Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 42 of 136
Found at i:13761357 original size:11 final size:10
Alignment explanation
Indices: 13761343--13761445 Score: 61
Period size: 11 Copynumber: 9.9 Consensus size: 10
13761333 AAATAGGGAT
13761343 TTGAGAGAAA
1 TTGAGAGAAA
*
13761353 TTTGAAAGGAAA
1 -TTGAGA-GAAA
13761365 TTGAGAGCAAA
1 TTGAGAG-AAA
*
13761376 TTGAGATTAAA
1 TTGAGA-GAAA
* *
13761387 -T-AG-GGAT
1 TTGAGAGAAA
13761394 TTGAGAGAAA
1 TTGAGAGAAA
*
13761404 TTTGAAAGCAAA
1 -TTGAGAG-AAA
13761416 TTGAGAGCAAA
1 TTGAGAG-AAA
13761427 TTGAGAGGAAA
1 TTGAGA-GAAA
13761438 TT-AGAGAA
1 TTGAGAGAA
13761446 GGAATGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 7 0.10
10 7 0.10
11 49 0.67
12 8 0.11
ACGTcount: A:0.47, C:0.03, G:0.27, T:0.23
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:13761371 original size:22 final size:22
Alignment explanation
Indices: 13761343--13761445 Score: 75
Period size: 22 Copynumber: 4.4 Consensus size: 22
13761333 AAATAGGGAT
13761343 TTGAGAGAAATTTGAAAGGAAA
1 TTGAGAGAAATTTGAAAGGAAA
* * *
13761365 TTGAGAGCAAATTGAGATTAAATAGGGAT
1 TTGAGAG-AAA-T----TTGAA-AGGAAA
*
13761394 TTGAGAGAAATTTGAAAGCAAA
1 TTGAGAGAAATTTGAAAGGAAA
*
13761416 TTGAGAGCAAA-TTGAGAGGAAA
1 TTGAGAG-AAATTTGAAAGGAAA
13761438 TT-AGAGAA
1 TTGAGAGAA
13761446 GGAATGATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
20 2 0.03
21 4 0.06
22 28 0.44
23 10 0.16
24 1 0.02
27 1 0.02
28 7 0.11
29 11 0.17
ACGTcount: A:0.47, C:0.03, G:0.27, T:0.23
Consensus pattern (22 bp):
TTGAGAGAAATTTGAAAGGAAA
Found at i:13761386 original size:51 final size:51
Alignment explanation
Indices: 13761331--13761432 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
13761321 TAAAGCTCTT
*
13761331 TTAAATAGGGATTTGAGAGAAATTTGAAAGGAAATTGAGAGCAAATTGAGA
1 TTAAATAGGGATTTGAGAGAAATTTGAAAGCAAATTGAGAGCAAATTGAGA
13761382 TTAAATAGGGATTTGAGAGAAATTTGAAAGCAAATTGAGAGCAAATTGAGA
1 TTAAATAGGGATTTGAGAGAAATTTGAAAGCAAATTGAGAGCAAATTGAGA
13761433 GGAAATTAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.45, C:0.03, G:0.26, T:0.25
Consensus pattern (51 bp):
TTAAATAGGGATTTGAGAGAAATTTGAAAGCAAATTGAGAGCAAATTGAGA
Found at i:13761877 original size:9 final size:9
Alignment explanation
Indices: 13761851--13761901 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
13761841 TAAAAATTTT
13761851 ATTTTTATA
1 ATTTTTATA
13761860 ATTTGTTTATA
1 A-TT-TTTATA
*
13761871 ATTTTTATG
1 ATTTTTATA
13761880 ATTTTTA-A
1 ATTTTTATA
13761888 TATTTTTA-A
1 -ATTTTTATA
13761897 ATTTT
1 ATTTT
13761902 AAAAGCGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
8 5 0.14
9 21 0.57
10 4 0.11
11 7 0.19
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:13761892 original size:18 final size:19
Alignment explanation
Indices: 13761850--13761900 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
13761840 ATAAAAATTT
*
13761850 TATTTTTATAATTTGTTTA
1 TATTTTTATAATTTGTTAA
*
13761869 TAATTTTTATGATTT-TTAA
1 T-ATTTTTATAATTTGTTAA
13761888 TATTTTTA-AATTT
1 TATTTTTATAATTT
13761901 TAAAAGCGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 4 0.14
18 7 0.25
19 5 0.18
20 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TATTTTTATAATTTGTTAA
Found at i:13766880 original size:28 final size:28
Alignment explanation
Indices: 13766843--13766901 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
13766833 ATATGCTTAG
13766843 AATCCCTAATGAGTCTATTTTCTGAAGA
1 AATCCCTAATGAGTCTATTTTCTGAAGA
13766871 AATCCCTAATGAGTCTATTTTCTGAAGA
1 AATCCCTAATGAGTCTATTTTCTGAAGA
13766899 AAT
1 AAT
13766902 AAAGGAAAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (28 bp):
AATCCCTAATGAGTCTATTTTCTGAAGA
Found at i:13778503 original size:62 final size:62
Alignment explanation
Indices: 13778427--13778553 Score: 227
Period size: 62 Copynumber: 2.0 Consensus size: 62
13778417 TATTCTAAAT
* * *
13778427 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATGGGGTATGGGTCGA
1 TTTAATTACAATCTTATCTATGATGTTTCATACAAAGTTCAAAATTATAGGGTATGGGTCGA
13778489 TTTAATTACAATCTTATCTATGATGTTTCATACAAAGTTCAAAATTATAGGGTATGGGTCGA
1 TTTAATTACAATCTTATCTATGATGTTTCATACAAAGTTCAAAATTATAGGGTATGGGTCGA
13778551 TTT
1 TTT
13778554 CACGTCACAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.41
Consensus pattern (62 bp):
TTTAATTACAATCTTATCTATGATGTTTCATACAAAGTTCAAAATTATAGGGTATGGGTCGA
Found at i:13779486 original size:108 final size:108
Alignment explanation
Indices: 13779297--13779512 Score: 396
Period size: 108 Copynumber: 2.0 Consensus size: 108
13779287 TATTTCTCTT
13779297 TTTCTATCTTTTATTTCTTTTATTTAATTAGTTTAATATAATAACAATAAAATAATAATATAAAA
1 TTTCTATCTTTTATTTCTTTTATTTAATTAGTTTAATATAATAACAATAAAATAATAATATAAAA
*
13779362 TTACTTACTTAAATAATAAGTAAATATGTAATCATTACTAATA
66 TTACTTACTTAAATAATAAGTAAATATGTAATAATTACTAATA
*
13779405 TTTCTATCTTTTATTTCTTTTATTTAATTAGTTTAATATAATAACAATAAAATAATAATATAATA
1 TTTCTATCTTTTATTTCTTTTATTTAATTAGTTTAATATAATAACAATAAAATAATAATATAAAA
* *
13779470 TTATTTACTTAAATAATAAGTAAATATTTAATAATTACTAATA
66 TTACTTACTTAAATAATAAGTAAATATGTAATAATTACTAATA
13779513 AATGTATTTC
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 104 1.00
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.47
Consensus pattern (108 bp):
TTTCTATCTTTTATTTCTTTTATTTAATTAGTTTAATATAATAACAATAAAATAATAATATAAAA
TTACTTACTTAAATAATAAGTAAATATGTAATAATTACTAATA
Found at i:13779662 original size:23 final size:23
Alignment explanation
Indices: 13779628--13779671 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
13779618 AAGTATGTAT
13779628 ATATATTAATTACAAATGTATAC
1 ATATATTAATTACAAATGTATAC
* *
13779651 ATATATTTATTACACATGTAT
1 ATATATTAATTACAAATGTAT
13779672 TTATAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (23 bp):
ATATATTAATTACAAATGTATAC
Found at i:13783245 original size:22 final size:22
Alignment explanation
Indices: 13783218--13783270 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
13783208 TAAGCTCTCA
13783218 TAAATTTTTAAAAAATTATA-AAT
1 TAAATTTTT-AAAAATT-TAGAAT
*
13783241 T-AATTGTTAAAAATTTAGAAT
1 TAAATTTTTAAAAATTTAGAAT
13783262 TAAATTTTT
1 TAAATTTTT
13783271 TTATTAAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 2 0.08
21 11 0.42
22 12 0.46
23 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAATTTTTAAAAATTTAGAAT
Found at i:13784492 original size:19 final size:19
Alignment explanation
Indices: 13784468--13784505 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13784458 TGTCGTTTGT
13784468 TTGCTCATATTCCTCGCGA
1 TTGCTCATATTCCTCGCGA
13784487 TTGCTCATATTCCTCGCGA
1 TTGCTCATATTCCTCGCGA
13784506 GGGTAATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.37
Consensus pattern (19 bp):
TTGCTCATATTCCTCGCGA
Found at i:13786041 original size:7 final size:7
Alignment explanation
Indices: 13786031--13786063 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
13786021 AGGAGAGAAT
13786031 GATGAGG
1 GATGAGG
13786038 GATGAGG
1 GATGAGG
13786045 GATGAGG
1 GATGAGG
13786052 GATGAGG
1 GATGAGG
13786059 GATGA
1 GATGA
13786064 TTGAAAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.55, T:0.15
Consensus pattern (7 bp):
GATGAGG
Found at i:13805913 original size:101 final size:99
Alignment explanation
Indices: 13805766--13806096 Score: 361
Period size: 101 Copynumber: 3.3 Consensus size: 99
13805756 AAAACCAAGG
* * *
13805766 TGGTGGAGCCATTCT-TAATGGCTCCACCAAAATAAAATATCATTTTTAAAATTTTTAGATTAAA
1 TGGTGGCGCCATTCTAT-ATGGCTCCACC-AAATAAAATATTATTTTTAAAATTTTTAAATTAAA
*
13805830 AAAAACGACACATTTAAAAAAAATCCATAC-AGTACAC
64 AAAAA--ACACATTTAAAAAAAATCCATACTAGTAAAC
* *
13805867 TGGTGGTGCCATTCTATATGGCTCCACCAAATAAAATATTACTTTTT-AAATTTTTAAAATAAAA
1 TGGTGGCGCCATTCTATATGGCTCCACCAAATAAAATATTA-TTTTTAAAATTTTTAAATTAAAA
* * *
13805931 AAATAACACATTTAAAAATATAT-TATACATAGTATAC
65 AAA-AACACATTTAAAAA-AAATCCATAC-TAGTAAAC
* ** * *
13805968 TGGTGGCGCCATTCTATATGGATCTGCCAAATAAAATATTGTTTTTTAAAATTTTTAAATT-TAA
1 TGGTGGCGCCATTCTATATGGCTCCACCAAATAAAATATT-ATTTTTAAAATTTTTAAATTAAAA
* *
13806032 AAAAACACATTTAAAAAAAACTCC-TACTAATAAAA
65 AAAAACACATTTAAAAAAAA-TCCATACTAGTAAAC
*
13806067 TGGTGGCGCCATT-TAGAATGGCTCCACCAA
1 TGGTGGCGCCATTCTA-TATGGCTCCACCAA
13806097 TAAGAAAACA
Statistics
Matches: 196, Mismatches: 23, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
98 2 0.01
99 47 0.24
100 51 0.26
101 83 0.42
102 13 0.07
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (99 bp):
TGGTGGCGCCATTCTATATGGCTCCACCAAATAAAATATTATTTTTAAAATTTTTAAATTAAAAA
AAAACACATTTAAAAAAAATCCATACTAGTAAAC
Found at i:13811395 original size:9 final size:9
Alignment explanation
Indices: 13811369--13811419 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
13811359 ATAAAAAATT
13811369 ATTTTTATA
1 ATTTTTATA
13811378 ATTTGTTTATA
1 A-TT-TTTATA
*
13811389 ATTTTTATG
1 ATTTTTATA
13811398 ATTTTTA-A
1 ATTTTTATA
13811406 TATTTTTA-A
1 -ATTTTTATA
13811415 ATTTT
1 ATTTT
13811420 AAAAGCATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
8 5 0.14
9 21 0.57
10 4 0.11
11 7 0.19
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:13811410 original size:18 final size:19
Alignment explanation
Indices: 13811368--13811418 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
13811358 TATAAAAAAT
*
13811368 TATTTTTATAATTTGTTTA
1 TATTTTTATAATTTGTTAA
*
13811387 TAATTTTTATGATTT-TTAA
1 T-ATTTTTATAATTTGTTAA
13811406 TATTTTTA-AATTT
1 TATTTTTATAATTT
13811419 TAAAAGCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 4 0.14
18 7 0.25
19 5 0.18
20 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TATTTTTATAATTTGTTAA
Found at i:13819443 original size:25 final size:25
Alignment explanation
Indices: 13819414--13819499 Score: 81
Period size: 25 Copynumber: 3.6 Consensus size: 25
13819404 CCTTAGCGCA
13819414 CTCTCTGATTAATAACACATTAGTG
1 CTCTCTGATTAATAACACATTAGTG
* * * *
13819439 CTCTCCGATTATTAGCACATTTA-TA
1 CTCTCTGATTAATAACACA-TTAGTG
*
13819464 CTCTCTG--T-ATAACACTTTAGTG
1 CTCTCTGATTAATAACACATTAGTG
*
13819486 CTCTCTGTTTAATA
1 CTCTCTGATTAATA
13819500 GTACATAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
21 3 0.06
22 13 0.28
23 1 0.02
24 1 0.02
25 26 0.55
26 3 0.06
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (25 bp):
CTCTCTGATTAATAACACATTAGTG
Found at i:13821933 original size:951 final size:950
Alignment explanation
Indices: 13819982--13821884 Score: 3581
Period size: 951 Copynumber: 2.0 Consensus size: 950
13819972 TTTTAAGGAT
* ** **
13819982 CAATAGTGCAACTGTTTTAAGGGTGGAATGATATAGAAACTAAGGAAAATGGATGAATTAGGACC
1 CAATAGTGCAAATGAATTAAGGGTCCAATGATATAG-AACTAAGGAAAATGGATGAATTAGGACC
13820047 AAATTGAATAATTGAAGAATTATGAGGGACTAAATCTTAATTCTACCAAATTGAGTGATGGCTCA
65 AAATTGAATAATTGAAGAATTATGAGGGACTAAATCTTAATTCTACCAAATTGAGTGATGGCTCA
13820112 AGGATGGAATTTTAAAAGATCATAAAGGGAAAAATGGTCAATTAGAAGGAGAGATAAATCTAGAA
130 AGGATGGAATTTTAAAAGATCATAAAGGGAAAAATGGTCAATTAGAAGGAGAGATAAATCTAGAA
13820177 GGCAATGATGATGTTGGTGATATTTTAGATAATTAAATAAATATTAGTTTATAATATCTTGATTT
195 GGCAATGATGATGTTGGTGATATTTTAGATAATTAAATAAATATTAGTTTATAATATCTTGATTT
13820242 GAATTTTTTTAATGATATTTTATTATTTTATTTAGCATATATATATGTGGAAAGAAAGATGAAAA
260 GAATTTTTTTAATGATATTTTATTATTTTATTTAGCATATATATATGTGGAAAGAAAGATGAAAA
13820307 GCCATCATCCCACTATTTTTCCCATGCACTAACATGAGAAGAAGAGAGAAATAAATAAATTTTTG
325 GCCATCATCCCACTATTTTTCCCATGCACTAACATGAGAAGAAGAGAGAAATAAATAAATTTTTG
13820372 CTTTCTTTACAATTTGGTCCTTCCACCAAAAATGTACTATTTTCACCTAGAAATCAAAAGAATTT
390 CTTTCTTTACAATTTGGTCCTTCCACCAAAAATGTACTATTTTCACCTAGAAATCAAAAGAATTT
13820437 CCATAGCTACCAAGAGAGAAAAATGTTAGAAGACTATGGGGAGCTAGAATATCAAGTTAGATTCA
455 CCATAGCTACCAAGAGAGAAAAATGTTAGAAGACTATGGGGAGCTAGAATATCAAGTTAGATTCA
* * *
13820502 AGAAATAGAAGCTAGAAGAGAGAGAAAATCAAGTTAAAGGTTGAAACCAATAGGACAAGGTAAGA
520 AGAAATAGAAGCTAGAAGAGAGAGAAAATCAAGTTAAAGATTAAAACCAATAGCACAAGGTAAGA
*
13820567 ACATCAAGATTTCAACATATTTTTAAGTTTGATATTATTGAAAAAGCATGGAAATGATGTTATAG
585 AAATCAAGATTTCAACATATTTTTAAGTTTGATATTATTGAAAAAGCATGGAAATGATGTTATAG
13820632 TAGAGTTTAATTATATAAGGTCTTATGTTATTGATATATTAGTGAAGAAAAATAAGATAAAGCAA
650 TAGAGTTTAATTATATAAGGTCTTATGTTATTGATATATTAGTGAAGAAAAATAAGATAAAGCAA
13820697 TGGGAAATATTATAGAAAAAGGGAATAAGGGTGTTATAAAGTTAGCAATCAACATCTTGCATTAA
715 TGGGAAATATTATAGAAAAAGGGAATAAGGGTGTTATAAAGTTAGCAATCAACATCTTGCATTAA
13820762 AATTGTTTTGGACAGCAGCAGTAGTCTAACTTTGAAAAATCATAAAAAATTGTGGAAATTTAATT
780 AATTGTTTTGGACAGCAGCAGTAGTCTAACTTTGAAAAATCATAAAAAATTGTGGAAATTTAATT
13820827 AGAGGATGAACAAAACATGGAATTAAATCTTATTAAGTCTAGTTTCTCATAGAAGAAATTGTGTA
845 AGAGGATGAACAAAACATGGAATTAAATCTTATTAAGTCTAGTTTCTCATAGAAGAAATTGTGTA
*
13820892 AGTAATGGAATTGTAAATCATGAGATATAATAAATTTTGTT
910 AGTAATGGAATTGTAAATCATGAGATATAATAAATTTTGTA
* ** **
13820933 CAATAGTGCAACTGTTTTAAGGGTGGAATGATATAGAAACTAAGGAAAATGGATGAATTAGGACC
1 CAATAGTGCAAATGAATTAAGGGTCCAATGATATAG-AACTAAGGAAAATGGATGAATTAGGACC
13820998 AAATTGAATAATTGAAGAATTATGAGGGACTAAATCTTAATTCTACCAAATTGAGTGATGGCTCA
65 AAATTGAATAATTGAAGAATTATGAGGGACTAAATCTTAATTCTACCAAATTGAGTGATGGCTCA
13821063 AGGATGGAATTTTAAAAGATCATAAAGGGAAAAATGGTCAATTAGAAGGAGAGATAAATCTAGAA
130 AGGATGGAATTTTAAAAGATCATAAAGGGAAAAATGGTCAATTAGAAGGAGAGATAAATCTAGAA
13821128 GGCAATGATGATGTTGGTGATATTTTAGATAATTAAATAAATATTAGTTTATAATATCTTGATTT
195 GGCAATGATGATGTTGGTGATATTTTAGATAATTAAATAAATATTAGTTTATAATATCTTGATTT
13821193 GAATTTTTTTAATGATATTTTATTATTTTATTTAGCATATATATATGTGGAAAGAAAGATGAAAA
260 GAATTTTTTTAATGATATTTTATTATTTTATTTAGCATATATATATGTGGAAAGAAAGATGAAAA
13821258 GCCATCATCCCACTATTTTTCCCATGCACTAACATGAGAAGAAGAGAGAAATAAATAAATTTTTG
325 GCCATCATCCCACTATTTTTCCCATGCACTAACATGAGAAGAAGAGAGAAATAAATAAATTTTTG
13821323 CTTTCTTTACAATTTGGTCCTTCCACCAAAAATGTACTATTTTCACCTAGAAATCAAAAGAATTT
390 CTTTCTTTACAATTTGGTCCTTCCACCAAAAATGTACTATTTTCACCTAGAAATCAAAAGAATTT
13821388 CCATAGCTACCAAGAGAGAAAAATGTTAGAAGACTATGGGGAGCTAGAATATCAAGTTAGATTCA
455 CCATAGCTACCAAGAGAGAAAAATGTTAGAAGACTATGGGGAGCTAGAATATCAAGTTAGATTCA
*
13821453 AGAAATAGAAGCTAGAAGAGAGAGAAAATCAAGTTAAAGATTAAAATCAATAGCACAAGGTAAGA
520 AGAAATAGAAGCTAGAAGAGAGAGAAAATCAAGTTAAAGATTAAAACCAATAGCACAAGGTAAGA
* * * *
13821518 AAATCAAGATTTCAATATATTTTTAAGTTTGTTATTGTTGAAAAAGCATGGAAATGATGTTGTAG
585 AAATCAAGATTTCAACATATTTTTAAGTTTGATATTATTGAAAAAGCATGGAAATGATGTTATAG
*
13821583 TAGAGTTTTCTATTATATAAGGTCTTATGTTATTGATATATTAGTGAAGAAAAATAAGATAAAGC
650 TAGAG-TTT-AATTATATAAGGTCTTATGTTATTGATATATTAGTGAAGAAAAATAAGATAAAGC
13821648 AATGGGAAATATTATAGAAAAAGGGAATAAGGGTGTTATAAAGTTAGCAATCAACATCTTGCATT
713 AATGGGAAATATTATAGAAAAAGGGAATAAGGGTGTTATAAAGTTAGCAATCAACATCTTGCATT
13821713 AAAATTGTTTTGGACAGCAGCAGTAGTCTAACTTTGAAAAATCATAAAAAATTGTGGAAATTTAA
778 AAAATTGTTTTGGACAGCAGCAGTAGTCTAACTTTGAAAAATCATAAAAAATTGTGGAAATTTAA
13821778 TTAGAGGATGAACAAAACATGGAATTAAATCTTATTAAGTCTAGTTTCTCATAGAAGAAATTGTG
843 TTAGAGGATGAACAAAACATGGAATTAAATCTTATTAAGTCTAGTTTCTCATAGAAGAAATTGTG
13821843 TAAGTAATGGAATTGTAAATCATGAGATATAATAAATTTTGT
908 TAAGTAATGGAATTGTAAATCATGAGATATAATAAATTTTGT
13821885 GAGACAATGT
Statistics
Matches: 940, Mismatches: 10, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
951 646 0.69
952 3 0.00
953 291 0.31
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.31
Consensus pattern (950 bp):
CAATAGTGCAAATGAATTAAGGGTCCAATGATATAGAACTAAGGAAAATGGATGAATTAGGACCA
AATTGAATAATTGAAGAATTATGAGGGACTAAATCTTAATTCTACCAAATTGAGTGATGGCTCAA
GGATGGAATTTTAAAAGATCATAAAGGGAAAAATGGTCAATTAGAAGGAGAGATAAATCTAGAAG
GCAATGATGATGTTGGTGATATTTTAGATAATTAAATAAATATTAGTTTATAATATCTTGATTTG
AATTTTTTTAATGATATTTTATTATTTTATTTAGCATATATATATGTGGAAAGAAAGATGAAAAG
CCATCATCCCACTATTTTTCCCATGCACTAACATGAGAAGAAGAGAGAAATAAATAAATTTTTGC
TTTCTTTACAATTTGGTCCTTCCACCAAAAATGTACTATTTTCACCTAGAAATCAAAAGAATTTC
CATAGCTACCAAGAGAGAAAAATGTTAGAAGACTATGGGGAGCTAGAATATCAAGTTAGATTCAA
GAAATAGAAGCTAGAAGAGAGAGAAAATCAAGTTAAAGATTAAAACCAATAGCACAAGGTAAGAA
AATCAAGATTTCAACATATTTTTAAGTTTGATATTATTGAAAAAGCATGGAAATGATGTTATAGT
AGAGTTTAATTATATAAGGTCTTATGTTATTGATATATTAGTGAAGAAAAATAAGATAAAGCAAT
GGGAAATATTATAGAAAAAGGGAATAAGGGTGTTATAAAGTTAGCAATCAACATCTTGCATTAAA
ATTGTTTTGGACAGCAGCAGTAGTCTAACTTTGAAAAATCATAAAAAATTGTGGAAATTTAATTA
GAGGATGAACAAAACATGGAATTAAATCTTATTAAGTCTAGTTTCTCATAGAAGAAATTGTGTAA
GTAATGGAATTGTAAATCATGAGATATAATAAATTTTGTA
Found at i:13823496 original size:21 final size:21
Alignment explanation
Indices: 13823456--13823497 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13823446 TGAGAAATTC
*
13823456 AATAGGATAAATATGGGAAAT
1 AATAGGATAAATAAGGGAAAT
* *
13823477 AATAGGATAATTAAGTGAAAT
1 AATAGGATAAATAAGGGAAAT
13823498 GTTAAATCGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.26
Consensus pattern (21 bp):
AATAGGATAAATAAGGGAAAT
Found at i:13823693 original size:17 final size:18
Alignment explanation
Indices: 13823665--13823699 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
13823655 GAATTGTAAA
13823665 TATTGAGAAATAAATTAT
1 TATTGAGAAATAAATTAT
*
13823683 TATTG-GAAATATATTAT
1 TATTGAGAAATAAATTAT
13823700 CGAATTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (18 bp):
TATTGAGAAATAAATTAT
Found at i:13847627 original size:22 final size:22
Alignment explanation
Indices: 13847599--13847675 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
13847589 TTTCTTTTAA
13847599 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
** * *
13847621 TTAGGAGATAATATTTTGGTTTAA--
1 TTAGGAGAT--TA-GAT-GCTAAAGT
13847645 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
13847667 TTAGGAGAT
1 TTAGGAGAT
13847676 AATATTTTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 4 0.10
21 1 0.02
22 20 0.49
24 11 0.27
25 1 0.02
26 4 0.10
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (22 bp):
TTAGGAGATTAGATGCTAAAGT
Found at i:13847648 original size:46 final size:46
Alignment explanation
Indices: 13847594--13847688 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
13847584 TCTCTTTTCT
13847594 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
13847640 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
13847686 TTT
1 TTT
13847689 CTATCTTTGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.34, C:0.02, G:0.23, T:0.41
Consensus pattern (46 bp):
TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
Found at i:13852423 original size:30 final size:30
Alignment explanation
Indices: 13852389--13852450 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
13852379 CTTAATAAGA
13852389 AAATGCCTATAAAATAATAACAAAATTAAC
1 AAATGCCTATAAAATAATAACAAAATTAAC
*
13852419 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTATAAAATAATAACAAAATTAAC
13852449 AA
1 AA
13852451 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATGCCTATAAAATAATAACAAAATTAAC
Found at i:13856167 original size:21 final size:21
Alignment explanation
Indices: 13856124--13856167 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
13856114 TTGGGTCTAG
*
13856124 AAAAATTAGACTTCAAATGAC
1 AAAAATTAGACTTAAAATGAC
*
13856145 AAAAATTTCGACTTAAAAT-AC
1 AAAAA-TTAGACTTAAAATGAC
13856166 AA
1 AA
13856168 GACATTGCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.25
Consensus pattern (21 bp):
AAAAATTAGACTTAAAATGAC
Found at i:13857799 original size:25 final size:24
Alignment explanation
Indices: 13857762--13857808 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
13857752 AACCATTTTT
*
13857762 TTGAAAACAAAAATTAGTAGTCGAC
1 TTGAAAACAAAAACTAG-AGTCGAC
*
13857787 TTGAAAACGAAAACTAGAGTCG
1 TTGAAAACAAAAACTAGAGTCG
13857809 CCACCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (24 bp):
TTGAAAACAAAAACTAGAGTCGAC
Found at i:13860605 original size:88 final size:87
Alignment explanation
Indices: 13860479--13860674 Score: 205
Period size: 88 Copynumber: 2.2 Consensus size: 87
13860469 AGGATTATTG
* * * * * * *
13860479 GCTTCGATCTGCTTCATTACCAATACAAGAAGGAAAGATCTGCTATTTTCAACCTGCTCCGCTGC
1 GCTTCGATCTGCTTCACTACCAATACAAGAAGCAAAGATCTACAATCTTCAACCTACTCCACTGC
13860544 TGCTCAGGGAGATAAGGCTGGT
66 TGCTCAGGGAGATAAGGCTGGT
* * * *
13860566 GCTTCCGATCTGCTTCACTACCAGTACAGGAA-CACAAGATCTACAATCTTCGACCTACTCTACT
1 GCTT-CGATCTGCTTCACTACCAATACAAGAAGCA-AAGATCTACAATCTTCAACCTACTCCACT
* * *
13860630 GTTGCTTAGGGAGATAAGGCTAGT
64 GCTGCTCAGGGAGATAAGGCTGGT
** *
13860654 GGCTTAAATCTGCTTCCCTAC
1 -GCTTCGATCTGCTTCACTAC
13860675 TGTCTTTGGA
Statistics
Matches: 89, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
87 5 0.06
88 80 0.90
89 4 0.04
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (87 bp):
GCTTCGATCTGCTTCACTACCAATACAAGAAGCAAAGATCTACAATCTTCAACCTACTCCACTGC
TGCTCAGGGAGATAAGGCTGGT
Found at i:13860792 original size:132 final size:132
Alignment explanation
Indices: 13860601--13861178 Score: 859
Period size: 132 Copynumber: 4.4 Consensus size: 132
13860591 ACAGGAACAC
* * * * * *
13860601 AAGATCTACAATCTTCGACCTACTCTACTGTTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTG
1 AAGATCTATAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTG
* * * * * *
13860666 CTTCCCTACTGTCTTTGGAAGATAAGATTTGCCGCCTTCGATCTGCTCCACTATTGCTTAGGGAG
66 CTTCCCTACTGCCTTGGGAAGATAAAATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAG
13860731 AT
131 AT
* * *
13860733 AAGATCTATAATTTTCAACCTACTCTACTGCTACTCAGGGAGATAAGGCTAGTGACTTAAATCTG
1 AAGATCTATAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTG
* * *
13860798 CTTCCCTACTACCTTGGGAAGATAAAATTCGCTGTCTTTGATCTGCTCCACTACTGCTTAGGGAG
66 CTTCCCTACTGCCTTGGGAAGATAAAATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAG
13860863 AT
131 AT
* * *
13860865 AAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAAGCTGGTGGCTTAAATCTG
1 AAGATCTATAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTG
* *
13860930 CTTCCTTACTGCCTTGGGAAGATAAAATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
66 CTTCCCTACTGCCTTGGGAAGATAAAATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAG
13860995 AT
131 AT
* * * * * * *
13860997 AAGATCTGTAATTTTCAACCTCCTCCACTGCTGCTTAGGGAGATAAGGTTGGTGGCCTAAATCGG
1 AAGATCTATAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTG
* * *
13861062 CTTCCCTACTGCCTTGAGAAGATAAAATTTGTCGTCTTTGATCTGCTCCAATACTGCTTAGGGAG
66 CTTCCCTACTGCCTTGGGAAGATAAAATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAG
13861127 AT
131 AT
13861129 AAGATCTATAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCT
1 AAGATCTATAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCT
13861179 GGTATCTTCG
Statistics
Matches: 404, Mismatches: 42, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 404 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (132 bp):
AAGATCTATAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTG
CTTCCCTACTGCCTTGGGAAGATAAAATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAG
AT
Found at i:13860891 original size:44 final size:44
Alignment explanation
Indices: 13860840--13861175 Score: 170
Period size: 44 Copynumber: 7.6 Consensus size: 44
13860830 TGTCTTTGAT
13860840 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
* * * * *** * *
13860884 CTACTCCACTGCTGCTCAGGGAGATAA-AGCTGGT-GGCTTAAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCT-GTAATTTTCAAC
* * * ** * *
13860927 CTGCTTCC-TTACTGCCTT-GGGAAGATAAAATTTGCCATCTTT-GAT
1 CTGC-TCCACTACTG-CTTAGGG-AGATAAGATCTGTAAT-TTTCAAC
13860972 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
* * * **** * *
13861016 CTCCTCCACTGCTGCTTAGGGAGATAAGGT-TGGT-GGCCTAAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCT-GTAATTTTCAAC
* * * * ** * *
13861059 CGGCTTCC-CTACTGCCTT-GAGAAGATAAAATTTGTCGTCTTT-GAT
1 CTGC-TCCACTACTG-CTTAG-GGAGATAAGATCTGTAAT-TTTCAAC
* *
13861104 CTGCTCCAATACTGCTTAGGGAGATAAGATCTATAATTTTCAAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
* * *
13861148 CTACTCCACTGCTGCTCAGGGAGATAAG
1 CTGCTCCACTACTGCTTAGGGAGATAAG
13861176 GCTGGTATCT
Statistics
Matches: 212, Mismatches: 60, Indels: 40
0.68 0.19 0.13
Matches are distributed among these distances:
43 35 0.17
44 145 0.68
45 29 0.14
46 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
Found at i:13861232 original size:132 final size:132
Alignment explanation
Indices: 13860601--13861263 Score: 739
Period size: 132 Copynumber: 5.0 Consensus size: 132
13860591 ACAGGAACAC
* * * * * * * *
13860601 AAGATCTACAATCTTCGACCTACTCTACTGTTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTG
1 AAGATCTATAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTAGCTTAAATCTG
* * * *** * *
13860666 CTTCC-CTACTGTCTTTGGAAGATAAGATTTGCCGCCTTCGATCTGCTCCACTATTGCTTAGGGA
66 CTTCCTCTACT-ACTTGGGAAGATAAAATTTGCTATCTTTGATCTGCTCCACTACTGCTTAGGGA
13860730 GAT
130 GAT
* * *
13860733 AAGATCTATAATTTTCAACCTACTCTACTGCTACTCAGGGAGATAAGGCTAGT-GACTTAAATCT
1 AAGATCTATAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTAG-CTTAAATCT
* *
13860797 GCTTCC-CTACTACCTTGGGAAGATAAAATTCGCTGTCTTTGATCTGCTCCACTACTGCTTAGGG
65 GCTTCCTCTACTA-CTTGGGAAGATAAAATTTGCTATCTTTGATCTGCTCCACTACTGCTTAGGG
13860861 AGAT
129 AGAT
* * *
13860865 AAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAAGCTGGTGGCTTAAATCTG
1 AAGATCTATAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTAGCTTAAATCTG
* *
13860930 CTTCCT-TACTGCCTTGGGAAGATAAAATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGA
66 CTTCCTCTACT-ACTTGGGAAGATAAAATTTGCTATCTTTGATCTGCTCCACTACTGCTTAGGGA
13860994 GAT
130 GAT
* * * * * * *
13860997 AAGATCTGTAATTTTCAACCTCCTCCACTGCTGCTTAGGGAGATAAGGTTGGTGGCCTAAATCGG
1 AAGATCTATAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTAGCTTAAATCTG
* * * *
13861062 CTTCC-CTACTGCCTTGAGAAGATAAAATTTG-TCGTCTTTGATCTGCTCCAATACTGCTTAGGG
66 CTTCCTCTACT-ACTTGGGAAGATAAAATTTGCT-ATCTTTGATCTGCTCCACTACTGCTTAGGG
13861125 AGAT
129 AGAT
* ** *
13861129 AAGATCTATAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTATCTTCGATCTA
1 AAGATCTATAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTAGCTTAAATCTG
* * * * * * ** * *
13861194 CTTCGCTGCTAGTAC-T-GGAAGACAAGATCTGCTATCTTTAACCTATTCCACTGCTGCTCAGGG
66 CTTC-CT-CTACTACTTGGGAAGATAAAATTTGCTATCTTTGATCTGCTCCACTACTGCTTAGGG
13861257 AGAT
129 AGAT
13861261 AAG
1 AAG
13861264 GCTGGTTATC
Statistics
Matches: 462, Mismatches: 58, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
131 1 0.00
132 452 0.98
133 4 0.01
134 1 0.00
135 4 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (132 bp):
AAGATCTATAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTAGCTTAAATCTG
CTTCCTCTACTACTTGGGAAGATAAAATTTGCTATCTTTGATCTGCTCCACTACTGCTTAGGGAG
AT
Found at i:13861288 original size:44 final size:43
Alignment explanation
Indices: 13861142--13861306 Score: 145
Period size: 44 Copynumber: 3.7 Consensus size: 43
13861132 ATCTATAATT
*
13861142 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTATC
1 TTCAATCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTATC
* * * * * * * *
13861185 TTCGATCTACTTCGCTGCTAG-TACTGGAAGACAAGATCTGCTATC
1 TTCAATCTACTCCACTGCT-GCT-CAGGGAGATAAG-GCTGGTATC
* * *
13861230 TTTAACCTATTCCACTGCTGCTCAGGGAGATAAGGCTGGTTATC
1 TTCAATCTACTCCACTGCTGCTCAGGGAGATAAGGCTGG-TATC
*
13861274 TTCAATGC-ACTCCACTGCTACTTCAGGGAGATA
1 TTCAAT-CTACTCCACTGCTGC-TCAGGGAGATA
13861307 GGATTTGTGG
Statistics
Matches: 91, Mismatches: 24, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
43 19 0.21
44 39 0.43
45 33 0.36
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (43 bp):
TTCAATCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTATC
Found at i:13862682 original size:48 final size:49
Alignment explanation
Indices: 13862612--13862709 Score: 135
Period size: 48 Copynumber: 2.0 Consensus size: 49
13862602 ATTTTTGGTT
* * ** *
13862612 TTTTTTATTTTTTTGGACTCAAAGCGCCCTTTGTGGGTTTTTACCTTGG
1 TTTTTTATTTTTTAGGAATCAAAGCGCCCTTTGCAGGTTTTGACCTTGG
*
13862661 TTTTTT-TTTTTTAGGAATCAAAGCGCCTTTTGCAGGTTTTGACCTTGG
1 TTTTTTATTTTTTAGGAATCAAAGCGCCCTTTGCAGGTTTTGACCTTGG
13862709 T
1 T
13862710 CCCTTCTCCT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 37 0.86
49 6 0.14
ACGTcount: A:0.14, C:0.15, G:0.20, T:0.50
Consensus pattern (49 bp):
TTTTTTATTTTTTAGGAATCAAAGCGCCCTTTGCAGGTTTTGACCTTGG
Found at i:13879203 original size:22 final size:23
Alignment explanation
Indices: 13879178--13879238 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
13879168 AAATTGGAGT
13879178 TTAAAATAAATTAAAAAA-TGAA
1 TTAAAATAAATTAAAAAACTGAA
** *
13879200 TTAAAA-AAACAAAAAAACTTAA
1 TTAAAATAAATTAAAAAACTGAA
*
13879222 TTGAAAATACATTAAAA
1 TT-AAAATAAATTAAAA
13879239 GGCGGAGGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 9 0.30
22 11 0.37
23 4 0.13
24 6 0.20
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.25
Consensus pattern (23 bp):
TTAAAATAAATTAAAAAACTGAA
Found at i:13880705 original size:172 final size:174
Alignment explanation
Indices: 13880420--13880836 Score: 601
Period size: 173 Copynumber: 2.4 Consensus size: 174
13880410 CTTAGTCTAC
* ** * * *
13880420 TCCACTGCAACTTCAGGGAGATAGGATTAT--CGGCTTTAATCTGCTTCACTGCAACTTCAGGGA
1 TCCACTGCAACTTCAGGGAGATAAGATT-TGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAA
*
13880483 GATAAGACTAGATGCGATCTACTCTCTGCAACTTTAGAGAGATAAGATCTGA-GATTTAATCCGC
65 GATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGAGGATTTAATCCGC
13880547 TCCACTGCAACTTCAAGGAGATAGGATTGTCAGCTTTAATCTG-T
130 TCCACTGCAACTTCAAGGAGATAGGATTGTCAGCTTTAATCTGCT
* *
13880591 TCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGAAAG
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAAG
* * * * * *
13880656 ATAAGGCTAGATGCGATCTGCTCTGTGCGACTTCGGAGAGATAAGATCTGAGGTTTTAATCCGCT
66 ATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGAGGATTTAATCCGCT
* * *
13880721 CCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATTTGCT
131 CCACTGCAACTTCAAGGAGATAGGATTGTCAGCTTTAATCTGCT
* * *
13880765 T-CACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAAG
13880829 ATAAGACT
66 ATAAGACT
13880837 TGCTTTACTT
Statistics
Matches: 218, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
170 1 0.00
171 26 0.12
172 73 0.33
173 116 0.53
174 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (174 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAAG
ATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGAGGATTTAATCCGCT
CCACTGCAACTTCAAGGAGATAGGATTGTCAGCTTTAATCTGCT
Found at i:13880852 original size:218 final size:218
Alignment explanation
Indices: 13880593--13881054 Score: 687
Period size: 218 Copynumber: 2.1 Consensus size: 218
13880583 TAATCTGTTC
* *
13880593 CACTGCAACTTCAGG-GAAATAAGATTTGCCATCTTTAGTCTGC-CTCACTGCAACTTCAGAAAG
1 CACTGCAACTTCAGGAG-GATAAGACTTGCCATCTTTAGTCTGCTC-CACTGCAACTTCAGAAAG
* * * * * * *
13880656 ATAAGGCTAGATGCGATCTGCTCTGTGCGACTTCGGAGAGATAAGATCTGAGGTTTTAATCCGCT
64 ATAAGACTAGATGCGATCTACTCTATGCAACTTCAGAGAGATAAAATCTGAGATTTTAATCCGCT
* * *
13880721 CCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATTTGCTTCACTACAACTTCAGGGAGAT
129 CCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTACAACTTCAGGGAAAT
13880786 AAGATTTGCCATCTTCAGTCTGCCT
194 AAGATTTGCCATCTTCAGTCTGCCT
** **
13880811 CACTGCAACTTCAGGAGGATAAGACTTGCTTTAC-TTAGTCTGCTCCACTGCAACTTCAGGGAGA
1 CACTGCAACTTCAGGAGGATAAGACTTGCCAT-CTTTAGTCTGCTCCACTGCAACTTCAGAAAGA
13880875 TAAGACTAGATGCGATCTACTCTATGCAACTTCAGAGAGATAAAATCTGAGATTTTAATCCGCTC
65 TAAGACTAGATGCGATCTACTCTATGCAACTTCAGAGAGATAAAATCTGAGATTTTAATCCGCTC
*
13880940 CACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATA
130 CACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTACAACTTCAGGGAAATA
* *
13881005 AGATTTGCTATCTTTAGTCTGCCT
195 AGATTTGCCATCTTCAGTCTGCCT
* *
13881029 CACTGCAACTTTAGGAAGATAAGACT
1 CACTGCAACTTCAGGAGGATAAGACT
13881055 AGATGCGATC
Statistics
Matches: 220, Mismatches: 21, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
218 217 0.99
219 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (218 bp):
CACTGCAACTTCAGGAGGATAAGACTTGCCATCTTTAGTCTGCTCCACTGCAACTTCAGAAAGAT
AAGACTAGATGCGATCTACTCTATGCAACTTCAGAGAGATAAAATCTGAGATTTTAATCCGCTCC
ACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTACAACTTCAGGGAAATAA
GATTTGCCATCTTCAGTCTGCCT
Found at i:13880954 original size:84 final size:84
Alignment explanation
Indices: 13880852--13881133 Score: 282
Period size: 84 Copynumber: 3.3 Consensus size: 84
13880842 TACTTAGTCT
*
13880852 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTATGCAACTTCAGAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTATGCAACTTCAGAGAGATA
*
13880917 AAATCTGAGATTTTAATCC
66 AGATCTGAGATTTTAATCC
* * * * *
13880936 GCTCCACTGCAACTTCAGGGAGATAGGA-TTG-TCGGCTTTAATCTGCTCCACTGCAACTTCAGG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGAT--GC---GATCTGCTCTA-TGCAACTTCAGA
* * ** * *
13880999 GAAATAAGATTTGCTATCTTTAGTCT
60 GAGATAAGATCTGAGAT-TTTAATCC
* * * ** *
13881025 GC-CTCACTGCAACTTTAGGAAGATAAGACTAGATGCGATCTGCTCTCTGTGACTTCGGAGAGAT
1 GCTC-CACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTATGCAACTTCAGAGAGAT
*
13881089 AAGATCTGAGGTTTTAATCC
65 AAGATCTGAGATTTTAATCC
*
13881109 GCTCCACTGCAACTTCAGAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
13881134 GGATTGTCAG
Statistics
Matches: 153, Mismatches: 34, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
82 1 0.01
83 2 0.01
84 55 0.36
85 21 0.14
86 8 0.05
87 8 0.05
88 24 0.16
89 31 0.20
90 2 0.01
91 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (84 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTATGCAACTTCAGAGAGATA
AGATCTGAGATTTTAATCC
Found at i:13880990 original size:173 final size:173
Alignment explanation
Indices: 13880766--13881227 Score: 655
Period size: 173 Copynumber: 2.7 Consensus size: 173
13880756 TAATTTGCTT
* * * * * * *
13880766 CACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC-CTCACTGCAACTTCA-GGAGG
1 CACTGCAACTTCAGGGAGATAGGA-TTGTCAGCTTTAATCTGCTC-CACTGCAACTTCAGGGA-A
* *
13880829 ATAAGACTTGCTTTAC-TTAGTCTG-CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATC
63 ATAAGATTTGCTAT-CTTTAGTCTGCCT-CACTGCAACTTCAGGGAGATAAGACTAGATGCGATC
13880892 TACTCTATGCAACTTCAGAGAGATAAAATCTGAGATTTTAATCCGCTC
126 TACTCTATGCAACTTCAGAGAGATAAAATCTGAGATTTTAATCCGCTC
*
13880940 CACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATA
1 CACTGCAACTTCAGGGAGATAGGATTGTCAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATA
* * *
13881005 AGATTTGCTATCTTTAGTCTGCCTCACTGCAACTTTAGGAAGATAAGACTAGATGCGATCTGCTC
66 AGATTTGCTATCTTTAGTCTGCCTCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTC
* ** * * *
13881070 TCTGTGACTTCGGAGAGATAAGATCTGAGGTTTTAATCCGCTC
131 TATGCAACTTCAGAGAGATAAAATCTGAGATTTTAATCCGCTC
*
13881113 CACTGCAACTTCAGAGAGATAGGATTGTCAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATA
1 CACTGCAACTTCAGGGAGATAGGATTGTCAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATA
13881178 AGATTTGCTATCTTTAGTCTGCCTCACTGCAACTTCA-GGAGGATAAGACT
66 AGATTTGCTATCTTTAGTCTGCCTCACTGCAACTTCAGGGA-GATAAGACT
13881228 TGCCTACTTA
Statistics
Matches: 260, Mismatches: 23, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
172 3 0.01
173 229 0.88
174 28 0.11
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (173 bp):
CACTGCAACTTCAGGGAGATAGGATTGTCAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATA
AGATTTGCTATCTTTAGTCTGCCTCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTC
TATGCAACTTCAGAGAGATAAAATCTGAGATTTTAATCCGCTC
Found at i:13881199 original size:391 final size:389
Alignment explanation
Indices: 13880459--13881271 Score: 1401
Period size: 391 Copynumber: 2.1 Consensus size: 389
13880449 TCGGCTTTAA
* * *
13880459 TCTGCTTCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTTAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTATGCAACTTCAGAGAG
*
13880524 ATAAGATCTGAGATTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTGTCAGCTTTAATCT
66 ATAAAATCTGAGATTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTGTCAGCTTTAATCT
*
13880589 GTTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGAA
131 GCTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGAA
* *
13880654 AGATAAGGCTAGATGCGATCTGCTCTGTGCGACTTCGGAGAGATAAGATCTGAGGTTTTAATCCG
196 AGATAAGACTAGATGCGATCTGCTCTCTGCGACTTCGGAGAGATAAGATCTGAGGTTTTAATCCG
* * * * *
13880719 CTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATTTGCTTCACTACAACTTCAGGGAG
261 CTCCACTGCAACTTCAGAGAGATAGGATTGTCAGCTTTAATCTGCTCCACTACAACTTCAGGGAA
*
13880784 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTTACTTAG
326 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGC-CTACTTAG
13880849 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTATGCAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTATGCAACTTCAGAGAG
* *
13880914 ATAAAATCTGAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATC
66 ATAAAATCTGAGA-TTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTGTCAGCTTTAATC
* * *
13880979 TGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCCTCACTGCAACTTTAGG
130 TGCTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGA
*
13881044 AAGATAAGACTAGATGCGATCTGCTCTCTGTGACTTCGGAGAGATAAGATCTGAGGTTTTAATCC
195 AAGATAAGACTAGATGCGATCTGCTCTCTGCGACTTCGGAGAGATAAGATCTGAGGTTTTAATCC
*
13881109 GCTCCACTGCAACTTCAGAGAGATAGGATTGTCAGCTTTAATCTGCTCCACTGCAACTTCAGGGA
260 GCTCCACTGCAACTTCAGAGAGATAGGATTGTCAGCTTTAATCTGCTCCACTACAACTTCAGGGA
* *
13881174 AATAAGATTTGCTATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAG
325 AATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAG
*
13881239 TCTGCTCCACTACAACTTCAGGGAGATAAGACT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
13881272 CGATCTGTTA
Statistics
Matches: 399, Mismatches: 23, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
390 113 0.28
391 286 0.72
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (389 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTATGCAACTTCAGAGAG
ATAAAATCTGAGATTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTGTCAGCTTTAATCT
GCTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGAA
AGATAAGACTAGATGCGATCTGCTCTCTGCGACTTCGGAGAGATAAGATCTGAGGTTTTAATCCG
CTCCACTGCAACTTCAGAGAGATAGGATTGTCAGCTTTAATCTGCTCCACTACAACTTCAGGGAA
ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAG
Found at i:13881208 original size:218 final size:217
Alignment explanation
Indices: 13880549--13881271 Score: 638
Period size: 218 Copynumber: 3.3 Consensus size: 217
13880539 TAATCCGCTC
* * * * *
13880549 CACTGCAACTTCAAGGAGATAGGA-TTG-TCAGCTTTAATCTG-TTCCACTGCAACTTCAGGGAA
1 CACTGCAACTTCAGGGAGATAAGATTTGCT-ATCTTTAGTCTGCCT-CACTGCAACTTCA-GGAA
* * * ** * *
13880611 -ATAAGATTTGCCAT-CTTTAGTCTGC-CTCACTGCAACTTCAGAAAGATAAGGCTAGATGCGAT
63 GATAAGACTAG-CATAC-TGAGTCTGCTC-CACTGCAACTTCAGGGAGATAAGACTAGATGCAAT
** ** * * * **
13880673 CTGCTCTGTGCGACTTCGGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGG
125 CCACTCCATGCAACTTCAGAGAGATAAAATCTGAGACTTTAATCCGCTCCACTGCAACTTCAGGG
* *
13880738 AGATAGGATTGTCGGCTTTAATTTGCTT
190 AGATAGGATTGTCGGCTTTAATCTGCCT
* * * *
13880766 CACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAGTCTGCCTCACTGCAACTTCAGGAAGAT
* * * * *
13880831 AAGACTTGCTTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACT
66 AAGACTAGC-ATACTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCAATCCACT
* *
13880896 CTATGCAACTTCAGAGAGATAAAATCTGAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
130 CCATGCAACTTCAGAGAGATAAAATCTGAGACTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
13880961 GGATTGTCGGCTTTAATCTG-CT
195 GGATTGTCGGCTTTAATCTGCCT
* *
13880983 CCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCCTCACTGCAACTTTAGGAAGA
1 -CACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAGTCTGCCTCACTGCAACTTCAGGAAGA
* * ** * **
13881048 TAAGACTAG-ATGC-GA-TCTGCT-CTCTGTGACTTC-GGAGAGATAAGATCTGAGGTTTTAATC
65 TAAGACTAGCATACTGAGTCTGCTCCACTGCAACTTCAGG-GAGATAAGA-CT-A-GATGCAATC
* ** *
13881108 CGCTCCACTGCAACTTCAGAGAGATAGGAT-TGTCAG-CTTTAATCTGCTCCACTGCAACTTCAG
126 CACTCCA-TGCAACTTCAGAGAGATAAAATCTG--AGACTTTAATCCGCTCCACTGCAACTTCAG
* * ** *
13881171 GGAAATAAGATT-TGCTATCTTTAGTCTGCCT
188 GGAGATAGGATTGT-C-GGCTTTAATCTGCCT
* * *
13881202 CACTGCAACTTCA-GGAGGATAAGACTTGCCTA-C-TTAGTCTG-CTCCACTACAACTTCAGGGA
1 CACTGCAACTTCAGGGA-GATAAGATTTG-CTATCTTTAGTCTGCCT-CACTGCAACTTCAGGAA
13881263 GATAAGACT
63 GATAAGACT
13881272 CGATCTGTTA
Statistics
Matches: 429, Mismatches: 56, Indels: 42
0.81 0.11 0.08
Matches are distributed among these distances:
212 2 0.00
213 18 0.04
214 8 0.02
215 2 0.00
216 16 0.04
217 116 0.27
218 259 0.60
219 8 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (217 bp):
CACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAGTCTGCCTCACTGCAACTTCAGGAAGAT
AAGACTAGCATACTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCAATCCACTC
CATGCAACTTCAGAGAGATAAAATCTGAGACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
GATTGTCGGCTTTAATCTGCCT
Found at i:13881255 original size:44 final size:45
Alignment explanation
Indices: 13880403--13881271 Score: 390
Period size: 44 Copynumber: 20.0 Consensus size: 45
13880393 TGAACAAAAT
* *
13880403 TTGCTATC-TTAGTCTACTCCACTGCAACTTCAGGGAGATAGGA-
1 TTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* ** * *
13880446 TT-ATCGGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGAC
1 TTGCT-ATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* * * * * *
13880491 TAG--ATGC--GA-TCTACT-CTCTGCAACTTTAGAGAGATAAGA-
1 TTGCTAT-CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
** * * * *
13880530 -T-CTGAGATTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGA-
1 TTGCT-ATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* * * * *
13880573 TTG-TCAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGAT
1 TTGCT-ATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* ** *
13880618 TTGCCATCTTTAGTCTGC-CTCACTGCAACTTCAGAAAGATAAGGC
1 TTGCTATCTTTAGTCTGCTC-CACTGCAACTTCAGGGAGATAAGAC
* * ** *
13880663 TAG--ATGC--GA-TCTGCT-CTGTGCGACTTC-GGAGAGATAAGA-
1 TTGCTAT-CTTTAGTCTGCTCCACTGCAACTTCAGG-GAGATAAGAC
*** * * *
13880702 TCTGAGGT-TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA-
1 T-TGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
** * * * * *
13880746 TTG-TCGGCTTTAATTTGCTTCACTACAACTTCAGGGAGATAAGAT
1 TTGCT-ATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* *
13880791 TTGCCATCTTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGAC
1 TTGCTATCTTTAGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGAC
*
13880836 TTGCTTTAC-TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
1 TTGCTAT-CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* * * * * *
13880881 TAG--ATGC--GA-TCTACTCTA-TGCAACTTCAGAGAGATAA-AA
1 TTGCTAT-CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
** * * *
13880920 TCTGAGAT-TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA-
1 T-TGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
** * * *
13880964 TTG-TCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGAT
1 TTGCT-ATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* *
13881009 TTGCTATCTTTAGTCTGC-CTCACTGCAACTTTAGGAAGATAAGAC
1 TTGCTATCTTTAGTCTGCTC-CACTGCAACTTCAGGGAGATAAGAC
* * * **
13881054 TAG--ATGC--GA-TCTGCT-CTCTGTGACTTC-GGAGAGATAAGA-
1 TTGCTAT-CTTTAGTCTGCTCCACTGCAACTTCAGG-GAGATAAGAC
*** * * * *
13881093 TCTGAGGT-TTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGA-
1 T-TGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* * * *
13881137 TTG-TCAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGAT
1 TTGCT-ATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
13881182 TTGCTATCTTTAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGAC
1 TTGCTATCTTTAGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGAC
*
13881227 TTGCCTA-C-TTAGTCTGCTCCACTACAACTTCAGGGAGATAAGAC
1 TTG-CTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
13881271 T
1 T
13881272 CGATCTGTTA
Statistics
Matches: 623, Mismatches: 133, Indels: 139
0.70 0.15 0.16
Matches are distributed among these distances:
39 7 0.01
40 75 0.12
41 23 0.04
42 16 0.03
43 51 0.08
44 258 0.41
45 183 0.29
46 10 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (45 bp):
TTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
Found at i:13893600 original size:23 final size:23
Alignment explanation
Indices: 13893541--13893600 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
13893531 TAAATTGTTT
*
13893541 AAAATAAATTAAAAAATGAATTA
1 AAAATACATTAAAAAATGAATTA
* * * *
13893564 AAAAAACA-AAAAAAACTTAATTG
1 AAAATACATTAAAAAA-TGAATTA
13893587 AAAATACATTAAAA
1 AAAATACATTAAAA
13893601 GGCGGAGGGG
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
22 6 0.21
23 18 0.64
24 4 0.14
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.22
Consensus pattern (23 bp):
AAAATACATTAAAAAATGAATTA
Found at i:13897955 original size:2 final size:2
Alignment explanation
Indices: 13897903--13897942 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
13897893 AAGCCTTGAT
13897903 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13897943 AACACAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13899988 original size:139 final size:138
Alignment explanation
Indices: 13899738--13900007 Score: 386
Period size: 139 Copynumber: 1.9 Consensus size: 138
13899728 AAGGAGAAAT
* *
13899738 GATTGTATGAAACTGTAATTCCACGTCATCCTTATCCCTTTTCAATGGGAGAATGAAATATCAGA
1 GATTGTATGAAACTGTAATTCCACGTCATCCTTATCCCTTTTCAACGAGAGAATGAAATATCAGA
* *
13899803 TTTTTCCTCCTAATTTTCAACTTTTTTCTCCTGGAAAAATTCAAATCCAATTAAAAATGCTAAAA
66 TTTTTCCTCCTAATTTTCAACTTTTTTCTCCTGAAAAAATTCAAATCCAACT-AAAATGCTAAAA
13899868 ATTAGAAGG
130 ATTAGAAGG
* * * *
13899877 GATTGTATGAAATTTTGATTCCACGTCAT-CTTCAT-CCTTTTCCAACGAGAGAATGACAA-ATT
1 GATTGTATGAAACTGTAATTCCACGTCATCCTT-ATCCCTTTT-CAACGAGAGAATGA-AATATC
*
13899939 AGATTTTTCCTCCTAATTTTCATA-TTTTTTCTCCTGAAAAAATTCAAATCTAACTAAAATGCTA
63 AGATTTTTCCTCCTAATTTTCA-ACTTTTTTCTCCTGAAAAAATTCAAATCCAACTAAAATGCTA
13900003 AAAAT
127 AAAAT
13900008 CAGGAAGAAA
Statistics
Matches: 118, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
138 23 0.19
139 92 0.78
140 3 0.03
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (138 bp):
GATTGTATGAAACTGTAATTCCACGTCATCCTTATCCCTTTTCAACGAGAGAATGAAATATCAGA
TTTTTCCTCCTAATTTTCAACTTTTTTCTCCTGAAAAAATTCAAATCCAACTAAAATGCTAAAAA
TTAGAAGG
Found at i:13905240 original size:156 final size:155
Alignment explanation
Indices: 13904957--13905275 Score: 602
Period size: 156 Copynumber: 2.1 Consensus size: 155
13904947 TCTAAGTCTT
*
13904957 AGAAATTAGAAATCATGCATGTTGGTAAGTTTTGTAATTTCTCTGCATTAGCAAATTAAAAAAAA
1 AGAAATTAGAAATCATGCATGTTGGTAAGTTTTGTAATTTCTCTACATTAGCAAATTAAAAAAAA
13905022 GAAGGTAGTTAAGGATTTCAGTTAATTATTGGTCCTATTTTGTTTTAAGGTAAAGTGGTAGATAA
66 GAAGGTAGTTAAGGATTTCAGTTAATTATTGGTCCTATTTTGTTTTAAGGTAAAGTGGTAGATAA
13905087 TCATTCAAATGGTCTTTGCATGCAA
131 TCATTCAAATGGTCTTTGCATGCAA
*
13905112 AGAAATTAGAAATCATGCATGTTGGTAAGTTTTGTAATTTCTCTACATTAGCAAATTCAAGAAAA
1 AGAAATTAGAAATCATGCATGTTGGTAAGTTTTGTAATTTCTCTACATTAGCAAATT-AAAAAAA
*
13905177 AGAAGGTAGTTAAGGATTTCAGTTAATTATTGGTCCTGTTTTGTTTTAAGGTAAAGTGGTAGATA
65 AGAAGGTAGTTAAGGATTTCAGTTAATTATTGGTCCTATTTTGTTTTAAGGTAAAGTGGTAGATA
13905242 ATCATTCAAATGGTCTTTGCATGCAA
130 ATCATTCAAATGGTCTTTGCATGCAA
13905268 AGAAATTA
1 AGAAATTA
13905276 TGGTTTTTAT
Statistics
Matches: 160, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
155 56 0.35
156 104 0.65
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.36
Consensus pattern (155 bp):
AGAAATTAGAAATCATGCATGTTGGTAAGTTTTGTAATTTCTCTACATTAGCAAATTAAAAAAAA
GAAGGTAGTTAAGGATTTCAGTTAATTATTGGTCCTATTTTGTTTTAAGGTAAAGTGGTAGATAA
TCATTCAAATGGTCTTTGCATGCAA
Found at i:13906130 original size:29 final size:28
Alignment explanation
Indices: 13906098--13906188 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 28
13906088 AGTCCGTAAG
13906098 GACTATCTAATATGTAGGAAGTCTGCCAA
1 GACTATCTAATATG-AGGAAGTCTGCCAA
* **
13906127 GACTATCTTATATGA--AA-TCCTGTAAA
1 GACTATCTAATATGAGGAAGT-CTGCCAA
*
13906153 GACTATCTAATATGGGGGAAGTCTGCCAA
1 GACTATCTAATAT-GAGGAAGTCTGCCAA
*
13906182 TACTATC
1 GACTATC
13906189 GTATGTGGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
25 1 0.02
26 19 0.39
27 1 0.02
28 1 0.02
29 26 0.53
30 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (28 bp):
GACTATCTAATATGAGGAAGTCTGCCAA
Found at i:13906134 original size:55 final size:54
Alignment explanation
Indices: 13906054--13906221 Score: 201
Period size: 55 Copynumber: 3.1 Consensus size: 54
13906044 ACAATCTTAA
** * * *
13906054 ATGTGGGAAGTCCACCAGGATTATCTTATGTCGAAGTCCGTAAGGACTATCTAAT
1 ATGTGGGAAGTCTGCCAAGACTATCTTATGT-GAAATCCGTAAGGACTATCTAAT
* * *
13906109 ATGTAGGAAGTCTGCCAAGACTATCTTATATGAAATCCTGTAAAGACTATCTAAT
1 ATGTGGGAAGTCTGCCAAGACTATCTTATGTGAAATCC-GTAAGGACTATCTAAT
* * * *
13906164 ATGGGGGAAGTCTGCCAATACTATCGTATGTGGAAATTCGTAAGGACTATCTAAT
1 ATGTGGGAAGTCTGCCAAGACTATCTTATGT-GAAATCCGTAAGGACTATCTAAT
13906219 ATG
1 ATG
13906222 GCGAAGTTCG
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
54 6 0.06
55 84 0.88
56 6 0.06
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (54 bp):
ATGTGGGAAGTCTGCCAAGACTATCTTATGTGAAATCCGTAAGGACTATCTAAT
Found at i:13909202 original size:25 final size:26
Alignment explanation
Indices: 13909174--13909225 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
13909164 AAGTTGTAAA
13909174 TAAAAAAATATCTCTAG-AAATTTTC
1 TAAAAAAATATCTCTAGAAAATTTTC
* * *
13909199 TAAAATAATTTCTTTAGAAAATTTTC
1 TAAAAAAATATCTCTAGAAAATTTTC
13909225 T
1 T
13909226 CTCTACAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (26 bp):
TAAAAAAATATCTCTAGAAAATTTTC
Found at i:13909375 original size:17 final size:17
Alignment explanation
Indices: 13909331--13909388 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 17
13909321 TAATCACATT
*
13909331 AATATTAAATT-AATAA
1 AATATTAAATTAAATTA
*
13909347 AATACT--ATTAAATTA
1 AATATTAAATTAAATTA
*
13909362 AGTATTAAATTAAATTA
1 AATATTAAATTAAATTA
13909379 AATATTAAAT
1 AATATTAAAT
13909389 CTATTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
14 3 0.09
15 8 0.24
16 5 0.15
17 18 0.53
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
AATATTAAATTAAATTA
Found at i:13915399 original size:23 final size:21
Alignment explanation
Indices: 13915368--13915413 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
13915358 AATTTTAAAA
*
13915368 ATTTAGAAAAGTATATAAAAATT
1 ATTTAGAAAA-AAT-TAAAAATT
*
13915391 ATTTTGAAAAAATTAAAAATT
1 ATTTAGAAAAAATTAAAAATT
13915412 AT
1 AT
13915414 ATAAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 2 0.10
23 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (21 bp):
ATTTAGAAAAAATTAAAAATT
Found at i:13915415 original size:32 final size:32
Alignment explanation
Indices: 13915359--13915419 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
13915349 ACTTTTTAAA
*
13915359 ATTTTAAAAATTTAGAAAAGTATATAAAAATT
1 ATTTTAAAAAATTAGAAAAGTATATAAAAATT
*
13915391 ATTTTGAAAAAATTA-AAAATTATATAAAA
1 ATTTT-AAAAAATTAGAAAAGTATATAAAA
13915420 TATAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 18 0.69
33 8 0.31
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (32 bp):
ATTTTAAAAAATTAGAAAAGTATATAAAAATT
Found at i:13919874 original size:6 final size:6
Alignment explanation
Indices: 13919863--13919888 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
13919853 TTAATAAATT
13919863 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
13919889 CAAATGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:13919884 original size:26 final size:26
Alignment explanation
Indices: 13919837--13919886 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
13919827 CGAATATACC
* *
13919837 AATAATAATAAAATAATTAATAAATT
1 AATAAAAATAAAATAATAAATAAATT
13919863 AATAAAAATAAAAATAA-AAATAAA
1 AATAAAAAT-AAAATAATAAATAAA
13919887 AACAAATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (26 bp):
AATAAAAATAAAATAATAAATAAATT
Found at i:13921486 original size:129 final size:129
Alignment explanation
Indices: 13921289--13922087 Score: 1136
Period size: 129 Copynumber: 6.2 Consensus size: 129
13921279 TGTAACTTAA
* * * * * ** *
13921289 AGATAAGTCT-GATGCGATCTCCTCTACTGCAACTTTAGAGAGATGAGAT-TCATCATTTTGATC
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT-GTGGTTTTAATC
* * * * *
13921352 CGCTCCACTGCAACTTCAGGGAGATACGATTGGTTTCTTCTATCTGTTCCACTGTAACTTTAGAG
65 CGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGAG
* *
13921417 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATATGTGGTTTTAATCT
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
* * * *
13921482 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCTGTCTTCTCCACTGTAACTTTAGAG
66 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGAG
* * * *
13921546 AGATAAGACTGGATGCAATCTGCTTTACCGCAACTTCAGAGAGATAATATCTGTGGTTTTAATCC
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
* * *
13921611 GCTCCACTGCAACTTCAGGCAAATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTTA-AGG
66 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGA-G
* * * * *
13921675 GGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGGTAAGGTCTGTGGTTTTGATCC
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
* * *
13921740 GTTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGAAACTTCAGGG
66 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGAG
* * * *
13921804 AGATAAGACGGGATGCGATATGCTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCT
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
* * *
13921869 GCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCCGCTCCACTGCAACTTCAGGG
66 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGAG
* * *
13921933 AGATAAGACTGGATGCGATCTGCTCAACTGCAACTTCAGAGAAATAAGATTTGTGGTTTTAATCC
1 AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
* *
13921998 ACTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGG
66 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGAG
*
13922062 AGATAAGACTGGATGTGATCTGCTCT
1 AGATAAGACTGGATGCGATCTGCTCT
13922088 TTTTTACCTA
Statistics
Matches: 603, Mismatches: 64, Indels: 7
0.89 0.09 0.01
Matches are distributed among these distances:
128 10 0.02
129 592 0.98
130 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (129 bp):
AGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGAG
Found at i:13922323 original size:44 final size:44
Alignment explanation
Indices: 13922309--13922431 Score: 228
Period size: 44 Copynumber: 2.8 Consensus size: 44
13922299 ATCTACAACT
* *
13922309 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTATAATC
1 TTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTTACAATC
13922353 TTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTTACAATC
13922397 TTCAACCTATTCCACTGCTGTCTAGGGAGATAGGA
1 TTCAACCTATTCCACTGCTGTCTAGGGAGATAGGA
13922432 TTTATGGTTT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 77 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTTACAATC
Found at i:13923819 original size:14 final size:14
Alignment explanation
Indices: 13923796--13923829 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13923786 ATCAATGTTT
* *
13923796 TTCCAGATAAGGTC
1 TTCCACATAAGATC
13923810 TTCCACATAAGATC
1 TTCCACATAAGATC
13923824 TTCCAC
1 TTCCAC
13923830 TTTCATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (14 bp):
TTCCACATAAGATC
Found at i:13930066 original size:20 final size:22
Alignment explanation
Indices: 13930036--13930079 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
13930026 TTTGGTGTTT
13930036 AGGGCTTAGGTG-ATTTGGGCC
1 AGGGCTTAGGTGAATTTGGGCC
13930057 AGGG-TTAGGTGATATTTGGGCC
1 AGGGCTTAGGTGA-ATTTGGGCC
13930079 A
1 A
13930080 ATTTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 4 0.19
22 10 0.48
ACGTcount: A:0.18, C:0.11, G:0.41, T:0.30
Consensus pattern (22 bp):
AGGGCTTAGGTGAATTTGGGCC
Found at i:13934860 original size:16 final size:16
Alignment explanation
Indices: 13934824--13934860 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
13934814 ACAACAACAT
*
13934824 AAATATATGCAATAAC
1 AAATCTATGCAATAAC
13934840 AAATCTATGCAATAAC
1 AAATCTATGCAATAAC
13934856 AAATC
1 AAATC
13934861 ACAAGACATT
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:0.54, C:0.16, G:0.05, T:0.24
Consensus pattern (16 bp):
AAATCTATGCAATAAC
Found at i:13947887 original size:20 final size:21
Alignment explanation
Indices: 13947852--13947890 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
13947842 TTTATAGTTT
*
13947852 TAAATAATTTTTGGGTAAAAA
1 TAAATAATTTTGGGGTAAAAA
13947873 TAAAT-ATTTTGGGGTAAA
1 TAAATAATTTTGGGGTAAA
13947891 TTGAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (21 bp):
TAAATAATTTTGGGGTAAAAA
Found at i:13951855 original size:49 final size:48
Alignment explanation
Indices: 13951720--13951936 Score: 132
Period size: 49 Copynumber: 4.4 Consensus size: 48
13951710 CTAGTGATAG
* * * * * *
13951720 GGCATGTTAGTTGCTAACTAGAATGGCAG-ATGTACTGGACGACTGGTAA
1 GGCATGATAGTTGCTAACCAGATTGGCAGAATG-A-TGGGCCACTAGTAA
* * * * * *
13951769 GGCCTGCTAGTTGCCAACCAG-GTGGGAGAATAAGATGGGCCAGTAGTAA
1 GGCATGATAGTTGCTAACCAGATTGGCAGAAT--GATGGGCCACTAGTAA
* * *
13951818 GGCATGTTAGTTGCTAACCAGATTGGCATGAATGATGGGTCACTAGTAG
1 GGCATGATAGTTGCTAACCAGATTGGCA-GAATGATGGGCCACTAGTAA
* * * * * * * * ***
13951867 GGTATCATAGTTACTAACCAGATTGACGTGAGTGCTAGGTTTCTAGTAA
1 GGCATGATAGTTGCTAACCAGATTGGC-AGAATGATGGGCCACTAGTAA
13951916 GGCATGATAGTTGCTAACCAG
1 GGCATGATAGTTGCTAACCAG
13951937 CCTAGTGATA
Statistics
Matches: 129, Mismatches: 33, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
48 5 0.04
49 114 0.88
50 5 0.04
51 5 0.04
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (48 bp):
GGCATGATAGTTGCTAACCAGATTGGCAGAATGATGGGCCACTAGTAA
Found at i:13956963 original size:49 final size:48
Alignment explanation
Indices: 13956828--13957044 Score: 132
Period size: 49 Copynumber: 4.4 Consensus size: 48
13956818 CTAGTGATAG
* * * * * *
13956828 GGCATGTTAGTTGCTAACTAGAATGGCAG-ATGTACTGGACGACTGGTAA
1 GGCATGATAGTTGCTAACCAGATTGGCAGAATG-A-TGGGCCACTAGTAA
* * * * * *
13956877 GGCCTGCTAGTTGCCAACCAG-GTGGGAGAATAAGATGGGCCAGTAGTAA
1 GGCATGATAGTTGCTAACCAGATTGGCAGAAT--GATGGGCCACTAGTAA
* * *
13956926 GGCATGTTAGTTGCTAACCAGATTGGCATGAATGATGGGTCACTAGTAG
1 GGCATGATAGTTGCTAACCAGATTGGCA-GAATGATGGGCCACTAGTAA
* * * * * * * * ***
13956975 GGTATCATAGTTACTAACCAGATTGACGTGAGTGCTAGGTTTCTAGTAA
1 GGCATGATAGTTGCTAACCAGATTGGC-AGAATGATGGGCCACTAGTAA
13957024 GGCATGATAGTTGCTAACCAG
1 GGCATGATAGTTGCTAACCAG
13957045 CCTAGTGATA
Statistics
Matches: 129, Mismatches: 33, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
48 5 0.04
49 114 0.88
50 5 0.04
51 5 0.04
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (48 bp):
GGCATGATAGTTGCTAACCAGATTGGCAGAATGATGGGCCACTAGTAA
Found at i:13959229 original size:14 final size:14
Alignment explanation
Indices: 13959212--13959245 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13959202 AAACCTCCTT
13959212 TTTTATATTATTTA
1 TTTTATATTATTTA
* *
13959226 TTTTAAATTTTTTA
1 TTTTATATTATTTA
13959240 TTTTAT
1 TTTTAT
13959246 GTATTATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTATATTATTTA
Found at i:13959240 original size:23 final size:23
Alignment explanation
Indices: 13959119--13959257 Score: 80
Period size: 23 Copynumber: 5.6 Consensus size: 23
13959109 TTATGCATTG
* *
13959119 TTTATTTTAAATTGCTTTAAATTA
1 TTTATTTTAAATT-TTTTATATTA
* *
13959143 TTTATTTCAAACTATTTTGATATTTTA
1 TTTATTTTAAA-T-TTTT--TATATTA
* * * *
13959170 TTTATGTCAAATTTTTTACATTG
1 TTTATTTTAAATTTTTTATATTA
13959193 TTTATTTTGAAACCTCCTTTTTTATATTA
1 TTTATTTT-AAA-----TTTTTTATATTA
*
13959222 TTTATTTTAAATTTTTTATTTTA
1 TTTATTTTAAATTTTTTATATTA
* *
13959245 TGTATTATAAATT
1 TTTATTTTAAATT
13959258 GTTCTTGTAT
Statistics
Matches: 90, Mismatches: 15, Indels: 21
0.71 0.12 0.17
Matches are distributed among these distances:
23 32 0.36
24 13 0.14
25 7 0.08
26 2 0.02
27 15 0.17
28 3 0.03
29 18 0.20
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.60
Consensus pattern (23 bp):
TTTATTTTAAATTTTTTATATTA
Found at i:13965553 original size:143 final size:143
Alignment explanation
Indices: 13965329--13966843 Score: 2152
Period size: 143 Copynumber: 10.6 Consensus size: 143
13965319 GATGGATTGA
*
13965329 AAATTATGGCGGATCTTATCTTCCTAAAGTTGC-GTGGAGCAGATTGAAGCCACCAGCCTTATCT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * * * * *
13965393 CCCTAAAGTTGCAGCGGAGAAGATTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAT
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
13965458 AGATTAAAGCTAC
131 AGATTAAAGCTAC
* * *
13965471 AAATTATGGCGGATCTTATCTTCCTAAAGTTGCAGTCGAGCAGATTGAAGCCACAAGCCTTATCT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * * *
13965536 CCTTGAAGTTGTAGCGGAGCAGACTGAAGACAGC-AGATCTTATTTCCTTGGCGTTGCAGTGGAA
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGA-ATCTTATTTCCCTGGCGTTGCAGTGGAA
13965600 CAGATTAAAGCTAC
130 CAGATTAAAGCTAC
* *
13965614 AAATTATGGCAGATCTTATCTTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAGCCTTATCT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * * * *
13965679 CCCTAAAGTTGCAGCGGAGCAGATTGAAGACAGCGAATCTTATTTCCCTGGCGTTACAGTGGAAT
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
13965744 AGATTAAAGCTAC
131 AGATTAAAGCTAC
* * * * * *
13965757 AAATTATGGCGGCTCTTATCTTCCTGAAGTTACAGTGGAGAAGATTTAAGCTATCAGCCTTATCT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * *
13965822 CCTTGAAGTTGCAGCGGAGCAGACTAAAGACAACGAATCTTATTTCCTTGGCGTTGCAGTGGAAC
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
*
13965887 AAATTAAAGCTAC
131 AGATTAAAGCTAC
*
13965900 AAATTATGGCGGATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * * * *
13965965 CCCTAAAGTTGTAGCAGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGTACTGGAAC
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
13966030 AGATTAAAGCTAC
131 AGATTAAAGCTAC
**
13966043 AAATTATGGTAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * ** *
13966108 CCTTGACGTTATAGCGGAGCAGACTAAAGACAGTGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
*
13966173 AGATTAAAGTTAC
131 AGATTAAAGCTAC
* ** * * *
13966186 AAACTATGGTAGATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAACTTTATCT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * * *
13966251 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAACGAATCTTATTTCCCTAGCGTTACAGTGGAAT
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
* *
13966316 AAATTAAAACTAC
131 AGATTAAAGCTAC
** * * * *
13966329 AAATTATGGCAAATCTTATCTTCCTGAAGTTGCAATGGAGCATATTGAAGCCACCAGCCTAATTT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* * * * *
13966394 CCCTGAAGTTACAGCGGAGCAGACAAAAGACAACAAATCTTATTTCCCTGGCATTGCAGTGGAAC
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
* *
13966459 AAATTAAGGCTAC
131 AGATTAAAGCTAC
* *
13966472 AAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
* ** * * ** *
13966537 CCCTGAAGTTACAGATGAGCAGACTGAAGACAGCGAATCTTATTTCTCTGATGTTGAAGTGGAAC
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
*
13966602 AGATTGAAGCTAC
131 AGATTAAAGCTAC
* * * * *
13966615 ATATTATGGTGAATCTTATCTTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAGCCTTATAT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
** ** *
13966680 CCCTGAAGTTGCAATGGAGCAGACTAAAGACAATGAATCTTATTTCCCTGTCGTTGCAGTGGAAC
66 CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
13966745 AGATTAAAGCTAC
131 AGATTAAAGCTAC
* * *
13966758 AAATTATGGCGAATCTTATCTTCCTGAAGTTGAAATGGAGCAGATTGAAGCCACCAGCCTTATCT
1 AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
*
13966823 CCCTGAAGTTGCAGTGGAGCA
66 CCCTGAAGTTGCAGCGGAGCA
13966844 TATTGAAGCC
Statistics
Matches: 1224, Mismatches: 146, Indels: 5
0.89 0.11 0.00
Matches are distributed among these distances:
142 34 0.03
143 1189 0.97
144 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (143 bp):
AAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT
CCCTGAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
AGATTAAAGCTAC
Found at i:13965556 original size:44 final size:44
Alignment explanation
Indices: 13965497--13965707 Score: 131
Period size: 44 Copynumber: 4.5 Consensus size: 44
13965487 TATCTTCCTA
13965497 AAGTTGCAGTC-GAGCAGATTGAAGCCACAAGCCTTATCTCCTTG
1 AAGTTGCAG-CGGAGCAGATTGAAGCCACAAGCCTTATCTCCTTG
* * * * *
13965541 AAGTTGTAGCGGAGCAGACTGAAGACAGC-AGATCTTATTTCCTTG
1 AAGTTGCAGCGGAGCAGATTGAAGCCA-CAAG-CCTTATCTCCTTG
** * * * *
13965586 GCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCC-TG
1 AAGTTGCAGCGGAGCAGATTGAAGC--CACA--A--GC----CTTATC-TCCTTG
** * * *
13965640 AAGTTGCAATGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTA
1 AAGTTGCAGCGGAGCAGATTGAAGCCACAAGCCTTATCTCCTTG
13965684 AAGTTGCAGCGGAGCAGATTGAAG
1 AAGTTGCAGCGGAGCAGATTGAAG
13965708 ACAGCGAATC
Statistics
Matches: 125, Mismatches: 26, Indels: 32
0.68 0.14 0.17
Matches are distributed among these distances:
43 4 0.03
44 53 0.42
45 29 0.23
47 2 0.02
48 2 0.02
49 1 0.01
50 1 0.01
51 1 0.01
52 2 0.02
54 27 0.22
55 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (44 bp):
AAGTTGCAGCGGAGCAGATTGAAGCCACAAGCCTTATCTCCTTG
Found at i:13966685 original size:44 final size:44
Alignment explanation
Indices: 13966629--13966895 Score: 201
Period size: 44 Copynumber: 5.8 Consensus size: 44
13966619 TATGGTGAAT
*
13966629 CTTATCTTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAGC
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAGC
* * * * ** **
13966673 CTTATATCCCTGAAGTTGCAATGGAGCAGACTAAAGACAATGAAT
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAG-CCACCAGC
* ** * * * **
13966718 CTTATTTCCCTGTCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGC
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGC--C--ACCA--GC
* *
13966768 GAATCTTATCTTCCTGAAGTTGAAATGGAGCAGATTGAAGCCACCAGC
1 ----CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAGC
* *
13966816 CTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGCCACCAGC
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAGC
* * * * *
13966860 ATTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAG
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAG
13966896 ACAGGAAATC
Statistics
Matches: 174, Mismatches: 38, Indels: 22
0.74 0.16 0.09
Matches are distributed among these distances:
44 104 0.60
45 33 0.19
48 5 0.03
50 2 0.01
52 1 0.01
54 29 0.17
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAGC
Found at i:13966851 original size:187 final size:188
Alignment explanation
Indices: 13966629--13967075 Score: 553
Period size: 187 Copynumber: 2.4 Consensus size: 188
13966619 TATGGTGAAT
* * *
13966629 CTTATCTTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAGCCTTATATCCCTGAAGTTGCAA
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAG
* * *
13966694 TGGAGCAGACTAAAGACAATG-AATCTTATTTCCCTGTCGTTGCAGTGGAACAGATTAAAGCTAC
66 TGGAGCAGACTAAAGAC-AGGAAATCTTATTTCCCTGGCGCTGCAGTGGAACAGATTAAAGCTAC
* * * *
13966758 AAATTATGGCGAA-TCTTATCTTCC-TGAAGTTGA-AATGGAGCAGATTGAAGCCACCAGC
130 AAATTATGGCCAATTCTTATC-TCCTTGAAGTT-ACAATGGAGCAGATCGAAGCCACAAAC
* * * *
13966816 CTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGCCACCAGCATTATCTCCCTGAAGTTGTAG
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAG
* * * *
13966881 TAGAGCAGACTGAAGACAGGAAATCTTATTTCTCTGGCGCTGCAGTGGAACAGATTAAAGCTACC
66 TGGAGCAGACTAAAGACAGGAAATCTTATTTCCCTGGCGCTGCAGTGGAACAGATTAAAGCTACA
* * * * *
13966946 AATTATGGCCAATTTTTATCTCCTTGAAGTTACAGTGGAGTAGATCGAAGCTACAAAT
131 AATTATGGCCAATTCTTATCTCCTTGAAGTTACAATGGAGCAGATCGAAGCCACAAAC
* * * * * * *
13967004 CTCT-TCTCCCTAAAATTACATTGGAGCAGATCGAAGCCACAATCCTTATCTCCCTGAAGTTGCA
1 CT-TATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCA
13967068 GTGGAGCA
65 GTGGAGCA
13967076 TGATAAAAAT
Statistics
Matches: 221, Mismatches: 34, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
186 2 0.01
187 128 0.58
188 90 0.41
189 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (188 bp):
CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAG
TGGAGCAGACTAAAGACAGGAAATCTTATTTCCCTGGCGCTGCAGTGGAACAGATTAAAGCTACA
AATTATGGCCAATTCTTATCTCCTTGAAGTTACAATGGAGCAGATCGAAGCCACAAAC
Found at i:13967056 original size:44 final size:44
Alignment explanation
Indices: 13966961--13967075 Score: 117
Period size: 44 Copynumber: 2.6 Consensus size: 44
13966951 TGGCCAATTT
* * * * *
13966961 TTATCTCCTTGAAGTTACAGTGGAGTAGATCGAAGCTACAAATC
1 TTATCTCCCTAAAATTACAGTGGAGCAGATCGAAGCCACAAATC
*
13967005 TCT-TCTCCCTAAAATTACATTGGAGCAGATCGAAGCCAC-AATCC
1 T-TATCTCCCTAAAATTACAGTGGAGCAGATCGAAGCCACAAAT-C
* * *
13967049 TTATCTCCCTGAAGTTGCAGTGGAGCA
1 TTATCTCCCTAAAATTACAGTGGAGCA
13967076 TGATAAAAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
43 4 0.07
44 53 0.91
45 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTAAAATTACAGTGGAGCAGATCGAAGCCACAAATC
Found at i:13972940 original size:14 final size:14
Alignment explanation
Indices: 13972923--13972956 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13972913 AAACCTCCTT
13972923 TTTTATATTATTTA
1 TTTTATATTATTTA
* *
13972937 TTTTAAATTTTTTA
1 TTTTATATTATTTA
13972951 TTTTAT
1 TTTTAT
13972957 GTACTATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTATATTATTTA
Found at i:13972951 original size:23 final size:23
Alignment explanation
Indices: 13972830--13972956 Score: 74
Period size: 23 Copynumber: 5.0 Consensus size: 23
13972820 TTATGCATTG
* *
13972830 TTTATTTTAAATTGCTTTAAATTA
1 TTTATTTTAAATT-TTTTATATTA
* *
13972854 TTTATTTCAAACTATTTTGATATTTTA
1 TTTATTTTAAA-T-TTTT--TATATTA
* * * *
13972881 TTTATGTCAAATTTTTTACATTG
1 TTTATTTTAAATTTTTTATATTA
13972904 TTTATTTTGAAACCTCCTTTTTTATATTA
1 TTTATTTT-AAA-----TTTTTTATATTA
*
13972933 TTTATTTTAAATTTTTTATTTTA
1 TTTATTTTAAATTTTTTATATTA
13972956 T
1 T
13972957 GTACTATAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 21
0.70 0.11 0.18
Matches are distributed among these distances:
23 22 0.28
24 13 0.16
25 7 0.09
26 2 0.03
27 15 0.19
28 3 0.04
29 18 0.22
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTATTTTAAATTTTTTATATTA
Found at i:13972966 original size:23 final size:23
Alignment explanation
Indices: 13972921--13972968 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
13972911 TGAAACCTCC
* * *
13972921 TTTTTTATATTATTTATTTTAAA
1 TTTTTTATATTATGTACTATAAA
*
13972944 TTTTTTATTTTATGTACTATAAA
1 TTTTTTATATTATGTACTATAAA
13972967 TT
1 TT
13972969 GTTCTTGTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTTTATATTATGTACTATAAA
Found at i:13976862 original size:4 final size:4
Alignment explanation
Indices: 13976855--13976894 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
13976845 ATTAATTAGG
13976855 AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT
13976895 GAGTTTATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:13981134 original size:17 final size:17
Alignment explanation
Indices: 13981112--13981148 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
13981102 TAGTACAATA
13981112 ATAATAATAAT-ATAATC
1 ATAATAATAATCAT-ATC
13981129 ATAATAATAATCATATC
1 ATAATAATAATCATATC
13981146 ATA
1 ATA
13981149 GGAATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATAATAATCATATC
Found at i:13981347 original size:3 final size:3
Alignment explanation
Indices: 13981341--13981376 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
13981331 TATATTGATG
*
13981341 ATA ATA A-A ATA ATA ATA ACA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13981377 AGGCAAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:13982759 original size:2 final size:2
Alignment explanation
Indices: 13982752--13982776 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13982742 TAGACTGTTG
13982752 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13982777 TATTTCTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13983039 original size:44 final size:44
Alignment explanation
Indices: 13982958--13983386 Score: 335
Period size: 44 Copynumber: 9.5 Consensus size: 44
13982948 TCGTTCTAAC
* * * * * *
13982958 CCACTGCGACTTCAGGGATATAGGAATTGTTGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGTTTCAATCTGCT
* * *
13983002 CCACTGCAACTTTAGGGAGATAAAATTAGTAGTTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGTTTCAATCTGCT
* * * * *
13983046 CCACTACAACTTTAGAGAGATAAGATTTATAACTCGTAGCTTT-AATTTGTT
1 CCACTGCAACTTCAGGGAGATAAGA--T-T---T-GTAG-TTTCAATCTGCT
* ** * * *
13983097 CCATTATAACTTCAGGGAAATAAGATTCTCTA-TCTTCCATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATT-TGTAGT-TTCAATCTGCT
* * *
13983142 CCACTGCAACTTCAGGGAGATAAGATATGTGGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGTTTCAATCTGCT
* * * **
13983186 CTACTACAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGTTTCAATCTGCT
* * * *
13983230 CTACTGTAACTTCAGAGAGATAAGATTTGTAGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGTTTCAATCTGCT
** ** *
13983274 TTACTGCAACTTCAAAGAGATAAAATTTGTTA-TCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAGT-TTCAATCTGCT
* * * *
13983319 CTACTGTAACTTTAGGGAGATAATATTTGTAGCTTT-AATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAG-TTTCAATCTGCT
*
13983363 CCTCTGCAACTTCAGGGAGATAAG
1 CCACTGCAACTTCAGGGAGATAAG
13983387 GTTCGCCACG
Statistics
Matches: 312, Mismatches: 58, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
43 1 0.00
44 204 0.65
45 67 0.21
46 4 0.01
47 1 0.00
48 1 0.00
49 1 0.00
51 30 0.10
52 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAGTTTCAATCTGCT
Found at i:13983330 original size:133 final size:133
Alignment explanation
Indices: 13982989--13983386 Score: 390
Period size: 133 Copynumber: 2.9 Consensus size: 133
13982979 AGGAATTGTT
* ** * *
13982989 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAAAT-TAGTAGTTTCAATCTGCTCCACTAC
1 GCTTCAATCTGCTCCACTGCAACTTCAAAGAGATAAAATAT-GTAGCTTCAATCTGCTCTACTAC
* * * * * *
13983053 AACTTTAGAGAGATAAGATTTATAACTCGTAGCTTTAATTTGTTCCAT-TATAACTTCAGGGAAA
65 AACTTCAGAGAGATAAGATTTGTAACT--T--C---AATCTGCTCC-TCTGTAACTTCAGGGAGA
13983117 TAAGATTCTCTA
122 TAAGATTCTCTA
* * ** * *
13983129 TCTTCCATCTGCTCCACTGCAACTTCAGGGAGATAAGATATGTGGCTTCAATCTGCTCTACTACA
1 GCTTCAATCTGCTCCACTGCAACTTCAAAGAGATAAAATATGTAGCTTCAATCTGCTCTACTACA
*
13983194 ACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCT-CTACTGTAACTTCAGAGAGATAAGATT-
66 ACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCT-CTGTAACTTCAGGGAGATAAGATTC
*
13983257 TGTA
130 TCTA
** * * **
13983261 GCTTCAATCTGCTTTACTGCAACTTCAAAGAGATAAAATTTGTTATCTTCAATCTGCTCTACTGT
1 GCTTCAATCTGCTCCACTGCAACTTCAAAGAGATAAAATATG-TAGCTTCAATCTGCTCTACTAC
* * * * * *
13983326 AACTTTAGGGAGATAATATTTGTAGCTTTAATCTGCTCCTCTGCAACTTCAGGGAGATAAG
65 AACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCTCTGTAACTTCAGGGAGATAAG
13983387 GTTCGCCACG
Statistics
Matches: 219, Mismatches: 34, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
131 1 0.00
132 38 0.17
133 95 0.43
134 2 0.01
136 1 0.00
138 1 0.00
140 80 0.37
141 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (133 bp):
GCTTCAATCTGCTCCACTGCAACTTCAAAGAGATAAAATATGTAGCTTCAATCTGCTCTACTACA
ACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCTCTGTAACTTCAGGGAGATAAGATTCT
CTA
Found at i:13983347 original size:89 final size:88
Alignment explanation
Indices: 13983104--13983385 Score: 359
Period size: 89 Copynumber: 3.2 Consensus size: 88
13983094 GTTCCATTAT
* * * * * * * *
13983104 AACTTCAGGGAAATAAGATTCTCTATCTTCCATCTGCTCCACTGCAACTTCAGGGAGATAAGATA
1 AACTTCAGAGAGATAAAATT-TGTATCTTCAATCTGCTCTACTGTAACTTCAGGGAGATAAGATT
* *
13983169 TGTGGCTTCAATCTGCTCTACTAC
65 TGTAGCTTCAATCTGCTCTACTGC
* * *
13983193 AACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCTACTGTAACTTCAGAGAGATAAGATTT
1 AACTTCAGAGAGATAAAATTTGTATCTTCAATCTGCTCTACTGTAACTTCAGGGAGATAAGATTT
*
13983258 GTAGCTTCAATCTGCTTTACTGC
66 GTAGCTTCAATCTGCTCTACTGC
* * *
13983281 AACTTCAAAGAGATAAAATTTGTTATCTTCAATCTGCTCTACTGTAACTTTAGGGAGATAATATT
1 AACTTCAGAGAGATAAAATTTG-TATCTTCAATCTGCTCTACTGTAACTTCAGGGAGATAAGATT
*
13983346 TGTAGCTTTAATCTGCTCCT-CTGC
65 TGTAGCTTCAATCTGCT-CTACTGC
*
13983370 AACTTCAGGGAGATAA
1 AACTTCAGAGAGATAA
13983386 GGTTCGCCAC
Statistics
Matches: 169, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
88 78 0.46
89 90 0.53
90 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (88 bp):
AACTTCAGAGAGATAAAATTTGTATCTTCAATCTGCTCTACTGTAACTTCAGGGAGATAAGATTT
GTAGCTTCAATCTGCTCTACTGC
Found at i:13984167 original size:9 final size:9
Alignment explanation
Indices: 13984141--13984243 Score: 65
Period size: 10 Copynumber: 11.4 Consensus size: 9
13984131 ACATGTGGCA
13984141 AAAAATTAT
1 AAAAATTAT
13984150 AAAAA--AT
1 AAAAATTAT
13984157 AAAAATTAT
1 AAAAATTAT
13984166 AAAAATTATT
1 AAAAATTA-T
**
13984176 AAATTTTAAT
1 AAAAATT-AT
13984186 AAAAA--AT
1 AAAAATTAT
*
13984193 AAAAAATA-
1 AAAAATTAT
*
13984201 AAAAAATATT
1 AAAAATTA-T
13984211 AAAAATTTATT
1 AAAAA-TTA-T
*
13984222 AAAAAATA-
1 AAAAATTAT
13984230 AAAAATGTAT
1 AAAAAT-TAT
13984240 AAAA
1 AAAA
13984244 TGATCAAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
7 14 0.18
8 13 0.17
9 18 0.24
10 21 0.28
11 10 0.13
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:13984188 original size:36 final size:37
Alignment explanation
Indices: 13984140--13984243 Score: 124
Period size: 36 Copynumber: 2.8 Consensus size: 37
13984130 GACATGTGGC
* *
13984140 AAAAAATT-ATAAAAAATAAAAATTATAAAAATTATT
1 AAAAATTTAATAAAAAATAAAAATTATAAAAAATATT
* *
13984176 -AAATTTTAATAAAAAATAAAAAATA-AAAAAATATT
1 AAAAATTTAATAAAAAATAAAAATTATAAAAAATATT
*
13984211 AAAAATTTATTAAAAAATAAAAAATGTATAAAA
1 AAAAATTTAATAAAAAAT-AAAAAT-TATAAAA
13984244 TGATCAAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
35 14 0.25
36 31 0.55
37 5 0.09
38 2 0.04
39 4 0.07
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (37 bp):
AAAAATTTAATAAAAAATAAAAATTATAAAAAATATT
Found at i:13984225 original size:19 final size:18
Alignment explanation
Indices: 13984184--13984244 Score: 52
Period size: 19 Copynumber: 3.4 Consensus size: 18
13984174 TTAAATTTTA
* *
13984184 ATAAAAAATAAAAAAT-A
1 ATAAAATATAAAAAATGT
* * *
13984201 AAAAAATATTAAAAATTT
1 ATAAAATATAAAAAATGT
*
13984219 ATTAAAAAATAAAAAATGT
1 A-TAAAATATAAAAAATGT
13984238 ATAAAAT
1 ATAAAAT
13984245 GATCAAAAAG
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
17 13 0.39
18 6 0.18
19 14 0.42
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (18 bp):
ATAAAATATAAAAAATGT
Found at i:13984230 original size:43 final size:41
Alignment explanation
Indices: 13984148--13984235 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 41
13984138 GCAAAAAATT
* *
13984148 ATAAAAAATAAAAATTATAAAAATTATTAAATTTTAATAAAAA
1 ATAAAAAATAAAAAATATAAAAATTATTAAA--TAAATAAAAA
13984191 ATAAAAAATAAAAAAATATTAAAAATTTATTAAA-AAATAAAAA
1 ATAAAAAAT-AAAAAATA-TAAAAA-TTATTAAATAAATAAAAA
13984234 AT
1 AT
13984236 GTATAAAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
43 19 0.47
44 7 0.17
45 6 0.15
46 8 0.20
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (41 bp):
ATAAAAAATAAAAAATATAAAAATTATTAAATAAATAAAAA
Found at i:13984457 original size:20 final size:20
Alignment explanation
Indices: 13984412--13984455 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
13984402 TAGTACGATA
13984412 ATTTTTATAATTCTTTTACG
1 ATTTTTATAATTCTTTTACG
*
13984432 AATTTTATAATTC-TTTAC-
1 ATTTTTATAATTCTTTTACG
13984450 ATTTTT
1 ATTTTT
13984456 TTTTATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 5 0.23
20 12 0.55
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTTTATAATTCTTTTACG
Found at i:13986314 original size:17 final size:17
Alignment explanation
Indices: 13986292--13986326 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
13986282 TGAAATAATT
13986292 TCCACTTGTTTAATCGA
1 TCCACTTGTTTAATCGA
*
13986309 TCCACTTGTTTAGTCGA
1 TCCACTTGTTTAATCGA
13986326 T
1 T
13986327 TTAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (17 bp):
TCCACTTGTTTAATCGA
Found at i:13990215 original size:141 final size:141
Alignment explanation
Indices: 13989961--13990244 Score: 532
Period size: 141 Copynumber: 2.0 Consensus size: 141
13989951 TCAAATGATG
13989961 AATGAATGGTTTACAGAATTTGTAAAAACAAATCCGGCTGTACAACAACCCCTACCCCCTCCTAT
1 AATGAATGGTTTACAGAATTTGTAAAAACAAATCCGGCTGTACAACAACCCCTACCCCCTCCTAT
* *
13990026 TTCTTAACCGATTCCCGATATGCCTCAAGGTATATAACTTGTTAGAACTGGTAAACCTCCTTTAG
66 TTCTTAACCGATTCCCGATATGCCTCAAGGTATAGAACTTGTTAGAACTGGTAAACCTCCTGTAG
13990091 ATAAAATTCAT
131 ATAAAATTCAT
*
13990102 AATGAATGGTTTACAGAATTTGTAAAAACAAATCCGGCTGTACAACAACCTCTACCCCCTCCTAT
1 AATGAATGGTTTACAGAATTTGTAAAAACAAATCCGGCTGTACAACAACCCCTACCCCCTCCTAT
*
13990167 TTCTTAACCGATTCCCGATATGCCTCAAGGTATAGAACTTGTTAGAACTGGTAAGCCTCCTGTAG
66 TTCTTAACCGATTCCCGATATGCCTCAAGGTATAGAACTTGTTAGAACTGGTAAACCTCCTGTAG
13990232 ATAAAATTCAT
131 ATAAAATTCAT
13990243 AA
1 AA
13990245 ATATGGGGCA
Statistics
Matches: 139, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
141 139 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (141 bp):
AATGAATGGTTTACAGAATTTGTAAAAACAAATCCGGCTGTACAACAACCCCTACCCCCTCCTAT
TTCTTAACCGATTCCCGATATGCCTCAAGGTATAGAACTTGTTAGAACTGGTAAACCTCCTGTAG
ATAAAATTCAT
Found at i:13996177 original size:25 final size:26
Alignment explanation
Indices: 13996097--13996189 Score: 77
Period size: 25 Copynumber: 3.7 Consensus size: 26
13996087 TACAACTCTT
* *
13996097 ATGAGCTTCCC-ATTACATGGCTCAC
1 ATGAGCTTCCCGATTATATAGCTCAC
** *
13996122 ATGAGCTTCTTG-TTATATAGCT-AG
1 ATGAGCTTCCCGATTATATAGCTCAC
* *
13996146 AGAGAGCTTCCCGTTTATAT-GCTCAC
1 A-TGAGCTTCCCGATTATATAGCTCAC
13996172 ATGAGCATTCCCGATTAT
1 ATGAGC-TTCCCGATTAT
13996190 GAATTGTTTG
Statistics
Matches: 52, Mismatches: 11, Indels: 9
0.72 0.15 0.12
Matches are distributed among these distances:
24 2 0.04
25 32 0.62
26 18 0.35
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (26 bp):
ATGAGCTTCCCGATTATATAGCTCAC
Found at i:14000054 original size:17 final size:16
Alignment explanation
Indices: 14000032--14000085 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
14000022 AATCGGCACC
14000032 AATATTATTTGGTTTGT
1 AATATTATTTGGTTT-T
14000049 AATATTCCATTT-GTTTT
1 AATATT--ATTTGGTTTT
*
14000066 TATATTATTTGGTATTT
1 AATATTATTTGGT-TTT
14000083 AAT
1 AAT
14000086 CGTCACTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 4 0.13
16 2 0.06
17 17 0.55
18 4 0.13
19 4 0.13
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.59
Consensus pattern (16 bp):
AATATTATTTGGTTTT
Found at i:14003372 original size:17 final size:15
Alignment explanation
Indices: 14003343--14003378 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
14003333 ATATTAATAA
14003343 AAAATAGAATTTAGAT
1 AAAATAGAATTTAG-T
14003359 AAAATAGAATTTTAGT
1 AAAATAGAA-TTTAGT
14003375 AAAA
1 AAAA
14003379 AAATTAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (15 bp):
AAAATAGAATTTAGT
Found at i:14005291 original size:30 final size:31
Alignment explanation
Indices: 14005222--14005293 Score: 83
Period size: 33 Copynumber: 2.3 Consensus size: 31
14005212 GCTGATACTA
**
14005222 CGAGCTCCCTTCAATTCCTGCAAATCGATACCG
1 CGAGCTCCCTTCAATTCCCACAAAT--ATACCG
* *
14005255 CAAGCTCCCTTCAATTCCCACGAAT-TACCG
1 CGAGCTCCCTTCAATTCCCACAAATATACCG
14005285 CGAGCTCCC
1 CGAGCTCCC
14005294 CTAATTGTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 13 0.38
33 21 0.62
ACGTcount: A:0.24, C:0.40, G:0.14, T:0.22
Consensus pattern (31 bp):
CGAGCTCCCTTCAATTCCCACAAATATACCG
Found at i:14010804 original size:89 final size:90
Alignment explanation
Indices: 14010695--14010873 Score: 351
Period size: 89 Copynumber: 2.0 Consensus size: 90
14010685 ATCTTAATTA
14010695 GTATTATACACTTAATTATATAACCGTCCTTAAAATTGACAATATTTTTACTTTTTAACCTTACC
1 GTATTATACACTTAATTATATAACCGTCCTTAAAATTGACAATATTTTTACTTTTTAACCTTACC
14010760 CCATTTTAGTAATGACAAAATTACC
66 CCATTTTAGTAATGACAAAATTACC
14010785 GTATTATACA-TTAATTATATAACCGTCCTTAAAATTGACAATATTTTTACTTTTTAACCTTACC
1 GTATTATACACTTAATTATATAACCGTCCTTAAAATTGACAATATTTTTACTTTTTAACCTTACC
14010849 CCATTTTAGTAATGACAAAATTACC
66 CCATTTTAGTAATGACAAAATTACC
14010874 CATGTCGAGT
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 79 0.89
90 10 0.11
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.40
Consensus pattern (90 bp):
GTATTATACACTTAATTATATAACCGTCCTTAAAATTGACAATATTTTTACTTTTTAACCTTACC
CCATTTTAGTAATGACAAAATTACC
Found at i:14012566 original size:20 final size:20
Alignment explanation
Indices: 14012522--14012574 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
14012512 TTCTAATAAA
14012522 ATTTATTACAAATGTAATTTT
1 ATTTATTA-AAATGTAATTTT
*
14012543 ATTTATTAAAAT-TTATTTT
1 ATTTATTAAAATGTAATTTT
*
14012562 CATTTAATAAAAT
1 -ATTTATTAAAAT
14012575 ATGATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 6 0.21
20 15 0.52
21 8 0.28
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTTATTAAAATGTAATTTT
Found at i:14018363 original size:45 final size:45
Alignment explanation
Indices: 14018312--14018404 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 45
14018302 TGATGAATGA
*
14018312 TATTATGTATCTAGTATATTGTTGAAAAATAGAATATTGCTAAAT
1 TATTATGTATCTAGCATATTGTTGAAAAATAGAATATTGCTAAAT
* * * *
14018357 TATTATGTATTTAGCATGTTGTTGAAAAATGGAATATTGTTAAAT
1 TATTATGTATCTAGCATATTGTTGAAAAATAGAATATTGCTAAAT
14018402 TAT
1 TAT
14018405 GAATTTGTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (45 bp):
TATTATGTATCTAGCATATTGTTGAAAAATAGAATATTGCTAAAT
Found at i:14018616 original size:21 final size:21
Alignment explanation
Indices: 14018592--14018743 Score: 63
Period size: 21 Copynumber: 7.2 Consensus size: 21
14018582 ATGAGTTTTT
14018592 GTTCAACCCTAATGGGTTTCC
1 GTTCAACCCTAATGGGTTTCC
* * * * *
14018613 GTTCAGCTCTATTGAGCTTT-T
1 GTTCAACCCTAATG-GGTTTCC
* *
14018634 GTTTAACCCTTATGGGTTTCC
1 GTTCAACCCTAATGGGTTTCC
* * * * *
14018655 GTTCAGCTCTAATGAGCTTCT
1 GTTCAACCCTAATGGGTTTCC
* * * *
14018676 ATTTAACCTTTATGGGTTTCC
1 GTTCAACCCTAATGGGTTTCC
* ** * * *
14018697 GTTCAGCTTTAATGAGCTTCT
1 GTTCAACCCTAATGGGTTTCC
* *
14018718 GTTTAACCCTTATGGGTTTCC
1 GTTCAACCCTAATGGGTTTCC
*
14018739 ATTCA
1 GTTCA
14018744 GCTCTTACGA
Statistics
Matches: 83, Mismatches: 46, Indels: 4
0.62 0.35 0.03
Matches are distributed among these distances:
20 4 0.05
21 75 0.90
22 4 0.05
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (21 bp):
GTTCAACCCTAATGGGTTTCC
Found at i:14018649 original size:42 final size:42
Alignment explanation
Indices: 14018582--14018804 Score: 284
Period size: 42 Copynumber: 5.3 Consensus size: 42
14018572 TTTAACTCGC
* * * *
14018582 ATGAGTTTTTGTTCAACCCTAATGGGTTTCCGTTCAGCTCTA
1 ATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTA
* *
14018624 TTGAGCTTTTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTA
1 ATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTA
* * *
14018666 ATGAGCTTCTATTTAACCTTTATGGGTTTCCGTTCAGCTTTA
1 ATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTA
* *
14018708 ATGAGCTTCTGTTTAACCCTTATGGGTTTCCATTCAGCTCTT
1 ATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTA
* * * * * * *
14018750 ACGAGCTTCAGTTCAACCATTATGGGTTTCTGTTTAGCTCTC
1 ATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTA
14018792 ATGAGCTTCTGTT
1 ATGAGCTTCTGTT
14018805 CAGCCTTCGG
Statistics
Matches: 157, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 157 1.00
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (42 bp):
ATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTA
Found at i:14019863 original size:248 final size:249
Alignment explanation
Indices: 14019414--14019911 Score: 930
Period size: 248 Copynumber: 2.0 Consensus size: 249
14019404 TTTAAAATCC
14019414 TACTATGCTAGGAATAATATGTATAAGTGATACTGTAGATTTATTCACTTAGTGAGTTGTTAAAT
1 TACTATGCTAGGAATAATATGTATAAGTGATACTGTAGATTTATTCACTTAGTGAGTTGTTAAAT
14019479 ATAACTTCATGAGTATTGTGGTATCAATATTGGATTATTCTTGATATGTATAAATTTCATATTTA
66 ATAACTTCATGAGTATTGTGGTATCAATATTGGATTATTCTTGATATGTATAAATTTCATATTTA
14019544 AAAAGAAGTATTATGATTAAATTTTATGCGAACTTACTAAGCGTTCATTGCTTATGTATTTGTTT
131 AAAAGAAGTATTATGATTAAATTTTATGCGAACTTACTAAGCGTTCATTGCTTATGTATTTGTTT
* *
14019609 TCCTTTACTTTTGAGATTATCGGAA-GCTCGATTGGGTTGGAAGCTTG-TCGGAGT
196 TCCTTTACTTTTCAAATTATC-GAATGCTCGATTGGGTTGGAAGCTTGCT-GGAGT
14019663 TACTATGCTA-GAATAATATGTATAAGTGATACTGTAGATTTATTCACTTAGTGAGTTGTTAAAT
1 TACTATGCTAGGAATAATATGTATAAGTGATACTGTAGATTTATTCACTTAGTGAGTTGTTAAAT
14019727 ATAACTTCATGAGTATTGTGGTATCAATATTGGATTATTCTTGATATGTATAAATTTCATATTTA
66 ATAACTTCATGAGTATTGTGGTATCAATATTGGATTATTCTTGATATGTATAAATTTCATATTTA
14019792 AAAAGAAGTATTATGATTAAATTTTATGCGAACTTACTAAGCGTTCATTGCTTATGTATTTGTTT
131 AAAAGAAGTATTATGATTAAATTTTATGCGAACTTACTAAGCGTTCATTGCTTATGTATTTGTTT
*
14019857 TCCTTTACTTTTCAAATTATCGAATGCTTGATTGGGTTGGAAGCTTGCTGGAGT
196 TCCTTTACTTTTCAAATTATCGAATGCTCGATTGGGTTGGAAGCTTGCTGGAGT
14019911 T
1 T
14019912 GTATCACACT
Statistics
Matches: 244, Mismatches: 3, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
247 3 0.01
248 230 0.94
249 11 0.05
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (249 bp):
TACTATGCTAGGAATAATATGTATAAGTGATACTGTAGATTTATTCACTTAGTGAGTTGTTAAAT
ATAACTTCATGAGTATTGTGGTATCAATATTGGATTATTCTTGATATGTATAAATTTCATATTTA
AAAAGAAGTATTATGATTAAATTTTATGCGAACTTACTAAGCGTTCATTGCTTATGTATTTGTTT
TCCTTTACTTTTCAAATTATCGAATGCTCGATTGGGTTGGAAGCTTGCTGGAGT
Found at i:14022384 original size:20 final size:20
Alignment explanation
Indices: 14022359--14022398 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14022349 CGTAAAATGA
*
14022359 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
14022379 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
14022399 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:14022388 original size:34 final size:35
Alignment explanation
Indices: 14022344--14022410 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
14022334 CAGTAAAATA
*
14022344 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
14022378 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
14022411 TTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:14023494 original size:45 final size:46
Alignment explanation
Indices: 14023425--14023517 Score: 179
Period size: 45 Copynumber: 2.0 Consensus size: 46
14023415 GCATACCTTA
14023425 CATGTGATAGAGCAAAATCTATTAGAAGGGTCTTGAAGGTATCTTC
1 CATGTGATAGAGCAAAATCTATTAGAAGGGTCTTGAAGGTATCTTC
14023471 CATGTGATAGAG-AAAATCTATTAGAAGGGTCTTGAAGGTATCTTC
1 CATGTGATAGAGCAAAATCTATTAGAAGGGTCTTGAAGGTATCTTC
14023516 CA
1 CA
14023518 CAAATTTCGT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 35 0.74
46 12 0.26
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (46 bp):
CATGTGATAGAGCAAAATCTATTAGAAGGGTCTTGAAGGTATCTTC
Found at i:14031680 original size:18 final size:18
Alignment explanation
Indices: 14031646--14031679 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14031636 TCTCTTTCTT
*
14031646 TTTCTCTCTCATTTTTTG
1 TTTCTCTATCATTTTTTG
14031664 TTTCTCTATC-TTTTTT
1 TTTCTCTATCATTTTTT
14031680 TTGGTTAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.06, C:0.21, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTCTCTATCATTTTTTG
Found at i:14032121 original size:3 final size:3
Alignment explanation
Indices: 14032113--14032150 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
14032103 AAAAGGTGGA
*
14032113 AAC AAC AAC AAC AAG AAC AAC AACC AA- AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AA-C AAC AAC AAC AAC AA
14032151 GGGTGGTCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.68, C:0.29, G:0.03, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:14032385 original size:15 final size:15
Alignment explanation
Indices: 14032367--14032434 Score: 68
Period size: 15 Copynumber: 4.3 Consensus size: 15
14032357 AAGATTTCAG
14032367 TGATGATGATTATGA
1 TGATGATGATTATGA
14032382 TGATGATGACTTGGATGA
1 TGATGATGA-TT--ATGA
14032400 TGATTG-TGATCT-TGA
1 TGA-TGATGAT-TATGA
*
14032415 TGATGATGATTTTGA
1 TGATGATGATTATGA
14032430 TGATG
1 TGATG
14032435 GCGATGAGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
14 3 0.07
15 27 0.59
16 2 0.04
17 1 0.02
18 11 0.24
19 2 0.04
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.41
Consensus pattern (15 bp):
TGATGATGATTATGA
Found at i:14032789 original size:15 final size:15
Alignment explanation
Indices: 14032754--14032790 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 15
14032744 CATATCAAGG
14032754 TGGCGGTGGTAAAAA
1 TGGCGGTGGTAAAAA
14032769 ---CGGTGGTAAAAA
1 TGGCGGTGGTAAAAA
14032781 TGGCGGTGGT
1 TGGCGGTGGT
14032791 TTACCTCAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
12 12 0.63
15 7 0.37
ACGTcount: A:0.27, C:0.08, G:0.43, T:0.22
Consensus pattern (15 bp):
TGGCGGTGGTAAAAA
Found at i:14033669 original size:2 final size:2
Alignment explanation
Indices: 14033664--14033695 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14033654 ACTTCTCTCT
*
14033664 CA CA CA CA CA CA CA CA CA CA CA CA AA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
14033696 TACAATAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:14039022 original size:30 final size:30
Alignment explanation
Indices: 14038986--14039068 Score: 121
Period size: 30 Copynumber: 2.8 Consensus size: 30
14038976 ACACAGCTGC
14038986 GTGTCACACACGGGTAAGTGACACGGCCAT
1 GTGTCACACACGGGTAAGTGACACGGCCAT
*
14039016 GTGTCACACATGGGTAAGTGACACGGCCAT
1 GTGTCACACACGGGTAAGTGACACGGCCAT
* * * *
14039046 GTATCATACACAGGTGAGTGACA
1 GTGTCACACACGGGTAAGTGACA
14039069 TGATCGTGTC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.19
Consensus pattern (30 bp):
GTGTCACACACGGGTAAGTGACACGGCCAT
Found at i:14040434 original size:31 final size:30
Alignment explanation
Indices: 14040379--14040437 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
14040369 GTAAATACCC
* *
14040379 AAAATTTAAAGGGTTAAAGTGTAAATATGA
1 AAAAGTTAAAGGATTAAAGTGTAAATATGA
*
14040409 AAAAGTTAAAGGATCTATAGTGTAAATAT
1 AAAAGTTAAAGGAT-TAAAGTGTAAATAT
14040438 TTTAAGGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.49, C:0.02, G:0.19, T:0.31
Consensus pattern (30 bp):
AAAAGTTAAAGGATTAAAGTGTAAATATGA
Found at i:14041987 original size:21 final size:21
Alignment explanation
Indices: 14041961--14042008 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
14041951 CCAAATTACA
14041961 TGAAATGAATTGTTTTATCAT
1 TGAAATGAATTGTTTTATCAT
14041982 TGAAATGAATTGTTTTATCAT
1 TGAAATGAATTGTTTTATCAT
*
14042003 TTAAAT
1 TGAAAT
14042009 TAATAAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.48
Consensus pattern (21 bp):
TGAAATGAATTGTTTTATCAT
Found at i:14042411 original size:57 final size:59
Alignment explanation
Indices: 14042299--14042446 Score: 185
Period size: 57 Copynumber: 2.5 Consensus size: 59
14042289 AATTGACGGA
* *
14042299 AAAAAGGATCTACCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCATCCCGAAGAATATGTG-G
14042362 AAAAAGATCTAGCCCGGACGGGTGAT-C-T-TGATATAGCCATCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCATCCCGAAGAATATGTGG
* * *
14042418 AAAATAGATTTAGCCTGGACGGGTAATCC
1 AAAA-AGATCTAGCCCGGACGGGTGATCC
14042447 GAATTAGGGT
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
56 5 0.06
57 45 0.58
58 1 0.01
59 1 0.01
61 1 0.01
62 20 0.26
63 5 0.06
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (59 bp):
AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCATCCCGAAGAATATGTGG
Found at i:14054094 original size:23 final size:22
Alignment explanation
Indices: 14054062--14054104 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
14054052 GGAAGTTAGT
*
14054062 ATTTATATTTAAAATATAAATG
1 ATTTATATTTAAAAGATAAATG
*
14054084 ATTTAGTATTTATAAGATAAA
1 ATTTA-TATTTAAAAGATAAA
14054105 GGTTTAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (22 bp):
ATTTATATTTAAAAGATAAATG
Found at i:14054233 original size:35 final size:34
Alignment explanation
Indices: 14054192--14054267 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 34
14054182 TATAATAAAT
14054192 AATATAAAATA-ATTTATACTAAATAATAGATTATA
1 AATATAAAATATATTTATACTAAATAAT-GATTA-A
* * **
14054227 AATATAACATATTTTTATGTTAAATAATGATTAA
1 AATATAAAATATATTTATACTAAATAATGATTAA
14054261 AAGTATA
1 AA-TATA
14054268 TTTTTCTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
34 3 0.09
35 19 0.54
36 13 0.37
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (34 bp):
AATATAAAATATATTTATACTAAATAATGATTAA
Found at i:14055403 original size:17 final size:18
Alignment explanation
Indices: 14055371--14055404 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14055361 CAATAGTTAA
*
14055371 ATAAATAATTAAAAATTC
1 ATAAATAATAAAAAATTC
14055389 ATAAA-AATAAAAAATT
1 ATAAATAATAAAAAATT
14055405 AAATTGGTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAATAATAAAAAATTC
Found at i:14062221 original size:12 final size:13
Alignment explanation
Indices: 14062197--14062225 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
14062187 AGGCTATAAC
14062197 TATTGCATTTATT
1 TATTGCATTTATT
14062210 TATTGC-TTTATT
1 TATTGCATTTATT
14062222 TATT
1 TATT
14062226 CATATGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:14066022 original size:15 final size:15
Alignment explanation
Indices: 14066002--14066031 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14065992 GATCTATAGG
14066002 GATAGATCAAGACAA
1 GATAGATCAAGACAA
14066017 GATAGATCAAGACAA
1 GATAGATCAAGACAA
14066032 CTACTAGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.20, T:0.13
Consensus pattern (15 bp):
GATAGATCAAGACAA
Found at i:14068825 original size:14 final size:15
Alignment explanation
Indices: 14068791--14068829 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
14068781 CTAAATGGTT
*
14068791 AATTAATTGAACTTA
1 AATTAATTAAACTTA
*
14068806 AGTTAATTAAAC-TA
1 AATTAATTAAACTTA
14068820 AATTAATTAA
1 AATTAATTAA
14068830 TCTTTAATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (15 bp):
AATTAATTAAACTTA
Found at i:14072538 original size:25 final size:25
Alignment explanation
Indices: 14072510--14072595 Score: 127
Period size: 25 Copynumber: 3.4 Consensus size: 25
14072500 CTTTAGCGCA
*
14072510 CTCTCTGATTATTAGCACGTTGGTG
1 CTCTCTGATTACTAGCACGTTGGTG
*
14072535 CTCTCTGATTAGTAGCACGTTGGTG
1 CTCTCTGATTACTAGCACGTTGGTG
* **
14072560 CTCTTTGATTACTAGCACGTCAGTG
1 CTCTCTGATTACTAGCACGTTGGTG
14072585 CTCTCTGATTA
1 CTCTCTGATTA
14072596 GCACATCTGT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (25 bp):
CTCTCTGATTACTAGCACGTTGGTG
Found at i:14072607 original size:22 final size:22
Alignment explanation
Indices: 14072572--14072636 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
14072562 CTTTGATTAC
*
14072572 TAGCACGTCAGTGCTCTCTG-A
1 TAGCACATCAGTGCTCTCTGTA
*
14072593 TTAGCACATCTGTGCTCTCTGTA
1 -TAGCACATCAGTGCTCTCTGTA
*
14072616 TAGCACTTCAGTGCTCTCTGT
1 TAGCACATCAGTGCTCTCTGT
14072637 TCATTAGTGC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
22 37 0.97
23 1 0.03
ACGTcount: A:0.17, C:0.28, G:0.20, T:0.35
Consensus pattern (22 bp):
TAGCACATCAGTGCTCTCTGTA
Found at i:14074192 original size:22 final size:22
Alignment explanation
Indices: 14074164--14074206 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
14074154 CGCACCAGTA
*
14074164 TATGAGAGCCCTTTGTGGGACG
1 TATGAGAGCCCTTTATGGGACG
14074186 TATGAGAGCCCTTTATGGGAC
1 TATGAGAGCCCTTTATGGGAC
14074207 ATATTGAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.28
Consensus pattern (22 bp):
TATGAGAGCCCTTTATGGGACG
Found at i:14080649 original size:21 final size:21
Alignment explanation
Indices: 14080623--14080677 Score: 85
Period size: 20 Copynumber: 2.7 Consensus size: 21
14080613 TCTTAAGGTC
14080623 AAATTTTTACATCTACTTTGT
1 AAATTTTTACATCTACTTTGT
* *
14080644 AAA-TTTTAAAGCTACTTTGT
1 AAATTTTTACATCTACTTTGT
14080664 AAATTTTTACATCT
1 AAATTTTTACATCT
14080678 TAAAAATACT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.33, C:0.13, G:0.05, T:0.49
Consensus pattern (21 bp):
AAATTTTTACATCTACTTTGT
Found at i:14092889 original size:2 final size:2
Alignment explanation
Indices: 14092882--14092906 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14092872 TCCTACAATA
14092882 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
14092907 NNNNNNNNNN
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14108818 original size:20 final size:20
Alignment explanation
Indices: 14108770--14108829 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
14108760 GATTTAGGGG
* *
14108770 AAAATAAGAAAATAAGAAATTT
1 AAAATAA-AAAATAA-ATATTC
14108792 AAGAATAAAAAATAAATATTC
1 AA-AATAAAAAATAAATATTC
* *
14108813 AAAATAATAACTAAATA
1 AAAATAAAAAATAAATA
14108830 AAGAAAAGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 13 0.39
21 6 0.18
22 9 0.27
23 5 0.15
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAATAAAAAATAAATATTC
Found at i:14116450 original size:14 final size:14
Alignment explanation
Indices: 14116431--14116463 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
14116421 TAACATAGTA
14116431 TAACAAGCTAACAG
1 TAACAAGCTAACAG
14116445 TAACAAGCTAACAG
1 TAACAAGCTAACAG
14116459 TAACA
1 TAACA
14116464 TAGTATAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.52, C:0.21, G:0.12, T:0.15
Consensus pattern (14 bp):
TAACAAGCTAACAG
Found at i:14120787 original size:21 final size:21
Alignment explanation
Indices: 14120753--14120793 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14120743 CTATTTAAGC
*
14120753 CTTGAGACAAGTGACCTTTGT
1 CTTGAGACAAGTGAACTTTGT
* *
14120774 CTTGAGATAGGTGAACTTTG
1 CTTGAGACAAGTGAACTTTG
14120794 AAGCTAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (21 bp):
CTTGAGACAAGTGAACTTTGT
Found at i:14122558 original size:19 final size:18
Alignment explanation
Indices: 14122512--14122559 Score: 87
Period size: 18 Copynumber: 2.6 Consensus size: 18
14122502 AAAACTTTAG
14122512 GAGACCCAAAAGATTAAA
1 GAGACCCAAAAGATTAAA
14122530 GAGACCCAAAAGATTAAA
1 GAGACCCAAAAGATTAAA
14122548 GAGACCCCAAAA
1 GAGA-CCCAAAA
14122560 TAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 22 0.76
19 7 0.24
ACGTcount: A:0.54, C:0.21, G:0.17, T:0.08
Consensus pattern (18 bp):
GAGACCCAAAAGATTAAA
Found at i:14132735 original size:100 final size:99
Alignment explanation
Indices: 14132604--14132791 Score: 277
Period size: 100 Copynumber: 1.9 Consensus size: 99
14132594 ATTGAAGCCA
** * * *
14132604 CAACGGCGAATCTTGTTTCCCTCGCGGTGTAGTGGAACTGATTGAAGTTACGACGGCGAATCTTG
1 CAACGGCGAATCTTACTTCCCTCGAGGTGTAGTGGAACGGATTGAAGCTACGACGGCGAATCTTG
*
14132669 TTTCCCCAATACTGCAATTAAAAATATTAAAGTTG
66 TTT-CCCAACACTGCAATTAAAAATATTAAAGTTG
* *
14132704 CAACGGTGAATCTTACTTCCCTGGAGGTGTAGTGGAACGGATTGAAGCTACGACGGCGAATCTTG
1 CAACGGCGAATCTTACTTCCCTCGAGGTGTAGTGGAACGGATTGAAGCTACGACGGCGAATCTTG
* *
14132769 TTTCCCAACATTGCAATTTAAAA
66 TTTCCCAACACTGCAATTAAAAA
14132792 GACTGAAGAT
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
99 17 0.22
100 61 0.78
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (99 bp):
CAACGGCGAATCTTACTTCCCTCGAGGTGTAGTGGAACGGATTGAAGCTACGACGGCGAATCTTG
TTTCCCAACACTGCAATTAAAAATATTAAAGTTG
Done.