Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 51 of 65
Found at i:10026317 original size:70 final size:67
Alignment explanation
Indices: 10026180--10026339 Score: 261
Period size: 70 Copynumber: 2.4 Consensus size: 67
10026170 ATATATATAT
*
10026180 ATTATA-AGTTTTCAAAATG-TTTTAAAAACCATAATTATATATTTTCAAAATGTTTTAAAAATC
1 ATTATATA-TTTTCAAAATGTTTTTAAAAACCATAATTATATATTTTCAAAATGTTTTAAAAACC
10026243 ATA
65 ATA
10026246 ATTATATATTTTCAAAATGTTTTTAAAAACCATATATTATATAAGTTTTCAAAATGTTTTAAAAA
1 ATTATATATTTTCAAAATGTTTTTAAAAACCATA-ATTATAT-A-TTTTCAAAATGTTTTAAAAA
10026311 CCATA
63 CCATA
10026316 ATTATATATTTTCAAAATGTTTTT
1 ATTATATATTTTCAAAATGTTTTT
10026340 CAAATTTCCA
Statistics
Matches: 88, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
66 17 0.19
67 15 0.17
68 7 0.08
69 1 0.01
70 48 0.55
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.45
Consensus pattern (67 bp):
ATTATATATTTTCAAAATGTTTTTAAAAACCATAATTATATATTTTCAAAATGTTTTAAAAACCA
TA
Found at i:10028429 original size:36 final size:33
Alignment explanation
Indices: 10028336--10028461 Score: 200
Period size: 33 Copynumber: 3.7 Consensus size: 33
10028326 ATATATATAT
10028336 ATTATA-AGTTTTCAAAATGTTTTAAAAACCATA
1 ATTATATA-TTTTCAAAATGTTTTAAAAACCATA
10028369 ATTATATATTTTCAAAATGTTTTTAAAAACCATA
1 ATTATATATTTTCAAAATG-TTTTAAAAACCATA
10028403 ATTATATATTTTTTTCAAAATGTTTTAAAAACCATA
1 ATTATATA---TTTTCAAAATGTTTTAAAAACCATA
10028439 ATTATATATTTTCAAAATGTTTT
1 ATTATATATTTTCAAAATGTTTT
10028462 TCAAATTTCC
Statistics
Matches: 88, Mismatches: 0, Indels: 10
0.90 0.00 0.10
Matches are distributed among these distances:
33 32 0.36
34 23 0.26
36 22 0.25
37 11 0.12
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (33 bp):
ATTATATATTTTCAAAATGTTTTAAAAACCATA
Found at i:10030559 original size:35 final size:34
Alignment explanation
Indices: 10030454--10030572 Score: 172
Period size: 33 Copynumber: 3.5 Consensus size: 34
10030444 ATATATATAT
10030454 ATTATA-AGTTTTCAAAATGTTTTAAAAACCATA
1 ATTATATAGTTTTCAAAATGTTTTAAAAACCATA
*
10030487 ATTATATA-TTTTTAAAATGTTTTAAAAACCATA
1 ATTATATAGTTTTCAAAATGTTTTAAAAACCATA
*
10030520 ATTATATA-TTTTCAAAAAGTTTTTAAAAACCATA
1 ATTATATAGTTTTCAAAATG-TTTTAAAAACCATA
10030554 TATTATATAAGTTTTCAAA
1 -ATTATAT-AGTTTTCAAA
10030573 TTATTTTTCA
Statistics
Matches: 78, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
33 47 0.60
34 15 0.19
35 7 0.09
36 1 0.01
37 8 0.10
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (34 bp):
ATTATATAGTTTTCAAAATGTTTTAAAAACCATA
Found at i:10032671 original size:35 final size:34
Alignment explanation
Indices: 10032566--10032684 Score: 172
Period size: 33 Copynumber: 3.5 Consensus size: 34
10032556 ATATATATAT
10032566 ATTATA-AGTTTTCAAAATGTTTTAAAAACCATA
1 ATTATATAGTTTTCAAAATGTTTTAAAAACCATA
*
10032599 ATTATATA-TTTTTAAAATGTTTTAAAAACCATA
1 ATTATATAGTTTTCAAAATGTTTTAAAAACCATA
*
10032632 ATTATATA-TTTTCAAAAAGTTTTTAAAAACCATA
1 ATTATATAGTTTTCAAAATG-TTTTAAAAACCATA
10032666 TATTATATAAGTTTTCAAA
1 -ATTATAT-AGTTTTCAAA
10032685 TTATTTTTCA
Statistics
Matches: 78, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
33 47 0.60
34 15 0.19
35 7 0.09
36 1 0.01
37 8 0.10
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (34 bp):
ATTATATAGTTTTCAAAATGTTTTAAAAACCATA
Found at i:10034732 original size:33 final size:34
Alignment explanation
Indices: 10034687--10034805 Score: 181
Period size: 33 Copynumber: 3.5 Consensus size: 34
10034677 ATATATATAT
10034687 ATTATA-AGTTTTCAAAATGTTTTAAAAACCATA
1 ATTATATAGTTTTCAAAATGTTTTAAAAACCATA
10034720 ATTATATA-TTTTCAAAATGTTTTAAAAACCATA
1 ATTATATAGTTTTCAAAATGTTTTAAAAACCATA
*
10034753 ATTATATA-TTTTCGAAATGTTTTTAAAAACCATA
1 ATTATATAGTTTTCAAAATG-TTTTAAAAACCATA
10034787 TATTATATAAGTTTTCAAA
1 -ATTATAT-AGTTTTCAAA
10034806 TTATTTTTCA
Statistics
Matches: 79, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
33 49 0.62
34 15 0.19
35 7 0.09
36 1 0.01
37 7 0.09
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (34 bp):
ATTATATAGTTTTCAAAATGTTTTAAAAACCATA
Found at i:10036849 original size:33 final size:33
Alignment explanation
Indices: 10036804--10036892 Score: 162
Period size: 33 Copynumber: 2.7 Consensus size: 33
10036794 ATATATATAT
10036804 ATTATA-AGTTTTCAAAATGTTTTAAAAACCATA
1 ATTATATA-TTTTCAAAATGTTTTAAAAACCATA
10036837 ATTATATATTTTCAAAATGTTTTAAAAACCATA
1 ATTATATATTTTCAAAATGTTTTAAAAACCATA
10036870 ATTATATATTTTCAAAATGTTTT
1 ATTATATATTTTCAAAATGTTTT
10036893 TCAAATTTCC
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
33 54 0.98
34 1 0.02
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (33 bp):
ATTATATATTTTCAAAATGTTTTAAAAACCATA
Found at i:10038949 original size:33 final size:34
Alignment explanation
Indices: 10038883--10039002 Score: 174
Period size: 34 Copynumber: 3.5 Consensus size: 34
10038873 TTATATATAT
10038883 ATTATA-AGTTTTCAAAATGTTTTAAAAAACCATA
1 ATTATATAGTTTTCAAAATGTTTT-AAAAACCATA
10038917 ATTATATA-TTTTCAAAATGTTTTAAAAACCATA
1 ATTATATAGTTTTCAAAATGTTTTAAAAACCATA
*
10038950 ATTATATA-TTTTCGAAATGTTTTTAAAAACCATA
1 ATTATATAGTTTTCAAAATG-TTTTAAAAACCATA
10038984 TATTATATAAGTTTTCAAA
1 -ATTATAT-AGTTTTCAAA
10039003 TTATTTTTCA
Statistics
Matches: 79, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
33 28 0.35
34 35 0.44
35 8 0.10
36 1 0.01
37 7 0.09
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.42
Consensus pattern (34 bp):
ATTATATAGTTTTCAAAATGTTTTAAAAACCATA
Found at i:10040344 original size:9 final size:9
Alignment explanation
Indices: 10040330--10040367 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
10040320 AGCTTAAAGT
10040330 ATATATTTA
1 ATATATTTA
10040339 ATATATGTTA
1 ATATAT-TTA
10040349 A-ATATTTA
1 ATATATTTA
*
10040357 ATATTTTTA
1 ATATATTTA
10040366 AT
1 AT
10040368 TAATTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
8 4 0.15
9 18 0.69
10 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (9 bp):
ATATATTTA
Found at i:10046884 original size:16 final size:15
Alignment explanation
Indices: 10046859--10046888 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10046849 GAATTAACCA
10046859 AAATTATTATATATT
1 AAATTATTATATATT
10046874 AAATATATTATATAT
1 AAAT-TATTATATAT
10046889 GCTAAGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATTATTATATATT
Found at i:10061926 original size:31 final size:30
Alignment explanation
Indices: 10061865--10061940 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 30
10061855 TCAATGTGAA
10061865 TTTTAAATTTTTATATAATTTAGATATATT
1 TTTTAAATTTTTATATAATTTAGATATATT
* * ** *
10061895 TTTTATATTTTTATTATGATTTATTTTTATT
1 TTTTAAATTTTTA-TATAATTTAGATATATT
* *
10061926 TTTCAAAATTTTATA
1 TTTTAAATTTTTATA
10061941 AACTTGTCCT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
30 14 0.38
31 23 0.62
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (30 bp):
TTTTAAATTTTTATATAATTTAGATATATT
Found at i:10062121 original size:22 final size:23
Alignment explanation
Indices: 10062091--10062144 Score: 101
Period size: 22 Copynumber: 2.4 Consensus size: 23
10062081 TTGTGCCATG
10062091 TGATGTCCCGACTGGTCCCTTAA
1 TGATGTCCCGACTGGTCCCTTAA
10062114 TGAT-TCCCGACTGGTCCCTTAA
1 TGATGTCCCGACTGGTCCCTTAA
10062136 TGATGTCCC
1 TGATGTCCC
10062145 ATGGTTCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.73
23 8 0.27
ACGTcount: A:0.17, C:0.31, G:0.20, T:0.31
Consensus pattern (23 bp):
TGATGTCCCGACTGGTCCCTTAA
Found at i:10068649 original size:27 final size:26
Alignment explanation
Indices: 10068616--10068679 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
10068606 TATTATAGGA
* *
10068616 TTAATTATATT-ATTAGTCTTTATATT
1 TTAATTATATTCATTAAT-TTTATAAT
*
10068642 TTATATTAGATTCATTAATTTTATAAT
1 TTA-ATTATATTCATTAATTTTATAAT
10068669 TTAATCTATAT
1 TTAAT-TATAT
10068680 AGTTTTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
26 5 0.16
27 21 0.68
28 5 0.16
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (26 bp):
TTAATTATATTCATTAATTTTATAAT
Found at i:10074517 original size:15 final size:15
Alignment explanation
Indices: 10074491--10074538 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
10074481 TTCAAACATC
*
10074491 CAAACAAATCCAAAGT
1 CAAAC-AATCCAAAAT
*
10074507 CTAACAATCCACAAAAT
1 CAAACAAT-C-CAAAAT
10074524 CAAACAATCCAAAAT
1 CAAACAATCCAAAAT
10074539 ATTCAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (15 bp):
CAAACAATCCAAAAT
Found at i:10076580 original size:20 final size:20
Alignment explanation
Indices: 10076520--10076580 Score: 50
Period size: 20 Copynumber: 2.9 Consensus size: 20
10076510 TTCCCCTGTG
* *
10076520 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGATT-CCC-TC-AT
*
10076543 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
* *
10076563 GGGGGTATCGATTTCCTC
1 GGGGGAATCGATTCCCTC
10076581 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 16 0.47
21 2 0.06
22 3 0.09
23 13 0.38
ACGTcount: A:0.16, C:0.25, G:0.33, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:10084037 original size:16 final size:16
Alignment explanation
Indices: 10084016--10084050 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
10084006 TACAAAAATA
10084016 GCTTGGATCAAGTCCT
1 GCTTGGATCAAGTCCT
10084032 GCTTGGATCAAGTCCT
1 GCTTGGATCAAGTCCT
10084048 GCT
1 GCT
10084051 GAGATGCGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.31
Consensus pattern (16 bp):
GCTTGGATCAAGTCCT
Found at i:10095657 original size:16 final size:16
Alignment explanation
Indices: 10095636--10095677 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
10095626 AAGAGTAGTG
*
10095636 GAATCAAATCAACCTC
1 GAATCAAATCAACCTA
*
10095652 GAATCAAATCAATCTA
1 GAATCAAATCAACCTA
*
10095668 GAATCTAATC
1 GAATCAAATC
10095678 TTCACGGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.45, C:0.24, G:0.07, T:0.24
Consensus pattern (16 bp):
GAATCAAATCAACCTA
Found at i:10095781 original size:35 final size:35
Alignment explanation
Indices: 10095735--10096033 Score: 393
Period size: 35 Copynumber: 8.5 Consensus size: 35
10095725 AGCCTTCATG
* *
10095735 GAAGCGTAGTGAAGCAATGAAATCCAACCTTCACA
1 GAAGAGTAGTGAAGCAATGCAATCCAACCTTCACA
* * * *
10095770 GAAGAGCAGTGAAGTAATGCAATCCAGCCTTCAAA
1 GAAGAGTAGTGAAGCAATGCAATCCAACCTTCACA
*
10095805 GAAGAGTAGTGAAGCAATGCAATCCAGCCTTCACA
1 GAAGAGTAGTGAAGCAATGCAATCCAACCTTCACA
* *
10095840 GAAGAGTAGTGAAGCAATGCAATCCAGCATTCACA
1 GAAGAGTAGTGAAGCAATGCAATCCAACCTTCACA
*
10095875 GAAGAGTAGTGAAGCAATGCAATCCAGA-CTTCATA
1 GAAGAGTAGTGAAGCAATGCAATCCA-ACCTTCACA
* *
10095910 GAAGAGTAGTGAAGCAATGCAATCCAATCTTGACA
1 GAAGAGTAGTGAAGCAATGCAATCCAACCTTCACA
* *
10095945 GAAGAGTAGTGAAGTAATGCAAATCCAACATTCACA
1 GAAGAGTAGTGAAGCAATGC-AATCCAACCTTCACA
* * **
10095981 GAAGAGTAGTGAAGCGATGCAAATCCATCCTTCATG
1 GAAGAGTAGTGAAGCAATGC-AATCCAACCTTCACA
*
10096017 GAAGAGTAGTGCAGCAA
1 GAAGAGTAGTGAAGCAA
10096034 GAACAAATCA
Statistics
Matches: 234, Mismatches: 27, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
34 1 0.00
35 176 0.75
36 57 0.24
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.18
Consensus pattern (35 bp):
GAAGAGTAGTGAAGCAATGCAATCCAACCTTCACA
Found at i:10095907 original size:105 final size:105
Alignment explanation
Indices: 10095724--10096033 Score: 440
Period size: 105 Copynumber: 2.9 Consensus size: 105
10095714 CAATCATTTT
** * * * * *
10095724 CAGCCTTCATGGAAGCGTAGTGAAGCAATGAAATCCAACCTTCACAGAAGAGCAGTGAAGTAATG
1 CAGCCTTCACAGAAGAGTAGTGAAGCAATGCAATCCAACATTCACAGAAGAGTAGTGAAGCAATG
*
10095789 CAATCCAGCCTTCAAAGAAGAGTAGTGAAGCAATGCAATC
66 CAATCCAGCCTTCATAGAAGAGTAGTGAAGCAATGCAATC
*
10095829 CAGCCTTCACAGAAGAGTAGTGAAGCAATGCAATCCAGCATTCACAGAAGAGTAGTGAAGCAATG
1 CAGCCTTCACAGAAGAGTAGTGAAGCAATGCAATCCAACATTCACAGAAGAGTAGTGAAGCAATG
*
10095894 CAATCCAGACTTCATAGAAGAGTAGTGAAGCAATGCAATC
66 CAATCCAGCCTTCATAGAAGAGTAGTGAAGCAATGCAATC
** * * *
10095934 CAATCTTGACAGAAGAGTAGTGAAGTAATGCAAATCCAACATTCACAGAAGAGTAGTGAAGCGAT
1 CAGCCTTCACAGAAGAGTAGTGAAGCAATGC-AATCCAACATTCACAGAAGAGTAGTGAAGCAAT
* * *
10095999 GCAAATCCATCCTTCATGGAAGAGTAGTGCAGCAA
65 GC-AATCCAGCCTTCATAGAAGAGTAGTGAAGCAA
10096034 GAACAAATCA
Statistics
Matches: 183, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
105 122 0.67
106 33 0.18
107 28 0.15
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.19
Consensus pattern (105 bp):
CAGCCTTCACAGAAGAGTAGTGAAGCAATGCAATCCAACATTCACAGAAGAGTAGTGAAGCAATG
CAATCCAGCCTTCATAGAAGAGTAGTGAAGCAATGCAATC
Found at i:10096215 original size:3 final size:3
Alignment explanation
Indices: 10096192--10096290 Score: 100
Period size: 3 Copynumber: 34.3 Consensus size: 3
10096182 GTCCGTTTTC
* * *
10096192 ATT ATTT ATT A-T ATT ACT ATT ATT ATT ATT ACT ATT A-T ACT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
10096236 ATT ATT ATT ATT A-T ATA ATT -TT ATT ATT ATT ATT ATT ATA ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
10096281 ATC ATT ATT A
1 ATT ATT ATT A
10096291 CATAACCTGA
Statistics
Matches: 79, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
2 10 0.13
3 66 0.84
4 3 0.04
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:10097623 original size:27 final size:26
Alignment explanation
Indices: 10097590--10097653 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
10097580 TATTATAGGA
* *
10097590 TTAATTATATT-ATTAGTCTTTATATT
1 TTAATTATATTCATTAAT-TTTATAAT
*
10097616 TTATATTAGATTCATTAATTTTATAAT
1 TTA-ATTATATTCATTAATTTTATAAT
10097643 TTAATCTATAT
1 TTAAT-TATAT
10097654 AGTTTTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
26 5 0.16
27 21 0.68
28 5 0.16
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (26 bp):
TTAATTATATTCATTAATTTTATAAT
Found at i:10099394 original size:6 final size:6
Alignment explanation
Indices: 10099380--10099422 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
10099370 ACCAAACCCG
* *
10099380 TCCCTA TCCCCA TCCCCA TCCCCG TCCCCA TCCCCA TCCCCA T
1 TCCCCA TCCCCA TCCCCA TCCCCA TCCCCA TCCCCA TCCCCA T
10099423 TTAGCATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.14, C:0.63, G:0.02, T:0.21
Consensus pattern (6 bp):
TCCCCA
Found at i:10099412 original size:24 final size:24
Alignment explanation
Indices: 10099376--10099422 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
10099366 GATTACCAAA
*
10099376 CCCGTCCCTATCCCCATCCCCATC
1 CCCGTCCCCATCCCCATCCCCATC
10099400 CCCGTCCCCATCCCCATCCCCAT
1 CCCGTCCCCATCCCCATCCCCAT
10099423 TTAGCATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.13, C:0.64, G:0.04, T:0.19
Consensus pattern (24 bp):
CCCGTCCCCATCCCCATCCCCATC
Found at i:10099656 original size:12 final size:12
Alignment explanation
Indices: 10099639--10099663 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10099629 GACATAAGAC
10099639 TCATCCTCAAAT
1 TCATCCTCAAAT
10099651 TCATCCTCAAAT
1 TCATCCTCAAAT
10099663 T
1 T
10099664 TAGGAATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (12 bp):
TCATCCTCAAAT
Found at i:10099880 original size:15 final size:15
Alignment explanation
Indices: 10099860--10099888 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10099850 TTTTACTTTT
10099860 TTTTCAAGTTTTTAC
1 TTTTCAAGTTTTTAC
10099875 TTTTCAAGTTTTTA
1 TTTTCAAGTTTTTA
10099889 TATTTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.10, G:0.07, T:0.62
Consensus pattern (15 bp):
TTTTCAAGTTTTTAC
Found at i:10104125 original size:36 final size:36
Alignment explanation
Indices: 10104034--10104127 Score: 118
Period size: 36 Copynumber: 2.6 Consensus size: 36
10104024 ACATTAAATT
* *
10104034 AAACCATAAAACATTACATTAAGGAGATAAAAACAAT
1 AAACCAT-AAACATTACATTAAGAAGATAAAAACAAC
* *
10104071 GAACCATGAACATTACATTAAGAAGATAAAAACAAC
1 AAACCATAAACATTACATTAAGAAGATAAAAACAAC
*
10104107 AAACC-TAATACATAACATTAA
1 AAACCATAA-ACATTACATTAA
10104128 AGACATAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
35 2 0.04
36 41 0.84
37 6 0.12
ACGTcount: A:0.57, C:0.16, G:0.07, T:0.19
Consensus pattern (36 bp):
AAACCATAAACATTACATTAAGAAGATAAAAACAAC
Found at i:10105170 original size:143 final size:142
Alignment explanation
Indices: 10104818--10105363 Score: 664
Period size: 143 Copynumber: 3.8 Consensus size: 142
10104808 GATATATCAC
* * * * *
10104818 TGAAAAGTTTCTGTCATTGTGGATTAAATGATCAATGAGAAATGTACATTTTTTCTGGAATGAAG
1 TGAAAAGTTTCTATCATTGTGCATTAAATGATCAATGAGAAATGGAC-GTTTTTCTGAAATGAAG
* * * * * *
10104883 TGATATATCATTACTGAAAAGTTTCTAAAATGATGTAATATATCACTAAAAAGTTTCCTAAAGCA
65 TGATATATCATTACTGAAATGTTTCTAAAATGAAGTGATATATCACTGAAAAGTTTTCTAAAGTA
* *
10104948 AAGTTACTGGCAC
130 AAGTTATTGGCAT
* * * * *
10104961 TAAAAAGTTTCTATCATTGTGCATTAAATCATCAATTCA-AAATGGACATTTTTCTGAAATAAAG
1 TGAAAAGTTTCTATCATTGTGCATTAAATGATCAA-TGAGAAATGGACGTTTTTCTGAAATGAAG
* * * * * *
10105025 TGATATATCAATATTGAAATGTTTCTGAAATGAAGTGATATATTACTGAAAAGTTTTCTCAAGTG
65 TGATATATCATTACTGAAATGTTTCTAAAATGAAGTGATATATCACTGAAAAGTTTTCTAAAGTA
10105090 AAGTTATTAGGCAT
130 AAGTTATT-GGCAT
* * * *
10105104 TGAAAAGTTTTTGTCATTGTGCATTAAATGGTCAATGAGAAATGGACGTTTTTCTAAAATGAAGT
1 TGAAAAGTTTCTATCATTGTGCATTAAATGATCAATGAGAAATGGACGTTTTTCTGAAATGAAGT
* * * * * *
10105169 GATATATCATTGCTGAAAGGATTCTGAAATGAAATGATATATCACTGAAAAGTTTTCTGAAGTAA
66 GATATATCATTACTGAAATGTTTCTAAAATGAAGTGATATATCACTGAAAAGTTTTCTAAAGTAA
10105234 AGTTATTTGGCAT
131 AGTTA-TTGGCAT
* * *
10105247 TGAAAAATTTCTATCATTGTGCATTAAATGGTCAATGAGAAATGAACGTTTTTCTGAAATGAAGT
1 TGAAAAGTTTCTATCATTGTGCATTAAATGATCAATGAGAAATGGACGTTTTTCTGAAATGAAGT
* * *
10105312 GATATTTCACTACTGAAATTTTTTCTAAAAT-AAGTTGATATATCACTGAAAA
66 GATATATCATTACTGAAA-TGTTTCTAAAATGAAG-TGATATATCACTGAAAA
10105364 CACTACAGCA
Statistics
Matches: 343, Mismatches: 54, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
142 76 0.22
143 238 0.69
144 29 0.08
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (142 bp):
TGAAAAGTTTCTATCATTGTGCATTAAATGATCAATGAGAAATGGACGTTTTTCTGAAATGAAGT
GATATATCATTACTGAAATGTTTCTAAAATGAAGTGATATATCACTGAAAAGTTTTCTAAAGTAA
AGTTATTGGCAT
Found at i:10105301 original size:286 final size:287
Alignment explanation
Indices: 10104818--10105363 Score: 733
Period size: 286 Copynumber: 1.9 Consensus size: 287
10104808 GATATATCAC
* * * **
10104818 TGAAAAGTTTCTGTCATTGTGGATTAAATGATCAATGAGAAATGTACATTTTTTCTGGAATGAAG
1 TGAAAAGTTTCTGTCATTGTGCATTAAATGATCAATGAGAAATGGACAGTTTTTCTAAAATGAAG
* **
10104883 TGATATATCATTACTGAAAAGTTTCTAAAATGATGTAATATATCACTAAAAAGTTTCCTAAAGCA
66 TGATATATCATTACTGAAAAGATTCTAAAATGAAATAATATATCACTAAAAAGTTTCCTAAAGCA
*
10104948 AAGTTACTGGCACTAAAAAGTTTCTATCATTGTGCATTAAATCATCAATTCAAAATGGACATTTT
131 AAGTTACTGGCACTAAAAAGTTTCTATCATTGTGCATTAAATCATCAATTCAAAATGAACATTTT
* * *
10105013 TCTGAAATAAAGTGATATATCAATATTGAAA-TGTTTCTGAAATGAAG-TGATATATTACTGAAA
196 TCTGAAATAAAGTGATATATCAATACTGAAATTGTTTCTAAAAT-AAGTTGATATATCACTGAAA
10105076 AGTTTTCTCAAGTGAAGTTATTAGGCAT
260 AGTTTTCTCAAGTGAAGTTATTAGGCAT
* *
10105104 TGAAAAGTTTTTGTCATTGTGCATTAAATGGTCAATGAGAAATGGAC-GTTTTTCTAAAATGAAG
1 TGAAAAGTTTCTGTCATTGTGCATTAAATGATCAATGAGAAATGGACAGTTTTTCTAAAATGAAG
* * * * * * * *
10105168 TGATATATCATTGCTGAAAGGATTCTGAAATGAAATGATATATCACTGAAAAGTTTTCTGAAGTA
66 TGATATATCATTACTGAAAAGATTCTAAAATGAAATAATATATCACTAAAAAGTTTCCTAAAGCA
* * ** * *
10105233 AAGTTATTTGGCATTGAAAAA-TTTCTATCATTGTGCATTAAATGGTCAA-TGAGAAATGAACGT
131 AAGTTA-CTGGCACT-AAAAAGTTTCTATCATTGTGCATTAAATCATCAATTCA-AAATGAACAT
* * * *
10105296 TTTTCTGAAATGAAGTGATATTTCACTACTGAAATTTTTTCTAAAATAAGTTGATATATCACTGA
193 TTTTCTGAAATAAAGTGATATATCAATACTGAAATTGTTTCTAAAATAAGTTGATATATCACTGA
10105361 AAA
258 AAA
10105364 CACTACAGCA
Statistics
Matches: 223, Mismatches: 32, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
285 76 0.34
286 116 0.52
287 31 0.14
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (287 bp):
TGAAAAGTTTCTGTCATTGTGCATTAAATGATCAATGAGAAATGGACAGTTTTTCTAAAATGAAG
TGATATATCATTACTGAAAAGATTCTAAAATGAAATAATATATCACTAAAAAGTTTCCTAAAGCA
AAGTTACTGGCACTAAAAAGTTTCTATCATTGTGCATTAAATCATCAATTCAAAATGAACATTTT
TCTGAAATAAAGTGATATATCAATACTGAAATTGTTTCTAAAATAAGTTGATATATCACTGAAAA
GTTTTCTCAAGTGAAGTTATTAGGCAT
Found at i:10105575 original size:43 final size:43
Alignment explanation
Indices: 10105528--10105725 Score: 156
Period size: 43 Copynumber: 4.6 Consensus size: 43
10105518 TGACAACATA
* *
10105528 TAGCGGCGATTGTTCAACAAACGCCGCAAAAGGTATTGATATT
1 TAGCGGCGATTGTTCAACAAACGCCGCAATAGGTGTTGATATT
* * * * *
10105571 TAGCGGCGTTTG-GCAGAAAAATGCCGTAATAGGTGTTGATATT
1 TAGCGGCGATTGTTCA-ACAAACGCCGCAATAGGTGTTGATATT
* * * *
10105614 TAACGGC-ATT-TGGCAGACAAACGCCGCAATAGGCGTTGATGTT
1 TAGCGGCGATTGT-TCA-ACAAACGCCGCAATAGGTGTTGATATT
* * * *
10105657 TAGCGGCGTTTTCTTC-ACAAACGCCGCAATATGTCTTGATATT
1 TAGCGGCG-ATTGTTCAACAAACGCCGCAATAGGTGTTGATATT
* *
10105700 TCGCGGCG-TTTTATC-ACAAACGCCGC
1 TAGCGGCGATTGT-TCAACAAACGCCGC
10105726 TAAATATATG
Statistics
Matches: 125, Mismatches: 23, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
41 3 0.02
42 17 0.14
43 101 0.81
45 3 0.02
46 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (43 bp):
TAGCGGCGATTGTTCAACAAACGCCGCAATAGGTGTTGATATT
Found at i:10105742 original size:43 final size:43
Alignment explanation
Indices: 10105630--10105742 Score: 106
Period size: 43 Copynumber: 2.6 Consensus size: 43
10105620 CATTTGGCAG
** * * *
10105630 ACAAACGCCGCAATA-GGCGTTGATGTTTAGCGGCGTTTTCTTC
1 ACAAACGCCGCAATATATCG-TGATATTTCGCGGCGTTTTCATC
* *
10105673 ACAAACGCCGCAATATGTCTTGATATTTCGCGGCGTTTT-ATC
1 ACAAACGCCGCAATATATCGTGATATTTCGCGGCGTTTTCATC
*
10105715 ACAAACGCCGCTAAATATATGGT-ATATT
1 ACAAACGCCGC--AATATATCGTGATATT
10105743 GCAGCATTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 13 0.22
43 37 0.63
44 9 0.15
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
ACAAACGCCGCAATATATCGTGATATTTCGCGGCGTTTTCATC
Found at i:10106112 original size:23 final size:22
Alignment explanation
Indices: 10106066--10106138 Score: 87
Period size: 21 Copynumber: 3.4 Consensus size: 22
10106056 ATATATTACT
*
10106066 TCTCTCTGTTCTGCCGCTGC-C
1 TCTCTCTGTGCTGCCGCTGCTC
*
10106087 TCTCTCTGTGCTGCCACTGCT-
1 TCTCTCTGTGCTGCCGCTGCTC
* *
10106108 TCTCTCTCTGCTTCCGCTGCTGC
1 TCTCTCTGTGCTGCCGCTGCT-C
10106131 TCTCTCTG
1 TCTCTCTG
10106139 CTTCCCTTGC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
21 36 0.84
23 7 0.16
ACGTcount: A:0.01, C:0.41, G:0.18, T:0.40
Consensus pattern (22 bp):
TCTCTCTGTGCTGCCGCTGCTC
Found at i:10106258 original size:15 final size:15
Alignment explanation
Indices: 10106238--10106277 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
10106228 GAAGATCGAG
10106238 ACTGTGATGACATGT
1 ACTGTGATGACATGT
10106253 ACTGTGATGACATGT
1 ACTGTGATGACATGT
10106268 ACTGTGATGA
1 ACTGTGATGA
10106278 ACTGGATCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.33
Consensus pattern (15 bp):
ACTGTGATGACATGT
Found at i:10114316 original size:12 final size:14
Alignment explanation
Indices: 10114285--10114311 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10114275 AGGAAATGGC
10114285 ATAATATATCTAGT
1 ATAATATATCTAGT
10114299 ATAATATATCTAG
1 ATAATATATCTAG
10114312 AAATAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (14 bp):
ATAATATATCTAGT
Found at i:10115720 original size:83 final size:83
Alignment explanation
Indices: 10115563--10115721 Score: 194
Period size: 83 Copynumber: 1.9 Consensus size: 83
10115553 TTTGTAGGAC
* * * * *
10115563 AAACGCCGCTAAATTATTACTCTATTACGACATTTTGTGCACAAACGCCACTATAAACAATACTA
1 AAACGCAGCTAAATTACTAATCTATTACGACATTTTGTGAACAAACGCCACTATAAACAACACTA
*
10115628 TTGTAGCGTTTATTTAAT
66 TCGTAGCGTTTATTTAAT
* * * * *
10115646 AAACGCAGCTAAATTACTAATCTA-TACCGTCGTTTTTTGAACAAACGCCACTATAAATAACATT
1 AAACGCAGCTAAATTACTAATCTATTA-CGACATTTTGTGAACAAACGCCACTATAAACAACACT
*
10115710 ATCGTGGCGTTT
65 ATCGTAGCGTTT
10115722 GTACAAAAAC
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
82 2 0.03
83 61 0.97
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (83 bp):
AAACGCAGCTAAATTACTAATCTATTACGACATTTTGTGAACAAACGCCACTATAAACAACACTA
TCGTAGCGTTTATTTAAT
Found at i:10119012 original size:39 final size:39
Alignment explanation
Indices: 10118954--10119057 Score: 127
Period size: 39 Copynumber: 2.7 Consensus size: 39
10118944 CCTGTATACC
* *
10118954 CAGTAAGGGCTTATATTGTGCACAAAGAAGAGGAACCTA
1 CAGTAAGGTCTTATCTTGTGCACAAAGAAGAGGAACCTA
* * * *
10118993 CGGTAAGGTCTTATCTTGTGCACAAAGCAGAGGAGCCTG
1 CAGTAAGGTCTTATCTTGTGCACAAAGAAGAGGAACCTA
* * *
10119032 TAGTAAGGTCTTATCATGTCCACAAA
1 CAGTAAGGTCTTATCTTGTGCACAAA
10119058 CCAGAAGAGC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (39 bp):
CAGTAAGGTCTTATCTTGTGCACAAAGAAGAGGAACCTA
Found at i:10119068 original size:39 final size:39
Alignment explanation
Indices: 10118995--10119070 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
10118985 GGAACCTACG
* * * *
10118995 GTAAGGTCTTATCTTGTGCACAAAGCAGAGGAGCCTGTA
1 GTAAGGTCTTATCATGTCCACAAACCAGAAGAGCCTGTA
10119034 GTAAGGTCTTATCATGTCCACAAACCAGAAGAGCCTG
1 GTAAGGTCTTATCATGTCCACAAACCAGAAGAGCCTG
10119071 CAATAAAGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (39 bp):
GTAAGGTCTTATCATGTCCACAAACCAGAAGAGCCTGTA
Found at i:10119741 original size:21 final size:22
Alignment explanation
Indices: 10119717--10119758 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
10119707 TTCCATAATC
*
10119717 AAATCCTAAAAA-ATTAAGCAA
1 AAATCCTAAAAACACTAAGCAA
*
10119738 AAATGCTAAAAACACTAAGCA
1 AAATCCTAAAAACACTAAGCA
10119759 TTTTCGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.60, C:0.17, G:0.07, T:0.17
Consensus pattern (22 bp):
AAATCCTAAAAACACTAAGCAA
Found at i:10121693 original size:2 final size:2
Alignment explanation
Indices: 10121686--10121712 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10121676 GAGATTCAGT
10121686 TA 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 TA T
10121713 TAGGAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10123043 original size:22 final size:23
Alignment explanation
Indices: 10123000--10123045 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
10122990 TTTATGATAA
**
10123000 GGGTTGTAAGGTTTGGGGTTTTG
1 GGGTTGTAAGGTTTGGAATTTTG
*
10123023 GGGTT-TAAGGTTTTGAATTTTG
1 GGGTTGTAAGGTTTGGAATTTTG
10123045 G
1 G
10123046 ATTGAGGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.13, C:0.00, G:0.41, T:0.46
Consensus pattern (23 bp):
GGGTTGTAAGGTTTGGAATTTTG
Found at i:10127688 original size:47 final size:48
Alignment explanation
Indices: 10127637--10127737 Score: 141
Period size: 48 Copynumber: 2.1 Consensus size: 48
10127627 TAAATGGTGG
* * * * * *
10127637 CACTGACATTGAGGAACAA-ATGTACATAGCTCGCCCATTAATGATGC
1 CACTGACATTGAGGAACAAGATATACATAGCCCGACCATAAATGAAGA
10127684 CACTGACATTGAGGAACAAGATATACATAGCCCGACCATAAATGAAGA
1 CACTGACATTGAGGAACAAGATATACATAGCCCGACCATAAATGAAGA
10127732 CACTGA
1 CACTGA
10127738 AAATGAGGTC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 19 0.40
48 28 0.60
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.20
Consensus pattern (48 bp):
CACTGACATTGAGGAACAAGATATACATAGCCCGACCATAAATGAAGA
Found at i:10133253 original size:30 final size:30
Alignment explanation
Indices: 10133219--10133331 Score: 91
Period size: 30 Copynumber: 3.8 Consensus size: 30
10133209 CTCTATCCCG
* *
10133219 ATTTTGCATGGGACATCGTTCCCCGTCCTA
1 ATTTTACATGGGACTTCGTTCCCCGTCCTA
* * * * *
10133249 ATTTTACATAGGATTTTGTTCCCCGTCTTG
1 ATTTTACATGGGACTTCGTTCCCCGTCCTA
* * * * * *
10133279 ACTCTACATGGGACTTTGTTCCTCGACCTT
1 ATTTTACATGGGACTTCGTTCCCCGTCCTA
* *
10133309 ATTTTGCATGTGACTTCGTTCCC
1 ATTTTACATGGGACTTCGTTCCC
10133332 TATCCTGATT
Statistics
Matches: 62, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.16, C:0.27, G:0.18, T:0.40
Consensus pattern (30 bp):
ATTTTACATGGGACTTCGTTCCCCGTCCTA
Found at i:10137182 original size:3 final size:3
Alignment explanation
Indices: 10137174--10137213 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
10137164 GATTAAAATA
*
10137174 TAT TAT TAT TAT TAT TAT TAT TAA TA- TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10137214 ATACTAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:10137207 original size:23 final size:23
Alignment explanation
Indices: 10137177--10137222 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
10137167 TAAAATATAT
* *
10137177 TATTATTATTATTATTATTAATA
1 TATTATTATTATTAATACTAATA
10137200 TATTATTATTATTAATACTAATA
1 TATTATTATTATTAATACTAATA
10137223 ATTTACAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTATTATTATTAATACTAATA
Found at i:10137224 original size:26 final size:26
Alignment explanation
Indices: 10137170--10137224 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
10137160 CCGGGATTAA
* * *
10137170 AATATATTATTATTATTATTATTATT
1 AATATATTATTATTATTAATACTAAT
10137196 AATATATTATTATTATTAATACTAAT
1 AATATATTATTATTATTAATACTAAT
10137222 AAT
1 AAT
10137225 TTACAATTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
AATATATTATTATTATTAATACTAAT
Found at i:10146245 original size:22 final size:23
Alignment explanation
Indices: 10146197--10146247 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
10146187 AACCTATTGA
*
10146197 TTGACCCGACCTGTTGACCAAAC
1 TTGACCCAACCTGTTGACCAAAC
* *
10146220 -TGACCCAACTTGTTGA-CTAAC
1 TTGACCCAACCTGTTGACCAAAC
10146241 TTGACCC
1 TTGACCC
10146248 GTTGACTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.25
Consensus pattern (23 bp):
TTGACCCAACCTGTTGACCAAAC
Found at i:10150462 original size:19 final size:19
Alignment explanation
Indices: 10150439--10150478 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
10150429 CTTTTTGTTA
*
10150439 TTTTTTTGAGTTTTTTTTTC
1 TTTTTTTG-CTTTTTTTTTC
10150459 TTTTTTTGCTTTTTTTTTC
1 TTTTTTTGCTTTTTTTTTC
10150478 T
1 T
10150479 CGTGGAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.03, C:0.07, G:0.07, T:0.82
Consensus pattern (19 bp):
TTTTTTTGCTTTTTTTTTC
Found at i:10158180 original size:24 final size:25
Alignment explanation
Indices: 10158151--10158212 Score: 108
Period size: 24 Copynumber: 2.5 Consensus size: 25
10158141 GAATTCGATG
10158151 CCCCCTTTATTGAAAACCATTC-GC
1 CCCCCTTTATTGAAAACCATTCGGC
10158175 CCCCCTTTATTGAAAACCATTCGGC
1 CCCCCTTTATTGAAAACCATTCGGC
*
10158200 CCCCCTTTGTTGA
1 CCCCCTTTATTGA
10158213 CTTTCACTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 22 0.61
25 14 0.39
ACGTcount: A:0.21, C:0.37, G:0.11, T:0.31
Consensus pattern (25 bp):
CCCCCTTTATTGAAAACCATTCGGC
Found at i:10159668 original size:47 final size:47
Alignment explanation
Indices: 10159616--10159705 Score: 180
Period size: 47 Copynumber: 1.9 Consensus size: 47
10159606 CTTCTTTTTT
10159616 CTGAAAACCTTTGACAACCAATCTTGCTTTGTAGCGTTTGCTCTTTA
1 CTGAAAACCTTTGACAACCAATCTTGCTTTGTAGCGTTTGCTCTTTA
10159663 CTGAAAACCTTTGACAACCAATCTTGCTTTGTAGCGTTTGCTC
1 CTGAAAACCTTTGACAACCAATCTTGCTTTGTAGCGTTTGCTC
10159706 CCATCGTGCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (47 bp):
CTGAAAACCTTTGACAACCAATCTTGCTTTGTAGCGTTTGCTCTTTA
Found at i:10162210 original size:2 final size:2
Alignment explanation
Indices: 10162203--10162227 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10162193 TTTCGTAAAT
10162203 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
10162228 TGTAGATTGA
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:10166768 original size:7 final size:8
Alignment explanation
Indices: 10166743--10166777 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
10166733 CCACTGATGC
*
10166743 AAAGAGAA
1 AAAGGGAA
10166751 AAAGGGAA
1 AAAGGGAA
10166759 AAAGGGAA
1 AAAGGGAA
*
10166767 AAAGAGAA
1 AAAGGGAA
10166775 AAA
1 AAA
10166778 AGGGGAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (8 bp):
AAAGGGAA
Found at i:10168063 original size:15 final size:15
Alignment explanation
Indices: 10168035--10168074 Score: 71
Period size: 15 Copynumber: 2.6 Consensus size: 15
10168025 TGCAAATCTA
10168035 GGTACCCGGATTTTCG
1 GGTACCC-GATTTTCG
10168051 GGTACCCGATTTTCG
1 GGTACCCGATTTTCG
10168066 GGTACCCGA
1 GGTACCCGA
10168075 AACTTCCGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 17 0.71
16 7 0.29
ACGTcount: A:0.15, C:0.28, G:0.30, T:0.28
Consensus pattern (15 bp):
GGTACCCGATTTTCG
Found at i:10168143 original size:15 final size:15
Alignment explanation
Indices: 10168123--10168179 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
10168113 CCGGATGTTA
10168123 CGGGTACCCGGTAAT
1 CGGGTACCCGGTAAT
**
10168138 CGGGTACCCGGATTTT
1 CGGGTACCCGG-TAAT
10168154 GCGGGTACCCGGTAAT
1 -CGGGTACCCGGTAAT
10168170 CGGGTACCCG
1 CGGGTACCCG
10168180 ATACCCGGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 21 0.58
16 4 0.11
17 11 0.31
ACGTcount: A:0.16, C:0.28, G:0.35, T:0.21
Consensus pattern (15 bp):
CGGGTACCCGGTAAT
Found at i:10168149 original size:32 final size:32
Alignment explanation
Indices: 10168113--10168179 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
10168103 GTGTCCCGAT
10168113 CCGGATGTTACGGGTACCCGGTAATCGGGTAC
1 CCGGATGTTACGGGTACCCGGTAATCGGGTAC
* *
10168145 CCGGATTTTGCGGGTACCCGGTAATCGGGTAC
1 CCGGATGTTACGGGTACCCGGTAATCGGGTAC
10168177 CCG
1 CCG
10168180 ATACCCGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.16, C:0.27, G:0.34, T:0.22
Consensus pattern (32 bp):
CCGGATGTTACGGGTACCCGGTAATCGGGTAC
Found at i:10171906 original size:10 final size:10
Alignment explanation
Indices: 10171889--10171944 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
10171879 AAAAAAGAAG
10171889 AATAAAAATA
1 AATAAAAATA
*
10171899 AGTAAAAATA
1 AATAAAAATA
10171909 AATAAAAATAA
1 AATAAAAAT-A
*
10171920 AAGGAAAAATA
1 AA-TAAAAATA
10171931 AAT--AAATA
1 AATAAAAATA
10171939 AATAAA
1 AATAAA
10171945 TGAAATATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 8 0.21
10 18 0.47
11 6 0.16
12 6 0.16
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (10 bp):
AATAAAAATA
Found at i:10171920 original size:16 final size:16
Alignment explanation
Indices: 10171889--10171936 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
10171879 AAAAAAGAAG
*
10171889 AATAAAAATAAGTAAA
1 AATAAAAATAAATAAA
10171905 AATAAATAA-AAATAAA
1 AATAAA-AATAAATAAA
**
10171921 AGGAAAAATAAATAAA
1 AATAAAAATAAATAAA
10171937 TAAATAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 2 0.07
16 23 0.85
17 2 0.07
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (16 bp):
AATAAAAATAAATAAA
Found at i:10171927 original size:22 final size:20
Alignment explanation
Indices: 10171889--10171936 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 20
10171879 AAAAAAGAAG
*
10171889 AATAAAAATAAGTAAAAATA
1 AATAAAAATAAGGAAAAATA
10171909 AATAAAAATAAAAGGAAAAATA
1 AATAAAAAT--AAGGAAAAATA
10171931 AATAAA
1 AATAAA
10171937 TAAATAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.36
22 16 0.64
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (20 bp):
AATAAAAATAAGGAAAAATA
Found at i:10172255 original size:2 final size:2
Alignment explanation
Indices: 10172250--10172317 Score: 58
Period size: 2 Copynumber: 37.0 Consensus size: 2
10172240 TTAAAAAAAG
* *
10172250 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA -A TA TC TA -A AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
10172289 AA TA TA TG TA TA TA TA -A TA -A TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10172318 GTGTAAAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
1 6 0.11
2 49 0.89
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (2 bp):
TA
Found at i:10172301 original size:37 final size:37
Alignment explanation
Indices: 10172253--10172329 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
10172243 AAAAAAGTAT
10172253 ATATATATATATATATATATATAATA-ATA-TCTAAAAA
1 ATATATATATATATA-ATA-ATAATATATAGTCTAAAAA
* *
10172290 ATATATGTATATATAATAATAATATATAGTGTAAAAA
1 ATATATATATATATAATAATAATATATAGTCTAAAAA
10172327 ATA
1 ATA
10172330 AATTGAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
35 6 0.17
36 6 0.17
37 24 0.67
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (37 bp):
ATATATATATATATAATAATAATATATAGTCTAAAAA
Found at i:10172829 original size:37 final size:37
Alignment explanation
Indices: 10172788--10172892 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
10172778 GTTCTTGTGG
* * *
10172788 ATCCTATATTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
10172825 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
10172862 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
10172893 GACGAAAAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:10173805 original size:106 final size:106
Alignment explanation
Indices: 10173623--10174686 Score: 1587
Period size: 106 Copynumber: 10.0 Consensus size: 106
10173613 GCATTGTTCC
* * * *
10173623 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTTGATCTGGAATTGGGAAGTTGTTTATTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
* * ** *
10173687 ACTAGCGATCCCTTCGTCGTGAAGTTGAACTCACATTGTCTT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* * *
10173729 GAGTCCAATATCCTTCGCTGTGAAGTCGAAATTGACTCTAAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* *
10173794 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTTCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* * * * * *
10173835 GAATGCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTAGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* * *
10173900 CCAGCGGTCCCTTCATTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* * * *
10173941 GAGTCCAACATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
*
10174006 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT-TT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
*
10174046 GGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 -GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
10174111 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* * * *
10174153 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* * *
10174218 CCAGCGGTCCCTTCTTCGTGAAGTTAAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* * *
10174259 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* *
10174324 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTTTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* *
10174365 GAGTCCAATATCCTTTGCTATGAAGTTGAAATTGGCTCTGAAATTAGGG-AGTTGTTTATTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGGAAGTTGTTTATTGACA
*
10174429 ACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGT-TT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* *
10174470 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACA
1 -GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
*
10174535 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
*
10174577 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
** * * *
10174642 CCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
10174683 GAGT
1 GAGT
10174687 GGCACGATAT
Statistics
Matches: 870, Mismatches: 81, Indels: 14
0.90 0.08 0.01
Matches are distributed among these distances:
105 4 0.00
106 860 0.99
107 6 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
Found at i:10174877 original size:88 final size:88
Alignment explanation
Indices: 10174728--10174922 Score: 345
Period size: 88 Copynumber: 2.2 Consensus size: 88
10174718 CGTGGATGGC
* *
10174728 CCCTTCGTTCTGAAGTTGAGCCTTGACTTGAATATCCTTCGTCGTGAAGTTAAAATCCAAGTATT
1 CCCTTCGTTGTGAAGTTGAGCCTTGACTTGAATATCCTTCGTCATGAAGTTAAAATCCAAGTATT
10174793 GTATATTACGGGTGGACACAATT
66 GTATATTACGGGTGGACACAATT
10174816 CCCTTCGTTGTGAAGTTGAGCCTTGACTTGAATATCCTTCGTCATGAAGTTAAAATCCAAGTATT
1 CCCTTCGTTGTGAAGTTGAGCCTTGACTTGAATATCCTTCGTCATGAAGTTAAAATCCAAGTATT
* *
10174881 GTATGTTGCGGGTGGACACAATT
66 GTATATTACGGGTGGACACAATT
*
10174904 CCCTTCGTCGTGAAGTTGA
1 CCCTTCGTTGTGAAGTTGA
10174923 ACTTGCGTTG
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 102 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (88 bp):
CCCTTCGTTGTGAAGTTGAGCCTTGACTTGAATATCCTTCGTCATGAAGTTAAAATCCAAGTATT
GTATATTACGGGTGGACACAATT
Found at i:10176645 original size:13 final size:12
Alignment explanation
Indices: 10176627--10176675 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
10176617 TTTTTGTCCC
10176627 TTTTTCTTTTTG
1 TTTTTCTTTTTG
10176639 ATTTTTCTTTTTTG
1 -TTTTTC-TTTTTG
10176653 TTTTT-TCTTTTG
1 TTTTTCT-TTTTG
*
10176665 TTTCTCTTTTT
1 TTTTTCTTTTT
10176676 TCTTTGTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
11 1 0.03
12 13 0.41
13 12 0.38
14 6 0.19
ACGTcount: A:0.02, C:0.10, G:0.06, T:0.82
Consensus pattern (12 bp):
TTTTTCTTTTTG
Found at i:10176656 original size:25 final size:24
Alignment explanation
Indices: 10176627--10176708 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 24
10176617 TTTTTGTCCC
10176627 TTTTTCTTTTTGATTTTTCTTTTTTG
1 TTTTT-TTTTTG-TTTTTCTTTTTTG
* *
10176653 TTTTTTCTTTTGTTTCTCTTTTTTCT
1 TTTTTT-TTTTGTTTTTCTTTTTT-G
10176679 TTGTTTTTTTTGCTTCTTTTCTTTTTTG
1 TT-TTTTTTTTG--T-TTTTCTTTTTTG
10176707 TT
1 TT
10176709 CTTGATTGGA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
25 12 0.26
26 17 0.37
27 4 0.09
28 3 0.07
29 10 0.22
ACGTcount: A:0.01, C:0.11, G:0.07, T:0.80
Consensus pattern (24 bp):
TTTTTTTTTTGTTTTTCTTTTTTG
Found at i:10176689 original size:32 final size:31
Alignment explanation
Indices: 10176640--10176711 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
10176630 TTCTTTTTGA
* *
10176640 TTTTTCTTTTTTGTTTTTTCTTTTGTTTCTCT
1 TTTTTCTTTTTTGTTTTTGCTTCT-TTTCTCT
*
10176672 TTTTTCTTTGTTT-TTTTTGCTTCTTTTCTTT
1 TTTTTCTTT-TTTGTTTTTGCTTCTTTTCTCT
10176703 TTTGTTCTT
1 TTT-TTCTT
10176712 GATTGGATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 9 0.26
32 23 0.66
33 3 0.09
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.81
Consensus pattern (31 bp):
TTTTTCTTTTTTGTTTTTGCTTCTTTTCTCT
Found at i:10176695 original size:17 final size:15
Alignment explanation
Indices: 10176628--10176711 Score: 60
Period size: 14 Copynumber: 6.1 Consensus size: 15
10176618 TTTTGTCCCT
*
10176628 TTTTC-TTTTTGAT-
1 TTTTCTTTTTTGTTC
10176641 TTTTCTTTTTTGTT-
1 TTTTCTTTTTTGTTC
10176655 TTTTC--TTTTG-T-
1 TTTTCTTTTTTGTTC
* *
10176666 TTCTCTTTTTTCTT-
1 TTTTCTTTTTTGTTC
*
10176680 TGTT-TTTTTTGCTTC
1 TTTTCTTTTTTG-TTC
10176695 TTTTCTTTTTTGTTC
1 TTTTCTTTTTTGTTC
10176710 TT
1 TT
10176712 GATTGGATCT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
11 5 0.09
12 5 0.09
13 15 0.26
14 17 0.30
15 8 0.14
16 7 0.12
ACGTcount: A:0.01, C:0.12, G:0.07, T:0.80
Consensus pattern (15 bp):
TTTTCTTTTTTGTTC
Found at i:10181131 original size:10 final size:10
Alignment explanation
Indices: 10181114--10181161 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
10181104 AAAATTGAAG
10181114 AATAAAAATA
1 AATAAAAATA
*
10181124 AGTAAAAATA
1 AATAAAAATA
10181134 AATAAAAATAA
1 AATAAAAAT-A
*
10181145 AAGGAAAAATA
1 AA-TAAAAATA
10181156 AATAAA
1 AATAAA
10181162 TAAATGAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 20 0.62
11 6 0.19
12 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (10 bp):
AATAAAAATA
Found at i:10181145 original size:16 final size:16
Alignment explanation
Indices: 10181114--10181161 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
10181104 AAAATTGAAG
*
10181114 AATAAAAATAAGTAAA
1 AATAAAAATAAATAAA
10181130 AATAAATAA-AAATAAA
1 AATAAA-AATAAATAAA
**
10181146 AGGAAAAATAAATAAA
1 AATAAAAATAAATAAA
10181162 TAAATGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 2 0.07
16 23 0.85
17 2 0.07
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (16 bp):
AATAAAAATAAATAAA
Found at i:10181155 original size:22 final size:20
Alignment explanation
Indices: 10181114--10181161 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 20
10181104 AAAATTGAAG
*
10181114 AATAAAAATAAGTAAAAATA
1 AATAAAAATAAGGAAAAATA
10181134 AATAAAAATAAAAGGAAAAATA
1 AATAAAAAT--AAGGAAAAATA
10181156 AATAAA
1 AATAAA
10181162 TAAATGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.36
22 16 0.64
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (20 bp):
AATAAAAATAAGGAAAAATA
Found at i:10181489 original size:36 final size:32
Alignment explanation
Indices: 10181458--10181521 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 32
10181448 AAATATTTAA
*
10181458 AAAAAGTATATATATATATATATAAATAATATCT
1 AAAAAATATATATATATATA-AT-AATAATATCT
*
10181492 AAAAAATATATGTATATATAATAATAATAT
1 AAAAAATATATATATATATAATAATAATAT
10181522 ATAGTGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 8 0.29
33 2 0.07
34 18 0.64
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (32 bp):
AAAAAATATATATATATATAATAATAATATCT
Found at i:10182039 original size:37 final size:37
Alignment explanation
Indices: 10181998--10182083 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
10181988 GTGCTTGTGG
* * *
10181998 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCATAGCAAAACTCT
* * *
10182035 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCATAGCAAAACTCT
10182072 ATCCTATTTTTA
1 ATCCTATTTTTA
10182084 TCCTAGTAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCATAGCAAAACTCT
Found at i:10188905 original size:24 final size:23
Alignment explanation
Indices: 10188853--10188905 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
10188843 GAAGGGGGTT
* *
10188853 TTGAT-TTTTTTTTTTGAAAAAA
1 TTGATATTTTTTTATTAAAAAAA
**
10188875 TCAATATTTTTATTATTAAAAAAA
1 TTGATATTTTT-TTATTAAAAAAA
10188899 TTGATAT
1 TTGATAT
10188906 CTAAAAGTAT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
22 3 0.13
23 5 0.22
24 15 0.65
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.53
Consensus pattern (23 bp):
TTGATATTTTTTTATTAAAAAAA
Found at i:10196051 original size:22 final size:22
Alignment explanation
Indices: 10196026--10196067 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
10196016 CAATTCATTT
10196026 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
10196048 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
10196068 CCAGCACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:10199740 original size:38 final size:38
Alignment explanation
Indices: 10199684--10199756 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
10199674 TCATTATGAT
10199684 TTAAATAGATATAATTTGAGATTACTTTAAAATACGAC
1 TTAAATAGATATAATTTGAGATTACTTTAAAATACGAC
* *
10199722 TTAAATGGATATATTTTGAGATTACTTTAAAATAC
1 TTAAATAGATATAATTTGAGATTACTTTAAAATAC
10199757 AACACATGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (38 bp):
TTAAATAGATATAATTTGAGATTACTTTAAAATACGAC
Found at i:10201007 original size:18 final size:18
Alignment explanation
Indices: 10200981--10201034 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
10200971 ATAGTGCCTT
*
10200981 GTTGACAGAATTGACCA-A
1 GTTGGCAGAATTG-CCAGA
*
10200999 GTTGGCAGAATTGGCAGA
1 GTTGGCAGAATTGCCAGA
* *
10201017 ATTGGCAGAATTGGCAGA
1 GTTGGCAGAATTGCCAGA
10201035 ATTGAGACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 2 0.06
18 30 0.94
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.22
Consensus pattern (18 bp):
GTTGGCAGAATTGCCAGA
Found at i:10201012 original size:9 final size:9
Alignment explanation
Indices: 10201000--10201038 Score: 78
Period size: 9 Copynumber: 4.3 Consensus size: 9
10200990 ATTGACCAAG
10201000 TTGGCAGAA
1 TTGGCAGAA
10201009 TTGGCAGAA
1 TTGGCAGAA
10201018 TTGGCAGAA
1 TTGGCAGAA
10201027 TTGGCAGAA
1 TTGGCAGAA
10201036 TTG
1 TTG
10201039 AGACTTGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.26
Consensus pattern (9 bp):
TTGGCAGAA
Found at i:10206338 original size:16 final size:16
Alignment explanation
Indices: 10206314--10206347 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
10206304 TATCGCCGAC
*
10206314 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
10206330 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
10206346 CG
1 CG
10206348 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:10208820 original size:36 final size:36
Alignment explanation
Indices: 10208715--10208823 Score: 96
Period size: 36 Copynumber: 3.0 Consensus size: 36
10208705 GGTCTAAACT
** * *
10208715 TATATAAGGAATTACCAGTTTGA-CTGAAGTTGAACC
1 TATATAAGGAATTACCAACTTGATCAGAA-CTGAACC
* * * * **
10208751 TACAATAAGGATTTACC-AGTTGATCGGTGCTGAACC
1 TA-TATAAGGAATTACCAACTTGATCAGAACTGAACC
10208787 TATATAAGGAATTACCAACTTGATCAGAACTGAACC
1 TATATAAGGAATTACCAACTTGATCAGAACTGAACC
10208823 T
1 T
10208824 GCAGAGACTT
Statistics
Matches: 56, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
35 12 0.21
36 30 0.54
37 14 0.25
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (36 bp):
TATATAAGGAATTACCAACTTGATCAGAACTGAACC
Found at i:10210344 original size:17 final size:17
Alignment explanation
Indices: 10210322--10210364 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 17
10210312 ATATCTCGAA
10210322 TACATATAAACAGAAAT
1 TACATATAAACAGAAAT
10210339 TAC--AT--A-AGAAAT
1 TACATATAAACAGAAAT
10210351 TACATATAAACAGA
1 TACATATAAACAGA
10210365 TCGAATCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 10
0.68 0.00 0.32
Matches are distributed among these distances:
12 9 0.43
13 1 0.05
14 2 0.10
15 2 0.10
16 1 0.05
17 6 0.29
ACGTcount: A:0.58, C:0.12, G:0.07, T:0.23
Consensus pattern (17 bp):
TACATATAAACAGAAAT
Found at i:10210519 original size:20 final size:20
Alignment explanation
Indices: 10210494--10210549 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
10210484 TTTTTGGGTC
*
10210494 AAAGTCAACAGTCAATGATT
1 AAAGTCAACAGTCAACGATT
**
10210514 AAAGTCAATGGTCAACGATT
1 AAAGTCAACAGTCAACGATT
*
10210534 AAAGTCAACATTCAAC
1 AAAGTCAACAGTCAAC
10210550 TCTGGTCAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (20 bp):
AAAGTCAACAGTCAACGATT
Found at i:10210824 original size:20 final size:21
Alignment explanation
Indices: 10210787--10210827 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10210777 AACTTATCAC
10210787 CAAAAACAACCCATAATCAAT
1 CAAAAACAACCCATAATCAAT
10210808 CAAAAATCAA-CCA-AATCAAT
1 CAAAAA-CAACCCATAATCAAT
10210828 GCTAAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 9 0.47
22 3 0.16
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.15
Consensus pattern (21 bp):
CAAAAACAACCCATAATCAAT
Found at i:10216737 original size:13 final size:13
Alignment explanation
Indices: 10216698--10216725 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10216688 CAATTATTTG
10216698 TCACTTATTTTTA
1 TCACTTATTTTTA
10216711 TCACTTATTTTTA
1 TCACTTATTTTTA
10216724 TC
1 TC
10216726 TCTCTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.61
Consensus pattern (13 bp):
TCACTTATTTTTA
Found at i:10219187 original size:5 final size:5
Alignment explanation
Indices: 10219177--10219681 Score: 860
Period size: 5 Copynumber: 103.0 Consensus size: 5
10219167 TTAAAACAAT
10219177 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
10219227 TATAA TATAA TA-ATA TATAA TATAA TATAA TA-AA TATAA TATAA TATAA
1 TATAA TATAA TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA
10219276 TATAA TAT-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
10219325 TATAA TATAATA TATAA TATAA TA-AA TATAA TATAA TAT-A TATAA TATAA
1 TATAA TAT-A-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
10219375 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT-A
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
10219424 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
10219474 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT-A TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
10219523 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
10219573 TATAA TAATAA TATAA TAT-A -ATAA TATAA TAT-A -ATAA TATAA TAT-A
1 TATAA T-ATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
10219619 TATAA TAT-A TATAA TATAA TATAA TATAA TAT-A TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
10219667 TA-AA TATATA TATAA
1 TATAA TATA-A TATAA
10219682 ACTATATAAT
Statistics
Matches: 480, Mismatches: 0, Indels: 40
0.92 0.00 0.08
Matches are distributed among these distances:
3 4 0.01
4 45 0.09
5 414 0.86
6 13 0.03
7 4 0.01
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:10219719 original size:10 final size:10
Alignment explanation
Indices: 10219177--10219937 Score: 396
Period size: 8 Copynumber: 84.8 Consensus size: 10
10219167 TTAAAACAAT
10219177 TATA-ATATA
1 TATATATATA
10219186 -ATATA-ATA
1 TATATATATA
10219194 TA-ATATA-A
1 TATATATATA
10219202 TATA-ATATA
1 TATATATATA
10219211 -ATATA-ATA
1 TATATATATA
10219219 TA-ATATA-A
1 TATATATATA
10219227 TATA-ATATA
1 TATATATATA
10219236 -ATA-ATATA
1 TATATATATA
10219244 TA-ATATA-A
1 TATATATATA
*
10219252 TATA-ATAAA
1 TATATATATA
10219261 TATA-ATATA
1 TATATATATA
10219270 -ATATA-ATA
1 TATATATATA
10219278 TA-ATATATA
1 TATATATATA
10219287 TA-ATATA-A
1 TATATATATA
10219295 TATA-ATATA
1 TATATATATA
10219304 -ATATA-ATA
1 TATATATATA
10219312 TA-ATATA-A
1 TATATATATA
10219320 TATA-ATATA
1 TATATATATA
10219329 -ATATA-ATA
1 TATATATATA
10219337 TATA-ATATA
1 TATATATATA
*
10219346 -ATAAATATA
1 TATATATATA
10219355 -ATATA-ATA
1 TATATATATA
10219363 TATATA-ATA
1 TATATATATA
10219372 TA-ATATA-A
1 TATATATATA
10219380 TATA-ATATA
1 TATATATATA
10219389 -ATATA-ATA
1 TATATATATA
10219397 TA-ATATA-A
1 TATATATATA
10219405 TATA-ATATA
1 TATATATATA
10219414 -ATATA-ATA
1 TATATATATA
10219422 TATATA-ATA
1 TATATATATA
10219431 TA-ATATA-A
1 TATATATATA
10219439 TATA-ATATA
1 TATATATATA
10219448 -ATATA-ATA
1 TATATATATA
10219456 TA-ATATA-A
1 TATATATATA
10219464 TATA-ATATA
1 TATATATATA
10219473 -ATATA-ATA
1 TATATATATA
10219481 TA-ATATA-A
1 TATATATATA
10219489 TATA-ATATA
1 TATATATATA
10219498 -ATATA-ATA
1 TATATATATA
10219506 TA-ATATATA
1 TATATATATA
10219515 TA-ATATA-A
1 TATATATATA
10219523 TATA-ATATA
1 TATATATATA
10219532 -ATATA-ATA
1 TATATATATA
10219540 TA-ATATA-A
1 TATATATATA
10219548 TATA-ATATA
1 TATATATATA
10219557 -ATATA-ATA
1 TATATATATA
10219565 TA-ATATA-A
1 TATATATATA
10219573 TATA-ATA-A
1 TATATATATA
10219581 TA-ATATA-A
1 TATATATATA
10219589 TATA-ATA-A
1 TATATATATA
10219597 TATA-ATATA
1 TATATATATA
10219606 -ATA-ATATA
1 TATATATATA
10219614 -ATATATATA
1 TATATATATA
10219623 -ATATATATA
1 TATATATATA
10219632 -ATATA-ATA
1 TATATATATA
10219640 TA-ATATA-A
1 TATATATATA
10219648 TATATATA-A
1 TATATATATA
10219657 TATA-ATATA
1 TATATATATA
*
10219666 -ATAAATATA
1 TATATATATA
*
10219675 TATATAAACTA
1 TATATATA-TA
*
10219686 TATA-ATGTA
1 TATATATATA
10219695 TATATGA-ACTA
1 TATAT-ATA-TA
10219706 TATATATATA
1 TATATATATA
10219716 TATATAT-TA
1 TATATATATA
* *
10219725 AACTATATAGTT
1 TA-TATATA-TA
*
10219737 TAT-TACCATA
1 TATATA-TATA
* * *
10219747 AACTATTTAAA
1 TA-TATATATA
*
10219758 CTATTTATATA
1 -TATATATATA
* *
10219769 -ATCTATAGA
1 TATATATATA
*
10219778 TAAAT-TATA
1 TATATATATA
* *
10219787 TGTATAAACTA
1 TATATATA-TA
10219798 TATATATATA
1 TATATATATA
10219808 TATATATATA
1 TATATATATA
10219818 TATATATATA
1 TATATATATA
*
10219828 TATACATATA
1 TATATATATA
* *
10219838 GTTTATCTATA
1 -TATATATATA
*
10219849 TAGAT-TATA
1 TATATATATA
* *
10219858 TAAATAGTTTA
1 TATATA-TATA
10219869 T-TACTATATA
1 TATA-TATATA
* *
10219879 TGTATAAACTA
1 TATATATA-TA
* *
10219890 TATGA-ACAAA
1 TAT-ATATATA
*
10219900 TATATATAAA
1 TATATATATA
10219910 CTATA-ATATA
1 -TATATATATA
*
10219920 TAAACTATATA
1 TATA-TATATA
10219931 T-TATATA
1 TATATATA
10219938 GTTCATTAAT
Statistics
Matches: 602, Mismatches: 48, Indels: 204
0.70 0.06 0.24
Matches are distributed among these distances:
7 1 0.00
8 248 0.41
9 201 0.33
10 83 0.14
11 64 0.11
12 5 0.01
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (10 bp):
TATATATATA
Found at i:10219815 original size:14 final size:14
Alignment explanation
Indices: 10219796--10219937 Score: 78
Period size: 14 Copynumber: 10.0 Consensus size: 14
10219786 ATGTATAAAC
10219796 TATATATATATATA
1 TATATATATATATA
10219810 TATATATATATATA
1 TATATATATATATA
*
10219824 TATATATACATATA
1 TATATATATATATA
* * *
10219838 GTTTATCTATATAGA
1 -TATATATATATATA
* *
10219853 T-TATATAAATAGTT
1 TATATATATATA-TA
*
10219867 TAT-TACTATATATG
1 TATATA-TATATATA
*
10219881 TATAAACTATATGA-A
1 TATATA-TATAT-ATA
* * *
10219896 CAAATATATATAAA
1 TATATATATATATA
*
10219910 CTATA-ATATATAAA
1 -TATATATATATATA
10219924 CTATATAT-TATATA
1 -TATATATATATATA
10219938 GTTCATTAAT
Statistics
Matches: 100, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
13 9 0.09
14 60 0.60
15 30 0.30
16 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.44
Consensus pattern (14 bp):
TATATATATATATA
Found at i:10219851 original size:13 final size:13
Alignment explanation
Indices: 10219804--10219869 Score: 64
Period size: 13 Copynumber: 5.2 Consensus size: 13
10219794 ACTATATATA
*
10219804 TATATATATA-TA
1 TATATATATAGTT
*
10219816 TATATATATA-TA
1 TATATATATAGTT
*
10219828 TATACATATAGTT
1 TATATATATAGTT
* *
10219841 TATCTATATAGAT
1 TATATATATAGTT
*
10219854 TATATAAATAGTT
1 TATATATATAGTT
10219867 TAT
1 TAT
10219870 TACTATATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
12 21 0.47
13 24 0.53
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (13 bp):
TATATATATAGTT
Found at i:10219985 original size:56 final size:55
Alignment explanation
Indices: 10219925--10220097 Score: 235
Period size: 53 Copynumber: 3.1 Consensus size: 55
10219915 ATATATAAAC
10219925 TATATATTATATAGTTCATTAATATAAACTATATATTAATTTATTAATATTT-TA
1 TATATATTATATAGTTCATTAATATAAACTATATATTAATTTATTAATATTTATA
* **
10219979 TATATA-TATATAGTTCATTAATATAAACTATGTATTAATTTATTAATATAAACTA
1 TATATATTATATAGTTCATTAATATAAACTATATATTAATTTATTAATATTTA-TA
* *
10220034 TATATATTATATAGTTCATTAGTATAAACTATATGAGTTATAGTTTATTAATATTAAT-
1 TATATATTATATAGTTCATTAATATAAACTATAT-A-TTA-A-TTTATTAATATTTATA
10220092 TATATA
1 TATATA
10220098 GTTTATTAAT
Statistics
Matches: 106, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
53 42 0.40
54 6 0.06
55 8 0.08
56 25 0.24
57 1 0.01
58 9 0.08
59 2 0.02
60 13 0.12
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.49
Consensus pattern (55 bp):
TATATATTATATAGTTCATTAATATAAACTATATATTAATTTATTAATATTTATA
Found at i:10220128 original size:17 final size:17
Alignment explanation
Indices: 10220085--10220120 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
10220075 AGTTTATTAA
*
10220085 TATTAAT-TATATAGTT
1 TATTAATATAAATAGTT
10220101 TATTAATATAAATAGTT
1 TATTAATATAAATAGTT
10220118 TAT
1 TAT
10220121 ACATATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
TATTAATATAAATAGTT
Found at i:10220974 original size:53 final size:54
Alignment explanation
Indices: 10220774--10220975 Score: 211
Period size: 53 Copynumber: 3.8 Consensus size: 54
10220764 TTCTTATTTT
* *** * * *
10220774 TAACCCTAAACTCTAACCGAGCCTCCTCCTCTTCTT-TATCTTTTTATCTTCTC
1 TAACCCTAAACCCTAATTAAGCCTCTTCATCTTCTTCTATCTTTTCATCTTCTC
* **
10220827 TAA-CCTAAACCCTAATTAAGCCTCTTCATCTTCTATC--TCTATTCATCCTT-AA
1 TAACCCTAAACCCTAATTAAGCCTCTTCATCTTCT-TCTATCTTTTCAT-CTTCTC
* *
10220879 TAACCCCAAACCCTAATTAAGCCTCTTCATCTTC-TCTCTCTTTTCATCTTCTC
1 TAACCCTAAACCCTAATTAAGCCTCTTCATCTTCTTCTATCTTTTCATCTTCTC
* *
10220932 TAACCCTAAACCCTAATTAAGCTTCTTCTTCTTCTTCT-TCTTTT
1 TAACCCTAAACCCTAATTAAGCCTCTTCATCTTCTTCTATCTTTT
10220976 ATAACTATAA
Statistics
Matches: 124, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
51 2 0.02
52 38 0.31
53 81 0.65
54 3 0.02
ACGTcount: A:0.22, C:0.34, G:0.02, T:0.42
Consensus pattern (54 bp):
TAACCCTAAACCCTAATTAAGCCTCTTCATCTTCTTCTATCTTTTCATCTTCTC
Found at i:10222381 original size:31 final size:31
Alignment explanation
Indices: 10222322--10222379 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
10222312 GTAACTTTTG
10222322 TTTATTTATGTTTACTAAATTAATTTTTATA
1 TTTATTTATGTTTACTAAATTAATTTTTATA
* *
10222353 TTTA-TTATGTTTATTCAATTAATTTTT
1 TTTATTTATGTTTACTAAATTAATTTTT
10222380 TAATATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (31 bp):
TTTATTTATGTTTACTAAATTAATTTTTATA
Found at i:10232808 original size:20 final size:20
Alignment explanation
Indices: 10232770--10232827 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
10232760 CCATTTATTA
*
10232770 ATTTAATTATCATAATTAAT
1 ATTTAATTATAATAATTAAT
* * *
10232790 ATTTTATTATAATATTTAAA
1 ATTTAATTATAATAATTAAT
* * *
10232810 AATTAATCATATTAATTA
1 ATTTAATTATAATAATTA
10232828 GCATGATTTA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTAATTATAATAATTAAT
Found at i:10232917 original size:16 final size:16
Alignment explanation
Indices: 10232892--10232931 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
10232882 CATCAATGGT
10232892 AATATACAAGTCAGGTA
1 AATAT-CAAGTCAGGTA
*
10232909 AATATCAAGTTAGGTA
1 AATATCAAGTCAGGTA
10232925 AATATCA
1 AATATCA
10232932 TATCAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.28
Consensus pattern (16 bp):
AATATCAAGTCAGGTA
Found at i:10239364 original size:27 final size:27
Alignment explanation
Indices: 10239333--10239388 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
10239323 AATTGCCCTG
*
10239333 ATAATATGTTATTATAATTATCTACTA
1 ATAATATGTTATTATAATTATCTAATA
10239360 ATAATATGTTATTATAATTATCTAATA
1 ATAATATGTTATTATAATTATCTAATA
10239387 AT
1 AT
10239389 TGATCTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (27 bp):
ATAATATGTTATTATAATTATCTAATA
Found at i:10240886 original size:19 final size:15
Alignment explanation
Indices: 10240843--10240882 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
10240833 TTATTGAACA
10240843 TGAATTAATTTGCTT
1 TGAATTAATTTGCTT
10240858 TGAATTAATTTGCTT
1 TGAATTAATTTGCTT
10240873 TGAATTAATT
1 TGAATTAATT
10240883 AATTAATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (15 bp):
TGAATTAATTTGCTT
Found at i:10241449 original size:2 final size:2
Alignment explanation
Indices: 10241400--10241437 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10241390 TAACATGGCG
10241400 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10241438 GTTTAGTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10241596 original size:2 final size:2
Alignment explanation
Indices: 10241589--10241644 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
10241579 TAACATGGCG
10241589 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10241631 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
10241645 GTGCATAAAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10245808 original size:2 final size:2
Alignment explanation
Indices: 10245749--10245796 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
10245739 TAACATGGCG
10245749 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10245791 AT AT AT
1 AT AT AT
10245797 GTTTAGTATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10249487 original size:19 final size:15
Alignment explanation
Indices: 10249444--10249483 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
10249434 TTATTGAACA
10249444 TGAATTAATTTGCTT
1 TGAATTAATTTGCTT
10249459 TGAATTAATTTGCTT
1 TGAATTAATTTGCTT
10249474 TGAATTAATT
1 TGAATTAATT
10249484 AATTAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (15 bp):
TGAATTAATTTGCTT
Found at i:10254005 original size:116 final size:116
Alignment explanation
Indices: 10253801--10254030 Score: 451
Period size: 116 Copynumber: 2.0 Consensus size: 116
10253791 TTCTAATTAA
10253801 AATACAAAGAATTAATTAGCAAAATAAAATTAATTTTATTCCAAGTTCACATTTGTTCTAATGTC
1 AATACAAAGAATTAATTAGCAAAATAAAATTAATTTTATTCCAAGTTCACATTTGTTCTAATGTC
10253866 GTATCGGATTACACCACTTCGATCAAGCGATGTTTTTCACGCCCAATCTAC
66 GTATCGGATTACACCACTTCGATCAAGCGATGTTTTTCACGCCCAATCTAC
*
10253917 AATACAAAGAATTAATTAGCAAAATAAAATTAATTTTATTCCAAGTTCACATTTGTTCTAATGTT
1 AATACAAAGAATTAATTAGCAAAATAAAATTAATTTTATTCCAAGTTCACATTTGTTCTAATGTC
10253982 GTATCGGATTACACCACTTCGATCAAGCGATGTTTTTCACGCCCAATCT
66 GTATCGGATTACACCACTTCGATCAAGCGATGTTTTTCACGCCCAATCT
10254031 TCAAATCGTA
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 113 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (116 bp):
AATACAAAGAATTAATTAGCAAAATAAAATTAATTTTATTCCAAGTTCACATTTGTTCTAATGTC
GTATCGGATTACACCACTTCGATCAAGCGATGTTTTTCACGCCCAATCTAC
Found at i:10254337 original size:2 final size:2
Alignment explanation
Indices: 10254330--10254361 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10254320 ACATACACGA
10254330 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10254362 GTGTGCATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10257144 original size:15 final size:15
Alignment explanation
Indices: 10257124--10257163 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
10257114 TTATTGAACA
*
10257124 TGAATTAATTTTCTT
1 TGAATTAATTTGCTT
10257139 TGAATTAATTTGCTT
1 TGAATTAATTTGCTT
*
10257154 TTAATTAATT
1 TGAATTAATT
10257164 AATTAATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (15 bp):
TGAATTAATTTGCTT
Found at i:10257786 original size:2 final size:2
Alignment explanation
Indices: 10257779--10257820 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
10257769 ACATGCACGA
10257779 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10257821 CTGTGTGTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10259267 original size:3 final size:3
Alignment explanation
Indices: 10259259--10259287 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10259249 ATTAAAACAT
10259259 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
10259288 TTTTTAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:10261422 original size:19 final size:15
Alignment explanation
Indices: 10261379--10261418 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
10261369 TTATTGAACA
10261379 TGAATTAATTTGCTT
1 TGAATTAATTTGCTT
10261394 TGAATTAATTTGCTT
1 TGAATTAATTTGCTT
10261409 TGAATTAATT
1 TGAATTAATT
10261419 AATTAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (15 bp):
TGAATTAATTTGCTT
Found at i:10261644 original size:22 final size:23
Alignment explanation
Indices: 10261615--10261666 Score: 97
Period size: 22 Copynumber: 2.3 Consensus size: 23
10261605 TTGTTATACT
10261615 TAAAATAAAAAGAATTAATTAGC
1 TAAAATAAAAAGAATTAATTAGC
10261638 -AAAATAAAAAGAATTAATTAGC
1 TAAAATAAAAAGAATTAATTAGC
10261660 TAAAATA
1 TAAAATA
10261667 GGCGCTGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.63, C:0.04, G:0.08, T:0.25
Consensus pattern (23 bp):
TAAAATAAAAAGAATTAATTAGC
Found at i:10268672 original size:19 final size:15
Alignment explanation
Indices: 10268629--10268668 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
10268619 TTATTGAACA
10268629 TGAATTAATTTGCTT
1 TGAATTAATTTGCTT
10268644 TGAATTAATTTGCTT
1 TGAATTAATTTGCTT
10268659 TGAATTAATT
1 TGAATTAATT
10268669 AATTAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (15 bp):
TGAATTAATTTGCTT
Found at i:10268894 original size:22 final size:23
Alignment explanation
Indices: 10268865--10268916 Score: 97
Period size: 22 Copynumber: 2.3 Consensus size: 23
10268855 TTGTTATACT
10268865 TAAAATAAAAAGAATTAATTAGC
1 TAAAATAAAAAGAATTAATTAGC
10268888 -AAAATAAAAAGAATTAATTAGC
1 TAAAATAAAAAGAATTAATTAGC
10268910 TAAAATA
1 TAAAATA
10268917 GGCGCTGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.63, C:0.04, G:0.08, T:0.25
Consensus pattern (23 bp):
TAAAATAAAAAGAATTAATTAGC
Found at i:10272352 original size:2 final size:2
Alignment explanation
Indices: 10272345--10272404 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
10272335 ACATGCACGA
10272345 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10272387 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
10272405 GTGCGCGCGC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10275955 original size:19 final size:15
Alignment explanation
Indices: 10275912--10275951 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
10275902 TTATTGAACA
10275912 TGAATTAATTTGCTT
1 TGAATTAATTTGCTT
10275927 TGAATTAATTTGCTT
1 TGAATTAATTTGCTT
10275942 TGAATTAATT
1 TGAATTAATT
10275952 AATTAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (15 bp):
TGAATTAATTTGCTT
Found at i:10276177 original size:22 final size:23
Alignment explanation
Indices: 10276148--10276199 Score: 97
Period size: 22 Copynumber: 2.3 Consensus size: 23
10276138 TTGTTATACT
10276148 TAAAATAAAAAGAATTAATTAGC
1 TAAAATAAAAAGAATTAATTAGC
10276171 -AAAATAAAAAGAATTAATTAGC
1 TAAAATAAAAAGAATTAATTAGC
10276193 TAAAATA
1 TAAAATA
10276200 GGCGCTGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.63, C:0.04, G:0.08, T:0.25
Consensus pattern (23 bp):
TAAAATAAAAAGAATTAATTAGC
Found at i:10279641 original size:2 final size:2
Alignment explanation
Indices: 10279634--10279691 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
10279624 ACATGCACGA
10279634 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10279676 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
10279692 GTGCGCGCGC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10283223 original size:15 final size:15
Alignment explanation
Indices: 10283200--10283239 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
10283190 TTATTGAACA
*
10283200 TGAATTAATTTGTTT
1 TGAATTAATTTGCTT
*
10283215 TGAAATAATTTGCTT
1 TGAATTAATTTGCTT
10283230 TGAATTAATT
1 TGAATTAATT
10283240 AATTAATTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.53
Consensus pattern (15 bp):
TGAATTAATTTGCTT
Found at i:10283841 original size:2 final size:2
Alignment explanation
Indices: 10283834--10283861 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10283824 ACATGCATGA
10283834 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10283862 GTGCATAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10294514 original size:2 final size:2
Alignment explanation
Indices: 10294507--10294550 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
10294497 ACATGCACGA
10294507 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10294549 AT
1 AT
10294551 GCATAAAGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10295988 original size:3 final size:3
Alignment explanation
Indices: 10295980--10296014 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
10295970 ATTAACACAT
10295980 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
10296015 TTTTTAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:10297091 original size:16 final size:16
Alignment explanation
Indices: 10297070--10297105 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10297060 GTGGCTAAGT
10297070 CAGAGCAGACCCAAAG
1 CAGAGCAGACCCAAAG
* *
10297086 CAGAGCTGACCCGAAG
1 CAGAGCAGACCCAAAG
10297102 CAGA
1 CAGA
10297106 ACAATTGGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.31, G:0.28, T:0.03
Consensus pattern (16 bp):
CAGAGCAGACCCAAAG
Found at i:10298893 original size:26 final size:26
Alignment explanation
Indices: 10298861--10298921 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
10298851 ATGACATCAT
10298861 TTTGCATAATATGCATGATAGCCTCA
1 TTTGCATAATATGCATGATAGCCTCA
10298887 TTTGCATAATATGCATGATAGCCTCA
1 TTTGCATAATATGCATGATAGCCTCA
10298913 TTTGCATAA
1 TTTGCATAA
10298922 CTCGACATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (26 bp):
TTTGCATAATATGCATGATAGCCTCA
Found at i:10300831 original size:54 final size:55
Alignment explanation
Indices: 10300749--10300855 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 55
10300739 GCGTTCAGAT
* *
10300749 GATTCATGAATAAGGACATCCAATGAATGAAGAAA-TTGAACCTGACTGAAGAAC
1 GATTCATGAAGAAGGACATCCAATGAATGAAGAAATTTGAAACTGACTGAAGAAC
*
10300803 GATTCATGAAGAAGGACATCCAATGAATGAAGAAATTTGAAACTGATTGAAGA
1 GATTCATGAAGAAGGACATCCAATGAATGAAGAAATTTGAAACTGACTGAAGA
10300856 CTGATCCACA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
54 34 0.69
55 15 0.31
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.21
Consensus pattern (55 bp):
GATTCATGAAGAAGGACATCCAATGAATGAAGAAATTTGAAACTGACTGAAGAAC
Found at i:10300878 original size:55 final size:54
Alignment explanation
Indices: 10300760--10300878 Score: 152
Period size: 55 Copynumber: 2.2 Consensus size: 54
10300750 ATTCATGAAT
* * **
10300760 AAGGACATCCAATGAATGAAGAAATTGAACCTGACTGAAGAACGATTCATGAAG
1 AAGGACATCCAATGAATGAAGAAATTGAAACTGACTGAAGAACGATCCACAAAG
*
10300814 AAGGACATCCAATGAATGAAGAAATTTGAAACTGATTGAAG-ACTGATCCACAAAG
1 AAGGACATCCAATGAATGAAGAAA-TTGAAACTGACTGAAGAAC-GATCCACAAAG
10300869 AAAGG-CATCC
1 -AAGGACATCC
10300879 TGAAGATGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
54 26 0.46
55 27 0.47
56 4 0.07
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (54 bp):
AAGGACATCCAATGAATGAAGAAATTGAAACTGACTGAAGAACGATCCACAAAG
Found at i:10301657 original size:72 final size:72
Alignment explanation
Indices: 10301540--10301762 Score: 383
Period size: 72 Copynumber: 3.1 Consensus size: 72
10301530 CCCTATTACA
* * *
10301540 CAAGAAAATATGAAGACTTTGGGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
1 CAAGAACAGATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
10301605 AAATGAT
66 AAATGAT
*
10301612 CAAGAACAGATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAACAAATGTGATGATAGC
1 CAAGAACAGATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
10301677 AAATGAT
66 AAATGAT
* *
10301684 CAAGAACAGATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGATGCAGCCAATGTGATGATAGC
1 CAAGAACAGATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
*
10301749 AACTGAT
66 AAATGAT
10301756 CAAGAAC
1 CAAGAAC
10301763 CTGTTAGGGG
Statistics
Matches: 143, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 143 1.00
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (72 bp):
CAAGAACAGATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
AAATGAT
Found at i:10306576 original size:37 final size:37
Alignment explanation
Indices: 10306526--10306639 Score: 185
Period size: 37 Copynumber: 3.1 Consensus size: 37
10306516 AAAGCCAAGT
*
10306526 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTGAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGC
*
10306563 CTTCACCAAAGAGTAGTGAAGCAAA-CCATCTTAAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGC
* *
10306599 CTTCACCAAAGAGTAGTGAAGCATATCCTTTTTAAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGC
10306636 CTTC
1 CTTC
10306640 TCGGAAGAGT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 33 0.46
37 38 0.54
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (37 bp):
CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGC
Found at i:10306607 original size:36 final size:36
Alignment explanation
Indices: 10306526--10306665 Score: 165
Period size: 37 Copynumber: 3.8 Consensus size: 36
10306516 AAAGCCAAGT
* *
10306526 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTGAGC
1 CTTCACCAAAGAGTAGTGAAGCAAA-CCATCTTAAGC
10306563 CTTCACCAAAGAGTAGTGAAGCAAACCATCTTAAGC
1 CTTCACCAAAGAGTAGTGAAGCAAACCATCTTAAGC
* * *
10306599 CTTCACCAAAGAGTAGTGAAGCATATCCTTTTTAAGC
1 CTTCACCAAAGAGTAGTGAAGCA-AACCATCTTAAGC
* ** *
10306636 CTTCTCGGAAGAGT-GTTGGAGCAAACCATC
1 CTTCACCAAAGAGTAG-TGAAGCAAACCATC
10306666 AGACTATCAG
Statistics
Matches: 89, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
36 37 0.42
37 52 0.58
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (36 bp):
CTTCACCAAAGAGTAGTGAAGCAAACCATCTTAAGC
Done.