Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 5 of 103
Found at i:1883032 original size:22 final size:21
Alignment explanation
Indices: 1883001--1883074 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 21
1882991 TTTATTTTAT
1883001 TTTATCTTTTAAATATTAATCAA
1 TTTAT-TTTTAAATATTAAT-AA
*
1883024 TTTATTTTTTAAATATTAATAG
1 TTTA-TTTTTAAATATTAATAA
* * *
1883046 TTGATTATTTAAGTATTAATAT
1 TTTATT-TTTAAATATTAATAA
1883068 TTTATTT
1 TTTATTT
1883075 GTAATTTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 3 0.07
22 22 0.50
23 18 0.41
24 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTATTTTTAAATATTAATAA
Found at i:1883407 original size:16 final size:15
Alignment explanation
Indices: 1883371--1883411 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1883361 AAATTTCACT
* *
1883371 TAATAATTTAAAAAT
1 TAATATTTTAAAAAC
1883386 TAATATTTTAAAATAC
1 TAATATTTTAAAA-AC
1883402 TAATATTTTA
1 TAATATTTTA
1883412 TTTATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
TAATATTTTAAAAAC
Found at i:1883496 original size:21 final size:21
Alignment explanation
Indices: 1883456--1883510 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
1883446 TTAATATTTT
*
1883456 TTAATTTTTTAATTTAAAATA
1 TTAATTTTTAAATTTAAAATA
* *
1883477 TTAATTTTATAAATTTAAATTT
1 TTAATTTT-TAAATTTAAAATA
*
1883499 TTTATTTTTAAA
1 TTAATTTTTAAA
1883511 AATAAATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTAATTTTTAAATTTAAAATA
Found at i:1889740 original size:28 final size:26
Alignment explanation
Indices: 1889709--1889762 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 26
1889699 AGAGAGAGAG
*
1889709 AGAGAGAGAGAGAGAGAGGAAGTCTTT
1 AGAGAGAGAGAGAGAGAGAAAG-CTTT
1889736 NAGAGAGAGAGAGAGAGAGAAAGCTTT
1 -AGAGAGAGAGAGAGAGAGAAAGCTTT
1889763 TTCCTTTGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.43, C:0.04, G:0.39, T:0.13
Consensus pattern (26 bp):
AGAGAGAGAGAGAGAGAGAAAGCTTT
Found at i:1889746 original size:2 final size:2
Alignment explanation
Indices: 1889692--1889726 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1889682 GTGTGTGTGT
1889692 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1889727 GAAGTCTTTN
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1894867 original size:16 final size:16
Alignment explanation
Indices: 1894831--1894864 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1894821 GAAACCTTCG
*
1894831 AAACAAATCCAAAGAA
1 AAACAAATCAAAAGAA
1894847 AAACAAA-CAAAAGAA
1 AAACAAATCAAAAGAA
1894862 AAA
1 AAA
1894865 ACACCCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.76, C:0.15, G:0.06, T:0.03
Consensus pattern (16 bp):
AAACAAATCAAAAGAA
Found at i:1914969 original size:3 final size:3
Alignment explanation
Indices: 1914954--1914989 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
1914944 GTGATTGATT
1914954 TGA TGA T-A GTGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA -TGA TGA TGA TGA TGA TGA TGA TGA TGA
1914990 AGGTGTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 1 0.03
3 29 0.94
4 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:1922490 original size:23 final size:21
Alignment explanation
Indices: 1922449--1922492 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1922439 ATTGGCATGC
*
1922449 TATTTTAAAAAATATATAAAT
1 TATTTTAAAAAATAAATAAAT
1922470 TATTTTAAAAAATTAAAATAAAT
1 TATTTTAAAAAA-T-AAATAAAT
1922493 CTTCAATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
22 1 0.05
23 7 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TATTTTAAAAAATAAATAAAT
Found at i:1923056 original size:25 final size:25
Alignment explanation
Indices: 1923026--1923083 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
1923016 TTTCCGTCAA
1923026 GTTGCCAAAATCAAGCCTTGTAGTT
1 GTTGCCAAAATCAAGCCTTGTAGTT
1923051 GTTGCCAAAATCAAGCCTTGTAGTT
1 GTTGCCAAAATCAAGCCTTGTAGTT
1923076 GTTGCCAA
1 GTTGCCAA
1923084 GTTGAAACGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (25 bp):
GTTGCCAAAATCAAGCCTTGTAGTT
Found at i:1950948 original size:10 final size:11
Alignment explanation
Indices: 1950917--1950958 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
1950907 AAATAATGGC
1950917 ATAATATTTAA
1 ATAATATTTAA
*
1950928 ATAAAATTTAA
1 ATAATATTTAA
1950939 A-AATATTTAA
1 ATAATATTTAA
*
1950949 ATAATTTTTA
1 ATAATATTTA
1950959 TTTTTATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATAATATTTAA
Found at i:1951427 original size:16 final size:16
Alignment explanation
Indices: 1951406--1951436 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1951396 ATTTGTTAAA
1951406 ATTAAAAAAATAAAAT
1 ATTAAAAAAATAAAAT
*
1951422 ATTAAAGAAATAAAA
1 ATTAAAAAAATAAAA
1951437 AAGTTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
ATTAAAAAAATAAAAT
Found at i:1967300 original size:18 final size:18
Alignment explanation
Indices: 1967277--1967315 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
1967267 TGAGAGCGTC
1967277 AGGGTTAAGAGTCTCTCA
1 AGGGTTAAGAGTCTCTCA
1967295 AGGGTTAAGAGTCTCTCA
1 AGGGTTAAGAGTCTCTCA
1967313 AGG
1 AGG
1967316 CTGCAATCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (18 bp):
AGGGTTAAGAGTCTCTCA
Found at i:1968103 original size:17 final size:17
Alignment explanation
Indices: 1968070--1968113 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
1968060 AAAATAATAT
1968070 TAAAACTTTTAAATTTA
1 TAAAACTTTTAAATTTA
1968087 NTAAAACTTTT-AATTTA
1 -TAAAACTTTTAAATTTA
*
1968104 CAAATACTTT
1 TAAA-ACTTT
1968114 ACTAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 3 0.12
17 11 0.46
18 10 0.42
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAAACTTTTAAATTTA
Found at i:1968288 original size:25 final size:25
Alignment explanation
Indices: 1968241--1968294 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
1968231 ATGTCATATA
**
1968241 TTTTATTTTTATTTTTTGTTATAAT
1 TTTTATTTTTATTTTTTAATATAAT
1968266 CTTTT-TTTTTATTTTTTAATATAAT
1 -TTTTATTTTTATTTTTTAATATAAT
1968291 TTTT
1 TTTT
1968295 GATATTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (25 bp):
TTTTATTTTTATTTTTTAATATAAT
Found at i:1968391 original size:21 final size:21
Alignment explanation
Indices: 1968349--1968391 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1968339 AATTTTAATT
* *
1968349 TATTTTAATTTTTATATTACA
1 TATTTTAATTTTAATATAACA
1968370 TATTTT-ATTTTAATTATAACA
1 TATTTTAATTTTAA-TATAACA
1968391 T
1 T
1968392 TATAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTAATTTTAATATAACA
Found at i:1968561 original size:77 final size:77
Alignment explanation
Indices: 1968413--1968561 Score: 199
Period size: 77 Copynumber: 1.9 Consensus size: 77
1968403 TTTAACAATG
* * *
1968413 TAATAAAATTAAAAAGTAAAAATACTTTTAAAAATATTATAAAATACAATATAATGTGATTGCAT
1 TAATAAAATTAAAAAGTAAAAATACCTTTAAAAATATTATAAAATACAATATAATGTGATTACAG
1968478 TAATTTTGAAAA
66 TAATTTTGAAAA
* * * * * * *
1968490 TAATAAATTTGAAAGGTAAAAATACCTTTAAAAATATTATAGAATGCAATGTAATGTGATTATAG
1 TAATAAAATTAAAAAGTAAAAATACCTTTAAAAATATTATAAAATACAATATAATGTGATTACAG
*
1968555 TGATTTT
66 TAATTTT
1968562 AAACTGCAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
77 61 1.00
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.36
Consensus pattern (77 bp):
TAATAAAATTAAAAAGTAAAAATACCTTTAAAAATATTATAAAATACAATATAATGTGATTACAG
TAATTTTGAAAA
Found at i:1978440 original size:2 final size:2
Alignment explanation
Indices: 1978428--1978520 Score: 127
Period size: 2 Copynumber: 46.5 Consensus size: 2
1978418 CGAGTTATTT
* *
1978428 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TN TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1978470 GTA GT- TA TT TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 -TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1978512 TA TA TA TA T
1 TA TA TA TA T
1978521 TTGGGATAAT
Statistics
Matches: 82, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
1 2 0.02
2 76 0.93
3 4 0.05
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1981262 original size:14 final size:14
Alignment explanation
Indices: 1981243--1981271 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1981233 GTTTGGTAAA
1981243 TTTTTTTTATAAGT
1 TTTTTTTTATAAGT
1981257 TTTTTTTTATAAGT
1 TTTTTTTTATAAGT
1981271 T
1 T
1981272 ATAATTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (14 bp):
TTTTTTTTATAAGT
Found at i:1981427 original size:16 final size:16
Alignment explanation
Indices: 1981406--1981443 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
1981396 AGAGAAGGAA
1981406 AAGCTCCTATGTCCTT
1 AAGCTCCTATGTCCTT
*
1981422 AAGCTCCTGTGTCCTT
1 AAGCTCCTATGTCCTT
1981438 AAGCTC
1 AAGCTC
1981444 TTTTTTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.18, C:0.32, G:0.16, T:0.34
Consensus pattern (16 bp):
AAGCTCCTATGTCCTT
Found at i:1981903 original size:7 final size:7
Alignment explanation
Indices: 1981891--1981924 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
1981881 TGAAGGGAAA
*
1981891 ATTAATT
1 ATTAATG
1981898 ATTAATG
1 ATTAATG
1981905 ATTAATG
1 ATTAATG
1981912 ATTAATG
1 ATTAATG
1981919 ATTAAT
1 ATTAAT
1981925 TCGCATACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (7 bp):
ATTAATG
Found at i:1982820 original size:15 final size:15
Alignment explanation
Indices: 1982795--1982926 Score: 61
Period size: 14 Copynumber: 9.0 Consensus size: 15
1982785 CATTTCTTTA
1982795 ATATAATTTTTATATT
1 ATAT-ATTTTTATATT
*
1982811 ATATATTTTTATTTT
1 ATATATTTTTATATT
*
1982826 A-ATTTCTTTTATATAT
1 ATATAT-TTTTATAT-T
1982842 ATTATATAAATTTTA-ATT
1 A-TATAT---TTTTATATT
*
1982860 -TA-ATTTATTTTATT
1 ATATATTT-TTATATT
*
1982874 -T-TATTTTAAT-TT
1 ATATATTTTTATATT
*
1982886 CTA-ATTTTTATATT
1 ATATATTTTTATATT
*
1982900 ATATA-TTTTATTTT
1 ATATATTTTTATATT
1982914 A-ATATTTTT-TATT
1 ATATATTTTTATATT
1982927 TTAATTATAA
Statistics
Matches: 90, Mismatches: 12, Indels: 31
0.68 0.09 0.23
Matches are distributed among these distances:
12 4 0.04
13 18 0.20
14 28 0.31
15 21 0.23
16 8 0.09
18 4 0.04
19 2 0.02
20 5 0.06
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
ATATATTTTTATATT
Found at i:1982863 original size:35 final size:34
Alignment explanation
Indices: 1982805--1982892 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 34
1982795 ATATAATTTT
* * *
1982805 TATATTATATATTTTTATTTTAATTTCTTTTATA
1 TATATTATATAATTTTAATTTAATTTATTTTATA
1982839 TATATTATATAAATTTTAATTTAATTTATTTTAT-
1 TATATTATAT-AATTTTAATTTAATTTATTTTATA
*
1982873 TTTATT-T-TAATTTCTAATTT
1 TATATTATATAATTT-TAATTT
1982893 TTATATTATA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
31 5 0.10
32 7 0.15
33 1 0.02
34 15 0.31
35 20 0.42
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (34 bp):
TATATTATATAATTTTAATTTAATTTATTTTATA
Found at i:1982871 original size:10 final size:10
Alignment explanation
Indices: 1982818--1982885 Score: 55
Period size: 10 Copynumber: 6.3 Consensus size: 10
1982808 ATTATATATT
1982818 TTTATTTTAA
1 TTTATTTTAA
*
1982828 TTTCTTTTATA
1 TTTATTTTA-A
*
1982839 TATATTATATAAA
1 TTTATT-T-T-AA
*
1982852 TTTTAATTTAA
1 -TTTATTTTAA
*
1982863 TTTATTTTAT
1 TTTATTTTAA
1982873 TTTATTTTAA
1 TTTATTTTAA
1982883 TTT
1 TTT
1982886 CTAATTTTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
10 28 0.62
11 7 0.16
12 2 0.04
13 3 0.07
14 5 0.11
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTATTTTAA
Found at i:1982900 original size:55 final size:53
Alignment explanation
Indices: 1982817--1982929 Score: 151
Period size: 55 Copynumber: 2.1 Consensus size: 53
1982807 TATTATATAT
1982817 TTTTATTTTAATTTCTTTTATATATATTATATAAATTTTAATTTAAT-TTATTTTA
1 TTTTATTTTAATTTCTTTTATATATATTATAT--ATTTTAATTTAATATT-TTTTA
*
1982872 TTTTATTTTAATTTCTAATTT-T-TATATTATATATTTTATTTTAATATTTTTTA
1 TTTTATTTTAATTTCT--TTTATATATATTATATATTTTAATTTAATATTTTTTA
1982925 TTTTA
1 TTTTA
1982930 ATTATAACAT
Statistics
Matches: 54, Mismatches: 1, Indels: 8
0.86 0.02 0.13
Matches are distributed among these distances:
53 22 0.41
54 2 0.04
55 26 0.48
56 1 0.02
57 3 0.06
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (53 bp):
TTTTATTTTAATTTCTTTTATATATATTATATATTTTAATTTAATATTTTTTA
Found at i:1982918 original size:20 final size:19
Alignment explanation
Indices: 1982758--1982932 Score: 70
Period size: 20 Copynumber: 9.6 Consensus size: 19
1982748 TTTTCATTTC
*
1982758 TTATTATAATTTTATATATT
1 TTATTTTAA-TTTATATATT
* * * *
1982778 TTATTTTCATTTCTTTAATA
1 TTATTTTAATTTATAT-ATT
* *
1982798 TAATTTTTATATTATATATTT
1 TTATTTTAAT-TTATATA-TT
*
1982819 TTATTTTAATTTCT-T-TT
1 TTATTTTAATTTATATATT
* * *
1982836 ATA-TAT-ATTATATAAATT
1 TTATTTTAATT-TATATATT
* *
1982854 TTAATTTAATTTATTTTATT
1 TTATTTTAATTTA-TATATT
*
1982874 TTATTTTAATTTCTA-A-T
1 TTATTTTAATTTATATATT
*
1982891 TT-TTAT-A-TTATATATT
1 TTATTTTAATTTATATATT
1982907 TTATTTTAA--TAT-T-TT
1 TTATTTTAATTTATATATT
1982922 TTATTTTAATT
1 TTATTTTAATT
1982933 ATAACATTAC
Statistics
Matches: 113, Mismatches: 27, Indels: 33
0.65 0.16 0.19
Matches are distributed among these distances:
14 4 0.04
15 16 0.14
16 11 0.10
17 13 0.12
18 6 0.05
19 11 0.10
20 39 0.35
21 13 0.12
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTTTAATTTATATATT
Found at i:1982927 original size:15 final size:15
Alignment explanation
Indices: 1982890--1982931 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
1982880 TAATTTCTAA
*
1982890 TTTTTATATT-ATAT
1 TTTTTATTTTAATAT
*
1982904 ATTTTATTTTAATAT
1 TTTTTATTTTAATAT
1982919 TTTTTATTTTAAT
1 TTTTTATTTTAAT
1982932 TATAACATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTATTTTAATAT
Found at i:1985814 original size:26 final size:26
Alignment explanation
Indices: 1985774--1985849 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 26
1985764 AACATATGAG
1985774 TAAATAAAATAAAAATAAAAAAATAAA-
1 TAAA-AAAAT-AAAATAAAAAAATAAAT
* *
1985801 TAATAAAAATAAAATAATAATATAAAT
1 TAA-AAAAATAAAATAAAAAAATAAAT
* *
1985828 TAAAAGAAGAAAATAAAAAAAT
1 TAAAAAAATAAAATAAAAAAAT
1985850 TTATCTTCTA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
26 29 0.71
27 11 0.27
28 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (26 bp):
TAAAAAAATAAAATAAAAAAATAAAT
Found at i:1986618 original size:2 final size:2
Alignment explanation
Indices: 1986611--1986636 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1986601 TTTTAAAATT
1986611 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
1986637 ATACAGACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1986700 original size:45 final size:45
Alignment explanation
Indices: 1986612--1986710 Score: 173
Period size: 45 Copynumber: 2.2 Consensus size: 45
1986602 TTTAAAATTT
1986612 ATATATATATATATATATATATATAATACAGACATATGTATCACGA
1 ATATA-ATATATATATATATATATAATACAGACATATGTATCACGA
1986658 ATATAANTATATATATATATATA-AATACAGACATATGTATCACGA
1 ATATAA-TATATATATATATATATAATACAGACATATGTATCACGA
1986703 ATATAATA
1 ATATAATA
1986711 ATTTAATTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
44 2 0.04
45 29 0.56
46 21 0.40
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.35
Consensus pattern (45 bp):
ATATAATATATATATATATATATAATACAGACATATGTATCACGA
Found at i:1987231 original size:5 final size:5
Alignment explanation
Indices: 1987219--1987267 Score: 71
Period size: 5 Copynumber: 9.6 Consensus size: 5
1987209 TTTGGATAGA
* *
1987219 AAAAG AAAGG AAAAGG AAAAG AAACG AAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAA-G AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA
1987268 GGATAATGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
5 34 0.87
6 5 0.13
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:1988749 original size:21 final size:21
Alignment explanation
Indices: 1988723--1988767 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1988713 AAATATTTAT
1988723 ATTTTTAGTATGTTTA-ATTAA
1 ATTTTTA-TATGTTTATATTAA
* *
1988744 ATTTTTATATTTTTATTTTAA
1 ATTTTTATATGTTTATATTAA
1988765 ATT
1 ATT
1988768 AAATAAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (21 bp):
ATTTTTATATGTTTATATTAA
Found at i:1988811 original size:30 final size:30
Alignment explanation
Indices: 1988736--1988811 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
1988726 TTTAGTATGT
* *
1988736 TTAATTAAATTTTTATATTTTTATTTTAAA
1 TTAAATAAATTTTTATATTTATATTTTAAA
* * *
1988766 TTAAATAAGTATTTATATTTATATTTTGAA
1 TTAAATAAATTTTTATATTTATATTTTAAA
1988796 TTAAATAAATTTTTAT
1 TTAAATAAATTTTTAT
1988812 GATTAATTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (30 bp):
TTAAATAAATTTTTATATTTATATTTTAAA
Found at i:1991332 original size:57 final size:57
Alignment explanation
Indices: 1991268--1991378 Score: 161
Period size: 57 Copynumber: 1.9 Consensus size: 57
1991258 TTTGATTGAC
* *
1991268 CAAATTTGAATATTAT-TTCTAAATTATCTTAATTTGTTTAGAAATAAATTGGATAAT
1 CAAATTTGAATATTATCCT-TAAATTATCTTAATTTATTTAGAAATAAATTGGATAAT
* * *
1991325 CAAATTTGGATTTTATCCTTAAATTATCTTAATTTATTTAGACATAAATTGGAT
1 CAAATTTGAATATTATCCTTAAATTATCTTAATTTATTTAGAAATAAATTGGAT
1991379 GGTAAATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
57 47 0.98
58 1 0.02
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (57 bp):
CAAATTTGAATATTATCCTTAAATTATCTTAATTTATTTAGAAATAAATTGGATAAT
Found at i:1998341 original size:19 final size:18
Alignment explanation
Indices: 1998300--1998357 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
1998290 GGATTCGCTT
*
1998300 AAAAA-AAATAGATC-GAA
1 AAAAAGAAA-AGATCAGAG
1998317 AAAAAGATAAAGGAT-AGAG
1 AAAAAGA-AAA-GATCAGAG
1998336 AAAAAGAAAAGATCAGAG
1 AAAAAGAAAAGATCAGAG
1998354 AAAA
1 AAAA
1998358 TGGATCTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
17 8 0.23
18 13 0.37
19 14 0.40
ACGTcount: A:0.69, C:0.03, G:0.19, T:0.09
Consensus pattern (18 bp):
AAAAAGAAAAGATCAGAG
Found at i:1998934 original size:27 final size:27
Alignment explanation
Indices: 1998878--1998941 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
1998868 AAAATTAAAA
*
1998878 TTAATTTAA-TTTTTATTTTTTATTACT
1 TTAATTAAATTTTTTATTTTTTATTA-T
1998905 TTAATTAAATTTTTATATTTTTTATT-T
1 TTAATTAAATTTTT-TATTTTTTATTAT
*
1998932 TTAATCAAAT
1 TTAATTAAAT
1998942 AAGTATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 18 0.55
28 4 0.12
29 11 0.33
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (27 bp):
TTAATTAAATTTTTTATTTTTTATTAT
Found at i:2003038 original size:22 final size:22
Alignment explanation
Indices: 2003003--2003054 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
2002993 TTTAAAAAAA
* *
2003003 TTAAAATATATATTTTTATCAAT
1 TTAAAAAATATATTATTAT-AAT
*
2003026 TTAAAAAAT-TATTATTATATT
1 TTAAAAAATATATTATTATAAT
2003047 TTAAAAAA
1 TTAAAAAA
2003055 ATTAAAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 10 0.38
22 8 0.31
23 8 0.31
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAAAAAATATATTATTATAAT
Found at i:2012527 original size:2 final size:2
Alignment explanation
Indices: 2012520--2012558 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
2012510 GATTTTATGT
*
2012520 TA TA TA TA TA TA TA AA 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 TA TA TA TA TA TA T
2012559 TCTTTAGATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2014183 original size:13 final size:13
Alignment explanation
Indices: 2014165--2014217 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
2014155 AAAGGTAAAA
2014165 TTTTTATTTAATT
1 TTTTTATTTAATT
*
2014178 TTTTTATTT-ATA
1 TTTTTATTTAATT
* *
2014190 TTATTATTTTATT
1 TTTTTATTTAATT
*
2014203 TATTTATTTATATT
1 TTTTTATTTA-ATT
2014217 T
1 T
2014218 CAATTATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
12 10 0.31
13 18 0.56
14 4 0.12
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTATTTAATT
Found at i:2014187 original size:4 final size:4
Alignment explanation
Indices: 2014167--2014213 Score: 51
Period size: 4 Copynumber: 11.2 Consensus size: 4
2014157 AGGTAAAATT
*
2014167 TTTA TTTAA TTTT TTTA TTTA TATTA -TTA TTTTA TTTA TTTA TTTA T
1 TTTA TTT-A TTTA TTTA TTTA T-TTA TTTA -TTTA TTTA TTTA TTTA T
2014214 ATTTCAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 3 0.08
4 24 0.65
5 10 0.27
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:2014198 original size:25 final size:25
Alignment explanation
Indices: 2014168--2014216 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
2014158 GGTAAAATTT
*
2014168 TTATTTAATTTTTTTATTTATATTA
1 TTATTTAATTTATTTATTTATATTA
*
2014193 TTATTTTATTTATTTATTTATATT
1 TTATTTAATTTATTTATTTATATT
2014217 TCAATTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (25 bp):
TTATTTAATTTATTTATTTATATTA
Found at i:2014227 original size:25 final size:25
Alignment explanation
Indices: 2014175--2014233 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
2014165 TTTTTATTTA
* * *
2014175 ATTTTTTTATTTATATTATTATTTT
1 ATTTATTTATTTATATTATAATTAT
2014200 ATTTATTTATTTATATT-TCAATTAT
1 ATTTATTTATTTATATTAT-AATTAT
2014225 ATTCTATTT
1 ATT-TATTT
2014234 GCTCATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 23 0.79
26 5 0.17
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (25 bp):
ATTTATTTATTTATATTATAATTAT
Found at i:2014379 original size:15 final size:16
Alignment explanation
Indices: 2014359--2014393 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2014349 CTGTTATGTG
*
2014359 AATTTT-ATTTTTAAT
1 AATTTTAATTTTTAAA
2014374 AATTTTAATTTTTAAA
1 AATTTTAATTTTTAAA
2014390 AATT
1 AATT
2014394 AAAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AATTTTAATTTTTAAA
Found at i:2029788 original size:11 final size:12
Alignment explanation
Indices: 2029759--2029791 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
2029749 TATTATTATT
2029759 ATATATACTTTTA
1 ATATATA-TTTTA
2029772 ATATATATTTTA
1 ATATATATTTTA
2029784 A-ATATATT
1 ATATATATT
2029792 AAAATATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.35
12 6 0.30
13 7 0.35
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (12 bp):
ATATATATTTTA
Found at i:2034205 original size:30 final size:29
Alignment explanation
Indices: 2034171--2034285 Score: 122
Period size: 30 Copynumber: 3.8 Consensus size: 29
2034161 TTTAAATAAG
* *
2034171 TTAAAATAAAAGTATAATAATTTATTTTAT
1 TTAAAATAAAA-TATAAAAATTTATTTGAT
2034201 TTAAAATATAAATATAAAAATTTATTTGAT
1 TTAAAATA-AAATATAAAAATTTATTTGAT
* *
2034231 TTAAAATAAAATTATAAAAGTTTAATTGAAT
1 TTAAAATAAAA-TATAAAAATTTATTTG-AT
* * *
2034262 ATAATAAAAAAATAAAAAAATTTA
1 TTAA-AATAAAATATAAAAATTTA
2034286 AAAAAATTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
29 3 0.04
30 46 0.63
31 18 0.25
32 6 0.08
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (29 bp):
TTAAAATAAAATATAAAAATTTATTTGAT
Found at i:2034404 original size:22 final size:21
Alignment explanation
Indices: 2034364--2034408 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
2034354 TTTTTAAAAT
2034364 AAATTTTCAAATATATTATTCA
1 AAATTTTCAAATATATTA-TCA
*
2034386 AAATTTTTAAATGAT-TTATCA
1 AAATTTTCAAAT-ATATTATCA
2034407 AA
1 AA
2034409 CAAATCTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 14 0.67
23 2 0.10
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (21 bp):
AAATTTTCAAATATATTATCA
Found at i:2036093 original size:33 final size:33
Alignment explanation
Indices: 2036051--2036118 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
2036041 TAAAGATAAC
*
2036051 TTATTCTTATAACA-TGGTTCAACTTGTAGCGTT
1 TTATTCTTAT-ACATTGGTTCAACTTGCAGCGTT
2036084 TTATTCTTATACATTGGTTCAACTTGCAGCGTT
1 TTATTCTTATACATTGGTTCAACTTGCAGCGTT
2036117 TT
1 TT
2036119 TGGGTTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.22, C:0.16, G:0.15, T:0.47
Consensus pattern (33 bp):
TTATTCTTATACATTGGTTCAACTTGCAGCGTT
Found at i:2036812 original size:34 final size:34
Alignment explanation
Indices: 2036746--2036815 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
2036736 AATTAATTAA
* *
2036746 AATGTCAGTTATTGTTTCATATAGTAGCGGACCC
1 AATGTCAGTTATTATTTCATACAGTAGCGGACCC
* * *
2036780 AATGTCAGTTATTATTTCATGCAGTGGTGGACCC
1 AATGTCAGTTATTATTTCATACAGTAGCGGACCC
2036814 AA
1 AA
2036816 AATTTTATGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (34 bp):
AATGTCAGTTATTATTTCATACAGTAGCGGACCC
Found at i:2036829 original size:18 final size:18
Alignment explanation
Indices: 2036806--2036858 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
2036796 TCATGCAGTG
2036806 GTGGACCCAAAATTTTAT
1 GTGGACCCAAAATTTTAT
* *
2036824 GTGGACCCAAGATTTTGT
1 GTGGACCCAAAATTTTAT
* *
2036842 GCGGACCCATAATTTTA
1 GTGGACCCAAAATTTTA
2036859 CATGGACTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (18 bp):
GTGGACCCAAAATTTTAT
Found at i:2036865 original size:18 final size:18
Alignment explanation
Indices: 2036807--2036880 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 18
2036797 CATGCAGTGG
**
2036807 TGGACCCAAAATTTTATG
1 TGGACCCAAAATTTTACA
* ***
2036825 TGGACCCAAGATTTTGTG
1 TGGACCCAAAATTTTACA
* *
2036843 CGGACCCATAATTTTACA
1 TGGACCCAAAATTTTACA
**
2036861 TGGACTTAAAATTTTACA
1 TGGACCCAAAATTTTACA
2036879 TG
1 TG
2036881 AAAAGTAGTT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (18 bp):
TGGACCCAAAATTTTACA
Found at i:2038393 original size:13 final size:13
Alignment explanation
Indices: 2038377--2038401 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2038367 AGTAAATTTA
2038377 TTTTTATAAGTTT
1 TTTTTATAAGTTT
2038390 TTTTTATAAGTT
1 TTTTTATAAGTT
2038402 ATAATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (13 bp):
TTTTTATAAGTTT
Found at i:2038421 original size:18 final size:20
Alignment explanation
Indices: 2038380--2038421 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
2038370 AAATTTATTT
* *
2038380 TTATAAGTTTTTTTTATAAG
1 TTATAAGTTTTTGTTATAAA
2038400 TTATAA-TTTTTGTTA-AAA
1 TTATAAGTTTTTGTTATAAA
2038418 TTAT
1 TTAT
2038422 CATAGAAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 8 0.40
20 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TTATAAGTTTTTGTTATAAA
Found at i:2038563 original size:25 final size:25
Alignment explanation
Indices: 2038535--2038594 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
2038525 AAGAGAAGAA
*
2038535 AAAGCTCTTTATAGGAGCTTTTCCT
1 AAAGCTCTTTATAAGAGCTTTTCCT
* *
2038560 AAAGCTCCTCATAAGAGCTTTTCCT
1 AAAGCTCTTTATAAGAGCTTTTCCT
2038585 AAAGCTCTTT
1 AAAGCTCTTT
2038595 TTTTTTTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (25 bp):
AAAGCTCTTTATAAGAGCTTTTCCT
Found at i:2039320 original size:164 final size:162
Alignment explanation
Indices: 2038808--2039874 Score: 870
Period size: 163 Copynumber: 6.8 Consensus size: 162
2038798 ATGAAATATA
* * * *
2038808 CAAATATGAATTTAATTAAAATTAAATTATTCATATCTTATTGGAATTTCATCAAAAAATTATAC
1 CAAATATAAACTTAACTAAAATTAAATTATTCATATCTTATTGGAACTTCAT-AAAAAATTATAC
* * *
2038873 TTAATATATGGATCATATCCAAGCTCGATTATTAATACATGTGAAACCTTGAACTCGACTATTTA
65 CTAATATATGAATCATATCCAAGCTCGATTATTAATACATGTAAAACCTTGAACTCGACTATTTA
2038938 ATAATATAAGATATCAGTAAATTTTGAGGTATC
130 ATAATATAAGATATCAGTAAATTTTGAGGTATC
*
2038971 CAAATATAAACTTAACTAAAATTAAATTATTCATATCTTATTGGAATTTCATCAAAAAATTATAC
1 CAAATATAAACTTAACTAAAATTAAATTATTCATATCTTATTGGAACTTCAT-AAAAAATTATAC
* * *
2039036 TTAATATATGGATCATATCCAAGCTCGATTATTAATACATGTGAAACCTTGAACTCGACTATTTA
65 CTAATATATGAATCATATCCAAGCTCGATTATTAATACATGTAAAACCTTGAACTCGACTATTTA
2039101 ATAATATAAGATATCAGTAAATTTTGAGGTATC
130 ATAATATAAGATATCAGTAAATTTTGAGGTATC
* *
2039134 CAAATATAAACTTAACTAAAATTAAATTATTCATATCTTATTGGAACTTGAGT-AAAATTTAAAT
1 CAAATATAAACTTAACTAAAATTAAATTATTCATATCTTATTGGAACTTCA-TAAAAAATT--AT
* * * *
2039198 ACCTAATACATGAATCATATCCATGTTCGATTATTAATACATGTAAAATCTTGAA-TCTGACTAT
63 ACCTAATATATGAATCATATCCAAGCTCGATTATTAATACATGTAAAACCTTGAACTC-GACTAT
* * * ** * *
2039262 TTAATGATATCAGGTATTTGTAAATTTTGAGATATT
127 TTAATAATATAAGATATCAGTAAATTTTGAGGTATC
* * * * * * * * * *
2039298 CGAATACAAACCTAATTAAAATTAAATTGTTAATATTTTATTGGAACTTCACTAAAATATAATGC
1 CAAATATAAACTTAACTAAAATTAAATTATTCATATCTTATTGGAACTTCA-TAAAAAATTATAC
* * * *
2039363 CTAATATATGAATCATATCCAAACTTGATTACTT-ATACATGTAAAACCTTAAACTC-A--A-CT
65 CTAATATATGAATCATATCCAAGCTCGATTA-TTAATACATGTAAAACCTTGAACTCGACTATTT
*
2039423 -AT--T-TAACA-AT--GT--A-----AGGTATC
129 AATAATATAAGATATCAGTAAATTTTGAGGTATC
* * *
2039443 CAAATATGAACTTAATTAAAATTAAATTATTCATATCTTATTGGAACTTCATTAAAAATTAATAC
1 CAAATATAAACTTAACTAAAATTAAATTATTCATATCTTATTGGAACTTCATAAAAAATT-ATAC
* ** * * *** *
2039508 CTAATATATGAATCTTATTAAAGCTTGACTGCCAATGCATGTAAAACCTTGAA-TC--C-A---A
65 CTAATATATGAATCATATCCAAGCTCGATTATTAATACATGTAAAACCTTGAACTCGACTATTTA
* * *
2039566 CT-ATATAATA-AT--GT--A-----AGGTATT
130 ATAATATAAGATATCAGTAAATTTTGAGGTATC
* * * * * *
2039588 CAAATATGAACTTAATTAAAATTAAATTATTCATATCTTA-TCGAAGCTTGATTAAAAATTAATG
1 CAAATATAAACTTAACTAAAATTAAATTATTCATATCTTATTGGAA-CTTCATAAAAAATT-ATA
* * * ** **
2039652 GCTAATATATGAAACACATTAAAGCTC-------AATACATGTAAAATTTTGAAC-CTGACTATT
64 CCTAATATATGAATCATATCCAAGCTCGATTATTAATACATGTAAAACCTTGAACTC-GACTATT
* * * *
2039709 TAATAATATAAAATAGTTA-TAAATTTTGAGATATA
128 TAATAATATAAGATA-TCAGTAAATTTTGAGGTATC
* * * * * * *
2039744 CGAATATGAACATAATTAAAATTAAATTATTCATATCTT-TAGGAACTTGACT-AAAACTTAATA
1 CAAATATAAACTTAACTAAAATTAAATTATTCATATCTTATTGGAACTTCA-TAAAAAATT-ATA
* * * * * *
2039807 CCTAATATATGAACCATATCTAAACTCGAATATTAATACATGTAAAACTTTGAAC-CTGATTATT
64 CCTAATATATGAATCATATCCAAGCTCGATTATTAATACATGTAAAACCTTGAACTC-GACTATT
2039871 TAAT
128 TAAT
2039875 TGTAAATAAT
Statistics
Matches: 762, Mismatches: 99, Indels: 87
0.80 0.10 0.09
Matches are distributed among these distances:
138 18 0.02
141 1 0.00
142 1 0.00
143 1 0.00
144 14 0.02
145 189 0.25
146 7 0.01
147 1 0.00
148 1 0.00
149 1 0.00
150 1 0.00
151 1 0.00
152 2 0.00
154 2 0.00
155 37 0.05
156 47 0.06
158 2 0.00
159 1 0.00
160 1 0.00
162 39 0.05
163 257 0.34
164 134 0.18
165 4 0.01
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (162 bp):
CAAATATAAACTTAACTAAAATTAAATTATTCATATCTTATTGGAACTTCATAAAAAATTATACC
TAATATATGAATCATATCCAAGCTCGATTATTAATACATGTAAAACCTTGAACTCGACTATTTAA
TAATATAAGATATCAGTAAATTTTGAGGTATC
Found at i:2039403 original size:327 final size:325
Alignment explanation
Indices: 2038808--2039521 Score: 815
Period size: 327 Copynumber: 2.2 Consensus size: 325
2038798 ATGAAATATA
* * * *
2038808 CAAATATGAATTTAATTAAAATTAAATTATTCATATCTTATTGGAATTTCATCAAAAAATTATAC
1 CAAATATAAACTTAACTAAAATTAAATTATTCATATCTTATTGGAACTTCAT-AAAAAATTATAC
* * * *
2038873 TTAATATATGGATCATATCCAAGCTCGATTATTAATACATGTGAAACCTTGAACTCGACTATTTA
65 CTAATACATGAATCATATCCAAGCTCGATTATTAATACATGTAAAACCTTGAACTCGACTATTTA
* * * *
2038938 ATAATATAAGATATCAGTAAATTTTGAGGTATCCAAATATAAACTTAACTAAAATTAAATTATTC
130 ATAATATAAGATATCAGTAAATTTTGAGATATCCAAATACAAACCTAACTAAAATTAAATTATTA
* * * * *
2039003 ATATCTTATTGGAATTTCATCAAAAAATTATACTTAATATATGGATCATATCCAAGCTCGATTAT
195 ATATCTTATTGGAACTTCATCAAAAAATAATACCTAATATATGAATCATATCCAAACTCGATTAT
* * * *
2039068 TAATACATGTGAAACCTTGAACTCGACTATTTAATAATATAAGATATCAGTAAATTTTGAGGTAT
260 TAATACATGTAAAACCTTAAACTCAACTATTTAACAATATAAGATATCAGTAAATTTTGAGGTAT
2039133 C
325 C
* *
2039134 CAAATATAAACTTAACTAAAATTAAATTATTCATATCTTATTGGAACTTGAGT-AAAATTTAAAT
1 CAAATATAAACTTAACTAAAATTAAATTATTCATATCTTATTGGAACTTCA-TAAAAAATT--AT
* * *
2039198 ACCTAATACATGAATCATATCCATGTTCGATTATTAATACATGTAAAATCTTGAA-TCTGACTAT
63 ACCTAATACATGAATCATATCCAAGCTCGATTATTAATACATGTAAAACCTTGAACTC-GACTAT
* * * ** * * * *
2039262 TTAATGATATCAGGTATTTGTAAATTTTGAGATATTCGAATACAAACCTAATTAAAATTAAATTG
127 TTAATAATATAAGATATCAGTAAATTTTGAGATATCCAAATACAAACCTAACTAAAATTAAATTA
* * * *
2039327 TTAATATTTTATTGGAACTTCA-CTAAAATATAATGCCTAATATATGAATCATATCCAAACTTGA
192 TTAATATCTTATTGGAACTTCATC-AAAAAATAATACCTAATATATGAATCATATCCAAACTCGA
2039391 TTACTT-ATACATGTAAAACCTTAAACTCAACTATTTAAC--------A-AT--GT--A-----A
256 TTA-TTAATACATGTAAAACCTTAAACTCAACTATTTAACAATATAAGATATCAGTAAATTTTGA
2039437 GGTATC
320 GGTATC
* * *
2039443 CAAATATGAACTTAATTAAAATTAAATTATTCATATCTTATTGGAACTTCATTAAAAATTAATAC
1 CAAATATAAACTTAACTAAAATTAAATTATTCATATCTTATTGGAACTTCATAAAAAATT-ATAC
*
2039508 CTAATATATGAATC
65 CTAATACATGAATC
2039522 TTATTAAAGC
Statistics
Matches: 337, Mismatches: 44, Indels: 32
0.82 0.11 0.08
Matches are distributed among these distances:
308 19 0.06
309 61 0.18
314 1 0.00
316 2 0.01
318 2 0.01
319 1 0.00
325 6 0.02
326 49 0.15
327 194 0.58
328 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (325 bp):
CAAATATAAACTTAACTAAAATTAAATTATTCATATCTTATTGGAACTTCATAAAAAATTATACC
TAATACATGAATCATATCCAAGCTCGATTATTAATACATGTAAAACCTTGAACTCGACTATTTAA
TAATATAAGATATCAGTAAATTTTGAGATATCCAAATACAAACCTAACTAAAATTAAATTATTAA
TATCTTATTGGAACTTCATCAAAAAATAATACCTAATATATGAATCATATCCAAACTCGATTATT
AATACATGTAAAACCTTAAACTCAACTATTTAACAATATAAGATATCAGTAAATTTTGAGGTATC
Found at i:2039579 original size:145 final size:145
Alignment explanation
Indices: 2039310--2039664 Score: 475
Period size: 145 Copynumber: 2.4 Consensus size: 145
2039300 AATACAAACC
* * * *
2039310 TAATTAAAATTAAATTGTTAATATTTTATTGGAACTTCACT-AAAATATAATGCCTAATATATGA
1 TAATTAAAATTAAATTATTCATATCTTATTGGAACTTCATTAAAAAT-TAATGCCTAATATATGA
* ** *
2039374 ATCATATCCAAACTTGATTACTTATACATGTAAAACCTTAAACTCAACTATTTAACAATGTAAGG
65 ATCATATCCAAACTTGACTACCAATACATGTAAAACCTTAAACTCAACTATATAACAATGTAAGG
2039439 TATCCAAATATGAACT
130 TATCCAAATATGAACT
*
2039455 TAATTAAAATTAAATTATTCATATCTTATTGGAACTTCATTAAAAATTAATACCTAATATATGAA
1 TAATTAAAATTAAATTATTCATATCTTATTGGAACTTCATTAAAAATTAATGCCTAATATATGAA
* * * * * *
2039520 TCTTAT-TAAAGCTTGACTGCCAATGCATGTAAAACCTTGAA-TCCAACTATATAATAATGTAAG
66 TCATATCCAAA-CTTGACTACCAATACATGTAAAACCTTAAACT-CAACTATATAACAATGTAAG
*
2039583 GTATTCAAATATGAACT
129 GTATCCAAATATGAACT
* * *
2039600 TAATTAAAATTAAATTATTCATATCTTA-TCGAAGCTTGATTAAAAATTAATGGCTAATATATGA
1 TAATTAAAATTAAATTATTCATATCTTATTGGAA-CTTCATTAAAAATTAATGCCTAATATATGA
2039664 A
65 A
2039665 ACACATTAAA
Statistics
Matches: 186, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
144 8 0.04
145 173 0.93
146 5 0.03
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.36
Consensus pattern (145 bp):
TAATTAAAATTAAATTATTCATATCTTATTGGAACTTCATTAAAAATTAATGCCTAATATATGAA
TCATATCCAAACTTGACTACCAATACATGTAAAACCTTAAACTCAACTATATAACAATGTAAGGT
ATCCAAATATGAACT
Found at i:2043320 original size:109 final size:109
Alignment explanation
Indices: 2043108--2043325 Score: 375
Period size: 109 Copynumber: 2.0 Consensus size: 109
2043098 TCTCGAAGGT
* * *
2043108 AAAGCGATCTCAAGTTTTTTGGTGACTTCTATTTCTATTACCTGCTTGTTTCAACTTTTTAAAAT
1 AAAGCGATCTCAAGTTTTTTGGTGACTTCTATTACTATTACCTGCGTGTTTCAACTTTTGAAAAT
2043173 TTTTCCTTCAGTATCCTTATCTGATGACAGGTTTATTGAATCCA
66 TTTTCCTTCAGTATCCTTATCTGATGACAGGTTTATTGAATCCA
*
2043217 AAAGCGATCTTAAGTTTTTTGGTGACTTCTATTACTATTACCTGCGTGTTTCAACTTTTGAAAAT
1 AAAGCGATCTCAAGTTTTTTGGTGACTTCTATTACTATTACCTGCGTGTTTCAACTTTTGAAAAT
*
2043282 TTTTTCTTCA-TATCCTTATCTGATGACAGGTTTCATTGAATCCA
66 TTTTCCTTCAGTATCCTTATCTGATGACAGGTTT-ATTGAATCCA
2043326 TTTTCTTGGG
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
108 23 0.22
109 80 0.78
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.44
Consensus pattern (109 bp):
AAAGCGATCTCAAGTTTTTTGGTGACTTCTATTACTATTACCTGCGTGTTTCAACTTTTGAAAAT
TTTTCCTTCAGTATCCTTATCTGATGACAGGTTTATTGAATCCA
Found at i:2053436 original size:30 final size:30
Alignment explanation
Indices: 2053368--2053471 Score: 120
Period size: 30 Copynumber: 3.5 Consensus size: 30
2053358 TAATGTATTC
* * *
2053368 AAATAAGTTTTTATATTTTTATTAT-ATTT
1 AAATAAATTTTTATATTTTTATTTTAAATT
* *
2053397 AATTAAATTTTTGTATTTTTATTTTAAATT
1 AAATAAATTTTTATATTTTTATTTTAAATT
* *
2053427 AAATAAATTTTTATATTTTTATTTTATATC
1 AAATAAATTTTTATATTTTTATTTTAAATT
* *
2053457 AAATAAGTCTTTATA
1 AAATAAATTTTTATA
2053472 ATTAATAGTT
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
29 21 0.33
30 42 0.67
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.59
Consensus pattern (30 bp):
AAATAAATTTTTATATTTTTATTTTAAATT
Found at i:2062863 original size:18 final size:18
Alignment explanation
Indices: 2062823--2062869 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
2062813 TAGTTTATAA
2062823 ATTTTAATATATTTATATT
1 ATTTTAAT-TATTTATATT
2062842 -TTTTAATTA-TTATAATT
1 ATTTTAATTATTTAT-ATT
*
2062859 ATTTTAGTTAT
1 ATTTTAATTAT
2062870 GATACTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 4 0.17
17 5 0.21
18 15 0.62
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
ATTTTAATTATTTATATT
Found at i:2067186 original size:20 final size:20
Alignment explanation
Indices: 2067149--2067186 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2067139 CAACGAATAC
*
2067149 AAATTTGAGTAATAATTTCA
1 AAATTTGAGTAAAAATTTCA
2067169 AAATTTGA-TAAAATATTT
1 AAATTTGAGTAAAA-ATTT
2067187 ATAGAGTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (20 bp):
AAATTTGAGTAAAAATTTCA
Found at i:2068687 original size:81 final size:81
Alignment explanation
Indices: 2068575--2068761 Score: 198
Period size: 81 Copynumber: 2.3 Consensus size: 81
2068565 CCACACTTCT
** * * *
2068575 ATTGCCAATTGCAGCTTGAAAAATGTAGTGCTATAACTGT-TAGG-CATGAAACAAACATGATGA
1 ATTGCCAATACCAGCATAAAAAAGGTAGTGCTATAA-T-TATAGGACATGAAACAAACATGATGA
* * *
2068638 CACATCAGACACGCCTCC
64 CACAGCAGACACACCTAC
* * * *
2068656 ATTGCCAATACCAGCATAAAAAAGGTTGTGCTATAATTATCGGATATGAAACAAACATGATGGCA
1 ATTGCCAATACCAGCATAAAAAAGGTAGTGCTATAATTATAGGACATGAAACAAACATGATGACA
* *
2068721 TAGCAGGCACACCTAC
66 CAGCAGACACACCTAC
*
2068737 ATTGGCAATACCAGCATGAAAAAAG
1 ATTGCCAATACCAGCAT-AAAAAAG
2068762 TTCAATTACC
Statistics
Matches: 88, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
79 1 0.01
80 4 0.05
81 76 0.86
82 7 0.08
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (81 bp):
ATTGCCAATACCAGCATAAAAAAGGTAGTGCTATAATTATAGGACATGAAACAAACATGATGACA
CAGCAGACACACCTAC
Found at i:2076691 original size:30 final size:30
Alignment explanation
Indices: 2076657--2076721 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
2076647 GATAATTAGT
* * *
2076657 TATAAAAATTTATTTGACTTAGAATAAATA
1 TATAAAAACTTATTTGACTTAAAATAAAAA
2076687 TATAAAAACTTATTTGACTTAAAATAAAAA
1 TATAAAAACTTATTTGACTTAAAATAAAAA
2076717 TATAA
1 TATAA
2076722 GAGTTTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (30 bp):
TATAAAAACTTATTTGACTTAAAATAAAAA
Found at i:2078765 original size:5 final size:5
Alignment explanation
Indices: 2078757--2078805 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
2078747 ATGATTATAT
* *
2078757 TATTA TATTA TATTA -A-TA TATTA TATTA TAATAA TATTA TAATA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA T-ATTA TATTA TATTA TATTA
2078806 ATATATCTCG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 29 0.78
6 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (5 bp):
TATTA
Found at i:2078766 original size:13 final size:13
Alignment explanation
Indices: 2078750--2078785 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
2078740 ATATCGTATG
2078750 ATTATATTATTAT
1 ATTATATTATTAT
*
2078763 ATTATATTAATAT
1 ATTATATTATTAT
2078776 ATTATATTAT
1 ATTATATTAT
2078786 AATAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTATATTATTAT
Found at i:2078807 original size:8 final size:8
Alignment explanation
Indices: 2078765--2078811 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
2078755 ATTATTATAT
2078765 TATATTAA
1 TATATTAA
2078773 TATATTATA
1 TATATTA-A
*
2078782 TTATAATAA
1 -TATATTAA
2078791 TAT-TATAA
1 TATAT-TAA
2078799 TATATTAA
1 TATATTAA
2078807 TATAT
1 TATAT
2078812 CTCGTAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
8 24 0.73
9 3 0.09
10 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
TATATTAA
Found at i:2078908 original size:23 final size:21
Alignment explanation
Indices: 2078882--2078934 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
2078872 AAAAATTTAT
2078882 TTAATTTAAAATAAAAATAAAAA
1 TTAATTTAAAAT-AAAA-AAAAA
* *
2078905 TTAATTAAAAATAATAAAAAA
1 TTAATTTAAAATAAAAAAAAA
2078926 TT-ATTTAAA
1 TTAATTTAAA
2078935 TTTTGTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.22
21 7 0.26
22 3 0.11
23 11 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TTAATTTAAAATAAAAAAAAA
Found at i:2085077 original size:228 final size:235
Alignment explanation
Indices: 2084675--2085353 Score: 953
Period size: 241 Copynumber: 2.9 Consensus size: 235
2084665 TTTTATTTAA
*
2084675 ATCTCTTGTTATCTATTCTAATTATACTAGACCATTAGAAGTAAAGTTGTTTTATGATTAGGGAA
1 ATCTCTTGTTATCTATTCTAATTATACTAGACCATTAAAAGTAAAGTTGTTTTATGATTAGGGAA
* *
2084740 AACTTATTATAAATAGGACCTAGGGCTTTAGAAAAAAAATAGTTAATTGCCTCAGTAGTCTTTAC
66 AACTTATTATAAATAGGACCTAGGGCTTTAGAAAAAAAATAGTCAATTGCCCCAGTAGTCTTTAC
* *
2084805 ATTCAAGCATTCTAACATTCATAGGTTATTTTGCTTAGAATCTTAGTTATTTGTATCTCTTGGGA
131 ATTCAAGCATTCTAACATTCATAGGTTATTTTGCTTAAAATCTTAGATATTTGTATCTCTTGGGA
*
2084870 GTAATATAATTATTTAGGCTAGT-T-G-TA-GA-ATA-TT
196 GTAATACAATTATTTAGGCTAGTATAGATATGATATATTT
* * *
2084904 -TGT-TTGTTATCTATTCTAATTATACTAGACTATTAAAAGTAAAGATGTTTTATGATTAGGGAA
1 ATCTCTTGTTATCTATTCTAATTATACTAGACCATTAAAAGTAAAGTTGTTTTATGATTAGGGAA
* * *
2084967 AACCTATTAGAAATAGGACCTTAGGGCTTTAGAAAAAAAATAATCAATTGCCCCAGTAGTCTTTA
66 AACTTATTATAAATAGGACC-TAGGGCTTTAGAAAAAAAATAGTCAATTGCCCCAGTAGTCTTTA
* * *
2085032 CATTCAAGCATTTTAGCATTCATAGGTTATTTTGCTTAAAATCTTAGCTATTTGTATCTCTTGGG
130 CATTCAAGCATTCTAACATTCATAGGTTATTTTGCTTAAAATCTTAGATATTTGTATCTCTTGGG
* * * *
2085097 AGTAATACAATTATATAGGTTAGTCATAGAATATTTATTTATTT
195 AGTAATACAATTATTTAGGCTAGT-ATAG-ATA-TGATATATTT
* * *
2085141 AAATCTCTTGTTATCTATTCTAATTATACTAAACCATTAGAAA-TAGAGTTGTTTTATGATTAAG
1 --ATCTCTTGTTATCTATTCTAATTATACTAGACCATTA-AAAGTAAAGTTGTTTTATGATTAGG
* * * *
2085205 AAAAACTTATTATAAATAGGACCCTAAGGTTTTAGAAAAAAAATAGTCAATTGCCCCAATAGTCT
63 GAAAACTTATTATAAATAGGA-CCTAGGGCTTTAGAAAAAAAATAGTCAATTGCCCCAGTAGTCT
* * * *
2085270 TTATATTCAAGCATTCTAACATTCGTAGGTTATTTTGCTTAAAATTTTAAATATTTGTATCTCTT
127 TTACATTCAAGCATTCTAACATTCATAGGTTATTTTGCTTAAAATCTTAGATATTTGTATCTCTT
2085335 GGGAGTAATACAATTATTT
192 GGGAGTAATACAATTATTT
2085354 TTCCCGAAGT
Statistics
Matches: 395, Mismatches: 39, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
227 75 0.19
228 125 0.32
230 1 0.00
231 1 0.00
233 2 0.01
235 1 0.00
236 2 0.01
237 2 0.01
240 2 0.01
241 179 0.45
242 5 0.01
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (235 bp):
ATCTCTTGTTATCTATTCTAATTATACTAGACCATTAAAAGTAAAGTTGTTTTATGATTAGGGAA
AACTTATTATAAATAGGACCTAGGGCTTTAGAAAAAAAATAGTCAATTGCCCCAGTAGTCTTTAC
ATTCAAGCATTCTAACATTCATAGGTTATTTTGCTTAAAATCTTAGATATTTGTATCTCTTGGGA
GTAATACAATTATTTAGGCTAGTATAGATATGATATATTT
Found at i:2086730 original size:64 final size:64
Alignment explanation
Indices: 2086601--2086723 Score: 203
Period size: 64 Copynumber: 1.9 Consensus size: 64
2086591 AGAAAAAAAA
* *
2086601 AAGATAAAGATAGAGAGACCATCACTTGGTGACCAAACCACATCTTGCTTGAACGTTTTGTTTC
1 AAGATAAAGATAGAGAGACCATCAATTGGTGACCAAACCACATCTCGCTTGAACGTTTTGTTTC
*
2086665 AAGATAAAGATAGAGAGACCATCAATTTGT-ATCCAAACCACATCTCGCTTGAACGTTTT
1 AAGATAAAGATAGAGAGACCATCAATTGGTGA-CCAAACCACATCTCGCTTGAACGTTTT
2086724 TGTTCAAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 1 0.02
64 54 0.98
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (64 bp):
AAGATAAAGATAGAGAGACCATCAATTGGTGACCAAACCACATCTCGCTTGAACGTTTTGTTTC
Found at i:2093417 original size:58 final size:58
Alignment explanation
Indices: 2093343--2093455 Score: 174
Period size: 58 Copynumber: 1.9 Consensus size: 58
2093333 TTGGGTCCTA
2093343 TTTTATTGTTTGTGGTAGTTTTCCATTTCATGTTGCTAGAGGTTATGTCTCCACCCTG
1 TTTTATTGTTTGTGGTAGTTTTCCATTTCATGTTGCTAGAGGTTATGTCTCCACCCTG
* * * *
2093401 TTTTATTGTTAT-TGGTAGTTTTCTATTTGATGTTGCTGGAGGTTGTGTCTCCACC
1 TTTTATTGTT-TGTGGTAGTTTTCCATTTCATGTTGCTAGAGGTTATGTCTCCACC
2093456 TTTCCACTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 49 0.98
59 1 0.02
ACGTcount: A:0.13, C:0.15, G:0.22, T:0.50
Consensus pattern (58 bp):
TTTTATTGTTTGTGGTAGTTTTCCATTTCATGTTGCTAGAGGTTATGTCTCCACCCTG
Found at i:2098187 original size:58 final size:58
Alignment explanation
Indices: 2098124--2098240 Score: 175
Period size: 58 Copynumber: 2.0 Consensus size: 58
2098114 CATTGTGGGT
* *
2098124 CCTATTTTATTGTTAGTGGTAGTTTT-TCATTTCATGTTGTTGG-AGATTGTGTCTCCAC
1 CCTATTTTATTGTTAGTAGTAGTTTTCT-ATTTCATGTTGCTGGAAG-TTGTGTCTCCAC
*
2098182 CCTATTTTATTGTTAGTAGTAGTTTTCTATTTGATGTTGCTGGAAGTTGTGTCTCCAC
1 CCTATTTTATTGTTAGTAGTAGTTTTCTATTTCATGTTGCTGGAAGTTGTGTCTCCAC
2098240 C
1 C
2098241 TTTCCACTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
58 51 0.94
59 3 0.06
ACGTcount: A:0.16, C:0.15, G:0.21, T:0.49
Consensus pattern (58 bp):
CCTATTTTATTGTTAGTAGTAGTTTTCTATTTCATGTTGCTGGAAGTTGTGTCTCCAC
Found at i:2117153 original size:69 final size:69
Alignment explanation
Indices: 2117077--2117217 Score: 221
Period size: 69 Copynumber: 2.0 Consensus size: 69
2117067 AAATTATATA
* * *
2117077 TTTTTATATTGTTACTCAATGTGAAAAAAATATAATTAAAAACTTAAATTGTTTTA-TTTTTTAA
1 TTTTTATATTGTTACTAAATGTGAAAAAAATATAATTAAAAACTTAAACTGTTGTAGTTTTTT-A
2117141 AGATT
65 AGATT
* *
2117146 TTTTTATATTGTTATTAAATGTGACAAAAATATAATTAAAAACTTAAACTGTTGTAGTTTTTTAA
1 TTTTTATATTGTTACTAAATGTGAAAAAAATATAATTAAAAACTTAAACTGTTGTAGTTTTTTAA
2117211 GATT
66 GATT
2117215 TTT
1 TTT
2117218 CTATGTAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
69 60 0.91
70 6 0.09
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (69 bp):
TTTTTATATTGTTACTAAATGTGAAAAAAATATAATTAAAAACTTAAACTGTTGTAGTTTTTTAA
GATT
Found at i:2121048 original size:18 final size:18
Alignment explanation
Indices: 2121022--2121056 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2121012 GGGTTGATAA
* *
2121022 TAATCTTAGCTAATTAAT
1 TAATATTAGCAAATTAAT
2121040 TAATATTAGCAAATTAA
1 TAATATTAGCAAATTAA
2121057 GCAAAACTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (18 bp):
TAATATTAGCAAATTAAT
Found at i:2124929 original size:4 final size:4
Alignment explanation
Indices: 2124912--2124959 Score: 69
Period size: 4 Copynumber: 12.0 Consensus size: 4
2124902 CAAAGAAGAC
* * *
2124912 ATAT ATAC ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATTT ATGT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
2124960 CCTAATTTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (4 bp):
ATAT
Found at i:2124949 original size:10 final size:10
Alignment explanation
Indices: 2124912--2124959 Score: 69
Period size: 10 Copynumber: 4.8 Consensus size: 10
2124902 CAAAGAAGAC
*
2124912 ATATATACAT
1 ATATATATAT
2124922 ATATATATAT
1 ATATATATAT
2124932 ATATATATAT
1 ATATATATAT
*
2124942 ATATATATTT
1 ATATATATAT
*
2124952 ATGTATAT
1 ATATATAT
2124960 CCTAATTTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 35 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (10 bp):
ATATATATAT
Found at i:2137340 original size:11 final size:11
Alignment explanation
Indices: 2137307--2137341 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
2137297 CGGTTGATTG
2137307 ATTAATTTTTT
1 ATTAATTTTTT
*
2137318 ATATAATGTTTT
1 AT-TAATTTTTT
2137330 ATTAATTTTTT
1 ATTAATTTTTT
2137341 A
1 A
2137342 AAATTCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (11 bp):
ATTAATTTTTT
Found at i:2147313 original size:3 final size:3
Alignment explanation
Indices: 2147305--2147331 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2147295 CACTGACAAG
2147305 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
2147332 TGTCATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2148488 original size:16 final size:16
Alignment explanation
Indices: 2148467--2148499 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2148457 GGCAAGTCTC
2148467 TATTGAGCATCATCGT
1 TATTGAGCATCATCGT
2148483 TATTGAGCATCATCGT
1 TATTGAGCATCATCGT
2148499 T
1 T
2148500 GTCAGCTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (16 bp):
TATTGAGCATCATCGT
Found at i:2148868 original size:55 final size:55
Alignment explanation
Indices: 2148772--2148902 Score: 145
Period size: 55 Copynumber: 2.4 Consensus size: 55
2148762 TGAAGAGTTA
* * * * * * *
2148772 TTTTAGAGTGTCACGACTGTTCCTGGGGTATGGTGGGTTAACTGAATTTATGGGT
1 TTTTAGCGTGTCATGGCTGTTCCTGGCGTATCGTGGATTAACTGAATTTATGAGT
* * ** *
2148827 TTTTGGCGTGTCATGGCTGTTCCTGGCGTGTCGTGGATTAACTGGTTTTTTGAGT
1 TTTTAGCGTGTCATGGCTGTTCCTGGCGTATCGTGGATTAACTGAATTTATGAGT
*
2148882 TTTTAGCGTGTCATGGATGTT
1 TTTTAGCGTGTCATGGCTGTT
2148903 GGTGTAACCA
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.14, C:0.12, G:0.32, T:0.42
Consensus pattern (55 bp):
TTTTAGCGTGTCATGGCTGTTCCTGGCGTATCGTGGATTAACTGAATTTATGAGT
Found at i:2148964 original size:31 final size:31
Alignment explanation
Indices: 2148929--2149008 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
2148919 AATTACAGTG
*
2148929 ATGCATGGCGTGTCACGATATTTGAC-TTGAT
1 ATGCATGGCGTGTCACAATATTTGACGTT-AT
* *
2148960 ATGCATGGCGTGTTACAATATTTTACGTTAT
1 ATGCATGGCGTGTCACAATATTTGACGTTAT
*
2148991 ATGCATGGCGTGTGACAA
1 ATGCATGGCGTGTCACAA
2149009 CACGACTGAC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 42 0.95
32 2 0.05
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (31 bp):
ATGCATGGCGTGTCACAATATTTGACGTTAT
Found at i:2152452 original size:31 final size:31
Alignment explanation
Indices: 2152408--2152676 Score: 258
Period size: 31 Copynumber: 8.7 Consensus size: 31
2152398 ATAAATGTGA
2152408 GACACGCCATGCATAACAAGTAAAATATTGT
1 GACACGCCATGCATAACAAGTAAAATATTGT
** * * *
2152439 GACACGCTGTGCATATCAAATAAAATATTAT
1 GACACGCCATGCATAACAAGTAAAATATTGT
* * * **
2152470 AACACGCCATTCATAACAAGAAAAATGA-AAT
1 GACACGCCATGCATAACAAGTAAAAT-ATTGT
* **
2152501 G-CAACGCCATGCATAACCAA-TTAAACGTTGT
1 GAC-ACGCCATGCATAA-CAAGTAAAATATTGT
* * **
2152532 GACACGTCATGCATAACAAGTTAAACGTTGT
1 GACACGCCATGCATAACAAGTAAAATATTGT
2152563 GACACGCCATGCATAACAAGTAAAA-AGTTGT
1 GACACGCCATGCATAACAAGTAAAATA-TTGT
* *
2152594 GACACGCCATGCATAACAAGTTAAACATTGT
1 GACACGCCATGCATAACAAGTAAAATATTGT
* * * *
2152625 GACACGCCATGCATAACAATTAAATTGTTCT
1 GACACGCCATGCATAACAAGTAAAATATTGT
*
2152656 GACTCGCCATGCATAACAAGT
1 GACACGCCATGCATAACAAGT
2152677 TCTGGTGTGT
Statistics
Matches: 196, Mismatches: 34, Indels: 16
0.80 0.14 0.07
Matches are distributed among these distances:
30 4 0.02
31 186 0.95
32 6 0.03
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (31 bp):
GACACGCCATGCATAACAAGTAAAATATTGT
Found at i:2152570 original size:93 final size:93
Alignment explanation
Indices: 2152408--2152676 Score: 296
Period size: 93 Copynumber: 2.9 Consensus size: 93
2152398 ATAAATGTGA
* * ** * * * * *
2152408 GACACGCCATGCATAACAAGTAAAATATTGTGACACGCTGTGCATATCAAATAAAAT-ATTATAA
1 GACACGCCATGCATAACAAGTTAAACATTGTGACACGCCATGCATAAC-AATTAAATCGTTCTGA
*
2152472 CACGCCATTCATAACAAG-AAAAATGAAAT
65 CACGCCATGCATAACAAGTAAAAA-GAAAT
* * *
2152501 G-CAACGCCATGCATAACCAA-TTAAACGTTGTGACACGTCATGCATAACAAGTTAAA-CGTTGT
1 GAC-ACGCCATGCATAA-CAAGTTAAACATTGTGACACGCCATGCATAACAA-TTAAATCGTTCT
***
2152563 GACACGCCATGCATAACAAGTAAAAAGTTGT
63 GACACGCCATGCATAACAAGTAAAAAGAAAT
*
2152594 GACACGCCATGCATAACAAGTTAAACATTGTGACACGCCATGCATAACAATTAAATTGTTCTGAC
1 GACACGCCATGCATAACAAGTTAAACATTGTGACACGCCATGCATAACAATTAAATCGTTCTGAC
*
2152659 TCGCCATGCATAACAAGT
66 ACGCCATGCATAACAAGT
2152677 TCTGGTGTGT
Statistics
Matches: 148, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
92 11 0.07
93 128 0.86
94 9 0.06
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (93 bp):
GACACGCCATGCATAACAAGTTAAACATTGTGACACGCCATGCATAACAATTAAATCGTTCTGAC
ACGCCATGCATAACAAGTAAAAAGAAAT
Found at i:2152677 original size:62 final size:62
Alignment explanation
Indices: 2152400--2152677 Score: 289
Period size: 62 Copynumber: 4.5 Consensus size: 62
2152390 AATAAGGAAT
* * * ** * *
2152400 AAATG-TGAGACACGCCATGCATAACAAGTAAAATATTGTGACACGCTGTGCATATCAAATA
1 AAATGTTGTGACACGCCATGCATAACAAGTTAAACATTGTGACACGCCATGCATAACAATTA
* * * * *
2152461 AAATATTATAACACGCCATTCATAACAAG--AAA-AATGAAATG-CAACGCCATGCATAACCAAT
1 AAATGTTGTGACACGCCATGCATAACAAGTTAAACATTG---TGAC-ACGCCATGCATAA-CAAT
2152522 T-
61 TA
* * * *
2152523 AAACGTTGTGACACGTCATGCATAACAAGTTAAACGTTGTGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTTAAACATTGTGACACGCCATGCATAACAATTA
*
2152585 AAAAGTTGTGACACGCCATGCATAACAAGTTAAACATTGTGACACGCCATGCATAACAATTA
1 AAATGTTGTGACACGCCATGCATAACAAGTTAAACATTGTGACACGCCATGCATAACAATTA
* * *
2152647 AATTGTTCTGACTCGCCATGCATAACAAGTT
1 AAATGTTGTGACACGCCATGCATAACAAGTT
2152678 CTGGTGTGTA
Statistics
Matches: 179, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
59 3 0.02
60 3 0.02
61 9 0.05
62 154 0.86
63 5 0.03
64 3 0.02
65 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (62 bp):
AAATGTTGTGACACGCCATGCATAACAAGTTAAACATTGTGACACGCCATGCATAACAATTA
Found at i:2153328 original size:14 final size:15
Alignment explanation
Indices: 2153312--2153362 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
2153302 TACTATGAAT
2153312 TGTATACAATAAATTG
1 TGTATACAATAAA-TG
*
2153328 TGTATACAAAAAATG
1 TGTATACAATAAATG
* *
2153343 TGTATAAAATGAAT-
1 TGTATACAATAAATG
2153357 TGTATA
1 TGTATA
2153363 AAAAAATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 6 0.19
15 13 0.42
16 12 0.39
ACGTcount: A:0.47, C:0.04, G:0.14, T:0.35
Consensus pattern (15 bp):
TGTATACAATAAATG
Found at i:2153333 original size:16 final size:16
Alignment explanation
Indices: 2153312--2153359 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
2153302 TACTATGAAT
2153312 TGTATACAATAAATTG
1 TGTATACAATAAATTG
*
2153328 TGTATACAA-AAAATG
1 TGTATACAATAAATTG
* *
2153343 TGTATAAAATGAATTG
1 TGTATACAATAAATTG
2153359 T
1 T
2153360 ATAAAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (16 bp):
TGTATACAATAAATTG
Found at i:2153363 original size:14 final size:15
Alignment explanation
Indices: 2153312--2153369 Score: 59
Period size: 14 Copynumber: 3.9 Consensus size: 15
2153302 TACTATGAAT
*
2153312 TGTATACAATAAATTG
1 TGTATAAAATAAA-TG
2153328 TGTATACAAA-AAATG
1 TGTATA-AAATAAATG
*
2153343 TGTATAAAATGAAT-
1 TGTATAAAATAAATG
2153357 TGTATAAAA-AAAT
1 TGTATAAAATAAAT
2153370 TTATGTGTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 3 0.08
14 12 0.32
15 11 0.30
16 9 0.24
17 2 0.05
ACGTcount: A:0.52, C:0.03, G:0.12, T:0.33
Consensus pattern (15 bp):
TGTATAAAATAAATG
Found at i:2154943 original size:62 final size:62
Alignment explanation
Indices: 2154872--2155070 Score: 249
Period size: 62 Copynumber: 3.2 Consensus size: 62
2154862 TAGTGCATAC
* *
2154872 CAAGTAAAATGTCGTGACACGCCATGCATAACAAGATAAACTTGGTGACATGCCAAGGATAA
1 CAAGCAAAATGTCGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAA
* * *
2154934 CGAGGAAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAA
1 CAAGCAAAATGTCGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAA
* * * * * *
2154996 CAAGCAAAATGTTC-TGACATGCCATGCATATCAAAATCAAACGTT-GTGACACGCTATGAATAA
1 CAAGCAAAATG-TCGTGACACGCCATGCATAACAAGAT-AAAC-TTGGTGACACGCCAAGGATAA
*
2155059 CAAGTAAAATGT
1 CAAGCAAAATGT
2155071 TATGACACAC
Statistics
Matches: 120, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
62 88 0.73
63 30 0.25
64 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (62 bp):
CAAGCAAAATGTCGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAA
Found at i:2155077 original size:31 final size:31
Alignment explanation
Indices: 2154840--2155078 Score: 189
Period size: 31 Copynumber: 7.7 Consensus size: 31
2154830 ACAAACCATA
**
2154840 AACAA-TAAAATGTTGTGACAC-ATAGTGCAT
1 AACAAGTAAAATGTTGTGACACGCCA-TGCAT
* *
2154870 ACCAAGTAAAATGTCGTGACACGCCATGCAT
1 AACAAGTAAAATGTTGTGACACGCCATGCAT
* * * * *
2154901 AACAAGATAAACT-TGGTGACATGCCAAGGAT
1 AACAAG-TAAAATGTTGTGACACGCCATGCAT
* *
2154932 AACGAGGAAAATGTTGTGACACGCCATGCAT
1 AACAAGTAAAATGTTGTGACACGCCATGCAT
* * * *
2154963 AACAAGATAAACT-TGGTGACACGCCAAGGAT
1 AACAAG-TAAAATGTTGTGACACGCCATGCAT
* * *
2154994 AACAAGCAAAATGTTCTGACATGCCATGCAT
1 AACAAGTAAAATGTTGTGACACGCCATGCAT
* * * * * *
2155025 ATCAAAATCAAACGTTGTGACACGCTATGAAT
1 AAC-AAGTAAAATGTTGTGACACGCCATGCAT
*
2155057 AACAAGTAAAATGTTATGACAC
1 AACAAGTAAAATGTTGTGACAC
2155079 ACTAAAGCTG
Statistics
Matches: 158, Mismatches: 44, Indels: 13
0.73 0.20 0.06
Matches are distributed among these distances:
30 12 0.08
31 114 0.72
32 32 0.20
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (31 bp):
AACAAGTAAAATGTTGTGACACGCCATGCAT
Found at i:2155907 original size:156 final size:156
Alignment explanation
Indices: 2155436--2155931 Score: 652
Period size: 156 Copynumber: 3.2 Consensus size: 156
2155426 CGACTGGGTC
* * *
2155436 AACTACAATAACATATATAACTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACTG
1 AACTACAATTACATATATAACTGTGTTATTCAATAATCATGTATGAAATTGTTGAACATTAACTG
* * * * * * *
2155501 TTACAACTTTAATATCCTAACCGACGGCTCGTTAGCAGTCTACGGTGGAG-TCGGACCAATCGGT
66 TTACAACTTTAATATCCTTACCGCCGGCTCGTTAGCTGTCTGCAGTGGAGCT-GGAACGATCGGT
2155565 GCTTCAGGACCTGTCGTCGCTTTCGCA
130 GCTTCAGGACCTGTCGTCGCTTTCGCA
* * * *
2155592 TACTACAATTACATATTTAACTGTGTTATTCAATAATCACGTATGAAATTGTTGAATATTAACTG
1 AACTACAATTACATATATAACTGTGTTATTCAATAATCATGTATGAAATTGTTGAACATTAACTG
* * * *
2155657 TTACAACTTTAATATCCTTACCGCGGGCTCGTTAGATGTCTGCAGTGGAGCTGAAAGGATCGGTG
66 TTACAACTTTAATATCCTTACCGCCGGCTCGTTAGCTGTCTGCAGTGGAGCTGGAACGATCGGTG
* *
2155722 CTTCAGGACCTATCGTCGCTTCCGCA
131 CTTCAGGACCTGTCGTCGCTTTCGCA
* *
2155748 AACTACAATTACATATATAACTGTGTTATTCAATAATCATGTTTGAAATTGTTGAACATTAACCG
1 AACTACAATTACATATATAACTGTGTTATTCAATAATCATGTATGAAATTGTTGAACATTAACTG
* * * *
2155813 TTACAACTTTAATATCCTTACCGCCGGTTAGTTAGCTGTCTGCAGTTGAGCTGGATCGATCGGTG
66 TTACAACTTTAATATCCTTACCGCCGGCTCGTTAGCTGTCTGCAGTGGAGCTGGAACGATCGGTG
* * * * * *
2155878 CTTGAGGACTTGTCATTGCTTTTGTA
131 CTTCAGGACCTGTCGTCGCTTTCGCA
** * *
2155904 AACTGTAATTACATAAATTACTGTGTTA
1 AACTACAATTACATATATAACTGTGTTA
2155932 CTCGATAAAC
Statistics
Matches: 293, Mismatches: 46, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
156 292 1.00
157 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (156 bp):
AACTACAATTACATATATAACTGTGTTATTCAATAATCATGTATGAAATTGTTGAACATTAACTG
TTACAACTTTAATATCCTTACCGCCGGCTCGTTAGCTGTCTGCAGTGGAGCTGGAACGATCGGTG
CTTCAGGACCTGTCGTCGCTTTCGCA
Found at i:2157665 original size:62 final size:62
Alignment explanation
Indices: 2157564--2157855 Score: 318
Period size: 62 Copynumber: 4.7 Consensus size: 62
2157554 AATAAGGAAT
* * * *
2157564 AAATGTTGTGACACGCCATGCAT-TGCAATTAAAATGTTGTGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACACCATGCATAT-CAAGTAAAATGCTGTCACACGCCATGCATAACAAGTA
* * * * * * *
2157626 AAATGTTGTGACACACCATGCATAACAAGTTAAACGTTGTGACACGCCATGCATATCAAGTT
1 AAATGTTGTGACACACCATGCATATCAAGTAAAATGCTGTCACACGCCATGCATAACAAGTA
* * * *
2157688 AAACGTTATGACACGCCATGCATATCAAGTAAAATGCTGTCAAACGCCATGCATAACAAGTA
1 AAATGTTGTGACACACCATGCATATCAAGTAAAATGCTGTCACACGCCATGCATAACAAGTA
* * * *
2157750 ATATTTTGTGACACGA-CATGTATATCAAGTAAAATGCTGTCACACGCCATGCATATCAAGTA
1 AAATGTTGTGACAC-ACCATGCATATCAAGTAAAATGCTGTCACACGCCATGCATAACAAGTA
** * ** * *
2157812 AAATACTGTCACATGCTATGCATATCATGTAAAATGCTGTCACA
1 AAATGTTGTGACACACCATGCATATCAAGTAAAATGCTGTCACA
2157856 TGCTAATAAC
Statistics
Matches: 192, Mismatches: 35, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
62 192 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (62 bp):
AAATGTTGTGACACACCATGCATATCAAGTAAAATGCTGTCACACGCCATGCATAACAAGTA
Found at i:2157833 original size:93 final size:93
Alignment explanation
Indices: 2157563--2157835 Score: 343
Period size: 93 Copynumber: 2.9 Consensus size: 93
2157553 AAATAAGGAA
* * *
2157563 TAAATGTTGTGACACGCCATGCAT-TGCAATTAAAATGTTGTGACACGCCATGCATAACAAGTAA
1 TAAACGTTGTGACACGCCATGCATAT-CAAGTAAAATGTTGTGACACGCCATGCATATCAAGTAA
* * *
2157627 AATGTTGTGACACACCATGCATAACAAGT
65 AATGCTGTCACACGCCATGCATAACAAGT
* * *
2157656 TAAACGTTGTGACACGCCATGCATATCAAGTTAAACGTTATGACACGCCATGCATATCAAGTAAA
1 TAAACGTTGTGACACGCCATGCATATCAAGTAAAATGTTGTGACACGCCATGCATATCAAGTAAA
*
2157721 ATGCTGTCAAACGCCATGCATAACAAG-
66 ATGCTGTCACACGCCATGCATAACAAGT
** * * * *
2157748 TAATATTTTGTGACACGACATGTATATCAAGTAAAATGCTGTCACACGCCATGCATATCAAGTAA
1 TAA-ACGTTGTGACACGCCATGCATATCAAGTAAAATGTTGTGACACGCCATGCATATCAAGTAA
* * *
2157813 AATACTGTCACATGCTATGCATA
65 AATGCTGTCACACGCCATGCATA
2157836 TCATGTAAAA
Statistics
Matches: 155, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
92 3 0.02
93 151 0.97
94 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (93 bp):
TAAACGTTGTGACACGCCATGCATATCAAGTAAAATGTTGTGACACGCCATGCATATCAAGTAAA
ATGCTGTCACACGCCATGCATAACAAGT
Found at i:2157860 original size:31 final size:31
Alignment explanation
Indices: 2157564--2157855 Score: 289
Period size: 31 Copynumber: 9.4 Consensus size: 31
2157554 AATAAGGAAT
* * *
2157564 AAATGTTGTGACACGCCATGCAT-TGCAATTA
1 AAATGCTGTCACACGCCATGCATAT-CAAGTA
* * *
2157595 AAATGTTGTGACACGCCATGCATAACAAGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
* * * * *
2157626 AAATGTTGTGACACACCATGCATAACAAGTT
1 AAATGCTGTCACACGCCATGCATATCAAGTA
* * * *
2157657 AAACGTTGTGACACGCCATGCATATCAAGTT
1 AAATGCTGTCACACGCCATGCATATCAAGTA
* * * *
2157688 AAACGTTATGACACGCCATGCATATCAAGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
* *
2157719 AAATGCTGTCAAACGCCATGCATAACAAGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
* ** * * *
2157750 ATATTTTGTGACACGACATGTATATCAAGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
2157781 AAATGCTGTCACACGCCATGCATATCAAGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
* * * *
2157812 AAATACTGTCACATGCTATGCATATCATGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
2157843 AAATGCTGTCACA
1 AAATGCTGTCACA
2157856 TGCTAATAAC
Statistics
Matches: 226, Mismatches: 34, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
31 226 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (31 bp):
AAATGCTGTCACACGCCATGCATATCAAGTA
Found at i:2158507 original size:23 final size:23
Alignment explanation
Indices: 2158464--2158518 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
2158454 CTTAACTCTA
* **
2158464 GCGTGTCACAGATTCCCTCCATG
1 GCGTGTCACAAATTCAATCCATG
2158487 GCGTGTCACAAATTCAATCCATG
1 GCGTGTCACAAATTCAATCCATG
* *
2158510 ACGTTTCAC
1 GCGTGTCAC
2158519 CAACTCTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (23 bp):
GCGTGTCACAAATTCAATCCATG
Found at i:2158536 original size:47 final size:46
Alignment explanation
Indices: 2158485--2158708 Score: 218
Period size: 47 Copynumber: 4.8 Consensus size: 46
2158475 ATTCCCTCCA
** * *
2158485 TGGCGTGTCACAAATTCAATCCATGACGTTTCACCAACTCTGAACGC
1 TGGCGTGTCACAAATTCCCTCCATG-CGTCTCACCAACTCTTAACGC
* *
2158532 TGGCGTGTCACAGATTCCCTCCATGCTGTGTCACCAACTCTTAAC-C
1 TGGCGTGTCACAAATTCCCTCCATGC-GTCTCACCAACTCTTAACGC
* *
2158578 TGGCGCGTCACATATTCCCTCCATGGCGTCTCACCAACTCTTAACGC
1 TGGCGTGTCACAAATTCCCTCCAT-GCGTCTCACCAACTCTTAACGC
* * * * * *
2158625 TGCCGTGTCACACATTCCCAT-CATGGTGTGTCACTAACTCTTAACTC
1 TGGCGTGTCACAAATTCCC-TCCAT-GCGTCTCACCAACTCTTAACGC
* * * *
2158672 TAGCGTCTCACAGATTCCCTCCATGGCGTCTCCCCAA
1 TGGCGTGTCACAAATTCCCTCCAT-GCGTCTCACCAA
2158709 TTCTGAGTGG
Statistics
Matches: 149, Mismatches: 23, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
46 42 0.28
47 106 0.71
48 1 0.01
ACGTcount: A:0.21, C:0.35, G:0.17, T:0.27
Consensus pattern (46 bp):
TGGCGTGTCACAAATTCCCTCCATGCGTCTCACCAACTCTTAACGC
Found at i:2158538 original size:70 final size:70
Alignment explanation
Indices: 2158435--2158565 Score: 201
Period size: 70 Copynumber: 1.9 Consensus size: 70
2158425 CTAAACATGA
* * *
2158435 CCATGGCGTATCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCTCCATGGC-GTGTCACAAA
1 CCATGACGTATCACCAACTCTGAACGCTAGCGTGTCACAGATTCCCTCCAT-GCTGTGTCACAAA
2158499 TTCAAT
65 TTCAAT
* *
2158505 CCATGACGTTTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCCTCCATGCTGTGTCAC
1 CCATGACGTATCACCAACTCTGAACGCTAGCGTGTCACAGATTCCCTCCATGCTGTGTCAC
2158566 CAACTCTTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
69 2 0.04
70 53 0.96
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.27
Consensus pattern (70 bp):
CCATGACGTATCACCAACTCTGAACGCTAGCGTGTCACAGATTCCCTCCATGCTGTGTCACAAAT
TCAAT
Found at i:2158734 original size:94 final size:93
Alignment explanation
Indices: 2158504--2158743 Score: 286
Period size: 93 Copynumber: 2.6 Consensus size: 93
2158494 ACAAATTCAA
* * * *
2158504 TCCATGACGTTTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCC-TCCATGCTGTGTCACCA
1 TCCATGGCGTCTCACCAACTCTGAACGCTGCCGTGTCACACATTCCCAT-CATGCTGTGTCACCA
* *
2158568 ACTCTTAACCTGGCGCGTCACATATTCCC
65 ACTCTTAACCTAGCGCGTCACAGATTCCC
* * *
2158597 TCCATGGCGTCTCACCAACTCTTAACGCTGCCGTGTCACACATTCCCATCATGGTGTGTCACTAA
1 TCCATGGCGTCTCACCAACTCTGAACGCTGCCGTGTCACACATTCCCATCATGCTGTGTCACCAA
2158662 CTCTTAACTCTAGCGTC-TCACAGATTCCC
66 CTCTTAAC-CTAGCG-CGTCACAGATTCCC
* * ** * * * *
2158691 TCCATGGCGTCTCCCCAATTCTGAGTGGTGTCGTGTCATACATTCCCAACATG
1 TCCATGGCGTCTCACCAACTCTGAACGCTGCCGTGTCACACATTCCCATCATG
2158744 ACGTTTCACA
Statistics
Matches: 126, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
93 64 0.51
94 61 0.48
95 1 0.01
ACGTcount: A:0.20, C:0.34, G:0.17, T:0.28
Consensus pattern (93 bp):
TCCATGGCGTCTCACCAACTCTGAACGCTGCCGTGTCACACATTCCCATCATGCTGTGTCACCAA
CTCTTAACCTAGCGCGTCACAGATTCCC
Found at i:2158758 original size:94 final size:93
Alignment explanation
Indices: 2158504--2158764 Score: 274
Period size: 94 Copynumber: 2.8 Consensus size: 93
2158494 ACAAATTCAA
* * * * ** *
2158504 TCCATGACGTTTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCCTCCATG-CTGTGTCACCA
1 TCCATGGCGTCTCACCAACTCTGAACGCTGCCGTGTCACACATTCCCAACATGAC-GTGTCACAA
* *
2158568 ACTCTTAACCTGGCGCGTCACATATTCCC
65 ACTCTTAACCTAGCGCGTCACAGATTCCC
* * ** *
2158597 TCCATGGCGTCTCACCAACTCTTAACGCTGCCGTGTCACACATTCCCATCATGGTGTGTCACTAA
1 TCCATGGCGTCTCACCAACTCTGAACGCTGCCGTGTCACACATTCCCAACATGACGTGTCACAAA
2158662 CTCTTAACTCTAGCGTC-TCACAGATTCCC
66 CTCTTAAC-CTAGCG-CGTCACAGATTCCC
* * ** * * * *
2158691 TCCATGGCGTCTCCCCAATTCTGAGTGGTGTCGTGTCATACATTCCCAACATGACGTTTCACAAA
1 TCCATGGCGTCTCACCAACTCTGAACGCTGCCGTGTCACACATTCCCAACATGACGTGTCACAAA
*
2158756 CTCTAAACC
66 CTCTTAACC
2158765 CTGCCCTGCG
Statistics
Matches: 140, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
93 64 0.46
94 75 0.54
95 1 0.01
ACGTcount: A:0.22, C:0.34, G:0.16, T:0.28
Consensus pattern (93 bp):
TCCATGGCGTCTCACCAACTCTGAACGCTGCCGTGTCACACATTCCCAACATGACGTGTCACAAA
CTCTTAACCTAGCGCGTCACAGATTCCC
Found at i:2159523 original size:2 final size:2
Alignment explanation
Indices: 2159516--2159548 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2159506 CATTTGAAAC
2159516 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2159549 GATTTATGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2160896 original size:25 final size:26
Alignment explanation
Indices: 2160836--2160887 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
2160826 AGAAAATGGG
*
2160836 ATTTAAACATGAAAAACATTTATTAA
1 ATTTAAACACGAAAAACATTTATTAA
*
2160862 ATTTAAACACGAAAAACGTTTATTAA
1 ATTTAAACACGAAAAACATTTATTAA
2160888 TTGTCACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (26 bp):
ATTTAAACACGAAAAACATTTATTAA
Found at i:2165142 original size:26 final size:27
Alignment explanation
Indices: 2165113--2165170 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
2165103 AAAAATACCC
*
2165113 TTTATTATATAATGATA-TAAT-TTTTA
1 TTTATTATATAA-AATATTAATATTTTA
* *
2165139 TTTATTTTTTAAAATATTAATATTTTA
1 TTTATTATATAAAATATTAATATTTTA
2165166 TTTAT
1 TTTAT
2165171 AATCTAATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 3 0.11
26 14 0.52
27 10 0.37
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTATTATATAAAATATTAATATTTTA
Found at i:2165252 original size:15 final size:16
Alignment explanation
Indices: 2165232--2165263 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2165222 GTTTATAATG
2165232 ATTA-TTTATTTTTAA
1 ATTATTTTATTTTTAA
2165247 ATTATTTTATTTTTAA
1 ATTATTTTATTTTTAA
2165263 A
1 A
2165264 CATTAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTATTTTATTTTTAA
Found at i:2165445 original size:125 final size:129
Alignment explanation
Indices: 2165212--2165475 Score: 328
Period size: 125 Copynumber: 2.1 Consensus size: 129
2165202 ATTTTATTTA
2165212 TAAT-TTAAATGTTTATAATGATTATTTATTTTTAAATTATTTTATTTTTAAACATTAATAATGT
1 TAATATTAAATGTTTATAATGATTATTTATTTTTAAATTATTTTATTTTTAAACATTAATAATGT
* *
2165276 ATAATTTATTTAAAATATTAAAATTGATAGTTTAAATATTAATATTTTATTTATACTTTAATCAT
66 ATAA-TTAATTAAAATATTAAAATTGATAGTTTAAATATTAATATTTTATTTATAATTTAATCAT
** ** *
2165341 TAATATTAAATG-TTATTGTGATTATTTATTTTTATTTTATTTTATCTTTTAAATATTTAATAAT
1 TAATATTAAATGTTTATAATGATTATTTATTTTTAAATTATTTTAT-TTTTAAACA-TTAATAAT
* * * * *
2165405 -T-T-A-TAATTAAAA-CTTATAGTTGATTA-TTTAAGTATTAATATTTTATTTGTAATTTAATC
64 GTATAATTAATTAAAATATTAAAATTGA-TAGTTTAAATATTAATATTTTATTTATAATTTAATC
2165464 AT
128 AT
2165466 TAATATTAAA
1 TAATATTAAA
2165476 AATACTAATA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
125 50 0.42
126 10 0.08
128 1 0.01
129 34 0.29
130 16 0.13
131 8 0.07
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (129 bp):
TAATATTAAATGTTTATAATGATTATTTATTTTTAAATTATTTTATTTTTAAACATTAATAATGT
ATAATTAATTAAAATATTAAAATTGATAGTTTAAATATTAATATTTTATTTATAATTTAATCAT
Found at i:2166489 original size:3 final size:3
Alignment explanation
Indices: 2166481--2166517 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
2166471 ATTTTATAGG
2166481 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2166518 ATACATTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2172919 original size:30 final size:30
Alignment explanation
Indices: 2172879--2172950 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
2172869 TATGGGTCAA
**
2172879 TATTGAATTTTTATCATTATATTTTAAATTT
1 TATT-AATTTTTATCACCATATTTTAAATTT
* *
2172910 TATTAATTTTTGTCACCATATTTTTAATTT
1 TATTAATTTTTATCACCATATTTTAAATTT
*
2172940 TGTTAATTTTT
1 TATTAATTTTT
2172951 TATATAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 32 0.89
31 4 0.11
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (30 bp):
TATTAATTTTTATCACCATATTTTAAATTT
Found at i:2174419 original size:70 final size:69
Alignment explanation
Indices: 2174306--2174447 Score: 248
Period size: 70 Copynumber: 2.0 Consensus size: 69
2174296 ATTTTGGACA
*
2174306 TTGAATACTGAACTTGTTATGGAAATCTTAGAATGAAATTATTTTGTGATGCCAAACACCTCGAA
1 TTGAATACTGAACTTGTTATGGAAATCTTAGAATGAAATTATTTTGTCATGCCAAACACCTCG-A
2174371 TATTC
65 TATTC
* *
2174376 TTGAATATTGAACTTGTTATGGAAATCTTAGAATGAAATTATTTTGTCATGCCAAACACCTTGAT
1 TTGAATACTGAACTTGTTATGGAAATCTTAGAATGAAATTATTTTGTCATGCCAAACACCTCGAT
2174441 ATTC
66 ATTC
2174445 TTG
1 TTG
2174448 CATCATTCCC
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
69 9 0.13
70 60 0.87
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (69 bp):
TTGAATACTGAACTTGTTATGGAAATCTTAGAATGAAATTATTTTGTCATGCCAAACACCTCGAT
ATTC
Found at i:2187729 original size:1 final size:1
Alignment explanation
Indices: 2187723--2187747 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
2187713 CTCTTTATCC
2187723 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
2187748 CAAGAAAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2194411 original size:18 final size:18
Alignment explanation
Indices: 2194388--2194423 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2194378 CAAAGCATTT
2194388 GCATGATCTGCAAGGTGC
1 GCATGATCTGCAAGGTGC
2194406 GCATGATCTGCAAGGTGC
1 GCATGATCTGCAAGGTGC
2194424 TCAACCCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (18 bp):
GCATGATCTGCAAGGTGC
Found at i:2200749 original size:117 final size:117
Alignment explanation
Indices: 2200423--2200750 Score: 498
Period size: 117 Copynumber: 2.8 Consensus size: 117
2200413 ACTCTGGTAT
* * *
2200423 TGATGATGGCCCTGGCCCTAATGAAATAGAAAGGTTGAGTAGTTCTTCATGGTCTTCTTCA-CAG
1 TGATGATGGCCCTCGCCCTAATGAAAGAGAAAGGTCGAGTAGTTCTTCATGGTCTTCTTCACCA-
* *
2200487 TCAAAGCTCAGGGAAAACAGACGTTTTTGATAAGTAGAAGGTGAGCCAGACGA
65 TCAAAGCTCAGGGAAAACAGACGTTTTTTATAAGTAGAAGGTAAGCCAGACGA
*
2200540 TGATGATGGCCCTCGCCCTAGTGAAAGAGAAAGGTCGAGTAGTTCTTCATGGTCTTCTTCACCAT
1 TGATGATGGCCCTCGCCCTAATGAAAGAGAAAGGTCGAGTAGTTCTTCATGGTCTTCTTCACCAT
*
2200605 CAAAGCTCCA-GGAAAACAGACGTTTTTTATGAGTAGAAGGTAAGCCAGACGA
66 CAAAGCT-CAGGGAAAACAGACGTTTTTTATAAGTAGAAGGTAAGCCAGACGA
* * ** *
2200657 TGATGCTGGCCCTCGCCCTATTGAAAGAGAAAGGTCGAGTCCTTCTTCATGGTTTTCTTCACCAT
1 TGATGATGGCCCTCGCCCTAATGAAAGAGAAAGGTCGAGTAGTTCTTCATGGTCTTCTTCACCAT
* *
2200722 CAAAGCTCTGGGAAAGCAGACGTTTTTTA
66 CAAAGCTCAGGGAAAACAGACGTTTTTTA
2200751 GGGTTAGGGT
Statistics
Matches: 194, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
116 1 0.01
117 189 0.97
118 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (117 bp):
TGATGATGGCCCTCGCCCTAATGAAAGAGAAAGGTCGAGTAGTTCTTCATGGTCTTCTTCACCAT
CAAAGCTCAGGGAAAACAGACGTTTTTTATAAGTAGAAGGTAAGCCAGACGA
Found at i:2201787 original size:29 final size:31
Alignment explanation
Indices: 2201748--2201819 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 31
2201738 TAATAATTTT
* *
2201748 TTAAATATTTATTTTTTTATTAT-A-TTTAA
1 TTAAATTTTTATTTTTTTATTATGAGTTGAA
* *
2201777 TTAAATTTTTATATTTTTATTTTGAGTTGAA
1 TTAAATTTTTATTTTTTTATTATGAGTTGAA
2201808 -TAAATTTTTATT
1 TTAAATTTTTATT
2201820 ACTAATGATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 20 0.56
30 12 0.33
31 4 0.11
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (31 bp):
TTAAATTTTTATTTTTTTATTATGAGTTGAA
Found at i:2222449 original size:30 final size:30
Alignment explanation
Indices: 2222403--2222491 Score: 110
Period size: 30 Copynumber: 3.0 Consensus size: 30
2222393 TTCCCTCAAA
*
2222403 GTTTT-AAAATTTTATAATTTATTTTTATT
1 GTTTTAAAAAATTTATAATTTATTTTTATT
*
2222432 GTTTTAAAAAATTTATAATTCTATCTTTATT
1 GTTTTAAAAAATTTATAATT-TATTTTTATT
* *
2222463 -TTTTAAAAAAAATTATAATTAATTTTTAT
1 GTTTT-AAAAAATTTATAATTTATTTTTAT
2222492 AAATATTATA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
29 5 0.10
30 24 0.46
31 23 0.44
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (30 bp):
GTTTTAAAAAATTTATAATTTATTTTTATT
Found at i:2222488 original size:22 final size:21
Alignment explanation
Indices: 2222463--2222511 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
2222453 TATCTTTATT
2222463 TTTTAAAAAAAATTATAATTAA
1 TTTTAAAAAAAATTAT-ATTAA
* * * *
2222485 TTTTTATAAATATTATATTAT
1 TTTTAAAAAAAATTATATTAA
2222506 TTTTAA
1 TTTTAA
2222512 TTTTTTATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTTAAAAAAAATTATATTAA
Found at i:2224884 original size:29 final size:29
Alignment explanation
Indices: 2224831--2224906 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
2224821 TATTCAATAA
2224831 TATTCAAATAAGTCATTATTCTTTTATTG
1 TATTCAAATAAGTCATTATTCTTTTATTG
* *
2224860 TATTCAATTAAGTC-TCTATAT-TTTTATTT
1 TATTCAAATAAGTCAT-TAT-TCTTTTATTG
*
2224889 TAAGTCAAATAAGTCATT
1 T-ATTCAAATAAGTCATT
2224907 GTAACTAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
28 1 0.03
29 24 0.62
30 13 0.33
31 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.50
Consensus pattern (29 bp):
TATTCAAATAAGTCATTATTCTTTTATTG
Found at i:2232468 original size:165 final size:165
Alignment explanation
Indices: 2232196--2232525 Score: 540
Period size: 165 Copynumber: 2.0 Consensus size: 165
2232186 ACTCTTATGA
*
2232196 ATTCAAAACTTGTTACCTAACCAACAAAAGAAGCTTCCCTAATCAAGTTCAACGTAAATCGACTA
1 ATTCAAAACTTGTTACCTAACCAACAAAAGAAGCTTCCCTAATCAAGTTCAACGTAAATCCACTA
*
2232261 AAATTCCAAGCCCTCTGTCTAAAGTCTAAACTTTCTCCCAAAACACTCATAAAA-AGGGAAAACC
66 AAATTCCAAGCCCTCAGTCTAAAGTCTAAACTTTCTCCCAAAACACTCATAAAAGA-GGAAAACC
2232325 CAT-GTTTAATCTGAAATTCGAACAATCTAGCTAAAT
130 CATAG-TTAATCTGAAATTCGAACAATCTAGCTAAAT
* *
2232361 ATTCAAAACTTGTTACCTAACCAACAAAAGAAGCTTCCCTAATCAAGTTCAACTTAAATCCACTC
1 ATTCAAAACTTGTTACCTAACCAACAAAAGAAGCTTCCCTAATCAAGTTCAACGTAAATCCACTA
*
2232426 AAATT-CAGAGCCCTCAGTCTAAAGTCTTAACTTTCTCCCAAAACACTCATAAAAGAGGAAAACC
66 AAATTCCA-AGCCCTCAGTCTAAAGTCTAAACTTTCTCCCAAAACACTCATAAAAGAGGAAAACC
* * *
2232490 CATAGTTAATCTGAAATTTGAACCATGTAGCTAAAT
130 CATAGTTAATCTGAAATTCGAACAATCTAGCTAAAT
2232526 GAGGCTTCAA
Statistics
Matches: 154, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
164 2 0.01
165 150 0.97
166 2 0.01
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (165 bp):
ATTCAAAACTTGTTACCTAACCAACAAAAGAAGCTTCCCTAATCAAGTTCAACGTAAATCCACTA
AAATTCCAAGCCCTCAGTCTAAAGTCTAAACTTTCTCCCAAAACACTCATAAAAGAGGAAAACCC
ATAGTTAATCTGAAATTCGAACAATCTAGCTAAAT
Found at i:2234378 original size:27 final size:27
Alignment explanation
Indices: 2234297--2234387 Score: 101
Period size: 27 Copynumber: 3.4 Consensus size: 27
2234287 GCTCTGGTTC
*
2234297 TATCAAATTCAGGGAAGGCCCTGATGG
1 TATCAAATTCAGGGAAGGCCCTGGTGG
* ** *
2234324 CATCAAATTCAGGGAAGGCTTTAGTGG
1 TATCAAATTCAGGGAAGGCCCTGGTGG
* *
2234351 TATCCAATTCAGGAAAGGCCCTGGTGG
1 TATCAAATTCAGGGAAGGCCCTGGTGG
* *
2234378 TGTCCAATTC
1 TATCAAATTC
2234388 TGGCAAGTTT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (27 bp):
TATCAAATTCAGGGAAGGCCCTGGTGG
Found at i:2266672 original size:14 final size:14
Alignment explanation
Indices: 2266653--2266682 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2266643 GTCCTGGTTT
2266653 GAATGACGGAACCA
1 GAATGACGGAACCA
2266667 GAATGACGGAACCA
1 GAATGACGGAACCA
2266681 GA
1 GA
2266683 CCGTCGTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.30, T:0.07
Consensus pattern (14 bp):
GAATGACGGAACCA
Found at i:2274630 original size:17 final size:17
Alignment explanation
Indices: 2274610--2274675 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 17
2274600 ATAAAATATT
2274610 AATATTAAATTAAATAA
1 AATATTAAATTAAATAA
*
2274627 AATATTAATATGTTTAAATTAT
1 AATATTAA-A---TTAAA-TAA
*
2274649 AATGATTAAATTGTAATAA
1 AAT-ATTAAATT-AAATAA
2274668 AATATTAA
1 AATATTAA
2274676 TATTTAAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
17 8 0.21
18 6 0.15
19 7 0.18
20 2 0.05
21 5 0.13
22 6 0.15
23 5 0.13
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
AATATTAAATTAAATAA
Found at i:2274777 original size:26 final size:25
Alignment explanation
Indices: 2274713--2274779 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
2274703 TGACTAAATT
*
2274713 ATAAATTATTAATATTTAAAAATAA
1 ATAAAATATTAATATTTAAAAATAA
* * *
2274738 ATAATCATAATAATATTTAAATTATAA
1 ATAA-AATATTAATATTTAAA-AATAA
2274765 ATAAAATATTAATAT
1 ATAAAATATTAATAT
2274780 GTTTAAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 4 0.12
26 22 0.65
27 8 0.24
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAAAATATTAATATTTAAAAATAA
Found at i:2277287 original size:45 final size:45
Alignment explanation
Indices: 2277238--2277332 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 45
2277228 ATATTACACA
* * *
2277238 TCATGATTAGGTTATTACGCGTCATATGTA-A-AAACATGTGACATT
1 TCATGATTAGGTTATGACACGTC--ATGTACAGAAACATGTGACATG
* *
2277283 TCATGGTTAGGTTGTGACACGTCATGTACAGAAACATGTGACATG
1 TCATGATTAGGTTATGACACGTCATGTACAGAAACATGTGACATG
2277328 TCATG
1 TCATG
2277333 TACAAAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
43 5 0.12
44 1 0.02
45 37 0.86
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (45 bp):
TCATGATTAGGTTATGACACGTCATGTACAGAAACATGTGACATG
Found at i:2277323 original size:24 final size:24
Alignment explanation
Indices: 2277295--2277355 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
2277285 ATGGTTAGGT
*
2277295 TGTGACACGTCATGTACAGAAACA
1 TGTGACACGTCATGTACAAAAACA
* *
2277319 TGTGACATGTCATGTACAAAAATA
1 TGTGACACGTCATGTACAAAAACA
*
2277343 TGTGACACTTCAT
1 TGTGACACGTCAT
2277356 AGTTAGGTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (24 bp):
TGTGACACGTCATGTACAAAAACA
Found at i:2277407 original size:29 final size:27
Alignment explanation
Indices: 2277366--2277503 Score: 92
Period size: 26 Copynumber: 5.1 Consensus size: 27
2277356 AGTTAGGTTG
* *
2277366 TTACACG-CTATGTTGAAAAAATACTGTTG
1 TTACACGTC-ATGTTAAAAAAATAC--TTA
* *
2277395 TTACACGTCATG-T-ACAAAA-ACATA
1 TTACACGTCATGTTAAAAAAATACTTA
* *
2277419 TTACACGTTATGGTTGAAAAAA-A-TTA
1 TTACACGTCAT-GTTAAAAAAATACTTA
* *
2277445 TTACACGCCATGTTAAAAAAAATATTATTA
1 TTACACGTCATGTT-AAAAAAATA--CTTA
2277475 TTACACGTCATGTTAAAAAAATA-TTA
1 TTACACGTCATGTTAAAAAAATACTTA
2277501 TTA
1 TTA
2277504 TTACACCTCA
Statistics
Matches: 90, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
24 11 0.12
25 4 0.04
26 26 0.29
27 12 0.13
28 1 0.01
29 19 0.21
30 17 0.19
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (27 bp):
TTACACGTCATGTTAAAAAAATACTTA
Found at i:2277422 original size:24 final size:23
Alignment explanation
Indices: 2277395--2277471 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 23
2277385 AATACTGTTG
*
2277395 TTACACGTCATGTACAAAAACATA
1 TTACACGTCATGTA-AAAAAAATA
* *
2277419 TTACACGTTATGGTTGAAAAAAATTA
1 TTACACGTCAT-G-T-AAAAAAAATA
*
2277445 TTACACGCCATGTTAAAAAAAATA
1 TTACACGTCATG-TAAAAAAAATA
2277469 TTA
1 TTA
2277472 TTATTACACG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
24 22 0.50
25 4 0.09
26 17 0.39
27 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.30
Consensus pattern (23 bp):
TTACACGTCATGTAAAAAAAATA
Found at i:2277504 original size:29 final size:29
Alignment explanation
Indices: 2277441--2277523 Score: 121
Period size: 29 Copynumber: 2.8 Consensus size: 29
2277431 GTTGAAAAAA
*
2277441 ATTATTACACGCCATGTTAAAAAAAATATT
1 ATTATTACACGTCATGTT-AAAAAAATATT
2277471 ATTATTACACGTCATGTTAAAAAAATATT
1 ATTATTACACGTCATGTTAAAAAAATATT
* * *
2277500 ATTATTACACCTCATATTCAAAAA
1 ATTATTACACGTCATGTTAAAAAA
2277524 CATTTTGTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (29 bp):
ATTATTACACGTCATGTTAAAAAAATATT
Done.