689425--690447 Score: 1530
Period size: 89 Copynumber: 11.6 Consensus size: 89
689415 TAAATGAGGT
* *
689425 TAATGG-AAGCATATTGGTAAAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
689488 AAATAAGCTTATGAGCTTATGGAA
66 AAATAAGCTTACGAGCTTATGGAA
* * *
689512 TAATGG-AAGTATATTTGTAAAATAAGTTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
689575 AAATAAGCTTACGAGCTTATGGAA
66 AAATAAGCTTACGAGCTTATGGAA
*
689599 TAATGG-AAGTATATTGGTAAAATAAGCTTACAAGCTTATGGAAT-AATGG-AAGTATATTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
689661 AAATAAGCTTACGAGCTTATGGAA
66 AAATAAGCTTACGAGCTTATGGAA
*
689685 TAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAT-AATGGTAAGTATATTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
689749 AAATAATCTTACGAGCTTATGGAA
66 AAATAAGCTTACGAGCTTATGGAA
* * * * * *
689773 TAAATGGTAAGTGTGTTGGTAAAATAGGCTTACGAGCTTTTGGAATAAATGGTAAGTATGTCGGT
1 T-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
*
689838 AAAATAGGCTTACGAGCTTATGGAA
65 AAAATAAGCTTACGAGCTTATGGAA
* * * *
689863 TAATGGTAAGTATATTGTTAAAATAGGCTTACGAGTTTATGAAATAAATGGTAAGTATATTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
689928 AAATAGGCTTACGAGCTTATGGAA
66 AAATAAGCTTACGAGCTTATGGAA
* * * *
689952 TAATGATAAGTATATTGGTAAAATAGGCTTACGAGCTTATGAAATAAATGGTAAGTATGTTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
690017 AAATAGGCTTACGAGCTTATGGAA
66 AAATAAGCTTACGAGCTTATGGAA
* * *
690041 TAATGGTAAGTATATTGGTAAAAT-AGACTTACAAGCTTATGAAATAAATCGTAAGTATATTGGT
1 TAATGGTAAGTATATTGGTAAAATAAG-CTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
690105 AAAATAAGCTTACGAGCTTATGGAA
65 AAAATAAGCTTACGAGCTTATGGAA
* *
690130 TAAAT-GTAAGTATGTTGGTAAAATAAGTTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
1 T-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
*
690194 AAAATAGGCTTACGAGCTTATGGAA
65 AAAATAAGCTTACGAGCTTATGGAA
* * * *
690219 TAATGATAAGTATATTGGTAAAATAGGCTTACGAGCTTATGAAATAAATGGTAAGTATGTTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
690284 AAATAGGCTTACGAGCTTATGGAA
66 AAATAAGCTTACGAGCTTATGGAA
* *
690308 TAATGGTAAGTATATTGGTAAAAT-AGACTTACAAGCTTATGGAATAAATCGTAAGTATATTGGT
1 TAATGGTAAGTATATTGGTAAAATAAG-CTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
690372 AAAATAAGCTTACGAGCTTATGGAA
65 AAAATAAGCTTACGAGCTTATGGAA
* * * *
690397 TAAAT-GTAAGTATGTTGGTAAAATAAGTTTACGAGTTTATGGTATAAATGG
1 T-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGG
690448 AAAATTTATT
Statistics
Matches: 864, Mismatches: 61, Indels: 20
0.91 0.06 0.02
Matches are distributed among these distances:
86 43 0.05
87 171 0.20
88 42 0.05
89 558 0.65
90 50 0.06
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.32
Consensus pattern (89 bp):
TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
AAATAAGCTTACGAGCTTATGGAA
Found at i:690877 original size:21 final size:21
Alignment explanation
Indices: 690853--690892 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
690843 TTTGGAATTT
**
690853 ACTGTAGTTGTGCATCGATGC
1 ACTGTAGCAGTGCATCGATGC
690874 ACTGTAGCAGTGCATCGAT
1 ACTGTAGCAGTGCATCGAT
690893 ACACATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (21 bp):
ACTGTAGCAGTGCATCGATGC
Found at i:695491 original size:58 final size:59
Alignment explanation
Indices: 695410--695965 Score: 435
Period size: 59 Copynumber: 9.5 Consensus size: 59
695400 ATGGCACCTT
*
695410 GTGTGCTAAAATGATAAGAAAATCATACTGAGTGTATAGATTTCCAAATGGAGCACTGA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCAAATGGAGCACTGA
* * *** * * *
695469 GTGTGCT-TAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGG-GCATTTTA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCAAAT-GGAGCA-CTGA
* *
695528 -TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTAA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCAAATGGAGCACTGA
* * *** * * *
695586 GTGTGC-AAAATGATAAGGAAATCACATTGAAAATATCA-ATTTCCCAATAGG-GCATTTTA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTAT-AGATTTCCAAAT-GGAGCA-CTGA
* *
695645 -TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCAAATGGAGCACTGA
* *** * * *
695703 GTGTGCT-AAATGATAAGGAAATCATATTGAAAATAT-GTATTTCCAGATTGG-GCAATTTA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAG-ATTTCCA-AATGGAGC-ACTGA
* * * *
695762 -TGTGCTACAATGGTAAGAAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCAAATGGAGCACTGA
* *** * * * *
695820 GTGTGCT-AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAGG-GCATTTTA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCAAAT-GGAGCA-CTGA
* * * * * * * *
695879 -TGTGCTAAAATGGTAAGGGAATCATACT-AATGGTATGGATTTCCAGAT-AACGTACTAA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGT-GTATAGATTTCCAAATGGA-GCACTGA
*
695937 GGGTGCTACAAA-GATAAGGAAATCATACT
1 GTGTGCTA-AAATGATAAGGAAATCATACT
695966 AACGGTATGG
Statistics
Matches: 390, Mismatches: 80, Indels: 54
0.74 0.15 0.10
Matches are distributed among these distances:
57 1 0.00
58 183 0.47
59 202 0.52
60 4 0.01
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.30
Consensus pattern (59 bp):
GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCAAATGGAGCACTGA
Found at i:695617 original size:117 final size:117
Alignment explanation
Indices: 695411--696013 Score: 825
Period size: 117 Copynumber: 5.1 Consensus size: 117
695401 TGGCACCTTG
* * *
695411 TGTGCTAAAATGATAAGAAAATCATACTGAGTGTATAGATTTCCAAATGGAGCACTGAGTGTGCT
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
*
695476 TAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
66 AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
* * *
695528 TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTAAGTGTGCA
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
* ** *
695593 AAATGATAAGGAAATCACATTGAAAATATCAATTTCCCAATAGGGCATTTTA
66 AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
695645 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
* * * *
695710 AAATGATAAGGAAATCATATTGAAAATATGTATTTCCAGATTGGGCAATTTA
66 AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
* *
695762 TGTGCTACAATGGTAAGAAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
*
695827 AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAGGGCATTTTA
66 AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
* * * * * * * *
695879 TGTGCTAAAATGGTAAGGGAATCATACT-AATGGTATGGATTTCCAGAT-AACGTACTAAGGGTG
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGT-GTATAGATTTCCATATGGA-GCACTGAGTGTG
* * ** * * *
695942 CTACAAAGATAAGGAAATCATACT-AACGGTATGGATTTTTCACATAGGGCATTTCA
64 CTA-AATGATAAGGAAATCATATTGAA-AATATGGA-TTTCCAAATAGGGCATTTTA
**
695998 ACTGCTAAAATGGTAA
1 TGTGCTAAAATGGTAA
696014 CAAAATTATA
Statistics
Matches: 438, Mismatches: 43, Indels: 8
0.90 0.09 0.02
Matches are distributed among these distances:
116 3 0.01
117 380 0.87
118 24 0.05
119 31 0.07
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (117 bp):
TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
Found at i:695904 original size:59 final size:58
Alignment explanation
Indices: 695411--695927 Score: 406
Period size: 58 Copynumber: 8.8 Consensus size: 58
695401 TGGCACCTTG
* *** * * * *
695411 TGTGCTAAAATGATAAGAAAATCATACTGAGTGTATAGATTTCCAAAT-GGAGCACTGA
1 TGTGCTAAAATGATAAGGAAATCATACTGAAAATATGGATTTCCAGATAGG-GCATTTA
* * *
695469 GTGTGCT-TAATGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
1 -TGTGCTAAAATGATAAGGAAATCATACTGAAAATATGGATTTCCAGATAGGGCA-TTTA
*** * * * *
695528 TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATAT-GGAGCACTAA
1 TGTGCTAAAATGATAAGGAAATCATACTGAAAATATGGATTTCCAGATAGG-GCATTTA
* * **
695586 GTGTGC-AAAATGATAAGGAAATCACATTGAAAATATCAATTTCCCA-ATAGGGCATTTTA
1 -TGTGCTAAAATGATAAGGAAATCATACTGAAAATATGGATTT-CCAGATAGGGCA-TTTA
* *** * * * *
695645 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATAT-GGAGCACTGA
1 TGTGCTAAAATGATAAGGAAATCATACTGAAAATATGGATTTCCAGATAGG-GCATTTA
* * *
695703 GTGTGCT-AAATGATAAGGAAATCATATTGAAAATATGTATTTCCAGATTGGGCAATTTA
1 -TGTGCTAAAATGATAAGGAAATCATACTGAAAATATGGATTTCCAGATAGGGC-ATTTA
* * * *** * * * *
695762 TGTGCTACAATGGTAAGAAAATCATACTGAGTGTATAGATTTCCATAT-GGAGCACTGA
1 TGTGCTAAAATGATAAGGAAATCATACTGAAAATATGGATTTCCAGATAGG-GCATTTA
*
695820 GTGTGCT-AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAGGGCATTTTA
1 -TGTGCTAAAATGATAAGGAAATCATACTGAAAATATGGATTTCCAGATAGGGCA-TTTA
* * **
695879 TGTGCTAAAATGGTAAGGGAATCATACT-AATGGTATGGATTTCCAGATA
1 TGTGCTAAAATGATAAGGAAATCATACTGAA-AATATGGATTTCCAGATA
695928 ACGTACTAAG
Statistics
Matches: 362, Mismatches: 75, Indels: 42
0.76 0.16 0.09
Matches are distributed among these distances:
58 182 0.50
59 180 0.50
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (58 bp):
TGTGCTAAAATGATAAGGAAATCATACTGAAAATATGGATTTCCAGATAGGGCATTTA
Found at i:696263 original size:44 final size:44
Alignment explanation
Indices: 696201--696959 Score: 1141
Period size: 44 Copynumber: 17.2 Consensus size: 44
696191 TAAATGAGGT
*
696201 TAATGG-AAGCATATTGGTAAAATAAGCTTACGAGCTTATGGAA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
* *
696244 TAATGGCAAGTATATTGGTAAAATAAGCTTACGAACTTATGGAA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
* *
696288 TAATGG-AAGTATATTTGTAAAATAAGTTTACGAGCTTATGGAA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
*
696331 TAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
**
696375 TAATGG-AAGTATATTGGTAAAATAAGAGTACGAGCTTATGGAA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
*
696418 TAATGG-AAGTATATTGGTAAAATAAGCTTACAAGCTTATGGAA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
*
696461 TAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
*
696505 TAATGGTAAGTATATTGGTAAAATAATCTTACGAGCTTATGGAA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
* * * *
696549 TAAATGGTAAGTGTGTTGGTAAAATAGGCTTACGAGCTTTTGGAA
1 T-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
* * *
696594 TAAATGGTAAGTATGTCGGTAAAATAGGCTTACGAGCTTATGGAA
1 T-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
* * *
696639 TAATGGTAAGTATATTGTTAAAATAGGCTTACGAGTTTATGGAA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
696683 TAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
1 T-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
* *
696728 TAATGATAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
* *
696772 TAAATGGTAAGTATGTTGGTAAAATAGGCTTACGAGCTTATGGAA
1 T-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
* **
696817 TAATGGTAAGTATATTGGTAAAATAGGCTTATAAGCTTATGGAA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
*
696861 TAAATCGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
1 T-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
* *
696906 TAAATGG-AAGTATATTGGTAAAATAAGTTTACGAGCTTATGGGA
1 T-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
696950 TAAATGGTAA
1 T-AATGGTAA
696960 ATTTATTGAT
Statistics
Matches: 664, Mismatches: 44, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
43 127 0.19
44 326 0.49
45 211 0.32
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (44 bp):
TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
Found at i:696644 original size:89 final size:89
Alignment explanation
Indices: 696201--696959 Score: 1158
Period size: 89 Copynumber: 8.6 Consensus size: 89
696191 TAAATGAGGT
* *
696201 TAATGG-AAGCATATTGGTAAAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
696264 AAATAAGCTTACGAACTTATGGAA
66 AAATAAGCTTACGAGCTTATGGAA
* * *
696288 TAATGG-AAGTATATTTGTAAAATAAGTTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
696351 AAATAAGCTTACGAGCTTATGGAA
66 AAATAAGCTTACGAGCTTATGGAA
**
696375 TAATGG-AAGTATATTGGTAAAATAAGAGTACGAGCTTATGGAAT-AATGG-AAGTATATTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
696437 AAATAAGCTTACAAGCTTATGGAA
66 AAATAAGCTTACGAGCTTATGGAA
*
696461 TAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAT-AATGGTAAGTATATTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
696525 AAATAATCTTACGAGCTTATGGAA
66 AAATAAGCTTACGAGCTTATGGAA
* * * * * *
696549 TAAATGGTAAGTGTGTTGGTAAAATAGGCTTACGAGCTTTTGGAATAAATGGTAAGTATGTCGGT
1 T-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
*
696614 AAAATAGGCTTACGAGCTTATGGAA
65 AAAATAAGCTTACGAGCTTATGGAA
* * *
696639 TAATGGTAAGTATATTGTTAAAATAGGCTTACGAGTTTATGGAATAAATGGTAAGTATATTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
696704 AAATAAGCTTACGAGCTTATGGAA
66 AAATAAGCTTACGAGCTTATGGAA
* * *
696728 TAATGATAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATAAATGGTAAGTATGTTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
696793 AAATAGGCTTACGAGCTTATGGAA
66 AAATAAGCTTACGAGCTTATGGAA
* ** *
696817 TAATGGTAAGTATATTGGTAAAATAGGCTTATAAGCTTATGGAATAAATCGTAAGTATATTGGTA
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
696882 AAATAAGCTTACGAGCTTATGGAA
66 AAATAAGCTTACGAGCTTATGGAA
* *
696906 TAAATGG-AAGTATATTGGTAAAATAAGTTTACGAGCTTATGGGATAAATGGTAA
1 T-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAA
696960 ATTTATTGAT
Statistics
Matches: 621, Mismatches: 46, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
86 42 0.07
87 170 0.27
88 36 0.06
89 328 0.53
90 45 0.07
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (89 bp):
TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
AAATAAGCTTACGAGCTTATGGAA
Found at i:697925 original size:23 final size:23
Alignment explanation
Indices: 697899--697949 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
697889 GGTAAGTAAG
697899 AGCTAG-GTACACTCAAGCTAGCT-
1 AGCTAGTG-ACACTCAAGCTA-CTC
*
697922 AGCTAGTGACACTCTAGCTACTC
1 AGCTAGTGACACTCAAGCTACTC
697945 AGCTA
1 AGCTA
697950 CCATCTCAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 2 0.08
23 22 0.88
24 1 0.04
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (23 bp):
AGCTAGTGACACTCAAGCTACTC
Found at i:699242 original size:37 final size:36
Alignment explanation
Indices: 699169--699243 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
699159 TTACGCATTA
* *
699169 AAAAAAGGTTATTATTTGATCATTTATAATTGAATT
1 AAAAAAGGTTATTATTTAATCATTTAAAATTGAATT
* *
699205 AAAAAATGTTATTTATTTAATC-TTTAAAATATTAATT
1 AAAAAAGGTTA-TTATTTAATCATTTAAAAT-TGAATT
699242 AA
1 AA
699244 GATAAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 17 0.52
37 16 0.48
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (36 bp):
AAAAAAGGTTATTATTTAATCATTTAAAATTGAATT
Found at i:699267 original size:12 final size:12
Alignment explanation
Indices: 699228--699275 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
699218 TATTTAATCT
699228 TTAAAATATTAA
1 TTAAAATATTAA
*
699240 TTAAGATA--AA
1 TTAAAATATTAA
699250 --AAAATATTAA
1 TTAAAATATTAA
699260 TTAAAATATTAA
1 TTAAAATATTAA
699272 TTAA
1 TTAA
699276 GATGACCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
8 5 0.17
10 4 0.13
12 21 0.70
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (12 bp):
TTAAAATATTAA
Found at i:699463 original size:3 final size:3
Alignment explanation
Indices: 699455--699533 Score: 140
Period size: 3 Copynumber: 26.3 Consensus size: 3
699445 ATCCTGCTCT
699455 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
699503 ATA ATA ATA ATA ATA ATA ATA CTA AGA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
699534 GAAGAAGAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:701484 original size:3 final size:3
Alignment explanation
Indices: 701478--701513 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
701468 TTTGAGCAGC
701478 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
701514 GCTGAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:703282 original size:15 final size:15
Alignment explanation
Indices: 703257--703308 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
703247 GATATTTAGT
*
703257 GGGCGGGCAGATGCG
1 GGGCGGACAGATGCG
*
703272 AGGCGGACAGATGCG
1 GGGCGGACAGATGCG
*
703287 GGGCGGCCAGATGCG
1 GGGCGGACAGATGCG
703302 GGGCGGA
1 GGGCGGA
703309 TAAGGTCTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.17, C:0.21, G:0.56, T:0.06
Consensus pattern (15 bp):
GGGCGGACAGATGCG
Found at i:704904 original size:31 final size:31
Alignment explanation
Indices: 704866--704930 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
704856 TCAAAGAACA
* * *
704866 TAAGATTTGGTCATTTTTGTTTCATTTTAAT
1 TAAGATTTAGTCACTTTTATTTCATTTTAAT
704897 TAAGATTTAGTCACTTTTATTTCATTTTAAT
1 TAAGATTTAGTCACTTTTATTTCATTTTAAT
704928 TAA
1 TAA
704931 TATGAGGTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.28, C:0.08, G:0.09, T:0.55
Consensus pattern (31 bp):
TAAGATTTAGTCACTTTTATTTCATTTTAAT
Found at i:704941 original size:31 final size:32
Alignment explanation
Indices: 704866--704942 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
704856 TCAAAGAACA
* * *
704866 TAAGATT-TGGTCATTTTTGTTTCATTTTAAT
1 TAAGATTGAGGTCACTTTTATTTCATTTTAAT
*
704897 TAAGATTTA-GTCACTTTTATTTCATTTTAAT
1 TAAGATTGAGGTCACTTTTATTTCATTTTAAT
*
704928 TAATA-TGAGGTCACT
1 TAAGATTGAGGTCACT
704943 AAAGGTTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
30 2 0.05
31 37 0.95
ACGTcount: A:0.27, C:0.09, G:0.12, T:0.52
Consensus pattern (32 bp):
TAAGATTGAGGTCACTTTTATTTCATTTTAAT
Found at i:705376 original size:7 final size:7
Alignment explanation
Indices: 705364--705427 Score: 114
Period size: 7 Copynumber: 9.4 Consensus size: 7
705354 ATCTTCTTCG
705364 TCTTCAT
1 TCTTCAT
705371 TCTTCAT
1 TCTTCAT
705378 TCTTCAT
1 TCTTCAT
705385 TCTTCAT
1 TCTTCAT
705392 TCTTCA-
1 TCTTCAT
705398 TCTTCAT
1 TCTTCAT
705405 TCTTCAT
1 TCTTCAT
705412 TCTTCA-
1 TCTTCAT
705418 TCTTCAT
1 TCTTCAT
705425 TCT
1 TCT
705428 AAGGTAAGAA
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.22
7 43 0.78
ACGTcount: A:0.14, C:0.30, G:0.00, T:0.56
Consensus pattern (7 bp):
TCTTCAT
Found at i:705382 original size:20 final size:20
Alignment explanation
Indices: 705364--705427 Score: 119
Period size: 20 Copynumber: 3.1 Consensus size: 20
705354 ATCTTCTTCG
705364 TCTTCATTCTTCATTCTTCAT
1 TCTTCATTCTTCA-TCTTCAT
705385 TCTTCATTCTTCATCTTCAT
1 TCTTCATTCTTCATCTTCAT
705405 TCTTCATTCTTCATCTTCAT
1 TCTTCATTCTTCATCTTCAT
705425 TCT
1 TCT
705428 AAGGTAAGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
20 30 0.70
21 13 0.30
ACGTcount: A:0.14, C:0.30, G:0.00, T:0.56
Consensus pattern (20 bp):
TCTTCATTCTTCATCTTCAT
Found at i:707868 original size:13 final size:13
Alignment explanation
Indices: 707849--707881 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
707839 AAATATATCT
707849 TAATGATTTTATAA
1 TAATGATTTTA-AA
707863 -AATGATTTTAAA
1 TAATGATTTTAAA
707875 TAATGAT
1 TAATGAT
707882 ATTTTTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 16 0.89
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (13 bp):
TAATGATTTTAAA
Found at i:707983 original size:20 final size:20
Alignment explanation
Indices: 707958--708013 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
707948 TTTGGTTCGC
*
707958 GGAATGTAAGATTACTGGTG
1 GGAATGTAAGATTACCGGTG
707978 GGAATGTAAGATTACCGGTG
1 GGAATGTAAGATTACCGGTG
*
707998 GGAATATAAGATTACC
1 GGAATGTAAGATTACC
708014 AGGGAATAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (20 bp):
GGAATGTAAGATTACCGGTG
Found at i:708020 original size:18 final size:19
Alignment explanation
Indices: 707958--708021 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
707948 TTTGGTTCGC
* * *
707958 GGAATGTAAGATTACTGGTG
1 GGAATATAAGATTAC-CGAG
* *
707978 GGAATGTAAGATTACCGGTG
1 GGAATATAAGATTACC-GAG
707998 GGAATATAAGATTACC-AG
1 GGAATATAAGATTACCGAG
708016 GGAATA
1 GGAATA
708022 AGATTACTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
18 7 0.17
20 33 0.82
ACGTcount: A:0.36, C:0.08, G:0.31, T:0.25
Consensus pattern (19 bp):
GGAATATAAGATTACCGAG
Found at i:708243 original size:37 final size:37
Alignment explanation
Indices: 708170--708244 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
708160 AGTTGGAAAT
*
708170 ATTTATATATTTTCTTTAAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
* *
708207 ATTTATATAATTTT-TTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAAATT-AAAATCATAAA
708244 A
1 A
708245 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 24 0.73
38 9 0.27
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
Found at i:719799 original size:65 final size:65
Alignment explanation
Indices: 719691--719847 Score: 262
Period size: 65 Copynumber: 2.4 Consensus size: 65
719681 ATTTAATTTT
* *
719691 GGGCATGGACTAGTTGTC-AGAGCATGATGCGAGCTTGAAATGTAAACTTAGAAGGCTTAAACTT
1 GGGCATGGATTGGTTGTCGA-AGCATGATGCGAGCTTGAAATGTAAACTTAGAAGGCTTAAACTT
719755 A
65 A
*
719756 GGGCATGGATTGGTTGTCGAAGCATGATGCGAGCTTGAGATGTAAACTTAGAAGGCTTAAACTTA
1 GGGCATGGATTGGTTGTCGAAGCATGATGCGAGCTTGAAATGTAAACTTAGAAGGCTTAAACTTA
*
719821 GGGCATGGATTGGTTGTCGGAGCATGA
1 GGGCATGGATTGGTTGTCGAAGCATGA
719848 GTCCTTGAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
65 86 0.99
66 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.27
Consensus pattern (65 bp):
GGGCATGGATTGGTTGTCGAAGCATGATGCGAGCTTGAAATGTAAACTTAGAAGGCTTAAACTTA
Found at i:722745 original size:13 final size:13
Alignment explanation
Indices: 722729--722770 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
722719 AATCCGTAAA
722729 TCATAATAAATTC
1 TCATAATAAATTC
722742 TCATAA-AAA---
1 TCATAATAAATTC
722751 TCATAATAAATTC
1 TCATAATAAATTC
722764 TCATAAT
1 TCATAAT
722771 GAAGTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
9 6 0.24
10 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (13 bp):
TCATAATAAATTC
Found at i:722751 original size:22 final size:22
Alignment explanation
Indices: 722726--722769 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
722716 TCAAATCCGT
722726 AAATCATAATAAATTCTCATAA
1 AAATCATAATAAATTCTCATAA
722748 AAATCATAATAAATTCTCATAA
1 AAATCATAATAAATTCTCATAA
722770 TGAAGTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (22 bp):
AAATCATAATAAATTCTCATAA
Found at i:723012 original size:3 final size:3
Alignment explanation
Indices: 723004--723044 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
722994 AATCATTTTA
723004 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
723045 AATAATAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:723451 original size:18 final size:17
Alignment explanation
Indices: 723421--723456 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
723411 CAACAGACAC
*
723421 GTCACCAGTCGCCCCTA
1 GTCACCAGCCGCCCCTA
723438 GTCATCCAGCCGCCCCTA
1 GTCA-CCAGCCGCCCCTA
723456 G
1 G
723457 GTGAGTCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.17, C:0.47, G:0.19, T:0.17
Consensus pattern (17 bp):
GTCACCAGCCGCCCCTA
Found at i:736575 original size:85 final size:84
Alignment explanation
Indices: 736470--737110 Score: 757
Period size: 85 Copynumber: 7.5 Consensus size: 84
736460 CTCAACAGTT
* * * *
736470 TTTTGTTGACAGATAGCCCTTCTCTCCTTGAGCTATGCTATAAATTTGACATGCCTTTGACCTGA
1 TTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGA
*
736535 ATGTAATCAAACTCGAAGG
66 ATGTAATCGAACTCGAAGG
* *
736554 TTTTGGTTGACAGATAGCCCTTCCCGCCTTGAGCTATGCTGCAAATTTGATATGCCTTTGAGCTG
1 TTTT-GTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTG
**
736619 AATAAAATCGAACTCGAAGG
65 AATGTAATCGAACTCGAAGG
* * * * * * *
736639 TCTTTATTGACAGATAACTCTTCTAGGCTTGAGTTATGCTGTAAATTTGATATGTCC-ATGAGCT
1 T-TTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATG-CCTTTGAGCT
*
736703 GAATGTAATTGAACTCGAAGG
64 GAATGTAATCGAACTCGAAGG
* *
736724 TTTTGGTT-AGCAGATAGCCCTTCTCGCCTTGAGCTATGTTGTAAATTAGATATGCCCTTTGAGC
1 TTTT-GTTGA-CAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATG-CCTTTGAGC
*
736788 TGAATGTAATCGAACTCAAAGG
63 TGAATGTAATCGAACTCGAAGG
*** * * * * * *
736810 TCTTTACCGACAGATAGCCCTTCTCACCTTCAGTTATGTTGTAAATTTGATATGTCTTTGAGTTG
1 T-TTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTG
736875 AATGTAATCGAACTCGAAGG
65 AATGTAATCGAACTCGAAGG
* * * * *
736895 TCTTTGTTAACAAATAACCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATGTCTTTGAGCTG
1 T-TTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTG
736960 AATGTAATCGAACTCGAAGG
65 AATGTAATCGAACTCGAAGG
* * * * * *
736980 TTTT-TCCTGACAAATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTGATATACCTTTGAGTT
1 TTTTGT--TGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCT
*
737044 GAATGTAATCGAACTCAAAGG
64 GAATGTAATCGAACTCGAAGG
* * * *
737065 TCTTGGTTAACAGATAGCCCTTTTCGCCTTGATCTATGCTGTAAAT
1 T-TTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAAT
737111 AGTTCCTTTA
Statistics
Matches: 474, Mismatches: 71, Indels: 23
0.83 0.12 0.04
Matches are distributed among these distances:
83 1 0.00
84 11 0.02
85 384 0.81
86 73 0.15
87 5 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (84 bp):
TTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGA
ATGTAATCGAACTCGAAGG
Found at i:736897 original size:256 final size:256
Alignment explanation
Indices: 736476--737068 Score: 787
Period size: 256 Copynumber: 2.3 Consensus size: 256
736466 AGTTTTTTGT
* * * * *
736476 TGACAGATAGCCCTTCTCTCCTTGAGCTATGCTATAAATTTGACATGCCTTTGACCTGAATGTAA
1 TGACAGATAGCCCTTCTCGCCTTGAGCTATGTTGTAAATTTGATATGCCTTTGAGCTGAATGTAA
* * *** * *
736541 TCAAACTCGAAGGT-TTTGGTTGACAGATAGCCCTTCCCGCCTTGAGCTATGCTGCAAATTTGAT
66 TCGAACTCAAAGGTCTTTGACCGACAGATAGCCCTTCCCACCTTCAGCTATGCTGCAAATTTGAT
* * * *
736605 ATGCCTTTGAGCTGAATAAAATCGAACTCGAAGGTCTTTATTGACAGATAACTCTTCTAGGCTTG
131 ATGCCTTTGAGCTGAATAAAATCGAACTCGAAGGTCTTTATTAACAAATAACCCTTCTAGCCTTG
* * * *
736670 AGTTATGCTGTAAATTTGATATGTCCATGAGCTGAATGTAATTGAACTCGAAGGTTTTG-G
196 AGCTATACTGTAAATTTGATATGTCCATGAGCTGAATGTAATCGAACTCGAAGGTTTTGCC
* *
736730 TTAGCAGATAGCCCTTCTCGCCTTGAGCTATGTTGTAAATTAGATATGCCCTTTGAGCTGAATGT
1 TGA-CAGATAGCCCTTCTCGCCTTGAGCTATGTTGTAAATTTGATATG-CCTTTGAGCTGAATGT
* * * *
736795 AATCGAACTCAAAGGTCTTT-ACCGACAGATAGCCCTTCTCACCTTCAGTTATGTTGTAAATTTG
64 AATCGAACTCAAAGGTCTTTGACCGACAGATAGCCCTTCCCACCTTCAGCTATGCTGCAAATTTG
* * ** * *
736859 ATATGTCTTTGAGTTGAATGTAATCGAACTCGAAGGTCTTTGTTAACAAATAACCCTTCTCGCCT
129 ATATGCCTTTGAGCTGAATAAAATCGAACTCGAAGGTCTTTATTAACAAATAACCCTTCTAGCCT
** *
736924 TGAGCTATACTGTAAATTTGATATGTCTTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTCC
194 TGAGCTATACTGTAAATTTGATATGTCCATGAGCTGAATGTAATCGAACTCGAAGGTTTTGCC
* * * * *
736987 TGACAAATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTGATATACCTTTGAGTTGAATGTAA
1 TGACAGATAGCCCTTCTCGCCTTGAGCTATGTTGTAAATTTGATATGCCTTTGAGCTGAATGTAA
737052 TCGAACTCAAAGGTCTT
66 TCGAACTCAAAGGTCTT
737069 GGTTAACAGA
Statistics
Matches: 293, Mismatches: 42, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
254 2 0.01
255 73 0.25
256 213 0.73
257 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (256 bp):
TGACAGATAGCCCTTCTCGCCTTGAGCTATGTTGTAAATTTGATATGCCTTTGAGCTGAATGTAA
TCGAACTCAAAGGTCTTTGACCGACAGATAGCCCTTCCCACCTTCAGCTATGCTGCAAATTTGAT
ATGCCTTTGAGCTGAATAAAATCGAACTCGAAGGTCTTTATTAACAAATAACCCTTCTAGCCTTG
AGCTATACTGTAAATTTGATATGTCCATGAGCTGAATGTAATCGAACTCGAAGGTTTTGCC
Found at i:736948 original size:341 final size:341
Alignment explanation
Indices: 736477--737110 Score: 903
Period size: 341 Copynumber: 1.9 Consensus size: 341
736467 GTTTTTTGTT
* *
736477 GACAGATAGCCCTTCTCTCCTTGAGCTATGCTATAAATTTGACATGCCTTTGACCTGAATGTAAT
1 GACAGATAGCCCTTCTCACCTTCAGCTATGCTATAAATTTGACATGCCTTTGACCTGAATGTAAT
* * * *
736542 CAAACTCGAAGGTTTTGGTTGACAGATAGCCCTTCCCGCCTTGAGCTATGCTGCAAATTTGATAT
66 CAAACTCGAAGGTTTTGGTTAACAAATAACCCTTCCCGCCTTGAGCTATACTGCAAATTTGATAT
* * * *
736607 GCCTTTGAGCTGAATAAAATCGAACTCGAAGGTCTTTATTGACAGATAACTCTTCTAGGCTTGAG
131 GCCTTTGAGCTGAATAAAATCGAACTCGAAGGTCTTTACTGACAAATAACCCTTCTAGCCTTGAG
* * * * *
736672 TTATGCTGTAAATTTGATATGTCC-ATGAGCTGAATGTAATTGAACTCGAAGGTTTTGGTTAGCA
196 TTATGCTGTAAATTTGATAT-ACCTATGAGCTGAATGTAATCGAACTCAAAGGTCTTGGTTAACA
*
736736 GATAGCCCTTCTCGCCTTGAGCTATGTTGTAAATTAGATATGCCCTTTGAGCTGAATGTAATCGA
260 GATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTAGATATGCCCTTTGAGCTGAATGTAATCGA
736801 ACTCAAAGGTCTTTACC
325 ACTCAAAGGTCTTTACC
* * * * * **
736818 GACAGATAGCCCTTCTCACCTTCAGTTATGTTGTAAATTTGATATGTCTTTGAGTTGAATGTAAT
1 GACAGATAGCCCTTCTCACCTTCAGCTATGCTATAAATTTGACATGCCTTTGACCTGAATGTAAT
* * *
736883 CGAACTCGAAGGTCTTT-GTTAACAAATAACCCTTCTCGCCTTGAGCTATACTGTAAATTTGATA
66 CAAACTCGAAGGT-TTTGGTTAACAAATAACCCTTCCCGCCTTGAGCTATACTGCAAATTTGATA
* ** * * *
736947 TGTCTTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTCCTGACAAATAACCCTTCTCGCCTTGA
130 TGCCTTTGAGCTGAATAAAATCGAACTCGAAGGTCTTTACTGACAAATAACCCTTCTAGCCTTGA
* * *
737012 GTTATGTTGTAAATTTGATATACCTTTGAGTTGAATGTAATCGAACTCAAAGGTCTTGGTTAACA
195 GTTATGCTGTAAATTTGATATACCTATGAGCTGAATGTAATCGAACTCAAAGGTCTTGGTTAACA
* *
737077 GATAGCCCTTTTCGCCTTGATCTATGCTGTAAAT
260 GATAGCCCTTCTCGCCTTGAGCTATGCTGTAAAT
737111 AGTTCCTTTA
Statistics
Matches: 254, Mismatches: 37, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
340 2 0.01
341 249 0.98
342 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (341 bp):
GACAGATAGCCCTTCTCACCTTCAGCTATGCTATAAATTTGACATGCCTTTGACCTGAATGTAAT
CAAACTCGAAGGTTTTGGTTAACAAATAACCCTTCCCGCCTTGAGCTATACTGCAAATTTGATAT
GCCTTTGAGCTGAATAAAATCGAACTCGAAGGTCTTTACTGACAAATAACCCTTCTAGCCTTGAG
TTATGCTGTAAATTTGATATACCTATGAGCTGAATGTAATCGAACTCAAAGGTCTTGGTTAACAG
ATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTAGATATGCCCTTTGAGCTGAATGTAATCGAA
CTCAAAGGTCTTTACC
Found at i:737281 original size:86 final size:86
Alignment explanation
Indices: 737174--737382 Score: 301
Period size: 86 Copynumber: 2.4 Consensus size: 86
737164 TCTTTAAATA
** * * * * *
737174 ACTCCCCTTCACATGAAAGCCAAGTGGTATATTCTTCATGTGGTTCCCCTTCGCGGGTCTGAACC
1 ACTCCCCTTCACGGGAAAGCCATGTGGTATATTCTTCAGGTGGTTCCCCTTAGCCGGTCTAAACC
* *
737239 AGGTGAGATGATCGTTGGATG
66 AAGTGAGATAATCGTTGGATG
* *
737260 ACTCCCCTTCATGGGAAAGCCATGTGGTATATTCCTCAGGTGGTTCCCCTTAGCCGGTCTAAACC
1 ACTCCCCTTCACGGGAAAGCCATGTGGTATATTCTTCAGGTGGTTCCCCTTAGCCGGTCTAAACC
* *
737325 AAGTGTGATAATCTTTGGATG
66 AAGTGAGATAATCGTTGGATG
737346 ACTCCCCTTCACGGGAAAGCCATGTGGTATATTCTTC
1 ACTCCCCTTCACGGGAAAGCCATGTGGTATATTCTTC
737383 GAGTGAATTC
Statistics
Matches: 108, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 108 1.00
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (86 bp):
ACTCCCCTTCACGGGAAAGCCATGTGGTATATTCTTCAGGTGGTTCCCCTTAGCCGGTCTAAACC
AAGTGAGATAATCGTTGGATG
Found at i:738601 original size:99 final size:100
Alignment explanation
Indices: 738455--738634 Score: 274
Period size: 99 Copynumber: 1.8 Consensus size: 100
738445 TCAAGTTACT
* * *
738455 TGAATCTTATCCATAAAGCCAGGGCGTTTAACCAAATGCTCTAGAGGGACGGTTCAAGCTTTA-T
1 TGAATCTGATCCATAAAGCCAGGGCGTTTAACCAAATGCTCTAGAGGGACAGCTCAAGCTTTATT
738519 -TATATAGATATTATAATCGCCTTTATCAGGGAAGC
66 GTATATA-ATATTATAATCGCCTTTATCAGGGAAGC
*** *
738554 TGAATCTGATCCATAAAGTTGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTCAAGCTTTATT
1 TGAATCTGATCCATAAAGCCAGGGCGTTTAACCAAATGCTCTAGAGGGACAGCTCAAGCTTTATT
738619 GTATATAATATTATAA
66 GTATATAATATTATAA
738635 CTTGGGTATA
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
99 56 0.78
100 10 0.14
101 6 0.08
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (100 bp):
TGAATCTGATCCATAAAGCCAGGGCGTTTAACCAAATGCTCTAGAGGGACAGCTCAAGCTTTATT
GTATATAATATTATAATCGCCTTTATCAGGGAAGC
Found at i:742549 original size:15 final size:14
Alignment explanation
Indices: 742521--742562 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 14
742511 AGGGAGGAGG
742521 AAAAAATAATAATAA
1 AAAAAATAA-AATAA
742536 AAAAACATAAAATAA
1 AAAAA-ATAAAATAA
742551 AACAAAATAAAA
1 AA-AAAATAAAA
742563 AATAATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAAAATAAAATAA
Found at i:742998 original size:3 final size:3
Alignment explanation
Indices: 742992--743063 Score: 87
Period size: 3 Copynumber: 24.0 Consensus size: 3
742982 ACAAAAAAAG
*
742992 TAA TAA TAA TAA TAA TAA TAA TAA TACA -AA AAA TAA TAA -AA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA T-AA
743037 TAA -AA TATA TAA TAA TAA TAA TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA
743064 AAGGGCTAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 12
0.83 0.01 0.16
Matches are distributed among these distances:
2 5 0.08
3 50 0.81
4 7 0.11
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:749695 original size:36 final size:35
Alignment explanation
Indices: 749649--749749 Score: 105
Period size: 36 Copynumber: 2.8 Consensus size: 35
749639 TGTAAGGTTA
* *
749649 GTTGTATTTATGTCTTTAATGTAATGTATTAT-ATTT
1 GTTGTTTTTAT-TCTTTAATGTAATGT-TTATGATTC
* * *
749685 GTTGTTTTTATTTTCTTAATGTAATGTTAATGGTTC
1 GTTGTTTTTATTCT-TTAATGTAATGTTTATGATTC
*
749721 GTTGTTTTTATCTCCTTAATGTAATGTTT
1 GTTGTTTTTAT-TCTTTAATGTAATGTTT
749750 TATGGTTCAA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
35 5 0.09
36 48 0.89
37 1 0.02
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.58
Consensus pattern (35 bp):
GTTGTTTTTATTCTTTAATGTAATGTTTATGATTC
Found at i:749772 original size:19 final size:20
Alignment explanation
Indices: 749738--749776 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
749728 TTATCTCCTT
749738 AATGTAATGTTTTATGGTTC
1 AATGTAATGTTTTATGGTTC
749758 AATGTAATG-TTTATGGTTC
1 AATGTAATGTTTTATGGTTC
749777 GTCGTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.49
Consensus pattern (20 bp):
AATGTAATGTTTTATGGTTC
Found at i:754379 original size:24 final size:24
Alignment explanation
Indices: 754352--754407 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
754342 ATATTCTTTC
754352 GCTTCAATTGAGCTCAAATTTTAA
1 GCTTCAATTGAGCTCAAATTTTAA
* *
754376 GCTTTAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAA
754400 GCTTCAAT
1 GCTTCAAT
754408 CAAACTTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAATTTTAA
Found at i:754667 original size:30 final size:30
Alignment explanation
Indices: 754631--754696 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
754621 AGTGAACCGG
* *
754631 CGGTTCAAACCGGTTTTGCCGGTTTTCAGC
1 CGGTTCAAACCGGTTTTCCCGATTTTCAGC
**
754661 CGGTTCACCCCGGTTTTCCCGATTTTCAGC
1 CGGTTCAAACCGGTTTTCCCGATTTTCAGC
754691 CGGTTC
1 CGGTTC
754697 TTCCAGTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.11, C:0.32, G:0.24, T:0.33
Consensus pattern (30 bp):
CGGTTCAAACCGGTTTTCCCGATTTTCAGC
Found at i:755047 original size:18 final size:17
Alignment explanation
Indices: 755024--755069 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
755014 TGTTTCTGAG
755024 GAAATTGGAATCTGTGAA
1 GAAATTGGAATCTGT-AA
* *
755042 GAAATTGAAATCTGTTA
1 GAAATTGGAATCTGTAA
*
755059 GGAATTGGAAT
1 GAAATTGGAAT
755070 TCAATTTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.30
Consensus pattern (17 bp):
GAAATTGGAATCTGTAA
Found at i:755992 original size:258 final size:260
Alignment explanation
Indices: 755426--756045 Score: 918
Period size: 258 Copynumber: 2.4 Consensus size: 260
755416 CTCCATCCGA
755426 GACCCGACCCG-ACTAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAAT---C
1 GACCCGACCCGAAC-AAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAATCCGC
755487 CGACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAATATAT
65 CGACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAATATAT
* *
755552 ATATAGAGAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTTTTTG
130 ATATA-AGAGAGGGGTATTATTGCAATTATTCCTAAATATATAAGGTAAAATTATATATTATTT-
* * *
755617 AGTGGGGTCGGGTATTTTTCACCCTAAACTCAAACCCGACCCGACCCGAATATCACACTTAAAAA
193 -GTCGGGTCGGGTATTTTTCACCCTAAACCCAAACCCGACCCGACCCAAATATCACACTTAAAAA
*
755682 ACCC
257 AACC
* *
755686 GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCAACCCGAATATATGAATTAGAAATCCGGC
1 GACCCGACCCGAACAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAATCC-GC
*
755751 CAGACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAA-AT-
65 C-GACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAATATA
*
755814 TATAT-ATAGAGGGGTATTATTGCAATTATTCCTAAATATATAAGGTAAAATTATATA-TATTT-
129 TATATAAGAGAGGGGTATTATTGCAATTATTCCTAAATATATAAGGTAAAATTATATATTATTTG
* *
755876 TCGGGTCGGGTATTTTTCACCCTAAACCCCGAACTCGACCCGACCCAAATATCACACTTAAAAAA
194 TCGGGTCGGGTATTTTTCACCCTAAA-CCCAAACCCGACCCGACCCAAATATCACACTTAAAAAA
755941 ACC
258 ACC
* * ** * *
755944 GACCCGACCCGAACAAAATAAAATTTTACCCGACCCGTTCAGAATATATGAATTAGAAACCCGAC
1 GACCCGACCCGAACAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAATCCG--
*
756009 CCGACCCAAAATAATAAAAAAA-TATTTTTATTCAATA
64 CCGACCCGAAATAATAAAAAAATTATTTTTATTCAATA
756046 TATAAATAAG
Statistics
Matches: 330, Mismatches: 21, Indels: 21
0.89 0.06 0.06
Matches are distributed among these distances:
257 41 0.12
258 109 0.33
259 2 0.01
260 60 0.18
261 51 0.15
263 5 0.02
264 4 0.01
265 58 0.18
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.26
Consensus pattern (260 bp):
GACCCGACCCGAACAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAATCCGCC
GACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAATATATA
TATAAGAGAGGGGTATTATTGCAATTATTCCTAAATATATAAGGTAAAATTATATATTATTTGTC
GGGTCGGGTATTTTTCACCCTAAACCCAAACCCGACCCGACCCAAATATCACACTTAAAAAAACC
Found at i:757454 original size:21 final size:21
Alignment explanation
Indices: 757430--757482 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
757420 ACACTTAGGG
757430 AACCGATTCCCTATGAGAGGA
1 AACCGATTCCCTATGAGAGGA
*
757451 AACCGATTCCCTATGAGAGGG
1 AACCGATTCCCTATGAGAGGA
*
757472 TACCGATTCCC
1 AACCGATTCCC
757483 CCACGCTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (21 bp):
AACCGATTCCCTATGAGAGGA
Found at i:757693 original size:13 final size:13
Alignment explanation
Indices: 757675--757724 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
757665 CGATAATTTC
757675 AAATACTTAATTG
1 AAATACTTAATTG
757688 AAATACTTAATT-
1 AAATACTTAATTG
* *
757700 AACTCAACATAATTG
1 AAAT--ACTTAATTG
757715 AAATACTTAA
1 AAATACTTAA
757725 ATACTTCCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 3 0.10
13 17 0.57
14 7 0.23
15 3 0.10
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.34
Consensus pattern (13 bp):
AAATACTTAATTG
Found at i:757806 original size:32 final size:33
Alignment explanation
Indices: 757710--757808 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
757700 AACTCAACAT
* * *
757710 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
757743 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
757776 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
757808 A
1 A
757809 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:757827 original size:21 final size:21
Alignment explanation
Indices: 757803--757842 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
757793 ACTTCAAGTT
757803 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
757824 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
757843 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:758380 original size:33 final size:33
Alignment explanation
Indices: 758343--758410 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
758333 ATTTATGTTA
758343 CTTGGACGTCTACTAGATGATTCCGCATTCATT
1 CTTGGACGTCTACTAGATGATTCCGCATTCATT
758376 CTTGGACGTCTACTAGATGATTCCGCATTCATT
1 CTTGGACGTCTACTAGATGATTCCGCATTCATT
758409 CT
1 CT
758411 CATTTAATCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.37
Consensus pattern (33 bp):
CTTGGACGTCTACTAGATGATTCCGCATTCATT
Found at i:760352 original size:27 final size:28
Alignment explanation
Indices: 760315--760372 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
760305 AAAAAACCGG
*
760315 TTTTTCTC-AAATCCGAT-TTCGGATATT
1 TTTTTCGCAAAATCCGATATTCGGAT-TT
*
760342 TTTTTCGCAAAATCGGATATTCGGATTT
1 TTTTTCGCAAAATCCGATATTCGGATTT
760370 TTT
1 TTT
760373 GTGCACCCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 7 0.26
28 13 0.48
29 7 0.26
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.48
Consensus pattern (28 bp):
TTTTTCGCAAAATCCGATATTCGGATTT
Found at i:762201 original size:2 final size:2
Alignment explanation
Indices: 762194--762225 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
762184 GTTTCATAAA
762194 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
762226 TTTATTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:763356 original size:16 final size:16
Alignment explanation
Indices: 763318--763384 Score: 73
Period size: 16 Copynumber: 4.2 Consensus size: 16
763308 TATTACCCGA
763318 CTGTTTTCAACCTGAC
1 CTGTTTTCAACCTGAC
**
763334 CCATTTTCAACCTGAC
1 CTGTTTTCAACCTGAC
* **
763350 ATGTTTT-AGTCTGAC
1 CTGTTTTCAACCTGAC
*
763365 CTGTTTTTAACCTGAC
1 CTGTTTTCAACCTGAC
763381 CTGT
1 CTGT
763385 AAATGATCCG
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
15 12 0.30
16 28 0.70
ACGTcount: A:0.19, C:0.27, G:0.13, T:0.40
Consensus pattern (16 bp):
CTGTTTTCAACCTGAC
Found at i:763664 original size:14 final size:14
Alignment explanation
Indices: 763642--763688 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
763632 TGCAAAGGAA
*
763642 AATTAATATAGTTT
1 AATTTATATAGTTT
763656 AATTTATATA----
1 AATTTATATAGTTT
763666 AA-TTATATAGTTT
1 AATTTATATAGTTT
763679 AATTTATATA
1 AATTTATATA
763689 AAGAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:763675 original size:23 final size:24
Alignment explanation
Indices: 763641--763690 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
763631 ATGCAAAGGA
763641 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
763665 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
763688 AAA
1 AAA
763691 GAAAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:764853 original size:19 final size:20
Alignment explanation
Indices: 764831--764868 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
764821 GAATGTAGGG
764831 AAATTGGG-AATTTAGAGGA
1 AAATTGGGAAATTTAGAGGA
764850 AAATTGGGAAATTTAGAGG
1 AAATTGGGAAATTTAGAGG
764869 GAATAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (20 bp):
AAATTGGGAAATTTAGAGGA
Found at i:764884 original size:46 final size:46
Alignment explanation
Indices: 764786--764886 Score: 111
Period size: 46 Copynumber: 2.2 Consensus size: 46
764776 TTTTGATTTT
* *
764786 ATTTGGGAATTTAGAGAGAAATTAGGAAATTTTGAGAATGTAGGGAA
1 ATTTGGGAATTTAGAGAGAAATTAGGAAATTTAGAGAA-GTAGGAAA
*
764833 A-TTGGGAATTTAGAG-GAAAATTGGGAAATTTAGAGGGAA-TA-GAAA
1 ATTTGGGAATTTAGAGAG-AAATTAGGAAATTTAGA--GAAGTAGGAAA
764878 ATTTGGGAA
1 ATTTGGGAA
764887 GTTGGCGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
45 5 0.11
46 38 0.81
47 1 0.02
48 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.31, T:0.28
Consensus pattern (46 bp):
ATTTGGGAATTTAGAGAGAAATTAGGAAATTTAGAGAAGTAGGAAA
Found at i:764995 original size:16 final size:18
Alignment explanation
Indices: 764955--764996 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
764945 CCAACAATCA
764955 TCATTTTTCCAATTATATT
1 TCATTTTT-CAATTATATT
*
764974 TGATTTTT-AATT-TATT
1 TCATTTTTCAATTATATT
764990 TCATTTT
1 TCATTTT
764997 AGTCATGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 10 0.48
17 4 0.19
19 7 0.33
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.64
Consensus pattern (18 bp):
TCATTTTTCAATTATATT
Found at i:765110 original size:7 final size:7
Alignment explanation
Indices: 765099--765154 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
765089 TATAGTTTAT
765099 ATAAACC
1 ATAAACC
*
765106 TTAAACC
1 ATAAACC
*
765113 ATAAACA
1 ATAAACC
765120 ATAAACC
1 ATAAACC
*
765127 CTAAACC
1 ATAAACC
* *
765134 CTATACC
1 ATAAACC
*
765141 ATAAACA
1 ATAAACC
765148 ATAAACC
1 ATAAACC
765155 CTAATATATG
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.18
Consensus pattern (7 bp):
ATAAACC
Found at i:765132 original size:28 final size:28
Alignment explanation
Indices: 765100--765158 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
765090 ATAGTTTATA
*
765100 TAAACCTTAAACCATAAACAATAAACCC
1 TAAACCCTAAACCATAAACAATAAACCC
*
765128 TAAACCCTATACCATAAACAATAAACCC
1 TAAACCCTAAACCATAAACAATAAACCC
765156 TAA
1 TAA
765159 TATATGTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.19
Consensus pattern (28 bp):
TAAACCCTAAACCATAAACAATAAACCC
Found at i:765144 original size:21 final size:21
Alignment explanation
Indices: 765099--765158 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
765089 TATAGTTTAT
* *
765099 ATAAACCTTAAACCATAAACA
1 ATAAACCATAAACCCTAAACA
* * *
765120 ATAAACCCTAAACCCTATACC
1 ATAAACCATAAACCCTAAACA
*
765141 ATAAACAATAAACCCTAA
1 ATAAACCATAAACCCTAA
765159 TATATGTATA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.18
Consensus pattern (21 bp):
ATAAACCATAAACCCTAAACA
Found at i:765188 original size:2 final size:2
Alignment explanation
Indices: 765176--765235 Score: 57
Period size: 2 Copynumber: 29.0 Consensus size: 2
765166 ATAAACCATG
* * * **
765176 TA TA GTA TA TA TA AA CTA TA AA TA TA CA TA TA CC 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
765220 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
765236 AACTATATGA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
2 43 0.93
3 3 0.07
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.42
Consensus pattern (2 bp):
TA
Found at i:765419 original size:15 final size:15
Alignment explanation
Indices: 765399--765432 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
765389 CTATATATTT
765399 TATATAGTTTATACA
1 TATATAGTTTATACA
*
765414 TATATAGTTTATATA
1 TATATAGTTTATACA
765429 TATA
1 TATA
765433 CTATACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:765447 original size:78 final size:77
Alignment explanation
Indices: 765351--765510 Score: 259
Period size: 78 Copynumber: 2.1 Consensus size: 77
765341 TAATACATAC
*
765351 ATATATATACTATATTAATATAAATTATAACATATAAACTATATA-TTTTATATAGTTTATACAT
1 ATATATATACTATATTAATATAAATAATAACATATAAACTATATACTTTT-TATAGTTTATACAT
765415 ATATAGTTTATAT
65 ATATAGTTTATAT
***
765428 ATATACTATACTATATTAATATAAATAATATTTTATAAACTATATACTTTTTATAGTTTATACAT
1 ATATA-TATACTATATTAATATAAATAATAACATATAAACTATATACTTTTTATAGTTTATACAT
765493 ATATAGTTTATAT
65 ATATAGTTTATAT
765506 ATATA
1 ATATA
765511 GTTCACATAA
Statistics
Matches: 77, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
77 5 0.06
78 68 0.88
79 4 0.05
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (77 bp):
ATATATATACTATATTAATATAAATAATAACATATAAACTATATACTTTTTATAGTTTATACATA
TATAGTTTATAT
Found at i:765499 original size:15 final size:13
Alignment explanation
Indices: 765479--765707 Score: 91
Period size: 13 Copynumber: 17.2 Consensus size: 13
765469 ATATACTTTT
765479 TATAGTTTATACATA
1 TATAGTTTAT--ATA
765494 TATAGTTTATATA
1 TATAGTTTATATA
* *
765507 TATAGTTCACATAAA
1 TATAGTT--TATATA
* * *
765522 CATAATTTTTATA
1 TATAGTTTATATA
765535 TATAGCTTATAATAATTA
1 TATAG-TT-T-AT-A-TA
765553 TATAGTTTATA-A
1 TATAGTTTATATA
** *
765565 TATA-AATATAGTT
1 TATAGTTTATA-TA
*
765578 TATAATTTTATATA
1 TAT-AGTTTATATA
*
765592 CATAGTTTATATA
1 TATAGTTTATATA
* *
765605 TATAGTTCACATAAA
1 TATAGTT--TATATA
*
765620 TATAATTTATATA
1 TATAGTTTATATA
765633 TATAGTTTATA-A
1 TATAGTTTATATA
765645 TA-A--TTATATA
1 TATAGTTTATATA
* * *
765655 GTTTA-TAATATAAA
1 -TATAGT-TTATATA
765669 TATAGTTTATATA
1 TATAGTTTATATA
*
765682 TA-ATTTTATAT-
1 TATAGTTTATATA
*
765693 TATA-TATATATA
1 TATAGTTTATATA
765705 TAT
1 TAT
765708 TATATTTTTA
Statistics
Matches: 160, Mismatches: 33, Indels: 45
0.67 0.14 0.19
Matches are distributed among these distances:
9 5 0.03
10 1 0.01
11 14 0.09
12 21 0.13
13 58 0.36
14 13 0.08
15 36 0.22
16 2 0.01
17 3 0.02
18 7 0.04
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (13 bp):
TATAGTTTATATA
Found at i:765573 original size:18 final size:18
Alignment explanation
Indices: 765531--765683 Score: 116
Period size: 18 Copynumber: 8.1 Consensus size: 18
765521 ACATAATTTT
*
765531 TATATATAGCTTATAATA
1 TATATATAGTTTATAATA
765549 -ATTATATAGTTTATAATA
1 TA-TATATAGTTTATAATA
*
765567 TAAATATAGTTTATAATTTTA
1 TATATATAGTTTATAA---TA
*
765588 TATACATAGTTTATATATA
1 TATATATAGTTTATA-ATA
* **
765607 TAGTTCACATA-AATATAATTTA
1 TA--T-ATATAGTTTATAA--TA
765629 TATATATAGTTTATAATA
1 TATATATAGTTTATAATA
765647 -ATTATATAGTTTATAATA
1 TA-TATATAGTTTATAATA
*
765665 TAAATATAGTTTAT-ATA
1 TATATATAGTTTATAATA
765682 TA
1 TA
765684 ATTTTATATT
Statistics
Matches: 111, Mismatches: 10, Indels: 29
0.74 0.07 0.19
Matches are distributed among these distances:
17 7 0.06
18 57 0.51
19 10 0.09
20 7 0.06
21 20 0.18
22 10 0.09
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (18 bp):
TATATATAGTTTATAATA
Found at i:765615 original size:98 final size:99
Alignment explanation
Indices: 765477--765679 Score: 345
Period size: 98 Copynumber: 2.1 Consensus size: 99
765467 CTATATACTT
* * *
765477 TTTATAGTTTATACATATATAGTTTATATATATAGTTCACATAAACATAATTTTTATATATAGCT
1 TTTATAATTTATACATACATAGTTTATATATATAGTTCACATAAACATAATTTATATATATAGCT
765542 TATAATAATTATATAGTTTATAATATAAATATAG
66 TATAATAATTATATAGTTTATAATATAAATATAG
* * *
765576 TTTATAATTT-TATATACATAGTTTATATATATAGTTCACATAAATATAATTTATATATATAGTT
1 TTTATAATTTATACATACATAGTTTATATATATAGTTCACATAAACATAATTTATATATATAGCT
765640 TATAATAATTATATAGTTTATAATATAAATATAG
66 TATAATAATTATATAGTTTATAATATAAATATAG
765674 TTTATA
1 TTTATA
765680 TATAATTTTA
Statistics
Matches: 98, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 89 0.91
99 9 0.09
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (99 bp):
TTTATAATTTATACATACATAGTTTATATATATAGTTCACATAAACATAATTTATATATATAGCT
TATAATAATTATATAGTTTATAATATAAATATAG
Found at i:765708 original size:15 final size:15
Alignment explanation
Indices: 765599--765712 Score: 56
Period size: 17 Copynumber: 7.1 Consensus size: 15
765589 ATACATAGTT
*
765599 TATATATATAGTTCACA
1 TATATATATA-TT-ATA
*
765616 TAAATATA-ATT-TA
1 TATATATATATTATA
765629 TATATATAGT-TTATA
1 TATATATA-TATTATA
765644 -ATAATTATATAGTTTATAA
1 TAT-A-TATATA--TTAT-A
*
765663 TATAAATATAGTTTATA
1 TATATATATA--TTATA
*
765680 TATAATTTTATATTATA
1 TAT-A-TATATATTATA
765697 TATATATATATTATA
1 TATATATATATTATA
765712 T
1 T
765713 TTTTAAATTT
Statistics
Matches: 78, Mismatches: 7, Indels: 26
0.70 0.06 0.23
Matches are distributed among these distances:
13 8 0.10
14 4 0.05
15 17 0.22
16 6 0.08
17 19 0.24
18 16 0.21
19 6 0.08
20 2 0.03
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (15 bp):
TATATATATATTATA
Found at i:769478 original size:18 final size:17
Alignment explanation
Indices: 769455--769489 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
769445 TCCATCTTTG
*
769455 TATTCTTCTTATTCCTCT
1 TATTCTTCAT-TTCCTCT
769473 TATTCTTCATTTCCTCT
1 TATTCTTCATTTCCTCT
769490 CTTGTAGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.11, C:0.29, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTCTTCATTTCCTCT
Found at i:769613 original size:24 final size:24
Alignment explanation
Indices: 769560--769615 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
769550 AAAAACATGG
*
769560 CGCACGTTTACGATTTTCTCTAGG
1 CGCACGTTTACGATTTTCTCTAGA
* * *
769584 CACACGTTTACGGTTTTCTGTAGA
1 CGCACGTTTACGATTTTCTCTAGA
769608 CGCACGTT
1 CGCACGTT
769616 AGCAGGGCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (24 bp):
CGCACGTTTACGATTTTCTCTAGA
Found at i:777862 original size:23 final size:23
Alignment explanation
Indices: 777815--777862 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
777805 TTAAAGTAAA
*
777815 AATAAAAATAAAAATATAATTAT
1 AATAAAAATAAAAATATAATAAT
* * *
777838 AATAAAAATATAAATTTTATAAT
1 AATAAAAATAAAAATATAATAAT
777861 AA
1 AA
777863 CTCACTATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AATAAAAATAAAAATATAATAAT
Found at i:778348 original size:15 final size:17
Alignment explanation
Indices: 778323--778361 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
778313 TTTAAGTTTT
778323 TAATAAATA-TTTTAAA
1 TAATAAATATTTTTAAA
*
778339 -AATAATTATTTTTAAA
1 TAATAAATATTTTTAAA
778355 TAATAAA
1 TAATAAA
778362 AACAATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
15 7 0.37
16 7 0.37
17 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAAATATTTTTAAA
Found at i:778438 original size:17 final size:17
Alignment explanation
Indices: 778416--778450 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
778406 CTTAACAATA
778416 TACTATATTATTTGCAG
1 TACTATATTATTTGCAG
778433 TACTATATTATTTGCAG
1 TACTATATTATTTGCAG
778450 T
1 T
778451 GTAACACCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (17 bp):
TACTATATTATTTGCAG
Found at i:785698 original size:91 final size:92
Alignment explanation
Indices: 785528--785709 Score: 230
Period size: 91 Copynumber: 2.0 Consensus size: 92
785518 GGTGTATCGG
*
785528 TGCACTAAGAGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAATAGTCTGAGTGCATCGAT
1 TGCACTAAGAGTGCATCGATGCATAAAATGCATTCGATG-TTTCAAATAGTCTGAGTGCATCGAT
*
785593 GCATGGTCTTGTGCATCGATGCATCAAA
65 GCATGGTCTGGTGCATCGATGCATCAAA
* *
785621 TGCACT-A-AGTGCATCGATGCATAAAATGCATTCGATG-TTCAATTAATTCCATG-GTGCATCG
1 TGCACTAAGAGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAT-AGT-C-TGAGTGCATCG
* *
785682 GTGCATGGAT-TGGTGCATCGGTGCATCA
63 ATGCATGG-TCTGGTGCATCGATGCATCA
785710 CTTTGAAAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
89 5 0.06
90 2 0.03
91 62 0.78
92 4 0.05
93 6 0.08
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (92 bp):
TGCACTAAGAGTGCATCGATGCATAAAATGCATTCGATGTTTCAAATAGTCTGAGTGCATCGATG
CATGGTCTGGTGCATCGATGCATCAAA
Found at i:792129 original size:22 final size:21
Alignment explanation
Indices: 792087--792126 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
792077 GAGTTTATTT
*
792087 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
792108 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
792127 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:795130 original size:58 final size:58
Alignment explanation
Indices: 795062--795186 Score: 250
Period size: 58 Copynumber: 2.2 Consensus size: 58
795052 TCCGGAATTT
795062 CAATAAAATATAAAGGAAGTTAAAGAAGGGTTCAAAATATTATTTCCATAATTAATAA
1 CAATAAAATATAAAGGAAGTTAAAGAAGGGTTCAAAATATTATTTCCATAATTAATAA
795120 CAATAAAATATAAAGGAAGTTAAAGAAGGGTTCAAAATATTATTTCCATAATTAATAA
1 CAATAAAATATAAAGGAAGTTAAAGAAGGGTTCAAAATATTATTTCCATAATTAATAA
795178 CAATAAAAT
1 CAATAAAAT
795187 TTATCATGGA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 67 1.00
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.29
Consensus pattern (58 bp):
CAATAAAATATAAAGGAAGTTAAAGAAGGGTTCAAAATATTATTTCCATAATTAATAA
Found at i:796461 original size:15 final size:17
Alignment explanation
Indices: 796440--796477 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 17
796430 TTTAAGTTTT
796440 TAATAAATA-TTTTAAA
1 TAATAAATATTTTTAAA
796456 -AATAAATATTTTTAAA
1 TAATAAATATTTTTAAA
796472 TAATAA
1 TAATAA
796478 TTTAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.40
16 7 0.35
17 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATAAATATTTTTAAA
Found at i:796474 original size:14 final size:14
Alignment explanation
Indices: 796436--796474 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
796426 AATTTTTAAG
796436 TTTTT-AATAAATA
1 TTTTTAAATAAATA
*
796449 TTTTAAAAATAAATA
1 TTTT-TAAATAAATA
796464 TTTTTAAATAA
1 TTTTTAAATAA
796475 TAATTTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 4 0.18
14 6 0.27
15 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TTTTTAAATAAATA
Found at i:799983 original size:14 final size:16
Alignment explanation
Indices: 799964--800001 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
799954 AATTTAAAGT
799964 AAATATAA-A-AATAA
1 AAATATAATATAATAA
799978 AAATATAATTATAATAA
1 AAATATAA-TATAATAA
799995 AAATATA
1 AAATATA
800002 TATTTTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
16 1 0.05
17 12 0.57
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATATAATATAATAA
Found at i:803679 original size:10 final size:11
Alignment explanation
Indices: 803653--803677 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
803643 TCTATTGTAA
803653 TTTTAATTTTT
1 TTTTAATTTTT
803664 TTTTAATTTTT
1 TTTTAATTTTT
803675 TTT
1 TTT
803678 AAATAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTAATTTTT
Found at i:804016 original size:29 final size:29
Alignment explanation
Indices: 803958--804016 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
803948 ACATTATGTT
*
803958 ATAAAAATAAAAATATAATTATAATTATA
1 ATAAAAATAAAAATATAATTATAATAATA
*
803987 ATAAAAATAAAAATATATATT-TTATAATA
1 ATAAAAATAAAAATATA-ATTATAATAATA
804016 A
1 A
804017 CTCACTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
ATAAAAATAAAAATATAATTATAATAATA
Found at i:806306 original size:454 final size:455
Alignment explanation
Indices: 805671--806571 Score: 1637
Period size: 454 Copynumber: 2.0 Consensus size: 455
805661 TTTCTTAATG
805671 ATTATAGGCAAATATCTCAATTATATGTTTAATTTACGATTTCTTATTGTAAACATCTATTGTAA
1 ATTATAGGCAAATATCTCAATTATATGTTTAATTTACGATTTCTTATTGTAAACATCTATTGTAA
*
805736 TTTTAAATATTTTTAATTTTTTTTAAATAAAATTAGCTATTTCTATTTAAGAAGAAGTTGCCTCA
66 TTTTAAATATTTTTAATTTTTTTTAAATAAAATAAGCTATTTCTATTTAAGAAGAAGTTGCCTCA
805801 ACACATTTTTTAACGTTTTAAATTGGTAAACTACGACTGAATTTTTTAGATTTTTCAAAATGATC
131 ACACATTTTTTAACGTTTTAAATTGGTAAACTACGACTGAATTTTTTAGATTTTTCAAAATGATC
*
805866 AATTTGAATTTAGGAGCAGTTTGGTATACCTTTTGAAAAGTGACTTTTCAACATGATTTAGAAAC
196 AATTTGAATTTAGGAGCAGTTTGGTATACCTTTTGAAAAGTGACTCTTCAACATGATTTAGAAAC
*
805931 CAACTTTTAAAAAGCGTTGTACAAAAGTATAGTTTAGAGTTTAATTATTTGGGATTGGT-TATAA
261 CAACTTTTAAAAAGCGTTGTACAAAAGTATAGTTTAGAGTTTAACTATTTGGGATTGGTGT-TAA
* * * *
805995 AAAGTGAGTTTAAAAAGATAAAATGTTCATTATAGACATTATGTTATAAATTAAAAATATAATAT
325 AAAGTAAGTTTAAAAAGAAAAAATATTCATTATAGACATTATCTTATAAATTAAAAATATAATAT
806060 TTAAATTATATTTACACTTATATATCAATCATATCAATTTAAAGTAAAAATAAAAATAAAAATAT
390 TTAAATTATATTTACACTTATATATCAATCATATCAATTTAAAGTAAAAATAAAAATAAAAATAT
806125 A
455 A
* *
806126 ATTATAGGCAAATATTTTAATTATATGTTTAATTT-CTGATTTCTTATTGTAAACATCTATTGTA
1 ATTATAGGCAAATATCTCAATTATATGTTTAATTTAC-GATTTCTTATTGTAAACATCTATTGTA
806190 ATTTTAAATATTTTTAA-TTTTTTTAAATAAAATAAGCTATTTCTATTTAAGAAGAAGTTGCCTC
65 ATTTTAAATATTTTTAATTTTTTTTAAATAAAATAAGCTATTTCTATTTAAGAAGAAGTTGCCTC
* *
806254 AACATATTTTTTAACGTTTTAAATTGGTACACTACGACTGAATTTTTTAGATTTTTCAAAATGAT
130 AACACATTTTTTAACGTTTTAAATTGGTAAACTACGACTGAATTTTTTAGATTTTTCAAAATGAT
806319 CAATTTGAATTTAGGAGCAGTTTGGTATACCTTTTGAAAAGTGACTCTTCAACATGATTTAGAAA
195 CAATTTGAATTTAGGAGCAGTTTGGTATACCTTTTGAAAAGTGACTCTTCAACATGATTTAGAAA
* *
806384 CGAACTTTTAAAAAGTGTTGTACAAAAGTATAGTTTAGAGTTTAACTATTTGGGATTGGTGTTAA
260 CCAACTTTTAAAAAGCGTTGTACAAAAGTATAGTTTAGAGTTTAACTATTTGGGATTGGTGTTAA
*
806449 AAAGTAAGTTTAAAAAGAAAAAATATTCATTATAGACTTTATCTTATAAATTAAAAATATAATAT
325 AAAGTAAGTTTAAAAAGAAAAAATATTCATTATAGACATTATCTTATAAATTAAAAATATAATAT
806514 TTAAATTATATTTACACTTATATATCAATCATATCAATTTAAAGTAAAAATAAAAATA
390 TTAAATTATATTTACACTTATATATCAATCATATCAATTTAAAGTAAAAATAAAAATA
806572 TCATTATAAT
Statistics
Matches: 430, Mismatches: 14, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
454 352 0.82
455 78 0.18
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (455 bp):
ATTATAGGCAAATATCTCAATTATATGTTTAATTTACGATTTCTTATTGTAAACATCTATTGTAA
TTTTAAATATTTTTAATTTTTTTTAAATAAAATAAGCTATTTCTATTTAAGAAGAAGTTGCCTCA
ACACATTTTTTAACGTTTTAAATTGGTAAACTACGACTGAATTTTTTAGATTTTTCAAAATGATC
AATTTGAATTTAGGAGCAGTTTGGTATACCTTTTGAAAAGTGACTCTTCAACATGATTTAGAAAC
CAACTTTTAAAAAGCGTTGTACAAAAGTATAGTTTAGAGTTTAACTATTTGGGATTGGTGTTAAA
AAGTAAGTTTAAAAAGAAAAAATATTCATTATAGACATTATCTTATAAATTAAAAATATAATATT
TAAATTATATTTACACTTATATATCAATCATATCAATTTAAAGTAAAAATAAAAATAAAAATATA
Found at i:814130 original size:30 final size:30
Alignment explanation
Indices: 814064--814131 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
814054 TGACTAAAAT
* *
814064 GTAAATTTTGAAAGTTTAATGATCAAAGTA
1 GTAATTTTTGAAAGTTTAATGACCAAAGTA
*
814094 -TAAATTTTTGAAAGTTTACTGACCAAA-TAA
1 GT-AATTTTTGAAAGTTTAATGACCAAAGT-A
814124 GTAATTTT
1 GTAATTTT
814132 AAAAAGTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
29 2 0.06
30 29 0.91
31 1 0.03
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.40
Consensus pattern (30 bp):
GTAATTTTTGAAAGTTTAATGACCAAAGTA
Found at i:816268 original size:29 final size:30
Alignment explanation
Indices: 816200--816265 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
816190 TTTAGTTAGT
* * *
816200 GACCAAAATGTAAATTTTTAAAGTTTAATG
1 GACCAAAATATAAATTTTGAAAGTTTAACG
816230 G-CCAAAATATAAATTTTGGAAAGTTT-ACG
1 GACCAAAATATAAATTTT-GAAAGTTTAACG
816259 GACCAAA
1 GACCAAA
816266 TATGTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (30 bp):
GACCAAAATATAAATTTTGAAAGTTTAACG
Found at i:816275 original size:30 final size:30
Alignment explanation
Indices: 816200--816275 Score: 70
Period size: 30 Copynumber: 2.6 Consensus size: 30
816190 TTTAGTTAGT
* *
816200 GACCAAA-ATGTAAATTTTTAAAGTTTAATG
1 GACCAAATATGT-AATTTTGAAAGTTTAACG
*
816230 G-CCAAAATAT-AAATTTTGGAAAGTTT-ACG
1 GACC-AAATATGTAATTTT-GAAAGTTTAACG
816259 GACCAAATATGTAATTT
1 GACCAAATATGTAATTT
816276 AAAAAGTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
29 17 0.46
30 18 0.49
31 2 0.05
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.34
Consensus pattern (30 bp):
GACCAAATATGTAATTTTGAAAGTTTAACG
Found at i:820326 original size:29 final size:30
Alignment explanation
Indices: 820291--820357 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 30
820281 ATTTAGTTAT
820291 TGACCAAAATATAAATTTTG-AAAGTTTAA
1 TGACCAAAATATAAATTTTGAAAAGTTTAA
* * *
820320 TGGCCAAAGTATAAATTTTGAAAAGTTTAC
1 TGACCAAAATATAAATTTTGAAAAGTTTAA
820350 TGACCAAA
1 TGACCAAA
820358 TATGTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
29 18 0.55
30 15 0.45
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.31
Consensus pattern (30 bp):
TGACCAAAATATAAATTTTGAAAAGTTTAA
Found at i:821635 original size:10 final size:10
Alignment explanation
Indices: 821622--821707 Score: 99
Period size: 10 Copynumber: 9.0 Consensus size: 10
821612 TTTGACCAGT
821622 TTTGAACCGG
1 TTTGAACCGG
821632 TTTG-ACCGG
1 TTTGAACCGG
* *
821641 TTCGAACCGC
1 TTTGAACCGG
821651 TTTG-ACCGG
1 TTTGAACCGG
*
821660 TCTGAACCGG
1 TTTGAACCGG
821670 TTTG-ACCGG
1 TTTGAACCGG
*
821679 TCTGAACCGG
1 TTTGAACCGG
821689 TTTG-ACCGG
1 TTTGAACCGG
*
821698 TCTGAACCGG
1 TTTGAACCGG
821708 GTTAACCCGA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
9 31 0.49
10 32 0.51
ACGTcount: A:0.16, C:0.27, G:0.30, T:0.27
Consensus pattern (10 bp):
TTTGAACCGG
Found at i:821639 original size:9 final size:9
Alignment explanation
Indices: 821611--821698 Score: 86
Period size: 10 Copynumber: 9.2 Consensus size: 9
821601 TAGAAAACCA
821611 GTTTGACCAG
1 GTTTGACC-G
*
821621 TTTTGAACCG
1 GTTTG-ACCG
821631 GTTTGACCG
1 GTTTGACCG
*
821640 GTTCGAACCG
1 GTTTG-ACCG
*
821650 CTTTGACCG
1 GTTTGACCG
*
821659 GTCTGAACCG
1 GTTTG-ACCG
821669 GTTTGACCG
1 GTTTGACCG
*
821678 GTCTGAACCG
1 GTTTG-ACCG
821688 GTTTGACCG
1 GTTTGACCG
821697 GT
1 GT
821699 CTGAACCGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
9 29 0.45
10 32 0.50
11 3 0.05
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.30
Consensus pattern (9 bp):
GTTTGACCG
Found at i:821649 original size:19 final size:19
Alignment explanation
Indices: 821624--821707 Score: 143
Period size: 19 Copynumber: 4.4 Consensus size: 19
821614 TGACCAGTTT
821624 TGAACCGGTTTGACCGGT-
1 TGAACCGGTTTGACCGGTC
*
821642 TCGAACCGCTTTGACCGGTC
1 T-GAACCGGTTTGACCGGTC
821662 TGAACCGGTTTGACCGGTC
1 TGAACCGGTTTGACCGGTC
821681 TGAACCGGTTTGACCGGTC
1 TGAACCGGTTTGACCGGTC
821700 TGAACCGG
1 TGAACCGG
821708 GTTAACCCGA
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
18 1 0.02
19 60 0.97
20 1 0.02
ACGTcount: A:0.17, C:0.27, G:0.31, T:0.25
Consensus pattern (19 bp):
TGAACCGGTTTGACCGGTC
Found at i:821738 original size:17 final size:17
Alignment explanation
Indices: 821716--821748 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
821706 GGGTTAACCC
821716 GACCCGACCGTTGACCT
1 GACCCGACCGTTGACCT
821733 GACCCGACCGTTGACC
1 GACCCGACCGTTGACC
821749 ATTGACCGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.42, G:0.24, T:0.15
Consensus pattern (17 bp):
GACCCGACCGTTGACCT
Found at i:821748 original size:7 final size:7
Alignment explanation
Indices: 821738--821781 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
821728 GACCTGACCC
821738 GACCGTT
1 GACCGTT
*
821745 GACCATT
1 GACCGTT
821752 GACCGTT
1 GACCGTT
821759 GACCG-T
1 GACCGTT
821765 GACCGTT
1 GACCGTT
821772 GACCGTT
1 GACCGTT
821779 GAC
1 GAC
821782 TTTCTTTGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 6 0.18
7 28 0.82
ACGTcount: A:0.18, C:0.30, G:0.27, T:0.25
Consensus pattern (7 bp):
GACCGTT
Found at i:821769 original size:13 final size:13
Alignment explanation
Indices: 821738--821777 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
821728 GACCTGACCC
*
821738 GACCGTTGACCATT
1 GACCGTTGACC-GT
821752 GACCGTTGACCGT
1 GACCGTTGACCGT
821765 GACCGTTGACCGT
1 GACCGTTGACCGT
821778 TGACTTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.17, C:0.30, G:0.28, T:0.25
Consensus pattern (13 bp):
GACCGTTGACCGT
Found at i:821773 original size:20 final size:21
Alignment explanation
Indices: 821738--821781 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
821728 GACCTGACCC
821738 GACCGTTGACCATTGACCGTT
1 GACCGTTGACCATTGACCGTT
*
821759 GACCG-TGACCGTTGACCGTT
1 GACCGTTGACCATTGACCGTT
821779 GAC
1 GAC
821782 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.18, C:0.30, G:0.27, T:0.25
Consensus pattern (21 bp):
GACCGTTGACCATTGACCGTT
Found at i:829021 original size:17 final size:17
Alignment explanation
Indices: 828999--829055 Score: 105
Period size: 17 Copynumber: 3.4 Consensus size: 17
828989 CTAAACCGGT
*
828999 TTGACCCGACCCGACTG
1 TTGACCCGACCCGACCG
829016 TTGACCCGACCCGACCG
1 TTGACCCGACCCGACCG
829033 TTGACCCGACCCGACCG
1 TTGACCCGACCCGACCG
829050 TTGACC
1 TTGACC
829056 GTGACCGTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.18, C:0.44, G:0.23, T:0.16
Consensus pattern (17 bp):
TTGACCCGACCCGACCG
Found at i:830866 original size:13 final size:14
Alignment explanation
Indices: 830841--830893 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
830831 GTTTGGTATA
830841 ACTTTTAAAAAGTG
1 ACTTTTAAAAAGTG
830855 ACTTTT-AAAAGTG
1 ACTTTTAAAAAGTG
* *
830868 A--TATAGAAA-TG
1 ACTTTTAAAAAGTG
830879 AACTTTTAAAAAGTG
1 -ACTTTTAAAAAGTG
830894 TTGTACAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
11 4 0.13
12 4 0.13
13 8 0.27
14 12 0.40
15 2 0.07
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (14 bp):
ACTTTTAAAAAGTG
Found at i:831558 original size:29 final size:28
Alignment explanation
Indices: 831526--831580 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
831516 TAAAGTTTTA
* *
831526 ATTTTTTAATAAATATTTTAAAAAGAATT
1 ATTTTTAAAT-AATAATTTAAAAAGAATT
*
831555 ATTTTTAAATAATAATTTAATAAGAA
1 ATTTTTAAATAATAATTTAAAAAGAA
831581 CAATGTAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (28 bp):
ATTTTTAAATAATAATTTAAAAAGAATT
Found at i:832215 original size:232 final size:231
Alignment explanation
Indices: 831784--832239 Score: 750
Period size: 232 Copynumber: 2.0 Consensus size: 231
831774 TTAAGGCTTA
*
831784 AAAAGTGTATTTTTGAAGTGAGGTTGAAAGGAGGAGGACTAGGAGTGTAATTAGACCCTAAACTA
1 AAAAGTGTATTTTTGAAGTGAGGTTGAAAAGAGGAGGACTAGGAGTGTAATTAGACCCTAAACTA
* *
831849 TTTTAAAAGTTGTTTTTAATTAAAAGAGGATGATATAAACGTGACAGGCTTCTCTTTTTCTTCAT
66 TTTTAAAAGTTGTTTTTAATTAAAAGAGGATGATATAAACGAGACAAGCTTCTCTTTTTCTTCAT
* * *
831914 CCATCTTTGTCTTCTTCTAATTCCTCTTATTTTTCATTTCCACTCTTTTAGAAGCTAGCAAAGGA
131 CCATCTTTGTCTTCTTCTAATTCCTCTTATTCTTCATTTCCACTCTTGTAGAAGCTAGCAAAAGA
831979 AGCACCTTCATATCCCAATCTTCACAGTCCGAATTT
196 AGCACCTTCATATCCCAATCTTCACAGTCCGAATTT
*
832015 AAAAGTGTATTTTTGAAGTGAGGTTGAAAAGAGGAGGAGTAGGAGTGTAATTAGACCCTAAACTA
1 AAAAGTGTATTTTTGAAGTGAGGTTGAAAAGAGGAGGACTAGGAGTGTAATTAGACCCTAAACTA
* * * * *
832080 TTTTAAAAGTTGATTTTTCATTAAAAGATGATGATGTAAATGAGCCAAGCTTCTCTTTTTCTTCA
66 TTTTAAAAGTTG-TTTTTAATTAAAAGAGGATGATATAAACGAGACAAGCTTCTCTTTTTCTTCA
* * *
832145 TCCATCTTTGTCTTCTTCTTATTCCTCTTATTCTTCATTTCCTCTCTTGTAGAAGCTTGCAAAAG
130 TCCATCTTTGTCTTCTTCTAATTCCTCTTATTCTTCATTTCCACTCTTGTAGAAGCTAGCAAAAG
* *
832210 AAGCACCTTTATATCCCAATCTTCATAGTC
195 AAGCACCTTCATATCCCAATCTTCACAGTC
832240 TAAATTTGTG
Statistics
Matches: 207, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
231 75 0.36
232 132 0.64
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (231 bp):
AAAAGTGTATTTTTGAAGTGAGGTTGAAAAGAGGAGGACTAGGAGTGTAATTAGACCCTAAACTA
TTTTAAAAGTTGTTTTTAATTAAAAGAGGATGATATAAACGAGACAAGCTTCTCTTTTTCTTCAT
CCATCTTTGTCTTCTTCTAATTCCTCTTATTCTTCATTTCCACTCTTGTAGAAGCTAGCAAAAGA
AGCACCTTCATATCCCAATCTTCACAGTCCGAATTT
Found at i:832389 original size:29 final size:29
Alignment explanation
Indices: 832354--832437 Score: 73
Period size: 30 Copynumber: 2.8 Consensus size: 29
832344 TTTAGTTAGT
*
832354 GACCAAAATGTAAATTTTGAAAGTTTAATG
1 GACCAAAATGT-AATTTTGAAAGTTTAACG
* * *
832384 G-CCAAAGTTTTAATTTTGGAAA-TTTTACG
1 GACCAAA-ATGTAATTTT-GAAAGTTTAACG
*
832413 GACCAAATATGTAATTTTAAAAGTT
1 GACCAAA-ATGTAATTTTGAAAGTT
832438 ATATATTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
29 20 0.48
30 22 0.52
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.37
Consensus pattern (29 bp):
GACCAAAATGTAATTTTGAAAGTTTAACG
Found at i:833349 original size:15 final size:14
Alignment explanation
Indices: 833329--833372 Score: 65
Period size: 13 Copynumber: 3.2 Consensus size: 14
833319 ATGTTATAAA
833329 TTAAAAATATAATAT
1 TTAAAAATAT-ATAT
833344 TTAAAAAT-TATAT
1 TTAAAAATATATAT
833357 TTAAAAA-ATATAT
1 TTAAAAATATATAT
833370 TTA
1 TTA
833373 CACTTATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 19 0.68
14 1 0.04
15 8 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAAATATATAT
Found at i:833842 original size:12 final size:12
Alignment explanation
Indices: 833827--833870 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
833817 ATGATTCTTA
833827 ATTTTTATATTT
1 ATTTTTATATTT
*
833839 ATTTTAAGTATTT
1 ATTTTTA-TATTT
*
833852 ATTTTTCTAATTT
1 ATTTTTAT-ATTT
833865 ATTTTT
1 ATTTTT
833871 GATAGAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 7 0.26
13 20 0.74
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (12 bp):
ATTTTTATATTT
Found at i:836092 original size:29 final size:28
Alignment explanation
Indices: 836060--836114 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
836050 TAAAGTTTTA
* *
836060 ATTTTTTAATAAATATTTTAAAAAGAATT
1 ATTTTTAAAT-AATAATTTAAAAAGAATT
*
836089 ATTTTTAAATAATAATTTAATAAGAA
1 ATTTTTAAATAATAATTTAAAAAGAA
836115 CAATATAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (28 bp):
ATTTTTAAATAATAATTTAAAAAGAATT
Found at i:836717 original size:232 final size:232
Alignment explanation
Indices: 836300--836756 Score: 704
Period size: 232 Copynumber: 2.0 Consensus size: 232
836290 TTAAGGCTTA
* *
836300 AAAAGTGTATTTTTGAAGTGAGGTTGAAAGGAAGAGGACTAGGAGTGTAATTAGACCTTAAAACT
1 AAAAGTGTATTTTTGAAGTGAGGTTGAAAAGAAGAGGACTAGGAGTGTAATTAGACCCTAAAACT
*
836365 ATTTTAAAAGTTGTTTTTAATTAAAAGAGGATGATATAAACGTAACAGGCTTCTCTTTTTCTTCA
66 ATTTTAAAAGTTGTTTTTAATTAAAAGAGGATGATATAAACGTAACAAGCTTCTCTTTTTCTTCA
* * *
836430 TCCATCTTTGTCTTCTTCTAATTCCTCTTATTTTTCATTTCCACTCTTTTAGAAGCTAGCAAAGG
131 TCCATCTTTGTCTTCTTCTAATTCCTCTTATTCTTCATTTCCACTCTTGTAGAAGCTAGCAAAAG
836495 AAGCACCTTCATATCCCAATCTTCACAGTCCGAATTT
196 AAGCACCTTCATATCCCAATCTTCACAGTCCGAATTT
* *
836532 AAAAGTGTATTTTTGAAGTGAGGTT-AAACAGAGGAGGAGTAGGAGTGTAATTAGACCCT-AAAC
1 AAAAGTGTATTTTTGAAGTGAGGTTGAAA-AGAAGAGGACTAGGAGTGTAATTAGACCCTAAAAC
* * * * *
836595 TATTTTAAAAGTTGATTTTTCATTAAAAGATGATGATGTAAATG-AGCCAAGCTTCTCTTTTTCT
65 TATTTTAAAAGTTG-TTTTTAATTAAAAGAGGATGATATAAACGTA-ACAAGCTTCTCTTTTTCT
* * *
836659 TCATCCATCTTTGTCTTCTTCTTATTCCTCTTATTCTTCATTTCCTCTCTTGTAGAAGCTTGCAA
128 TCATCCATCTTTGTCTTCTTCTAATTCCTCTTATTCTTCATTTCCACTCTTGTAGAAGCTAGCAA
* *
836724 AAGAAGCACCTTTATATCCCAATCTTCATAGTC
193 AAGAAGCACCTTCATATCCCAATCTTCACAGTC
836757 TAAATTTGTG
Statistics
Matches: 204, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
231 22 0.11
232 182 0.89
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (232 bp):
AAAAGTGTATTTTTGAAGTGAGGTTGAAAAGAAGAGGACTAGGAGTGTAATTAGACCCTAAAACT
ATTTTAAAAGTTGTTTTTAATTAAAAGAGGATGATATAAACGTAACAAGCTTCTCTTTTTCTTCA
TCCATCTTTGTCTTCTTCTAATTCCTCTTATTCTTCATTTCCACTCTTGTAGAAGCTAGCAAAAG
AAGCACCTTCATATCCCAATCTTCACAGTCCGAATTT
Found at i:836906 original size:29 final size:29
Alignment explanation
Indices: 836871--836954 Score: 73
Period size: 30 Copynumber: 2.8 Consensus size: 29
836861 TTTAGTTAGT
*
836871 GACCAAAATGTAAATTTTGAAAGTTTAATG
1 GACCAAAATGT-AATTTTGAAAGTTTAACG
* * *
836901 G-CCAAAGTTTTAATTTTGGAAA-TTTTACG
1 GACCAAA-ATGTAATTTT-GAAAGTTTAACG
*
836930 GACCAAATATGTAATTTTAAAAGTT
1 GACCAAA-ATGTAATTTTGAAAGTT
836955 ATATATTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
29 20 0.48
30 22 0.52
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.37
Consensus pattern (29 bp):
GACCAAAATGTAATTTTGAAAGTTTAACG
Found at i:838456 original size:29 final size:28
Alignment explanation
Indices: 838424--838478 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
838414 TAAAGTTTTA
* *
838424 ATTTTTTAATAAATATTTTAAAAAGAATT
1 ATTTTTAAAT-AATAATTTAAAAAGAATT
*
838453 ATTTTTAAATAATAATTTAATAAGAA
1 ATTTTTAAATAATAATTTAAAAAGAA
838479 CAATGTAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (28 bp):
ATTTTTAAATAATAATTTAAAAAGAATT
Found at i:839114 original size:232 final size:232
Alignment explanation
Indices: 838682--839138 Score: 713
Period size: 232 Copynumber: 2.0 Consensus size: 232
838672 TTAAGGCTTA
*
838682 AAAAGTGTATTTTTGAAGTGAGGTTGAAAGGAGGAGGACTAGGAGTGTAATTAGACCTTAAAACT
1 AAAAGTGTATTTTTGAAGTGAGGTTGAAAGGAGGAGGACTAGGAGTGTAATTAGACCCTAAAACT
*
838747 ATTTTAAAAGTTGTTTTTAATTAAAAGAGGATGATATAAACGTAACAGGCTTCTCTTTTTCTTCA
66 ATTTTAAAAGTTGTTTTTAATTAAAAGAGGATGATATAAACGTAACAAGCTTCTCTTTTTCTTCA
* * * *
838812 TCCATCTTTGTCTTCTTCTAATTCCTCTTATTTTTCATTTCCACTCTTTTAGATGCTAGCAAAGG
131 TCCATCTTTGTCTTCTTCTAATTCCTCTTATTCTTCATTTCCACTCTTGTAGAAGCTAGCAAAAG
838877 AAGCACCTTCATATCCCAATCTTCACAGTCCGAATTT
196 AAGCACCTTCATATCCCAATCTTCACAGTCCGAATTT
*
838914 AAAAGTGTATTTTTGAAGTGAGGTTGAACA-GAGGAGGAGTAGGAGTGTAATTAGACCCT-AAAC
1 AAAAGTGTATTTTTGAAGTGAGGTTGAA-AGGAGGAGGACTAGGAGTGTAATTAGACCCTAAAAC
* * * * *
838977 TATTTTAAAAGTTGATTTTTCATTAAAAGATGATGATGTAAATG-AGCCAAGCTTCTCTTTTTCT
65 TATTTTAAAAGTTG-TTTTTAATTAAAAGAGGATGATATAAACGTA-ACAAGCTTCTCTTTTTCT
* * *
839041 TCATCCATCTTTGTCTTCTTCTTATTCCTCTTATTCTTCATTTCCTCTCTTGTAGAAGCTTGCAA
128 TCATCCATCTTTGTCTTCTTCTAATTCCTCTTATTCTTCATTTCCACTCTTGTAGAAGCTAGCAA
* *
839106 AAGAAGCACCTTTATATCCCAATCTTCATAGTC
193 AAGAAGCACCTTCATATCCCAATCTTCACAGTC
839139 TAAATTTGTG
Statistics
Matches: 205, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
231 19 0.09
232 185 0.90
233 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (232 bp):
AAAAGTGTATTTTTGAAGTGAGGTTGAAAGGAGGAGGACTAGGAGTGTAATTAGACCCTAAAACT
ATTTTAAAAGTTGTTTTTAATTAAAAGAGGATGATATAAACGTAACAAGCTTCTCTTTTTCTTCA
TCCATCTTTGTCTTCTTCTAATTCCTCTTATTCTTCATTTCCACTCTTGTAGAAGCTAGCAAAAG
AAGCACCTTCATATCCCAATCTTCACAGTCCGAATTT
Found at i:839288 original size:29 final size:29
Alignment explanation
Indices: 839253--839336 Score: 73
Period size: 30 Copynumber: 2.8 Consensus size: 29
839243 TTTAGTTAGT
*
839253 GACCAAAATGTAAATTTTGAAAGTTTAATG
1 GACCAAAATGT-AATTTTGAAAGTTTAACG
* * *
839283 G-CCAAAGTTTTAATTTTGGAAA-TTTTACG
1 GACCAAA-ATGTAATTTT-GAAAGTTTAACG
*
839312 GACCAAATATGTAATTTTAAAAGTT
1 GACCAAA-ATGTAATTTTGAAAGTT
839337 ATATATTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
29 20 0.48
30 22 0.52
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.37
Consensus pattern (29 bp):
GACCAAAATGTAATTTTGAAAGTTTAACG
Found at i:840255 original size:13 final size:13
Alignment explanation
Indices: 840228--840271 Score: 70
Period size: 13 Copynumber: 3.2 Consensus size: 13
840218 ATGTTATAAA
840228 TTAAAAATATAATAT
1 TTAAAAAT-T-ATAT
840243 TTAAAAATTATAT
1 TTAAAAATTATAT
840256 TTAAAAATTATAT
1 TTAAAAATTATAT
840269 TTA
1 TTA
840272 CACTTATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 20 0.69
14 1 0.03
15 8 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TTAAAAATTATAT
Found at i:840742 original size:12 final size:12
Alignment explanation
Indices: 840727--840770 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
840717 ATGATTCTTA
840727 ATTTTTATATTT
1 ATTTTTATATTT
*
840739 ATTTTAAGTATTT
1 ATTTTTA-TATTT
*
840752 ATTTTTCTAATTT
1 ATTTTTAT-ATTT
840765 ATTTTT
1 ATTTTT
840771 GATAGAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 7 0.26
13 20 0.74
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (12 bp):
ATTTTTATATTT
Found at i:847263 original size:28 final size:28
Alignment explanation
Indices: 847232--847285 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
847222 AAGTTTTAAG
*
847232 TTTTT-AATAATTATTTTAAAAAGAATTA
1 TTTTTAAATAA-TAATTTAAAAAGAATTA
*
847260 TTTTTAAATAATAATTTAATAAGAAT
1 TTTTTAAATAATAATTTAAAAAGAAT
847286 AATGTAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (28 bp):
TTTTTAAATAATAATTTAAAAAGAATTA
Found at i:849396 original size:15 final size:17
Alignment explanation
Indices: 849371--849410 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
849361 TTTAATTTTT
*
849371 TAATAAATA-TTTTAAA
1 TAATAATTATTTTTAAA
849387 -AATAATTATTTTTAAA
1 TAATAATTATTTTTAAA
849403 TAATAATT
1 TAATAATT
849411 TAATAAGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 7 0.33
16 7 0.33
17 7 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATAATTATTTTTAAA
Found at i:850030 original size:30 final size:29
Alignment explanation
Indices: 849958--850030 Score: 71
Period size: 30 Copynumber: 2.5 Consensus size: 29
849948 AGTTAGTGAG
*
849958 CAAA-ATGTAAATTTTGAAAGTTTAATGGC
1 CAAATATGT-AATTTTGAAAGTTTAACGGC
*
849987 CAAAGTAT-AAATTTTGGAAAGTTT-ACGGAC
1 CAAA-TATGTAATTTT-GAAAGTTTAACGG-C
850017 CAAATATGTAATTT
1 CAAATATGTAATTT
850031 AAAAAGTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
29 16 0.44
30 18 0.50
31 2 0.06
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.34
Consensus pattern (29 bp):
CAAATATGTAATTTTGAAAGTTTAACGGC
Found at i:850811 original size:25 final size:25
Alignment explanation
Indices: 850783--850843 Score: 122
Period size: 25 Copynumber: 2.4 Consensus size: 25
850773 AGATTGGTAT
850783 AACTTTTAAAAGTGATATAGAAACG
1 AACTTTTAAAAGTGATATAGAAACG
850808 AACTTTTAAAAGTGATATAGAAACG
1 AACTTTTAAAAGTGATATAGAAACG
850833 AACTTTTAAAA
1 AACTTTTAAAA
850844 AGTGTTGTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.30
Consensus pattern (25 bp):
AACTTTTAAAAGTGATATAGAAACG
Found at i:853069 original size:73 final size:72
Alignment explanation
Indices: 852956--853137 Score: 186
Period size: 73 Copynumber: 2.5 Consensus size: 72
852946 CGACGAGGTA
* * * *
852956 GTATCGATGCCATGAATAAGAGTATCGATACTAAGAAACATC-GAATTAAAAACTAGTATCAATA
1 GTATCGATACCATG-GTAAGAGTATCGATACTAGGAAACATCAGAACTAAAAAC-AGTATCAATA
*
853020 CCATAAGGGG
64 CCA-AAAGGG
* * * ** *
853030 GTATCGATACCATGGTGAGAGTATCGATACTAGGCAACATCAGACCTAAATTCAGTATCGATACC
1 GTATCGATACCATGGTAAGAGTATCGATACTAGGAAACATCAGAACTAAAAACAGTATCAATACC
853095 AAAAGGG
66 AAAAGGG
* * *
853102 GTATCAATACCATAGTATAGAAGTATCGGTACTAGG
1 GTATCGATACCATGGTA-AG-AGTATCGATACTAGG
853138 GTAGTAGTAT
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
72 19 0.21
73 37 0.41
74 34 0.38
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (72 bp):
GTATCGATACCATGGTAAGAGTATCGATACTAGGAAACATCAGAACTAAAAACAGTATCAATACC
AAAAGGG
Found at i:853690 original size:79 final size:79
Alignment explanation
Indices: 853557--853956 Score: 692
Period size: 79 Copynumber: 5.1 Consensus size: 79
853547 AAAACGAATG
*
853557 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGATGAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGG
*
853622 TACATTGTCAGTAT
66 TACATTGTCAGCAT
* *
853636 AAAAGAATAATGCATATGGGTGCATTATTGGAATGAAAAGATGCCATAGCTGAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGG
853701 TACATTGTCAGCAT
66 TACATTGTCAGCAT
*
853715 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGA
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGG
*
853780 TACATTGTCAGTAT
66 TACATTGTCAGCAT
853794 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGG
853859 TACATTGTCAGCAT
66 TACATTGTCAGCAT
* * *
853873 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATCGTTGAAATGCATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGG
* * *
853938 TGCATTATCAACAT
66 TACATTGTCAGCAT
853952 AAAAG
1 AAAAG
853957 TATATTATAT
Statistics
Matches: 305, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 305 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.28
Consensus pattern (79 bp):
AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGG
TACATTGTCAGCAT
Found at i:854071 original size:59 final size:59
Alignment explanation
Indices: 853998--854114 Score: 225
Period size: 59 Copynumber: 2.0 Consensus size: 59
853988 TACAATTATG
*
853998 AATTTCTGTATTGGGCACTTTGTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATA
1 AATTTCCGTATTGGGCACTTTGTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATA
854057 AATTTCCGTATTGGGCACTTTGTGTGCTAAAATGATAAGAAATTCATACTAAGTGTAT
1 AATTTCCGTATTGGGCACTTTGTGTGCTAAAATGATAAGAAATTCATACTAAGTGTAT
854115 GAACTTTTGT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (59 bp):
AATTTCCGTATTGGGCACTTTGTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATA
Found at i:862352 original size:115 final size:115
Alignment explanation
Indices: 862139--862355 Score: 353
Period size: 115 Copynumber: 1.9 Consensus size: 115
862129 TTATTATATG
* *
862139 TTAATTCGTAAACTCTATTATTTTGTACTAAACCATTTGGATACTGATGTTGGGAATTCCCCATA
1 TTAAGTCGTAAACTCTATTATTTTGTACTAAACCATTTGGAGACTGATGTTGGGAATTCCCCATA
*
862204 TTTTTAAATACTATGTTCTGTTAACGTAATTTAAATTATATACTCTTATT
66 TTTTTAAATACTATATTCTGTTAACGTAATTTAAATTATATACTCTTATT
* * *
862254 TTAAGTCGTGAACTCTATTATTTTGTATTAAACCATTTGGAGACTGATGTTGGGAATTCCTCATA
1 TTAAGTCGTAAACTCTATTATTTTGTACTAAACCATTTGGAGACTGATGTTGGGAATTCCCCATA
* * *
862319 TTTTTAAATACTATATTTTGTTAATGTATTTTAAATT
66 TTTTTAAATACTATATTCTGTTAACGTAATTTAAATT
862356 GGGTTTATAT
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
115 93 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (115 bp):
TTAAGTCGTAAACTCTATTATTTTGTACTAAACCATTTGGAGACTGATGTTGGGAATTCCCCATA
TTTTTAAATACTATATTCTGTTAACGTAATTTAAATTATATACTCTTATT
Found at i:865252 original size:20 final size:20
Alignment explanation
Indices: 865215--865276 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 20
865205 GTTCGTTCAT
** *
865215 TTATGTTCGTGAACGTTCGG
1 TTATGTTCGTTTATGTTCGG
865235 TTATGTTCGTTTATGTTCGTTCGG
1 TTATGTTCGTTTA---T-GTTCGG
865259 TTATGTTCGTTTATGTTC
1 TTATGTTCGTTTATGTTC
865277 ATTCATTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
20 15 0.43
21 1 0.03
24 19 0.54
ACGTcount: A:0.11, C:0.13, G:0.24, T:0.52
Consensus pattern (20 bp):
TTATGTTCGTTTATGTTCGG
Found at i:865255 original size:24 final size:24
Alignment explanation
Indices: 865228--865276 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
865218 TGTTCGTGAA
865228 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTCGTTTATGTT
865252 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTCGTTTATGTT
865276 C
1 C
865277 ATTCATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.08, C:0.14, G:0.24, T:0.53
Consensus pattern (24 bp):
CGTTCGGTTATGTTCGTTTATGTT
Found at i:865256 original size:14 final size:14
Alignment explanation
Indices: 865228--865269 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
865218 TGTTCGTGAA
865228 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
865242 CG-T---TTATGTT
1 CGTTCGGTTATGTT
865252 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
865266 CGTT
1 CGTT
865270 TATGTTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 9 0.38
11 1 0.04
13 1 0.04
14 13 0.54
ACGTcount: A:0.07, C:0.14, G:0.26, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:865286 original size:24 final size:24
Alignment explanation
Indices: 865234--865289 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
865224 TGAACGTTCG
* *
865234 GTTATGTTCGTTTATGTTCGTTCG
1 GTTATGTTCGTTTATGTTCATTCA
865258 GTTATGTTCGTTTATGTTCATTCA
1 GTTATGTTCGTTTATGTTCATTCA
*
865282 TTTATGTT
1 GTTATGTT
865290 TAACCCAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.12, C:0.11, G:0.20, T:0.57
Consensus pattern (24 bp):
GTTATGTTCGTTTATGTTCATTCA
Found at i:866329 original size:16 final size:16
Alignment explanation
Indices: 866308--866374 Score: 102
Period size: 16 Copynumber: 4.3 Consensus size: 16
866298 GTCTCCAACG
866308 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
866324 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
*
866340 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
866356 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
866370 TTTAT
1 TTTAT
866375 TAAATGAACG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
14 5 0.10
15 2 0.04
16 42 0.86
ACGTcount: A:0.10, C:0.10, G:0.19, T:0.60
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:866347 original size:32 final size:32
Alignment explanation
Indices: 866306--866366 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
866296 GGGTCTCCAA
866306 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
1 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
*
866338 CGTTTATGTTCGTGTTCGTTTATGTTCGT
1 CGTTTATGTTCGTGTTCATTTATGTTCGT
866367 TTATTTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.08, C:0.13, G:0.23, T:0.56
Consensus pattern (32 bp):
CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
Found at i:866461 original size:16 final size:16
Alignment explanation
Indices: 866436--866476 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
866426 AAAAAAATTT
866436 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
*
866452 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
866468 T-TT-ATTTAT
1 TGTTCATTTAT
866477 TAAATAAACG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 5 0.22
15 2 0.09
16 16 0.70
ACGTcount: A:0.12, C:0.10, G:0.17, T:0.61
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:866753 original size:12 final size:13
Alignment explanation
Indices: 866737--866772 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
866727 GTTATTTAAA
866737 CGGGTATTGGGCT
1 CGGGTATTGGGCT
866750 -GGGTATTGGG-T
1 CGGGTATTGGGCT
866761 CGGGTATTGGGC
1 CGGGTATTGGGC
866773 CGAGAATCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 1 0.05
12 20 0.95
ACGTcount: A:0.08, C:0.11, G:0.50, T:0.31
Consensus pattern (13 bp):
CGGGTATTGGGCT
Found at i:866764 original size:24 final size:24
Alignment explanation
Indices: 866737--866791 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
866727 GTTATTTAAA
* * * *
866737 CGGGTATTGGGCTGGGTATTGGGT
1 CGGGTATTGGGCCGAGAATCGGGT
866761 CGGGTATTGGGCCGAGAATCGGGT
1 CGGGTATTGGGCCGAGAATCGGGT
866785 CGGGTAT
1 CGGGTAT
866792 ATATATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.13, C:0.13, G:0.47, T:0.27
Consensus pattern (24 bp):
CGGGTATTGGGCCGAGAATCGGGT
Found at i:866877 original size:32 final size:32
Alignment explanation
Indices: 866792--866893 Score: 102
Period size: 32 Copynumber: 3.2 Consensus size: 32
866782 GGTCGGGTAT
* *
866792 ATATATATATATATATTTAAATTAAATATATAA
1 ATAT-TATATATATATTTAAATTAAATTTATTA
* *
866825 ATA-TATATTTTTTATTTAAATTAAATTTATTA
1 ATATTATA-TATATATTTAAATTAAATTTATTA
*
866857 ATATTATATATATATATAAA-TAATTATTT-TTA
1 ATATTATATATATATTTAAATTAA--ATTTATTA
866889 ATATT
1 ATATT
866894 TATCGGGTCG
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
31 7 0.12
32 40 0.69
33 11 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
ATATTATATATATATTTAAATTAAATTTATTA
Done.