Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 125 of 204
Found at i:38770046 original size:19 final size:19
Alignment explanation
Indices: 38770022--38770058 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
38770012 ACAAAAATGA
*
38770022 TAAAAGTTAAAATGATAAT
1 TAAAAGTCAAAATGATAAT
38770041 TAAAAGTCAAAATGATAA
1 TAAAAGTCAAAATGATAA
38770059 AAATATTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.11, T:0.27
Consensus pattern (19 bp):
TAAAAGTCAAAATGATAAT
Found at i:38774365 original size:46 final size:46
Alignment explanation
Indices: 38774298--38774392 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
38774288 AGTTCTCCTT
* *
38774298 TCTCAACACATCGTATGTCTCGACACTAGCCCATAATTGTTTTAAC
1 TCTCAACACATCGTATGTCTCGACACCAGCCAATAATTGTTTTAAC
*
38774344 TCTCAGCACATCGTATGTCTCGACACCAGCCAATAATTGTTTTAAC
1 TCTCAACACATCGTATGTCTCGACACCAGCCAATAATTGTTTTAAC
38774390 TCT
1 TCT
38774393 TCAATAACTG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (46 bp):
TCTCAACACATCGTATGTCTCGACACCAGCCAATAATTGTTTTAAC
Found at i:38775722 original size:9 final size:9
Alignment explanation
Indices: 38775705--38775874 Score: 150
Period size: 9 Copynumber: 20.2 Consensus size: 9
38775695 TAACTATAAT
*
38775705 TAAGCTATG
1 TAAGTTATG
38775714 TAAGTTATG
1 TAAGTTATG
38775723 TAAGTTATG
1 TAAGTTATG
38775732 T-A-TTATG
1 TAAGTTATG
38775739 TAAGTTAT-
1 TAAGTTATG
*
38775747 TTA-TTATG
1 TAAGTTATG
*
38775755 -AATATTATG
1 TAA-GTTATG
38775764 TAAGTTATG
1 TAAGTTATG
38775773 T-A-TTATG
1 TAAGTTATG
* *
38775780 AAAATTATG
1 TAAGTTATG
*
38775789 TAAGTTGTG
1 TAAGTTATG
38775798 T-A-TTATG
1 TAAGTTATG
38775805 TAAGTTATG
1 TAAGTTATG
38775814 T-A-TTATG
1 TAAGTTATG
38775821 TAAGTTATG
1 TAAGTTATG
38775830 TAAGTTATG
1 TAAGTTATG
38775839 TAAGTTAT-
1 TAAGTTATG
*
38775847 TTA-TTATG
1 TAAGTTATG
* * *
38775855 AAAATTAAG
1 TAAGTTATG
38775864 TAAGTTATG
1 TAAGTTATG
38775873 TA
1 TA
38775875 TTATATTAAA
Statistics
Matches: 131, Mismatches: 16, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
7 31 0.24
8 13 0.10
9 85 0.65
10 2 0.02
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:38775739 original size:16 final size:16
Alignment explanation
Indices: 38775718--38775854 Score: 145
Period size: 16 Copynumber: 8.3 Consensus size: 16
38775708 GCTATGTAAG
38775718 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
38775734 TTATGTAAGTTATTTA
1 TTATGTAAGTTATGTA
*
38775750 TTATG-AATATTATGTAA
1 TTATGTAA-GTTATGT-A
*
38775767 GTTATGT-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
*
38775784 TTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTA
38775800 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
38775816 TTATGTAAGTTATGTAA
1 TTATGTAAGTTATGT-A
*
38775833 GTTATGTAAGTTATTTA
1 -TTATGTAAGTTATGTA
38775850 TTATG
1 TTATG
38775855 AAAATTAAGT
Statistics
Matches: 103, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.02
16 72 0.70
17 5 0.05
18 24 0.23
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.50
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:38775744 original size:25 final size:23
Alignment explanation
Indices: 38775710--38775878 Score: 118
Period size: 25 Copynumber: 7.1 Consensus size: 23
38775700 ATAATTAAGC
38775710 TATGTAAGTTATGTAAGTTATGTAT
1 TATGTAAGTTATGT-A-TTATGTAT
*
38775735 TATGTAAGTTATTTATTATGAATAT
1 TATGTAAGTTATGTATTATG--TAT
*
38775760 TATGTAAGTTATGTATTATGAAAAT
1 TATGTAAGTTATGTATTATG--TAT
*
38775785 TATGTAAGTTGTGTATTATGTAAGT
1 TATGTAAGTTATGTATTATGT-A-T
38775810 TATGT-A-TTATGTA--A-G--T
1 TATGTAAGTTATGTATTATGTAT
*
38775826 TATGTAAGTTATGTAAGTTATTTAT
1 TATGTAAGTTATGT-A-TTATGTAT
* * *
38775851 TATGAAAATTAAGTAAGTTATGTAT
1 TATGTAAGTTATGT-A-TTATGTAT
38775876 TAT
1 TAT
38775879 ATTAAAAATA
Statistics
Matches: 120, Mismatches: 11, Indels: 26
0.76 0.07 0.17
Matches are distributed among these distances:
16 6 0.05
17 1 0.01
18 6 0.05
19 1 0.01
20 1 0.01
21 1 0.01
22 1 0.01
23 11 0.09
24 3 0.03
25 89 0.74
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (23 bp):
TATGTAAGTTATGTATTATGTAT
Found at i:38775775 original size:41 final size:41
Alignment explanation
Indices: 38775718--38775840 Score: 178
Period size: 41 Copynumber: 3.0 Consensus size: 41
38775708 GCTATGTAAG
*
38775718 TTATGTAAGTTATGTATTATGTAAGTTAT-TTA-TTATGAATA
1 TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATG--TA
* * *
38775759 TTATGTAAGTTATGTATTATGAAAATTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTA
38775800 TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTA
38775841 AGTTATTTAT
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
41 67 0.92
42 2 0.03
43 4 0.05
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (41 bp):
TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTA
Found at i:38775991 original size:33 final size:32
Alignment explanation
Indices: 38775953--38776045 Score: 89
Period size: 34 Copynumber: 2.8 Consensus size: 32
38775943 AATTTTCAAT
38775953 ATATATTTAAAATATATTAAAAATACGGTAGAA
1 ATATATTTAAAATATATTAAAAATACGGTA-AA
** *
38775986 ATATATGTTAAAA-ATATATAAATTTACGTTAAA
1 ATATAT-TTAAAATATAT-TAAAAATACGGTAAA
* *
38776019 TTAAATTTAAAAATTATATTAAAAATA
1 ATATATTT-AAAA-TATATTAAAAATA
38776046 TATATTAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
32 2 0.04
33 20 0.42
34 22 0.46
35 4 0.08
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (32 bp):
ATATATTTAAAATATATTAAAAATACGGTAAA
Found at i:38776042 original size:12 final size:13
Alignment explanation
Indices: 38776025--38776054 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
38776015 TAAATTAAAT
38776025 TTAAAAAT-TATA
1 TTAAAAATATATA
38776037 TTAAAAATATATA
1 TTAAAAATATATA
38776050 TTAAA
1 TTAAA
38776055 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAAAAATATATA
Found at i:38776060 original size:20 final size:20
Alignment explanation
Indices: 38776037--38776090 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 20
38776027 AAAAATTATA
38776037 TTAAAAATATATATTAAATT
1 TTAAAAATATATATTAAATT
*
38776057 TTAAAAAAATATAAATTAAATT
1 TT--AAAAATATATATTAAATT
*
38776079 TTAAAAGTATAT
1 TTAAAAATATAT
38776091 GCATATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 10 0.34
22 19 0.66
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
TTAAAAATATATATTAAATT
Found at i:38776090 original size:22 final size:22
Alignment explanation
Indices: 38776039--38776084 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
38776029 AAATTATATT
*
38776039 AAAAATATATATTAAATTTTAA
1 AAAAATATAAATTAAATTTTAA
38776061 AAAAATATAAATTAAATTTTAA
1 AAAAATATAAATTAAATTTTAA
38776083 AA
1 AA
38776085 GTATATGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAAATATAAATTAAATTTTAA
Found at i:38776384 original size:22 final size:22
Alignment explanation
Indices: 38776359--38776400 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
38776349 TAATTAAGTT
38776359 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
*
38776381 ATGTAAGTTATGTATTATAT
1 ATGTAAGTTATGTATAATAT
38776401 AATAACAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:38777319 original size:12 final size:12
Alignment explanation
Indices: 38777299--38777338 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
38777289 CAAATAGTTT
*
38777299 CAAACTTATGAA
1 CAAAATTATGAA
*
38777311 CAAAATTATTAA
1 CAAAATTATGAA
*
38777323 CAAAATTATGAG
1 CAAAATTATGAA
38777335 CAAA
1 CAAA
38777339 CAGTATTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.25
Consensus pattern (12 bp):
CAAAATTATGAA
Found at i:38777349 original size:24 final size:24
Alignment explanation
Indices: 38777299--38777346 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
38777289 CAAATAGTTT
* *
38777299 CAAACTTATGAACAAAATTATTAA
1 CAAAATTATGAACAAAAGTATTAA
*
38777323 CAAAATTATGAGCAAACAGTATTA
1 CAAAATTATGAACAAA-AGTATTA
38777347 CAAGCCTGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.27
Consensus pattern (24 bp):
CAAAATTATGAACAAAAGTATTAA
Found at i:38777404 original size:12 final size:12
Alignment explanation
Indices: 38777387--38777412 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38777377 ACAGGATAGT
38777387 CAAAATTATGAA
1 CAAAATTATGAA
38777399 CAAAATTATGAA
1 CAAAATTATGAA
38777411 CA
1 CA
38777413 GTTTCAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.23
Consensus pattern (12 bp):
CAAAATTATGAA
Found at i:38778766 original size:22 final size:21
Alignment explanation
Indices: 38778740--38778802 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 21
38778730 ACCCAAAGCA
*
38778740 CTAAATCCCTAACTCCTAACC
1 CTAAATCCCTAACCCCTAACC
* *
38778761 CTTAAATCCCAAACCCCAAACC
1 C-TAAATCCCTAACCCCTAACC
* *
38778783 CCAAACCCCTAACCCCTAAC
1 CTAAATCCCTAACCCCTAAC
38778803 TAATAAACCT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 16 0.47
22 18 0.53
ACGTcount: A:0.37, C:0.48, G:0.00, T:0.16
Consensus pattern (21 bp):
CTAAATCCCTAACCCCTAACC
Found at i:38778778 original size:7 final size:7
Alignment explanation
Indices: 38778768--38778798 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
38778758 ACCCTTAAAT
38778768 CCCAAAC
1 CCCAAAC
38778775 CCCAAAC
1 CCCAAAC
38778782 CCCAAAC
1 CCCAAAC
*
38778789 CCCTAAC
1 CCCAAAC
38778796 CCC
1 CCC
38778799 TAACTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.35, C:0.61, G:0.00, T:0.03
Consensus pattern (7 bp):
CCCAAAC
Found at i:38778799 original size:7 final size:7
Alignment explanation
Indices: 38778746--38778802 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
38778736 AGCACTAAAT
38778746 CCCTAAC
1 CCCTAAC
*
38778753 TCCTAAC
1 CCCTAAC
* *
38778760 CCTTAAAT
1 CCCT-AAC
*
38778768 CCCAAAC
1 CCCTAAC
*
38778775 CCCAAAC
1 CCCTAAC
*
38778782 CCCAAAC
1 CCCTAAC
38778789 CCCTAAC
1 CCCTAAC
38778796 CCCTAAC
1 CCCTAAC
38778803 TAATAAACCT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 37 0.90
8 4 0.10
ACGTcount: A:0.35, C:0.51, G:0.00, T:0.14
Consensus pattern (7 bp):
CCCTAAC
Found at i:38778852 original size:14 final size:15
Alignment explanation
Indices: 38778835--38778867 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
38778825 CTTAAATCAA
38778835 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
38778849 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
38778864 AATC
1 AATC
38778868 TATAAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:38779303 original size:41 final size:41
Alignment explanation
Indices: 38779246--38779565 Score: 347
Period size: 41 Copynumber: 7.8 Consensus size: 41
38779236 AAATGTTTTT
* *
38779246 GCGGCGCTTCTACAAAAACGCCGCTAAAGGCCCGAGCATTA
1 GCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATTA
* * *
38779287 GCGGCACTTATTCAAAAACGCCGCTAAAGGCCCGACCACTA
1 GCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATTA
* *
38779328 GCGGCGCTTATTCAAAAACGTCGCTAAAGGCCCGACCATTA
1 GCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATTA
* * *
38779369 GTGGTGCTTCA-TCAAAAACGTCGCTAAAGGCCCGAGCATTA
1 GCGGCGCTT-ATTCAAAAACGCCGCTAAAGGCCCGAGCATTA
* *
38779410 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCAAGCATTA
1 GCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATTA
* * * * * *
38779451 GTGGCGATT-TTGAATAAGCTCCGCTAAAGGCCAGAGCATTA
1 GCGGCGCTTATTCAA-AAACGCCGCTAAAGGCCCGAGCATTA
* ** * * *
38779492 GCGGCGATGCTTAAAAAACACAGCTAAAGGCCCGAGCATTA
1 GCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATTA
* * * * *
38779533 GCGGCGCTTCTTAAAAAATGCCACTACAGGCCC
1 GCGGCGCTTATTCAAAAACGCCGCTAAAGGCCC
38779566 CAAAAACTCA
Statistics
Matches: 238, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
40 4 0.02
41 229 0.96
42 5 0.02
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.18
Consensus pattern (41 bp):
GCGGCGCTTATTCAAAAACGCCGCTAAAGGCCCGAGCATTA
Found at i:38779725 original size:40 final size:40
Alignment explanation
Indices: 38779625--38779734 Score: 100
Period size: 40 Copynumber: 2.8 Consensus size: 40
38779615 TGCAAAAAAT
* * *
38779625 GCCGCTAATGCTTG-TTTTTAGCGGCATTTTCTAACAATC
1 GCCGCTAATGCTAGATTTTTAGCGGCATTTTCGAACAAGC
* * **
38779664 GCCGCTAGTGCTCGACCTTTAGCGGTGC-TTTTCGAA-AAGC
1 GCCGCTAATGCTAGATTTTTAGC-G-GCATTTTCGAACAAGC
* *
38779704 GCCGCTAATGCTAGATTTTTAGTGGCGTTTT
1 GCCGCTAATGCTAGATTTTTAGCGGCATTTT
38779735 TTGTCCAATC
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
38 2 0.04
39 17 0.30
40 27 0.48
41 8 0.14
42 2 0.04
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (40 bp):
GCCGCTAATGCTAGATTTTTAGCGGCATTTTCGAACAAGC
Found at i:38784935 original size:27 final size:27
Alignment explanation
Indices: 38784905--38784956 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
38784895 ATCTTCTAAG
38784905 GGTATAATAGTCATTTTACCCTATGAA
1 GGTATAATAGTCATTTTACCCTATGAA
** *
38784932 GGTATTTTGGTCATTTTACCCTATG
1 GGTATAATAGTCATTTTACCCTATG
38784957 GGGGTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.42
Consensus pattern (27 bp):
GGTATAATAGTCATTTTACCCTATGAA
Found at i:38784962 original size:27 final size:27
Alignment explanation
Indices: 38784914--38785375 Score: 465
Period size: 27 Copynumber: 17.4 Consensus size: 27
38784904 GGGTATAATA
**
38784914 GTCATTTTACCCTATGAAGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
38784941 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
* *
38784968 GTCATTCTAACCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
* * **
38784995 ATCATTTTACCGTATGGGGGTATTTAA
1 GTCATTTTACCCTATGGGGGTATTTTG
*
38785022 ATCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
* * *
38785049 GTCATTCTAACCTATGGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGGTATTTTG
* * * **
38785077 ATCATCTTACCATATGGGGGTATTTAA
1 GTCATTTTACCCTATGGGGGTATTTTG
* * *
38785104 ATTATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
* *
38785131 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTTG
* ** **
38785158 GTCATTTTACTCTATAAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTTG
* *
38785185 GTCATTTTACCATATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
*
38785212 GTCATTTTA-CC-A------TATTTCG
1 GTCATTTTACCCTATGGGGGTATTTTG
* * *
38785231 ATCATTCTACCCTATTGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
* *
38785258 GTTATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
* * **
38785285 GTCATTTTACGCTATGAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTTG
*
38785312 GTCATTTTACCATAT-GGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
* * *
38785338 GTCATTTTACCCTTTGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTTG
38785365 GTCATTTTACC
1 GTCATTTTACC
38785376 TATTTTAAGG
Statistics
Matches: 361, Mismatches: 64, Indels: 20
0.81 0.14 0.04
Matches are distributed among these distances:
19 13 0.04
20 2 0.01
21 1 0.00
25 1 0.00
26 22 0.06
27 301 0.83
28 21 0.06
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTTG
Found at i:38785236 original size:46 final size:46
Alignment explanation
Indices: 38785178--38785268 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
38785168 TCTATAAGGG
*
38785178 TATTTCAGTCATTTTACCATATAGGGGTATTTTGGTCATTTTACCA
1 TATTTCAGTCATTCTACCATATAGGGGTATTTTGGTCATTTTACCA
* * *
38785224 TATTTC-GATCATTCTACCCTATTGGGGTATTTTGGTTATTTTACC
1 TATTTCAG-TCATTCTACCATATAGGGGTATTTTGGTCATTTTACC
38785269 CTATGAGGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 1 0.03
46 39 0.98
ACGTcount: A:0.21, C:0.16, G:0.15, T:0.47
Consensus pattern (46 bp):
TATTTCAGTCATTCTACCATATAGGGGTATTTTGGTCATTTTACCA
Found at i:38785252 original size:73 final size:73
Alignment explanation
Indices: 38785151--38785294 Score: 191
Period size: 73 Copynumber: 2.0 Consensus size: 73
38785141 CCTATGAGGG
* * *
38785151 TATTTCGGTCATTTTACTCTATAAGGGTATTTCAGTCATTTTACCATAT-AGGGGTATTTTGGTC
1 TATTTCGATCATTCTACCCTATAAGGGTATTTCAGTCATTTTACCATATGA-GGGTATTTTGGTC
38785215 ATTTTACCA
65 ATTTTACCA
** ** * *
38785224 TATTTCGATCATTCTACCCTATTGGGGTATTTTGGTTATTTTACCCTATGAGGGTATTTTGGTCA
1 TATTTCGATCATTCTACCCTATAAGGGTATTTCAGTCATTTTACCATATGAGGGTATTTTGGTCA
38785289 TTTTAC
66 TTTTAC
38785295 GCTATGAGGG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
73 60 0.98
74 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.47
Consensus pattern (73 bp):
TATTTCGATCATTCTACCCTATAAGGGTATTTCAGTCATTTTACCATATGAGGGTATTTTGGTCA
TTTTACCA
Found at i:38785305 original size:127 final size:126
Alignment explanation
Indices: 38785111--38785348 Score: 415
Period size: 127 Copynumber: 1.9 Consensus size: 126
38785101 TAAATTATTT
*
38785111 TACCCTATGAGGGTATTTTGGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACTCTATAAG
1 TACCCTATGAGGGTATTTTGGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACGCTATAAG
38785176 GGTATTTCAGTCATTTTACCATATAGGGGTATTTTGGTCATTTTACCATATTTCGATCATTC
66 GGTATTTCAGTCATTTTACCATAT-GGGGTATTTTGGTCATTTTACCATATTTCGATCATTC
* * *
38785238 TACCCTATTG-GGGTATTTTGGTTATTTTACCCTATGAGGGTATTTTGGTCATTTTACGCTATGA
1 TACCCTA-TGAGGGTATTTTGGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACGCTATAA
38785302 GGGTATTTCAGTCATTTTACCATATGGGGTATTTTGGTCATTTTACC
65 GGGTATTTCAGTCATTTTACCATATGGGGTATTTTGGTCATTTTACC
38785349 CTTTGAGGGT
Statistics
Matches: 106, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
126 22 0.21
127 82 0.77
128 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.44
Consensus pattern (126 bp):
TACCCTATGAGGGTATTTTGGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACGCTATAAG
GGTATTTCAGTCATTTTACCATATGGGGTATTTTGGTCATTTTACCATATTTCGATCATTC
Found at i:38785306 original size:100 final size:100
Alignment explanation
Indices: 38785132--38785326 Score: 261
Period size: 100 Copynumber: 1.9 Consensus size: 100
38785122 GGTATTTTGG
* *
38785132 TCATTTTACCCTATGAGGGTATTTCGGTCATTTTACTCTATAAGGGTATTTCAGTCATTTTACCA
1 TCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTCAGTCATTTTACCA
**
38785197 TATAGGGGTATTTTGGTCATTTTACCATATTTCGA
66 TATAGGGGTATTTCAGTCATTTTACCATATTTCGA
* * * **
38785232 TCATTCTACCCTATTG-GGGTATTTTGGTTATTTTACCCTATGAGGGTATTTTGGTCATTTTACG
1 TCATTCTACCCTA-TGAGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTCAGTCATTTTAC-
38785296 C-TAT-GAGGGTATTTCAGTCATTTTACCATAT
64 CATATAG-GGGTATTTCAGTCATTTTACCATAT
38785327 GGGGTATTTT
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
99 1 0.01
100 79 0.95
101 3 0.04
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.45
Consensus pattern (100 bp):
TCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTCAGTCATTTTACCA
TATAGGGGTATTTCAGTCATTTTACCATATTTCGA
Found at i:38785336 original size:80 final size:80
Alignment explanation
Indices: 38785224--38785378 Score: 233
Period size: 80 Copynumber: 1.9 Consensus size: 80
38785214 CATTTTACCA
* * *
38785224 TATTTCGATCATTCTACCCTATTGGGGTATTTTGGTTATTTTACCCTATGAGGGTATTTTGGTCA
1 TATTTCGATCATTCTACCATATTGGGGTATTTTGGTCATTTTACCCTATGAGGGTATTTCGGTCA
38785289 TTTTACGCTATGAGGG
66 TTTTAC-CTATGAGGG
* *
38785305 TATTTC-AGTCATTTTACCATA-TGGGGTATTTTGGTCATTTTACCCTTTGAGGGTATTTCGGTC
1 TATTTCGA-TCATTCTACCATATTGGGGTATTTTGGTCATTTTACCCTATGAGGGTATTTCGGTC
38785368 ATTTTACCTAT
65 ATTTTACCTAT
38785379 TTTAAGGTCT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
79 4 0.06
80 47 0.69
81 17 0.25
ACGTcount: A:0.19, C:0.15, G:0.20, T:0.46
Consensus pattern (80 bp):
TATTTCGATCATTCTACCATATTGGGGTATTTTGGTCATTTTACCCTATGAGGGTATTTCGGTCA
TTTTACCTATGAGGG
Found at i:38785344 original size:53 final size:54
Alignment explanation
Indices: 38785232--38785375 Score: 193
Period size: 53 Copynumber: 2.7 Consensus size: 54
38785222 CATATTTCGA
* ** * *
38785232 TCATTCTACCCTATTG-GGGTATTTTGGTTATTTTACCCTATGAGGGTATTTTGG
1 TCATTTTACCCTA-TGAGGGTATTTCAGTCATTTTACCATATGAGGGTATTTTGG
*
38785286 TCATTTTACGCTATGAGGGTATTTCAGTCATTTTACCATATG-GGGTATTTTGG
1 TCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCATATGAGGGTATTTTGG
* *
38785339 TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACC
1 TCATTTTACCCTATGAGGGTATTTCAGTCATTTTACC
38785376 TATTTTAAGG
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 47 0.59
54 33 0.41
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.45
Consensus pattern (54 bp):
TCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCATATGAGGGTATTTTGG
Found at i:38789114 original size:13 final size:12
Alignment explanation
Indices: 38789089--38789181 Score: 52
Period size: 13 Copynumber: 7.4 Consensus size: 12
38789079 ATTATAGTGC
38789089 ATAATAAAATAAA
1 ATAA-AAAATAAA
38789102 ATAAAAAACTAAA
1 ATAAAAAA-TAAA
38789115 A-AAAACAA-AAGCA
1 ATAAAA-AATAA--A
38789128 A-AAGAAAA-AAA
1 ATAA-AAAATAAA
*
38789139 ATATAAATATAAA
1 ATA-AAAAATAAA
38789152 ATATAAAAAT-AA
1 ATA-AAAAATAAA
*
38789164 ATAAAATATAAA
1 ATAAAAAATAAA
38789176 ACTAAA
1 A-TAAA
38789182 TGAAATCACT
Statistics
Matches: 67, Mismatches: 3, Indels: 20
0.74 0.03 0.22
Matches are distributed among these distances:
11 9 0.13
12 20 0.30
13 36 0.54
14 2 0.03
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.17
Consensus pattern (12 bp):
ATAAAAAATAAA
Found at i:38789146 original size:6 final size:6
Alignment explanation
Indices: 38789137--38789175 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
38789127 AAAAGAAAAA
*
38789137 AAATAT AAATAT AAAATAT AAAAAT AAATA- AAATAT AAA
1 AAATAT AAATAT -AAATAT AAATAT AAATAT AAATAT AAA
38789176 ACTAAATGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 5 0.17
6 18 0.62
7 6 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (6 bp):
AAATAT
Found at i:38789152 original size:15 final size:14
Alignment explanation
Indices: 38789133--38789175 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
38789123 AAGCAAAAGA
38789133 AAAAAAATATAAAT
1 AAAAAAATATAAAT
* *
38789147 ATAAAATATAAAAAT
1 A-AAAAAATATAAAT
38789162 AAATAAAATATAAA
1 AAA-AAAATATAAA
38789176 ACTAAATGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 3 0.13
15 20 0.87
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAAAATATAAAT
Found at i:38789167 original size:17 final size:17
Alignment explanation
Indices: 38789147--38789187 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
38789137 AAATATAAAT
38789147 ATAAAATATAAAAATAA
1 ATAAAATATAAAAATAA
*
38789164 ATAAAATATAAAACTAA
1 ATAAAATATAAAAATAA
*
38789181 ATGAAAT
1 ATAAAAT
38789188 CACTTTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (17 bp):
ATAAAATATAAAAATAA
Found at i:38790577 original size:19 final size:19
Alignment explanation
Indices: 38790553--38790665 Score: 145
Period size: 19 Copynumber: 5.8 Consensus size: 19
38790543 AATTTTTGAG
*
38790553 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
* *
38790572 GATATGCAATCCTAGAGAT
1 GATATGCAATCTTAGATAT
38790591 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
38790610 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
* ** *
38790631 GATGTATAATTTTAGATAT
1 GATATGCAATCTTAGATAT
38790650 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
38790666 ATATATGATT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
19 60 0.76
21 19 0.24
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:38790625 original size:59 final size:59
Alignment explanation
Indices: 38790554--38790665 Score: 161
Period size: 59 Copynumber: 1.9 Consensus size: 59
38790544 ATTTTTGAGG
* *
38790554 ATATGCAATCTTATATATGATATGCAATCCTAGAGATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATACAATCCTAGAGATGATATGCAATCTTAGATATGAT
* * ** *
38790613 ATATGCAATCTTAGATATGATGTATAATTTTAGATATGATATGCAATCTTAGA
1 ATATGCAATCTTAGATATGATATACAATCCTAGAGATGATATGCAATCTTAGA
38790666 ATATATGATT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 46 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (59 bp):
ATATGCAATCTTAGATATGATATACAATCCTAGAGATGATATGCAATCTTAGATATGAT
Found at i:38791952 original size:98 final size:98
Alignment explanation
Indices: 38791847--38792043 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
38791837 TAAAAAATCA
* * * *
38791847 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTATAATTTC
38791912 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
38791945 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTATAATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTATAATTTC
38792010 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
38792043 T
1 T
38792044 TTTATTGTAT
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTATAATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:38793731 original size:32 final size:32
Alignment explanation
Indices: 38793695--38793785 Score: 164
Period size: 32 Copynumber: 2.8 Consensus size: 32
38793685 TAAATTATGT
38793695 TAATATCTCTTTCGAGAGTAAGAGCAAAATGC
1 TAATATCTCTTTCGAGAGTAAGAGCAAAATGC
*
38793727 TAATATCTCTTTCGAGAGTAAGAGCAAAATGT
1 TAATATCTCTTTCGAGAGTAAGAGCAAAATGC
*
38793759 TAATATCTCTTTCGAAAGTAAGAGCAA
1 TAATATCTCTTTCGAGAGTAAGAGCAA
38793786 CTAACTCTAG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 57 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (32 bp):
TAATATCTCTTTCGAGAGTAAGAGCAAAATGC
Found at i:38801204 original size:27 final size:27
Alignment explanation
Indices: 38801026--38801195 Score: 214
Period size: 27 Copynumber: 6.3 Consensus size: 27
38801016 GATTTATAGG
* * **
38801026 AAAATGACCAAAATACCACCGGAGGGT
1 AAAATGACCGAAATACCCCCAAAGGGT
* * * *
38801053 AAAATGACCAAAATATCCTCAAACGGT
1 AAAATGACCGAAATACCCCCAAAGGGT
38801080 AAAATGACCGAAATACCCCCAAAGGGT
1 AAAATGACCGAAATACCCCCAAAGGGT
* *
38801107 AAAATGACCGAAATACCCCTAGAGGGT
1 AAAATGACCGAAATACCCCCAAAGGGT
*
38801134 AAAATGACTGAAATACCCCCAAAGGGT
1 AAAATGACCGAAATACCCCCAAAGGGT
* * *
38801161 AAAATGACTGAAATACCCTCATAGGGT
1 AAAATGACCGAAATACCCCCAAAGGGT
38801188 AAAATGAC
1 AAAATGAC
38801196 TGTTATACCT
Statistics
Matches: 126, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.45, C:0.22, G:0.18, T:0.15
Consensus pattern (27 bp):
AAAATGACCGAAATACCCCCAAAGGGT
Found at i:38804282 original size:13 final size:13
Alignment explanation
Indices: 38804264--38804288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38804254 TTAAAACTAA
38804264 AATTAACTAAATT
1 AATTAACTAAATT
38804277 AATTAACTAAAT
1 AATTAACTAAAT
38804289 AACACAACAA
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:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTAACTAAATT
Found at i:38807308 original size:33 final size:33
Alignment explanation
Indices: 38807271--38807535 Score: 243
Period size: 33 Copynumber: 8.0 Consensus size: 33
38807261 TCAACATAAG
* * *
38807271 TGATTGGAACATCTATCAAGGAAGCTTCATAAA
1 TGATTGGAACATCTATCAGGGAAGCTTCATCAT
* * *
38807304 TGATTGGAACATCTATCATGGCAGTTTCATCAT
1 TGATTGGAACATCTATCAGGGAAGCTTCATCAT
* * *
38807337 TGATTGGAACATCTATCAGGGCAA-CTTCGTTAA
1 TGATTGGAACATCTATCAGGG-AAGCTTCATCAT
* * *
38807370 TGATTGAAACATCTA-CCGGGACAACTTCATCAT
1 TGATTGGAACATCTATCAGGGA-AGCTTCATCAT
* *
38807403 TTATTGGAACATCTATC-GAGGCAGCTTCATCAT
1 TGATTGGAACATCTATCAG-GGAAGCTTCATCAT
* * * * *
38807436 TGATTGGAAAATTTATCAGGGTAGGC-TCGTCAA
1 TGATTGGAACATCTATCAGGG-AAGCTTCATCAT
*
38807469 TGATTGGAACATCTATCAGGGCAGCTTCATCAT
1 TGATTGGAACATCTATCAGGGAAGCTTCATCAT
* * *
38807502 TGATAGGATCATCTA-CTAGGGCAGCTTCATCAT
1 TGATTGGAACATCTATC-AGGGAAGCTTCATCAT
38807535 T
1 T
38807536 TTGTTTGATT
Statistics
Matches: 188, Mismatches: 35, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
31 1 0.01
32 8 0.04
33 172 0.91
34 7 0.04
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (33 bp):
TGATTGGAACATCTATCAGGGAAGCTTCATCAT
Found at i:38807442 original size:99 final size:99
Alignment explanation
Indices: 38807271--38807535 Score: 297
Period size: 99 Copynumber: 2.7 Consensus size: 99
38807261 TCAACATAAG
* * * * * *
38807271 TGATTGGAACATCTATCAAGG-AAGCTTCATAAATGATTGGAACATCTATCATGGCAGTTTCATC
1 TGATTGAAACATCTATCAGGGCAA-CTTCATCATTGATTGGAACATCTATCAGGGCAGCTTCATC
* *
38807335 ATTGATTGGAACATCTATCAGGGCA-ACTTCGTTAA
65 ATTGATTGGAAAATCTATCAGGGCAGAC-TCGTCAA
* *
38807370 TGATTGAAACATCTA-CCGGGACAACTTCATCATTTATTGGAACATCTATC-GAGGCAGCTTCAT
1 TGATTGAAACATCTATCAGGG-CAACTTCATCATTGATTGGAACATCTATCAG-GGCAGCTTCAT
* * *
38807433 CATTGATTGGAAAATTTATCAGGGTAGGCTCGTCAA
64 CATTGATTGGAAAATCTATCAGGGCAGACTCGTCAA
* * * *
38807469 TGATTGGAACATCTATCAGGGCAGCTTCATCATTGATAGGATCATCTA-CTAGGGCAGCTTCATC
1 TGATTGAAACATCTATCAGGGCAACTTCATCATTGATTGGAACATCTATC-AGGGCAGCTTCATC
38807533 ATT
65 ATT
38807536 TTGTTTGATT
Statistics
Matches: 140, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
98 4 0.03
99 128 0.91
100 8 0.06
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (99 bp):
TGATTGAAACATCTATCAGGGCAACTTCATCATTGATTGGAACATCTATCAGGGCAGCTTCATCA
TTGATTGGAAAATCTATCAGGGCAGACTCGTCAA
Found at i:38811532 original size:29 final size:29
Alignment explanation
Indices: 38811490--38811546 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
38811480 AATAATATTG
*
38811490 TACTCTTCTATCTACCAGCAATTGTGCTT
1 TACTCTTCTATCTACCAACAATTGTGCTT
38811519 TACTCTTCTATCTACCAACAATTGTGCT
1 TACTCTTCTATCTACCAACAATTGTGCT
38811547 AACTTATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (29 bp):
TACTCTTCTATCTACCAACAATTGTGCTT
Found at i:38813292 original size:5 final size:5
Alignment explanation
Indices: 38813282--38813310 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
38813272 TATCGTACTT
38813282 ACCTC ACCTC ACCTC ACCTC ACCTC ACCT
1 ACCTC ACCTC ACCTC ACCTC ACCTC ACCT
38813311 TGTGGCTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.59, G:0.00, T:0.21
Consensus pattern (5 bp):
ACCTC
Found at i:38815746 original size:27 final size:26
Alignment explanation
Indices: 38815700--38815843 Score: 155
Period size: 27 Copynumber: 5.3 Consensus size: 26
38815690 CAGAAAGGTT
* *
38815700 GGTAAAATGACTGAACTACCCTCGAAG
1 GGTAAAATTACTGAAATACCC-CGAAG
* * *
38815727 GGTAAAATGACCGAATTACCCCCGAAG
1 GGTAAAATTACTGAAATA-CCCCGAAG
*
38815754 GGTAAAATTA-TCGAAATACCCTCGATG
1 GGTAAAATTACT-GAAATACCC-CGAAG
*
38815781 GGTAAAATTACTGAAATAACCCCGATG
1 GGTAAAATTACTGAAAT-ACCCCGAAG
*
38815808 GGTAAAATTACTGAAATACCCCCAATG
1 GGTAAAATTACTGAAATACCCCGAA-G
38815835 GGTAAAATT
1 GGTAAAATT
38815844 GACTATTATG
Statistics
Matches: 103, Mismatches: 8, Indels: 12
0.84 0.07 0.10
Matches are distributed among these distances:
26 9 0.09
27 86 0.83
28 8 0.08
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (26 bp):
GGTAAAATTACTGAAATACCCCGAAG
Found at i:38815774 original size:54 final size:54
Alignment explanation
Indices: 38815700--38815842 Score: 173
Period size: 54 Copynumber: 2.6 Consensus size: 54
38815690 CAGAAAGGTT
* * * *
38815700 GGTAAAATGACTGAACTACCCTCGAAGGGTAAAATGACCGAATTACCCCCGAAG
1 GGTAAAATTACTGAAATACCCTCGAAGGGTAAAATGACCGAAATAACCCCGAAG
* * * *
38815754 GGTAAAATTA-TCGAAATACCCTCGATGGGTAAAATTACTGAAATAACCCCGATG
1 GGTAAAATTACT-GAAATACCCTCGAAGGGTAAAATGACCGAAATAACCCCGAAG
*
38815808 GGTAAAATTACTGAAATACCC-CCAATGGGTAAAAT
1 GGTAAAATTACTGAAATACCCTCGAA-GGGTAAAAT
38815843 TGACTATTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
53 3 0.04
54 72 0.95
55 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (54 bp):
GGTAAAATTACTGAAATACCCTCGAAGGGTAAAATGACCGAAATAACCCCGAAG
Found at i:38822184 original size:27 final size:27
Alignment explanation
Indices: 38822146--38822594 Score: 400
Period size: 27 Copynumber: 16.7 Consensus size: 27
38822136 ATTCGTGGGC
38822146 AAATGACCGAAATACCCTCGAAAGGTA
1 AAATGACCGAAATACCCTCGAAAGGTA
*
38822173 AAATGACCGAAATACCCT-TAAAGGATA
1 AAATGACCGAAATACCCTCGAAAGG-TA
*
38822200 AAATGACCGAAATACCC-CTAAAGGTTA
1 AAATGACCGAAATACCCTCGAAAGG-TA
* *
38822227 AAATGACAGAAATA-CCTCTGAAGGGTA
1 AAATGACCGAAATACCCTC-GAAAGGTA
* * *
38822254 AAATGACTGAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCTCGAAAGGTA
* *
38822281 AAATGATCGAAATACCC-CTAAAAGGTA
1 AAATGACCGAAATACCCTC-GAAAGGTA
*
38822308 AAATGATCGAAATACCCTC-AAAGGGTA
1 AAATGACCGAAATACCCTCGAAA-GGTA
* * *
38822335 AAATGACC-AAA-ACTCCCCCAAAGGGGA
1 AAATGACCGAAATAC-CCTCGAAA-GGTA
* *
38822362 CAATGACCAAAATACCCTC-AAAGGGTA
1 AAATGACCGAAATACCCTCGAAA-GGTA
*
38822389 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAAGGTA
** * *
38822416 AAATGATTGAAATACCCCCGAATGGTA
1 AAATGACCGAAATACCCTCGAAAGGTA
**
38822443 AAATGATTGAAATATCCCT-GAAAGGTA
1 AAATGACCGAAATA-CCCTCGAAAGGTA
** **
38822470 AAATGACTAAAATACCCTCGATGGGTA
1 AAATGACCGAAATACCCTCGAAAGGTA
* *
38822497 AAATAACCGAAATATCCC-CAAAAGGTA
1 AAATGACCGAAATA-CCCTCGAAAGGTA
* * *
38822524 AAATGATC-AAAAACCCCCGAAAGGTA
1 AAATGACCGAAATACCCTCGAAAGGTA
* *
38822550 AAATGATCGAAATACCCTC-ATAGGGTA
1 AAATGACCGAAATACCCTCGA-AAGGTA
* *
38822577 AAATGACTGATATACCCT
1 AAATGACCGAAATACCCT
38822595 TAGGAGTTGA
Statistics
Matches: 356, Mismatches: 47, Indels: 38
0.81 0.11 0.09
Matches are distributed among these distances:
25 5 0.01
26 41 0.12
27 286 0.80
28 22 0.06
29 2 0.01
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAAGGTA
Found at i:38822283 original size:81 final size:80
Alignment explanation
Indices: 38822146--38822594 Score: 453
Period size: 81 Copynumber: 5.5 Consensus size: 80
38822136 ATTCGTGGGC
* * * *
38822146 AAATGACCGAAATACCCTCGAAAGGTAAAATGACCGAAATACCCTTAAAGGATAAAATGACCGAA
1 AAATGA-CGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGATCGAA
38822211 ATACCCCT-AAAGGTTA
65 ATACCCCTAAAAGG-TA
* **
38822227 AAATGACAGAAATA-CCTCTGAAGGGTAAAATGACTGAAATACCCTTGAAGGGTAAAATGATCGA
1 AAATGAC-GAAATACCCTC-GAAGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGATCGA
38822291 AATACCCCTAAAAGGTA
64 AATACCCCTAAAAGGTA
* * * * * * *
38822308 AAATGATCGAAATACCCTCAAAGGGTAAAATGACCAAAACT-CCCCCAAAGGGGACAATGACCAA
1 AAATGA-CGAAATACCCTCGAAGGGTAAAATGACCGAAA-TACCCTCAAAGGGTAAAATGATCGA
*
38822372 AATA-CCCTCAAAGGGTA
64 AATACCCCT-AAAAGGTA
** * * * *
38822389 AAATGACCGAAATACCCTCGAAGGGTAAAATGATTGAAATACCCCCGAATGGTAAAATGATTGAA
1 AAATGA-CGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGATCGAA
* *
38822454 ATATCCCTGAAAGGTA
65 ATACCCCTAAAAGGTA
* * * *
38822470 AAATGACTAAAATACCCTCGATGGGTAAAATAACCGAAATATCCC-CAAAAGGTAAAATGATC-A
1 AAATGAC-GAAATACCCTCGAAGGGTAAAATGACCGAAATA-CCCTCAAAGGGTAAAATGATCGA
* **
38822533 AAAACCCCCGAAAGGTA
64 AATACCCCTAAAAGGTA
* *
38822550 AAATGATCGAAATACCCTC-ATAGGGTAAAATGACTGATATACCCT
1 AAATGA-CGAAATACCCTCGA-AGGGTAAAATGACCGAAATACCCT
38822595 TAGGAGTTGA
Statistics
Matches: 308, Mismatches: 46, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
79 4 0.01
80 58 0.19
81 228 0.74
82 18 0.06
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.18
Consensus pattern (80 bp):
AAATGACGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGATCGAAA
TACCCCTAAAAGGTA
Found at i:38822858 original size:26 final size:27
Alignment explanation
Indices: 38822794--38822869 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 27
38822784 ACTGTAGACC
** *
38822794 TACTGGTGGCTTTGCCACATATACTGT
1 TACTGGTGGCTTTGCTGCATATACTAT
** *
38822821 TACTGGCAGCTTTGCTGCA-ATTCTAT
1 TACTGGTGGCTTTGCTGCATATACTAT
*
38822847 TACTGGTGGCTTTCCTGCGATAT
1 TACTGGTGGCTTTGCTGC-ATAT
38822870 TGGTGTATTG
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
26 20 0.53
27 16 0.42
28 2 0.05
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (27 bp):
TACTGGTGGCTTTGCTGCATATACTAT
Found at i:38827713 original size:20 final size:20
Alignment explanation
Indices: 38827679--38827732 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
38827669 TGAACCCTTC
*
38827679 CATTTACTTTA-TTTTCGTAT
1 CATTTAC-TTACTTTTCATAT
*
38827699 CATTTACTTACTTTTCATTT
1 CATTTACTTACTTTTCATAT
*
38827719 CGTTTACTTACTTT
1 CATTTACTTACTTT
38827733 AGCTTAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 3 0.10
20 27 0.90
ACGTcount: A:0.19, C:0.19, G:0.04, T:0.59
Consensus pattern (20 bp):
CATTTACTTACTTTTCATAT
Found at i:38828714 original size:138 final size:137
Alignment explanation
Indices: 38828462--38828730 Score: 330
Period size: 138 Copynumber: 2.0 Consensus size: 137
38828452 TAAATGGGTC
* * *
38828462 TGCTCACACAAGTTGACGAACGGAATATAGCTACACAATGTCGCTTACACAAGCTTACGAGTATC
1 TGCTCACACAAGTTGACGAACGGAATATAGCTACACAATGTCCCTTACACAAGCTGACGAATATC
* * * * *
38828527 CATAACAAATGTCAGAACTCAGCCATCAGAAGAACATTCAGGACTAGCACCCTG-AACATAGTAA
66 CACAACAAATGTCAGAACACAGCCATCACAAGAACATTCAAGACCAGCACCC-GAAACATAGTAA
38828591 CCTACATT
130 CCTACATT
* *
38828599 TGCTCACACAAGTTGAC-AGTCGGAATGTAAGCTACACAATG-CCCTTCACACAAGCTGACGAAT
1 TGCTCACACAAGTTGACGA-ACGGAATAT-AGCTACACAATGTCCCTT-ACACAAGCTGACGAAT
* * ** *
38828662 ATCTACAACAAATGTC-GAACCACAGCCATCACTAGGGCATTCAAGACCAGCACCCGAAACATGG
63 ATCCACAACAAATGTCAGAA-CACAGCCATCACAAGAACATTCAAGACCAGCACCCGAAACATAG
38828726 TAACC
127 TAACC
38828731 ATAATGACAT
Statistics
Matches: 112, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
136 1 0.01
137 32 0.29
138 79 0.71
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.19
Consensus pattern (137 bp):
TGCTCACACAAGTTGACGAACGGAATATAGCTACACAATGTCCCTTACACAAGCTGACGAATATC
CACAACAAATGTCAGAACACAGCCATCACAAGAACATTCAAGACCAGCACCCGAAACATAGTAAC
CTACATT
Found at i:38829120 original size:17 final size:19
Alignment explanation
Indices: 38829098--38829137 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
38829088 CATTTTTACA
38829098 AAATT-ACC-TTTTATTGC
1 AAATTAACCATTTTATTGC
38829115 AAATTAACCATTTTTATTGC
1 AAATTAACCA-TTTTATTGC
38829135 AAA
1 AAA
38829138 CCCATGCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 3 0.15
20 12 0.60
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (19 bp):
AAATTAACCATTTTATTGC
Found at i:38831378 original size:30 final size:31
Alignment explanation
Indices: 38831323--38831390 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
38831313 ACCCTTAAAA
** * **
38831323 TATTTACACTATTGGTCCTTCAAATTTTTCG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
38831354 TATTTACACT-TTAATCCCTCAAATTTTGAG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
38831384 TATTTAC
1 TATTTAC
38831391 TCTTGGGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.47
Consensus pattern (31 bp):
TATTTACACTATTAATCCCTCAAATTTTGAG
Found at i:38833923 original size:26 final size:27
Alignment explanation
Indices: 38833864--38833923 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
38833854 CTAATAGATG
38833864 AAAATGACCGTAATGCCCATGTAAGGT
1 AAAATGACCGTAATGCCCATGTAAGGT
* * *
38833891 AAAATGATCGTGATGCCCCTGT-AGGT
1 AAAATGACCGTAATGCCCATGTAAGGT
38833917 AAAATGA
1 AAAATGA
38833924 ATGTAATACC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 11 0.37
27 19 0.63
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (27 bp):
AAAATGACCGTAATGCCCATGTAAGGT
Found at i:38833938 original size:26 final size:27
Alignment explanation
Indices: 38833864--38833946 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
38833854 CTAATAGATG
* * * *
38833864 AAAATGACCGTAATGCCCATGTAAGGT
1 AAAATGATCGTAATACCCCTGTTAGGT
* *
38833891 AAAATGATCGTGATGCCCCTG-TAGGT
1 AAAATGATCGTAATACCCCTGTTAGGT
*
38833917 AAAATGAAT-GTAATACCTCTGTTAGGT
1 AAAATG-ATCGTAATACCCCTGTTAGGT
38833944 AAA
1 AAA
38833947 TTGACCGATA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 19 0.40
27 28 0.60
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (27 bp):
AAAATGATCGTAATACCCCTGTTAGGT
Found at i:38834032 original size:24 final size:24
Alignment explanation
Indices: 38833996--38834057 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
38833986 CCCCTCAAGG
** *
38833996 TTAAATGTTTGATTTGTCTGTGAT
1 TTAAATGACTGATTTGCCTGTGAT
38834020 TTAAATGACTGATTTGCCTGTGAT
1 TTAAATGACTGATTTGCCTGTGAT
**
38834044 TTGTATGACTGATT
1 TTAAATGACTGATT
38834058 CTGAGCATGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.23, C:0.08, G:0.21, T:0.48
Consensus pattern (24 bp):
TTAAATGACTGATTTGCCTGTGAT
Found at i:38834226 original size:26 final size:26
Alignment explanation
Indices: 38834191--38834293 Score: 127
Period size: 26 Copynumber: 4.0 Consensus size: 26
38834181 CTTGCCACGT
38834191 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* *
38834217 ATACTGTTACTGGCAGTTTTGTTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* *
38834243 TTACTGTTACTGGCAGCTTTACTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* * *
38834269 -TCATTATCACTGGCAGCTTTGCTGC
1 AT-ACTGTTACTGGCAGCTTTGCTGC
38834294 AATATTGGTG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
25 1 0.02
26 65 0.98
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:38840420 original size:67 final size:67
Alignment explanation
Indices: 38840311--38840440 Score: 197
Period size: 67 Copynumber: 1.9 Consensus size: 67
38840301 GACACACGGC
* * *
38840311 CGTGTCCCAGCCCGTGTCCGTGCCTATGTAACTCACTGACTTGGGTCTCACAGACAAGCCACAAG
1 CGTGTCCCAGCCCATGTCCGTGCCTATGTAACTCACTAACTTGGGTCACACAGACAAGCCACAAG
38840376 GG
66 GG
* * * *
38840378 CGTGTCCCGGCCCATGTCCGTGCCTGTGTAACTCACTAACTTGGGTCACACGGCCAAGCCACA
1 CGTGTCCCAGCCCATGTCCGTGCCTATGTAACTCACTAACTTGGGTCACACAGACAAGCCACA
38840441 CACCCGTGTG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 56 1.00
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.21
Consensus pattern (67 bp):
CGTGTCCCAGCCCATGTCCGTGCCTATGTAACTCACTAACTTGGGTCACACAGACAAGCCACAAG
GG
Found at i:38840449 original size:67 final size:67
Alignment explanation
Indices: 38840310--38840459 Score: 185
Period size: 67 Copynumber: 2.2 Consensus size: 67
38840300 GGACACACGG
* * *
38840310 CCGTGTCCCAGCCCGTGTCCGTGCCTATGTAACTCACTGACTTGGGTCTCACAGACAAGCCACAA
1 CCGTGTCCCAGCCCATGTCCGTGCCTATGTAACTCACTAACTTGGGTCACACAGACAAGCCACAA
*
38840375 GG
66 GC
* * * * *
38840377 GCGTGTCCCGGCCCATGTCCGTGCCTGTGTAACTCACTAACTTGGGTCACACGGCCAAGCCACAC
1 CCGTGTCCCAGCCCATGTCCGTGCCTATGTAACTCACTAACTTGGGTCACACAGACAAGCCACA-
38840442 A-C
65 AGC
* *
38840444 CCGTGTGCCAGGCCAT
1 CCGTGTCCCAGCCCAT
38840460 ATGCCCGTGT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
67 68 0.99
68 1 0.01
ACGTcount: A:0.19, C:0.36, G:0.25, T:0.20
Consensus pattern (67 bp):
CCGTGTCCCAGCCCATGTCCGTGCCTATGTAACTCACTAACTTGGGTCACACAGACAAGCCACAA
GC
Found at i:38842062 original size:21 final size:20
Alignment explanation
Indices: 38842011--38842062 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
38842001 TAAATAATAA
* *
38842011 TAATTTATTTAACCTAAAAT
1 TAATTTATTAAAACTAAAAT
* *
38842031 AAATTGGATTAAAACTAAAAT
1 TAATT-TATTAAAACTAAAAT
38842052 TAATTATATTA
1 TAATT-TATTA
38842063 TGAATTAATA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (20 bp):
TAATTTATTAAAACTAAAAT
Found at i:38843632 original size:20 final size:19
Alignment explanation
Indices: 38843605--38843646 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
38843595 CTTTCCAAAT
38843605 TTTCTTACTTT-CATTTGCA
1 TTTCTTACTTTCCA-TTGCA
38843624 TTTCATTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
38843644 TTT
1 TTT
38843647 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:38845187 original size:20 final size:19
Alignment explanation
Indices: 38845160--38845201 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
38845150 CTTTCCAAAT
38845160 TTTCTTACTTT-CATTTGCA
1 TTTCTTACTTTCCA-TTGCA
38845179 TTTCATTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
38845199 TTT
1 TTT
38845202 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:38847286 original size:39 final size:39
Alignment explanation
Indices: 38847212--38847395 Score: 201
Period size: 39 Copynumber: 4.6 Consensus size: 39
38847202 GCTACTCGTT
*
38847212 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATT-TAGTAACTCGCA
* *
38847252 CAATTGCCTTCGGGCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
* * *
38847291 CAAATGCCTTCGGGCTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
38847330 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGATTTAGTAAC-TCGCA
38847371 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
38847396 CATCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 67 0.55
40 46 0.38
41 8 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
Found at i:38847355 original size:79 final size:80
Alignment explanation
Indices: 38847212--38847393 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 80
38847202 GCTACTCGTT
* ** *
38847212 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGCTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGA
* *
38847277 TTTAGTAAC-TCGCA
66 TATAGTAACTTAGCA
* * **
38847291 CAAATGCCTTCGGG-CTTAGCCCAGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGG-GCTTAACCCG
* *
38847354 GATATGGTCACTTAGCA
64 GATATAGTAACTTAGCA
38847371 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
38847394 GACATCATTC
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 30 0.34
79 41 0.47
80 16 0.18
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:38855265 original size:79 final size:82
Alignment explanation
Indices: 38855154--38855338 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
38855144 GCTACTCGTT
* * *
38855154 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
38855217 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
38855234 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
38855297 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
38855314 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38855339 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:38855338 original size:40 final size:40
Alignment explanation
Indices: 38855135--38855338 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
38855125 CGGAATTTAA
** *
38855135 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
38855175 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
38855215 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38855254 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
38855294 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
38855334 CCGGA
1 CCGGA
38855339 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:38856906 original size:46 final size:47
Alignment explanation
Indices: 38856853--38856945 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 47
38856843 AGACAATAAA
38856853 TATCACATTCAAACATTTCGGTGACTCGGTTTAGCGGT-CCGAAACC
1 TATCACATTCAAACATTTCGGTGACTCGGTTTAGCGGTCCCGAAACC
38856899 TATCACATTCAAACATTTCGGTGACTCGGTTTAGCGGTCCCGAAACC
1 TATCACATTCAAACATTTCGGTGACTCGGTTTAGCGGTCCCGAAACC
38856946 ACTTCCCGAC
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 38 0.83
47 8 0.17
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (47 bp):
TATCACATTCAAACATTTCGGTGACTCGGTTTAGCGGTCCCGAAACC
Found at i:38857917 original size:20 final size:20
Alignment explanation
Indices: 38857894--38857931 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38857884 CCAAATTTTT
*
38857894 TTACTTTCATTTGCATTTCA
1 TTACTTTCAGTTGCATTTCA
*
38857914 TTACTTTCCGTTGCATTT
1 TTACTTTCAGTTGCATTT
38857932 ACTTTCTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.21, G:0.08, T:0.55
Consensus pattern (20 bp):
TTACTTTCAGTTGCATTTCA
Found at i:38859721 original size:27 final size:26
Alignment explanation
Indices: 38859543--38859723 Score: 209
Period size: 27 Copynumber: 6.7 Consensus size: 26
38859533 TTACACTGCT
* *
38859543 ATGACCGAAATACCCTCATAGGGTAGA
1 ATGA-CGAAATACCCCCATAGGGTAAA
* *
38859570 ATGACCAAACTACCCCCATAGGGAAAA
1 ATGACGAAA-TACCCCCATAGGGTAAA
*
38859597 ATGATCGAAATACCCCTATAGGGTAAA
1 ATGA-CGAAATACCCCCATAGGGTAAA
* *
38859624 ATGACTGAAATACCCCCATATGATAAA
1 ATGAC-GAAATACCCCCATAGGGTAAA
* * *
38859651 ATGACTGAAATTCCCCCATATGATAAA
1 ATGAC-GAAATACCCCCATAGGGTAAA
38859678 ATGACTGAAATACCCCCATAGGGTAAA
1 ATGAC-GAAATACCCCCATAGGGTAAA
38859705 ATGAACGAAATACCCCCAT
1 ATG-ACGAAATACCCCCAT
38859724 CGAAATACCC
Statistics
Matches: 136, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.04
27 125 0.92
28 6 0.04
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.19
Consensus pattern (26 bp):
ATGACGAAATACCCCCATAGGGTAAA
Found at i:38859721 original size:54 final size:54
Alignment explanation
Indices: 38859543--38860043 Score: 257
Period size: 54 Copynumber: 9.1 Consensus size: 54
38859533 TTACACTGCT
* * * * *
38859543 ATGACCGAAATACCCTCATAGGGTAGAATGAC-CAAACTACCCCCATAGGGAAAA
1 ATGAACGAAATACCCCCATAGGGTAAAATGACTGAAA-TACCCCCATAGGGTAAA
* * * *
38859597 ATGATCGAAATACCCCTATAGGGTAAAATGACTGAAATACCCCCATATGATAAA
1 ATGAACGAAATACCCCCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAA
* * *
38859651 ATG-ACTGAAATTCCCCCATATGATAAAATGACTGAAATACCCCCATAGGGTAAA
1 ATGAAC-GAAATACCCCCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAA
* ** * * * ** * * *
38859705 ATGAACGAAATACCCCCATCGAAATACCCCCATAAGGTAGAATGACCGAAATGCCC-CATAGGTT
1 ATGAACGAAATACCCCCATAG-GGTA-----A-AA--T-GACTGA--AATACCCCCATA-GGGTA
38859769 AA
53 AA
*** ** * * * * *
38859771 AATGACCGAA-ATACCCCCATAAGGTAAAATGACTGAAATACCTCCACAAGG-AAA
1 ATGAACGAAATA-CCCCC-ATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAA
* * * * * *
38859825 ATGACCGAAATATCCCTATAGGGTAAAAT-AATCGAAATACCCCTATAAGGTAAA
1 ATGAACGAAATACCCCCATAGGGTAAAATGACT-GAAATACCCCCATAGGGTAAA
** * *
38859879 ATGATTGAAATACCCCTATAGGGTAAAATGA-TCGAAATACCCCCGTAGGGTAAA
1 ATGAACGAAATACCCCCATAGGGTAAAATGACT-GAAATACCCCCATAGGGTAAA
* **
38859933 ATG-ACTGAAATATCCTAATAGGGTAAAATGA-TCGAAATA-CCCCATAGGGTAAA
1 ATGAAC-GAAATACCCCCATAGGGTAAAATGACT-GAAATACCCCCATAGGGTAAA
* * ** * * * *
38859986 ATGACCAAAATACCCTTACAAGGTAGAATGACCGAAATACCCCCATAGGGTAAA
1 ATGAACGAAATACCCCCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAA
38860040 ATGA
1 ATGA
38860044 TTGTTATATC
Statistics
Matches: 343, Mismatches: 77, Indels: 54
0.72 0.16 0.11
Matches are distributed among these distances:
52 2 0.01
53 67 0.20
54 212 0.62
55 17 0.05
56 2 0.01
57 5 0.01
58 1 0.00
60 3 0.01
61 3 0.01
63 1 0.00
64 5 0.01
65 2 0.01
66 21 0.06
67 2 0.01
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (54 bp):
ATGAACGAAATACCCCCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAA
Found at i:38859729 original size:14 final size:14
Alignment explanation
Indices: 38859710--38859737 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
38859700 GTAAAATGAA
38859710 CGAAATACCCCCAT
1 CGAAATACCCCCAT
38859724 CGAAATACCCCCAT
1 CGAAATACCCCCAT
38859738 AAGGTAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.43, G:0.07, T:0.14
Consensus pattern (14 bp):
CGAAATACCCCCAT
Found at i:38859749 original size:41 final size:41
Alignment explanation
Indices: 38859684--38859761 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
38859674 TAAAATGACT
*
38859684 GAAATACCCCCATAGGGTAAAATGAACGAAATACCCCCATC
1 GAAATACCCCCATAAGGTAAAATGAACGAAATACCCCCATC
* * *
38859725 GAAATACCCCCATAAGGTAGAATGACCGAAATGCCCC
1 GAAATACCCCCATAAGGTAAAATGAACGAAATACCCC
38859762 ATAGGTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.40, C:0.29, G:0.17, T:0.14
Consensus pattern (41 bp):
GAAATACCCCCATAAGGTAAAATGAACGAAATACCCCCATC
Found at i:38859783 original size:67 final size:68
Alignment explanation
Indices: 38859657--38859790 Score: 189
Period size: 67 Copynumber: 2.0 Consensus size: 68
38859647 TAAAATGACT
* * *
38859657 GAAATTCCCCCATATGATAAAATGACTGAAATACCCCCATAGGGTAAAATGAACGAAATACCCCC
1 GAAATACCCCCATAAGATAAAATGACCGAAATACCCCCATAGGGTAAAATGAACGAAATACCCCC
38859722 ATC
66 ATC
* * * * *
38859725 GAAATACCCCCATAAGGTAGAATGACCGAAAT-GCCCCATAGGTTAAAATGACCGAAATACCCCC
1 GAAATACCCCCATAAGATAAAATGACCGAAATACCCCCATAGGGTAAAATGAACGAAATACCCCC
38859789 AT
66 AT
38859791 AAGGTAAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
67 31 0.53
68 27 0.47
ACGTcount: A:0.40, C:0.27, G:0.15, T:0.18
Consensus pattern (68 bp):
GAAATACCCCCATAAGATAAAATGACCGAAATACCCCCATAGGGTAAAATGAACGAAATACCCCC
ATC
Found at i:38859787 original size:53 final size:53
Alignment explanation
Indices: 38859724--38860043 Score: 347
Period size: 53 Copynumber: 6.0 Consensus size: 53
38859714 ATACCCCCAT
* * * *
38859724 CGAAATACCCCCATAAGGTAGAATGACCGAAATGCCCCATAGGTTAAAATGAC
1 CGAAATACCCCTATAAGGTAAAATGACCGAAATACCCCATAGGGTAAAATGAC
* * * *
38859777 CGAAATACCCCCATAAGGTAAAATGACTGAAATACCTCCACAAGG-AAAATGAC
1 CGAAATACCCCTATAAGGTAAAATGACCGAAATACC-CCATAGGGTAAAATGAC
* * * * * *
38859830 CGAAATATCCCTATAGGGTAAAATAATCGAAATACCCCTATAAGGTAAAATGAT
1 CGAAATACCCCTATAAGGTAAAATGACCGAAATACCCC-ATAGGGTAAAATGAC
* * * *
38859884 TGAAATACCCCTATAGGGTAAAATGATCGAAATACCCCCGTAGGGTAAAATGAC
1 CGAAATACCCCTATAAGGTAAAATGACCGAAATA-CCCCATAGGGTAAAATGAC
* * * *
38859938 TGAAATA-TCCTAATAGGGTAAAATGATCGAAATACCCCATAGGGTAAAATGAC
1 CGAAATACCCCT-ATAAGGTAAAATGACCGAAATACCCCATAGGGTAAAATGAC
* * * *
38859991 CAAAATACCCTTACAAGGTAGAATGACCGAAATACCCCCATAGGGTAAAATGA
1 CGAAATACCCCTATAAGGTAAAATGACCGAAATA-CCCCATAGGGTAAAATGA
38860044 TTGTTATATC
Statistics
Matches: 230, Mismatches: 30, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
52 2 0.01
53 120 0.52
54 104 0.45
55 4 0.02
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.19
Consensus pattern (53 bp):
CGAAATACCCCTATAAGGTAAAATGACCGAAATACCCCATAGGGTAAAATGAC
Found at i:38859797 original size:94 final size:95
Alignment explanation
Indices: 38859630--38859812 Score: 262
Period size: 94 Copynumber: 1.9 Consensus size: 95
38859620 TAAAATGACT
* * * *
38859630 GAAATACCCCCATATGATAAAATGACTGAAATTCCCCCATATGATAAAATGACTGAAATACCCCC
1 GAAATACCCCCATAAGATAAAATGACCGAAATTCCCCCATAGGATAAAATGACCGAAATACCCCC
*
38859695 ATAGGGTAAAATGAAC-GAAATACCCCCATC
66 ATAAGGTAAAATG-ACTGAAATACCCCCATC
* * * *
38859725 GAAATACCCCCATAAGGTAGAATGACCGAAA-TGCCCCATAGGTTAAAATGACCGAAATACCCCC
1 GAAATACCCCCATAAGATAAAATGACCGAAATTCCCCCATAGGATAAAATGACCGAAATACCCCC
38859789 ATAAGGTAAAATGACTGAAATACC
66 ATAAGGTAAAATGACTGAAATACC
38859813 TCCACAAGGA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
93 2 0.03
94 49 0.63
95 27 0.35
ACGTcount: A:0.42, C:0.25, G:0.15, T:0.19
Consensus pattern (95 bp):
GAAATACCCCCATAAGATAAAATGACCGAAATTCCCCCATAGGATAAAATGACCGAAATACCCCC
ATAAGGTAAAATGACTGAAATACCCCCATC
Found at i:38859798 original size:27 final size:27
Alignment explanation
Indices: 38859724--38860043 Score: 324
Period size: 27 Copynumber: 12.0 Consensus size: 27
38859714 ATACCCCCAT
*
38859724 CGAAATACCCCCATAAGGTAGAATGAC
1 CGAAATACCCCCATAAGGTAAAATGAC
*
38859751 CGAAAT-GCCCCAT-AGGTTAAAATGAC
1 CGAAATACCCCCATAAGG-TAAAATGAC
38859777 CGAAATACCCCCATAAGGTAAAATGAC
1 CGAAATACCCCCATAAGGTAAAATGAC
* * *
38859804 TGAAATACCTCCACAAGG-AAAATGAC
1 CGAAATACCCCCATAAGGTAAAATGAC
* * * * *
38859830 CGAAATATCCCTATAGGGTAAAATAAT
1 CGAAATACCCCCATAAGGTAAAATGAC
* *
38859857 CGAAATACCCCTATAAGGTAAAATGAT
1 CGAAATACCCCCATAAGGTAAAATGAC
* * * *
38859884 TGAAATACCCCTATAGGGTAAAATGAT
1 CGAAATACCCCCATAAGGTAAAATGAC
* *
38859911 CGAAATACCCCCGTAGGGTAAAATGAC
1 CGAAATACCCCCATAAGGTAAAATGAC
* * ** * *
38859938 TGAAATATCCTAATAGGGTAAAATGAT
1 CGAAATACCCCCATAAGGTAAAATGAC
*
38859965 CGAAATA-CCCCATAGGGTAAAATGAC
1 CGAAATACCCCCATAAGGTAAAATGAC
* ** * *
38859991 CAAAATACCCTTACAAGGTAGAATGAC
1 CGAAATACCCCCATAAGGTAAAATGAC
*
38860018 CGAAATACCCCCATAGGGTAAAATGA
1 CGAAATACCCCCATAAGGTAAAATGA
38860044 TTGTTATATC
Statistics
Matches: 243, Mismatches: 45, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
25 3 0.01
26 62 0.26
27 175 0.72
28 3 0.01
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.19
Consensus pattern (27 bp):
CGAAATACCCCCATAAGGTAAAATGAC
Found at i:38859861 original size:80 final size:78
Alignment explanation
Indices: 38859725--38860044 Score: 345
Period size: 80 Copynumber: 4.0 Consensus size: 78
38859715 TACCCCCATC
* * *
38859725 GAAATACCCCCATAAGGTAGAATGACCGAAATGCCCCATAGGTTAAAATGACCGAAATACCCCCA
1 GAAATA-CCCCATAAGGTAAAATGACCGAAATACCCCATAGGGTAAAATGACCGAAATACCCCCA
38859790 TAAGGTAAAATGACT
65 TAAGGTAAAATGA-T
* * * * *
38859805 GAAATACCTCCACAAGG-AAAATGACCGAAATATCCCTATAGGGTAAAATAATCGAAATACCCCT
1 GAAATACC-CCATAAGGTAAAATGACCGAAATA-CCCCATAGGGTAAAATGACCGAAATACCCCC
38859869 ATAAGGTAAAATGATT
64 ATAAGGTAAAATGA-T
* * * * * **
38859885 GAAATACCCCTATAGGGTAAAATGATCGAAATACCCCCGTAGGGTAAAATGACTGAAATATCCTA
1 GAAATACCCC-ATAAGGTAAAATGACCGAAATA-CCCCATAGGGTAAAATGACCGAAATACCCCC
*
38859950 ATAGGGTAAAATGAT
64 ATAAGGTAAAATGAT
* * * * * *
38859965 CGAAATACCCCATAGGGTAAAATGACCAAAATACCCTTACAAGGTAGAATGACCGAAATACCCCC
1 -GAAATACCCCATAAGGTAAAATGACCGAAATACCC-CATAGGGTAAAATGACCGAAATACCCCC
*
38860030 ATAGGGTAAAATGAT
64 ATAAGGTAAAATGAT
38860045 TGTTATATCC
Statistics
Matches: 201, Mismatches: 33, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
79 20 0.10
80 121 0.60
81 60 0.30
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.20
Consensus pattern (78 bp):
GAAATACCCCATAAGGTAAAATGACCGAAATACCCCATAGGGTAAAATGACCGAAATACCCCCAT
AAGGTAAAATGAT
Found at i:38862283 original size:12 final size:12
Alignment explanation
Indices: 38862245--38862286 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
38862235 ATTTGTCATA
38862245 GAGAGATTTGAG
1 GAGAGATTTGAG
* *
38862257 GAGGGATATT-TG
1 GAGAGAT-TTGAG
38862269 GAGAGATTTGAG
1 GAGAGATTTGAG
38862281 GAGAGA
1 GAGAGA
38862287 ATATTGGGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.43, T:0.24
Consensus pattern (12 bp):
GAGAGATTTGAG
Found at i:38862293 original size:24 final size:24
Alignment explanation
Indices: 38862245--38862291 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
38862235 ATTTGTCATA
*
38862245 GAGAGATTTGAGGAGGGATATTTG
1 GAGAGATTTGAGGAGGAATATTTG
38862269 GAGAGATTTGAGGAGAGAATATT
1 GAGAGATTTGAGGAG-GAATATT
38862292 GGGATTTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.34, C:0.00, G:0.38, T:0.28
Consensus pattern (24 bp):
GAGAGATTTGAGGAGGAATATTTG
Found at i:38862947 original size:27 final size:27
Alignment explanation
Indices: 38862901--38863363 Score: 394
Period size: 27 Copynumber: 17.2 Consensus size: 27
38862891 TTACACTATT
* * *
38862901 ATGACTGAAATACCCTCATAGAGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * **
38862928 ATAATCGAAATACCCCCATAGAATAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
38862955 ATGTA-CAAAATACCCTCATAAGGTAAA
1 ATG-ACCGAAATACCCCCATAGGGTAAA
* * *
38862982 ATGACCAAAATACCCCCATAAGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
38863009 ATGACCGAAATACCCTCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
38863036 ATGACCAAAATA-CCCCATAAGATAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
***
38863062 ATGACCGAAATACCAATATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
38863089 ATGACCAAAATACCCTCC-CAGGGAAAA
1 ATGACCGAAATACCC-CCATAGGGTAAA
* * * *
38863116 ATGATCAAAATGCCCCAATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
38863143 ATGACCGAAATACCCCTATAGGTTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* ** *
38863170 ACGACTAAAATACCCCCATATGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
38863197 ATGATCGAAATATCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
38863224 ATGACCGAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
** * * *
38863251 ATGACTAAAATACCCTCACAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * * *
38863278 ATTA-CTAACATACCCCTATAGGGTAGA
1 ATGACCGAA-ATACCCCCATAGGGTAAA
* ** * *
38863305 ATGACTGAAATACCCTTATAAGCTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
38863332 ATGACCGAAATACCCCAATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
38863359 ATGAC
1 ATGAC
38863364 TGTTATATCC
Statistics
Matches: 347, Mismatches: 82, Indels: 14
0.78 0.19 0.03
Matches are distributed among these distances:
26 25 0.07
27 319 0.92
28 3 0.01
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.19
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAAA
Found at i:38869640 original size:20 final size:19
Alignment explanation
Indices: 38869613--38869654 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
38869603 TTTTCCAAAT
38869613 TTTCTTACTTT-CATTTGCA
1 TTTCTTACTTTCCA-TTGCA
38869632 TTTCATTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
38869652 TTT
1 TTT
38869655 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:38875330 original size:16 final size:16
Alignment explanation
Indices: 38875305--38875388 Score: 80
Period size: 16 Copynumber: 5.2 Consensus size: 16
38875295 TTTAGATTTG
38875305 AAACTATAGACTGTGA
1 AAACTATAGACTGTGA
* *
38875321 AAACTGTAGACTATGA
1 AAACTATAGACTGTGA
* * *
38875337 AAAATAATAGATTGAGA
1 AAACT-ATAGACTGTGA
*
38875354 CAACTATAGACTGTGA
1 AAACTATAGACTGTGA
*
38875370 AAACTCTAGA-TAGTGA
1 AAACTATAGACT-GTGA
38875386 AAA
1 AAA
38875389 TGATAGATAA
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
15 1 0.02
16 42 0.79
17 10 0.19
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.24
Consensus pattern (16 bp):
AAACTATAGACTGTGA
Found at i:38875347 original size:33 final size:33
Alignment explanation
Indices: 38875310--38875372 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
38875300 ATTTGAAACT
* *
38875310 ATAGACTGTGAAAACTGTAGACTATGAAAAATA
1 ATAGACTGAGAAAACTATAGACTATGAAAAATA
* * *
38875343 ATAGATTGAGACAACTATAGACTGTGAAAA
1 ATAGACTGAGAAAACTATAGACTATGAAAA
38875373 CTCTAGATAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.24
Consensus pattern (33 bp):
ATAGACTGAGAAAACTATAGACTATGAAAAATA
Found at i:38875359 original size:49 final size:49
Alignment explanation
Indices: 38875306--38875406 Score: 143
Period size: 49 Copynumber: 2.0 Consensus size: 49
38875296 TTAGATTTGA
*
38875306 AACTATAGACTGTGAAAACTGTAGACTA-TGAAAAATAATAGAT-TGAGAC
1 AACTATAGACTGTGAAAACTCTAGA-TAGTG-AAAATAATAGATATGAGAC
*
38875355 AACTATAGACTGTGAAAACTCTAGATAGTGAAAATGATAGATAATGAGAC
1 AACTATAGACTGTGAAAACTCTAGATAGTGAAAATAATAGAT-ATGAGAC
38875405 AA
1 AA
38875407 GTGTAAATTG
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
48 13 0.28
49 26 0.55
50 8 0.17
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.24
Consensus pattern (49 bp):
AACTATAGACTGTGAAAACTCTAGATAGTGAAAATAATAGATATGAGAC
Found at i:38877307 original size:14 final size:15
Alignment explanation
Indices: 38877288--38877316 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
38877278 CTCTTTGTTA
38877288 TTTCTTT-TCATTTT
1 TTTCTTTATCATTTT
38877302 TTTCTTTATCATTTT
1 TTTCTTTATCATTTT
38877317 ATTATGCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTCTTTATCATTTT
Found at i:38891581 original size:37 final size:37
Alignment explanation
Indices: 38891522--38891627 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
38891512 AGCTCAGACG
* * *
38891522 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
38891559 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
38891596 TAATCTCCACACGTAGTCATCGGGTCTTACCC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC
38891628 AGAATATATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:38891899 original size:47 final size:47
Alignment explanation
Indices: 38891837--38892511 Score: 990
Period size: 47 Copynumber: 14.1 Consensus size: 47
38891827 ACACGTTTCG
* * * **
38891837 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
38891884 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
38891931 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
38891978 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
38892031 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
38892078 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
38892129 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
38892176 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
38892223 CATTGGCCATTCGGCCTTATCACGCATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
38892270 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
38892321 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
38892368 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
38892415 CATTGGTCATTCGGCCTTATCACGCATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
38892462 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
38892509 CAT
1 CAT
38892512 AAAATCCTAA
Statistics
Matches: 572, Mismatches: 42, Indels: 28
0.89 0.07 0.04
Matches are distributed among these distances:
47 440 0.77
49 1 0.00
51 89 0.16
53 42 0.07
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.30
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:38892291 original size:192 final size:192
Alignment explanation
Indices: 38891837--38892489 Score: 1062
Period size: 192 Copynumber: 3.4 Consensus size: 192
38891827 ACACGTTTCG
* * * **
38891837 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * **
38891902 AT--CTC--ATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
66 ATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
* * * ** *
38891963 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCA
131 TGTTCACATCCATCACAGTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCA
38892028 TCA
190 TCA
38892031 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
38892096 ATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
66 ATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
38892161 TGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
131 TGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
38892223 CATTGGCCATTCGGCCTTATCACGCATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
38892288 ATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
66 ATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
38892353 TGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
131 TGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
38892415 CATTGGTCATTCGGCCTTATCACGCATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
38892480 ATCACACATA
66 ATCACACATA
38892490 CGCATGTTCA
Statistics
Matches: 438, Mismatches: 17, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
192 285 0.65
194 62 0.14
196 3 0.01
198 88 0.20
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (192 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
TGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:38895660 original size:18 final size:18
Alignment explanation
Indices: 38895626--38895683 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
38895616 CAATAAGTGC
*
38895626 CGTTTTGAAAATTAATAA
1 CGTTTTGAAAATGAATAA
38895644 CGTTTTGAAAGA-GAATAA
1 CGTTTTGAAA-ATGAATAA
* * *
38895662 C-TTTTGAATACGAATCA
1 CGTTTTGAAAATGAATAA
38895679 CGTTT
1 CGTTT
38895684 AAATTGATCG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.03
17 13 0.38
18 19 0.56
19 1 0.03
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (18 bp):
CGTTTTGAAAATGAATAA
Found at i:38901201 original size:34 final size:34
Alignment explanation
Indices: 38901162--38901230 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
38901152 CCTAAACCAA
38901162 ATTTTAGTATAAATTCAATCAATTTACCATTAAT
1 ATTTTAGTATAAATTCAATCAATTTACCATTAAT
38901196 ATTTTAGTATAAATTCAATCAATTTACCATTAAT
1 ATTTTAGTATAAATTCAATCAATTTACCATTAAT
38901230 A
1 A
38901231 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.43
Consensus pattern (34 bp):
ATTTTAGTATAAATTCAATCAATTTACCATTAAT
Found at i:38903685 original size:16 final size:16
Alignment explanation
Indices: 38903655--38903684 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
38903645 TAATATATAT
38903655 TTTTTCATTTTTTTTC
1 TTTTTCATTTTTTTTC
38903671 TTTTTC-TTTTTTTT
1 TTTTTCATTTTTTTT
38903685 TAAGAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTCATTTTTTTTC
Found at i:38908858 original size:14 final size:14
Alignment explanation
Indices: 38908839--38908867 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38908829 TAAAAATTAA
38908839 ATTAAAATAAAAAT
1 ATTAAAATAAAAAT
38908853 ATTAAAATAAAAAT
1 ATTAAAATAAAAAT
38908867 A
1 A
38908868 GCTAAATTAA
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
ATTAAAATAAAAAT
Found at i:38911821 original size:17 final size:17
Alignment explanation
Indices: 38911799--38911832 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38911789 GCACTAATAC
*
38911799 TAAAATGTAATGACAAT
1 TAAAATGCAATGACAAT
38911816 TAAAATGCAATGACAAT
1 TAAAATGCAATGACAAT
38911833 GTATACTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (17 bp):
TAAAATGCAATGACAAT
Found at i:38922546 original size:12 final size:12
Alignment explanation
Indices: 38922511--38922554 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
38922501 ACCATCTCTT
38922511 CTTTAACTATAA
1 CTTTAACTATAA
**
38922523 CTTGGA-TATAA
1 CTTTAACTATAA
38922534 CTTTAACTATAA
1 CTTTAACTATAA
38922546 CTTTAACTA
1 CTTTAACTA
38922555 ACATAGTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.41
Consensus pattern (12 bp):
CTTTAACTATAA
Found at i:38922701 original size:24 final size:26
Alignment explanation
Indices: 38922665--38922712 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
38922655 CCTCATATTC
38922665 TTTTCCAAATTAAACTCTG-TTATCT
1 TTTTCCAAATTAAACTCTGATTATCT
*
38922690 TTTTCC-AGTTAAACTCTGATTAT
1 TTTTCCAAATTAAACTCTGATTAT
38922713 TCCAGGGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.48
Consensus pattern (26 bp):
TTTTCCAAATTAAACTCTGATTATCT
Found at i:38923523 original size:14 final size:15
Alignment explanation
Indices: 38923504--38923533 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
38923494 TTCCAAGTTC
38923504 AAATTTTTTT-CTTT
1 AAATTTTTTTCCTTT
38923518 AAATTTTTTTCCTTT
1 AAATTTTTTTCCTTT
38923533 A
1 A
38923534 CTAAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (15 bp):
AAATTTTTTTCCTTT
Found at i:38926390 original size:27 final size:27
Alignment explanation
Indices: 38926369--38926607 Score: 302
Period size: 27 Copynumber: 8.9 Consensus size: 27
38926359 TGTATAACAG
*
38926369 TCATTTTACCCTATGGGGGTATTT-TA
1 TCATTTTACCCTATGGGGGTATTTCGA
*
38926395 GTCATTTTACCCTATGGGGGTATTT-TA
1 -TCATTTTACCCTATGGGGGTATTTCGA
*
38926422 GTCATTCTACCCTATGGGGGTATTTCGA
1 -TCATTTTACCCTATGGGGGTATTTCGA
* *
38926450 TCATTTTACCCAATAGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* * *
38926477 TCATTTTACCCCATAGGGGTATTTTGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
38926504 TCATTTTACCCTATAGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
38926531 TCATTCTATCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* ** *
38926558 TCATTTTACCTTATAAGGGTTTTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
38926585 TCATTTTACCCTATGGGGGTATT
1 TCATTTTACCCTATGGGGGTATT
38926608 CTTGTTATTT
Statistics
Matches: 187, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
27 186 0.99
28 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGA
Found at i:38933985 original size:389 final size:389
Alignment explanation
Indices: 38933257--38934024 Score: 1187
Period size: 389 Copynumber: 2.0 Consensus size: 389
38933247 TGAATTTTTG
* * *
38933257 TTTTGAGTCATAAACTATCTGTTTTATGTTTTTGTGTAATTCGATCCTCGATCAAGCCTCGGTAA
1 TTTTGAGTCATAAACTATCTATTTTATGTTTTTGTGTAATTCGACCCTCGATCAAGCCTCGATAA
*
38933322 GTGTGTTTGGGACTCGATTTAGCTTGGTTCGTGTATATATGTGGGATTATGGGCTTTAATCTATT
66 GTGTGTTTGGGACTCGACTTAGCTTGGTTCGTGTATATATGTGGGATTATGGGCTTTAATCTATT
* *
38933387 TAGTCATTTATGTGATGACTAAGTATGAGTGTTTTATTATTGTCATAACTGAATATTAGAATACA
131 TACTCATTTATGTGATGAATAAGTATGAGTGTTTTATTATTGTCATAACTGAATATTAGAATACA
* * ** * *
38933452 AGTGTAATCAAATCTGAATTTGTTTTACTAGAAGTGTTAATGTCTGTTTCTGTATGTTGCCTGCA
196 AGTGTAATCAAATCTAAATCTGTTCAACTAGAAGTGTTAATGTCCGTTTCTGTAAGTTGCCTGCA
* *
38933517 TAATGTGTACATTGTTACACAGCATGAAAATTTTGGGATCTGGATATGAAGAGAAGGAAGACAGA
261 TAATGTGTACATTGTTACACAGCATGAAAATTTTGGGATCTAGATATGAAGAGAAGGAAGACAAA
* * * * * *
38933582 CTTAGTAGTTTTAACTGCGATACTTTTGTATAGCGGTTTATCACACTATCCTATTTTGCAAATT
326 CTTAGCAATTTTAACCGAGATACTTTTGTATAGCGATTTACCACACTATCCTATTTTGCAAATT
* * * *
38933646 TTTTTAGTCATAAAGTATCTATTTTATGTTTTTGTGTAATTCGACCCTCGGTCAATCCTCGATAA
1 TTTTGAGTCATAAACTATCTATTTTATGTTTTTGTGTAATTCGACCCTCGATCAAGCCTCGATAA
* * * * *
38933711 GTGTGTTTTGGACTCGACTTAGTTTGGTTTGTGTATGTATGTGTGATTATGGGCTTTAATCTATT
66 GTGTGTTTGGGACTCGACTTAGCTTGGTTCGTGTATATATGTGGGATTATGGGCTTTAATCTATT
* * *
38933776 TACTCGTTTATGTGATGAATAAGTATGAGT-TTATTATTGTTGTCGTAACTGAATATTAGAATAC
131 TACTCATTTATGTGATGAATAAGTATGAGTGTT-TTATTATTGTCATAACTGAATATTAGAATAC
*
38933840 AAGTGTAATCAAATCTAAATCTGTTCAACTCGAAGTGTTAATGTCCGTTTCTGTAAGTTGCCTGC
195 AAGTGTAATCAAATCTAAATCTGTTCAACTAGAAGTGTTAATGTCCGTTTCTGTAAGTTGCCTGC
* * *
38933905 ATAATGTGTGCATTGTTGCATAGCATGAAAATTTTGGGATCTAGATATGAAGAGAAGGAAGACAA
260 ATAATGTGTACATTGTTACACAGCATGAAAATTTTGGGATCTAGATATGAAGAGAAGGAAGACAA
*
38933970 ACTTAGCAATTTTAACCGAGATACTTTTGTATAGCGATTTACCGCACTATCCTAT
325 ACTTAGCAATTTTAACCGAGATACTTTTGTATAGCGATTTACCACACTATCCTAT
38934025 ACGTATATCA
Statistics
Matches: 341, Mismatches: 37, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
388 2 0.01
389 339 0.99
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (389 bp):
TTTTGAGTCATAAACTATCTATTTTATGTTTTTGTGTAATTCGACCCTCGATCAAGCCTCGATAA
GTGTGTTTGGGACTCGACTTAGCTTGGTTCGTGTATATATGTGGGATTATGGGCTTTAATCTATT
TACTCATTTATGTGATGAATAAGTATGAGTGTTTTATTATTGTCATAACTGAATATTAGAATACA
AGTGTAATCAAATCTAAATCTGTTCAACTAGAAGTGTTAATGTCCGTTTCTGTAAGTTGCCTGCA
TAATGTGTACATTGTTACACAGCATGAAAATTTTGGGATCTAGATATGAAGAGAAGGAAGACAAA
CTTAGCAATTTTAACCGAGATACTTTTGTATAGCGATTTACCACACTATCCTATTTTGCAAATT
Found at i:38936754 original size:25 final size:24
Alignment explanation
Indices: 38936668--38936754 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 24
38936658 ATGCATGTAT
* *
38936668 GCTCATACGAGCATATAAACGAGAA
1 GCTCATGCGAGCATAT-AACGGGAA
*
38936693 GCTC-TTCTGAGCCATATAACGGGAA
1 GCTCATGC-GAG-CATATAACGGGAA
* *
38936718 GCTTATGTGAGCTATATAACGGGAA
1 GCTCATGCGAGC-ATATAACGGGAA
38936743 GCTCATGCGAGC
1 GCTCATGCGAGC
38936755 CAAATATTGG
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
24 3 0.06
25 42 0.82
26 6 0.12
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (24 bp):
GCTCATGCGAGCATATAACGGGAA
Found at i:38959425 original size:25 final size:25
Alignment explanation
Indices: 38959397--38959444 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
38959387 TTACATTGCA
*
38959397 GCTTGTGGGAGCTTACCAATTCTTC
1 GCTTGTGAGAGCTTACCAATTCTTC
*
38959422 GCTTGTGAGAGCTTACCATTTCT
1 GCTTGTGAGAGCTTACCAATTCT
38959445 CAGCTCGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (25 bp):
GCTTGTGAGAGCTTACCAATTCTTC
Found at i:38959458 original size:25 final size:25
Alignment explanation
Indices: 38959405--38959452 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
38959395 CAGCTTGTGG
* *
38959405 GAGCTTACCAATTCTTCGCTTGTGA
1 GAGCTTACCATTTCTTCGCTCGTGA
38959430 GAGCTTACCATTTC-TCAGCTCGT
1 GAGCTTACCATTTCTTC-GCTCGT
38959453 ATGAGCGTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (25 bp):
GAGCTTACCATTTCTTCGCTCGTGA
Found at i:38968101 original size:19 final size:20
Alignment explanation
Indices: 38968070--38968116 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
38968060 TAGTTTAGAT
38968070 TTCAAAAATTATAAAAAAAA
1 TTCAAAAATTATAAAAAAAA
* * *
38968090 TTGAAAAA-TATATAAACAA
1 TTCAAAAATTATAAAAAAAA
38968109 TTCAAAAA
1 TTCAAAAA
38968117 ATATGTTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (20 bp):
TTCAAAAATTATAAAAAAAA
Found at i:38968376 original size:18 final size:18
Alignment explanation
Indices: 38968327--38968437 Score: 64
Period size: 19 Copynumber: 5.7 Consensus size: 18
38968317 AAATTTTTGC
38968327 TTTTTGAATTTTAAAAATAT
1 TTTTTGAATTTT--AAATAT
*
38968347 TTTTT-ATTTTTTAAATAT
1 TTTTTGA-ATTTTAAATAT
38968365 TTTTTGAATTTTTATAAT-T
1 TTTTTGAA-TTTTA-AATAT
* ** *
38968384 TTCTAAAATTTTAACTAT
1 TTTTTGAATTTTAAATAT
38968402 ATTTTTGAATTTATCTAAATAT
1 -TTTTTGAA-TT-T-TAAATAT
*
38968424 TTTGTGAATCTTTA
1 TTTTTGAAT-TTTA
38968438 TATTTCGTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 21
0.69 0.11 0.21
Matches are distributed among these distances:
17 2 0.03
18 17 0.24
19 20 0.29
20 16 0.23
21 9 0.13
22 6 0.09
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTTGAATTTTAAATAT
Found at i:38968376 original size:19 final size:19
Alignment explanation
Indices: 38968327--38968437 Score: 91
Period size: 18 Copynumber: 5.7 Consensus size: 19
38968317 AAATTTTTGC
*
38968327 TTTTTGAATTTTAAAAATAT
1 TTTTTGAATTTT-TAAATAT
*
38968347 TTTTT-ATTTTTTAAATAT
1 TTTTTGAATTTTTAAATAT
*
38968365 TTTTTGAATTTTTATA-AT
1 TTTTTGAATTTTTAAATAT
* * * *
38968383 TTTCTAAAATTTTAACTAT
1 TTTTTGAATTTTTAAATAT
38968402 ATTTTTGAATTTATCTAAATAT
1 -TTTTTGAATTT-T-TAAATAT
* *
38968424 TTTGTGAATCTTTA
1 TTTTTGAATTTTTA
38968438 TATTTCGTGT
Statistics
Matches: 71, Mismatches: 15, Indels: 11
0.73 0.15 0.11
Matches are distributed among these distances:
18 24 0.34
19 17 0.24
20 14 0.20
21 10 0.14
22 6 0.08
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTGAATTTTTAAATAT
Found at i:38976081 original size:28 final size:28
Alignment explanation
Indices: 38976016--38976077 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
38976006 AAAACGACTC
38976016 ATTTTATAATTAATCTAAATTTTATACT
1 ATTTTATAATTAATCTAAATTTTATACT
* *
38976044 ATTTTCATAATTAAT-TAATTTTTATATT
1 ATTTT-ATAATTAATCTAAATTTTATACT
38976072 ATTTTA
1 ATTTTA
38976078 ATAAAAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.03
28 21 0.68
29 9 0.29
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (28 bp):
ATTTTATAATTAATCTAAATTTTATACT
Found at i:38977046 original size:17 final size:16
Alignment explanation
Indices: 38977024--38977066 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
38977014 TTTCAAAAAG
38977024 AAATAAATTATATTAAA
1 AAATAAATTA-ATTAAA
*
38977041 AAATAAA-TAATTCAA
1 AAATAAATTAATTAAA
*
38977056 AAACAAATTAA
1 AAATAAATTAA
38977067 AAGAATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 11 0.48
16 5 0.22
17 7 0.30
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATAAATTAATTAAA
Found at i:38978884 original size:23 final size:23
Alignment explanation
Indices: 38978854--38978912 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
38978844 GAAACACACT
38978854 CAGCTACCATTTTGTTTCATTAC
1 CAGCTACCATTTTGTTTCATTAC
38978877 CAGCTACCATTTTGTTTCATTAC
1 CAGCTACCATTTTGTTTCATTAC
*
38978900 CAACTACCATTTT
1 CAGCTACCATTTT
38978913 TTTTAAAGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.24, C:0.27, G:0.07, T:0.42
Consensus pattern (23 bp):
CAGCTACCATTTTGTTTCATTAC
Found at i:38979145 original size:9 final size:9
Alignment explanation
Indices: 38979121--38979163 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
38979111 TTAAAAATAA
*
38979121 CCGAATTAA
1 CCGAATTAC
*
38979130 CCAAATTAC
1 CCGAATTAC
38979139 CCGAATTAC
1 CCGAATTAC
*
38979148 TCGAATTAC
1 CCGAATTAC
38979157 CCGAATT
1 CCGAATT
38979164 GAATCACTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.37, C:0.28, G:0.09, T:0.26
Consensus pattern (9 bp):
CCGAATTAC
Found at i:38979208 original size:37 final size:37
Alignment explanation
Indices: 38979162--38979236 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
38979152 ATTACCCGAA
*
38979162 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
* *
38979199 TTGAATCACTACATAATTAAAAACATTATATAATTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
38979236 T
1 T
38979237 GAAATTAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.37
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:38979416 original size:38 final size:39
Alignment explanation
Indices: 38979365--38979442 Score: 122
Period size: 38 Copynumber: 2.0 Consensus size: 39
38979355 ACTTAAGAGT
* *
38979365 TAGACTTTCGTTTTATTTTTATT-GGGTTGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTAGGGTTGGTAATTGGG
*
38979403 TAGACTTTAGTTTTAGTTTTATTAGGTTTGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTAGGGTTGGTAATTGGG
38979442 T
1 T
38979443 TGGGTAATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 21 0.58
39 15 0.42
ACGTcount: A:0.18, C:0.04, G:0.26, T:0.53
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTAGGGTTGGTAATTGGG
Found at i:38979454 original size:52 final size:52
Alignment explanation
Indices: 38979385--38979499 Score: 198
Period size: 52 Copynumber: 2.2 Consensus size: 52
38979375 TTTTATTTTT
*
38979385 ATTGGGTT-GGTAATTGGGTAGACTTTAGTTTTAGTTTTATTAGGTTTGG-TA
1 ATTGGGTTGGGTAATTGGGTAGACTTTAGTTTTAGTTTTATT-GGGTTGGATA
38979436 ATTGGGTTGGGTAATTGGGTAGACTTTAGTTTTAGTTTTATTGGGTTGGATA
1 ATTGGGTTGGGTAATTGGGTAGACTTTAGTTTTAGTTTTATTGGGTTGGATA
38979488 ATTGGGTTGGGT
1 ATTGGGTTGGGT
38979500 TGGTAATTGG
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
51 14 0.23
52 47 0.77
ACGTcount: A:0.18, C:0.02, G:0.33, T:0.47
Consensus pattern (52 bp):
ATTGGGTTGGGTAATTGGGTAGACTTTAGTTTTAGTTTTATTGGGTTGGATA
Found at i:38979493 original size:13 final size:13
Alignment explanation
Indices: 38979475--38979529 Score: 65
Period size: 13 Copynumber: 3.9 Consensus size: 13
38979465 TTTTAGTTTT
*
38979475 ATTGGGTTGGATA
1 ATTGGGTTGGGTA
38979488 ATTGGGTTGGGTTGGTA
1 ATTGGGTT--G--GGTA
38979505 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
38979518 ATTGGGTTGGGT
1 ATTGGGTTGGGT
38979530 TGGATAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
13 24 0.65
15 2 0.05
17 11 0.30
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:38979511 original size:30 final size:31
Alignment explanation
Indices: 38979475--38979538 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
38979465 TTTTAGTTTT
38979475 ATTGGGTTGGATAATTGGGTTGGGTTGG-TA
1 ATTGGGTTGGATAATTGGGTTGGGTTGGATA
*
38979505 ATTGGGTTGGGTAATTGGGTTGGGTTGGATA
1 ATTGGGTTGGATAATTGGGTTGGGTTGGATA
38979536 ATT
1 ATT
38979539 TTATTTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.41
Consensus pattern (31 bp):
ATTGGGTTGGATAATTGGGTTGGGTTGGATA
Found at i:38980840 original size:38 final size:38
Alignment explanation
Indices: 38980783--38981156 Score: 235
Period size: 38 Copynumber: 10.2 Consensus size: 38
38980773 ACCCTTATTG
* *
38980783 AAAGGTTGGGAAAGGCCTAGTC-AAGGCAGAACTTTAAA
1 AAAGGTTGGGATAGACCTAGTCTAAGGCA-AACTTTAAA
* * *
38980821 AAAGTTTGGGATAGACCTAGTC-AAGGCCAACCTTTGAA
1 AAAGGTTGGGATAGACCTAGTCTAAGG-CAAACTTTAAA
* *
38980859 AAAGGTTGGGATAAACC-AGTCTAAGGC-AACCTT-AA
1 AAAGGTTGGGATAGACCTAGTCTAAGGCAAACTTTAAA
* ** *
38980894 AAAGGTTGAGATAGACC-AGTCTAAGATAACCTTTAAA
1 AAAGGTTGGGATAGACCTAGTCTAAGGCAAACTTTAAA
** * *******
38980931 AAAATTTGGGATATACCTCA-TCTAAAATTTTTTTTAAA
1 AAAGGTTGGGATAGACCT-AGTCTAAGGCAAACTTTAAA
* * * * * *
38980969 ATATGTTGAGATAGA-CTCGTTTAAGGC-AACCTT-AA
1 AAAGGTTGGGATAGACCTAGTCTAAGGCAAACTTTAAA
* * *
38981004 AAAGGTTAGGATAGA-CTCGTTTAAGGC-AACTTT-AA
1 AAAGGTTGGGATAGACCTAGTCTAAGGCAAACTTTAAA
* * * * *
38981039 AAATGTTGGGATAGACCTTGTCTAAGACAACCCTTAAA
1 AAAGGTTGGGATAGACCTAGTCTAAGGCAAACTTTAAA
* *
38981077 AAAGGTTGGGATAGACC-AGTCTAAAGC-AACTCT-AA
1 AAAGGTTGGGATAGACCTAGTCTAAGGCAAACTTTAAA
* *
38981112 AAAGGTTGAGATAGACCTTA-TCTAAGGCAACCTTT-AA
1 AAAGGTTGGGATAGACC-TAGTCTAAGGCAAACTTTAAA
38981149 AAAGGTTG
1 AAAGGTTG
38981157 AGATTGAGTC
Statistics
Matches: 262, Mismatches: 61, Indels: 27
0.75 0.17 0.08
Matches are distributed among these distances:
35 88 0.34
36 29 0.11
37 52 0.20
38 90 0.34
39 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (38 bp):
AAAGGTTGGGATAGACCTAGTCTAAGGCAAACTTTAAA
Found at i:38980912 original size:35 final size:35
Alignment explanation
Indices: 38980819--38981196 Score: 232
Period size: 35 Copynumber: 10.4 Consensus size: 35
38980809 CAGAACTTTA
* *
38980819 AAAAAGTTTGGGATAGACCTAGTC-AAGGCCAACCTTT
1 AAAAAGGTTGAGATAGACC-AGTCTAAGG-CAACC-TT
* *
38980856 GAAAAAGGTTGGGATAAACCAGTCTAAGGCAACCTT
1 -AAAAAGGTTGAGATAGACCAGTCTAAGGCAACCTT
**
38980892 AAAAAGGTTGAGATAGACCAGTCTAAGATAACCTTT
1 AAAAAGGTTGAGATAGACCAGTCTAAGGCAACC-TT
** * * *******
38980928 AAAAAAATTTGGGATATACCTCA-TCTAAAATTTTTTTT
1 -AAAAAGGTTGAGATAGA-C-CAGTCT-AAGGCAACCTT
* *
38980966 AAAATATGTTGAGATAGACTC-GTTTAAGGCAACCTT
1 AAAA-AGGTTGAGATAGAC-CAGTCTAAGGCAACCTT
* *
38981002 AAAAAGGTT-AGGATAGACTC-GTTTAAGGCAACTTT
1 AAAAAGGTTGA-GATAGAC-CAGTCTAAGGCAACCTT
* * * *
38981037 AAAAATGTTGGGATAGACCTTGTCTAAGACAACCCTT
1 AAAAAGGTTGAGATAGACC-AGTCTAAGGCAA-CCTT
* *
38981074 AAAAAAGGTTGGGATAGACCAGTCTAAAGCAA-CTCT
1 -AAAAAGGTTGAGATAGACCAGTCTAAGGCAACCT-T
38981110 AAAAAGGTTGAGATAGACCTTA-TCTAAGGCAACCTTT
1 AAAAAGGTTGAGATAGACC--AGTCTAAGGCAACC-TT
* * **
38981147 AAAAAGGTTGAGATTGAGTC-GTCTAATACAACCTT
1 AAAAAGGTTGAGATAGA-CCAGTCTAAGGCAACCTT
38981182 AAAAAGGTTGAGATA
1 AAAAAGGTTGAGATA
38981197 TACCTTACAA
Statistics
Matches: 273, Mismatches: 46, Indels: 45
0.75 0.13 0.12
Matches are distributed among these distances:
34 2 0.01
35 107 0.39
36 41 0.15
37 62 0.23
38 56 0.21
39 5 0.02
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (35 bp):
AAAAAGGTTGAGATAGACCAGTCTAAGGCAACCTT
Found at i:38980934 original size:73 final size:72
Alignment explanation
Indices: 38980819--38981201 Score: 273
Period size: 73 Copynumber: 5.3 Consensus size: 72
38980809 CAGAACTTTA
* * *
38980819 AAAAAGTTTGGGATAGACCTAGTC-AAGGCCAACCTTTGAAAAAGGTTGGGATAAACCAGTCTAA
1 AAAAAGGTTGAGATAGACCTAGTCTAA-GACAACCTTT-AAAAAGGTTGGGATAAACCAGTCTAA
*
38980883 GGCAACCTT
64 AGCAACCTT
* ** *
38980892 AAAAAGGTTGAGATAGACC-AGTCTAAGATAACCTTTAAAAAAATTTGGGATATACCTCA-TCTA
1 AAAAAGGTTGAGATAGACCTAGTCTAAGACAACCTTT-AAAAAGGTTGGGATA-AAC-CAGTCT-
******
38980955 AAATTTTTTTT
62 AAAGCAACCTT
* * * * * * *
38980966 AAAATATGTTGAGATAGA-CTCGTTTAAGGCAACC-TTAAAAAGGTTAGGATAGACTC-GTTTAA
1 AAAA-AGGTTGAGATAGACCTAGTCTAAGACAACCTTTAAAAAGGTTGGGATAAAC-CAGTCTAA
* *
38981028 GGCAACTTT
64 AGCAACCTT
* * * * *
38981037 AAAAATGTTGGGATAGACCTTGTCTAAGACAACCCTTAAAAAAGGTTGGGATAGACCAGTCTAAA
1 AAAAAGGTTGAGATAGACCTAGTCTAAGACAA-CCTTTAAAAAGGTTGGGATAAACCAGTCTAAA
38981102 GCAA-CTCT
65 GCAACCT-T
* * * **
38981110 AAAAAGGTTGAGATAGACCTTA-TCTAAGGCAACCTTTAAAAAGGTTGAGATTGAGTC-GTCTAA
1 AAAAAGGTTGAGATAGACC-TAGTCTAAGACAACCTTTAAAAAGGTTGGGA-TAAACCAGTCTAA
38981173 TA-CAACCTT
64 -AGCAACCTT
*
38981182 AAAAAGGTTGAGATATACCT
1 AAAAAGGTTGAGATAGACCT
38981202 TACAAAATCT
Statistics
Matches: 242, Mismatches: 52, Indels: 34
0.74 0.16 0.10
Matches are distributed among these distances:
70 12 0.05
71 21 0.09
72 78 0.32
73 95 0.39
74 14 0.06
75 22 0.09
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (72 bp):
AAAAAGGTTGAGATAGACCTAGTCTAAGACAACCTTTAAAAAGGTTGGGATAAACCAGTCTAAAG
CAACCTT
Found at i:38987141 original size:24 final size:24
Alignment explanation
Indices: 38987106--38987152 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
38987096 TGAGATATCA
* *
38987106 ACCTTTTTATTGTTATCCTTTTCG
1 ACCTTTTCATTGATATCCTTTTCG
*
38987130 ACCTTTTCATTGATATCTTTTTC
1 ACCTTTTCATTGATATCCTTTTC
38987153 AGACAACATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.21, G:0.06, T:0.57
Consensus pattern (24 bp):
ACCTTTTCATTGATATCCTTTTCG
Found at i:38987202 original size:41 final size:40
Alignment explanation
Indices: 38987120--38987261 Score: 180
Period size: 40 Copynumber: 3.5 Consensus size: 40
38987110 TTTTATTGTT
* * * *
38987120 ATCCTTTTCGACCTTTTCATTGATAT-CTTTTTCAGACAAC
1 ATCCTTTTCAACCTTTTCATTTATATCCTTTTT-TGATAAC
38987160 ATCCTTTTCAACCTTTTCATTTTATATCCTTTTTTGATAAC
1 ATCCTTTTCAACCTTTTCA-TTTATATCCTTTTTTGATAAC
*
38987201 ATCATTTTCAACCTTTTCATTTATATCCTTTTTTGATAAC
1 ATCCTTTTCAACCTTTTCATTTATATCCTTTTTTGATAAC
* *
38987241 -GCCATTTTCAACCTGTTCATT
1 ATCC-TTTTCAACCTTTTCATT
38987262 GATTCAGAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 55 0.60
41 29 0.32
42 6 0.07
ACGTcount: A:0.23, C:0.23, G:0.05, T:0.49
Consensus pattern (40 bp):
ATCCTTTTCAACCTTTTCATTTATATCCTTTTTTGATAAC
Found at i:38990354 original size:24 final size:24
Alignment explanation
Indices: 38990304--38990356 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
38990294 GTGTACACGA
* *
38990304 CCTGGGACACGGGCTGTCAGACGG
1 CCTGGGACACGGGCTGTCACACAG
* *
38990328 CCTGGGACATGGGCTGTCACATAG
1 CCTGGGACACGGGCTGTCACACAG
38990352 CCTGG
1 CCTGG
38990357 CCACACGGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.17, C:0.28, G:0.38, T:0.17
Consensus pattern (24 bp):
CCTGGGACACGGGCTGTCACACAG
Found at i:38992258 original size:10 final size:11
Alignment explanation
Indices: 38992241--38992269 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
38992231 TTCTTTATAT
38992241 ATTTTTTTTGA
1 ATTTTTTTTGA
38992252 ATTTTTTTTGA
1 ATTTTTTTTGA
38992263 ATTTTTT
1 ATTTTTT
38992270 AAAATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (11 bp):
ATTTTTTTTGA
Found at i:38992548 original size:52 final size:52
Alignment explanation
Indices: 38992486--38992591 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
38992476 CATTGTAAAT
38992486 AAGTATACGTTTCAGATGTAAAACAAAGTATATAAAAAATTACAAAATTACA
1 AAGTATACGTTTCAGATGTAAAACAAAGTATATAAAAAATTACAAAATTACA
38992538 AAGTATACGTTTCAGATGTAAAACAAAGTATATAAAAAATTACAAAATTACA
1 AAGTATACGTTTCAGATGTAAAACAAAGTATATAAAAAATTACAAAATTACA
38992590 AA
1 AA
38992592 ATAATGTAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.26
Consensus pattern (52 bp):
AAGTATACGTTTCAGATGTAAAACAAAGTATATAAAAAATTACAAAATTACA
Found at i:38995079 original size:25 final size:25
Alignment explanation
Indices: 38995051--38995112 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
38995041 ATGCTCATAC
*
38995051 GAGCTCTGAATC-AGTATGCTCTCTG
1 GAGCTCTAAATCTA-TATGCTCTCTG
* **
38995076 GAGCTGTAAATCTATATGCTCTCAC
1 GAGCTCTAAATCTATATGCTCTCTG
*
38995101 GAGCTATAAATC
1 GAGCTCTAAATC
38995113 GGTAAGCTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 30 0.97
26 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (25 bp):
GAGCTCTAAATCTATATGCTCTCTG
Done.