Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 75 of 213
Found at i:20341445 original size:27 final size:27
Alignment explanation
Indices: 20341425--20341588 Score: 213
Period size: 27 Copynumber: 6.1 Consensus size: 27
20341415 GGGTATAACA
*
20341425 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTAATTCG
*
20341452 GTCATTTTACCCTATGGGGGTAATTCG
1 GTCATTTTACCCTATAGGGGTAATTCG
* * *
20341479 TTCATTTTACCCTGTAGAGGTAATTCG
1 GTCATTTTACCCTATAGGGGTAATTCG
* * *
20341506 GTCATTTTACCCTATTGAGGTAATTCA
1 GTCATTTTACCCTATAGGGGTAATTCG
*
20341533 GTCATTTTACCCTAT-GGAGATAATTCG
1 GTCATTTTACCCTATAGG-GGTAATTCG
**
20341560 GTCATTTTACCCTACGGGGGTAATTCG
1 GTCATTTTACCCTATAGGGGTAATTCG
20341587 GT
1 GT
20341589 TGTTTATTGA
Statistics
Matches: 120, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 117 0.98
28 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTAATTCG
Found at i:20341979 original size:29 final size:28
Alignment explanation
Indices: 20341916--20342044 Score: 117
Period size: 29 Copynumber: 4.7 Consensus size: 28
20341906 AAATATTTTT
**
20341916 ATTTTTTAATTTTAAAATACTTTTTTTTA
1 ATTTTTTAATTTTAAAATA-TTTTTTAAA
20341945 ATTTTTTAATTTTAAAAT-TTTTTTAAA
1 ATTTTTTAATTTTAAAATATTTTTTAAA
**
20341972 ATACTTT--TTTT-AAAT-TTTTTT-AA
1 ATTTTTTAATTTTAAAATATTTTTTAAA
* *
20341995 TTTTTTTAATTTTAAAATATTTTTTAATT
1 ATTTTTTAATTTTAAAATATTTTTTAA-A
*
20342024 TTTATTTTAATTTTTAAAATA
1 ATT-TTTTAA-TTTTAAAATA
20342045 AATTTTTGGT
Statistics
Matches: 84, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
23 6 0.07
24 10 0.12
25 8 0.10
26 4 0.05
27 18 0.21
28 1 0.01
29 21 0.25
30 6 0.07
31 10 0.12
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (28 bp):
ATTTTTTAATTTTAAAATATTTTTTAAA
Found at i:20342000 original size:19 final size:19
Alignment explanation
Indices: 20341976--20342038 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 19
20341966 TTTAAAATAC
20341976 TTTTTTTAAATTTTTTTAA
1 TTTTTTTAAATTTTTTTAA
**
20341995 TTTTTTT-AA-TTTTAAAA
1 TTTTTTTAAATTTTTTTAA
*
20342012 TATTTTTTAATTTTTATTTTAA
1 T-TTTTTTAA-ATTT-TTTTAA
20342034 TTTTT
1 TTTTT
20342039 AAAATAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
17 7 0.21
18 8 0.24
19 8 0.24
21 6 0.18
22 5 0.15
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTTTAAATTTTTTTAA
Found at i:20342007 original size:25 final size:26
Alignment explanation
Indices: 20341917--20342026 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 26
20341907 AATATTTTTA
20341917 TTTTTTAATTTTAAAATACTTTTTTTTAA-
1 TTTTTTAATTTT-AAA-A--TTTTTTTAAT
*
20341946 TTTTTTAATTTTAAAATTTTTTTAAAA
1 TTTTTTAATTTTAAAATTTTTTT-AAT
**
20341973 TACTTT--TTTT-AAATTTTTTTAAT
1 TTTTTTAATTTTAAAATTTTTTTAAT
20341996 TTTTTTAATTTTAAAATATTTTTTAAT
1 TTTTTTAATTTTAAAAT-TTTTTTAAT
20342023 TTTT
1 TTTT
20342027 ATTTTAATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
23 6 0.09
24 10 0.14
25 15 0.21
26 6 0.09
27 18 0.26
28 3 0.04
29 12 0.17
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (26 bp):
TTTTTTAATTTTAAAATTTTTTTAAT
Found at i:20342008 original size:39 final size:39
Alignment explanation
Indices: 20341905--20342038 Score: 138
Period size: 39 Copynumber: 3.5 Consensus size: 39
20341895 GCCCGAATAA
*
20341905 TAAATATTTTT-A-TTTTTTAATTTTAAAATACTTTTTT
1 TAAATTTTTTTAATTTTTTTAATTTTAAAATACTTTTTT
*
20341942 TTAA-TTTTTTAATTTTAAAATTT--TTTTAAAATACTTTTTT
1 TAAATTTTTTTAATTTT----TTTAATTTTAAAATACTTTTTT
20341982 TAAATTTTTTTAATTTTTTTAATTTTAAAATA--TTTTT
1 TAAATTTTTTTAATTTTTTTAATTTTAAAATACTTTTTT
*
20342019 TAATTTTTATTTTAATTTTT
1 TAA-ATTT-TTTTAATTTTT
20342039 AAAATAAATT
Statistics
Matches: 82, Mismatches: 4, Indels: 20
0.77 0.04 0.19
Matches are distributed among these distances:
36 5 0.06
37 15 0.18
38 6 0.07
39 21 0.26
40 20 0.24
41 12 0.15
42 3 0.04
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.67
Consensus pattern (39 bp):
TAAATTTTTTTAATTTTTTTAATTTTAAAATACTTTTTT
Found at i:20342030 original size:24 final size:25
Alignment explanation
Indices: 20341906--20342033 Score: 108
Period size: 24 Copynumber: 5.0 Consensus size: 25
20341896 CCCGAATAAT
*
20341906 AAATA-TTTTTATTTTTTAATTTTA
1 AAATATTTTTTAATTTTTAATTTTA
20341930 AAATACTTTTTTTTAATTTTTTAATTTTA
1 AAATA---TTTTTTAA-TTTTTAATTTTA
*
20341959 AAAT-TTTTTTAAAATACTTT--TTTT-
1 AAATATTTTTT--AAT-TTTTAATTTTA
20341983 AAAT-TTTTTTAATTTTTTTAATTTTA
1 AAATATTTTTTAA--TTTTTAATTTTA
20342009 AAATATTTTTTAATTTTT-ATTTTA
1 AAATATTTTTTAATTTTTAATTTTA
20342033 A
1 A
20342034 TTTTTAAAAT
Statistics
Matches: 87, Mismatches: 3, Indels: 28
0.74 0.03 0.24
Matches are distributed among these distances:
22 2 0.02
23 3 0.03
24 23 0.26
25 19 0.22
26 5 0.06
27 13 0.15
28 6 0.07
29 16 0.18
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (25 bp):
AAATATTTTTTAATTTTTAATTTTA
Found at i:20342032 original size:49 final size:47
Alignment explanation
Indices: 20341937--20342038 Score: 136
Period size: 50 Copynumber: 2.1 Consensus size: 47
20341927 TTAAAATACT
20341937 TTTTTTTAATTTTTTAATTTTAAAATTTTTTTAAAATACTTTTTTTAAA
1 TTTTTTTAATTTTTTAATTTTAAAATTTTTTT-AAATACTTTTTTT-AA
*
20341986 TTTTTTTAATTTTTTTAATTTTAAAATATTTTTT-AAT-TTTTATTTTAA
1 TTTTTTTAA-TTTTTTAATTTTAAAAT-TTTTTTAAATACTTT-TTTTAA
20342034 TTTTT
1 TTTTT
20342039 AAAATAAATT
Statistics
Matches: 49, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
48 10 0.20
49 16 0.33
50 17 0.35
51 6 0.12
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (47 bp):
TTTTTTTAATTTTTTAATTTTAAAATTTTTTTAAATACTTTTTTTAA
Found at i:20342064 original size:31 final size:29
Alignment explanation
Indices: 20341915--20342064 Score: 79
Period size: 29 Copynumber: 5.4 Consensus size: 29
20341905 TAAATATTTT
* **
20341915 TATTT-TTTAATTTTAAAATACTTTTTTT
1 TATTTATTTAATTTTAAAATAATTTTTAA
*
20341943 TAATTT-TTTAATTTTAAAAT-TTTTTTAA
1 T-ATTTATTTAATTTTAAAATAATTTTTAA
* *
20341971 -A-ATACTTT--TTTT-AAAT-TTTTTTAA
1 TATTTA-TTTAATTTTAAAATAATTTTTAA
* *
20341995 TT-TT-TTTAATTTTAAAATATTTTTTAA
1 TATTTATTTAATTTTAAAATAATTTTTAA
* **
20342022 TTTTTATTTTAATTTTTAAAATAAATTTTTGG
1 TATTTA-TTTAA-TTTTAAAAT-AATTTTTAA
20342054 TATTTATTTAA
1 TATTTATTTAA
20342065 AAAACGGGCC
Statistics
Matches: 99, Mismatches: 10, Indels: 23
0.75 0.08 0.17
Matches are distributed among these distances:
23 3 0.03
24 12 0.12
25 10 0.10
26 5 0.05
27 13 0.13
28 8 0.08
29 18 0.18
30 5 0.05
31 14 0.14
32 11 0.11
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (29 bp):
TATTTATTTAATTTTAAAATAATTTTTAA
Found at i:20344026 original size:20 final size:20
Alignment explanation
Indices: 20344012--20344050 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
20344002 GATATGAATG
20344012 GTAGTGAATTGATATAACGA
1 GTAGTGAATTGATATAACGA
20344032 GTAGTGAATTGATATAACG
1 GTAGTGAATTGATATAACG
20344051 TATGTGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (20 bp):
GTAGTGAATTGATATAACGA
Found at i:20345736 original size:42 final size:42
Alignment explanation
Indices: 20345626--20345815 Score: 128
Period size: 42 Copynumber: 4.5 Consensus size: 42
20345616 ACACGCATAG
* * * * ** *
20345626 TGCATCATTGGATAAACCGAAGCAATCATACTAACACGTAAA
1 TGCATCATCGGATATACCGAAGAAAACATACCGACATGTAAA
* * * * ** * *
20345668 TGTATCACCGAATGTACAAAAAAAAACATACCGACATTTAAA
1 TGCATCATCGGATATACCGAAGAAAACATACCGACATGTAAA
* * * * *
20345710 TGTATCATCGGATATGCCGAAGAAAACATACTGGCATGTAAG
1 TGCATCATCGGATATACCGAAGAAAACATACCGACATGTAAA
* * * **
20345752 TGCATCATCTGATATACCGAAGAAAACATACTGGCATGTACT
1 TGCATCATCGGATATACCGAAGAAAACATACCGACATGTAAA
* * *
20345794 TGTATCATCGAACATACCGAAG
1 TGCATCATCGGATATACCGAAG
20345816 TAATAATACT
Statistics
Matches: 113, Mismatches: 35, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 113 1.00
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (42 bp):
TGCATCATCGGATATACCGAAGAAAACATACCGACATGTAAA
Found at i:20345825 original size:42 final size:41
Alignment explanation
Indices: 20345690--20345815 Score: 144
Period size: 42 Copynumber: 3.0 Consensus size: 41
20345680 TGTACAAAAA
* * * * *
20345690 AAAACATACCGACATTTAAATGTATCATCGGATATGCCGAAG
1 AAAACATACTGGCATGTAAGTGTATCATC-GATATACCGAAG
*
20345732 AAAACATACTGGCATGTAAGTGCATCATCTGATATACCGAAG
1 AAAACATACTGGCATGTAAGTGTATCATC-GATATACCGAAG
** *
20345774 AAAACATACTGGCATGTACTTGTATCATCGAACATACCGAAG
1 AAAACATACTGGCATGTAAGTGTATCATCG-ATATACCGAAG
20345816 TAATAATACT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 1 0.01
42 71 0.99
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (41 bp):
AAAACATACTGGCATGTAAGTGTATCATCGATATACCGAAG
Found at i:20346806 original size:52 final size:52
Alignment explanation
Indices: 20346728--20346850 Score: 246
Period size: 52 Copynumber: 2.4 Consensus size: 52
20346718 TGTCAAAAAG
20346728 TGTTATAAAGTAACAAATACTTTAGACATTTGTAATATCATTTTAGACTTTA
1 TGTTATAAAGTAACAAATACTTTAGACATTTGTAATATCATTTTAGACTTTA
20346780 TGTTATAAAGTAACAAATACTTTAGACATTTGTAATATCATTTTAGACTTTA
1 TGTTATAAAGTAACAAATACTTTAGACATTTGTAATATCATTTTAGACTTTA
20346832 TGTTATAAAGTAACAAATA
1 TGTTATAAAGTAACAAATA
20346851 TGCATTTAAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.41
Consensus pattern (52 bp):
TGTTATAAAGTAACAAATACTTTAGACATTTGTAATATCATTTTAGACTTTA
Found at i:20353690 original size:25 final size:24
Alignment explanation
Indices: 20353640--20353700 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
20353630 ATCATTAATA
* *
20353640 AATAAACGAG-TCATAAATGAATC
1 AATAAACGAGCTTATAAATGAACC
*
20353663 AATAAACGAGCTTATAAAATGAGCC
1 AATAAACGAGCTTAT-AAATGAACC
*
20353688 AATAAACAAGCTT
1 AATAAACGAGCTT
20353701 GTTCGTGAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 10 0.31
24 3 0.09
25 19 0.59
ACGTcount: A:0.51, C:0.15, G:0.13, T:0.21
Consensus pattern (24 bp):
AATAAACGAGCTTATAAATGAACC
Found at i:20355716 original size:14 final size:15
Alignment explanation
Indices: 20355697--20355735 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
20355687 TGATTGCCAG
20355697 TAAAATGTTTTC-CA
1 TAAAATGTTTTCTCA
*
20355711 TAAAATGATTTCTCA
1 TAAAATGTTTTCTCA
20355726 -AAAATGTTTT
1 TAAAATGTTTT
20355736 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 20 0.91
15 2 0.09
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (15 bp):
TAAAATGTTTTCTCA
Found at i:20363608 original size:19 final size:20
Alignment explanation
Indices: 20363573--20363611 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
20363563 ATGATATATG
*
20363573 TAAAATATATATTTTTATTA
1 TAAAATATATATATTTATTA
20363593 TAAAAT-TATATATTTATTA
1 TAAAATATATATATTTATTA
20363612 GCTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TAAAATATATATATTTATTA
Found at i:20364864 original size:108 final size:110
Alignment explanation
Indices: 20364635--20364948 Score: 428
Period size: 108 Copynumber: 2.9 Consensus size: 110
20364625 AAAAATTATT
* * * *
20364635 TTTTGGGTGCTGGCCTGTCAATGGCCGACACCCA--AC-AGTAAAAAAAAAATTTC-CTTTTTT-
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAATTTCTTTTTTTTC
*
20364695 -TGTCAGAATAAGATATAAATATACGAAAAAAATAAAAATAAAAAA
66 GTGTCAGAATCAGATATAAATATACG-AAAAAATAAAAATAAAAAA
*
20364740 TTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACAAATTAAAAAAAAATTTCTTTTTTTTC
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAATTTCTTTTTTTTC
*
20364805 GTGTCAGAATCAGATATAAATATACGAAAAAAT-TAAA-AAAAAA
66 GTGTCAGAATCAGATATAAATATACGAAAAAATAAAAATAAAAAA
*
20364848 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAACTTTTTTTCTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAA-----TTTCTTTT
* *
20364913 TTTTCGTGTTAGAGTCAGATATAAATATACGAAAAA
61 TTTTCGTGTCAGAATCAGATATAAATATACGAAAAA
20364949 TATGCGCTAT
Statistics
Matches: 187, Mismatches: 11, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
105 32 0.17
107 2 0.01
108 71 0.38
109 9 0.05
110 7 0.04
111 24 0.13
113 42 0.22
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (110 bp):
TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAATTTCTTTTTTTTC
GTGTCAGAATCAGATATAAATATACGAAAAAATAAAAATAAAAAA
Found at i:20367403 original size:110 final size:107
Alignment explanation
Indices: 20367196--20368046 Score: 1069
Period size: 106 Copynumber: 8.1 Consensus size: 107
20367186 GATGTTTGGT
* *
20367196 CAGCACCCAAAA--TTTTTTTTATTTTTTTCGTATATTTATATCTGACTCCGACACAAAAAAAAG
1 CAGCACCCAAAATTTTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAG
* * *
20367259 -AATTTTTTTAAAAATTTGTACTGCGTGCCGGCCATTGACAGGG
66 AAATTTTTTT--TAATTTGTACTGGGTGCCGGCCATTGACAGGC
* *
20367302 CAGCACCCAAAAATTTTTTTTTTAAAATTTTTTCGTATATTTATATCTGATTCTGACACGAAAAA
1 CAGCACCC-AAAATTTTTTTTTT--ATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAA
*
20367367 AAGAAATTTTTTTTAATTTGTACTGGATGCCGGCCATTGACAGGC
63 AAGAAATTTTTTTTAATTTGTACTGGGTGCCGGCCATTGACAGGC
* *
20367412 TAGCACCCAAAAATTTTTATTTTATTTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAA
1 CAGCACCC-AAAATTTTTTTTTTA-TTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAA
* * *
20367477 ATTAATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGC
64 A-GAAATTTTTTTTAATTTGTACTGGGTGCCGGCCATTGACAGGC
20367522 CAGCACCCAAAA--TTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAG
1 CAGCACCCAAAATTTTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAG
*
20367585 -AATTTTTTTAAATTTGTACTGGGTGCCGGCCATTGACAGGC
66 AAATTTTTTTTAATTTGTACTGGGTGCCGGCCATTGACAGGC
** * * * * *
20367626 CAGCA-CTTAAATTTTTTTTTAATTTTTTTTGTATATTTAAATTTGATTCTGACACGAAAAAAA-
1 CAGCACCCAAAATTTTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAG
* *
20367689 AAGAATTTTTTTAATTTGTACTGAGTGCCGGCCATTGACAGGC
66 AA-ATTTTTTTTAATTTGTACTGGGTGCCGGCCATTGACAGGC
* * * *
20367732 CATCACCC-AAATTTTTTTTTTATTTTTTTCGTATATTTATATTTAACTCTGACACAAAAAAAAG
1 CAGCACCCAAAATTTTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAG
*
20367796 TAAATTTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACA-GC
66 -AAATTTTTTTT-AATTTGTACTGGGTGCCGGCCATTGACAGGC
20367839 CAGCACCCAAAATTTTTTTATTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAA
1 CAGCACCCAAAATTTTTTT-TTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAA
*
20367904 -AGAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGC
65 GA-AATTTTTTTTAATTTGTACTGGGTGCCGGCCATTGACAGGC
* * * *
20367947 TAGCACCC--AA--------TT-TTTTTTTCGTATATTTATATCTTATTTTG--AC-AAAAAAAG
1 CAGCACCCAAAATTTTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAG
*
20367998 -AATTTTTTTT-A-CTGT--TGGGTGCCGGCCATTGACAGGC
66 AAATTTTTTTTAATTTGTACTGGGTGCCGGCCATTGACAGGC
20368035 CAGCACCCAAAA
1 CAGCACCCAAAA
20368047 AATAATTTTT
Statistics
Matches: 669, Mismatches: 53, Indels: 62
0.85 0.07 0.08
Matches are distributed among these distances:
88 29 0.04
90 5 0.01
91 1 0.00
92 10 0.01
93 7 0.01
94 2 0.00
96 26 0.04
97 2 0.00
103 4 0.01
104 43 0.06
105 46 0.07
106 141 0.21
107 59 0.09
108 58 0.09
109 93 0.14
110 95 0.14
111 39 0.06
112 9 0.01
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (107 bp):
CAGCACCCAAAATTTTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAG
AAATTTTTTTTAATTTGTACTGGGTGCCGGCCATTGACAGGC
Found at i:20367956 original size:215 final size:213
Alignment explanation
Indices: 20367196--20368046 Score: 1110
Period size: 215 Copynumber: 4.1 Consensus size: 213
20367186 GATGTTTGGT
*
20367196 CAGCACCCAAAA-TTTTTTTTATTTTTTTCGTATATTTATATCTGACTCCGACAC-AAAAAAAAG
1 CAGCACCCAAAATTTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAG
* * *
20367259 AATTTTTTTAAAAATTTGTACTGCGTGCCGGCCATTGACAGGGCAGCACCCAAAAATTTTTTTTT
66 AATTTTTTT-TAAA-TTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC--AAATTTTTTTTT
* *
20367324 TAAAATTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAGAAATTTTTTTT-AATTTGT
127 T--ATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAGAAATTTTTTTTAAATTTGT
*
20367388 ACTGGATGCCGGCCATTGACAGGC
190 ACTGGGTGCCGGCCATTGACAGGC
*
20367412 TAGCACCCAAAAATTTTTATTTTATTTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAA
1 CAGCACCC-AAAATTTTT-TTTTA-TTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAA
** *
20367477 ATTAATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA-ATTTTTTT
63 AAGAA-TTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTT
20367541 TATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAG-AA-TTTTTTTAAATTTGTAC
127 TATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAGAAATTTTTTTTAAATTTGTAC
20367604 TGGGTGCCGGCCATTGACAGGC
192 TGGGTGCCGGCCATTGACAGGC
** * * * *
20367626 CAGCA-CTTAAATTTTTTTTTAATTTTTTTTGTATATTTAAATTTGATTCTGACACGAAAAAAAA
1 CAGCACCCAAAATTTTTTTTT-ATTTTTTTCGTATATTTATATCTGACTCTGACACG-AAAAAAA
* * *
20367690 AGAA-TTTTTTTAATTTGTACTGAGTGCCGGCCATTGACAGGCCATCACCCAAATTTTTTTTTTA
64 AGAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTTA
* * * *
20367754 TTTTTTTCGTATATTTATATTTAACTCTGACACAAAAAAAAGTAAATTTTTTTTAAAATTGTACT
129 TTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAG-AAATTTTTTTTAAATTTGTACT
20367819 GGGTGCCGGCCATTGACA-GC
193 GGGTGCCGGCCATTGACAGGC
20367839 CAGCACCCAAAATTTTTTTATTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAA
1 CAGCACCCAAAA-TTTTTT-TTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAA
*
20367904 AGAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCTAGCACCC-AA--------TT-
64 AGAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTTA
* * * *
20367959 TTTTTTTCGTATATTTATATCTTATTTTG--AC-AAAAAAAG-AATTTTTTTT--A-CTGT--TG
129 TTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAGAAATTTTTTTTAAATTTGTACTG
20368015 GGTGCCGGCCATTGACAGGC
194 GGTGCCGGCCATTGACAGGC
20368035 CAGCACCCAAAA
1 CAGCACCCAAAA
20368047 AATAATTTTT
Statistics
Matches: 574, Mismatches: 43, Indels: 56
0.85 0.06 0.08
Matches are distributed among these distances:
195 19 0.03
196 14 0.02
197 3 0.01
198 1 0.00
200 10 0.02
202 8 0.01
203 2 0.00
205 25 0.04
206 2 0.00
210 46 0.08
211 82 0.14
212 18 0.03
213 17 0.03
214 88 0.15
215 120 0.21
216 10 0.02
217 12 0.02
218 7 0.01
219 5 0.01
220 66 0.11
221 12 0.02
222 7 0.01
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (213 bp):
CAGCACCCAAAATTTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAG
AATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTTATT
TTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAGAAATTTTTTTTAAATTTGTACTGGG
TGCCGGCCATTGACAGGC
Found at i:20368040 original size:88 final size:92
Alignment explanation
Indices: 20367863--20368044 Score: 255
Period size: 88 Copynumber: 2.0 Consensus size: 92
20367853 TTTTTATTTA
*
20367863 TTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAGAATTTTTTTTAAATTGTACTGG
1 TTTTTTTCGTATATTTATATCTGACTCTGA-AC-AAAAAAAAGAATTTTTTTT-AACTGTA-TGG
*
20367928 GTGCCGGCCATTGACAGGCTAGCACCCAATT
62 GTGCCGGCCATTGACAGGCCAGCACCCAATT
* * *
20367959 TTTTTTTCGTATATTTATATCTTATTTTG-AC-AAAAAAAGAATTTTTTTT-ACTGT-TGGGTGC
1 TTTTTTTCGTATATTTATATCTGACTCTGAACAAAAAAAAGAATTTTTTTTAACTGTATGGGTGC
20368020 CGGCCATTGACAGGCCAGCACCCAA
66 CGGCCATTGACAGGCCAGCACCCAA
20368045 AAAATAATTT
Statistics
Matches: 81, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
88 31 0.38
90 4 0.05
92 18 0.22
94 2 0.02
96 26 0.32
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (92 bp):
TTTTTTTCGTATATTTATATCTGACTCTGAACAAAAAAAAGAATTTTTTTTAACTGTATGGGTGC
CGGCCATTGACAGGCCAGCACCCAATT
Found at i:20377361 original size:146 final size:147
Alignment explanation
Indices: 20377038--20377388 Score: 384
Period size: 146 Copynumber: 2.4 Consensus size: 147
20377028 AAATTGTGGT
* * * * * *
20377038 ATACCAAAATTTATAAGTGAATATCCTTAGATATTTTGGTATATACCATAATTTCTAAGGGAATA
1 ATACCAAAATTTCTAAGAGCACATCCTTAGATATTTTGGTATATACCATAATTTCTAAAGAAATA
* * * *
20377103 CCAATATTTTTATGGAACCTCGTAAGAAATTTTGGTATACCAAAATCGTGTTGTATAAACTTATA
66 CCAATATTTCTATGGAACCTCGTAAGAAATTTTGATATACCAAAATCGTATTGTATAAACCTATA
*
20377168 ACAAGATTTCTAACGAA
131 ACAAGATTTCTAACAAA
*** * * * *
20377185 ATACCAAAATTTCTAAGAGGTTATCTTTAGAAATTCTGGTATATACCTTAATTTCTAAAGAAATA
1 ATACCAAAATTTCTAAGAGCACATCCTTAGATATTTTGGTATATACCATAATTTCTAAAGAAATA
** * * *
20377250 TTAATATTTCTATGGAACCTCGTTAG-AATTTTGATATACCAAAATC-TAAATT-TATGAGCCTA
66 CCAATATTTCTATGGAACCTCGTAAGAAATTTTGATATACCAAAATCGT--ATTGTATAAACCTA
* *
20377312 TACCAAGATTTCTAATAAA
129 TAACAAGATTTCTAACAAA
* ** * * *
20377331 ATATCACTATTTCTAATAGCACATCCTTAGATATTTTGGTATATACTAAAATTTCTAA
1 ATACCAAAATTTCTAAGAGCACATCCTTAGATATTTTGGTATATACCATAATTTCTAA
20377389 CAAGATGGTA
Statistics
Matches: 167, Mismatches: 35, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
145 1 0.01
146 87 0.52
147 79 0.47
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (147 bp):
ATACCAAAATTTCTAAGAGCACATCCTTAGATATTTTGGTATATACCATAATTTCTAAAGAAATA
CCAATATTTCTATGGAACCTCGTAAGAAATTTTGATATACCAAAATCGTATTGTATAAACCTATA
ACAAGATTTCTAACAAA
Found at i:20387803 original size:15 final size:15
Alignment explanation
Indices: 20387774--20387808 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
20387764 AACTCTATTT
20387774 TAATT-ATATTAAGA
1 TAATTAATATTAAGA
*
20387788 TAATTAATATTGAGA
1 TAATTAATATTAAGA
20387803 TAATTA
1 TAATTA
20387809 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:20391768 original size:21 final size:21
Alignment explanation
Indices: 20391744--20391787 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20391734 GCAACCCAAT
*
20391744 TTTTATT-TTTATTATTATTTA
1 TTTTATTCTTTACT-TTATTTA
*
20391765 TTTTTTTCTTTACTTTATTTA
1 TTTTATTCTTTACTTTATTTA
20391786 TT
1 TT
20391788 ACTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTATTCTTTACTTTATTTA
Found at i:20391781 original size:17 final size:17
Alignment explanation
Indices: 20391761--20391802 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
20391751 TTTATTATTA
*
20391761 TTTATTTTTTTCTTTAC
1 TTTATTTTTTACTTTAC
* *
20391778 TTTATTTATTACTTTAT
1 TTTATTTTTTACTTTAC
20391795 TTTATTTT
1 TTTATTTT
20391803 ATTTTACTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTTTACTTTAC
Found at i:20391797 original size:27 final size:26
Alignment explanation
Indices: 20391751--20391814 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 26
20391741 AATTTTTATT
*
20391751 TTTATTATTATTTATTTTTTTCTTTAC
1 TTTATTATTATTTATTTTTAT-TTTAC
*
20391778 TTTATTTATTACTTTA-TTTTATTTTAT
1 TTTA-TTATTA-TTTATTTTTATTTTAC
20391805 TTTACTTATT
1 TTTA-TTATT
20391815 TGAATATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 17 0.53
28 11 0.34
29 4 0.12
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTATTATTATTTATTTTTATTTTAC
Found at i:20392856 original size:17 final size:17
Alignment explanation
Indices: 20392824--20392856 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20392814 CCTAAAGCAT
*
20392824 AAAAAAAAGGAAAAAAG
1 AAAAAAAAGAAAAAAAG
20392841 AAAAAAAAGAAAAAAA
1 AAAAAAAAGAAAAAAA
20392857 AATAATTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAAAG
Found at i:20392858 original size:10 final size:9
Alignment explanation
Indices: 20392824--20392857 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
20392814 CCTAAAGCAT
20392824 AAAAAAAAG
1 AAAAAAAAG
*
20392833 -GAAAAAAG
1 AAAAAAAAG
20392841 AAAAAAAAG
1 AAAAAAAAG
20392850 AAAAAAAA
1 AAAAAAAA
20392858 ATAATTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:20397553 original size:50 final size:50
Alignment explanation
Indices: 20397478--20397653 Score: 199
Period size: 50 Copynumber: 3.5 Consensus size: 50
20397468 TTTGGAAAGT
*
20397478 AAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * * ** ** * * *
20397528 AAGATTTGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGGAAGT
1 AAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* *
20397578 AAGATTCGTCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * *
20397628 AAGATTGGCCACTGTGGCTTTAATCT
1 AAGATTCGCCATTGTAGCTTTAATCT
20397654 ATTCCACTGT
Statistics
Matches: 98, Mismatches: 28, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
50 98 1.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (50 bp):
AAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
Found at i:20397647 original size:100 final size:100
Alignment explanation
Indices: 20397471--20397686 Score: 333
Period size: 100 Copynumber: 2.2 Consensus size: 100
20397461 CGTAACTTTT
*
20397471 GGAAAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTG
1 GGAAAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTGG
** * *
20397536 CCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCT
66 CCACTGTGGCTTTAATCTATTCCACTGCACCGCCA
* * * *
20397571 GGGAAGTAAGATTCGTCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTGG
1 GGAAAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTGG
* *
20397636 CCACTGTGGCTTTAATCTATTCCACTGTACTGCCA
66 CCACTGTGGCTTTAATCTATTCCACTGCACCGCCA
20397671 GGAAAGTAAGATTCGC
1 GGAAAGTAAGATTCGC
20397687 TATTCTCAGT
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 103 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (100 bp):
GGAAAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTGG
CCACTGTGGCTTTAATCTATTCCACTGCACCGCCA
Found at i:20397682 original size:50 final size:50
Alignment explanation
Indices: 20397474--20397686 Score: 156
Period size: 50 Copynumber: 4.3 Consensus size: 50
20397464 AACTTTTGGA
* * * * ** * * *
20397474 AAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGG
1 AAGTAAGATTCGCCACTGTGGCTTTAATCTATTCCACTGCACTGCCAGGG
* * ** * * *
20397524 AAGCAAGATTTGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
1 AAGTAAGATTCGCCACTGTGGCTTTAATCTATTCCACTGCACTGCCAGGG
* ** * * ** * * *
20397574 AAGTAAGATTCGTCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGG
1 AAGTAAGATTCGCCACTGTGGCTTTAATCTATTCCACTGCACTGCCAGGG
* * * *
20397624 AAGCAAGATTGGCCACTGTGGCTTTAATCTATTCCACTGTACTGCCAGGA
1 AAGTAAGATTCGCCACTGTGGCTTTAATCTATTCCACTGCACTGCCAGGG
20397674 AAGTAAGATTCGC
1 AAGTAAGATTCGC
20397687 TATTCTCAGT
Statistics
Matches: 124, Mismatches: 39, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
50 124 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (50 bp):
AAGTAAGATTCGCCACTGTGGCTTTAATCTATTCCACTGCACTGCCAGGG
Found at i:20397744 original size:44 final size:44
Alignment explanation
Indices: 20397689--20397774 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
20397679 AGATTCGCTA
* * *
20397689 TTCTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACCTGCT
1 TTCTCAATCTGCCCCACTGCAACCTCAGGGAGATAAGACCTGCT
* ***
20397733 TTCTCAATCTGCTCTGTTGCAACCTCAGGGAGATAAGACCTG
1 TTCTCAATCTGCCCCACTGCAACCTCAGGGAGATAAGACCTG
20397775 ATGTGATATA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (44 bp):
TTCTCAATCTGCCCCACTGCAACCTCAGGGAGATAAGACCTGCT
Found at i:20397807 original size:85 final size:85
Alignment explanation
Indices: 20397704--20397937 Score: 254
Period size: 85 Copynumber: 2.8 Consensus size: 85
20397694 AGTCTGCCCC
* * ** ***
20397704 ACTGCAACTTCAGGGGGATAAGACCTGCTT-TCTCAATCTGCTCTGTTGCAACCTCAGGGAGATA
1 ACTGCAACTTCAGAGGGATAAGACCT-ATTATCTCAATCCACTCCACTGCAACCTCAGGGAGATA
*
20397768 AGACCTGATGTGATATACTCT
65 AGACCTGATGCGATATACTCT
* * * *
20397789 ACTGCAACTTCAGAGGGATAAGATCTATTATTTCAATCCACTCCACTGCAACTTTAGGGAGATAA
1 ACTGCAACTTCAGAGGGATAAGACCTATTATCTCAATCCACTCCACTGCAACCTCAGGGAGATAA
*
20397854 GACCTGATGCGATCTACTCT
66 GACCTGATGCGATATACTCT
* ** ** * * * *
20397874 ATTGCAACTTCAGATAGATAAGATTTTTTATTTTAATCCACTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGAGGGATAAGACCTATTATCTCAATCCACTCCACTGCAACCTCAGGGAGATA
20397938 GGATTACTGG
Statistics
Matches: 128, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
84 2 0.02
85 126 0.98
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (85 bp):
ACTGCAACTTCAGAGGGATAAGACCTATTATCTCAATCCACTCCACTGCAACCTCAGGGAGATAA
GACCTGATGCGATATACTCT
Found at i:20397809 original size:41 final size:41
Alignment explanation
Indices: 20397750--20397896 Score: 127
Period size: 41 Copynumber: 3.5 Consensus size: 41
20397740 TCTGCTCTGT
*
20397750 TGCAACCTCAGGGAGATAAGACCTGATGTGATATACTCTAC
1 TGCAACTTCAGGGAGATAAGACCTGATGTGATATACTCTAC
* * * * *
20397791 TGCAACTTCAGAGG-GATAAGATCTATTATTTCA-ATCCACTCCAC
1 TGCAACTTCAG-GGAGATAAGA-C-CTGATGTGATAT--ACTCTAC
* * * *
20397835 TGCAACTTTAGGGAGATAAGACCTGATGCGATCTACTCTAT
1 TGCAACTTCAGGGAGATAAGACCTGATGTGATATACTCTAC
**
20397876 TGCAACTTCAGATAGATAAGA
1 TGCAACTTCAGGGAGATAAGA
20397897 TTTTTTATTT
Statistics
Matches: 81, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
41 40 0.49
42 9 0.11
43 9 0.11
44 23 0.28
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (41 bp):
TGCAACTTCAGGGAGATAAGACCTGATGTGATATACTCTAC
Found at i:20397839 original size:44 final size:44
Alignment explanation
Indices: 20397784--20397930 Score: 131
Period size: 44 Copynumber: 3.4 Consensus size: 44
20397774 GATGTGATAT
*
20397784 ACTCTACTGCAACTTCAGAGGGATAAGATCTATTATTTCAATCC
1 ACTCCACTGCAACTTCAGAGGGATAAGATCTATTATTTCAATCC
* * * * * *
20397828 ACTCCACTGCAACTTTAG-GGAGATAAGA-C-CTGA-TGCGATCT
1 ACTCCACTGCAACTTCAGAGG-GATAAGATCTATTATTTCAATCC
* * ** * * *
20397869 ACTCTATTGCAACTTCAGATAGATAAGATTTTTTATTTTAATCC
1 ACTCCACTGCAACTTCAGAGGGATAAGATCTATTATTTCAATCC
20397913 ACTCCACTGCAACTTCAG
1 ACTCCACTGCAACTTCAG
20397931 GGAGATAGGA
Statistics
Matches: 77, Mismatches: 21, Indels: 10
0.71 0.19 0.09
Matches are distributed among these distances:
41 27 0.35
42 2 0.03
43 5 0.06
44 43 0.56
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (44 bp):
ACTCCACTGCAACTTCAGAGGGATAAGATCTATTATTTCAATCC
Found at i:20398083 original size:217 final size:216
Alignment explanation
Indices: 20397844--20398254 Score: 578
Period size: 217 Copynumber: 1.9 Consensus size: 216
20397834 CTGCAACTTT
* * * * **
20397844 AGGGAGATAAGACCTGATGCGATCTACTCTATTGCAACTTCAGATAGATAAGATTTTTTATTTTA
1 AGGGAGATAAGACCTAATGCGATCTACTCTACTGCAACTTCAAAGAGATAAGACCTTTTATTTTA
* *
20397909 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTCAATGTAC-TCCACTGTA-TCCT
66 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTAAATCTACTTCC-C--TACTCCT
* * *
20397972 CAGGG-AGGTAAAA-TCTGCCATCTTCGATTTGCTTCACTACTGCTTAGGGAGATAAGATCTGTT
128 -AGGGAAGATAAAATTC-GCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTT
20398035 TCTTCAGTATGCTCCGCTGTAACCTC
191 TCTTCAGTATGCTCCGCTGTAACCTC
*
20398061 AGGGAGATAAGACCTAATGCGATCTACTCTGCTGCAACTTCAAAGAGATAAGACCTTTTATTTTA
1 AGGGAGATAAGACCTAATGCGATCTACTCTACTGCAACTTCAAAGAGATAAGACCTTTTATTTTA
* * * * *
20398126 ATCCGCTCCACTGCAACTTCAGGGAGATATGATTAGTGGCTTAAATCTGCTTCCCTACTCCTGGG
66 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTAAATCTACTTCCCTACTCCTAGG
* *
20398191 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTTCTT
131 GAAGATAAAATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTTCTT
20398255 TGACCTATTC
Statistics
Matches: 171, Mismatches: 19, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
215 5 0.03
216 58 0.34
217 105 0.61
218 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (216 bp):
AGGGAGATAAGACCTAATGCGATCTACTCTACTGCAACTTCAAAGAGATAAGACCTTTTATTTTA
ATCCACTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTAAATCTACTTCCCTACTCCTAGG
GAAGATAAAATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTTCTTC
AGTATGCTCCGCTGTAACCTC
Found at i:20398507 original size:130 final size:130
Alignment explanation
Indices: 20398145--20398480 Score: 582
Period size: 130 Copynumber: 2.6 Consensus size: 130
20398135 ACTGCAACTT
*
20398145 CAGGGAGATATGATTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTC
1 CAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTC
* *
20398210 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTTCTTTGACCTATTCCACTGTTGAC
66 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTTCTTCGACCTATTCCACTGCTGAC
* *
20398275 CAGGGAGATAGGATTAGTGGCTTAAATATGCTTCCCTACTCCTTGGGAAGATAAGATTCGCCGTC
1 CAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTC
**
20398340 TTCGATCAACTCCACTACTGCTTAGGGAGATAAGATCTGTTTCTTCGACCTATTCCACTGCTGAC
66 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTTCTTCGACCTATTCCACTGCTGAC
* * *
20398405 CAGGGAGATAGGATTAGTGGCTTAAATCTTCTTCCCTACTCCTGGGGAAGATAAGATTCACCGTT
1 CAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTC
20398470 TTCGATCTGCT
66 TTCGATCTGCT
20398481 TCGCTGTGGT
Statistics
Matches: 192, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 192 1.00
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (130 bp):
CAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTC
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTTCTTCGACCTATTCCACTGCTGAC
Found at i:20409723 original size:18 final size:18
Alignment explanation
Indices: 20409688--20409722 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20409678 TAAACTGGAC
*
20409688 ATTTATTTGGTATATTTT
1 ATTTATTTGATATATTTT
20409706 ATTTATTTGATAT-TTTT
1 ATTTATTTGATATATTTT
20409723 TCATATCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (18 bp):
ATTTATTTGATATATTTT
Found at i:20409978 original size:3 final size:3
Alignment explanation
Indices: 20409970--20410044 Score: 125
Period size: 3 Copynumber: 25.0 Consensus size: 3
20409960 AGTCCTATTT
*
20409970 AAG AAG AAG AA- AGAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
20410015 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
20410045 TGACTATAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
2 1 0.01
3 66 0.97
4 1 0.01
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:20411629 original size:28 final size:29
Alignment explanation
Indices: 20411567--20411630 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
20411557 AAATAAACCA
*
20411567 AACTTATTAAAAATCCTAAAAATAAATTT
1 AACTTATTAAAAACCCTAAAAATAAATTT
* *
20411596 ATCTTATT-AAAACCCTAAATAT-AATTCT
1 AACTTATTAAAAACCCTAAAAATAAATT-T
20411624 AACTTAT
1 AACTTAT
20411631 AAGGACCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 4 0.13
28 19 0.63
29 7 0.23
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (29 bp):
AACTTATTAAAAACCCTAAAAATAAATTT
Found at i:20411808 original size:41 final size:42
Alignment explanation
Indices: 20411673--20411827 Score: 158
Period size: 41 Copynumber: 3.7 Consensus size: 42
20411663 AATTTATTAG
* * *
20411673 AAAACTTAA-ATATAATTTAG-AAATTAAATTCTACCCTATT
1 AAAACTTAAGATCTAATTTAGCAAAATAAATTCTAACCTATT
*
20411713 AAAACTTAA-ATCTAATTTAAAGCAAAATAAAATTCTAACCGATT
1 AAAACTTAAGATCTAATTT--AGCAAAAT-AAATTCTAACCTATT
* * * * *
20411757 ATAACCTAAGACCTAATTTAG-AAAATAAATTCTAACATAGT
1 AAAACTTAAGATCTAATTTAGCAAAATAAATTCTAACCTATT
*
20411798 AAAACTTAAGATCTAAATT-GCAAAATAAAT
1 AAAACTTAAGATCTAATTTAGCAAAATAAAT
20411828 CCTGACCGAT
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
40 18 0.19
41 36 0.38
42 7 0.07
43 6 0.06
44 20 0.21
45 8 0.08
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (42 bp):
AAAACTTAAGATCTAATTTAGCAAAATAAATTCTAACCTATT
Found at i:20415468 original size:151 final size:152
Alignment explanation
Indices: 20415193--20415488 Score: 540
Period size: 151 Copynumber: 2.0 Consensus size: 152
20415183 TGGCTTCTTA
20415193 GAGCCTTAGGTCAACTTTGTTAGAAAGTGATCCCACATCATTTTCAGAATATTATTGAGTTTGAT
1 GAGCCTTAGGTCAACTTTGTTAGAAAGTGATCCCACATCATTTTCAGAATATTATTGAGTTTGAT
*
20415258 TACTCTTTAAAAGTTATAAGTGAGAAAATCTTAACTTATTTTCTTTGTCTCCTAGAGTTGTTTAT
66 TACTCTTTAAAAGTTACAAGTGAGAAAATCTTAACTTATTTTCTTTGTCTCCTAGAGTTGTTTAT
20415323 TTTATTGCGAGTGCATAACGGC
131 TTTATTGCGAGTGCATAACGGC
* * *
20415345 GAGCCTTAGGTCAACTTTGTTAGAAATTGATCCTACATCTTTTTC-GAATATTATTGAGTTTGAT
1 GAGCCTTAGGTCAACTTTGTTAGAAAGTGATCCCACATCATTTTCAGAATATTATTGAGTTTGAT
*
20415409 TACTCTTTAAAAGTTACAAGTGAGAAAATCTTAACTTGTTTTCTTTGTCTCCTAGAGTTGTTTAT
66 TACTCTTTAAAAGTTACAAGTGAGAAAATCTTAACTTATTTTCTTTGTCTCCTAGAGTTGTTTAT
20415474 TTTATTGCGAGTGCA
131 TTTATTGCGAGTGCA
20415489 AAATGATGAG
Statistics
Matches: 139, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
151 97 0.70
152 42 0.30
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (152 bp):
GAGCCTTAGGTCAACTTTGTTAGAAAGTGATCCCACATCATTTTCAGAATATTATTGAGTTTGAT
TACTCTTTAAAAGTTACAAGTGAGAAAATCTTAACTTATTTTCTTTGTCTCCTAGAGTTGTTTAT
TTTATTGCGAGTGCATAACGGC
Found at i:20418354 original size:26 final size:27
Alignment explanation
Indices: 20418304--20418365 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
20418294 TTTCTCGAAA
* *
20418304 TTTACCAGGGGTAAAATCTT-CAAAAT
1 TTTACTAGGGGTAAAATCTTAAAAAAT
20418330 TTTACTAGGGGTAAAAT-TGTAAAAAAT
1 TTTACTAGGGGTAAAATCT-TAAAAAAT
*
20418357 TTTATTAGG
1 TTTACTAGG
20418366 CTAAATTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.03
26 17 0.55
27 13 0.42
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (27 bp):
TTTACTAGGGGTAAAATCTTAAAAAAT
Found at i:20418750 original size:9 final size:9
Alignment explanation
Indices: 20418736--20418790 Score: 56
Period size: 9 Copynumber: 5.6 Consensus size: 9
20418726 AAATAGAGGG
*
20418736 AATTTTTCC
1 AATTTTACC
20418745 AATTTTACC
1 AATTTTACC
20418754 AATTTCTATTGACC
1 AA--T-T-TT-ACC
20418768 AATTTTACC
1 AATTTTACC
20418777 AATTTTACC
1 AATTTTACC
20418786 AATTT
1 AATTT
20418791 CTATTAAAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
9 27 0.68
10 2 0.05
11 2 0.05
12 2 0.05
13 2 0.05
14 5 0.12
ACGTcount: A:0.31, C:0.20, G:0.02, T:0.47
Consensus pattern (9 bp):
AATTTTACC
Found at i:20422618 original size:57 final size:56
Alignment explanation
Indices: 20422549--20423034 Score: 326
Period size: 57 Copynumber: 8.6 Consensus size: 56
20422539 CCGCCTAAAA
* **
20422549 CCTTAAAGAGGTGGATTATATAAAGTCCATATTAGAA-AGATGTGACTATCAACTTT
1 CCTTAAAGAGGTGAATTATATAAAGTCCATATTA-AAGAGGCGTGACTATCAACTTT
* **
20422605 GCCTTAAAGAGGTG-A--AT-T--AGTCCATCTTAAAGAGGTTTGACTATCAACTTCT
1 -CCTTAAAGAGGTGAATTATATAAAGTCCATATTAAAGAGGCGTGACTATCAACTT-T
* * * *
20422657 CCTTAAAGAGGTGAATTCTTTAAAGTCCAT-TTAAAAAAAGGCGTGACTATCAATTTTT
1 CCTTAAAGAGGTGAATTATATAAAGTCCATATT--AAAGAGGCGTGACTATCAA-CTTT
* * *
20422715 CCTTAAAGAGGTGAATTATATAAAGACCATATTAAAGAGGCGTGATTATCAATTTT
1 CCTTAAAGAGGTGAATTATATAAAGTCCATATTAAAGAGGCGTGACTATCAACTTT
* * * * * ** ** ***
20422771 CCCTCAGAGAGATGAATTATATAAAATCCATCTTAAAGAGGTATGGTTAT-TTGTGTCT
1 -CCTTAAAGAGGTGAATTATATAAAGTCCATATTAAAGAGGCGTGACTATCAACT-T-T
* * * * * * *
20422829 CCTTAAAGAGGTGAACTATACAAATTCCATTTTAAGGAGGTGTGATTATCAACTTT
1 CCTTAAAGAGGTGAATTATATAAAGTCCATATTAAAGAGGCGTGACTATCAACTTT
* * * * * * * * * *
20422885 ACTTTAAAAAAGTGAACTACATAAAGTCCATCTTAAGGAGGCATGACTATGAACTTCG
1 -CCTTAAAGAGGTGAATTATATAAAGTCCATATTAAAGAGGCGTGACTATCAACTT-T
* * * * * * *
20422943 CCTTAAAGAGGTGAATCATATAGAGTCCATGTTAAAGATGTGTGACTATTAGC-TT
1 CCTTAAAGAGGTGAATTATATAAAGTCCATATTAAAGAGGCGTGACTATCAACTTT
* *
20422998 CGCTTTAAATAGGTGAATTATATAAAGTCCATCTTAA
1 C-C-TTAAAGAGGTGAATTATATAAAGTCCATATTAA
20423035 GAAAGTGTGA
Statistics
Matches: 340, Mismatches: 69, Indels: 40
0.76 0.15 0.09
Matches are distributed among these distances:
50 2 0.01
51 39 0.11
52 2 0.01
53 1 0.00
54 3 0.01
55 2 0.01
56 11 0.03
57 230 0.68
58 46 0.14
59 4 0.01
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.33
Consensus pattern (56 bp):
CCTTAAAGAGGTGAATTATATAAAGTCCATATTAAAGAGGCGTGACTATCAACTTT
Found at i:20433919 original size:59 final size:59
Alignment explanation
Indices: 20433841--20433953 Score: 136
Period size: 59 Copynumber: 1.9 Consensus size: 59
20433831 CCTTAAAGAG
* * * * * ** * * *
20433841 GTGAATTATATAAATTCCATTTTAAGGAGGTGTGATTATGAACTTTACTTTAAAAAAAA
1 GTGAACTACATAAAGTCCATCTTAAAGAGGCATGACTATGAACTTCACCTTAAAAAAAA
20433900 GTGAACTACATAAAGTCCATCTTAAAGAGGCATGACTATGAACTTCACCTTAAA
1 GTGAACTACATAAAGTCCATCTTAAAGAGGCATGACTATGAACTTCACCTTAAA
20433954 GAGGTGAATC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
59 44 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (59 bp):
GTGAACTACATAAAGTCCATCTTAAAGAGGCATGACTATGAACTTCACCTTAAAAAAAA
Found at i:20433953 original size:116 final size:114
Alignment explanation
Indices: 20433831--20434038 Score: 272
Period size: 116 Copynumber: 1.8 Consensus size: 114
20433821 ATTTGTGTTT
* * * * * *
20433831 CCTTAAAGAGGTGAATTATATAAATTCCATTTTAAGGAGGTGTGATTATGAACTTTACTTTAAAA
1 CCTTAAAGAGGTGAATCATATAAAGTCCATGTTAAAGAGGTGTGACTATGAACTTCACTTT--AA
20433896 AAAAGTGAACTACATAAAGTCCATCTTAAAGAGGCATGACTATGAACTTCA
64 AAAAGTGAACTACATAAAGTCCATCTTAAAGAGGCATGACTATGAACTTCA
* * * * *
20433947 CCTTAAAGAGGTGAATCATATAGAGTCCATGTTAAAGATGTGTGACTATTAGCTTCACTTTAAAT
1 CCTTAAAGAGGTGAATCATATAAAGTCCATGTTAAAGAGGTGTGACTATGAACTTCACTTTAAAA
* * *
20434012 AGGTGAATTATATAAAGTCCATCTTAA
66 AAGTGAACTACATAAAGTCCATCTTAA
20434039 GAAAGTGTGA
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
114 27 0.35
116 51 0.65
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (114 bp):
CCTTAAAGAGGTGAATCATATAAAGTCCATGTTAAAGAGGTGTGACTATGAACTTCACTTTAAAA
AAGTGAACTACATAAAGTCCATCTTAAAGAGGCATGACTATGAACTTCA
Found at i:20434047 original size:57 final size:56
Alignment explanation
Indices: 20433553--20434049 Score: 244
Period size: 57 Copynumber: 8.8 Consensus size: 56
20433543 ACTTAAAACC
* * * * ** *
20433553 TTAAAGAGGTGGATTATATAAAGTCCATATTAGAAAGATGTGACTATCAACTTTGCC
1 TTAAAGAGGTGAATTATATAAAGTCCATCTTAAAAAG-TGTGACTATGAACTTCACT
* * * * *
20433610 TTAAAGAGGTG-A--AT-T--AGTCCATCTTAAAGAGGTTTGACTATCAACTTCTCC
1 TTAAAGAGGTGAATTATATAAAGTCCATCTTAAA-AAGTGTGACTATGAACTTCACT
* * * * *
20433661 TTAAAGAGGTGAATTCTATAAAGTCCATTTTAAAAAAGGCGTGACTATCAATTTTTC-CT
1 TTAAAGAGGTGAATTATATAAAGTCCATCTT-AAAAA-GTGTGACTATGAA--CTTCACT
* * * * * * * *
20433720 TT-AAGAGGTGAATTATATAAAGACCATATTAAAGAGGCGTGATTATCAATTTTC-CC
1 TTAAAGAGGTGAATTATATAAAGTCCATCTTAAA-AAGTGTGACTATGAA-CTTCACT
* * * * * * * ** ***
20433776 TCAGAGAGATAAATTATATAAAATCCATCTTAAAGAGGTATGGTTATTTGTGTTTC-C-
1 TTAAAGAGGTGAATTATATAAAGTCCATCTTAAA-AAGTGTGACTA--TGAACTTCACT
* * * * * *
20433833 TTAAAGAGGTGAATTATATAAATTCCATTTTAAGGAGGTGTGATTATGAACTTTACT
1 TTAAAGAGGTGAATTATATAAAGTCCATCTTAA-AAAGTGTGACTATGAACTTCACT
* * * * * *
20433890 TTAAAAAAAAGTGAACTACATAAAGTCCATCTTAAAGAG-GCATGACTATGAACTTCACC
1 TT--AAAGAGGTGAATTATATAAAGTCCATCTTAAAAAGTG--TGACTATGAACTTCACT
* * * * * *
20433949 TTAAAGAGGTGAATCATATAGAGTCCATGTTAAAGATGTGTGACTATTAGCTTCACT
1 TTAAAGAGGTGAATTATATAAAGTCCATCTTAAA-AAGTGTGACTATGAACTTCACT
*
20434006 TTAAATAGGTGAATTATATAAAGTCCATCTTAAGAAAGTGTGAC
1 TTAAAGAGGTGAATTATATAAAGTCCATCTTAA-AAAGTGTGAC
20434050 ATCATTTTCG
Statistics
Matches: 341, Mismatches: 74, Indels: 50
0.73 0.16 0.11
Matches are distributed among these distances:
51 38 0.11
52 3 0.01
53 1 0.00
54 3 0.01
55 5 0.01
56 9 0.03
57 185 0.54
58 48 0.14
59 46 0.13
60 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (56 bp):
TTAAAGAGGTGAATTATATAAAGTCCATCTTAAAAAGTGTGACTATGAACTTCACT
Found at i:20448089 original size:24 final size:24
Alignment explanation
Indices: 20448061--20448112 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
20448051 TTAGTAAGTC
*
20448061 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
20448085 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
20448109 AAAT
1 AAAT
20448113 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:20450059 original size:24 final size:24
Alignment explanation
Indices: 20450031--20450082 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
20450021 TTAGTAAGTC
*
20450031 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
20450055 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
20450079 AAAT
1 AAAT
20450083 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:20455583 original size:16 final size:16
Alignment explanation
Indices: 20455559--20455592 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20455549 GGTTCACTGG
*
20455559 AATGGAATAGGGCTGT
1 AATGGAATAGAGCTGT
*
20455575 AATGTAATAGAGCTGT
1 AATGGAATAGAGCTGT
20455591 AA
1 AA
20455593 CCAGTAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.29, T:0.26
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:20455827 original size:16 final size:16
Alignment explanation
Indices: 20455803--20455844 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
20455793 TAAAAATAAC
*
20455803 TAATTTAATTA-TATTT
1 TAATATAATTATTA-TT
20455819 TAATATAATTATTATT
1 TAATATAATTATTATT
*
20455835 AAATATAATT
1 TAATATAATT
20455845 TAATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 21 0.91
17 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATAATTATTATT
Found at i:20455849 original size:61 final size:58
Alignment explanation
Indices: 20455749--20455888 Score: 172
Period size: 61 Copynumber: 2.3 Consensus size: 58
20455739 AATTATTGTT
* ** *
20455749 ATTAAATTTTAATAGGATTATTATTAAATATGATGTAATAAAAATAAAAATAACTAATTTA
1 ATTATATTTTAATATAATTATTATTAAATATAATGTAATAAAAAT-AAAAT-A-TAATTTA
* *
20455810 ATTATATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATATATAATTTA
1 ATTATATTTTAATATAATTATTATTAAATATAATGTAATAAAAATAAAATATAATTTA
* *
20455868 GTAATATTCTTAATATAATTA
1 ATTATATT-TTAATATAATTA
20455889 ATTTTATATT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
58 13 0.19
59 13 0.19
60 4 0.06
61 40 0.57
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (58 bp):
ATTATATTTTAATATAATTATTATTAAATATAATGTAATAAAAATAAAATATAATTTA
Found at i:20455965 original size:24 final size:24
Alignment explanation
Indices: 20455922--20455970 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
20455912 AGATTCTTTA
20455922 ATTTTATATTAAAATATTTAAAAT
1 ATTTTATATTAAAATATTTAAAAT
20455946 ATTTTAT-TTAATACAT-TTTAAAAT
1 ATTTTATATTAA-A-ATATTTAAAAT
20455970 A
1 A
20455971 ATACACTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.17
24 17 0.74
25 2 0.09
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
ATTTTATATTAAAATATTTAAAAT
Found at i:20464834 original size:18 final size:17
Alignment explanation
Indices: 20464801--20464839 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
20464791 TTGTATAAAT
20464801 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
20464819 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
20464836 TGTG
1 TGTG
20464840 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:20464971 original size:8 final size:8
Alignment explanation
Indices: 20464958--20464986 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
20464948 CACTAGAGAC
20464958 CAGTGTTA
1 CAGTGTTA
20464966 CAGTGTTA
1 CAGTGTTA
20464974 CAGTGTTA
1 CAGTGTTA
20464982 CAGTG
1 CAGTG
20464987 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:20465100 original size:23 final size:23
Alignment explanation
Indices: 20465073--20465145 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
20465063 AGTGTTATTG
20465073 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
20465096 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
20465119 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
20465142 ATCA
1 ATCA
20465146 ATGTGGCACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:20472187 original size:18 final size:17
Alignment explanation
Indices: 20472154--20472192 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
20472144 TTGTATAAAT
20472154 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
20472172 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
20472189 TGTG
1 TGTG
20472193 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:20472324 original size:8 final size:8
Alignment explanation
Indices: 20472311--20472339 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
20472301 CACTAGAGAC
20472311 CAGTGTTA
1 CAGTGTTA
20472319 CAGTGTTA
1 CAGTGTTA
20472327 CAGTGTTA
1 CAGTGTTA
20472335 CAGTG
1 CAGTG
20472340 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:20472453 original size:23 final size:23
Alignment explanation
Indices: 20472426--20472498 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
20472416 AGTGTTATTG
20472426 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
20472449 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
20472472 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
20472495 ATCA
1 ATCA
20472499 ATGTGGCACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:20473997 original size:6 final size:6
Alignment explanation
Indices: 20473986--20474014 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
20473976 GTGTGTTCTT
20473986 TATTTC TATTTC TATTTC TATTTC TATTT
1 TATTTC TATTTC TATTTC TATTTC TATTT
20474015 TCTTTGCGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (6 bp):
TATTTC
Found at i:20475849 original size:22 final size:21
Alignment explanation
Indices: 20475825--20475864 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
20475815 TAAAAGGAAA
*
20475825 AAAACAAACTTAAAAATGGTG
1 AAAACAAACCTAAAAATGGTG
20475846 AAAACAAACCTAAAAATGG
1 AAAACAAACCTAAAAATGG
20475865 ACAAATCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.15
Consensus pattern (21 bp):
AAAACAAACCTAAAAATGGTG
Found at i:20478182 original size:47 final size:47
Alignment explanation
Indices: 20478107--20478414 Score: 490
Period size: 47 Copynumber: 6.5 Consensus size: 47
20478097 TTCGGGACTC
* * * * * * *
20478107 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* *
20478154 GTCACATATATACACTTTCACATTCATCACATCGACCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
20478201 ATCACATATATACACTTTCACATTCATCACATCGGTCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
20478248 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
20478295 ATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
20478342 ATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
20478391 ATCACATATATACACTTTCACATT
1 ATCACATATATACACTTTCACATT
20478415 TATTCAAATA
Statistics
Matches: 245, Mismatches: 14, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 198 0.81
49 47 0.19
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:20482614 original size:20 final size:20
Alignment explanation
Indices: 20482589--20482626 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20482579 ATACAAATTA
20482589 TTATTCCTAGAAAATAAAAT
1 TTATTCCTAGAAAATAAAAT
*
20482609 TTATTCTTAGAAAATAAA
1 TTATTCCTAGAAAATAAA
20482627 TTCTCACTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (20 bp):
TTATTCCTAGAAAATAAAAT
Found at i:20483044 original size:17 final size:17
Alignment explanation
Indices: 20483006--20483047 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
20482996 GGAATGTGAC
* *
20483006 TCATTTATCTAATTTTA
1 TCATTTCTCTAATTTCA
*
20483023 CCATTTCTCTAATTTCA
1 TCATTTCTCTAATTTCA
20483040 TCATTTCT
1 TCATTTCT
20483048 ATTAATTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (17 bp):
TCATTTCTCTAATTTCA
Found at i:20483377 original size:43 final size:43
Alignment explanation
Indices: 20483325--20483508 Score: 225
Period size: 43 Copynumber: 4.3 Consensus size: 43
20483315 CACTTTTCCC
*
20483325 CAAACGCCGCTAAAGATCATGGTCTTTAGCGGCGCTTTTTTCA
1 CAAACGCCGCTAAAGATCATGATCTTTAGCGGCGCTTTTTTCA
**
20483368 CAAACGCCGCTAAAGATCATGATCTTTAGCGGCGCTTTTCACA
1 CAAACGCCGCTAAAGATCATGATCTTTAGCGGCGCTTTTTTCA
* * *
20483411 CAAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTCTATT-A
1 CAAACGCCGCTAAAGATCATGATCTTTAGCGGCGCTT-TTTTCA
* * *
20483454 CAAACGCCGCTATAA-A-AAT-AACTTTTAGCGGCAC-TTTTTCA
1 CAAACGCCGCTA-AAGATCATGATC-TTTAGCGGCGCTTTTTTCA
20483495 CAAACGCCGCTAAA
1 CAAACGCCGCTAAA
20483509 AACATAACTT
Statistics
Matches: 125, Mismatches: 12, Indels: 11
0.84 0.08 0.07
Matches are distributed among these distances:
40 5 0.04
41 16 0.13
42 12 0.10
43 89 0.71
44 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
CAAACGCCGCTAAAGATCATGATCTTTAGCGGCGCTTTTTTCA
Found at i:20486068 original size:21 final size:21
Alignment explanation
Indices: 20486044--20486085 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
20486034 ATTTCTTGAC
20486044 TAATTTAATG-GATAAATAAAA
1 TAATTTAATGAGA-AAATAAAA
20486065 TAATTTAATGAGAAAATAAAA
1 TAATTTAATGAGAAAATAAAA
20486086 GTTAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (21 bp):
TAATTTAATGAGAAAATAAAA
Found at i:20488220 original size:5 final size:5
Alignment explanation
Indices: 20488210--20488235 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20488200 ACTTGGTTTG
20488210 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
20488236 CAAATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:20489226 original size:27 final size:27
Alignment explanation
Indices: 20489188--20489271 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
20489178 TTTTGAATAA
20489188 AAAT-TATTTTATTTAAACTAATATTT
1 AAATATATTTTATTTAAACTAATATTT
20489214 AAATATATTTTATTTAAACT--TATTT
1 AAATATATTTTATTTAAACTAATATTT
* * *
20489239 -ATTA-ATTCTATTTAAATTAATATTT
1 AAATATATTTTATTTAAACTAATATTT
20489264 AAATATAT
1 AAATATAT
20489272 CAAATGGTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
23 12 0.24
24 3 0.06
25 10 0.20
26 7 0.14
27 17 0.35
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (27 bp):
AAATATATTTTATTTAAACTAATATTT
Found at i:20489237 original size:15 final size:15
Alignment explanation
Indices: 20489191--20489238 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
20489181 TGAATAAAAA
20489191 TTATTTTATTTAAAC
1 TTATTTTATTTAAAC
*
20489206 -TA--ATATTTAAA-
1 TTATTTTATTTAAAC
20489217 TATATTTTATTTAAAC
1 T-TATTTTATTTAAAC
20489233 TTATTT
1 TTATTT
20489239 ATTAATTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
12 8 0.31
13 2 0.08
14 2 0.08
15 13 0.50
16 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATTTTATTTAAAC
Found at i:20489636 original size:21 final size:22
Alignment explanation
Indices: 20489603--20489643 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
20489593 GTCTAACTCC
*
20489603 TAAACCCCTAACCCTTAAACCT
1 TAAACCCCTAACCCTAAAACCT
*
20489625 TAAATCCC-AACCCTAAAAC
1 TAAACCCCTAACCCTAAAAC
20489644 ACTAACTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAACCCCTAACCCTAAAACCT
Found at i:20489663 original size:27 final size:27
Alignment explanation
Indices: 20489627--20489688 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
20489617 TTAAACCTTA
*
20489627 AATCCC-AA-CCCTAAAACACTAACTCG
1 AATCCCTAACCCCT-AAACACTAACCCG
*
20489653 AATCCCTAACCCCTAAACTCTAACCCG
1 AATCCCTAACCCCTAAACACTAACCCG
20489680 AATCCCTAA
1 AATCCCTAA
20489689 ACCAATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 6 0.19
27 22 0.69
28 4 0.12
ACGTcount: A:0.39, C:0.40, G:0.03, T:0.18
Consensus pattern (27 bp):
AATCCCTAACCCCTAAACACTAACCCG
Found at i:20489757 original size:81 final size:74
Alignment explanation
Indices: 20489658--20489832 Score: 224
Period size: 74 Copynumber: 2.3 Consensus size: 74
20489648 ACTCGAATCC
* * * * *
20489658 CTAACCCCTAAACTCTAACCCGAATCCCTAAACCAATTAAATAAGCTTATTTAATATATAAATTA
1 CTAAACCCTAAACCCTAACCCGAATACCT-AACC-ACT--A-AACCTTATTT-A-ATATAAATTA
20489723 AAAAATACTAATTAAT
59 AAAAATACTAATTAAT
* *
20489739 CTAAACCCTAAACCCTAACCCGAATACCTAACCCCTAAACCTTATTTAATATAAATTAAAACATA
1 CTAAACCCTAAACCCTAACCCGAATACCTAACCACTAAACCTTATTTAATATAAATTAAAAAATA
20489804 CTAATTAAT
66 CTAATTAAT
20489813 CTAAACCCTAAACCCTAACC
1 CTAAACCCTAAACCCTAACC
20489833 TAACATCAAA
Statistics
Matches: 87, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
74 45 0.52
75 1 0.01
76 9 0.10
77 1 0.01
79 1 0.01
80 4 0.05
81 26 0.30
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.27
Consensus pattern (74 bp):
CTAAACCCTAAACCCTAACCCGAATACCTAACCACTAAACCTTATTTAATATAAATTAAAAAATA
CTAATTAAT
Found at i:20489931 original size:14 final size:15
Alignment explanation
Indices: 20489912--20489944 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
20489902 CTTAAACTAG
20489912 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
20489926 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
20489941 AATC
1 AATC
20489945 TATAAACCTT
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:20490437 original size:41 final size:41
Alignment explanation
Indices: 20490331--20490765 Score: 495
Period size: 41 Copynumber: 10.6 Consensus size: 41
20490321 TATTTTTGCA
*
20490331 GCGCTTTTTCAAAAACGCCGCTAAAG-CACAGAGCATTAGCG
1 GCGCTTTTTAAAAAACGCCGCTAAAGAC-CAGAGCATTAGCG
* * * *
20490372 ACGCTTTTT-GAAAACGCCACTAAAGACTAGAGCATTAGCG
1 GCGCTTTTTAAAAAACGCCGCTAAAGACCAGAGCATTAGCG
* *
20490412 GCGCTTTTCT-GAAAACGGCGCTAAAGACCAGAGCATTAGCG
1 GCGCTTTT-TAAAAAACGCCGCTAAAGACCAGAGCATTAGCG
* * * * *
20490453 GTGCTTTTTTAAAAACACCACTAAAGTCTC-GAGCATTAGCG
1 GCGCTTTTTAAAAAACGCCGCTAAAGAC-CAGAGCATTAGCG
* *
20490494 GCGC-TTTTACAAAAATGCTGCTAAAGACCAGAGCATTAGCG
1 GCGCTTTTTA-AAAAACGCCGCTAAAGACCAGAGCATTAGCG
*
20490535 GCGCTTTTTAAAAAACGCCGCTAAAGACCAGAGCATTAACG
1 GCGCTTTTTAAAAAACGCCGCTAAAGACCAGAGCATTAGCG
* * * * *
20490576 ACGCTTTTTAAAAAATGCCGCTAAAGTCCCGAGCATTAGTG
1 GCGCTTTTTAAAAAACGCCGCTAAAGACCAGAGCATTAGCG
* * *
20490617 GCGCTTTTTAAAAAACGCCGCTAAAGTCCCGAGCATTAGCA
1 GCGCTTTTTAAAAAACGCCGCTAAAGACCAGAGCATTAGCG
* * * *
20490658 GCACTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCG
1 GCGCTTTTTAAAAAACGCCGCTAAAGACCAGAGCATTAGCG
* * *
20490699 GCACTTTTTCAAAAATGCCGCTAAAGATCC-GAGCATTAGCG
1 GCGCTTTTTAAAAAACGCCGCTAAAGA-CCAGAGCATTAGCG
* *
20490740 GCTCTTTTTCAAAAACGCCGCTAAAG
1 GCGCTTTTTAAAAAACGCCGCTAAAG
20490766 CCCCGAAAGG
Statistics
Matches: 344, Mismatches: 42, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
40 39 0.11
41 297 0.86
42 8 0.02
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (41 bp):
GCGCTTTTTAAAAAACGCCGCTAAAGACCAGAGCATTAGCG
Found at i:20495030 original size:9 final size:9
Alignment explanation
Indices: 20495016--20495076 Score: 54
Period size: 9 Copynumber: 6.6 Consensus size: 9
20495006 CACTTCTAAG
20495016 TAATTTTTA
1 TAATTTTTA
20495025 TAATTTTT-
1 TAATTTTTA
*
20495033 GAATATTTTA
1 TAAT-TTTTA
20495043 TAAGATTTTTAA
1 T-A-ATTTTT-A
*
20495055 TAATTTTAA
1 TAATTTTTA
20495064 TAATTTTT-
1 TAATTTTTA
20495072 TAATT
1 TAATT
20495077 CTATAATTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
8 8 0.19
9 20 0.47
10 5 0.12
11 6 0.14
12 4 0.09
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (9 bp):
TAATTTTTA
Found at i:20495071 original size:20 final size:19
Alignment explanation
Indices: 20495020--20495075 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
20495010 TCTAAGTAAT
*
20495020 TTTTATAATTTTTGAAT-A
1 TTTTATAATTTTTTAATAA
*
20495038 TTTTATAAGATTTTTAATAA
1 TTTTATAA-TTTTTTAATAA
20495058 TTTTAATAATTTTTTAAT
1 TTTT-ATAATTTTTTAAT
20495076 TCTATAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 8 0.25
19 7 0.22
20 13 0.41
21 4 0.12
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTATAATTTTTTAATAA
Found at i:20495104 original size:20 final size:19
Alignment explanation
Indices: 20495047--20495109 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
20495037 ATTTTATAAG
* * *
20495047 ATTTTTAATAATTTTAATA
1 ATTTTTTATATTTTTAATT
*
20495066 ATTTTTTA-ATTCTATAATT
1 ATTTTTTATATT-TTTAATT
20495085 ATTTTTTATATTTTTGAATT
1 ATTTTTTATATTTTT-AATT
20495105 -TTTTT
1 ATTTTT
20495110 ATTTATAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 2 0.06
19 27 0.75
20 7 0.19
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTTTATATTTTTAATT
Found at i:20495119 original size:15 final size:16
Alignment explanation
Indices: 20495085--20495125 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
20495075 TTCTATAATT
*
20495085 ATTTTTTATATTTTTGA
1 ATTTTTT-TATTTATGA
20495102 ATTTTTTTATTTAT-A
1 ATTTTTTTATTTATGA
20495117 ATTTTTTTA
1 ATTTTTTTA
20495126 AAAAAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.43
16 6 0.26
17 7 0.30
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (16 bp):
ATTTTTTTATTTATGA
Found at i:20510345 original size:59 final size:59
Alignment explanation
Indices: 20510253--20510373 Score: 242
Period size: 59 Copynumber: 2.1 Consensus size: 59
20510243 ATTAGGTTTA
20510253 CAAAAGTTATTATAATTGAAGAATTACAAAATTGGTTTACGCCTTAAATTCTAAAGTGC
1 CAAAAGTTATTATAATTGAAGAATTACAAAATTGGTTTACGCCTTAAATTCTAAAGTGC
20510312 CAAAAGTTATTATAATTGAAGAATTACAAAATTGGTTTACGCCTTAAATTCTAAAGTGC
1 CAAAAGTTATTATAATTGAAGAATTACAAAATTGGTTTACGCCTTAAATTCTAAAGTGC
20510371 CAA
1 CAA
20510374 GAAATGTTGC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (59 bp):
CAAAAGTTATTATAATTGAAGAATTACAAAATTGGTTTACGCCTTAAATTCTAAAGTGC
Found at i:20516762 original size:10 final size:10
Alignment explanation
Indices: 20516747--20516776 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
20516737 GTAAATCCTA
20516747 ATGGATAAAG
1 ATGGATAAAG
20516757 ATGGATAAAG
1 ATGGATAAAG
*
20516767 ATGCATAAAG
1 ATGGATAAAG
20516777 TTTAAACCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.27, T:0.20
Consensus pattern (10 bp):
ATGGATAAAG
Found at i:20521494 original size:35 final size:35
Alignment explanation
Indices: 20521426--20521496 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
20521416 AAAAATAAAA
* *
20521426 GAAAAACTACAAAAATAAGACCACACGATCGTGTG
1 GAAAAACTAAAAAAATAAGACCACACGACCGTGTG
* *
20521461 GAAAAACTAAAAAAATAGGACTACAC-AGCCGTGTG
1 GAAAAACTAAAAAAATAAGACCACACGA-CCGTGTG
20521496 G
1 G
20521497 GAAGGCTCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 1 0.03
35 30 0.97
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.14
Consensus pattern (35 bp):
GAAAAACTAAAAAAATAAGACCACACGACCGTGTG
Found at i:20524162 original size:21 final size:21
Alignment explanation
Indices: 20524136--20524177 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
20524126 TTTATTAAAG
20524136 AGACTTACTATACTTGGAAGT
1 AGACTTACTATACTTGGAAGT
*
20524157 AGACTTAGTATACTTGGAAGT
1 AGACTTACTATACTTGGAAGT
20524178 GACACCCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (21 bp):
AGACTTACTATACTTGGAAGT
Found at i:20528102 original size:45 final size:44
Alignment explanation
Indices: 20528049--20528207 Score: 187
Period size: 45 Copynumber: 3.6 Consensus size: 44
20528039 ATTAAAGAAA
*
20528049 ATAAAGGTGGTTGCTATGTGCTGATTTCACTGGATACCAATG-GTT
1 ATAAAGGTGGTTGCTATGTGCTGATTTCACCGG-TACCAATGAG-T
* * *
20528094 ATATAGGTGGTTGCTATGTCCTGATTTCACCCGGTACCATTGAGT
1 ATAAAGGTGGTTGCTATGTGCTGATTTCA-CCGGTACCAATGAGT
* * *
20528139 ATAAAGGTGGTTGCTATGTGCTGATTTCACCGAGTACTATTGACT
1 ATAAAGGTGGTTGCTATGTGCTGATTTCACCG-GTACCAATGAGT
* *
20528184 ATAAGGGTGG-TGCTGTGTGCTGAT
1 ATAAAGGTGGTTGCTATGTGCTGAT
20528208 CCACCGTGTA
Statistics
Matches: 101, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
44 16 0.16
45 81 0.80
46 4 0.04
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (44 bp):
ATAAAGGTGGTTGCTATGTGCTGATTTCACCGGTACCAATGAGT
Found at i:20533722 original size:18 final size:18
Alignment explanation
Indices: 20533701--20533739 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
20533691 GATTGAGAGT
* *
20533701 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
20533719 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
20533737 GAA
1 GAA
20533740 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:20553097 original size:3 final size:3
Alignment explanation
Indices: 20553089--20553137 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
20553079 AAACAAGCTT
20553089 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
20553137 A
1 A
20553138 AGGGTAAAGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:20553579 original size:7 final size:7
Alignment explanation
Indices: 20553567--20553604 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
20553557 CATGACCACG
20553567 TTGTTGT
1 TTGTTGT
20553574 TTGTTGT
1 TTGTTGT
20553581 TTGTTGT
1 TTGTTGT
*
20553588 TTGCTGT
1 TTGTTGT
*
20553595 TTGCTGT
1 TTGTTGT
20553602 TTG
1 TTG
20553605 CTGATCAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.00, C:0.05, G:0.29, T:0.66
Consensus pattern (7 bp):
TTGTTGT
Found at i:20553586 original size:14 final size:14
Alignment explanation
Indices: 20553567--20553607 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
20553557 CATGACCACG
*
20553567 TTGTTGTTTGTTGT
1 TTGTTGTTTGCTGT
20553581 TTGTTGTTTGCTGT
1 TTGTTGTTTGCTGT
*
20553595 TTGCTGTTTGCTG
1 TTGTTGTTTGCTG
20553608 ATCAATGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.00, C:0.07, G:0.29, T:0.63
Consensus pattern (14 bp):
TTGTTGTTTGCTGT
Found at i:20554161 original size:81 final size:81
Alignment explanation
Indices: 20554013--20554172 Score: 214
Period size: 81 Copynumber: 2.0 Consensus size: 81
20554003 GCTTTGGTTA
* ** ** *
20554013 AGTAGTAAATTTAAAGTTTTATCAATCCAATTGGTGTGGGTTCAAACCCCACAATATGCATAATT
1 AGTAGTAAATTTAAAGTTTTATAAATCCAATTAATGCAGGTTCAAACCCCACAATATACATAATT
20554078 TTA-TGAGTTTTTGTTG
66 TTATTG-GTTTTTGTTG
* * * *
20554094 AGTAGTAAATTTAAAGTTTTATAAATCTAATTAATGCAGGTTCAAATCCCACATTATACATACTT
1 AGTAGTAAATTTAAAGTTTTATAAATCCAATTAATGCAGGTTCAAACCCCACAATATACATAATT
20554159 TTATTGGTTTTTGT
66 TTATTGGTTTTTGT
20554173 GAAAATGAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
81 66 0.97
82 2 0.03
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (81 bp):
AGTAGTAAATTTAAAGTTTTATAAATCCAATTAATGCAGGTTCAAACCCCACAATATACATAATT
TTATTGGTTTTTGTTG
Found at i:20557947 original size:11 final size:11
Alignment explanation
Indices: 20557933--20557981 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
20557923 ATTAAACTTA
*
20557933 ATTACTTTAAT
1 ATTAATTTAAT
20557944 ATTAAATTTAAT
1 ATT-AATTTAAT
20557956 -TTAATATT-AT
1 ATTAAT-TTAAT
20557966 ATTAATTTAAT
1 ATTAATTTAAT
20557977 ATTAA
1 ATTAA
20557982 GATAATCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTAATTTAAT
Found at i:20557958 original size:5 final size:6
Alignment explanation
Indices: 20557939--20558008 Score: 53
Period size: 5 Copynumber: 12.0 Consensus size: 6
20557929 CTTAATTACT
*
20557939 TTAATA TTAA-A TTTAAT- TTAATA TT-ATA TTAAT- TTAATA TTAAGA
1 TTAATA TTAATA -TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
20557984 -TAATCA TTTTAATA TTAA-A TTAATA
1 TTAAT-A --TTAATA TTAATA TTAATA
20558009 AAATACTATC
Statistics
Matches: 52, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
5 24 0.46
6 23 0.44
8 1 0.02
9 4 0.08
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (6 bp):
TTAATA
Found at i:20557970 original size:16 final size:16
Alignment explanation
Indices: 20557932--20558007 Score: 80
Period size: 16 Copynumber: 4.4 Consensus size: 16
20557922 GATTAAACTT
*
20557932 AATTACTTTAATATTA
1 AATTAATTTAATATTA
20557948 AATTTAATTTAATATTA
1 AA-TTAATTTAATATTA
*
20557965 TATTAATTTAATATTA
1 AATTAATTTAATATTA
*
20557981 AGATAATCATTTTAATATTA
1 A-AT--T-AATTTAATATTA
20558001 AATTAAT
1 AATTAAT
20558008 AAAATACTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
16 18 0.36
17 17 0.34
19 3 0.06
20 12 0.24
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (16 bp):
AATTAATTTAATATTA
Found at i:20558006 original size:11 final size:11
Alignment explanation
Indices: 20557939--20558008 Score: 53
Period size: 11 Copynumber: 6.5 Consensus size: 11
20557929 CTTAATTACT
20557939 TTAATATTAAA
1 TTAATATTAAA
20557950 TTTAAT-TTAATA
1 -TTAATATTAA-A
*
20557962 TT-ATATTAAT
1 TTAATATTAAA
20557972 TTAATATTAAGA
1 TTAATATTAA-A
20557984 -TAATCATT---
1 TTAAT-ATTAAA
20557992 TTAATATTAAA
1 TTAATATTAAA
20558003 TTAATA
1 TTAATA
20558009 AAATACTATC
Statistics
Matches: 47, Mismatches: 2, Indels: 19
0.69 0.03 0.28
Matches are distributed among these distances:
8 3 0.06
9 4 0.09
10 4 0.09
11 27 0.57
12 9 0.19
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:20565644 original size:30 final size:28
Alignment explanation
Indices: 20565596--20565656 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 28
20565586 CAGTAGCAGT
*
20565596 ACAGTGTGGGCCTGAGCCCATTATAGTA
1 ACAGTGTGGGCCTGAGCCCAATATAGTA
*
20565624 ACAGTGTGTGGACCTTAGCCCAATATAGTA
1 ACAGTGTG-GG-CCTGAGCCCAATATAGTA
20565654 ACA
1 ACA
20565657 ATATGGGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 8 0.28
29 2 0.07
30 19 0.66
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (28 bp):
ACAGTGTGGGCCTGAGCCCAATATAGTA
Found at i:20566061 original size:27 final size:26
Alignment explanation
Indices: 20566031--20566093 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
20566021 TTTCCGCTCC
*
20566031 TAGGGGTATAACAGTTATTTTACCCT
1 TAGGGGTATAACAGTCATTTTACCCT
* ** *
20566057 ATAGGTGTATTTCGGTCATTTTACCCT
1 -TAGGGGTATAACAGTCATTTTACCCT
20566084 TCAGGGGTAT
1 T-AGGGGTAT
20566094 TTCGATAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (26 bp):
TAGGGGTATAACAGTCATTTTACCCT
Found at i:20566094 original size:27 final size:27
Alignment explanation
Indices: 20566063--20566270 Score: 249
Period size: 27 Copynumber: 7.7 Consensus size: 27
20566053 CCCTATAGGT
*
20566063 GTATTTCGGTCATTTTACCCTTC-AGGG
1 GTATTTCGGTCATTTTACCCTTCGA-GA
* * * * *
20566090 GTATTTCGATAATTTTACCCTTTGGGG
1 GTATTTCGGTCATTTTACCCTTCGAGA
* * *
20566117 GTATTTTGGTTATTTTGCCCTTCGAGA
1 GTATTTCGGTCATTTTACCCTTCGAGA
*
20566144 GTATTTTGGTCATTTTACCCTTCGAGA
1 GTATTTCGGTCATTTTACCCTTCGAGA
* * *
20566171 GTATTTCGGTTATTTTACCCATCGAGG
1 GTATTTCGGTCATTTTACCCTTCGAGA
20566198 GTATTTCGGTCATTTTACCCTTCGAGA
1 GTATTTCGGTCATTTTACCCTTCGAGA
* *
20566225 GTATTTCGGTCATTTTAGCCATT-AAGA
1 GTATTTCGGTCATTTTA-CCCTTCGAGA
20566252 GTATTTCGGTCATTTTACC
1 GTATTTCGGTCATTTTACC
20566271 TTATGGGGGT
Statistics
Matches: 157, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 151 0.96
28 4 0.03
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.43
Consensus pattern (27 bp):
GTATTTCGGTCATTTTACCCTTCGAGA
Found at i:20566175 original size:81 final size:80
Alignment explanation
Indices: 20566063--20566293 Score: 293
Period size: 81 Copynumber: 2.9 Consensus size: 80
20566053 CCCTATAGGT
* * *
20566063 GTATTTCGGTCATTTTACCCTTCAGGGGTATTTCGATAATTTTACCCTTTGGGGGTATTTTGGTT
1 GTATTTCGGTCATTTTACCCTTCA-GAGTATTTCGGTAATTTTACCCTTTGGGGGTATTTTGGTC
*
20566128 ATTTTGCCCTTCGAGA
65 ATTTTACCCTTCGAGA
* * * * * *
20566144 GTATTTTGGTCATTTTACCCTTCGAGAGTATTTCGGTTATTTTACCCATCGAGGGTATTTCGGTC
1 GTATTTCGGTCATTTTACCCTTC-AGAGTATTTCGGTAATTTTACCCTTTGGGGGTATTTTGGTC
20566209 ATTTTACCCTTCGAGA
65 ATTTTACCCTTCGAGA
* * * *
20566225 GTATTTCGGTCATTTTAGCCATTAAGAGTATTTCGGTCATTTTA-CCTTATGGGGGTAATTTGGT
1 GTATTTCGGTCATTTTA-CCCTTCAGAGTATTTCGGTAATTTTACCCTT-TGGGGGTATTTTGGT
20566289 CATTT
64 CATTT
20566294 ATTGACCTCT
Statistics
Matches: 128, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
80 3 0.02
81 120 0.94
82 5 0.04
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (80 bp):
GTATTTCGGTCATTTTACCCTTCAGAGTATTTCGGTAATTTTACCCTTTGGGGGTATTTTGGTCA
TTTTACCCTTCGAGA
Found at i:20572747 original size:29 final size:28
Alignment explanation
Indices: 20572706--20572791 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 28
20572696 GAGTATTTAA
* * *
20572706 AAAAAATTTAACTCTTATTTAAACATTTT
1 AAAAAGTTTAACT-TTATTTGAACATTGT
*
20572735 AAAAAGTTTAACTTTGATTTGAGCATTGT
1 AAAAAGTTTAACTTT-ATTTGAACATTGT
* *
20572764 ATAAAAGTTTGACTTTTATATGAACATT
1 A-AAAAGTTTAAC-TTTATTTGAACATT
20572792 CTATAAGATG
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 2 0.04
29 23 0.49
30 19 0.40
31 3 0.06
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (28 bp):
AAAAAGTTTAACTTTATTTGAACATTGT
Found at i:20572772 original size:30 final size:30
Alignment explanation
Indices: 20572727--20572797 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
20572717 CTCTTATTTA
* *
20572727 AACATTTTA-AAAAGTTTAACTTTGATTTG
1 AACATTCTATAAAAGTTTAACTTTGATATG
* * * *
20572756 AGCATTGTATAAAAGTTTGACTTTTATATG
1 AACATTCTATAAAAGTTTAACTTTGATATG
20572786 AACATTCTATAA
1 AACATTCTATAA
20572798 GATGAAACCC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.42
Consensus pattern (30 bp):
AACATTCTATAAAAGTTTAACTTTGATATG
Found at i:20577317 original size:30 final size:30
Alignment explanation
Indices: 20577283--20577340 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
20577273 CACGGGCTGG
** *
20577283 CACATGGGTTTGTGTCCAGCCCGTGTGGGT
1 CACATGGGCATGTGCCCAGCCCGTGTGGGT
20577313 CACATGGGCATGTGCCCAGCCCGTGTGG
1 CACATGGGCATGTGCCCAGCCCGTGTGG
20577341 CTCTTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.12, C:0.28, G:0.36, T:0.24
Consensus pattern (30 bp):
CACATGGGCATGTGCCCAGCCCGTGTGGGT
Found at i:20589764 original size:3 final size:3
Alignment explanation
Indices: 20589747--20589785 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
20589737 TTAAGATACT
* *
20589747 GAA GAA GGA GGA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
20589786 ACAAATAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:20592236 original size:25 final size:25
Alignment explanation
Indices: 20592188--20592236 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
20592178 TTGCAGTGGC
* *
20592188 TGATTTCTCTTTTGTTAGCTCTGAT
1 TGATTTCTCTTTTGTCAGCGCTGAT
20592213 TGATTTCTCTTTTG-CAGCGGCTGA
1 TGATTTCTCTTTTGTCAGC-GCTGA
20592237 CAATGCCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.12, C:0.18, G:0.20, T:0.49
Consensus pattern (25 bp):
TGATTTCTCTTTTGTCAGCGCTGAT
Found at i:20593282 original size:67 final size:67
Alignment explanation
Indices: 20593211--20593483 Score: 415
Period size: 67 Copynumber: 4.0 Consensus size: 67
20593201 AGAAAATTTT
20593211 AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTATAGAAAATTT-TAACAATATG
1 AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTATAGAAAATTTGT-ACAATATG
20593275 ATA
65 ATA
* * *
20593278 AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTAGTTG-CAATGTTTTAACAATA
1 AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTA-TAGAAAAT-TTGT-ACAATA
*
20593342 TTATA
63 TGATA
* * *
20593347 AACAATATTATAAACAATCTAAATAAAGGGTAATTGTATTATTACAGAAAATTTGTACAATATGA
1 AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTATAGAAAATTTGTACAATATGA
20593412 TA
66 TA
* *
20593414 AACAATACGATAAACAATCTAAATAAAGGGTAATTATAATATTATAGAAAATTTGTACAATATGA
1 AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTATAGAAAATTTGTACAATATGA
20593479 TA
66 TA
20593481 AAC
1 AAC
20593484 CTTGTATACA
Statistics
Matches: 187, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
67 122 0.65
68 8 0.04
69 57 0.30
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (67 bp):
AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTATAGAAAATTTGTACAATATGA
TA
Found at i:20593283 original size:12 final size:12
Alignment explanation
Indices: 20593266--20593295 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
20593256 AGAAAATTTT
20593266 AACAATATGATA
1 AACAATATGATA
20593278 AACAATATGATA
1 AACAATATGATA
20593290 AACAAT
1 AACAAT
20593296 CTAAATAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (12 bp):
AACAATATGATA
Found at i:20593352 original size:12 final size:12
Alignment explanation
Indices: 20593335--20593364 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
20593325 GCAATGTTTT
20593335 AACAATATTATA
1 AACAATATTATA
20593347 AACAATATTATA
1 AACAATATTATA
20593359 AACAAT
1 AACAAT
20593365 CTAAATAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (12 bp):
AACAATATTATA
Found at i:20593457 original size:136 final size:136
Alignment explanation
Indices: 20593211--20593457 Score: 433
Period size: 136 Copynumber: 1.8 Consensus size: 136
20593201 AGAAAATTTT
*
20593211 AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTATAGAAAATTTTAACAATATGA
1 AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTACAGAAAATTTTAACAATATGA
* *
20593276 TAAACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTAGTTGCAATGTTTTAACAAT
66 TAAACAATACGATAAACAATCTAAATAAAGGGTAATTATAATATTAGTTGCAATGTTTTAACAAT
20593341 ATTATA
131 ATTATA
* *
20593347 AACAATATTATAAACAATCTAAATAAAGGGTAATTGTATTATTACAGAAAATTTGT-ACAATATG
1 AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTACAGAAAATTT-TAACAATATG
20593411 ATAAACAATACGATAAACAATCTAAATAAAGGGTAATTATAATATTA
65 ATAAACAATACGATAAACAATCTAAATAAAGGGTAATTATAATATTA
20593458 TAGAAAATTT
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
136 104 0.99
137 1 0.01
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (136 bp):
AACAATATGATAAACAATCTAAATAAAGGGTAATTATATTATTACAGAAAATTTTAACAATATGA
TAAACAATACGATAAACAATCTAAATAAAGGGTAATTATAATATTAGTTGCAATGTTTTAACAAT
ATTATA
Found at i:20594002 original size:49 final size:49
Alignment explanation
Indices: 20593947--20594050 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
20593937 TCATGTGTTA
* * ** * *
20593947 TAATTTTATACAGTGTTGAGTTTTTGATTCATGGTATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
*
20593996 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
20594045 TAATTT
1 TAATTT
20594051 GTTTTTTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
Found at i:20595579 original size:26 final size:28
Alignment explanation
Indices: 20595525--20595606 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 28
20595515 TAAGGATAAG
* * *
20595525 AATTTTATTAAATTATATATTATTATTA
1 AATTATATTTAATAATATATTATTATTA
20595553 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
* *
20595579 AATTATATTTTATAGTATTATATATTAT
1 AATTATATTTAATAATA-TAT-TATTAT
20595607 GATTTTATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 18 0.40
27 6 0.13
28 16 0.36
29 4 0.09
30 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (28 bp):
AATTATATTTAATAATATATTATTATTA
Found at i:20595605 original size:110 final size:114
Alignment explanation
Indices: 20595438--20595700 Score: 385
Period size: 120 Copynumber: 2.3 Consensus size: 114
20595428 AATAAAGTAG
20595438 ATTA-TAAATTATATTTAATAATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGA-T
1 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATT
*
20595500 T-TTAGTAAATTCATATAAG-GA-TAAGAATTTTATTAAATTATATATT
66 TATTAGTAAATTCATATAAGAGATTAACAATTTTATTAAATTATATATT
20595546 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATT
1 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGA-T
*
20595611 TTATTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATT
65 TTATTAGTAAATTCATATAAG---A--GATTAACAATTTTATTAAATTATATATT
* * *
20595666 TTTATTAAATTATATTTAATAACAATTATGTTAAA
1 ATTATTAAATTATATTTAATAATAATTATTTTAAA
20595701 ATATGATTAA
Statistics
Matches: 138, Mismatches: 5, Indels: 12
0.89 0.03 0.08
Matches are distributed among these distances:
108 4 0.03
109 23 0.17
110 34 0.25
112 2 0.01
113 18 0.13
119 1 0.01
120 56 0.41
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (114 bp):
ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATT
TATTAGTAAATTCATATAAGAGATTAACAATTTTATTAAATTATATATT
Found at i:20595879 original size:39 final size:41
Alignment explanation
Indices: 20595828--20595932 Score: 133
Period size: 44 Copynumber: 2.5 Consensus size: 41
20595818 TTTCCTTATG
20595828 CTATTACACCTCTATTCCATTCAACCAAACAAAAGAA-TAC
1 CTATTACACCTCTATTCCATTCAACCAAACAAAAGAATTAC
**
20595868 C-ATTATGCCTCTATTCTATTACATTCAACCAAACAAAAGAATTAC
1 CTATTACACCTCTATTC-----CATTCAACCAAACAAAAGAATTAC
20595913 CTATTACACCTCTATTCCAT
1 CTATTACACCTCTATTCCAT
20595933 ACGCCTCTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
39 13 0.24
40 1 0.02
41 3 0.06
44 20 0.37
45 4 0.07
46 13 0.24
ACGTcount: A:0.38, C:0.29, G:0.03, T:0.30
Consensus pattern (41 bp):
CTATTACACCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:20595893 original size:44 final size:46
Alignment explanation
Indices: 20595838--20595929 Score: 143
Period size: 44 Copynumber: 2.0 Consensus size: 46
20595828 CTATTACACC
* **
20595838 TCTATTCCATTCAACCAAACAAAAGAA-TACC-ATTATGCCTCTAT
1 TCTATTACATTCAACCAAACAAAAGAATTACCTATTACACCTCTAT
20595882 TCTATTACATTCAACCAAACAAAAGAATTACCTATTACACCTCTAT
1 TCTATTACATTCAACCAAACAAAAGAATTACCTATTACACCTCTAT
20595928 TC
1 TC
20595930 CATACGCCTC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 26 0.60
45 4 0.09
46 13 0.30
ACGTcount: A:0.39, C:0.27, G:0.03, T:0.30
Consensus pattern (46 bp):
TCTATTACATTCAACCAAACAAAAGAATTACCTATTACACCTCTAT
Found at i:20599253 original size:37 final size:37
Alignment explanation
Indices: 20599210--20599298 Score: 160
Period size: 37 Copynumber: 2.4 Consensus size: 37
20599200 ATCATAAATA
*
20599210 AATAAACTAATCAATGTTCAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
20599247 AGTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
20599284 AATAAACTAATCAAT
1 AATAAACTAATCAAT
20599299 ATATTTATAC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.34
Consensus pattern (37 bp):
AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
Found at i:20599527 original size:33 final size:33
Alignment explanation
Indices: 20599490--20599555 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
20599480 AATCTAACAA
20599490 ATACCAACAATTAATTTTAGGTCAATTATACAT
1 ATACCAACAATTAATTTTAGGTCAATTATACAT
20599523 ATACCAACAATTAATTTTAGGTCAATTATACAT
1 ATACCAACAATTAATTTTAGGTCAATTATACAT
20599556 GCTTTATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.36
Consensus pattern (33 bp):
ATACCAACAATTAATTTTAGGTCAATTATACAT
Found at i:20602708 original size:91 final size:91
Alignment explanation
Indices: 20602561--20602768 Score: 344
Period size: 91 Copynumber: 2.3 Consensus size: 91
20602551 TTGATTTTAG
* *
20602561 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
20602626 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
20602653 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
20602718 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
*
20602744 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
20602769 GTTATAATTA
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 93 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:20602737 original size:26 final size:28
Alignment explanation
Indices: 20602683--20602743 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
20602673 TATTATCAAG
* *
20602683 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
20602711 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
20602737 AATTATA
1 AATTATA
20602744 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:20602743 original size:44 final size:43
Alignment explanation
Indices: 20602601--20602743 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
20602591 GAATTTTATG
* *
20602601 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
20602645 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
20602692 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
20602736 AAATTATA
1 AAATTATA
20602744 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:20602911 original size:120 final size:120
Alignment explanation
Indices: 20602773--20603201 Score: 716
Period size: 120 Copynumber: 3.6 Consensus size: 120
20602763 TTATTAGTTA
** * *
20602773 TAATTATTTTAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTC
1 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-
20602837 AAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
65 AAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
20602893 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
1 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
* *
20602958 AATTATCTTGTATAGTATCATATATTATGATTTGAGTAAATTCATAAAAGAATAT
66 AATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
* *
20603013 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTA
1 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
* *
20603078 ATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
66 AATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
* * *
20603133 TGATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TT
20603198 AAAT
65 AAAT
20603202 ATGATTAAAT
Statistics
Matches: 293, Mismatches: 14, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
120 286 0.98
121 7 0.02
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
AATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
Found at i:20602933 original size:18 final size:17
Alignment explanation
Indices: 20602905--20602939 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20602895 ATTATTAAAA
*
20602905 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
20602922 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
20602940 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:20603064 original size:15 final size:15
Alignment explanation
Indices: 20603029--20603080 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
20603019 TTAAGAATTT
*
20603029 TATTAAATTAT-ATA
1 TATTTAATTATAATA
20603043 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
20603057 TATTTAATAATAAT-
1 TATTTAATTATAATA
20603071 TATGTTAATT
1 TAT-TTAATT
20603081 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:20603179 original size:16 final size:16
Alignment explanation
Indices: 20603158--20603199 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
20603148 TTATTAAATT
*
20603158 ATATATTTTAATTATA
1 ATATATTTTAATAATA
20603174 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
20603189 AT-TATGTTTAA
1 ATATAT-TTTAA
20603200 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:20603184 original size:15 final size:15
Alignment explanation
Indices: 20603149--20603190 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
20603139 TTAAGAATTT
*
20603149 TATTAAATTAT-ATA
1 TATTTAATTATAATA
20603163 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
20603177 TATTTAATAATAAT
1 TATTTAATTATAAT
20603191 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:20603438 original size:16 final size:16
Alignment explanation
Indices: 20603413--20603445 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
20603403 TTGATTTGTT
20603413 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
20603429 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
20603445 A
1 A
20603446 ATATAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.36, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Done.