Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 119 of 145
Found at i:39430670 original size:44 final size:43
Alignment explanation
Indices: 39430599--39430710 Score: 107
Period size: 44 Copynumber: 2.5 Consensus size: 43
39430589 CAGCATGCGC
* * * * * * * *
39430599 AGTATATATATATATATGTACATATAAACTATATAAAATATATT
1 AGTATGTATATATATTTGTAAAAATAAA-AAAATAAAAAAAATT
39430643 AGTATGTATATATATTTGTAAAAATAAAAAAATAAAAAAAATT
1 AGTATGTATATATATTTGTAAAAATAAAAAAATAAAAAAAATT
* *
39430686 ACATATGTATATATATATTATAAAA
1 A-GTATGTATATATAT-TTGTAAAA
39430711 CATACGCTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
43 12 0.21
44 37 0.66
45 7 0.12
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (43 bp):
AGTATGTATATATATTTGTAAAAATAAAAAAATAAAAAAAATT
Found at i:39431516 original size:13 final size:13
Alignment explanation
Indices: 39431498--39431522 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39431488 TAAAAAGAAC
39431498 AGATGTAAAAAAG
1 AGATGTAAAAAAG
39431511 AGATGTAAAAAA
1 AGATGTAAAAAA
39431523 AACCTTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (13 bp):
AGATGTAAAAAAG
Found at i:39432329 original size:44 final size:43
Alignment explanation
Indices: 39432278--39432460 Score: 126
Period size: 44 Copynumber: 4.3 Consensus size: 43
39432268 TCCACTAATG
*
39432278 CTTAGGGAGATAAGATCTGAGGTTTTAATCTGCTCCACTGCAA
1 CTTAGGGAGATAAGATCTGAGGTTTTAATCTGCTCCACTACAA
* * ** **
39432321 CTTTAGGGAGATAGGAT-TG-GTTTCTTCTGTCTGCTCCACTACTG
1 C-TTAGGGAGATAAGATCTGAGGTT-TT-AATCTGCTCCACTACAA
*** * **
39432365 CTTAGGGAGATAAGA-CTTGA---TGCGATCTGCTCTACTACTG
1 CTTAGGGAGATAAGATC-TGAGGTTTTAATCTGCTCCACTACAA
* * **
39432405 CTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAA
1 CTTAGGGAGATAAGATCTGAGGTTTTAATCTGCTCCACTACAA
39432448 CTTTAGGGAGATA
1 C-TTAGGGAGATA
39432461 GGATTGGTTT
Statistics
Matches: 106, Mismatches: 23, Indels: 21
0.71 0.15 0.14
Matches are distributed among these distances:
40 31 0.29
41 1 0.01
42 4 0.04
43 30 0.28
44 40 0.38
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (43 bp):
CTTAGGGAGATAAGATCTGAGGTTTTAATCTGCTCCACTACAA
Found at i:39432414 original size:127 final size:127
Alignment explanation
Indices: 39432241--39432472 Score: 392
Period size: 127 Copynumber: 1.8 Consensus size: 127
39432231 CTGCAACGTC
* *
39432241 AGGGGGATAGGACTTGATGCGATCTACTCCACTAATGCTTAGGGAGATAAGATCTGAGGTTTTAA
1 AGGGAGATAAGACTTGATGCGATCTACTCCACTAATGCTTAGGGAGATAAGATCTGAGGTTTTAA
*
39432306 TCTGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTT
66 TCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTT
* * * *
39432368 AGGGAGATAAGACTTGATGCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 AGGGAGATAAGACTTGATGCGATCTACTCCACTAATGCTTAGGGAGATAAGATCTGAGGTTTTAA
*
39432433 TCCGCTCCACTGTAACTTTAGGGAGATAGGATTGGTTTCT
66 TCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCT
39432473 NNNNNNNNNN
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
127 97 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (127 bp):
AGGGAGATAAGACTTGATGCGATCTACTCCACTAATGCTTAGGGAGATAAGATCTGAGGTTTTAA
TCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTT
Found at i:39432570 original size:44 final size:44
Alignment explanation
Indices: 39432507--39432750 Score: 251
Period size: 44 Copynumber: 5.6 Consensus size: 44
39432497 NNNNNNCGAT
*
39432507 CTGCTCCACTACTGCTTAGGGAGATAATATCTACCATCTTTGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGAC
* * *
39432551 CTGCTCCACTACTACTTAGGGAGATAGGATCTACCATCTTCGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGAC
* ***** * *
39432595 CTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGC-TTAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGAC
* * * ** * *
39432637 CTGCTTCACTACTGCTTAGGAAGATAAGATTTGTCGT-TTTCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTT-GAC
* * * *
39432681 CTGCTTCACTACTGCTTAGGAAGATAAGATTTACCATCTTCGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGAC
39432725 CTGCTCCACTACTGCTTAGGGAGATA
1 CTGCTCCACTACTGCTTAGGGAGATA
39432751 GGACTGGTGG
Statistics
Matches: 168, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
42 28 0.17
43 8 0.05
44 130 0.77
45 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (44 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGAC
Found at i:39432738 original size:130 final size:131
Alignment explanation
Indices: 39432505--39432777 Score: 406
Period size: 130 Copynumber: 2.1 Consensus size: 131
39432495 NNNNNNNNCG
* * *
39432505 ATCTGCTCCACTACTGCTTAGGGAGATAATATCTACCATCTTTGACCTGCTCCACTACTACTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATCTACCATCTTTGACCTGCTCCACTACTACTTAG
* *
39432570 GGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTT-
66 GAAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
39432634 A
131 A
* ** * * * *
39432635 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTTGTCGT-TTTCGATCTGCTTCACTACTGCTTA
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATCTACCATCTTT-GACCTGCTCCACTACTACTTA
*
39432699 GGAAGATAAGATTTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTT
65 GGAAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTT
39432764 AA
130 AA
39432766 ATCTGCTTCACT
1 ATCTGCTTCACT
39432778 GTAATCTCAG
Statistics
Matches: 128, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
129 3 0.02
130 112 0.88
131 13 0.10
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (131 bp):
ATCTGCTTCACTACTGCTTAGGAAGATAAGATCTACCATCTTTGACCTGCTCCACTACTACTTAG
GAAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
A
Found at i:39432833 original size:46 final size:46
Alignment explanation
Indices: 39432774--39435837 Score: 2699
Period size: 46 Copynumber: 68.6 Consensus size: 46
39432764 AAATCTGCTT
* * *
39432774 CACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGATCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
* * * *
39432820 CACTGTAACCTCAGGTAGATAAGACCTG--A---TGCGATCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
** * * * ** ** **
39432861 TGCTATAACTTCAGAGAGATAAGATCCT-TTATT-TT-AATCCGCTC
1 CACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTACTC
* * * * * ** *
39432905 CCCTGTAATCTCAGGGAGATAGGAT-T--ACTAGCTTCAATCTGCTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTACTC
* *
39432949 TACTGTAACCTCAGGGAGATAAGATCTGAACTTCTTCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
* * *
39432995 CACTGTAACCTCAGGGAGATAAGACCTG--A---TGCGATCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
* * * * ** ** **
39433036 TACTGTAACTTCAGAGAGATGAGATCCT-TTATT-TT-AATCCGCTC
1 CACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTACTC
* * * ** *
39433080 CACTGTAA-CTCAGGGAGATAGGAT-T--ACTAGCTTCAATCTGCTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTACTC
* *
39433123 TACTGTAACCTCAGGGAGATAAGATCTGAAATTCATCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
* * *
39433169 CACTGTAACCTCAGGGAGATAAGACCTG--A---TGCGATCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
* * * * * ** *** *
39433210 TACTGTAACTTCAGAGACATGAGATCCT-TTATT-TTAATTC-GCTC
1 CACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTACTC
* * * *
39433254 CACTGTAACTTCAGGGAGATAGGA--T--AGTGTCTT-GGATCTGCTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGG-TCTACTC
* * * * * ** * *
39433297 CGCTATAATCTCAGGGAGATAAGATCT---CTGGCTTCAATCTGCAC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTACTC
39433341 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
* * * * * *
39433387 CTCTGTAACCTCCGGGAGAAAAGA-CTTG--A---TGCGATCAACTC
1 CACTGTAACCTCAGGGAGATAAGATC-TGAAATTCTTCGGTCTACTC
** * * * * ** ** *
39433428 TGCTGTCACTTTAGAGAGATAAGATCCT-TTATT-TT-AATCTGCTC
1 CACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTACTC
* * * * ** *
39433472 CACTGTAATCTCAGGGAGATAGGAT-T--ACTAGCTTCAATCTGCTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTACTC
* * *
39433516 CGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39433562 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39433608 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39433654 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39433700 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39433746 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39433792 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39433838 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39433884 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39433930 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39433976 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39434022 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39434068 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39434114 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39434160 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39434206 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39434252 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39434298 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39434344 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39434390 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39434436 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39434482 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39434528 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39434574 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39434620 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39434666 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTGCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
39434712 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
* * * *
39434758 CACTGTAACCTCAGGGAGAAAAGA-CTTG--A---TGCGATCAACTC
1 CACTGTAACCTCAGGGAGATAAGATC-TGAAATTCTTCGGTCTACTC
** * * * ** ** *
39434799 TGCTGTAACTTTAGAGAGATAAGATCCT-TTATT-TT-AATCTGCTC
1 CACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTACTC
* * * * ** *
39434843 CACTGTAATCTCAGGGAGATAGGAT-T--ACTAGCTTCAATCTGCTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTACTC
* * *
39434887 CGCTGTAATCTCAGGGAGATAAGATCTGAAATTATTCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
* * *
39434933 CACTGTAACCTCAGGGAGATAAGA-CATG--A---TGCGATCAACTC
1 CACTGTAACCTCAGGGAGATAAGATC-TGAAATTCTTCGGTCTACTC
** * * * ** ** **
39434974 TGCTGTAACTTCAGAGAGATGAGATCCT-TTATT-TT-AATCCGCTC
1 CACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTACTC
* * * * **
39435018 CACTGTAATCTCAGGGAGATAGGAT-T--ACTAGCTTCAATCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTACTC
** * * * *
39435062 CGTTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCAACTG
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
* * *
39435108 CACTGTAACCTCAGGGAGATAAGACCTG--A---TGCGATCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
** * * * *** ** **
39435149 TGCTGTAACTTTAGAGAGATAAGATCTTTTATT-TT-AATCCGCTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
* * * * ** **
39435193 CACTGTAATCTCAGGGAGATAGGAT-T--ACTAGCTTCAATCTGTTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTACTC
* *
39435237 CGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39435283 CACTGTAACCTCAGGGAGATAAGATCTGAAATTATTCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39435329 CACTGTAACCTCAGGGAGATAAGATCTGAAATTATTCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
* * * *
39435375 CACTGTAACCTCAGGGAGATAAGA-CTG----TATGCGATCTGCTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
* * * * ** *** ** *
39435416 TACTGTAACTTCAGAGAGATGAGATCCT-TTATT-TT-AACCCGCTT
1 CACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTACTC
* * * * * *
39435460 CACTGTAACTTCAGAGAGATAGGA--T--AGTGTCTTCGATCTGCTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTACTC
** * * * * ** *
39435503 TGCTGTAATCTCAGGGAAATAAGATCT---CTGGCTTCAATCTGCTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTACTC
*
39435547 CACTGTAACCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
* * *
39435593 CACTGTAA-CT-AGGGAGATAAGACCTG--A---TACGATCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
** * * * ** *** **
39435632 TGCTGTAACTTCAGAGAGATGAGATCCT-TTATT-TT-AACCCGCTC
1 CACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTACTC
* * * * *
39435676 CACTGTAACTTCAGGGAGATAGGA--T--AGTGTCTTCGATCTGCTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTACTC
* * * * * ** *
39435719 CACTGTAATCTCAGGGATAGAAGATCT---CTGGCTTCAATCTGCTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTACTC
39435763 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
1 CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
39435809 CACTGTAACCTCAGGGAGATAAGACCTGA
1 CACTGTAACCTCAGGGAGATAAGATCTGA
39435838 TACGATCTAC
Statistics
Matches: 2559, Mismatches: 343, Indels: 232
0.82 0.11 0.07
Matches are distributed among these distances:
39 16 0.01
40 5 0.00
41 248 0.10
42 26 0.01
43 121 0.05
44 502 0.20
45 28 0.01
46 1597 0.62
47 16 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (46 bp):
CACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
Found at i:39432956 original size:44 final size:44
Alignment explanation
Indices: 39432907--39433143 Score: 184
Period size: 44 Copynumber: 5.4 Consensus size: 44
39432897 ATCCGCTCCC
*
39432907 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTA
1 CTGTAACCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTA
* * ** * *
39432951 CTGTAACCTCAGGGAGATAAGATCTGAACT-TCTTCGGTCTACTCCA
1 CTGTAACCTCAGGGAGATAGGAT-T--ACTAGCTTCAATCTGCTCTA
* * * * * *
39432997 CTGTAACCTCAGGGAGATAAGA--CCT-GATGCGATCTACTCTA
1 CTGTAACCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTA
* * * * * * *
39433038 CTGTAACTTCAGAGAGAT-GAGATCCT-TTA-TTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAG-GAT--TACTAGCTTCAATCTGCTCTA
39433082 CTGTAA-CTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTA
1 CTGTAACCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTA
39433125 CTGTAACCTCAGGGAGATA
1 CTGTAACCTCAGGGAGATA
39433144 AGATCTGAAA
Statistics
Matches: 149, Mismatches: 31, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
41 32 0.21
42 2 0.01
43 29 0.19
44 49 0.33
45 1 0.01
46 33 0.22
47 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CTGTAACCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTA
Found at i:39437406 original size:7 final size:7
Alignment explanation
Indices: 39437394--39437444 Score: 79
Period size: 7 Copynumber: 7.6 Consensus size: 7
39437384 AGCCTCTCCA
39437394 TTTTCAT
1 TTTTCAT
39437401 TTTTCAT
1 TTTTCAT
39437408 TTTT-AT
1 TTTTCAT
39437414 TTTTCAT
1 TTTTCAT
39437421 TTTTCA-
1 TTTTCAT
*
39437427 TTCTCAT
1 TTTTCAT
39437434 TTTTCAT
1 TTTTCAT
39437441 TTTT
1 TTTT
39437445 TTTGACTCAG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 11 0.28
7 29 0.73
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTCAT
Found at i:39437410 original size:13 final size:14
Alignment explanation
Indices: 39437394--39437444 Score: 79
Period size: 13 Copynumber: 3.8 Consensus size: 14
39437384 AGCCTCTCCA
39437394 TTTTCATTTTTCAT
1 TTTTCATTTTTCAT
39437408 TTTT-ATTTTTCAT
1 TTTTCATTTTTCAT
*
39437421 TTTTCA-TTCTCAT
1 TTTTCATTTTTCAT
39437434 TTTTCATTTTT
1 TTTTCATTTTT
39437445 TTTGACTCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 25 0.76
14 8 0.24
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTCATTTTTCAT
Found at i:39437417 original size:20 final size:20
Alignment explanation
Indices: 39437394--39437444 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
39437384 AGCCTCTCCA
* *
39437394 TTTTCATTTTTCATTTTTAT
1 TTTTCATTTTTCATTCTCAT
39437414 TTTTCATTTTTCATTCTCAT
1 TTTTCATTTTTCATTCTCAT
39437434 TTTTCATTTTT
1 TTTTCATTTTT
39437445 TTTGACTCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTCATTTTTCATTCTCAT
Found at i:39438396 original size:24 final size:22
Alignment explanation
Indices: 39438374--39438470 Score: 74
Period size: 23 Copynumber: 4.2 Consensus size: 22
39438364 TTTGATCTTG
*
39438374 ATTTTGATTTTTTCTTCTTTCTTC
1 ATTTTGATTTTTT-TTCATT-TTC
* *
39438398 TTTTTG-TTTTTTTT-ATTTTG
1 ATTTTGATTTTTTTTCATTTTC
39438418 ATTTTTGATTTTTTTTTCATTTTC
1 A-TTTTGA-TTTTTTTTCATTTTC
39438442 ATTTTGACTTTGATTTTTC-TTTTC
1 ATTTTGA-TTT--TTTTTCATTTTC
*
39438466 TTTTT
1 ATTTT
39438471 TGATCTGAGC
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
20 2 0.03
21 7 0.12
22 2 0.03
23 23 0.38
24 20 0.33
25 6 0.10
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.75
Consensus pattern (22 bp):
ATTTTGATTTTTTTTCATTTTC
Found at i:39438401 original size:50 final size:52
Alignment explanation
Indices: 39438330--39438429 Score: 125
Period size: 50 Copynumber: 2.0 Consensus size: 52
39438320 TAGATTTCTC
39438330 TTTTTTCATTCTTCTTTCTTTTTCTCATTTTCATTTTGA-TCTTGATTTTGA
1 TTTTTTCATTCTTCTTTCTTTTTCTCATTTTCATTTTGATTCTTGATTTTGA
* ** * *
39438381 TTTTTTC-TTCTT-TCTTCTTTTTGTTTTTTTTATTTTGATTTTTGATTTT
1 TTTTTTCATTCTTCT-TTCTTTTTCTCATTTTCATTTTGATTCTTGATTTT
39438430 TTTTTCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
49 1 0.02
50 25 0.60
51 16 0.38
ACGTcount: A:0.09, C:0.12, G:0.06, T:0.73
Consensus pattern (52 bp):
TTTTTTCATTCTTCTTTCTTTTTCTCATTTTCATTTTGATTCTTGATTTTGA
Found at i:39438446 original size:30 final size:30
Alignment explanation
Indices: 39438407--39438470 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
39438397 CTTTTTGTTT
* *
39438407 TTTTTATTTTGATTTTTGATTTTT-TTTTCA
1 TTTTCATTTTGA-CTTTGATTTTTCTTTTCA
*
39438437 TTTTCATTTTGACTTTGATTTTTCTTTTCT
1 TTTTCATTTTGACTTTGATTTTTCTTTTCA
39438467 TTTT
1 TTTT
39438471 TGATCTGAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.11, C:0.08, G:0.06, T:0.75
Consensus pattern (30 bp):
TTTTCATTTTGACTTTGATTTTTCTTTTCA
Found at i:39441818 original size:2 final size:2
Alignment explanation
Indices: 39441807--39441878 Score: 60
Period size: 2 Copynumber: 36.5 Consensus size: 2
39441797 AGATAAAAAT
* * *
39441807 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TG TA CA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
39441848 CTA TA TA -A AA TA TA T- TA GTA TG TA TA TA TA T
1 -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA T
39441879 TTGTAAAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
1 3 0.05
2 50 0.89
3 3 0.05
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (2 bp):
TA
Found at i:39441891 original size:44 final size:44
Alignment explanation
Indices: 39441807--39441891 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
39441797 AGATAAAAAT
* * *
39441807 TATAATATATATATATATATATATATATATGTACATATAAACTA
1 TATAAAATATATATATATATATATATATATGTAAAAATAAACTA
* *
39441851 TATAAAATATAT-TAGTATGTATATATATTTGTAAAAATAAA
1 TATAAAATATATATA-TATATATATATATATGTAAAAATAAA
39441892 AAAATAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (44 bp):
TATAAAATATATATATATATATATATATATGTAAAAATAAACTA
Found at i:39441996 original size:9 final size:10
Alignment explanation
Indices: 39441982--39442023 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
39441972 TAGATGAGGA
39441982 AATAAT-ACT
1 AATAATAACT
39441991 AATAATAACT
1 AATAATAACT
*
39442001 AATAATGAC-
1 AATAATAACT
39442010 AATAATAA-T
1 AATAATAACT
39442019 AATAA
1 AATAA
39442024 AAGATGATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 18 0.62
10 11 0.38
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (10 bp):
AATAATAACT
Found at i:39442030 original size:22 final size:22
Alignment explanation
Indices: 39441990--39442035 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
39441980 GAAATAATAC
*
39441990 TAATAATAACTAATAATGACAA
1 TAATAATAACTAAAAATGACAA
*
39442012 TAATAATAA-TAAAAGATGATAA
1 TAATAATAACTAAAA-ATGACAA
39442034 TA
1 TA
39442036 TATTAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (22 bp):
TAATAATAACTAAAAATGACAA
Found at i:39442741 original size:13 final size:13
Alignment explanation
Indices: 39442723--39442747 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39442713 TAAAAAGAAC
39442723 AGATGTAAAAAAG
1 AGATGTAAAAAAG
39442736 AGATGTAAAAAA
1 AGATGTAAAAAA
39442748 AAACCTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (13 bp):
AGATGTAAAAAAG
Found at i:39446309 original size:22 final size:22
Alignment explanation
Indices: 39446284--39446327 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
39446274 ATTGGGGTGA
39446284 GGTTGGTATAGGATTTGGGTTT
1 GGTTGGTATAGGATTTGGGTTT
* *
39446306 GGTTGGTATTGGGTTTGGGTTT
1 GGTTGGTATAGGATTTGGGTTT
39446328 AAATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.00, G:0.43, T:0.48
Consensus pattern (22 bp):
GGTTGGTATAGGATTTGGGTTT
Found at i:39451222 original size:13 final size:13
Alignment explanation
Indices: 39451206--39451230 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39451196 TATGATAAAT
39451206 TAAAAATAATAAC
1 TAAAAATAATAAC
39451219 TAAAAATAATAA
1 TAAAAATAATAA
39451231 TATATCTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAATAATAAC
Found at i:39451965 original size:28 final size:29
Alignment explanation
Indices: 39451916--39451973 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
39451906 ACCTAATGGC
39451916 ACGTTTGGTTCGTTGTATTGGATTAGAGGT
1 ACGTTTGGTTC-TTGTATTGGATTAGAGGT
39451946 ACGTTTGGTT-TTGTATTGGATTAGAGGT
1 ACGTTTGGTTCTTGTATTGGATTAGAGGT
39451974 GTAATGGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 18 0.64
30 10 0.36
ACGTcount: A:0.17, C:0.05, G:0.33, T:0.45
Consensus pattern (29 bp):
ACGTTTGGTTCTTGTATTGGATTAGAGGT
Found at i:39451981 original size:16 final size:16
Alignment explanation
Indices: 39451957--39451994 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
39451947 CGTTTGGTTT
* *
39451957 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
39451973 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
39451989 TGTAAT
1 TGTAAT
39451995 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:39466938 original size:12 final size:12
Alignment explanation
Indices: 39466921--39466945 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39466911 CCAGTGAGTT
39466921 ACACGGCCTAGC
1 ACACGGCCTAGC
39466933 ACACGGCCTAGC
1 ACACGGCCTAGC
39466945 A
1 A
39466946 TTCAGACGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.40, G:0.24, T:0.08
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:39476305 original size:20 final size:20
Alignment explanation
Indices: 39476282--39476355 Score: 96
Period size: 20 Copynumber: 3.7 Consensus size: 20
39476272 CACAATTCAC
39476282 ATCAATTAATTTAATCAAAT
1 ATCAATTAATTTAATCAAAT
* *
39476302 ATCAATTCATTTAA-CAACTT
1 ATCAATTAATTTAATCAA-AT
*
39476322 CTCAATTAATTTAATCAAAT
1 ATCAATTAATTTAATCAAAT
*
39476342 ATCAATTCATTTAA
1 ATCAATTAATTTAA
39476356 CAACTTCGTG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
19 3 0.07
20 39 0.87
21 3 0.07
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.41
Consensus pattern (20 bp):
ATCAATTAATTTAATCAAAT
Found at i:39476338 original size:40 final size:40
Alignment explanation
Indices: 39476283--39476362 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
39476273 ACAATTCACA
39476283 TCAATTAATTTAATCAAATATCAATTCATTTAACAACTTC
1 TCAATTAATTTAATCAAATATCAATTCATTTAACAACTTC
39476323 TCAATTAATTTAATCAAATATCAATTCATTTAACAACTTC
1 TCAATTAATTTAATCAAATATCAATTCATTTAACAACTTC
39476363 GTGTACGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (40 bp):
TCAATTAATTTAATCAAATATCAATTCATTTAACAACTTC
Found at i:39476748 original size:115 final size:115
Alignment explanation
Indices: 39476606--39476863 Score: 390
Period size: 115 Copynumber: 2.2 Consensus size: 115
39476596 TCGATACCAA
*
39476606 ATTGCGTATTGATATCGTTTTGGCATTTAGCCATTTTCAAAAATTTGGACACAAGCCAACCTGTA
1 ATTG-GTATTGATATCATTTTGGCATTTAGCCATTTTCAAAAATTTGGACACAAGCCAACCTGTA
** *
39476671 CCGATACCTTTATAAAGTATTGATCTTTGGAGATAAATATCAATACTGTAT
65 CCGATACCTTTATAAAGTACCGATCTTTGAAGATAAATATCAATACTGTAT
* * * *
39476722 ATTGGTATTGATATCATTTTGGCATTTAGCCTTTTTCAAAAATTTGGAGACAAGTCAACCTGTAT
1 ATTGGTATTGATATCATTTTGGCATTTAGCCATTTTCAAAAATTTGGACACAAGCCAACCTGTAC
* *
39476787 CGATACCTTTATAAAGTACCGATCTTTGAAGATAAGTATCGATACTGTAT
66 CGATACCTTTATAAAGTACCGATCTTTGAAGATAAATATCAATACTGTAT
* **
39476837 ATTGGTATTGATACCAAATTGGCATTT
1 ATTGGTATTGATATCATTTTGGCATTT
39476864 TGTTATTTTA
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
115 125 0.97
116 4 0.03
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.37
Consensus pattern (115 bp):
ATTGGTATTGATATCATTTTGGCATTTAGCCATTTTCAAAAATTTGGACACAAGCCAACCTGTAC
CGATACCTTTATAAAGTACCGATCTTTGAAGATAAATATCAATACTGTAT
Found at i:39479758 original size:21 final size:21
Alignment explanation
Indices: 39479716--39479758 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
39479706 TACGATTGTA
* *
39479716 TACCTCAATCACACGGGCGTG
1 TACCTCAATCACACGAGAGTG
39479737 TACCTCAATCACACGAGAGTG
1 TACCTCAATCACACGAGAGTG
39479758 T
1 T
39479759 CTTTCAGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (21 bp):
TACCTCAATCACACGAGAGTG
Found at i:39488208 original size:33 final size:33
Alignment explanation
Indices: 39488171--39488237 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
39488161 CTAAGTGTCT
39488171 AACCAATATGCCCTAATTGGCACCACAATTGAA
1 AACCAATATGCCCTAATTGGCACCACAATTGAA
*
39488204 AACCACTATGCCCTAATTGGCACCACAATTGAA
1 AACCAATATGCCCTAATTGGCACCACAATTGAA
39488237 A
1 A
39488238 CATTTAACCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.28, G:0.12, T:0.21
Consensus pattern (33 bp):
AACCAATATGCCCTAATTGGCACCACAATTGAA
Found at i:39499190 original size:33 final size:33
Alignment explanation
Indices: 39499148--39499219 Score: 144
Period size: 33 Copynumber: 2.2 Consensus size: 33
39499138 CATTTTAATT
39499148 CTCAATAGAATGATCATTGCTGTTAACTTTTTC
1 CTCAATAGAATGATCATTGCTGTTAACTTTTTC
39499181 CTCAATAGAATGATCATTGCTGTTAACTTTTTC
1 CTCAATAGAATGATCATTGCTGTTAACTTTTTC
39499214 CTCAAT
1 CTCAAT
39499220 CACACACCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (33 bp):
CTCAATAGAATGATCATTGCTGTTAACTTTTTC
Found at i:39511022 original size:16 final size:16
Alignment explanation
Indices: 39511001--39511031 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
39510991 TTCACTATTA
39511001 TGTCTTTTATATTTTC
1 TGTCTTTTATATTTTC
39511017 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
39511032 GCATGCATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:39511740 original size:296 final size:296
Alignment explanation
Indices: 39511206--39511797 Score: 1184
Period size: 296 Copynumber: 2.0 Consensus size: 296
39511196 TATTTGATTC
39511206 AAATATTGAGAAGGATTATTATGTCATCTACAATTTCAATTGGAGAGATGACCAGTCTTGGCTAT
1 AAATATTGAGAAGGATTATTATGTCATCTACAATTTCAATTGGAGAGATGACCAGTCTTGGCTAT
39511271 CGGAGCAGTTAACTCCACGAGTAGAGACATAGATGTATTCATTGGTAGAATAATACATTGGACTG
66 CGGAGCAGTTAACTCCACGAGTAGAGACATAGATGTATTCATTGGTAGAATAATACATTGGACTG
39511336 GATCCAAGATGAATTAATTCTAAATCCATTTGTGAATTAATTCACTTGTGGCGTTTATGGTGTGA
131 GATCCAAGATGAATTAATTCTAAATCCATTTGTGAATTAATTCACTTGTGGCGTTTATGGTGTGA
39511401 TTTACCTAAATTCTGAGTTAGTCACTAACCATACGTATGTAACTCATGTGCTTTAATATAAGTGG
196 TTTACCTAAATTCTGAGTTAGTCACTAACCATACGTATGTAACTCATGTGCTTTAATATAAGTGG
39511466 AGGCTTATGATCTAAAGATAATCGAGCCCATAGTCG
261 AGGCTTATGATCTAAAGATAATCGAGCCCATAGTCG
39511502 AAATATTGAGAAGGATTATTATGTCATCTACAATTTCAATTGGAGAGATGACCAGTCTTGGCTAT
1 AAATATTGAGAAGGATTATTATGTCATCTACAATTTCAATTGGAGAGATGACCAGTCTTGGCTAT
39511567 CGGAGCAGTTAACTCCACGAGTAGAGACATAGATGTATTCATTGGTAGAATAATACATTGGACTG
66 CGGAGCAGTTAACTCCACGAGTAGAGACATAGATGTATTCATTGGTAGAATAATACATTGGACTG
39511632 GATCCAAGATGAATTAATTCTAAATCCATTTGTGAATTAATTCACTTGTGGCGTTTATGGTGTGA
131 GATCCAAGATGAATTAATTCTAAATCCATTTGTGAATTAATTCACTTGTGGCGTTTATGGTGTGA
39511697 TTTACCTAAATTCTGAGTTAGTCACTAACCATACGTATGTAACTCATGTGCTTTAATATAAGTGG
196 TTTACCTAAATTCTGAGTTAGTCACTAACCATACGTATGTAACTCATGTGCTTTAATATAAGTGG
39511762 AGGCTTATGATCTAAAGATAATCGAGCCCATAGTCG
261 AGGCTTATGATCTAAAGATAATCGAGCCCATAGTCG
39511798 GTATGTTGGG
Statistics
Matches: 296, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
296 296 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (296 bp):
AAATATTGAGAAGGATTATTATGTCATCTACAATTTCAATTGGAGAGATGACCAGTCTTGGCTAT
CGGAGCAGTTAACTCCACGAGTAGAGACATAGATGTATTCATTGGTAGAATAATACATTGGACTG
GATCCAAGATGAATTAATTCTAAATCCATTTGTGAATTAATTCACTTGTGGCGTTTATGGTGTGA
TTTACCTAAATTCTGAGTTAGTCACTAACCATACGTATGTAACTCATGTGCTTTAATATAAGTGG
AGGCTTATGATCTAAAGATAATCGAGCCCATAGTCG
Found at i:39513015 original size:37 final size:39
Alignment explanation
Indices: 39512974--39513073 Score: 106
Period size: 37 Copynumber: 2.7 Consensus size: 39
39512964 ATATTATTTT
39512974 AATAGTTTAATATTAAATTTAAT-TT-AA-T-ACTTATCTA
1 AATAGTTTAATATT-AATTTAATATTAAATTGA-TTATCTA
* *
39513011 AATAGTATT-TTATTAATTTAATATTAAATTGATTATCTT
1 AATAGT-TTAATATTAATTTAATATTAAATTGATTATCTA
39513050 AATA-TTTAAT-TTAATTTAATATTA
1 AATAGTTTAATATTAATTTAATATTA
39513074 TTTTGTAGAT
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
36 8 0.15
37 28 0.52
38 6 0.11
39 11 0.20
40 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (39 bp):
AATAGTTTAATATTAATTTAATATTAAATTGATTATCTA
Found at i:39513157 original size:14 final size:14
Alignment explanation
Indices: 39513128--39513168 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 14
39513118 AATTTAATTT
39513128 AATATTTATCTTGATA
1 AATATTTA--TTGATA
39513144 AATATTTATTGATA
1 AATATTTATTGATA
39513158 AATATTATATT
1 AATATT-TATT
39513169 AATTTAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 12 0.50
15 4 0.17
16 8 0.33
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (14 bp):
AATATTTATTGATA
Found at i:39514529 original size:24 final size:25
Alignment explanation
Indices: 39514498--39514548 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
39514488 TTTTCTTTTA
39514498 TTTTTTG-TGTAGGTTGGGTCTATT
1 TTTTTTGTTGTAGGTTGGGTCTATT
* *
39514522 TTTTTTGTTTTAGTTTGGGTCTATT
1 TTTTTTGTTGTAGGTTGGGTCTATT
39514547 TT
1 TT
39514549 CTATTTTGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.08, C:0.04, G:0.24, T:0.65
Consensus pattern (25 bp):
TTTTTTGTTGTAGGTTGGGTCTATT
Found at i:39514708 original size:12 final size:12
Alignment explanation
Indices: 39514693--39514742 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
39514683 AAATGAGTCA
39514693 ATAAACAAGCTT
1 ATAAACAAGCTT
**
39514705 ATAAACAAGCCA
1 ATAAACAAGCTT
*
39514717 ATAAACGAGCTT
1 ATAAACAAGCTT
* *
39514729 TTAAACGAGCTT
1 ATAAACAAGCTT
39514741 AT
1 AT
39514743 TTGTGAACAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (12 bp):
ATAAACAAGCTT
Found at i:39518365 original size:31 final size:31
Alignment explanation
Indices: 39518310--39518372 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
39518300 TATATATTAA
** *
39518310 TTTTAAAATAATAATATGAAATTTTTAATTT
1 TTTTAAAATAATAATAAAAAATTTTCAATTT
39518341 TTTTAAAA-AATAATAAAAACATTTTCAATTT
1 TTTTAAAATAATAATAAAAA-ATTTTCAATTT
39518372 T
1 T
39518373 AAATTTGACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (31 bp):
TTTTAAAATAATAATAAAAAATTTTCAATTT
Found at i:39520398 original size:51 final size:54
Alignment explanation
Indices: 39520294--39520398 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
39520284 AATTCGAAAA
* * *
39520294 AAAAAGTTATTAGGGTTTAGGAGGAAGTTAAAATTTTGGGGGAAAATTAAAAGG
1 AAAAAGTTATTAGGGTTTAGGAGGAAGATAAAATTTTGGAGGAAAAGTAAAAGG
*
39520348 AAAAAGTTTTTAGGGTTT-GG-GGAA-ATAAAATTTTTGGAGG-AAAGTAAAAGG
1 AAAAAGTTATTAGGGTTTAGGAGGAAGATAAAA-TTTTGGAGGAAAAGTAAAAGG
39520399 GTTTGACTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
51 15 0.33
52 12 0.26
53 2 0.04
54 17 0.37
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.29
Consensus pattern (54 bp):
AAAAAGTTATTAGGGTTTAGGAGGAAGATAAAATTTTGGAGGAAAAGTAAAAGG
Found at i:39522875 original size:16 final size:15
Alignment explanation
Indices: 39522850--39522880 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
39522840 GAGGTGCTCA
39522850 TGGGTCGGGCCGGGC
1 TGGGTCGGGCCGGGC
39522865 TGGGTTCGGGCCGGGC
1 TGGG-TCGGGCCGGGC
39522881 CTAAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.00, C:0.26, G:0.58, T:0.16
Consensus pattern (15 bp):
TGGGTCGGGCCGGGC
Found at i:39523218 original size:91 final size:91
Alignment explanation
Indices: 39523114--39523394 Score: 562
Period size: 91 Copynumber: 3.1 Consensus size: 91
39523104 AAATTTAAAA
39523114 TAAATATTCTGTTATTGCTTTTAAGTTTTAAGCTGCAAAAAACTGTCAAATTTAATTAATTTAAA
1 TAAATATTCTGTTATTGCTTTTAAGTTTTAAGCTGCAAAAAACTGTCAAATTTAATTAATTTAAA
39523179 TTAATAACATAATAACATAATTAATT
66 TTAATAACATAATAACATAATTAATT
39523205 TAAATATTCTGTTATTGCTTTTAAGTTTTAAGCTGCAAAAAACTGTCAAATTTAATTAATTTAAA
1 TAAATATTCTGTTATTGCTTTTAAGTTTTAAGCTGCAAAAAACTGTCAAATTTAATTAATTTAAA
39523270 TTAATAACATAATAACATAATTAATT
66 TTAATAACATAATAACATAATTAATT
39523296 TAAATATTCTGTTATTGCTTTTAAGTTTTAAGCTGCAAAAAACTGTCAAATTTAATTAATTTAAA
1 TAAATATTCTGTTATTGCTTTTAAGTTTTAAGCTGCAAAAAACTGTCAAATTTAATTAATTTAAA
39523361 TTAATAACATAATAACATAATTAATT
66 TTAATAACATAATAACATAATTAATT
39523387 TAAATATT
1 TAAATATT
39523395 ATCTATGCAT
Statistics
Matches: 190, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 190 1.00
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (91 bp):
TAAATATTCTGTTATTGCTTTTAAGTTTTAAGCTGCAAAAAACTGTCAAATTTAATTAATTTAAA
TTAATAACATAATAACATAATTAATT
Found at i:39523699 original size:9 final size:9
Alignment explanation
Indices: 39523687--39523717 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
39523677 ATCATCATCC
39523687 TCATCGTCG
1 TCATCGTCG
39523696 TCATCGTCG
1 TCATCGTCG
*
39523705 TCATCGTCC
1 TCATCGTCG
39523714 TCAT
1 TCAT
39523718 TGTTTTTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.13, C:0.35, G:0.16, T:0.35
Consensus pattern (9 bp):
TCATCGTCG
Found at i:39524511 original size:17 final size:18
Alignment explanation
Indices: 39524489--39524532 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
39524479 ACGTATAGAT
39524489 TATAAAAAATA-ATTACA
1 TATAAAAAATACATTACA
*
39524506 TATAAAAAAATACATTATA
1 TAT-AAAAAATACATTACA
39524525 T-TAAAAAA
1 TATAAAAAA
39524533 ATAAATATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 9 0.38
18 9 0.38
19 6 0.25
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (18 bp):
TATAAAAAATACATTACA
Found at i:39524522 original size:19 final size:17
Alignment explanation
Indices: 39524487--39524536 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
39524477 ATACGTATAG
39524487 ATTATAAAAAATAATTAC
1 ATTA-AAAAAATAATTAC
*
39524505 ATATAAAAAAATACATTAT
1 AT-TAAAAAAATA-ATTAC
39524524 ATTAAAAAAATAA
1 ATTAAAAAAATAA
39524537 ATATGCGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.03
18 20 0.69
19 8 0.28
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (17 bp):
ATTAAAAAAATAATTAC
Found at i:39524655 original size:28 final size:31
Alignment explanation
Indices: 39524592--39524658 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 31
39524582 TACCTAGTTT
*
39524592 AAAAAAATAATTAAATATGAAAAATAAAAAAT
1 AAAAAAATAATTAAATA-GAAAAATAAAAAAC
*
39524624 AAAAAAATAATT-AATA-AAAAA-AGAAAAC
1 AAAAAAATAATTAAATAGAAAAATAAAAAAC
39524652 AAAAAAA
1 AAAAAAA
39524659 ACTAATTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 12 0.36
29 5 0.15
31 4 0.12
32 12 0.36
ACGTcount: A:0.79, C:0.01, G:0.03, T:0.16
Consensus pattern (31 bp):
AAAAAAATAATTAAATAGAAAAATAAAAAAC
Found at i:39526568 original size:6 final size:6
Alignment explanation
Indices: 39526557--39526593 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
39526547 AAATTATGAA
39526557 GGGAAT GGGAAT GGGAAT GGGAAT GGGAAT GGGAAT G
1 GGGAAT GGGAAT GGGAAT GGGAAT GGGAAT GGGAAT G
39526594 TTGATGATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.51, T:0.16
Consensus pattern (6 bp):
GGGAAT
Found at i:39527606 original size:40 final size:41
Alignment explanation
Indices: 39527546--39527628 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
39527536 AGTTGTTCCT
*
39527546 CAATTTTCTTGATGTC-TTTTTTTATGATGATTTTCGAATC
1 CAATCTTCTTGATGTCTTTTTTTTATGATGATTTTCGAATC
*
39527586 CAATCTTCTTGATGTCTTTTTTTTATGATGATTTTTGAATC
1 CAATCTTCTTGATGTCTTTTTTTTATGATGATTTTCGAATC
39527627 CA
1 CA
39527629 CTTTTTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 15 0.38
41 25 0.62
ACGTcount: A:0.20, C:0.13, G:0.12, T:0.54
Consensus pattern (41 bp):
CAATCTTCTTGATGTCTTTTTTTTATGATGATTTTCGAATC
Found at i:39529350 original size:27 final size:27
Alignment explanation
Indices: 39529289--39529442 Score: 102
Period size: 27 Copynumber: 5.7 Consensus size: 27
39529279 CTTTAGAGTG
* * *
39529289 CGCCACAAAGGCATTCC-CTTCATATAT
1 CGCCACAAAAGC-TTCCTTTTCATAGAT
* * *
39529316 CTCTACAAAAGCTT-TTGTTTCATAGAT
1 CGCCACAAAAGCTTCCT-TTTCATAGAT
*
39529343 CGCCACAAAGGCTTCCTTTTCATAGAT
1 CGCCACAAAAGCTTCCTTTTCATAGAT
* *
39529370 CGCCAC-AAAGACTTCTTTTTTATAGAT
1 CGCCACAAAAG-CTTCCTTTTCATAGAT
** * *
39529397 AACCA-TAAAGTCTTCATTTTCATAGAT
1 CGCCACAAAAG-CTTCCTTTTCATAGAT
* *
39529424 CGCCA-AAATGCTTCTTTTT
1 CGCCACAAAAGCTTCCTTTT
39529443 TCTGGCGTGT
Statistics
Matches: 99, Mismatches: 23, Indels: 11
0.74 0.17 0.08
Matches are distributed among these distances:
26 13 0.13
27 85 0.86
28 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (27 bp):
CGCCACAAAAGCTTCCTTTTCATAGAT
Found at i:39529378 original size:54 final size:54
Alignment explanation
Indices: 39529289--39529442 Score: 154
Period size: 54 Copynumber: 2.9 Consensus size: 54
39529279 CTTTAGAGTG
* * * *
39529289 CGCCACAAAGGCATTCC-CTTCATATATCTCTACAAAAGCTT-TTGTTTCATAGAT
1 CGCCACAAAGGC-TTCCTTTTCATAGATCGCCACAAAAGCTTCTT-TTTCATAGAT
*
39529343 CGCCACAAAGGCTTCCTTTTCATAGATCGCCAC-AAAGACTTCTTTTTTATAGAT
1 CGCCACAAAGGCTTCCTTTTCATAGATCGCCACAAAAG-CTTCTTTTTCATAGAT
** * * * *
39529397 AACCATAAAGTCTTCATTTTCATAGATCGCCA-AAATGCTTCTTTTT
1 CGCCACAAAGGCTTCCTTTTCATAGATCGCCACAAAAGCTTCTTTTT
39529443 TCTGGCGTGT
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
53 17 0.20
54 66 0.78
55 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (54 bp):
CGCCACAAAGGCTTCCTTTTCATAGATCGCCACAAAAGCTTCTTTTTCATAGAT
Found at i:39529443 original size:27 final size:27
Alignment explanation
Indices: 39529323--39529444 Score: 119
Period size: 27 Copynumber: 4.6 Consensus size: 27
39529313 TATCTCTACA
*
39529323 AAAGCTT-TTGTTTCATAGATCGCCAC
1 AAAGCTTCTTTTTTCATAGATCGCCAC
*
39529349 AAAGGCTTC-CTTTTCATAGATCGCCAC
1 AAA-GCTTCTTTTTTCATAGATCGCCAC
** *
39529376 AAAGACTTCTTTTTT-ATAGATAACCAT
1 AAAG-CTTCTTTTTTCATAGATCGCCAC
*
39529403 AAAGTCTTC-ATTTTCATAGATCGCCA-
1 AAAG-CTTCTTTTTTCATAGATCGCCAC
39529429 AAATGCTTCTTTTTTC
1 AAA-GCTTCTTTTTTC
39529445 TGGCGTGTTC
Statistics
Matches: 78, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
26 15 0.19
27 59 0.76
28 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (27 bp):
AAAGCTTCTTTTTTCATAGATCGCCAC
Found at i:39530764 original size:19 final size:19
Alignment explanation
Indices: 39530740--39530779 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
39530730 CTCTCACCGT
* *
39530740 TGCTTCTTTGTTCCTCTGC
1 TGCTTCATTGATCCTCTGC
39530759 TGCTTCATTGATCCTCTGC
1 TGCTTCATTGATCCTCTGC
39530778 TG
1 TG
39530780 GTGCTGGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.05, C:0.30, G:0.17, T:0.47
Consensus pattern (19 bp):
TGCTTCATTGATCCTCTGC
Found at i:39530880 original size:19 final size:19
Alignment explanation
Indices: 39530856--39530913 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 19
39530846 CCTCTACTGG
39530856 TGCTGGTTCTTTGTTCCTC
1 TGCTGGTTCTTTGTTCCTC
* *
39530875 TGCTGGTTATTTCTTCCTC
1 TGCTGGTTCTTTGTTCCTC
*
39530894 TGCTGGTGCTTTGTTCCTC
1 TGCTGGTTCTTTGTTCCTC
39530913 T
1 T
39530914 TCTCCACCAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.02, C:0.26, G:0.21, T:0.52
Consensus pattern (19 bp):
TGCTGGTTCTTTGTTCCTC
Found at i:39530903 original size:25 final size:25
Alignment explanation
Indices: 39530756--39530881 Score: 189
Period size: 25 Copynumber: 5.0 Consensus size: 25
39530746 TTTGTTCCTC
* * *
39530756 TGCTGCTTCATTGATCCTCTGCTGG
1 TGCTGGTTCTTTGTTCCTCTGCTGG
* *
39530781 TGCTGGTTCTTTATTCTTCTGCTGG
1 TGCTGGTTCTTTGTTCCTCTGCTGG
*
39530806 TGCTGGTTCTTTGTTCCTCTGTTGG
1 TGCTGGTTCTTTGTTCCTCTGCTGG
*
39530831 TGCTGGTTCTTTGTTCCTCTACTGG
1 TGCTGGTTCTTTGTTCCTCTGCTGG
39530856 TGCTGGTTCTTTGTTCCTCTGCTGG
1 TGCTGGTTCTTTGTTCCTCTGCTGG
39530881 T
1 T
39530882 TATTTCTTCC
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 90 1.00
ACGTcount: A:0.03, C:0.23, G:0.25, T:0.48
Consensus pattern (25 bp):
TGCTGGTTCTTTGTTCCTCTGCTGG
Found at i:39533836 original size:18 final size:18
Alignment explanation
Indices: 39533813--39533860 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
39533803 AAAATATGAG
*
39533813 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
39533831 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
39533849 AAATGATGTTCA
1 AAATGATGTTCA
39533861 AATTGATGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:39534436 original size:72 final size:72
Alignment explanation
Indices: 39534282--39534454 Score: 217
Period size: 72 Copynumber: 2.4 Consensus size: 72
39534272 AACAACAATG
* * * * *
39534282 CTAAACTAGTTTTATCAATAA-TTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTT
1 CTAAATTAGTTTTATCAA-AAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATATTCTACTT
39534346 ATTTATGT
65 ATTTATGT
* *
39534354 GT-AATCTAGTTTTATTAAAAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATATTCTACTT
1 CTAAAT-TAGTTTTATCAAAAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATATTCTACTT
*
39534418 ATTT-TTT
65 ATTTATGT
*
39534425 ACTAAATTAGTTTTATCAATAGTTGTTTAT
1 -CTAAATTAGTTTTATCAAAAGTTGTTTAT
39534455 ATATTATTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
71 6 0.07
72 77 0.90
73 3 0.03
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.54
Consensus pattern (72 bp):
CTAAATTAGTTTTATCAAAAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATATTCTACTTA
TTTATGT
Found at i:39535966 original size:19 final size:19
Alignment explanation
Indices: 39535921--39535981 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
39535911 ATCTAATTAC
39535921 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TA-ATTT
*
39535942 AAATATTTAAATATAATTT
1 AAATATTTAATTATAATTT
*
39535961 ATATATTCTAATTA-AATTT
1 AAATATT-TAATTATAATTT
39535980 AA
1 AA
39535982 TAAATAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 7 0.20
21 12 0.34
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATAATTT
Found at i:39536228 original size:13 final size:13
Alignment explanation
Indices: 39536210--39536283 Score: 103
Period size: 13 Copynumber: 5.7 Consensus size: 13
39536200 TTCAAAATTT
*
39536210 TCAAAAGTACTTC
1 TCAAAAGCACTTC
39536223 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
39536236 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* *
39536249 TCCACAGCACTTC
1 TCAAAAGCACTTC
*
39536262 TCAAAAGCACTTT
1 TCAAAAGCACTTC
39536275 TCAAAAGCA
1 TCAAAAGCA
39536284 ATAAAGAACT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 53 1.00
ACGTcount: A:0.38, C:0.28, G:0.08, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:39540749 original size:27 final size:27
Alignment explanation
Indices: 39540682--39540740 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
39540672 AGATCGTCAC
39540682 AAAGGCTTCCTTTTCATAGATAGCCAG
1 AAAGGCTTCCTTTTCATAGATAGCCAG
**
39540709 AAAGGCTTCCTTTTCATAGATTTCCAG
1 AAAGGCTTCCTTTTCATAGATAGCCAG
39540736 AAAGG
1 AAAGG
39540741 TTTTTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (27 bp):
AAAGGCTTCCTTTTCATAGATAGCCAG
Found at i:39544830 original size:27 final size:27
Alignment explanation
Indices: 39544800--39544864 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
39544790 TTTTTCACAC
* *
39544800 TCAAGTCTTTGTTTCAAAATTATAATA
1 TCAAGTCTTTGTTTCAAAATCATAAAA
39544827 TCAAGTCTTTGTTTCAAAATCATAAAA
1 TCAAGTCTTTGTTTCAAAATCATAAAA
*
39544854 TAAAGTCTTTG
1 TCAAGTCTTTG
39544865 AGGGAAATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (27 bp):
TCAAGTCTTTGTTTCAAAATCATAAAA
Found at i:39546282 original size:22 final size:20
Alignment explanation
Indices: 39546232--39546284 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 20
39546222 CTCAATTTAT
39546232 TCAACATAA-AAATCACAAAA
1 TCAACA-AATAAATCACAAAA
39546252 T-AACAAAATAAATCAACAAAA
1 TCAAC-AAATAAATC-ACAAAA
39546273 TGCAACAAATAA
1 T-CAACAAATAA
39546285 CATCTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 5 0.18
20 7 0.25
21 7 0.25
22 6 0.21
23 3 0.11
ACGTcount: A:0.66, C:0.17, G:0.02, T:0.15
Consensus pattern (20 bp):
TCAACAAATAAATCACAAAA
Found at i:39562677 original size:25 final size:25
Alignment explanation
Indices: 39562656--39562706 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
39562646 TATGAGCTTC
39562656 CCAATTCATAGCTCGTGAGAGCATA
1 CCAATTCATAGCTCGTGAGAGCATA
**
39562681 CTGATTCATAGCTCGT-ATGAGCATA
1 CCAATTCATAGCTCGTGA-GAGCATA
39562706 C
1 C
39562707 ATGAATATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (25 bp):
CCAATTCATAGCTCGTGAGAGCATA
Found at i:39565672 original size:26 final size:26
Alignment explanation
Indices: 39565624--39565717 Score: 109
Period size: 26 Copynumber: 3.6 Consensus size: 26
39565614 TCGCAGAGAA
* * * *
39565624 GCTGCTAGTAATAATGACGCAGC-AG
1 GCTGCCAGTAATAGTAACACAGCAAG
39565649 AGCTGCCAGTAATAGTAACACAGCAAG
1 -GCTGCCAGTAATAGTAACACAGCAAG
*
39565676 GCTGCCATTAATAGTAACACAGCAAG
1 GCTGCCAGTAATAGTAACACAGCAAG
* *
39565702 GCTGCCTGTAACAGTA
1 GCTGCCAGTAATAGTA
39565718 TATGTGGCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
26 57 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
GCTGCCAGTAATAGTAACACAGCAAG
Found at i:39566220 original size:27 final size:27
Alignment explanation
Indices: 39565895--39566224 Score: 338
Period size: 27 Copynumber: 12.2 Consensus size: 27
39565885 TATAACAGTT
*
39565895 ATTTTACCCTTCGAGGGTATTTCAGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* * * *
39565922 ATTTTAACCTTCGGGGGTATTTCAGTT
1 ATTTTACCCTTCGAGGGTATTTCGGTC
39565949 ATTTTACCCTTCG-GGTGTATTTCGGTC
1 ATTTTACCCTTCGAGG-GTATTTCGGTC
* * * *
39565976 ATTTTACTCTTCAAAGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* *
39566003 ATTTTACGCTTCGAGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* **
39566030 ATTTTACCCTTCGGGGGTATTTCTATC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
**
39566057 ATTTTACCCTTCTCGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* * *
39566084 ATTTTACCATTCGAGGGTAATTCTGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* * *
39566111 ATTTTATCCTTCGGGGGTATTTCAGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* * * ** *
39566138 ATTTTATCCTTTGAGGGTGTTTCAATT
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* * *
39566165 ATTATACCCTTTGAGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* * *
39566192 ATTTTACCCTTTGAGAGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
39566219 ATTTTA
1 ATTTTA
39566225 GGCCCATTAA
Statistics
Matches: 257, Mismatches: 44, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
26 2 0.01
27 254 0.99
28 1 0.00
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.45
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTC
Found at i:39567641 original size:32 final size:32
Alignment explanation
Indices: 39567600--39567664 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
39567590 AAATTCTGCA
39567600 AAAGCCAAGACTTGAACCCAGACTTCTCGAAC
1 AAAGCCAAGACTTGAACCCAGACTTCTCGAAC
*
39567632 AAAGCCAAGACTTGAACCTAGACTTCTCGAAC
1 AAAGCCAAGACTTGAACCCAGACTTCTCGAAC
39567664 A
1 A
39567665 CTCCCATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.29, G:0.15, T:0.17
Consensus pattern (32 bp):
AAAGCCAAGACTTGAACCCAGACTTCTCGAAC
Found at i:39572479 original size:17 final size:18
Alignment explanation
Indices: 39572444--39572479 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
39572434 AACAAAAGTC
39572444 TCCCTACAGATTTCAGTT
1 TCCCTACAGATTTCAGTT
*
39572462 TCCCTACAG-TTTCTGTT
1 TCCCTACAGATTTCAGTT
39572479 T
1 T
39572480 ACTTTAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.28, G:0.11, T:0.44
Consensus pattern (18 bp):
TCCCTACAGATTTCAGTT
Found at i:39573746 original size:27 final size:27
Alignment explanation
Indices: 39573716--39573872 Score: 183
Period size: 27 Copynumber: 5.8 Consensus size: 27
39573706 TATAACAGTT
*
39573716 ATTTTACACTTCGAGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCGATC
* * *
39573743 ATTTAACCCTTCGGGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGATC
* * *
39573770 ATTTTACCCTTCGGGGGTATTGTAG-TT
1 ATTTTACCCTTCGAGGGTATT-TCGATC
*
39573797 ATTTTACCCTTCGGGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCGATC
* *
39573824 ATTTTACCCTTTGAGGGTATTTC-AGTG
1 ATTTTACCCTTCGAGGGTATTTCGA-TC
*
39573851 AGTTTACCCTTCGAGGGTATTT
1 ATTTTACCCTTCGAGGGTATTT
39573873 TGGTCCTTTA
Statistics
Matches: 113, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
26 3 0.03
27 108 0.96
28 2 0.02
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATC
Found at i:39573842 original size:81 final size:81
Alignment explanation
Indices: 39573712--39573871 Score: 239
Period size: 81 Copynumber: 2.0 Consensus size: 81
39573702 GGGGTATAAC
* * *
39573712 AGTTATTTTACACTTCGAGGGTATTTCGATCATTTAACCCTTCGGGGGTATTTCGGTCATTTTAC
1 AGTTATTTTACACTTCGAGGGTATTTCGATCATTTAACCCTTCGAGGGTATTTCAGTCAGTTTAC
*
39573777 CCTTCGGGGGTATTGT
66 CCTTCGAGGGTATTGT
* * * * *
39573793 AGTTATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTTGAGGGTATTTCAGTGAGTTTAC
1 AGTTATTTTACACTTCGAGGGTATTTCGATCATTTAACCCTTCGAGGGTATTTCAGTCAGTTTAC
39573858 CCTTCGAGGGTATT
66 CCTTCGAGGGTATT
39573872 TTGGTCCTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.41
Consensus pattern (81 bp):
AGTTATTTTACACTTCGAGGGTATTTCGATCATTTAACCCTTCGAGGGTATTTCAGTCAGTTTAC
CCTTCGAGGGTATTGT
Found at i:39577803 original size:25 final size:25
Alignment explanation
Indices: 39577759--39577852 Score: 125
Period size: 25 Copynumber: 3.8 Consensus size: 25
39577749 ACACCACAGT
* *
39577759 TCGTATGAGCTTCCTGATTTGTAAC
1 TCGTATGAGCTTCCTGATTTGCAGC
* * * *
39577784 TCGTATGAACTTTCTAATTTACAGC
1 TCGTATGAGCTTCCTGATTTGCAGC
39577809 TCGTATGAGCTTCCTGATTTGCAGC
1 TCGTATGAGCTTCCTGATTTGCAGC
*
39577834 TCGTATGAGCTTCCCGATT
1 TCGTATGAGCTTCCTGATT
39577853 CATAACTCGT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.38
Consensus pattern (25 bp):
TCGTATGAGCTTCCTGATTTGCAGC
Found at i:39577861 original size:25 final size:25
Alignment explanation
Indices: 39577759--39577865 Score: 115
Period size: 25 Copynumber: 4.3 Consensus size: 25
39577749 ACACCACAGT
**
39577759 TCGTATGAGCTTCCTGATTTGTAAC
1 TCGTATGAGCTTCCTGATTTACAAC
* * * *
39577784 TCGTATGAACTTTCTAATTTACAGC
1 TCGTATGAGCTTCCTGATTTACAAC
* *
39577809 TCGTATGAGCTTCCTGATTTGCAGC
1 TCGTATGAGCTTCCTGATTTACAAC
* * *
39577834 TCGTATGAGCTTCCCGATTCATAAC
1 TCGTATGAGCTTCCTGATTTACAAC
39577859 TCGTATG
1 TCGTATG
39577866 GGCGTACATG
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 67 1.00
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.37
Consensus pattern (25 bp):
TCGTATGAGCTTCCTGATTTACAAC
Found at i:39577862 original size:50 final size:50
Alignment explanation
Indices: 39577759--39577865 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
39577749 ACACCACAGT
* * * * *
39577759 TCGTATGAGCTTCCTGATTTGTAACTCGTATGAACTTTCTAATTTACAGC
1 TCGTATGAGCTTCCTGATTTGCAACTCGTATGAACTTCCCAATTCACAAC
* * * *
39577809 TCGTATGAGCTTCCTGATTTGCAGCTCGTATGAGCTTCCCGATTCATAAC
1 TCGTATGAGCTTCCTGATTTGCAACTCGTATGAACTTCCCAATTCACAAC
39577859 TCGTATG
1 TCGTATG
39577866 GGCGTACATG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.37
Consensus pattern (50 bp):
TCGTATGAGCTTCCTGATTTGCAACTCGTATGAACTTCCCAATTCACAAC
Found at i:39579625 original size:23 final size:21
Alignment explanation
Indices: 39579591--39579632 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
39579581 ATAAAAGAAG
39579591 CAAGAGAAACATGCTAAACAA
1 CAAGAGAAACATGCTAAACAA
39579612 CAAGCAGAAGACATGCTAAAC
1 CAAG-AGAA-ACATGCTAAAC
39579633 TAGTAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 4 0.21
23 11 0.58
ACGTcount: A:0.52, C:0.21, G:0.17, T:0.10
Consensus pattern (21 bp):
CAAGAGAAACATGCTAAACAA
Found at i:39588557 original size:166 final size:166
Alignment explanation
Indices: 39588283--39588622 Score: 664
Period size: 166 Copynumber: 2.1 Consensus size: 166
39588273 TAGGTTTCTT
39588283 TTATTTTTAAAATTTATCCCTTCAAATTTTCTTCAATTTCAATTTAATCCTATTTGAAACGACGC
1 TTATTTTTAAAATTTATCCCTTCAAATTTTCTTCAATTTCAATTTAATCCTATTTGAAACGACGC
39588348 AGTTTTGGAGGAGAAGGGATAATTTCCTTTCCAGCCCCTCTGAATTATTAGCATGTTCAATAGGA
66 AGTTTTGGAGGAGAAGGGATAATTTCCTTTCCAGCCCCTCTGAATTATTAGCATGTTCAATAGGA
39588413 TCCCCCAGTCTTTAATTATTTATGAATTTACCCCAG
131 TCCCCCAGTCTTTAATTATTTATGAATTTACCCCAG
39588449 TTATTTTTAAAATTTATCCCTTCAAATTTTCTTCAATTTCAATTTAATCCTATTTGAAACGACGC
1 TTATTTTTAAAATTTATCCCTTCAAATTTTCTTCAATTTCAATTTAATCCTATTTGAAACGACGC
39588514 AGTTTTGGAGGAGAAGGGATAATTTCCTTTCCAGCCCCTCTGAATTATTAGCATGTTCAATAGGA
66 AGTTTTGGAGGAGAAGGGATAATTTCCTTTCCAGCCCCTCTGAATTATTAGCATGTTCAATAGGA
39588579 TCCCCCAGTCTTTAATTATTTATGAATTTACCCCAG
131 TCCCCCAGTCTTTAATTATTTATGAATTTACCCCAG
*
39588615 AT-TTTTTA
1 TTATTTTTA
39588623 TTTGTAGTTC
Statistics
Matches: 173, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
165 6 0.03
166 167 0.97
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.40
Consensus pattern (166 bp):
TTATTTTTAAAATTTATCCCTTCAAATTTTCTTCAATTTCAATTTAATCCTATTTGAAACGACGC
AGTTTTGGAGGAGAAGGGATAATTTCCTTTCCAGCCCCTCTGAATTATTAGCATGTTCAATAGGA
TCCCCCAGTCTTTAATTATTTATGAATTTACCCCAG
Found at i:39588760 original size:25 final size:25
Alignment explanation
Indices: 39588732--39588831 Score: 82
Period size: 25 Copynumber: 4.0 Consensus size: 25
39588722 TAAATATATA
* *
39588732 TATATATATGCATATTTATTTCTTT
1 TATATATATACATATTTATTTATTT
*
39588757 TATATATGTACATATTTATTTATTT
1 TATATATATACATATTTATTTATTT
* *
39588782 T-TCA-A-CTA-ATATTTTTTTCATATT
1 TAT-ATATATACATATTTATTT-AT-TT
* *
39588806 TATATATATATACATTTATTTATTT
1 TATATATATACATATTTATTTATTT
39588831 T
1 T
39588832 TCATNNNNNN
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
22 9 0.15
23 4 0.07
24 6 0.10
25 29 0.48
26 4 0.07
27 8 0.13
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (25 bp):
TATATATATACATATTTATTTATTT
Found at i:39588823 original size:49 final size:47
Alignment explanation
Indices: 39588743--39588834 Score: 130
Period size: 49 Copynumber: 1.9 Consensus size: 47
39588733 ATATATATGC
* *
39588743 ATATTTATTTCTTTTATATATGTACATATTTATTTATTTTTCAACTA
1 ATATTTATTTCTTTTATATATATACACATTTATTTATTTTTCAACTA
* *
39588790 ATATTTTTTTCATATTTATATATATATACATTTATTTATTTTTCA
1 ATATTTATTTC-T-TTTATATATATACACATTTATTTATTTTTCA
39588835 TNNNNNNNNN
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 10 0.26
48 1 0.03
49 28 0.72
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.61
Consensus pattern (47 bp):
ATATTTATTTCTTTTATATATATACACATTTATTTATTTTTCAACTA
Found at i:39592897 original size:23 final size:25
Alignment explanation
Indices: 39592871--39592916 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
39592861 TTTTTGAGCC
*
39592871 AATAATT-TT-TTTTATTCTTTTTA
1 AATAATTATTCTTTCATTCTTTTTA
39592894 AATAATTATTCTTTCATTCTTTT
1 AATAATTATTCTTTCATTCTTTT
39592917 GGATTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 2 0.10
25 11 0.55
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (25 bp):
AATAATTATTCTTTCATTCTTTTTA
Found at i:39595060 original size:88 final size:88
Alignment explanation
Indices: 39594911--39595125 Score: 331
Period size: 88 Copynumber: 2.4 Consensus size: 88
39594901 GTGAAGATAA
* *
39594911 CAGATTTTGCCTTCCTGCACCGATAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
39594976 GCAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
39594999 CAGATCTTCCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
39595064 GCGGTGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* ** *
39595087 CAGATCTGGTATTCCTGCACTGATAGCGAAGCAGATCGA
1 CAGATCTTGCCTTCCTGCACCGATAGCGAAGCAGATCGA
39595126 TGACCCCAAC
Statistics
Matches: 113, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 113 1.00
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.21
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGTTAAAAATAG
Found at i:39595212 original size:44 final size:44
Alignment explanation
Indices: 39595140--39595392 Score: 337
Period size: 44 Copynumber: 5.8 Consensus size: 44
39595130 CCCAACCCTT
** * *
39595140 TCTCCCTGAACAGCAATGGAATAGGTTAAAGATTACGAATCTTA
1 TCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATTACGAATCTTA
* *
39595184 TCTCCCTGGTCAGCAGTGAAATAAGTTAAA-ATTACGAATTTTA
1 TCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATTACGAATCTTA
39595227 TCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATTACGAATCTTA
1 TCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATTACGAATCTTA
* *
39595271 TCTCCCTGGTCAGCAGTGGAATAAGTTGAAGAATACGAATCTTA
1 TCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATTACGAATCTTA
* ** * ** *
39595315 TCTCCCTGTTCAGCAGTGGAATAAGTGGAGGATTGTGAATCCTA
1 TCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATTACGAATCTTA
* * *
39595359 TCTCCCTCGTCAGCAGTGGAATAGGTGAAAGATT
1 TCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATT
39595393 GTAGACCTTG
Statistics
Matches: 186, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
43 41 0.22
44 145 0.78
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
TCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATTACGAATCTTA
Found at i:39595431 original size:132 final size:131
Alignment explanation
Indices: 39595150--39595454 Score: 321
Period size: 132 Copynumber: 2.3 Consensus size: 131
39595140 TCTCCCTGAA
* * * *
39595150 CAGCAATGGAATAGGTTAAAGATTACGAATCTTATCTCCCTGGTCAGCAGTGAAATAAGTTAAAA
1 CAGCAGTGGAATAGGTTGAAGAATACGAATCTTATCTCCCTGGTCAGCAGTGAAATAAGTGAAAA
** * * * * *
39595215 TTACGAATTTTATCTCCCTGGTCAGCAGTGGAATAAGTTAAAGATTACGAATCTTATCTCCCTGG
66 TTACGAATCCTATCTCCCTCGTCAGCAGTGGAATAAGTGAAAGATTACGAACCTTATCTACATGG
39595280 T
131 T
* * * **
39595281 CAGCAGTGGAATAAGTTGAAGAATACGAATCTTATCTCCCTGTTCAGCAGTGGAATAAGTGGAGG
1 CAGCAGTGGAATAGGTTGAAGAATACGAATCTTATCTCCCTGGTCAGCAGTGAAATAAGT-GAAA
** * *
39595346 ATTGTGAATCCTATCTCCCTCGTCAGCAGTGGAATAGGTGAAAGATT--GTAGACCTTGTCTACA
65 ATTACGAATCCTATCTCCCTCGTCAGCAGTGGAATAAGTGAAAGATTACG-A-ACCTTATCTACA
39595409 TGAG-
128 TG-GT
* * *
39595413 CAGCAGTGGAGTGGGTTGAAAAATTAC-AGATCTTATCTCCCT
1 CAGCAGTGGAATAGGTTGAAGAA-TACGA-ATCTTATCTCCCT
39595455 AAGCAATAGT
Statistics
Matches: 144, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
130 1 0.01
131 55 0.38
132 71 0.49
133 17 0.12
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (131 bp):
CAGCAGTGGAATAGGTTGAAGAATACGAATCTTATCTCCCTGGTCAGCAGTGAAATAAGTGAAAA
TTACGAATCCTATCTCCCTCGTCAGCAGTGGAATAAGTGAAAGATTACGAACCTTATCTACATGG
T
Found at i:39595944 original size:44 final size:44
Alignment explanation
Indices: 39595847--39595967 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 44
39595837 GAAGATGGTG
* *
39595847 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGAGGAGTAGATTAAAACCAAT
* * **
39595891 AATCCTATCTCCCTGAAGTTGCAGAGGAGTGGATTAAAATTACA-
1 AATCTTATCTCCCTGAAGTTGCAGAGGAGTAGATTAAAACCA-AT
* **
39595935 GATCTTATCTCTTTGAAGTTGCAGA-GAGTAGAT
1 AATCTTATCTCCCTGAAGTTGCAGAGGAGTAGAT
39595968 CGCGTAAGTC
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
43 7 0.11
44 57 0.88
45 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGAGGAGTAGATTAAAACCAAT
Found at i:39596023 original size:44 final size:45
Alignment explanation
Indices: 39595973--39596090 Score: 134
Period size: 44 Copynumber: 2.7 Consensus size: 45
39595963 TAGATCGCGT
* * *
39595973 AAGTCTTATCTCCCTGAAGTTGTAATGGAGCAGACTGAGT-AAGA
1 AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAATGAACA
* * *
39596017 AAGTCTTAT-TCCCCTGAAATTGCAGTGGGGCAGACTGAATGAACA
1 AAGTCTTATCT-CCCTGAAGTTGTAGTGGAGCAGACTGAATGAACA
* *
39596062 AA-TCCTATCTCCCTAAAGTTGTAGTGGAG
1 AAGTCTTATCTCCCTGAAGTTGTAGTGGAG
39596091 TGGATTAGAA
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
43 1 0.02
44 53 0.88
45 6 0.10
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (45 bp):
AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAATGAACA
Found at i:39598002 original size:15 final size:15
Alignment explanation
Indices: 39597978--39598011 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
39597968 CATGTCATTG
39597978 ATTTTTATTTAT-TT
1 ATTTTTATTTATATT
39597992 ATTTATTATTTATATT
1 ATTT-TTATTTATATT
39598008 ATTT
1 ATTT
39598012 CTATACAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 8 0.44
16 6 0.33
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTTTTATTTATATT
Found at i:39602917 original size:21 final size:21
Alignment explanation
Indices: 39602893--39602935 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
39602883 AATTTTAATT
*
39602893 AATTAATTTCCCAGTTAAATA
1 AATTAATTTCCCAATTAAATA
*
39602914 AATTAATTTTCCAATTAAATA
1 AATTAATTTCCCAATTAAATA
39602935 A
1 A
39602936 TTTACTCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.40
Consensus pattern (21 bp):
AATTAATTTCCCAATTAAATA
Found at i:39605749 original size:53 final size:53
Alignment explanation
Indices: 39605691--39605799 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
39605681 GTCTAGTTTC
39605691 AATAATGAATGATCAATATATACATGGCAAGTACGTGTGACATTCTTTTCCTA
1 AATAATGAATGATCAATATATACATGGCAAGTACGTGTGACATTCTTTTCCTA
39605744 AATAATGAATGATCAATATATACATGGCAAGTACGTGTGACATTCTTTTCCTA
1 AATAATGAATGATCAATATATACATGGCAAGTACGTGTGACATTCTTTTCCTA
39605797 AAT
1 AAT
39605800 TATATGACAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (53 bp):
AATAATGAATGATCAATATATACATGGCAAGTACGTGTGACATTCTTTTCCTA
Found at i:39607617 original size:4 final size:4
Alignment explanation
Indices: 39607608--39607632 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
39607598 TTCGAACTTC
39607608 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
39607633 TTCTAAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:39611434 original size:16 final size:16
Alignment explanation
Indices: 39611383--39611426 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
39611373 TGGTTCGCTG
39611383 TAATGGAATAGATGCA
1 TAATGGAATAGATGCA
*
39611399 TAATGGAATAGATGTA
1 TAATGGAATAGATGCA
39611415 TAATGGAATAGA
1 TAATGGAATAGA
39611427 GGCGTAATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.45, C:0.02, G:0.25, T:0.27
Consensus pattern (16 bp):
TAATGGAATAGATGCA
Found at i:39611469 original size:46 final size:44
Alignment explanation
Indices: 39611416--39611508 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
39611406 ATAGATGTAT
* * *
39611416 AATGGAATAGAGGCGTAATAGGTAATTATTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCATAAT-GGT-ATTATTGTGTTTGGTTGAATAG
*
39611462 AATGGAATAGAGGCATAATGGTATTCTTGTGTTTGGTTGAATAG
1 AATGGAATAGAGGCATAATGGTATTATTGTGTTTGGTTGAATAG
39611506 AAT
1 AAT
39611509 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 22 0.51
45 3 0.07
46 18 0.42
ACGTcount: A:0.31, C:0.03, G:0.29, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAGGCATAATGGTATTATTGTGTTTGGTTGAATAG
Found at i:39630733 original size:18 final size:19
Alignment explanation
Indices: 39630686--39630735 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
39630676 TGTTTTATAA
*
39630686 TTTAATAATCTTTTACAATT
1 TTTAATAA-ATTTTACAATT
39630706 TTTAATAAATTTTA-AATAT
1 TTTAATAAATTTTACAAT-T
39630725 TTT-ATAAATTT
1 TTTAATAAATTT
39630736 AAAAATTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 11 0.39
19 9 0.32
20 8 0.29
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTAATAAATTTTACAATT
Found at i:39630904 original size:21 final size:19
Alignment explanation
Indices: 39630862--39630898 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
39630852 TATTCCTCGT
39630862 TTTCTATATATATTTTTAA
1 TTTCTATATATATTTTTAA
*
39630881 TTTCTATATATTTTTTTA
1 TTTCTATATATATTTTTA
39630899 TAATTTAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTCTATATATATTTTTAA
Found at i:39631440 original size:40 final size:41
Alignment explanation
Indices: 39631366--39631448 Score: 116
Period size: 40 Copynumber: 2.0 Consensus size: 41
39631356 TATTTAGTAA
* **
39631366 AATAAAATTTTTATTATATTTATTTGTGT-TTTTTTAATAT
1 AATAAAATATTTATTATATTTATAGGTGTGTTTTTTAATAT
39631406 AATAAAATATTTATTATATTTA-AGGTAGTGTTTTTTAATAT
1 AATAAAATATTTATTATATTTATAGGT-GTGTTTTTTAATAT
39631447 AA
1 AA
39631449 ATATTTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 2 0.05
40 23 0.61
41 13 0.34
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.55
Consensus pattern (41 bp):
AATAAAATATTTATTATATTTATAGGTGTGTTTTTTAATAT
Found at i:39637205 original size:24 final size:25
Alignment explanation
Indices: 39637142--39637205 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
39637132 ATTAGTAAAT
39637142 TTATA-TAAGAATA-TTTATTAACAA
1 TTATATTAA-AATATTTTATTAACAA
*
39637166 TTTTATTAAATTATATTTTA-TAACAA
1 TTATATTAAA--ATATTTTATTAACAA
*
39637192 TTATGTTAAAATAT
1 TTATATTAAAATAT
39637206 GATTAAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
24 9 0.27
25 3 0.09
26 17 0.52
27 4 0.12
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (25 bp):
TTATATTAAAATATTTTATTAACAA
Found at i:39637415 original size:44 final size:46
Alignment explanation
Indices: 39637352--39637442 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
39637342 ACATCTATTC
* * *
39637352 CATTCAACCAAATACAAGAA-TACC-ATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTAAGCCTCTATTCCATTA
39637396 CATTCAACCAAACAAAAGAATTACCTATTAAGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTAAGCCTCTATTCCATTA
39637442 C
1 C
39637443 GCCTCTATTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
44 18 0.43
45 4 0.10
46 20 0.48
ACGTcount: A:0.40, C:0.29, G:0.04, T:0.27
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTAAGCCTCTATTCCATTA
Found at i:39637446 original size:16 final size:16
Alignment explanation
Indices: 39637422--39637458 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
39637412 AGAATTACCT
*
39637422 ATTAAGCCTCTATTCC
1 ATTACGCCTCTATTCC
39637438 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
39637454 ATTAC
1 ATTAC
39637459 AGCGAACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.24, C:0.32, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:39639543 original size:22 final size:22
Alignment explanation
Indices: 39639499--39639557 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
39639489 ATGAATGTTG
*
39639499 TTTAAATTTATCACATATTATTAT
1 TTTAAATTTAT--CATATAATTAT
39639523 TTTAAATTTATCATATAATTAT
1 TTTAAATTTATCATATAATTAT
*
39639545 TTTAAGTTT-TCAT
1 TTTAAATTTATCAT
39639558 GTATCATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.55
24 11 0.33
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTAAATTTATCATATAATTAT
Found at i:39642192 original size:15 final size:16
Alignment explanation
Indices: 39642166--39642196 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
39642156 TATCGATACT
39642166 AATCGAGCTAAGACTC
1 AATCGAGCTAAGACTC
39642182 AATCG-GCTAAGACTC
1 AATCGAGCTAAGACTC
39642197 TTTGAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (16 bp):
AATCGAGCTAAGACTC
Found at i:39643912 original size:52 final size:52
Alignment explanation
Indices: 39643826--39643926 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 52
39643816 AGGTGTAAAA
* * * ** *
39643826 ACATAATGCATGAAATACAACAAAGGTTGGGCCTGTTTTTGCCCCTATGCGT
1 ACATAACGCATGAAATACAACAAAAGCTAAGCCTGTTTCTGCCCCTATGCGT
*
39643878 ACATAACGCATGAAATACAACAAAAGCTAAGCCTGTTTCTGTCCCTATG
1 ACATAACGCATGAAATACAACAAAAGCTAAGCCTGTTTCTGCCCCTATG
39643927 TGTAGGCCTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.27
Consensus pattern (52 bp):
ACATAACGCATGAAATACAACAAAAGCTAAGCCTGTTTCTGCCCCTATGCGT
Found at i:39648315 original size:16 final size:16
Alignment explanation
Indices: 39648294--39648381 Score: 110
Period size: 15 Copynumber: 5.7 Consensus size: 16
39648284 ATTATTTGTT
*
39648294 TAACCTTTTTAATCAA
1 TAACCTTTTCAATCAA
*
39648310 TAACCTTTTCAATTAA
1 TAACCTTTTCAATCAA
*
39648326 TAACCTTTTC-ATCGA
1 TAACCTTTTCAATCAA
*
39648341 TAGCCTTTTCAA-CAA
1 TAACCTTTTCAATCAA
*
39648356 TAACCTTTTCAAT-GA
1 TAACCTTTTCAATCAA
39648371 TAACCTTTTCA
1 TAACCTTTTCA
39648382 CGGATAACCT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
15 37 0.60
16 25 0.40
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (16 bp):
TAACCTTTTCAATCAA
Found at i:39648349 original size:15 final size:15
Alignment explanation
Indices: 39648294--39648398 Score: 97
Period size: 15 Copynumber: 6.9 Consensus size: 15
39648284 ATTATTTGTT
* *
39648294 TAACCTTTTTAATCAA
1 TAACC-TTTTCATCGA
**
39648310 TAACCTTTTCAATTAA
1 TAACCTTTTC-ATCGA
39648326 TAACCTTTTCATCGA
1 TAACCTTTTCATCGA
* * *
39648341 TAGCCTTTTCAACAA
1 TAACCTTTTCATCGA
39648356 TAACCTTTTCAAT-GA
1 TAACCTTTTC-ATCGA
39648371 TAACCTTTTCA-CGGA
1 TAACCTTTTCATC-GA
39648386 TAACCTTTTCATC
1 TAACCTTTTCATC
39648399 ATTTTCATTG
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
14 1 0.01
15 52 0.70
16 21 0.28
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (15 bp):
TAACCTTTTCATCGA
Found at i:39648360 original size:30 final size:30
Alignment explanation
Indices: 39648294--39648398 Score: 115
Period size: 30 Copynumber: 3.4 Consensus size: 30
39648284 ATTATTTGTT
* * *
39648294 TAACCTTTTTAATCAATAACCTTTTCAATTAA
1 TAACC-TTTTCATCGATAACCTTTTCAA-CAA
*
39648326 TAACCTTTTCATCGATAGCCTTTTCAACAA
1 TAACCTTTTCATCGATAACCTTTTCAACAA
*
39648356 TAACCTTTTCAAT-GATAACCTTTTC-ACGGA
1 TAACCTTTTC-ATCGATAACCTTTTCAAC-AA
39648386 TAACCTTTTCATC
1 TAACCTTTTCATC
39648399 ATTTTCATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
29 4 0.06
30 34 0.53
31 21 0.33
32 5 0.08
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (30 bp):
TAACCTTTTCATCGATAACCTTTTCAACAA
Found at i:39651019 original size:2 final size:2
Alignment explanation
Indices: 39651012--39651041 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
39651002 ACTTAAATTG
39651012 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
39651042 TGTAATTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39654576 original size:26 final size:27
Alignment explanation
Indices: 39654543--39654593 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
39654533 TCTCTATATG
39654543 AATTATTTATATATAAAT-TCCCTATT
1 AATTATTTATATATAAATCTCCCTATT
*
39654569 AATTATTTATATGTAAATCTCCCTA
1 AATTATTTATATATAAATCTCCCTA
39654594 AATAGAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.37, C:0.14, G:0.02, T:0.47
Consensus pattern (27 bp):
AATTATTTATATATAAATCTCCCTATT
Found at i:39656301 original size:18 final size:18
Alignment explanation
Indices: 39656278--39656312 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
39656268 AAAAATAAAT
*
39656278 AAATATGTATATATATAA
1 AAATATGTACATATATAA
39656296 AAATATGTACATATATA
1 AAATATGTACATATATA
39656313 TAGGTGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (18 bp):
AAATATGTACATATATAA
Found at i:39656601 original size:29 final size:28
Alignment explanation
Indices: 39656562--39656616 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
39656552 TATATACTTA
* *
39656562 TAAAAATAAAATATGTATACGTGAGATG
1 TAAAAATAAAACATATATACGTGAGATG
*
39656590 TAAAAATAAAAACATATATTCGTGAGA
1 TAAAAAT-AAAACATATATACGTGAGA
39656617 AACAGAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.53, C:0.05, G:0.15, T:0.27
Consensus pattern (28 bp):
TAAAAATAAAACATATATACGTGAGATG
Found at i:39656697 original size:3 final size:3
Alignment explanation
Indices: 39656689--39656745 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
39656679 TAAAAGAGGA
39656689 AAT AAT AAT AAT 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 AAT AAT AAT AAT
39656737 AAT AAT AAT
1 AAT AAT AAT
39656746 GCTAAAAATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:39657361 original size:17 final size:16
Alignment explanation
Indices: 39657339--39657370 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
39657329 ACATATATTT
39657339 TAAAAATAAAAGAAAAA
1 TAAAAAT-AAAGAAAAA
39657356 TAAAAATAAAGAAAA
1 TAAAAATAAAGAAAA
39657371 CAAACAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.12
Consensus pattern (16 bp):
TAAAAATAAAGAAAAA
Found at i:39658012 original size:23 final size:23
Alignment explanation
Indices: 39657986--39658040 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
39657976 ACTTCAAGGG
*
39657986 TTGACACTTATCATTCTCTTATA
1 TTGACACTTATCATCCTCTTATA
39658009 TTGACA-TCTATCATCCTCTTATA
1 TTGACACT-TATCATCCTCTTATA
*
39658032 TCGACACTT
1 TTGACACTT
39658041 GTTGAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 26 0.93
24 1 0.04
ACGTcount: A:0.25, C:0.25, G:0.05, T:0.44
Consensus pattern (23 bp):
TTGACACTTATCATCCTCTTATA
Found at i:39658696 original size:37 final size:37
Alignment explanation
Indices: 39658598--39658702 Score: 99
Period size: 37 Copynumber: 2.8 Consensus size: 37
39658588 NNNNNNNNNN
39658598 TAAAAACTAGAATTTTTAATTTTTAATATTATAAATTTT
1 TAAAAACTAGAATTTTTAATTTTTAATA-T-TAAATTTT
* ** ** * *
39658637 GATATTACTA-AACATAT-A-TTTTAATATTAATTTTT
1 TA-AAAACTAGAATTTTTAATTTTTAATATTAAATTTT
39658672 TAAAAACTAGAATTTTTAATTTTTAATATTA
1 TAAAAACTAGAATTTTTAATTTTTAATATTA
39658703 TAAATTTTGA
Statistics
Matches: 49, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
34 5 0.10
35 12 0.24
36 2 0.04
37 19 0.39
38 1 0.02
39 5 0.10
40 5 0.10
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (37 bp):
TAAAAACTAGAATTTTTAATTTTTAATATTAAATTTT
Found at i:39658715 original size:15 final size:16
Alignment explanation
Indices: 39658692--39658725 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
39658682 AATTTTTAAT
39658692 TTTTAATATT-ATAAA
1 TTTTAATATTAATAAA
*
39658707 TTTTGATATTAATAAA
1 TTTTAATATTAATAAA
39658723 TTT
1 TTT
39658726 GTGTTTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTTAATATTAATAAA
Found at i:39661508 original size:54 final size:54
Alignment explanation
Indices: 39661392--39661510 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
39661382 AGCAGACATG
* * * * * *
39661392 GTGTTACGGGCCGAGACTTTAGCTTCATTAACGCGCAATTTTAGTCGAGAGATA
1 GTGTTACGGGCCGACACTTTAGCCTCATCAACACGCAAGTTTAGTCGAAAGATA
* * * * *
39661446 ATGCTACGGGCTGACACTTTAGCCTCATCAACATGCAAGTTTAGTCGAAAGATT
1 GTGTTACGGGCCGACACTTTAGCCTCATCAACACGCAAGTTTAGTCGAAAGATA
39661500 GTGTTACGGGC
1 GTGTTACGGGC
39661511 AAAGACTTCA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (54 bp):
GTGTTACGGGCCGACACTTTAGCCTCATCAACACGCAAGTTTAGTCGAAAGATA
Found at i:39664542 original size:3 final size:3
Alignment explanation
Indices: 39664534--39664596 Score: 64
Period size: 3 Copynumber: 22.0 Consensus size: 3
39664524 GGTTAGTGCA
*
39664534 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-T GTCGT TCT AC- TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT -TC-T TCT TCT TCT
39664579 TC- TCT TC- TCT TC- TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT
39664597 CTGATGTTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
2 8 0.16
3 40 0.78
4 2 0.04
5 1 0.02
ACGTcount: A:0.02, C:0.33, G:0.03, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:39665946 original size:20 final size:19
Alignment explanation
Indices: 39665921--39665962 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
39665911 AAAAGAAAAA
*
39665921 TTCATAATTTTTGGAAATTT
1 TTCATAATGTTT-GAAATTT
*
39665941 TTCATAATGTTTGTAATTT
1 TTCATAATGTTTGAAATTT
39665960 TTC
1 TTC
39665963 TTTTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.26, C:0.07, G:0.10, T:0.57
Consensus pattern (19 bp):
TTCATAATGTTTGAAATTT
Found at i:39670783 original size:7 final size:7
Alignment explanation
Indices: 39670771--39670795 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
39670761 GGTTCTTTTC
39670771 TTTTCTT
1 TTTTCTT
39670778 TTTTCTT
1 TTTTCTT
39670785 TTTTCTT
1 TTTTCTT
39670792 TTTT
1 TTTT
39670796 GAATTTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:39674492 original size:20 final size:18
Alignment explanation
Indices: 39674457--39674493 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
39674447 TGAAACATGT
39674457 AATAAAATTAATTTTTAA
1 AATAAAATTAATTTTTAA
39674475 AATAATAATTATATTTTTA
1 AATAA-AATTA-ATTTTTA
39674494 TCACTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATAAAATTAATTTTTAA
Found at i:39677069 original size:31 final size:31
Alignment explanation
Indices: 39677007--39677069 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
39676997 AATTTTAAAA
* *
39677007 TTTGAAAAGTACAATGACTAAATCAATAATT
1 TTTGAAAAGTACAAGGACTAAAACAATAATT
* *
39677038 TTTGTAAAGTACAAGGATTAATAACAA-AATT
1 TTTGAAAAGTACAAGGACTAA-AACAATAATT
39677069 T
1 T
39677070 AAACCTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.33
Consensus pattern (31 bp):
TTTGAAAAGTACAAGGACTAAAACAATAATT
Found at i:39682426 original size:2 final size:2
Alignment explanation
Indices: 39682419--39682452 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
39682409 NNNNNNNNNN
39682419 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
39682453 GGCATGTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:39697253 original size:528 final size:529
Alignment explanation
Indices: 39696245--39697302 Score: 2109
Period size: 528 Copynumber: 2.0 Consensus size: 529
39696235 TATTATGTAA
39696245 TTTAGAACACATTAAATAAATAAATCTATGCTAAATATATAATACTACTCTAATATAAACATTAA
1 TTTAGAACACATTAAATAAATAAATCTATGCTAAATATATAATACTACTCTAATATAAACATTAA
39696310 AATAATGTTAAGATTATTAGATAAAAAATTCAATAAATAAAAAATATAGAAAATTGTCGATTGAG
66 AATAATGTTAAGATTATTAGATAAAAAATTCAATAAATAAAAAATATAGAAAATTGTCGATTGAG
39696375 TCTTAACTCGAGAGTATGTAGGTTCGAGTCCACTGAAGCTCATTATCCTCTTATTTATGGGTTGG
131 TCTTAACTCGAGAGTATGTAGGTTCGAGTCCACTGAAGCTCATTATCCTCTTATTTATGGGTTGG
39696440 GAAGGAGTTATGAGTAGTTGTAGCCATTGTGCCAAAAAGAACAGATATAATCAAAACCTATAATG
196 GAAGGAGTTATGAGTAGTTGTAGCCATTGTGCCAAAAAGAACAGATATAATCAAAACCTATAATG
39696505 CAATTATTCGAAAAGAAATTTATAAAATTATACACATTATTTGTTTAGTTGATTGGACAATTTAC
261 CAATTATTCGAAAAGAAATTTATAAAATTATACACATTATTTGTTTAGTTGATTGGACAATTTAC
39696570 TTCAAACCAATCCATAAATATACATTGCTTTAACATTCATGAATTTAAAATAACATTTGTCAAAT
326 TTCAAACCAATCCATAAATATACATTGCTTTAACATTCATGAATTTAAAATAACATTTGTCAAAT
39696635 TTTAAATGTTTTATTAAAATAACATTAAAAATTACTTCTCTCGTAAGTTTAAATTCAGTCATTTC
391 TTTAAATGTTTTATTAAAATAACATTAAAAATTACTTCTCTCGTAAGTTTAAATTCAGTCATTTC
39696700 GTATTCATCACCTATTGGTGAATAGAAGATCTTTAGATCATTCACAATTTTCTTAGAGAATGCAA
456 GTATTCATCACCTATTGGTGAATAGAAGATCTTTAGATCATTCACAATTTTCTTAGAGAATGCAA
39696765 CAAAATTGT
521 CAAAATTGT
39696774 TTTAGAACACA-TAAATAAATAAATCTATGCTAAATATATAATACTACTCTAATATAAACATTAA
1 TTTAGAACACATTAAATAAATAAATCTATGCTAAATATATAATACTACTCTAATATAAACATTAA
39696838 AATAATGTTAAGATTATTAGATAAAAAATTCAATAAATAAAAAATATAGAAAATTGTCGATTGAG
66 AATAATGTTAAGATTATTAGATAAAAAATTCAATAAATAAAAAATATAGAAAATTGTCGATTGAG
39696903 TCTTAACTCGAGAGTATGTAGGTTCGAGTCCACTGAAGCTCATTATCCTCTTATTTATGGGTTGG
131 TCTTAACTCGAGAGTATGTAGGTTCGAGTCCACTGAAGCTCATTATCCTCTTATTTATGGGTTGG
39696968 GAAGGAGTTATGAGTAGTTGTAGCCATTGTGCCAAAAAGAACAGATATAATCAAAACCTATAATG
196 GAAGGAGTTATGAGTAGTTGTAGCCATTGTGCCAAAAAGAACAGATATAATCAAAACCTATAATG
39697033 CAATTATTCGAAAAGAAATTTATAAAATTATACACATTATTTGTTTAGTTGATTGGACAATTTAC
261 CAATTATTCGAAAAGAAATTTATAAAATTATACACATTATTTGTTTAGTTGATTGGACAATTTAC
39697098 TTCAAACCAATCCATAAATATACATTGCTTTAACATTCATGAATTTAAAATAACATTTGTCAAAT
326 TTCAAACCAATCCATAAATATACATTGCTTTAACATTCATGAATTTAAAATAACATTTGTCAAAT
39697163 TTTAAATGTTTTATTAAAATAACATTAAAAATTACTTCTCTCGTAAGTTTAAATTCAGTCATTTC
391 TTTAAATGTTTTATTAAAATAACATTAAAAATTACTTCTCTCGTAAGTTTAAATTCAGTCATTTC
39697228 GTATTCATCACCTATTGGTGAATAGAAGATCTTTAGATCATTCACAATTTTCTTAGAGAATGCAA
456 GTATTCATCACCTATTGGTGAATAGAAGATCTTTAGATCATTCACAATTTTCTTAGAGAATGCAA
39697293 CAAAATTGT
521 CAAAATTGT
39697302 T
1 T
39697303 AATTGCTAGA
Statistics
Matches: 529, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
528 518 0.98
529 11 0.02
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (529 bp):
TTTAGAACACATTAAATAAATAAATCTATGCTAAATATATAATACTACTCTAATATAAACATTAA
AATAATGTTAAGATTATTAGATAAAAAATTCAATAAATAAAAAATATAGAAAATTGTCGATTGAG
TCTTAACTCGAGAGTATGTAGGTTCGAGTCCACTGAAGCTCATTATCCTCTTATTTATGGGTTGG
GAAGGAGTTATGAGTAGTTGTAGCCATTGTGCCAAAAAGAACAGATATAATCAAAACCTATAATG
CAATTATTCGAAAAGAAATTTATAAAATTATACACATTATTTGTTTAGTTGATTGGACAATTTAC
TTCAAACCAATCCATAAATATACATTGCTTTAACATTCATGAATTTAAAATAACATTTGTCAAAT
TTTAAATGTTTTATTAAAATAACATTAAAAATTACTTCTCTCGTAAGTTTAAATTCAGTCATTTC
GTATTCATCACCTATTGGTGAATAGAAGATCTTTAGATCATTCACAATTTTCTTAGAGAATGCAA
CAAAATTGT
Found at i:39706107 original size:40 final size:41
Alignment explanation
Indices: 39706031--39706107 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
39706021 GGGCATGCGG
* * * *
39706031 GGATTTAGCGGCGTTTTTTATTAAGCGCCGCTAAAGATCAA
1 GGATTTAGCGGCATTTTTGATAAAGAGCCGCTAAAGATCAA
*
39706072 GGATTTAGCGGCATTTTTGATAAATAGCCGC-AAAGA
1 GGATTTAGCGGCATTTTTGATAAAGAGCCGCTAAAGA
39706108 AACCTAAGAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 5 0.16
41 26 0.84
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (41 bp):
GGATTTAGCGGCATTTTTGATAAAGAGCCGCTAAAGATCAA
Found at i:39706274 original size:114 final size:114
Alignment explanation
Indices: 39706023--39706288 Score: 263
Period size: 114 Copynumber: 2.3 Consensus size: 114
39706013 CGTTTTCCGG
* * *
39706023 GCATGCGGGGATTTAGCGGCGTTTTTTATTAAGCGCCGCTAAAGATCAAGGATTTAGCGGCATTT
1 GCATTCGGGGATTTAGCGGCGTTTTTGAGTAAGCGCCGCTAAAGATCAAGGATTTAGCGGCATTT
* * * * *
39706088 TTGATAAATAGCCGCAAAGAAACCTAAGACCAACGACGCCGTTTTCTGA
66 GTGATAAAGAGCCGCAAAGAAACATAAGACCAACGACACCGTTCTCTGA
** ** * * * * * *
39706137 GCATTCGGTAACCTAGTGACGTTTTTGAGGT-AGCGCCGCTAATGTTC-AGTACTTTAGCGGCGT
1 GCATTCGGGGATTTAGCGGCGTTTTTGA-GTAAGCGCCGCTAAAGATCAAGGA-TTTAGCGGCAT
* * *
39706200 TTGT-ATGGAAGCGCCGCAAATAAACATAAG-CCGAACGACACCGTTCTCTGA
64 TTGTGAT-AAAGAGCCGCAAAGAAACATAAGACC-AACGACACCGTTCTCTGA
*
39706251 GTATTCGGGGATTTAGCGGCGTTTTTG-GTAAGCGCCGC
1 GCATTCGGGGATTTAGCGGCGTTTTTGAGTAAGCGCCGC
39706289 CAATAACCTA
Statistics
Matches: 119, Mismatches: 28, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
112 2 0.02
113 15 0.13
114 101 0.85
115 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (114 bp):
GCATTCGGGGATTTAGCGGCGTTTTTGAGTAAGCGCCGCTAAAGATCAAGGATTTAGCGGCATTT
GTGATAAAGAGCCGCAAAGAAACATAAGACCAACGACACCGTTCTCTGA
Found at i:39708148 original size:146 final size:145
Alignment explanation
Indices: 39707960--39708296 Score: 347
Period size: 147 Copynumber: 2.3 Consensus size: 145
39707950 TTGCTATTAC
* ** * * *
39707960 TGGCGCTTTACATAAAACGCCGCAAAATTGTATTTATGTTTATCGAAATGTTG-TCGTTTTGTCA
1 TGGCGCTTTAC-TAAAACGCCGCAAAATTGT-TTAACATTTATCGAAACGCTGCT-GTTTTGTAA
* * * *
39708024 ATGGTATTAGTGGCG-TTTTTTGGAAACGCCACAAGCTTGAGTTAAATGTTGGGGAAACGACTTC
63 ATGGTATTAGTGGCGATTTTTTGAAAACGCCACAAGCTTGAGGTAAATGTTGCGGAAACGACTGC
*
39708088 G-TTTGATCTTATATTTAG
128 GTTTTGAT-TTATAGTTAG
* * * *
39708106 TGGCGGTTTACTTAAAACGCCGCAACATTGTTCTAACATTTATAGAAACGCTGCTGTTTTTTAAA
1 TGGCGCTTTAC-TAAAACGCCGCAAAATTGTT-TAACATTTATCGAAACGCTGCTGTTTTGTAAA
* * ** * * * *
39708171 TGTTATTAGTGGCGATTTTTTTAAAACGCCACGGGTTTGAGGTAAGTGTTGCTGAAGCGACTGCG
64 TGGTATTAGTGGCGATTTTTTGAAAACGCCACAAGCTTGAGGTAAATGTTGCGGAAACGACTGCG
39708236 TTTTGATTTATAGTTAG
129 TTTTGATTTATAGTTAG
* * *
39708253 TGGCGCTTGAACTAAAACGCCGCAAAAATGTTTTAACTTTTATC
1 TGGCGCTT-TACTAAAACGCCGCAAAATTG-TTTAACATTTATC
39708297 TATACGAGGC
Statistics
Matches: 155, Mismatches: 30, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
145 1 0.01
146 63 0.41
147 81 0.52
148 10 0.06
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (145 bp):
TGGCGCTTTACTAAAACGCCGCAAAATTGTTTAACATTTATCGAAACGCTGCTGTTTTGTAAATG
GTATTAGTGGCGATTTTTTGAAAACGCCACAAGCTTGAGGTAAATGTTGCGGAAACGACTGCGTT
TTGATTTATAGTTAG
Found at i:39708312 original size:147 final size:144
Alignment explanation
Indices: 39708014--39708424 Score: 349
Period size: 146 Copynumber: 2.8 Consensus size: 144
39708004 GAAATGTTGT
* * ** * * * **
39708014 CGTTTTGTCAATGGTATTAGTGGCGTTTTTTGGAAACGCCACAAGCTTGAGTTAAATGTTGGGGA
1 CGTTTTCT-AATGTTATTAGTGGCGTTTTTTAAAAACGCCACAGGTTTGAGCTAAATGTTGATGA
* * * * * *
39708079 AACGACTTCG-TTTGATCTTATATTTAGTGGCGGTTTACTTAAAACGCCGCAACATTGTTCTAAC
65 AACGACTGCGTTTTGAT-TTATAGTTAGTGGCGCTTAAC-TAAAACGCCGCAAAAATGTTCTAAC
**
39708143 ATTTATAGAAACGCTGC
128 ATTTATAGAAACGAGGC
* * * * * * *
39708160 TGTTTTTTAAATGTTATTAGTGGCGATTTTTTTAAAACGCCACGGGTTTGAGGTAAGTGTTGCTG
1 CGTTTTCT-AATGTTATTAGTGGCG-TTTTTTAAAAACGCCACAGGTTTGAGCTAAATGTTGATG
* *
39708225 AAGCGACTGCGTTTTGATTTATAGTTAGTGGCGCTTGAACTAAAACGCCGCAAAAATGTTTTAAC
64 AAACGACTGCGTTTTGATTTATAGTTAGTGGCGCTT-AACTAAAACGCCGCAAAAATGTTCTAAC
* ** *
39708290 TTTTATCTATACGAGGC
128 ATTTATAGAAACGAGGC
* * * * * **
39708307 CGTTTTGCT-GTATTATTAGTGGCGTTTATTCAAAAACGCCACAGGTGTGCGCTATTTGTTGATG
1 CGTTTT-CTAATGTTATTAGTGGCGTTT-TTTAAAAACGCCACAGGTTTGAGCTAAATGTTGATG
* * * **
39708371 AAACAACTGCGTTTCGACTTATAGTTAGTGGCGCTTATTTATAAACGCCGCAAA
64 AAACGACTGCGTTTTGATTTATAGTTAGTGGCGCTTAACTA-AAACGCCGCAAA
39708425 TGGTTAATTT
Statistics
Matches: 213, Mismatches: 46, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
145 6 0.03
146 105 0.49
147 93 0.44
148 9 0.04
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.36
Consensus pattern (144 bp):
CGTTTTCTAATGTTATTAGTGGCGTTTTTTAAAAACGCCACAGGTTTGAGCTAAATGTTGATGAA
ACGACTGCGTTTTGATTTATAGTTAGTGGCGCTTAACTAAAACGCCGCAAAAATGTTCTAACATT
TATAGAAACGAGGC
Found at i:39714188 original size:29 final size:30
Alignment explanation
Indices: 39714155--39714239 Score: 140
Period size: 30 Copynumber: 2.9 Consensus size: 30
39714145 TAACCCCTGT
39714155 ACTTTTC-AAAATTTACATTTTGACCCCAA
1 ACTTTTCTAAAATTTACATTTTGACCCCAA
39714184 ACTTTTCTAAAATTTACATTTTGACCCCAAA
1 ACTTTTCTAAAATTTACATTTTGACCCC-AA
39714215 AC-TTTCTAAAA-TTACATTTTGACCC
1 ACTTTTCTAAAATTTACATTTTGACCC
39714240 TTAGACTTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
29 21 0.39
30 29 0.54
31 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.39
Consensus pattern (30 bp):
ACTTTTCTAAAATTTACATTTTGACCCCAA
Found at i:39714266 original size:59 final size:59
Alignment explanation
Indices: 39714158--39714270 Score: 142
Period size: 59 Copynumber: 1.9 Consensus size: 59
39714148 CCCCTGTACT
* *
39714158 TTTCAAAATTTACATTTTGACCCCAAACTTTTCTAAAATTTACATTTTGACCCCAAAAC
1 TTTCAAAATTTACATTTTGACCCCAAACTTTTCTAAAAATTACACTTTGACCCCAAAAC
* *
39714217 TTTCTAAAA-TTACATTTTGACCCTTAGAC-TTTCTCAAAAATT-CACTTTGACCCC
1 TTTC-AAAATTTACATTTTGACCC-CAAACTTTTCT-AAAAATTACACTTTGACCCC
39714271 TAATCTACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
59 34 0.72
60 13 0.28
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (59 bp):
TTTCAAAATTTACATTTTGACCCCAAACTTTTCTAAAAATTACACTTTGACCCCAAAAC
Done.