Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 64 of 91
Found at i:14506918 original size:54 final size:54
Alignment explanation
Indices: 14506834--14507173 Score: 416
Period size: 54 Copynumber: 6.3 Consensus size: 54
14506824 AACAGTTATA
* * * * * *
14506834 AAATGCACAATTAGTACCGAAACGGCTATTCATCCACAAAGTATGAATTATGTG
1 AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCTGTG
* *
14506888 AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACTTAGGATGAATTATGTG
1 AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCTGTG
* * * * * * *
14506942 AAATACACACTTAGTGTCGAAATGGTTATTTATCCATATATGATGAATTCTATG
1 AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCTGTG
* * *
14506996 AAATGCACAGTTAGTGTCGAAACTGTTATTCATCCACATAGGATGAATTCCT-TG
1 AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATT-CTGTG
** * * **
14507050 AAATGCACACTTAGTGCCGAAACATTTATTCACCCACACAGGATGAATTCCATG
1 AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCTGTG
* *
14507104 AAATGCACAC--AGTGCCGAAACGGTTATTCATCCACTTAGGATGAATTCCGTG
1 AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCTGTG
14507156 AAATGCACACTTAGTGCC
1 AAATGCACACTTAGTGCC
14507174 CATTTAGTAA
Statistics
Matches: 247, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
52 46 0.19
53 1 0.00
54 198 0.80
55 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (54 bp):
AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCTGTG
Found at i:14506969 original size:192 final size:192
Alignment explanation
Indices: 14506668--14507024 Score: 531
Period size: 192 Copynumber: 1.9 Consensus size: 192
14506658 TTGAAACTAT
* *
14506668 TATTCAACCACATAGGATGAATTTCGTGAAATGCACACTTATTGCCGAAACGGTTATTCATCCAT
1 TATTCAACCACAAAGGATGAATTTCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCAT
* * *
14506733 ATAGGATGAATTCCGTGAAATGCACACTTAGTTTCGAAATGGTTATTCATCCACATAGGATGAAT
66 ATAGGATGAATTACGTGAAATACACACTTAGTGTCGAAATGGTTATTCATCCACATAGGATGAAT
*
14506798 T-TCGTGAAATGCAAACTTAGTGTCGAAACAGTTATAAAATGCACAATTAGTACCGAAACGGC
131 TCT-ATGAAATGCAAACTTAGTGTCGAAACAGTTATAAAATGCACAATTAGTACCGAAACGGC
* *
14506860 TATTCATCCACAAAGTATGAATTAT-GTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCA
1 TATTCAACCACAAAGGATGAATT-TCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCA
* * * *
14506924 CT-TAGGATGAATTATGTGAAATACACACTTAGTGTCGAAATGGTTATTTATCCATATATGATGA
65 -TATAGGATGAATTACGTGAAATACACACTTAGTGTCGAAATGGTTATTCATCCACATAGGATGA
* * *
14506988 ATTCTATGAAATGCACAGTTAGTGTCGAAACTGTTAT
129 ATTCTATGAAATGCAAACTTAGTGTCGAAACAGTTAT
14507025 TCATCCACAT
Statistics
Matches: 147, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
192 144 0.98
193 3 0.02
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (192 bp):
TATTCAACCACAAAGGATGAATTTCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCAT
ATAGGATGAATTACGTGAAATACACACTTAGTGTCGAAATGGTTATTCATCCACATAGGATGAAT
TCTATGAAATGCAAACTTAGTGTCGAAACAGTTATAAAATGCACAATTAGTACCGAAACGGC
Found at i:14506970 original size:138 final size:138
Alignment explanation
Indices: 14506696--14506963 Score: 385
Period size: 138 Copynumber: 1.9 Consensus size: 138
14506686 GAATTTCGTG
* * * * * * *
14506696 AAATGCACACTTATTGCCGAAACGGTTATTCATCCATATAGGATGAATTCCGTGAAATGCACACT
1 AAATGCACAATTAGTACCGAAACGGCTATTCATCCACAAAGGATGAATTACGTGAAATGCACACT
** * *
14506761 TAGTTTCGAAATGGTTATTCATCCACATAGGATGAATTTCGTGAAATGCAAACTTAGTGTCGAAA
66 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATACAAACTTAGTGTCGAAA
14506826 CAGTTATA
131 CAGTTATA
* *
14506834 AAATGCACAATTAGTACCGAAACGGCTATTCATCCACAAAGTATGAATTATGTGAAATGCACACT
1 AAATGCACAATTAGTACCGAAACGGCTATTCATCCACAAAGGATGAATTACGTGAAATGCACACT
* *
14506899 TAGTGCCGAAACGGTTATTCATCCACTTAGGATGAATTAT-GTGAAATACACACTTAGTGTCGAA
66 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATT-TCGTGAAATACAAACTTAGTGTCGAA
14506963 A
130 A
14506964 TGGTTATTTA
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
138 113 0.99
139 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (138 bp):
AAATGCACAATTAGTACCGAAACGGCTATTCATCCACAAAGGATGAATTACGTGAAATGCACACT
TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATACAAACTTAGTGTCGAAA
CAGTTATA
Found at i:14507529 original size:22 final size:22
Alignment explanation
Indices: 14507503--14507548 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
14507493 CTCATATCGA
14507503 TACCATACCATGGTATAGATAC
1 TACCATACCATGGTATAGATAC
* *
14507525 TACCATACTATGGTATCGATAC
1 TACCATACCATGGTATAGATAC
14507547 TA
1 TA
14507549 TGTTATGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (22 bp):
TACCATACCATGGTATAGATAC
Found at i:14512732 original size:54 final size:54
Alignment explanation
Indices: 14512664--14513380 Score: 783
Period size: 54 Copynumber: 13.3 Consensus size: 54
14512654 ATTTCTTTAT
* * * * * ** ** *
14512664 AATGCACCCGTAGTGCCCATACGGTAATTCATAAACATATTATGAATTCTGTGA
1 AATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGA
** * * *
14512718 AATGCACACTTAGTGTTGAAAC-GTTATTCAACCACATAGGCTGAA-TCCATGA
1 AATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGA
* * * ***
14512770 AATACACACTTAGTACCGAAACGATTATTCATCTGTATAGGATGAATTCCGTGA
1 AATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGA
* **
14512824 AATGCACACTTAGTGTCGAAACGGTTATTCATCCACATATTATGAATTCCGTGA
1 AATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGA
* * * *
14512878 AATGCAAACTTAGTGTCGAAACGGTTAGTCATCCACATAGGATGAATTCTGTGA
1 AATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGA
** * *
14512932 AATGCACAAATAGTGCCGAAACGGTTATTCATCCACACAGGATTAATTCCGTGA
1 AATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGA
* ** * * *
14512986 AATACATTCTTAGTACCGAAACGGTTATTCATGCACATAGGATAAATTCCGTGA
1 AATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGA
* *
14513040 AATGCACACTTAGTGCCAAAACGGTTATTCATCCACATAGGATGAATTTCGTGA
1 AATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGA
* * ** * *
14513094 AATGCACAGTTAGTGCCAAAAAATAGTTATTCATCCACATGGGATGAATTCCATGA
1 AATGCACACTTAGTGCC--GAAACGGTTATTCATCCACATAGGATGAATTCCGTGA
* * * * * * * *
14513150 AATGCATAATTAATGTCGAAACGATTATTCAACCACATAGGATGAATTCCATAA
1 AATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGA
* * * *
14513204 AATGCACACTTAGTGCCAAAACGGTTATTAATCCACATATGATGAAGTCCGT-A
1 AATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGA
* * * * * *
14513257 AATGCACACTTAGTTCCGAAATGTTTTTTCATCTACATAGGATGAATTCCATGA
1 AATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGA
* * * *
14513311 AATGCACACTTAGTGTCGAAACAGTTATTCATCCACGTAGGATGAATTCAGTGA
1 AATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGA
14513365 AATGCACACTTAGTGC
1 AATGCACACTTAGTGC
14513381 ATATTTGGTA
Statistics
Matches: 544, Mismatches: 114, Indels: 10
0.81 0.17 0.01
Matches are distributed among these distances:
52 23 0.04
53 76 0.14
54 400 0.74
56 45 0.08
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (54 bp):
AATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGA
Found at i:14513763 original size:20 final size:21
Alignment explanation
Indices: 14513738--14513829 Score: 84
Period size: 20 Copynumber: 4.6 Consensus size: 21
14513728 CTGTTTTGAA
*
14513738 TGGTATCGATACCTT-TCCTT
1 TGGTATCGATACCTTACCCTT
14513758 TGGTATCGATA-CTTACCCTT
1 TGGTATCGATACCTTACCCTT
* **
14513778 CGGTATCGATA-CTCCCCCTT
1 TGGTATCGATACCTTACCCTT
* **
14513798 CGGTATCGATA-CTCCCCCTT
1 TGGTATCGATACCTTACCCTT
*
14513818 CGGTATCGATAC
1 TGGTATCGATAC
14513830 TCCCCCTTCG
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
19 3 0.05
20 63 0.95
ACGTcount: A:0.17, C:0.32, G:0.16, T:0.35
Consensus pattern (21 bp):
TGGTATCGATACCTTACCCTT
Found at i:14513850 original size:20 final size:20
Alignment explanation
Indices: 14513754--14513843 Score: 153
Period size: 20 Copynumber: 4.5 Consensus size: 20
14513744 CGATACCTTT
* **
14513754 CCTTTGGTATCGATACTTAC
1 CCTTCGGTATCGATACTCCC
14513774 CCTTCGGTATCGATACTCCC
1 CCTTCGGTATCGATACTCCC
14513794 CCTTCGGTATCGATACTCCC
1 CCTTCGGTATCGATACTCCC
14513814 CCTTCGGTATCGATACTCCC
1 CCTTCGGTATCGATACTCCC
14513834 CCTTCGGTAT
1 CCTTCGGTAT
14513844 TAATACTGAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.16, C:0.36, G:0.16, T:0.33
Consensus pattern (20 bp):
CCTTCGGTATCGATACTCCC
Found at i:14517849 original size:32 final size:32
Alignment explanation
Indices: 14517750--14517868 Score: 123
Period size: 32 Copynumber: 3.8 Consensus size: 32
14517740 GGGATATATT
* *
14517750 GGGGCCTTAGAGCCTACCCAA-GAAATAACTC
1 GGGGCCTAAGAGCCTACCCAAGGGAATAACTC
* * * * * *
14517781 GGGGCATAAAAACCTAACCAAGGGAATACCTT
1 GGGGCCTAAGAGCCTACCCAAGGGAATAACTC
** *
14517813 GGGGCCTAAGAGCCTACCCAAGGGAGCATCTC
1 GGGGCCTAAGAGCCTACCCAAGGGAATAACTC
*
14517845 GGGGCCTAGGAGCCTACCCAAGGG
1 GGGGCCTAAGAGCCTACCCAAGGG
14517869 CTATCTTAGG
Statistics
Matches: 70, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
31 16 0.23
32 54 0.77
ACGTcount: A:0.30, C:0.28, G:0.29, T:0.13
Consensus pattern (32 bp):
GGGGCCTAAGAGCCTACCCAAGGGAATAACTC
Found at i:14523674 original size:12 final size:11
Alignment explanation
Indices: 14523629--14523681 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 11
14523619 TGCAAAATAT
14523629 AAATAATGACAAA
1 AAATAAT-A-AAA
*
14523642 AAATATTAAAA
1 AAATAATAAAA
14523653 TAAA-AATAAAA
1 -AAATAATAAAA
14523664 GAAATAATAAAA
1 -AAATAATAAAA
14523676 AAATAA
1 AAATAA
14523682 AAGAACGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
11 18 0.51
12 11 0.31
13 6 0.17
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (11 bp):
AAATAATAAAA
Found at i:14523924 original size:23 final size:23
Alignment explanation
Indices: 14523894--14523943 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
14523884 CTACCTGATC
14523894 AAAAACACGCGGATCTTGGTGTG
1 AAAAACACGCGGATCTTGGTGTG
14523917 AAAAACACGCGGATCTTGGTGTG
1 AAAAACACGCGGATCTTGGTGTG
14523940 AAAA
1 AAAA
14523944 GGGTCAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (23 bp):
AAAAACACGCGGATCTTGGTGTG
Found at i:14524897 original size:14 final size:14
Alignment explanation
Indices: 14524874--14524933 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
14524864 AAAGAAAAAA
*
14524874 AAATATAAATAAAT
1 AAATAAAAATAAAT
*
14524888 AAATAAAAATGAAAA
1 AAATAAAAAT-AAAT
*
14524903 AAATGAAAAATATAT
1 AAAT-AAAAATAAAT
*
14524918 -AATAAATAATATAT
1 AAATAAA-AATAAAT
14524932 AA
1 AA
14524934 TACTATACTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
13 3 0.08
14 19 0.50
15 10 0.26
16 6 0.16
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:14524921 original size:7 final size:7
Alignment explanation
Indices: 14524911--14524955 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
14524901 AAAAATGAAA
14524911 AATATAT
1 AATATAT
*
14524918 AATAAAT
1 AATATAT
14524925 AATATAT
1 AATATAT
14524932 AATACTAT
1 AATA-TAT
*
14524940 ACTATAT
1 AATATAT
14524947 AATATAT
1 AATATAT
14524954 AA
1 AA
14524956 ATGTATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (7 bp):
AATATAT
Found at i:14524940 original size:22 final size:21
Alignment explanation
Indices: 14524911--14524955 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
14524901 AAAAATGAAA
14524911 AATATATAATAAATAATATAT
1 AATATATAATAAATAATATAT
* *
14524932 AATACTATACTATATAATATAT
1 AATA-TATAATAAATAATATAT
14524954 AA
1 AA
14524956 ATGTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
AATATATAATAAATAATATAT
Found at i:14525000 original size:29 final size:29
Alignment explanation
Indices: 14524908--14525000 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 29
14524898 GAAAAAAATG
* * *
14524908 AAAAATATATAATAAATA-ATATATAATAC
1 AAAACTATATAATATATATATATAT-ATTC
* * * * * *
14524937 TATACTATATAATATATAAATGTATTTTTTA
1 AAAACTATATAATATAT--ATATATATATTC
14524968 AAAACTATATAATATATATATATATATTC
1 AAAACTATATAATATATATATATATATTC
14524997 AAAA
1 AAAA
14525001 TATTTTCAAA
Statistics
Matches: 46, Mismatches: 15, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
29 25 0.54
31 17 0.37
32 4 0.09
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (29 bp):
AAAACTATATAATATATATATATATATTC
Found at i:14525012 original size:41 final size:44
Alignment explanation
Indices: 14524927--14525029 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 44
14524917 TAATAAATAA
* *
14524927 TATATAATACTATACTATATAATATATAAATGTATTTTTTAAAAAC
1 TATATAATA-TATA-TATATAATATATAAATATATTTTTCAAAAAC
14524973 TATATAATATATATATAT-ATAT-TCAAA-ATA-TTTTCAAAAAC
1 TATATAATATATATATATAATATAT-AAATATATTTTTCAAAAAC
*
14525014 TATATATTATATATAT
1 TATATAATATATATAT
14525030 TTTCAAAAAC
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
41 25 0.47
42 3 0.06
43 7 0.13
44 5 0.09
45 4 0.08
46 9 0.17
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.45
Consensus pattern (44 bp):
TATATAATATATATATATAATATATAAATATATTTTTCAAAAAC
Found at i:14525017 original size:26 final size:26
Alignment explanation
Indices: 14524988--14525063 Score: 109
Period size: 26 Copynumber: 2.9 Consensus size: 26
14524978 AATATATATA
14524988 TATATATTCA-AAATATTTTCAAAAAC
1 TATATATT-ATAAATATTTTCAAAAAC
*
14525014 TATATATTATATATATTTTCAAAAAC
1 TATATATTATAAATATTTTCAAAAAC
* *
14525040 TATATATTATATATTTTTTCAAAA
1 TATATATTATAAATATTTTCAAAA
14525064 TATTTTCAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
25 1 0.02
26 46 0.98
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (26 bp):
TATATATTATAAATATTTTCAAAAAC
Found at i:14525025 original size:37 final size:37
Alignment explanation
Indices: 14524979--14525172 Score: 162
Period size: 37 Copynumber: 5.5 Consensus size: 37
14524969 AAACTATATA
14524979 ATATA-TATATATATATTCAAAATATTTTCAAAAAC-
1 ATATATTATATATATATTCAAAATATTTTCAAAAACT
14525014 ---TA-TATAT-TATA-T----ATATTTTCAAAAACT
1 ATATATTATATATATATTCAAAATATTTTCAAAAACT
* * *
14525041 ATATATTATATATTTTTTCAAAATATTTTCAAAGACT
1 ATATATTATATATATATTCAAAATATTTTCAAAAACT
* * *
14525078 CTATATTATATATATTTTCAAAATATTTTC-AAAATT
1 ATATATTATATATATATTCAAAATATTTTCAAAAACT
* * * *
14525114 ATATATTATATATATTTTTTCAAAATTTTATTAAAAAATAT
1 ATATATTATATATA--TATTCAAAATATT-TTCAAAAA-CT
14525155 ATATATTATATACTATAT
1 ATATATTATATA-TATAT
14525173 ATATATACTA
Statistics
Matches: 130, Mismatches: 12, Indels: 29
0.76 0.07 0.17
Matches are distributed among these distances:
26 14 0.11
30 3 0.02
31 9 0.07
32 9 0.07
33 1 0.01
36 17 0.13
37 42 0.32
38 12 0.09
39 2 0.02
40 6 0.05
41 13 0.10
42 2 0.02
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.48
Consensus pattern (37 bp):
ATATATTATATATATATTCAAAATATTTTCAAAAACT
Found at i:14525027 original size:24 final size:26
Alignment explanation
Indices: 14525000--14525063 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
14524990 TATATTCAAA
14525000 ATATTTTCAAAAACTATATATTATAT
1 ATATTTTCAAAAACTATATATTATAT
14525026 ATATTTTCAAAAACTATATATTATAT
1 ATATTTTCAAAAACTATATATTATAT
*
14525052 ATTTTTTCAAAA
1 ATATTTTCAAAA
14525064 TATTTTCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (26 bp):
ATATTTTCAAAAACTATATATTATAT
Found at i:14525083 original size:63 final size:67
Alignment explanation
Indices: 14524962--14525100 Score: 214
Period size: 63 Copynumber: 2.1 Consensus size: 67
14524952 ATAAATGTAT
*
14524962 TTTTTAAAAACTATATAATATATATATATATATTCAAAATATTTTCAAAAACTATATATTATATA
1 TTTTCAAAAACTATATAATATATATATATATATTCAAAATATTTTCAAAAACTATATATTATATA
14525027 TA
66 TA
* * *
14525029 TTTTCAAAAACTATAT-AT-TATATAT-T-TTTTCAAAATATTTTCAAAGACTCTATATTATATA
1 TTTTCAAAAACTATATAATATATATATATATATTCAAAATATTTTCAAAAACTATATATTATATA
14525090 TA
66 TA
14525092 TTTTCAAAA
1 TTTTCAAAA
14525101 TATTTTCAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
63 43 0.63
64 1 0.01
65 7 0.10
66 2 0.03
67 15 0.22
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.46
Consensus pattern (67 bp):
TTTTCAAAAACTATATAATATATATATATATATTCAAAATATTTTCAAAAACTATATATTATATA
TA
Found at i:14525158 original size:75 final size:74
Alignment explanation
Indices: 14525026--14525166 Score: 180
Period size: 75 Copynumber: 1.9 Consensus size: 74
14525016 TATATTATAT
* * *
14525026 ATATTTTCAAAAACTATATATTATATATTTTTTCAAAATATTTTCAAAGACTCTATAT-TATATA
1 ATATTTTCAAAAACTATATATTATATATTTTTTCAAAATATTTTCAAAAAATATATATAT-TATA
14525090 TATTTTCAAA
65 TATTTTCAAA
* *
14525100 ATATTTTC-AAAATTATATATTATATATATTTTTTCAAAAT-TTTATTAAAAAATATATATATTA
1 ATATTTTCAAAAACTATATA-T-TATATATTTTTTCAAAATATTT-TCAAAAAATATATATATTA
14525163 TATA
63 TATA
14525167 CTATATATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
73 10 0.17
74 12 0.21
75 35 0.60
76 1 0.02
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (74 bp):
ATATTTTCAAAAACTATATATTATATATTTTTTCAAAATATTTTCAAAAAATATATATATTATAT
ATTTTCAAA
Found at i:14535053 original size:6 final size:6
Alignment explanation
Indices: 14535042--14535085 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
14535032 AAATATCATT
* *
14535042 AAAATA AAAATA AAAAT- AAAAGA ATAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
14535086 GAACGATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:14535070 original size:23 final size:23
Alignment explanation
Indices: 14535044--14535088 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
14535034 ATATCATTAA
14535044 AATAAAAATAAAAATAAAAGAAT
1 AATAAAAATAAAAATAAAAGAAT
14535067 AATAAAAATAAAAATAAAAGAA
1 AATAAAAATAAAAATAAAAGAA
14535089 CGATTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (23 bp):
AATAAAAATAAAAATAAAAGAAT
Found at i:14541862 original size:15 final size:14
Alignment explanation
Indices: 14541832--14541890 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
14541822 GACCAAAGAA
*
14541832 AAAAAATGAA-AAT
1 AAAAAATAAATAAT
14541845 AAATAAATAAATAAT
1 AAA-AAATAAATAAT
14541860 AAAAAGA-AAATGAAT
1 AAAAA-ATAAAT-AAT
*
14541875 AAAATATAATATAAT
1 AAAAAATAA-ATAAT
14541890 A
1 A
14541891 TAATAAATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 3 0.08
14 13 0.34
15 20 0.53
16 2 0.05
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (14 bp):
AAAAAATAAATAAT
Found at i:14541873 original size:32 final size:34
Alignment explanation
Indices: 14541830--14541897 Score: 90
Period size: 32 Copynumber: 2.1 Consensus size: 34
14541820 TGGACCAAAG
14541830 AAAAAAAATGAA-AATAA-ATAA-ATAA-ATAATA
1 AAAAAAAATGAATAA-AATATAATATAATATAATA
14541861 AAAAGAAAATGAATAAAATATAATATAATATAATA
1 AAAA-AAAATGAATAAAATATAATATAATATAATA
14541896 AA
1 AA
14541898 TGATATATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
31 4 0.12
32 10 0.31
33 6 0.19
34 4 0.12
35 8 0.25
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (34 bp):
AAAAAAAATGAATAAAATATAATATAATATAATA
Found at i:14541888 original size:27 final size:27
Alignment explanation
Indices: 14541833--14541885 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
14541823 ACCAAAGAAA
14541833 AAAAATGAAAATAAATAAATAAATAAT
1 AAAAATGAAAATAAATAAATAAATAAT
* *
14541860 AAAAA-GAAAATGAATAAA-ATATAAT
1 AAAAATGAAAATAAATAAATAAATAAT
14541885 A
1 A
14541886 TAATATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 12 0.50
27 5 0.21
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (27 bp):
AAAAATGAAAATAAATAAATAAATAAT
Found at i:14541974 original size:11 final size:11
Alignment explanation
Indices: 14541958--14542051 Score: 59
Period size: 11 Copynumber: 8.0 Consensus size: 11
14541948 TACATAATCT
14541958 ATATTTTCAAA
1 ATATTTTCAAA
*
14541969 ATATTTTTAAAA
1 ATA-TTTTCAAA
*
14541981 ACTATATATT-ATAT
1 A-TAT-T-TTCA-AA
14541995 ATATTTTCAAA
1 ATATTTTCAAA
14542006 ATATTTTCAAAA
1 ATATTTTC-AAA
*
14542018 ACTATATATT--AT
1 A-TAT-T-TTCAAA
14542030 ATATTTTCAAA
1 ATATTTTCAAA
14542041 ATATTTTCAAA
1 ATATTTTCAAA
14542052 GACTATATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 24
0.69 0.05 0.25
Matches are distributed among these distances:
9 2 0.03
10 1 0.02
11 29 0.44
12 17 0.26
13 10 0.15
14 5 0.08
15 2 0.03
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATTTTCAAA
Found at i:14541976 original size:35 final size:35
Alignment explanation
Indices: 14541932--14542106 Score: 206
Period size: 35 Copynumber: 4.9 Consensus size: 35
14541922 ATATATAAAT
* * * *
14541932 AAATTTTTTTAAAAACTACATAATCTATATTTTCA
1 AAATATTTTCAAAAACTATATAATATATATTTTCA
*
14541967 AAATATTTTTAAAAACTATATATTATATATATTTTCA
1 AAATATTTTCAAAAACTATATA--ATATATATTTTCA
*
14542004 AAATATTTTCAAAAACTATATATTATATATTTTCA
1 AAATATTTTCAAAAACTATATAATATATATTTTCA
* **
14542039 AAATATTTTCAAAGACTATATATTATATATATTTTTTT
1 AAATATTTTCAAAAACTATATA--ATATATA-TTTTCA
* *
14542077 AAATATTTTCAAAAATTATATATTATATAT
1 AAATATTTTCAAAAACTATATAATATATAT
14542107 ATGTTTTTTA
Statistics
Matches: 123, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
35 54 0.44
36 6 0.05
37 39 0.32
38 24 0.20
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.48
Consensus pattern (35 bp):
AAATATTTTCAAAAACTATATAATATATATTTTCA
Found at i:14541985 original size:72 final size:71
Alignment explanation
Indices: 14541909--14542070 Score: 193
Period size: 72 Copynumber: 2.3 Consensus size: 71
14541899 GATATATAAT
* * *
14541909 ACTATACTATATA-ATATATAAATAAATTTTTTTAAAAACTACATAATCTATATTTTCAAAATAT
1 ACTATA-TATATATATATATAAA-AAATATTTTCAAAAACTACATAATATATATTTTCAAAATAT
*
14541973 TTTTAAAA
64 TTTCAAAA
* ** * *
14541981 ACTATATATTATATATATTTTCAAAATATTTTCAAAAACTATATATTATATATTTTCAAAATATT
1 ACTATATA-TATATATATATAAAAAATATTTTCAAAAACTACATAATATATATTTTCAAAATATT
*
14542046 TTCAAAG
65 TTCAAAA
14542053 ACTATATAT-TATATATAT
1 ACTATATATATATATATAT
14542071 TTTTTTAAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
70 8 0.10
71 3 0.04
72 60 0.78
73 6 0.08
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.45
Consensus pattern (71 bp):
ACTATATATATATATATATAAAAAATATTTTCAAAAACTACATAATATATATTTTCAAAATATTT
TCAAAA
Found at i:14542071 original size:72 final size:73
Alignment explanation
Indices: 14541932--14542106 Score: 253
Period size: 72 Copynumber: 2.4 Consensus size: 73
14541922 ATATATAAAT
* * * * * *
14541932 AAATTTTTTTAAAAACTACATAATCTATATTTTCAAAATATTTTTAAAAACTATATATTATATAT
1 AAATATTTTCAAAAACTATATATTATATATTTTCAAAATATTTTCAAAAACTATATATTATATAT
14541997 A-TTTTCA
66 ATTTTTCA
*
14542004 AAATATTTTCAAAAACTATATATTATATATTTTCAAAATATTTTCAAAGACTATATATTATATAT
1 AAATATTTTCAAAAACTATATATTATATATTTTCAAAATATTTTCAAAAACTATATATTATATAT
**
14542069 ATTTTTTT
66 ATTTTTCA
*
14542077 AAATATTTTCAAAAATTATATATTATATAT
1 AAATATTTTCAAAAACTATATATTATATAT
14542107 ATGTTTTTTA
Statistics
Matches: 92, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
72 59 0.64
73 33 0.36
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.48
Consensus pattern (73 bp):
AAATATTTTCAAAAACTATATATTATATATTTTCAAAATATTTTCAAAAACTATATATTATATAT
ATTTTTCA
Found at i:14542130 original size:39 final size:39
Alignment explanation
Indices: 14541967--14542146 Score: 180
Period size: 38 Copynumber: 4.8 Consensus size: 39
14541957 TATATTTTCA
* **
14541967 AAATATTTT-TAAAAACTATATATTATATATA-TTTTCA
1 AAATATTTTAAAAAAACTATATATTATATATATTTTTTT
* **
14542004 AAATATTTT-CAAAAACTATATA-T-TATATA-TTTTCA
1 AAATATTTTAAAAAAACTATATATTATATATATTTTTTT
* *
14542039 AAATATTTT-CAAAGACTATATATTATATATATTTTTTT
1 AAATATTTTAAAAAAACTATATATTATATATATTTTTTT
* *
14542077 AAATATTTT-CAAAAATTATATATTATATATATGTTTTTT
1 AAATATTTTAAAAAAACTATATATTATATATAT-TTTTTT
14542116 AAAT-TTTATAAAAAAAACTATATATTATATA
1 AAATATTT-T-AAAAAAACTATATATTATATA
14542147 CAATTTATAT
Statistics
Matches: 128, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
35 33 0.26
36 2 0.02
37 27 0.21
38 37 0.29
39 11 0.09
41 18 0.14
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (39 bp):
AAATATTTTAAAAAAACTATATATTATATATATTTTTTT
Found at i:14554770 original size:44 final size:45
Alignment explanation
Indices: 14554686--14554775 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 45
14554676 GATTCAAAAA
* ** *
14554686 ATATTAATTTACTAATAGATGATAGAAAATATGATAAATTATTAAT
1 ATATTAATTTACTAATAAACAATAAAAAATAT-ATAAATTATTAAT
*
14554732 ATATTAATTTTCTAATAAACAATAAAAAATAT-TAAATTATTAAT
1 ATATTAATTTACTAATAAACAATAAAAAATATATAAATTATTAAT
14554776 TAGTATTTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 12 0.31
46 27 0.69
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.40
Consensus pattern (45 bp):
ATATTAATTTACTAATAAACAATAAAAAATATATAAATTATTAAT
Found at i:14556436 original size:15 final size:16
Alignment explanation
Indices: 14556412--14556444 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14556402 TTTTTCATTT
14556412 AAAATGTAAAATAATA
1 AAAATGTAAAATAATA
*
14556428 AAAAT-TAAAATTATA
1 AAAATGTAAAATAATA
14556443 AA
1 AA
14556445 CACATTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (16 bp):
AAAATGTAAAATAATA
Found at i:14556491 original size:3 final size:3
Alignment explanation
Indices: 14556483--14556545 Score: 83
Period size: 3 Copynumber: 21.3 Consensus size: 3
14556473 ATATATTTTA
* * *
14556483 TAT TAT TAT TAT TAT TAT CAT TAT TAT T-T TAT TGT TAT TAT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
14556530 TGT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
14556546 CGTTGTGCAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:14558848 original size:45 final size:44
Alignment explanation
Indices: 14558780--14558894 Score: 124
Period size: 45 Copynumber: 2.6 Consensus size: 44
14558770 GGTAGACCTG
* * *
14558780 GGTCACACAGCATCAGCATCTCCCAACTATATCAAGCAAGGTCT
1 GGTCACATAGCATCAGTACCTCCCAACTATATCAAGCAAGGTCT
* * * **
14558824 GTGTCACATAGCATCAGTACCTCCCAAGTATCTCAGGTGAGGTCT
1 G-GTCACATAGCATCAGTACCTCCCAACTATATCAAGCAAGGTCT
*
14558869 GATCACATAGCATC-GATACCTCCCAA
1 GGTCACATAGCATCAG-TACCTCCCAA
14558895 TACCTTAGGC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
43 1 0.02
44 23 0.38
45 36 0.60
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (44 bp):
GGTCACATAGCATCAGTACCTCCCAACTATATCAAGCAAGGTCT
Found at i:14559975 original size:20 final size:21
Alignment explanation
Indices: 14559949--14560006 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
14559939 TAAAACAAAG
14559949 AAGGGATCGATCATTTTT-TC-
1 AAGGGATCGATC-TTTTTCTCT
*
14559969 GAGGGATCGATCTTTTTCTCT
1 AAGGGATCGATCTTTTTCTCT
*
14559990 AAGGGATCGATCCTTTT
1 AAGGGATCGATCTTTTT
14560007 GAAAAGGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.15
20 13 0.39
21 15 0.45
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (21 bp):
AAGGGATCGATCTTTTTCTCT
Found at i:14559996 original size:21 final size:19
Alignment explanation
Indices: 14559949--14560006 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 19
14559939 TAAAACAAAG
14559949 AAGGGATCGATCATTTTTTC
1 AAGGGATCGATC-TTTTTTC
*
14559969 GAGGGATCGATCTTTTTCTC
1 AAGGGATCGATCTTTTT-TC
14559989 TAAGGGATCGATCCTTTT
1 -AAGGGATCGAT-CTTTT
14560007 GAAAAGGGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.15
20 13 0.39
21 10 0.30
22 5 0.15
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (19 bp):
AAGGGATCGATCTTTTTTC
Found at i:14560610 original size:16 final size:17
Alignment explanation
Indices: 14560588--14560631 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
14560578 GACCTTACCT
*
14560588 TGAAGAAGATGAATGAA
1 TGAAGAAGAAGAATGAA
14560605 -GAAGAAGAAGAATGAA
1 TGAAGAAGAAGAATGAA
14560621 TGAAG-AGAAGA
1 TGAAGAAGAAGA
14560632 GAAATTGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.32, T:0.11
Consensus pattern (17 bp):
TGAAGAAGAAGAATGAA
Found at i:14564196 original size:45 final size:45
Alignment explanation
Indices: 14564132--14564235 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
14564122 TGGGTCATAC
* * * *
14564132 AGCATCAGCATCTCCCAAGTATCTTAGGTGAGGTTCT-GATCACAT
1 AGCATCGGCACCTCCCAAGTAGCTCAGGTGAGG-TCTGGATCACAT
* * *
14564177 AGCATCGGCACCTTCCAAGTAGCTCAGGTGAGGTCTGGGTCATAT
1 AGCATCGGCACCTCCCAAGTAGCTCAGGTGAGGTCTGGATCACAT
*
14564222 AGCATCGGTACCTC
1 AGCATCGGCACCTC
14564236 TGAATACCTT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 3 0.06
45 46 0.94
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (45 bp):
AGCATCGGCACCTCCCAAGTAGCTCAGGTGAGGTCTGGATCACAT
Found at i:14565313 original size:21 final size:21
Alignment explanation
Indices: 14565289--14565341 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
14565279 TAAACAAAGA
*
14565289 AGGGATCGATCATTTCT-TTCG
1 AGGGATCGATCATTTCTCCT-G
14565310 AGGGATCGATCATTTCTCCTG
1 AGGGATCGATCATTTCTCCTG
14565331 AGGGATCGATC
1 AGGGATCGATC
14565342 CTTTTGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (21 bp):
AGGGATCGATCATTTCTCCTG
Found at i:14568412 original size:3 final size:3
Alignment explanation
Indices: 14568404--14568447 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
14568394 ATTATAAATA
14568404 TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14568448 CTTTAATATT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:14568442 original size:20 final size:20
Alignment explanation
Indices: 14568407--14568447 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
14568397 ATAAATATAT
14568407 TATTATTATTATTATTATTA
1 TATTATTATTATTATTATTA
14568427 TATTATTATTATTATTATTA
1 TATTATTATTATTATTATTA
14568447 T
1 T
14568448 CTTTAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTATTATTATTATTATTA
Found at i:14568445 original size:23 final size:23
Alignment explanation
Indices: 14568393--14568447 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
14568383 ACATAAAAAA
* *
14568393 TATTATAAATATATTATTATTAT
1 TATTATTATTATATTATTATTAT
14568416 TATTATTATTATATTATTATTAT
1 TATTATTATTATATTATTATTAT
14568439 TATTATTAT
1 TATTATTAT
14568448 CTTTAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TATTATTATTATATTATTATTAT
Found at i:14568462 original size:20 final size:20
Alignment explanation
Indices: 14568407--14568459 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
14568397 ATAAATATAT
*
14568407 TATTATTATTATTATTATTA
1 TATTAATATTATTATTATTA
*
14568427 TATTATTATTATTATTATTA
1 TATTAATATTATTATTATTA
*
14568447 TCTTTAATATTAT
1 T-ATTAATATTAT
14568460 ATTTTACATG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 21 0.70
21 9 0.30
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTAATATTATTATTATTA
Found at i:14580471 original size:9 final size:9
Alignment explanation
Indices: 14580457--14580532 Score: 73
Period size: 9 Copynumber: 8.4 Consensus size: 9
14580447 TATTTTGCTT
14580457 AAAAAAAGAA
1 AAAAAAAG-A
*
14580467 AAAAAAAGG
1 AAAAAAAGA
14580476 AAAAAAAG-
1 AAAAAAAGA
* *
14580484 GAAAAAATA
1 AAAAAAAGA
* *
14580493 AGAAAAATA
1 AAAAAAAGA
*
14580502 AAAAAAACA
1 AAAAAAAGA
14580511 AAAAAAAGA
1 AAAAAAAGA
*
14580520 AGAAAAAGA
1 AAAAAAAGA
14580529 AAAA
1 AAAA
14580533 GGGAGGGTTC
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
8 6 0.11
9 41 0.75
10 8 0.15
ACGTcount: A:0.84, C:0.01, G:0.12, T:0.03
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:14580498 original size:27 final size:24
Alignment explanation
Indices: 14580458--14580532 Score: 62
Period size: 26 Copynumber: 2.9 Consensus size: 24
14580448 ATTTTGCTTA
* *
14580458 AAAAAAGAAAAAAAAAGGAAAAAAAGG
1 AAAAAA-AAGAAAAAA-GAAAAAAA-C
14580485 AAAAAATAAGAAAAATA-AAAAAAAC
1 AAAAAA-AAGAAAAA-AGAAAAAAAC
14580510 AAAAAAAAGAAGAAAAAGAAAAA
1 AAAAAAAAG-A-AAAAAGAAAAA
14580533 GGGAGGGTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
24 3 0.07
25 8 0.20
26 16 0.39
27 13 0.32
28 1 0.02
ACGTcount: A:0.84, C:0.01, G:0.12, T:0.03
Consensus pattern (24 bp):
AAAAAAAAGAAAAAAGAAAAAAAC
Found at i:14581736 original size:54 final size:54
Alignment explanation
Indices: 14581677--14582022 Score: 550
Period size: 54 Copynumber: 6.4 Consensus size: 54
14581667 TGGAGCAGAT
*
14581677 GAAGATGTTCAAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAGCCCGTTTGAA
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAGCCCGTTTGAA
14581731 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAGCCCGTTTGAA
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAGCCCGTTTGAA
14581785 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAGCCCGTTTGAA
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAGCCCGTTTGAA
*
14581839 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGAGAGCGAGCCCGTTTGAA
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAGCCCGTTTGAA
* * *
14581893 GAAGATGTTCGAGTTCCATACTACCTAGAGAAAGAGGGAGCGAACCCATTTGAA
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAGCCCGTTTGAA
* * * * * *
14581947 GAAGATG-TCTGAGTTCTATACTCCTTAGAGAAAGAGGGAGCGAACTCGTTAGCA
1 GAAGATGTTC-GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAGCCCGTTTGAA
* * *
14582001 GAATATATTCGAGTTCTATACT
1 GAAGATGTTCGAGTTCCATACT
14582023 TCCTGAAGGA
Statistics
Matches: 275, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
53 2 0.01
54 271 0.99
55 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (54 bp):
GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAGCCCGTTTGAA
Found at i:14582325 original size:51 final size:51
Alignment explanation
Indices: 14582011--14582302 Score: 390
Period size: 51 Copynumber: 5.6 Consensus size: 51
14582001 GAATATATTC
* * * *
14582011 GAGTTCTATACT-TCCTGAAGGAATAGGGAGCAGACACGATTGTTGAAGCTTGTT
1 GAGTCCTATACTCT-CTGAAGGAATAGGGAGCGGACACGTTTGTTGAAG---ATT
* * * *
14582065 CGAGTCTTATACTCTCTGAAGGAATAGGGA-CTAGATATGTTTGTTGAAGATT
1 -GAGTCCTATACTCTCTGAAGGAATAGGGAGC-GGACACGTTTGTTGAAGATT
*
14582117 GTTCAAGACCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATT
1 G----AGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATT
*
14582172 GAGTCCTATACTCTCTGAAGAAATAGGGAGCGGACACGTTTGTTGAAGATT
1 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATT
14582223 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATT
1 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATT
14582274 GAGTCCTATACTCTCTGAAGGAATAGGGA
1 GAGTCCTATACTCTCTGAAGGAATAGGGA
14582303 ACGAACCTGT
Statistics
Matches: 216, Mismatches: 14, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
51 128 0.59
52 2 0.01
54 1 0.00
55 83 0.38
56 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (51 bp):
GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATT
Found at i:14582541 original size:3 final size:3
Alignment explanation
Indices: 14582533--14582604 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
14582523 TATAAATATA
14582533 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14582581 TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
14582605 CTTTAATATT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14589190 original size:2 final size:2
Alignment explanation
Indices: 14589183--14589212 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14589173 AGAATTTTCA
14589183 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14589213 CGAAGATGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14590567 original size:21 final size:22
Alignment explanation
Indices: 14590525--14590567 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
14590515 GTCGGTTATC
* **
14590525 TTTAATTGCAAAATTTTGAAAT
1 TTTAATTGAAAAATTTAAAAAT
14590547 TTTAATT-AAAAATTTAAAAAT
1 TTTAATTGAAAAATTTAAAAAT
14590568 ACGATTCGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (22 bp):
TTTAATTGAAAAATTTAAAAAT
Found at i:14591768 original size:14 final size:14
Alignment explanation
Indices: 14591749--14591795 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
14591739 GGGGCTTGTA
14591749 AAAAAATAATTAAT
1 AAAAAATAATTAAT
14591763 AAAAAA-ATATTAAT
1 AAAAAATA-ATTAAT
*
14591777 AATAATAATAATAAAT
1 AA-AA-AATAATTAAT
14591793 AAA
1 AAA
14591796 TATAAAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 1 0.04
14 14 0.50
15 3 0.11
16 9 0.32
17 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAAATAATTAAT
Found at i:14591797 original size:14 final size:14
Alignment explanation
Indices: 14591747--14591795 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
14591737 TGGGGGCTTG
14591747 TAAAAAAATAATTAA
1 TAAAAAAATAA-TAA
*
14591762 TAAAAAAATATTAA
1 TAAAAAAATAATAA
*
14591776 TAATAATAATAATAAA
1 TAA-AAAAATAAT-AA
14591792 TAAA
1 TAAA
14591796 TATAAAAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 6 0.21
15 18 0.62
16 5 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAAAAAATAATAA
Found at i:14592353 original size:84 final size:84
Alignment explanation
Indices: 14592211--14592570 Score: 531
Period size: 84 Copynumber: 4.3 Consensus size: 84
14592201 CTGAATGAAA
* * *
14592211 TCGAACTCGAAAGGTCTCTTGTTGGCAGATAACCGTTCTAGCCTTGAGTTATGCTGCAAATGATG
1 TCGAACTCG-AAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATG
* *
14592276 TGCCTTTGAGCTGATCGTAG
65 TGCCTTGGAGCTGAGCGTAG
* * * * *
14592296 TCGAACTCGAAGGTCTTTTGTTAGCAAATAACCCTTCTTGCCTTAAGCTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGT
14592361 GCCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * *
14592380 TCGAACTCGAAGGTCTTTAGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTTCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGT
*
14592445 GCCTTGAAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * *
14592464 TTGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTAGCTTTGAGCTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGT
14592529 GCCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
*
14592548 TCGAACTCAAAGGTCTTTGTGTT
1 TCGAACTCGAAGGTCTTT-TGTT
14592571 TCAAGAGAAA
Statistics
Matches: 244, Mismatches: 30, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
84 232 0.95
85 12 0.05
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGT
GCCTTGGAGCTGAGCGTAG
Found at i:14592687 original size:67 final size:69
Alignment explanation
Indices: 14592567--14592762 Score: 186
Period size: 67 Copynumber: 2.8 Consensus size: 69
14592557 AAGGTCTTTG
* * * * * * *
14592567 TGTTTCAAGAGAAATATTTTCAAAGGTTTTTTGTGTTTCAAGAGAAACTGTCTCCAGGGAAGCAA
1 TGTTTCAAGAGAAACATATTCAAAGG-TATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAAACAA
*
14592632 AATTT
65 AACTT
* *
14592637 TGTTTCAAGAGAAACATATTCAAA-G-ATTGGTGTTTTAAGAGAAACTGTCTCAAGAGAAATAAA
1 TGTTTCAAGAGAAACATATTCAAAGGTATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAAACAAA
14592700 ACTT
66 ACTT
* * *
14592704 TGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAATT--TGTTTCAAGAGAAACTGTCTCAAGA
1 TGTTTCAAGAGAAACATAT-TCAA-AG-G--TATTGGTGTTTCAAGAGAAACTGTCTCAAGA
14592763 CAAAACTTAG
Statistics
Matches: 106, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
66 2 0.02
67 52 0.49
68 1 0.01
69 1 0.01
70 23 0.22
71 24 0.23
73 3 0.03
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (69 bp):
TGTTTCAAGAGAAACATATTCAAAGGTATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAAACAAA
ACTT
Found at i:14592762 original size:15 final size:15
Alignment explanation
Indices: 14592708--14592794 Score: 50
Period size: 15 Copynumber: 5.3 Consensus size: 15
14592698 AAACTTTGTT
*
14592708 TCAAGGGAAACTGTC
1 TCAAGAGAAACTGTC
* *
14592723 TCAAGAGAGACAATTTGTT
1 TC-A-AGAGA-AA-CTGTC
14592742 TCAAGAGAAACTGTC
1 TCAAGAGAAACTGTC
*
14592757 TCAAGACAAAACTTAGT-
1 TCAAGA-GAAAC-T-GTC
*
14592774 TCCAAAAGAAACTGTC
1 T-CAAGAGAAACTGTC
14592790 TCAAG
1 TCAAG
14592795 GGAGACGAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 18
0.67 0.11 0.22
Matches are distributed among these distances:
15 16 0.30
16 9 0.17
17 15 0.28
18 9 0.17
19 5 0.09
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (15 bp):
TCAAGAGAAACTGTC
Found at i:14592789 original size:33 final size:34
Alignment explanation
Indices: 14592714--14592794 Score: 103
Period size: 33 Copynumber: 2.4 Consensus size: 34
14592704 TGTTTCAAGG
* * * *
14592714 GAAACTGTCTCAAGAGAGACAATTTGTTTCAAGA
1 GAAACTGTCTCAAGACAGACAATTAGTTCCAAAA
14592748 GAAACTGTCTCAAGACA-A-AACTTAGTTCCAAAA
1 GAAACTGTCTCAAGACAGACAA-TTAGTTCCAAAA
14592781 GAAACTGTCTCAAG
1 GAAACTGTCTCAAG
14592795 GGAGACGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
32 2 0.05
33 24 0.57
34 16 0.38
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (34 bp):
GAAACTGTCTCAAGACAGACAATTAGTTCCAAAA
Found at i:14592910 original size:170 final size:171
Alignment explanation
Indices: 14592609--14592932 Score: 505
Period size: 170 Copynumber: 1.9 Consensus size: 171
14592599 GTGTTTCAAG
* *
14592609 AGAAACTGTCTCCAGGGAAGCAAAATTTTGTTTCAAGAGAAACATATTCAAAGATTGGTGTTTTA
1 AGAAACTGTCTCAAGGGAAGCAAAATTTTGTTTCAAGAGAAACATATTCAAAGATTGGTGTTTCA
* *
14592674 AGAGAAACTGTCTCAAGAGAAATAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAATTT
66 AGAGAAACTGTCTCAAGAGAAACAAAACTTTGTTCCAAGGGAAACTGTCTCAAGAGAGACAATTT
14592739 GTTTCAAGAGAAACTGTCTCAAGACAAAACTTAGTTCCAAA
131 GTTTCAAGAGAAACTGTCTCAAGACAAAACTTAGTTCCAAA
* *
14592780 AGAAACTGTCTCAAGGG-AGACGAAA-TTTGTTTCAAG-GAAAACATATTCAAAGATT-TTGTTT
1 AGAAACTGTCTCAAGGGAAG-CAAAATTTTGTTTCAAGAG-AAACATATTCAAAGATTGGTGTTT
* *
14592841 CAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTCCAAGGGAAACTGTCTCAAGAGAGACAAA
64 CAAGAGAAACTGTCTCAAGAGAAACAAAACTTTGTTCCAAGGGAAACTGTCTCAAGAGAGAC--A
14592905 ATTTGTTTCAAGAGAAACTGTCTCAAGA
127 ATTTGTTTCAAGAGAAACTGTCTCAAGA
14592933 GAGACAAAGA
Statistics
Matches: 141, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
168 31 0.22
169 31 0.22
170 59 0.42
171 20 0.14
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.26
Consensus pattern (171 bp):
AGAAACTGTCTCAAGGGAAGCAAAATTTTGTTTCAAGAGAAACATATTCAAAGATTGGTGTTTCA
AGAGAAACTGTCTCAAGAGAAACAAAACTTTGTTCCAAGGGAAACTGTCTCAAGAGAGACAATTT
GTTTCAAGAGAAACTGTCTCAAGACAAAACTTAGTTCCAAA
Found at i:14592917 original size:21 final size:21
Alignment explanation
Indices: 14592855--14592919 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
14592845 GGAAACTGTC
14592855 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
* * *
14592876 CCAAG-G-G---AAA-CTGTC
1 TCAAGAGAGACAAAATTTGTT
14592891 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
14592912 TCAAGAGA
1 TCAAGAGA
14592920 AACTGTCTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 7 0.22
16 4 0.12
17 1 0.03
19 1 0.03
20 4 0.12
21 15 0.47
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.23
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:14592949 original size:42 final size:36
Alignment explanation
Indices: 14592834--14593339 Score: 476
Period size: 36 Copynumber: 14.2 Consensus size: 36
14592824 ATTCAAAGAT
*
14592834 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
14592870 TTTGTTCCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
14592906 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTC-A-AGAG----AGACAAAA
*
14592948 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * * * *
14592984 CTTAGTTCCAAAAGAAATTGTCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
14593021 TTTGTTT-AATGTA-AAACATAT-TC-A-A-AG----AT
1 TTTGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAA
*
14593050 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
14593086 TTTGTTTCAAGTGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
14593122 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * * *
14593158 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
14593195 TTTCTTT-AATGTA-AAACATAT-TC-----A-A-ATAT
1 TTTGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAA
* *
14593224 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGGCAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
14593260 TTTGTTTCAAGGGAAACTGTCTCAAGAGAAACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
14593296 TTTGTTTCAAGAGAAACTATCTCAAGAGAGATAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
14593332 CTTTGTTT
1 -TTTGTTT
14593340 TAAGTAAATT
Statistics
Matches: 387, Mismatches: 48, Indels: 69
0.77 0.10 0.14
Matches are distributed among these distances:
28 4 0.01
29 29 0.07
30 6 0.02
31 2 0.01
32 2 0.01
33 2 0.01
34 1 0.00
35 5 0.01
36 223 0.58
37 74 0.19
38 4 0.01
40 4 0.01
41 1 0.00
42 30 0.08
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:14593104 original size:216 final size:210
Alignment explanation
Indices: 14592667--14593184 Score: 777
Period size: 216 Copynumber: 2.5 Consensus size: 210
14592657 CAAAGATTGG
* * * *
14592667 TGTTTTAAGAGAAACTGTCTCAAGAGAAATAAAACTTTGTTTCAAGGGAAACTGTCTC-A-AGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGAGAAACTGTCTCAAGAGAG
14592730 ----AGACAATTTGTTTCAAGAGAAACTGTCTCAAGACAAAACTTAGTTCCAAAAGAAACTGTCT
65 ACAAAGACAATTTGTTTCAAGAGAAACTGTCTCAAGACAAAACTTAGTTCCAAAAGAAACTGTCT
14592791 CAAGGGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTTTCAAGGGAAACTGTCT
130 CAAGGGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTTTCAAGGGAAACTGTCT
14592856 CAAGAGAGACAAAATT
195 CAAGAGAGACAAAATT
* *
14592872 TGTTCCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
* *
14592937 CAAAGACAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAT
66 CAAAGAC--AATTTGTTTCAAGAGAAACTGTCTC---A-AGACAAAACTTAGTTCCAAAAGAAAC
*
14593002 TGTCTCAAGGGAGACGAAATTTGTTT-AATGTAAAACATATTCAAAGATTTTGTTTCAAGGGAAA
125 TGTCTCAAGGGAGACGAAATTTGTTTCAA-GGAAAACATATTCAAAGATTTTGTTTCAAGGGAAA
14593066 CTGTCTCAAGAGAGACAAAATT
189 CTGTCTCAAGAGAGACAAAATT
*
14593088 TGTTTCAAGTGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
* * *
14593153 CAAA-AC--TTAGTTCCAAAAGAAACTGTCTCAAG
66 CAAAGACAATTTGTTTCAAGAGAAACTGTCTCAAG
14593185 GGAGACGAAA
Statistics
Matches: 285, Mismatches: 15, Indels: 24
0.88 0.05 0.07
Matches are distributed among these distances:
204 22 0.08
205 30 0.11
206 4 0.01
207 2 0.01
208 1 0.00
210 4 0.01
211 19 0.07
212 24 0.08
215 5 0.02
216 174 0.61
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (210 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
CAAAGACAATTTGTTTCAAGAGAAACTGTCTCAAGACAAAACTTAGTTCCAAAAGAAACTGTCTC
AAGGGAGACGAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTTTCAAGGGAAACTGTCTC
AAGAGAGACAAAATT
Found at i:14593133 original size:21 final size:21
Alignment explanation
Indices: 14593071--14593135 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
14593061 GGAAACTGTC
14593071 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
* * *
14593092 TC-A-AGTG---AAA-CTGTC
1 TCAAGAGAGACAAAATTTGTT
14593107 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
14593128 TCAAGAGA
1 TCAAGAGA
14593136 AACTGTCTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 5 0.16
16 4 0.12
17 3 0.09
19 3 0.09
20 4 0.12
21 13 0.41
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:14593182 original size:174 final size:174
Alignment explanation
Indices: 14592870--14593334 Score: 777
Period size: 174 Copynumber: 2.6 Consensus size: 174
14592860 AGAGACAAAA
*
14592870 TTTGTTCCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTC-A-AGA
*
14592935 GACAAAGACAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAA
64 G----AGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAA
* *
14593000 ATTGTCTCAAGGGAGACGAAATTTGTTTAATGTAAAACATATTCAAAGAT
125 ACTGTCTCAAGGGAGACGAAATTTCTTTAATGTAAAACATATTCAAAGAT
*
14593050 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGTGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
14593115 GACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTC
66 GACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTC
*
14593180 TCAAGGGAGACGAAATTTCTTTAATGTAAAACATATTCAAATAT
131 TCAAGGGAGACGAAATTTCTTTAATGTAAAACATATTCAAAGAT
* *
14593224 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGGCAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
* * *
14593289 AACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGATAAAACTT
66 GACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
14593335 TGTTTTAAGT
Statistics
Matches: 274, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
174 212 0.77
178 4 0.01
179 1 0.00
180 57 0.21
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (174 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
GACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTC
TCAAGGGAGACGAAATTTCTTTAATGTAAAACATATTCAAAGAT
Found at i:14593356 original size:37 final size:36
Alignment explanation
Indices: 14593224--14593364 Score: 162
Period size: 36 Copynumber: 3.9 Consensus size: 36
14593214 ATTCAAATAT
*
14593224 TTTGTTTCAAGGGAAACT-GTCTCAAGAGAGGCAAAA
1 TTTGTTTCAA-GGAAACTAGTCTCAAGAGAGACAAAA
*
14593260 TTTGTTTCAAGGGAAACT-GTCTCAAGAGAAACAAAA
1 TTTGTTTCAA-GGAAACTAGTCTCAAGAGAGACAAAA
*
14593296 TTTGTTTCAAGAGAAACTA-TCTCAAGAGAGATAAAA
1 TTTGTTTCAAG-GAAACTAGTCTCAAGAGAGACAAAA
* * * *
14593332 CTTTGTTTTAAGTAAATTAGTCTCAAGCGAGAC
1 -TTTGTTTCAAGGAAACTAGTCTCAAGAGAGAC
14593365 GACCCCTTGT
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
35 1 0.01
36 70 0.76
37 21 0.23
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (36 bp):
TTTGTTTCAAGGAAACTAGTCTCAAGAGAGACAAAA
Found at i:14593526 original size:20 final size:20
Alignment explanation
Indices: 14593501--14593542 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
14593491 TTGTTGTGAC
14593501 ACTAAATCACTTCATCGGGA
1 ACTAAATCACTTCATCGGGA
14593521 ACTAAATCACTTCATCGGGA
1 ACTAAATCACTTCATCGGGA
14593541 AC
1 AC
14593543 GATATCCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (20 bp):
ACTAAATCACTTCATCGGGA
Found at i:14596181 original size:42 final size:42
Alignment explanation
Indices: 14596116--14596203 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
14596106 CACCATCTTG
* *
14596116 TTCTCGTAATCTTTGAAAGGACTCTCCGGGTCAGTAACCTTT
1 TTCTCATAATCTTCGAAAGGACTCTCCGGGTCAGTAACCTTT
*
14596158 TTCTCATAATCTTCGAAATGACTCTCCGGGTCAGTAACCTTT
1 TTCTCATAATCTTCGAAAGGACTCTCCGGGTCAGTAACCTTT
14596200 TTCT
1 TTCT
14596204 TGCCTTGCAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (42 bp):
TTCTCATAATCTTCGAAAGGACTCTCCGGGTCAGTAACCTTT
Found at i:14598167 original size:17 final size:15
Alignment explanation
Indices: 14598135--14598186 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
14598125 TGGGGGCTTG
*
14598135 TAAAAAAATAATTAA
1 TAAAAAAATAAATAA
14598150 TAAAAAAATATTAATAA
1 TAAAAAAATA--AATAA
*
14598167 TAAATAAATAAAT-A
1 TAAAAAAATAAATAA
14598181 TAAAAA
1 TAAAAA
14598187 GTATTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
14 6 0.19
15 13 0.41
17 13 0.41
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAAAAAATAAATAA
Found at i:14598167 original size:21 final size:21
Alignment explanation
Indices: 14598141--14598181 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14598131 CTTGTAAAAA
*
14598141 AATAATTAATAAAAAAATATT
1 AATAATAAATAAAAAAATATT
*
14598162 AATAATAAATAAATAAATAT
1 AATAATAAATAAAAAAATAT
14598182 AAAAAGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AATAATAAATAAAAAAATATT
Found at i:14598717 original size:84 final size:82
Alignment explanation
Indices: 14598588--14598860 Score: 375
Period size: 84 Copynumber: 3.2 Consensus size: 82
14598578 CTGAATGAAA
* *
14598588 TCGAACTCGAAAGGTCTCTTGTTGGCATATAACCGTTCTAGCCTTGAGTTATGCTGGAAATGATG
1 TCGAACTCG-AAGGTCT-TTGTTGGCATATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATG
14598653 TGTCTTTGAGCTGAGCGTAG
64 TG-CTTTGAGCTGAGCGTAG
14598673 TCGAACTCGAAGGTCTTTAGTTGGCATATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTT-GTTGGCATATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* *
14598738 GCCTTGAAGCTAAGCGTAG
65 GCTTTG-AGCTGAGCGTAG
* * * * * *
14598757 TCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTAACTTTGAGCTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTC-TTTGTTGGCATATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
*
14598822 GCCTTGGAGCTGAGCGTAG
65 G-CTTTGAGCTGAGCGTAG
*
14598841 TCGAACTCGAAGGCCTTTGT
1 TCGAACTCGAAGGTCTTTGT
14598861 GTTTCATGAG
Statistics
Matches: 169, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
83 10 0.06
84 144 0.85
85 15 0.09
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (82 bp):
TCGAACTCGAAGGTCTTTGTTGGCATATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
CTTTGAGCTGAGCGTAG
Found at i:14607967 original size:16 final size:16
Alignment explanation
Indices: 14607946--14607978 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
14607936 CGATTTTGAT
14607946 ATATACTCAAAACATG
1 ATATACTCAAAACATG
14607962 ATATACTCAAAACATG
1 ATATACTCAAAACATG
14607978 A
1 A
14607979 CTTTATGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (16 bp):
ATATACTCAAAACATG
Found at i:14610474 original size:19 final size:20
Alignment explanation
Indices: 14610444--14610485 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
14610434 TAATAAATAA
14610444 TAATATTTATTACAAAAAA-T
1 TAATATTTATTA-AAAAAACT
14610464 TAATA-TTATTAAAAAAACT
1 TAATATTTATTAAAAAAACT
14610483 TAA
1 TAA
14610486 AATATTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.29
19 10 0.48
20 5 0.24
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
TAATATTTATTAAAAAAACT
Found at i:14610491 original size:18 final size:19
Alignment explanation
Indices: 14610451--14610492 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
14610441 TAATAATATT
*
14610451 TATTACAAAAAATTAATAT
1 TATTACAAAAAATTAATAA
14610470 TATTA-AAAAAACTTAA-AA
1 TATTACAAAAAA-TTAATAA
14610488 TATTA
1 TATTA
14610493 TAATTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
TATTACAAAAAATTAATAA
Found at i:14610528 original size:25 final size:28
Alignment explanation
Indices: 14610500--14610555 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
14610490 TTATAATTAT
14610500 TTATGTC-A-ATATTAAT-AATAAAATA
1 TTATGTCTATATATTAATAAATAAAATA
* * *
14610525 TTATTTCTATATTTTTATAAATAAAATA
1 TTATGTCTATATATTAATAAATAAAATA
14610553 TTA
1 TTA
14610556 AGACCAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 6 0.24
26 1 0.04
27 6 0.24
28 12 0.48
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (28 bp):
TTATGTCTATATATTAATAAATAAAATA
Found at i:14612865 original size:29 final size:29
Alignment explanation
Indices: 14612813--14612896 Score: 105
Period size: 29 Copynumber: 2.9 Consensus size: 29
14612803 ACCCAACCAT
* ** *
14612813 AGGTCGCCAAGCACTCCCAACGACCTACA
1 AGGTCGCCAAGCAATCCCGGCGACATACA
***
14612842 AGGTCGCCAAGCAATCCCGGCGACATGGT
1 AGGTCGCCAAGCAATCCCGGCGACATACA
14612871 AGGTCGCCAAGCAATCCCGGCGACAT
1 AGGTCGCCAAGCAATCCCGGCGACAT
14612897 GGTAGGTCGC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.27, C:0.36, G:0.25, T:0.12
Consensus pattern (29 bp):
AGGTCGCCAAGCAATCCCGGCGACATACA
Found at i:14612897 original size:29 final size:29
Alignment explanation
Indices: 14612842--14612908 Score: 134
Period size: 29 Copynumber: 2.3 Consensus size: 29
14612832 ACGACCTACA
14612842 AGGTCGCCAAGCAATCCCGGCGACATGGT
1 AGGTCGCCAAGCAATCCCGGCGACATGGT
14612871 AGGTCGCCAAGCAATCCCGGCGACATGGT
1 AGGTCGCCAAGCAATCCCGGCGACATGGT
14612900 AGGTCGCCA
1 AGGTCGCCA
14612909 TGCACGCCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.24, C:0.31, G:0.31, T:0.13
Consensus pattern (29 bp):
AGGTCGCCAAGCAATCCCGGCGACATGGT
Found at i:14612922 original size:29 final size:29
Alignment explanation
Indices: 14612842--14612923 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
14612832 ACGACCTACA
*
14612842 AGGTCGCCAAGCAATCCCGGCGACATGGT
1 AGGTCGCCAAGCAAGCCCGGCGACATGGT
*
14612871 AGGTCGCCAAGCAATCCCGGCGACATGGT
1 AGGTCGCCAAGCAAGCCCGGCGACATGGT
* * *
14612900 AGGTCGCCATGCACGCCCAGCGAC
1 AGGTCGCCAAGCAAGCCCGGCGAC
14612924 CTTATAGGTC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.23, C:0.34, G:0.30, T:0.12
Consensus pattern (29 bp):
AGGTCGCCAAGCAAGCCCGGCGACATGGT
Found at i:14613653 original size:21 final size:21
Alignment explanation
Indices: 14613628--14613671 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
14613618 AATTTAGTTA
14613628 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
14613649 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
14613670 AT
1 AT
14613672 ATTATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:14613685 original size:28 final size:28
Alignment explanation
Indices: 14613648--14613701 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
14613638 TAGTATAAAT
* *
14613648 TATTAGTTTGTTAGTTTAAGTTATATTA
1 TATTAATTTGTTAATTTAAGTTATATTA
14613676 TATTAATTTGTTAATTTAAGTTATAT
1 TATTAATTTGTTAATTTAAGTTATAT
14613702 GTTAGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (28 bp):
TATTAATTTGTTAATTTAAGTTATATTA
Found at i:14616807 original size:49 final size:48
Alignment explanation
Indices: 14616743--14617119 Score: 400
Period size: 49 Copynumber: 7.2 Consensus size: 48
14616733 AGATTTAGTA
*
14616743 GATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
1 GATTAGTAATAATGAAATTATTATTAAT-TTTAATGATTTGATAGTAAT
14616792 GATTAGTAATAATGAAATTATTATTAATATTTATGATTTGATATTAATGATTTAGTAAT
1 GATTAGTAATAATGAAATTATTATTAAT-TTTA--A--TG--ATT--TGA--TAGTAAT
*
14616851 GATTA-TAATAATGAAATTATTATTAATTTTAATAATTTGATAGTAAT
1 GATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGATAGTAAT
*
14616898 AATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGAATGATTAGTAAT
1 GATTAGTAATAATGAAATTATTATTAA-TTTTAATGA--T--T----TGA-TAGTAAT
14616956 GATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGATAGT-AT
1 GATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGATAGTAAT
14617003 GATTTAGTAATGATTAGTAATATGAAATTATTA-TAATTTTAATGATTTGATAGTAAT
1 GA-TTAG---T-A--A-T-A-ATGAAATTATTATTAATTTTAATGATTTGATAGTAAT
14617060 GATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTAGTAATAATGAAATTATTATTAA-TTTTAATGATTTGATAGTAAT
14617109 GATTTAGTAAT
1 GA-TTAGTAAT
14617120 GATTAGTAAT
Statistics
Matches: 288, Mismatches: 5, Indels: 69
0.80 0.01 0.19
Matches are distributed among these distances:
47 27 0.09
48 33 0.11
49 70 0.24
50 9 0.03
51 6 0.02
52 2 0.01
53 6 0.02
54 1 0.00
55 6 0.02
56 26 0.09
57 35 0.12
58 55 0.19
59 12 0.04
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.46
Consensus pattern (48 bp):
GATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGATAGTAAT
Found at i:14616867 original size:58 final size:57
Alignment explanation
Indices: 14616785--14617448 Score: 761
Period size: 58 Copynumber: 12.1 Consensus size: 57
14616775 AATGATTTGA
14616785 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTT-ATGATTTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTTAATGA-TTGATATTAATGA-T
14616844 TAGTAATGATTA-TAATAATGAAATTATTATTAATTTT-A--A-T-A-ATT--TGA-
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTGATATTAATGAT
* *
14616891 TAGTAATAATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATA-GAATGAT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAA-TTTTAATGA-TTGATATTAATGAT
*
14616949 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGATAGT-ATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGA-TTGATATTAATGA-T
14617007 TAGTAATGATTAGTAAT-ATGAAATTATTA-TAATTTT-A--A-TG--ATT--TGA-
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTGATATTAATGAT
*
14617053 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAA-TTTTAATGA-TTGATATTAATGA-T
*
14617113 TAGTAATGATTAGTAATAATGAAATTATGATTAATATTTAATGATTTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTTAATGA-TTGATATTAATGA-T
*
14617173 TAGTAATGATTAGTAATAATGAAATTATTATTAAATTT--T-ATTG--ATT--TGA-
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTGATATTAATGAT
* *
14617222 TAGTAATGATTAGTAATAATGAAA--ATTATTATTTTTAATGATTGATAGTAATGAT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTGATATTAATGAT
*
14617277 TAGTAATGATTAGTAATAATAAAATT-TTATTAATATTTAATGATTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTTAATGATTGATATTAATGA-T
14617335 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTT-A--A-TG--ATT--TGA-
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTGATATTAATGAT
*
14617383 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTTAATGA-TTGATATTAATGA-T
14617442 TAGTAAT
1 TAGTAAT
14617449 AATTTGATAG
Statistics
Matches: 533, Mismatches: 18, Indels: 108
0.81 0.03 0.16
Matches are distributed among these distances:
46 17 0.03
47 46 0.09
48 50 0.09
49 39 0.07
50 9 0.02
51 9 0.02
52 8 0.02
53 7 0.01
54 8 0.02
55 33 0.06
56 18 0.03
57 64 0.12
58 105 0.20
59 31 0.06
60 89 0.17
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (57 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTGATATTAATGAT
Found at i:14616889 original size:106 final size:108
Alignment explanation
Indices: 14616743--14617399 Score: 767
Period size: 106 Copynumber: 6.0 Consensus size: 108
14616733 AGATTTAGTA
* *
14616743 GATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGA-TAGTAATGATTAGTAATAATGA
1 GATTAGTAATAATGAAATTATTATTAATATTTAATAATTTGATTAGTAATGATTAGTAATAATGA
*
14616807 AATTATTATTAATATTT-ATGATTTGATATTAATGATTTAGTAAT
66 AATTATTATTAAT-TTTAATGATTTGATAGTAATGA-TTAGTAAT
*
14616851 GATTA-TAATAATGAAATTATTATTAAT-TTTAATAATTTGA-TAGTAATAATTAGTAATAATGA
1 GATTAGTAATAATGAAATTATTATTAATATTTAATAATTTGATTAGTAATGATTAGTAATAATGA
14616913 AATTATTATTAATTTTTAATGATTTGATAG-AATGATTAGTAAT
66 AATTATTATTAA-TTTTAATGATTTGATAGTAATGATTAGTAAT
14616956 GATTAGTAATAATGAAATTATTATTAAT-TTTAATGATTTGATAGTATGATTTAGTAATGATTAG
1 GATTAGTAATAATGAAATTATTATTAATATTTAAT-A----AT--T-TGA-TTAGTAATGATTAG
14617020 TAAT-ATGAAATTATTA-TAATTTTAATGATTTGATAGTAATGATTAGTAAT
57 TAATAATGAAATTATTATTAATTTTAATGATTTGATAGTAATGATTAGTAAT
* * * * * * * *
14617070 -AAT-GAAATTAT--TATTAATTTTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATA
1 GATTAGTAATAATGAAATT-ATTATTAAT-ATTTAATAAT-TTGA-TTAGTAATGATTAGTAATA
* *
14617131 ATGAAATTATGATTAATATTTAATGATTTGATATTAATGATTTAGTAAT
62 ATGAAATTATTATTAAT-TTTAATGATTTGATAGTAATGA-TTAGTAAT
* *
14617180 GATTAGTAATAATGAAATTATTATTAA-ATTTTATTGATTTGA-TAGTAATGATTAGTAATAATG
1 GATTAGTAATAATGAAATTATTATTAATA-TTTAATAATTTGATTAGTAATGATTAGTAATAATG
*
14617243 AAA--ATTATTATTTTTAATGA-TTGATAGTAATGATTAGTAAT
65 AAATTATTATTAATTTTAATGATTTGATAGTAATGATTAGTAAT
*
14617284 GATTAGTAATAATAAAATT-TTATTAATATTTAATGATTGATATTAATGATTTAGTAATGATTAG
1 GATTAGTAATAATGAAATTATTATTAATATTT-A--A-T-A-ATT--TGA-TTAGTAATGATTAG
14617348 TAATAATGAAATTATTATTAATTTTAATGATTTGATAGTAATGATTAGTAAT
57 TAATAATGAAATTATTATTAATTTTAATGATTTGATAGTAATGATTAGTAAT
14617400 AATAATTTAT
Statistics
Matches: 476, Mismatches: 33, Indels: 72
0.82 0.06 0.12
Matches are distributed among these distances:
103 10 0.02
104 28 0.06
105 25 0.05
106 111 0.23
107 53 0.11
108 10 0.02
109 48 0.10
110 11 0.02
111 19 0.04
112 18 0.04
113 56 0.12
114 22 0.05
115 28 0.06
116 37 0.08
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.46
Consensus pattern (108 bp):
GATTAGTAATAATGAAATTATTATTAATATTTAATAATTTGATTAGTAATGATTAGTAATAATGA
AATTATTATTAATTTTAATGATTTGATAGTAATGATTAGTAAT
Found at i:14617118 original size:164 final size:167
Alignment explanation
Indices: 14616785--14617448 Score: 1122
Period size: 164 Copynumber: 4.0 Consensus size: 167
14616775 AATGATTTGA
14616785 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTT-ATGATTTGATATTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
* *
14616849 ATGATTA-TAATAATGAAATTATTATTAATTTTAATAATTTGATAGTAATAATTAGTAATAATGA
66 ATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGATAGTAATGATTAGTAATAATGA
14616913 AATTATTATTAATTTTTAATGATTTGATAG-AATGAT
131 AATTATTATTAATTTTTAATGATTTGATAGTAATGAT
*
14616949 TAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTTAATGATTTGATAGT-ATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
14617012 ATGATTAGTAAT-ATGAAATTATTA-TAATTTTAATGATTTGATAGTAATGATTAGTAATAATGA
66 ATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGATAGTAATGATTAGTAATAATGA
14617075 AATTATTATTAATTTTTAATGATTTGATAGTAATGATT
131 AATTATTATTAATTTTTAATGATTTGATAGTAATGA-T
*
14617113 TAGTAATGATTAGTAATAATGAAATTATGATTAATATTTAATGATTTGATATTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
*
14617178 ATGATTAGTAATAATGAAATTATTATTAAATTTTATTGATTTGATAGTAATGATTAGTAATAATG
66 ATGATTAGTAATAATGAAATTATTATT-AATTTTAATGATTTGATAGTAATGATTAGTAATAATG
14617243 AAA--ATTATT-ATTTTTAATGA-TTGATAGTAATGAT
130 AAATTATTATTAATTTTTAATGATTTGATAGTAATGAT
*
14617277 TAGTAATGATTAGTAATAATAAAATT-TTATTAATATTTAATGA-TTGATATTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
14617340 ATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGATAGTAATGATTAGTAATAAT-A
66 ATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGATAGTAATGATTAGTAATAATGA
* * *
14617404 ATTTATTATTAATATTTAATGATTTGATATTAATGATT
131 AATTATTATTAATTTTTAATGATTTGATAGTAATGA-T
14617442 TAGTAAT
1 TAGTAAT
14617449 AATTTGATAG
Statistics
Matches: 474, Mismatches: 12, Indels: 27
0.92 0.02 0.05
Matches are distributed among these distances:
160 2 0.00
161 35 0.07
162 120 0.25
163 64 0.14
164 124 0.26
165 37 0.08
166 34 0.07
167 18 0.04
168 1 0.00
169 39 0.08
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (167 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
ATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGATAGTAATGATTAGTAATAATGA
AATTATTATTAATTTTTAATGATTTGATAGTAATGAT
Found at i:14617123 original size:60 final size:60
Alignment explanation
Indices: 14617053--14617448 Score: 478
Period size: 60 Copynumber: 7.1 Consensus size: 60
14617043 AATGATTTGA
*
14617053 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
* *
14617113 TAGTAATGATTAGTAATAATGAAATTATGATTAATATTTAATGATTTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
14617173 TAGTAATGATTAGTAATAATGAAATTATTATTAA-ATTT--T-A-TTGAT--T--TGA--
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
* **
14617222 TAGTAATGATTAGTAATAATGAAAATTATTATT--T-TTAATG-A-TTGATAGTAATGA-T
1 TAGTAATGATTAGTAATAATG-AAATTATTATTAATATTTAATGATTTGATAGTAATGATT
* *
14617277 TAGTAATGATTAGTAATAATAAAATT-TTATTAATATTTAATGA-TTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
14617335 TAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTTAATGATTTGATAGTAATGA-T
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
*
14617393 TAG---T-A--A-TAATAAT----TTATTATTAATATTTAATGATTTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
14617442 TAGTAAT
1 TAGTAAT
14617449 AATTTGATAG
Statistics
Matches: 301, Mismatches: 14, Indels: 50
0.82 0.04 0.14
Matches are distributed among these distances:
47 11 0.04
48 23 0.08
49 25 0.08
50 17 0.06
51 10 0.03
52 3 0.01
53 6 0.02
54 9 0.03
55 27 0.09
56 4 0.01
57 14 0.05
58 38 0.13
59 24 0.08
60 90 0.30
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.46
Consensus pattern (60 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
Found at i:14617190 original size:120 final size:116
Alignment explanation
Indices: 14617053--14617448 Score: 507
Period size: 106 Copynumber: 3.6 Consensus size: 116
14617043 AATGATTTGA
* *
14617053 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTA
1 TAGTAATGATTAGTAATAAT-AAATTATTATTAATATTTAATGA-TTGATATTAATGATTTAGTA
*
14617118 ATGATTAGTAATAATGAAATTATGATTAATATTTAATGATTTGATATTAATGATT
64 ATGATTAGTAATAATGAAATTATTATTAAT-TTTAATGA-TTGATATTAATGATT
14617173 TAGTAATGATTAGTAATAATGAAATTATTATTAA-ATTT--T-ATTG--ATT--TGA--TAGTAA
1 TAGTAATGATTAGTAATAAT-AAATTATTATTAATATTTAATGATTGATATTAATGATTTAGTAA
* *
14617228 TGATTAGTAATAATGAAA--ATTATTATTTTTAATGATTGATAGTAATGA-T
65 TGATTAGTAATAATGAAATTATTATTAATTTTAATGATTGATATTAATGATT
14617277 TAGTAATGATTAGTAATAATAAAATT-TTATTAATATTTAATGATTGATATTAATGATTTAGTAA
1 TAGTAATGATTAGTAATAAT-AAATTATTATTAATATTTAATGATTGATATTAATGATTTAGTAA
14617341 TGATTAGTAATAATGAAATTATTATTAATTTT-A--A-TG--ATT--TGA--
65 TGATTAGTAATAATGAAATTATTATTAATTTTAATGATTGATATTAATGATT
*
14617383 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAA
1 TAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATGA-TTGATATTAATGATTTAGTAA
14617448 T
65 T
14617449 AATTTGATAG
Statistics
Matches: 253, Mismatches: 9, Indels: 41
0.83 0.03 0.14
Matches are distributed among these distances:
103 7 0.03
104 30 0.12
105 16 0.06
106 46 0.18
107 36 0.14
109 29 0.11
111 8 0.03
112 1 0.00
113 26 0.10
114 1 0.00
115 14 0.06
116 1 0.00
117 1 0.00
119 3 0.01
120 34 0.13
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.46
Consensus pattern (116 bp):
TAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTGATATTAATGATTTAGTAAT
GATTAGTAATAATGAAATTATTATTAATTTTAATGATTGATATTAATGATT
Found at i:14617271 original size:45 final size:47
Alignment explanation
Indices: 14617164--14617283 Score: 176
Period size: 49 Copynumber: 2.6 Consensus size: 47
14617154 TGATTTGATA
14617164 TTAATGATT--TAGTAATGATTAGTAATAATGAAATTATTATTAAATT
1 TTAATGATTGATAGTAATGATTAGTAATAATGAAA-TATTATTAAATT
* *
14617210 TTATTGATTTGATAGTAATGATTAGTAATAATGAAA-ATTATT-ATTT
1 TTAATGA-TTGATAGTAATGATTAGTAATAATGAAATATTATTAAATT
14617256 TTAATGATTGATAGTAATGATTAGTAAT
1 TTAATGATTGATAGTAATGATTAGTAAT
14617284 GATTAGTAAT
Statistics
Matches: 68, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
45 21 0.31
46 15 0.22
47 8 0.12
49 24 0.35
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (47 bp):
TTAATGATTGATAGTAATGATTAGTAATAATGAAATATTATTAAATT
Found at i:14617282 original size:10 final size:10
Alignment explanation
Indices: 14617267--14617293 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
14617257 TAATGATTGA
14617267 TAGTAATGAT
1 TAGTAATGAT
14617277 TAGTAATGAT
1 TAGTAATGAT
14617287 TAGTAAT
1 TAGTAAT
14617294 AATAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:14617423 original size:21 final size:22
Alignment explanation
Indices: 14617399--14617468 Score: 72
Period size: 25 Copynumber: 3.1 Consensus size: 22
14617389 TGATTAGTAA
14617399 TAATAATTT-ATTATTAAT-ATT
1 TAATAATTTGA-TATTAATGATT
*
14617420 TAATGATTTGATATTAATGATTT
1 TAATAATTTGATATTAATGA-TT
*
14617443 AGTAATAATTTGATAGTAATGATT
1 --TAATAATTTGATATTAATGATT
14617467 TA
1 TA
14617469 CGACTTGAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
21 15 0.37
22 4 0.10
23 2 0.05
24 2 0.05
25 18 0.44
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (22 bp):
TAATAATTTGATATTAATGATT
Found at i:14617436 original size:14 final size:14
Alignment explanation
Indices: 14617420--14617467 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
14617410 TATTAATATT
*
14617420 TAATGATTTGATAT
1 TAATGATTTGATAG
14617434 TAATGA-TT--TAG
1 TAATGATTTGATAG
*
14617445 TAATAATTTGATAG
1 TAATGATTTGATAG
14617459 TAATGATTT
1 TAATGATTT
14617468 ACGACTTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
11 7 0.25
12 2 0.07
13 2 0.07
14 17 0.61
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:14619821 original size:22 final size:22
Alignment explanation
Indices: 14619796--14619844 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
14619786 ACAACTAATA
*
14619796 AACTATTCTTTAATATAACTTT
1 AACTATTCTTTAATATAACGTT
14619818 AACTATTCTTTAATATAACGTT
1 AACTATTCTTTAATATAACGTT
14619840 AACTA
1 AACTA
14619845 ATAAACTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (22 bp):
AACTATTCTTTAATATAACGTT
Found at i:14619822 original size:30 final size:30
Alignment explanation
Indices: 14619788--14619913 Score: 103
Period size: 30 Copynumber: 4.4 Consensus size: 30
14619778 TCCCTTAAAC
14619788 AACTAATAAACTATTCTTTAATATAAC--T
1 AACTAATAAACTATTCTTTAATATAACTTT
*
14619816 ---T--T-AACTATTCTTTAATATAACGTT
1 AACTAATAAACTATTCTTTAATATAACTTT
* *
14619840 AACTAATAAACTATTCTTTAATATAAATTA
1 AACTAATAAACTATTCTTTAATATAACTTT
14619870 AACTAATAAA-TAATT-TTTAATTATAA-TTT
1 AACTAATAAACT-ATTCTTTAA-TATAACTTT
*
14619899 ACTACTAAAAAACTA
1 A--ACTAATAAACTA
14619914 ATTAACTAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
22 19 0.24
23 1 0.01
24 1 0.01
25 1 0.01
27 1 0.01
29 10 0.12
30 37 0.46
31 9 0.11
32 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.41
Consensus pattern (30 bp):
AACTAATAAACTATTCTTTAATATAACTTT
Found at i:14620116 original size:21 final size:21
Alignment explanation
Indices: 14620092--14620131 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
14620082 TTTCTATATG
14620092 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
14620113 ATATAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
14620132 ACTAATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:14620212 original size:18 final size:18
Alignment explanation
Indices: 14620159--14620213 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
14620149 TTGTTTTACC
*
14620159 CTAATTTATAATAATAAA
1 CTAATTTATAACAATAAA
14620177 CTAA--T-TAAC--T-AA
1 CTAATTTATAACAATAAA
14620189 -TAATTTATAACAATAAA
1 CTAATTTATAACAATAAA
14620206 CTAATTTA
1 CTAATTTA
14620214 AATAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 3 0.10
12 2 0.07
13 2 0.07
14 4 0.14
15 3 0.10
16 2 0.07
17 2 0.07
18 11 0.38
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
CTAATTTATAACAATAAA
Found at i:14620272 original size:35 final size:36
Alignment explanation
Indices: 14620233--14620302 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
14620223 TCTTTTATAT
14620233 AACTTAAACT-AATAAACT-ATTTTTTATTATAATAA
1 AACTTAAACTAAATAAACTAATTTTTTA-TATAATAA
14620268 AACTTAAACTAAATAAACTAATTTTTTATATAATA
1 AACTTAAACTAAATAAACTAATTTTTTATATAATA
14620303 TAAATTCAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 10 0.30
36 15 0.45
37 8 0.24
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (36 bp):
AACTTAAACTAAATAAACTAATTTTTTATATAATAA
Found at i:14620362 original size:27 final size:29
Alignment explanation
Indices: 14620327--14620391 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
14620317 AAAATATAAC
*
14620327 TTAACTATTTA-ACTAACT-ACAAACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
14620354 TTAAATA-TTAGACTAACTAACACACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
14620382 TTAATTATTT
1 TTAAATATTT
14620392 TTTTAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 14 0.44
29 2 0.06
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (29 bp):
TTAAATATTTAGACTAACTAACAAACTAA
Found at i:14620505 original size:9 final size:9
Alignment explanation
Indices: 14620473--14620510 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
14620463 CTAACAAACT
14620473 AATAATTTAA
1 AATAA-TTAA
14620483 AATAA-TAA
1 AATAATTAA
*
14620491 ACTAATTAA
1 AATAATTAA
14620500 AATAATTAA
1 AATAATTAA
14620509 AA
1 AA
14620511 AAAAACTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 7 0.28
9 13 0.52
10 5 0.20
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
AATAATTAA
Found at i:14620970 original size:94 final size:94
Alignment explanation
Indices: 14620807--14620985 Score: 340
Period size: 94 Copynumber: 1.9 Consensus size: 94
14620797 AAAGCTGTTG
* *
14620807 GCGACCTATCCCATGCCTCGTGCATGGCCCGTGCATAGCACCAAAGCAGCATCAGCGGGCAACAG
1 GCGACCTATCCCATGCCTCGTGCATGGCCCATGCATAGCACCAAAGCAGCATCAGCGGGCAACAA
14620872 CGGGCAAAGAACCAAAGCAGAGTAGCAGC
66 CGGGCAAAGAACCAAAGCAGAGTAGCAGC
14620901 GCGACCTATCCCATGCCTCGTGCATGGCCCATGCATAGCACCAAAGCAGCATCAGCGGGCAACAA
1 GCGACCTATCCCATGCCTCGTGCATGGCCCATGCATAGCACCAAAGCAGCATCAGCGGGCAACAA
14620966 CGGGCAAAGAACCAAAGCAG
66 CGGGCAAAGAACCAAAGCAG
14620986 CAGAGAAGCA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 83 1.00
ACGTcount: A:0.31, C:0.32, G:0.26, T:0.11
Consensus pattern (94 bp):
GCGACCTATCCCATGCCTCGTGCATGGCCCATGCATAGCACCAAAGCAGCATCAGCGGGCAACAA
CGGGCAAAGAACCAAAGCAGAGTAGCAGC
Found at i:14621054 original size:29 final size:29
Alignment explanation
Indices: 14621012--14621096 Score: 161
Period size: 29 Copynumber: 2.9 Consensus size: 29
14621002 AAAGAATGTT
*
14621012 GGACGCCGGGCGTGCATGTCGACCTATAA
1 GGACGCCGGGCGTGCATGGCGACCTATAA
14621041 GGACGCCGGGCGTGCATGGCGACCTATAA
1 GGACGCCGGGCGTGCATGGCGACCTATAA
14621070 GGACGCCGGGCGTGCATGGCGACCTAT
1 GGACGCCGGGCGTGCATGGCGACCTAT
14621097 GCTGTCACTG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.19, C:0.28, G:0.38, T:0.15
Consensus pattern (29 bp):
GGACGCCGGGCGTGCATGGCGACCTATAA
Found at i:14621501 original size:13 final size:13
Alignment explanation
Indices: 14621483--14621510 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14621473 GAGGGAGGTT
14621483 GATGAGAAGGAAG
1 GATGAGAAGGAAG
14621496 GATGAGAAGGAAG
1 GATGAGAAGGAAG
14621509 GA
1 GA
14621511 AAGGAACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.46, T:0.07
Consensus pattern (13 bp):
GATGAGAAGGAAG
Found at i:14630815 original size:21 final size:21
Alignment explanation
Indices: 14630791--14630839 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
14630781 TAAGGACGAA
14630791 AAGACCATTCATAAAGACATG
1 AAGACCATTCATAAAGACATG
* * *
14630812 AAGACCCTTCATAAATATATG
1 AAGACCATTCATAAAGACATG
14630833 AAGACCA
1 AAGACCA
14630840 CTTTGTATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.20
Consensus pattern (21 bp):
AAGACCATTCATAAAGACATG
Found at i:14635284 original size:23 final size:22
Alignment explanation
Indices: 14635235--14635313 Score: 63
Period size: 23 Copynumber: 3.5 Consensus size: 22
14635225 TTGACATCAT
* * *
14635235 AAAGAGAAAGAAGAGAAATGCAG
1 AAAGAGAAA-AAGAAAAATGAAA
14635258 AAAGAGAAAAAGAAAAGATGAAA
1 AAAGAGAAAAAGAAAA-ATGAAA
*
14635281 AAAGA-AAAAATTGAAAATTG-AA
1 AAAGAGAAAAA--GAAAAATGAAA
*
14635303 AATGAGAAAAA
1 AAAGAGAAAAA
14635314 TGTAAAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
22 17 0.36
23 25 0.53
24 5 0.11
ACGTcount: A:0.68, C:0.01, G:0.22, T:0.09
Consensus pattern (22 bp):
AAAGAGAAAAAGAAAAATGAAA
Found at i:14637613 original size:34 final size:36
Alignment explanation
Indices: 14637455--14637633 Score: 209
Period size: 36 Copynumber: 5.0 Consensus size: 36
14637445 TGGAGCAAAG
*
14637455 TCAATCTTAAGCCTTCACCGAAGAGGAGTGAAGCAGA
1 TCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGCA-A
* * *
14637492 TCAATCTGAAGCCTTCACCGGAGAATAGTGAAGCAA
1 TCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAA
* * * *
14637528 ACAATCTTCAGCCTTCACCAAAGAGGAGTGAAGCAA
1 TCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAA
* * **
14637564 TCCATTTTAAGCCTTCACTAAAGAGTAGTGAAGC-A
1 TCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAA
* *
14637599 -CCATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAA
1 TCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAA
14637634 ATCCATCCAT
Statistics
Matches: 122, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
34 31 0.25
35 2 0.02
36 58 0.48
37 31 0.25
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (36 bp):
TCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAA
Found at i:14637652 original size:39 final size:34
Alignment explanation
Indices: 14637539--14637632 Score: 98
Period size: 34 Copynumber: 2.7 Consensus size: 34
14637529 CAATCTTCAG
* * * * *
14637539 CCTTCACCAAAGAGGAGTGAAGCAATCCATTTTAAG
1 CCTTCACTAAAGAGTAGTGAAGC-A-CCATCTAAAA
* *
14637575 CCTTCACTAAAGAGTAGTGAAGCACCATCTTAAG
1 CCTTCACTAAAGAGTAGTGAAGCACCATCTAAAA
*
14637609 CCTTCACTGAAGAGTAGTGAAGCA
1 CCTTCACTAAAGAGTAGTGAAGCA
14637633 AATCCATCCA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
34 32 0.59
35 1 0.02
36 21 0.39
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (34 bp):
CCTTCACTAAAGAGTAGTGAAGCACCATCTAAAA
Found at i:14637830 original size:42 final size:41
Alignment explanation
Indices: 14637753--14637854 Score: 114
Period size: 42 Copynumber: 2.5 Consensus size: 41
14637743 TACACAATTT
* * * * *
14637753 ATAAGTCCTTCGGGCCATCAGTGAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* * *
14637794 CTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
*
14637836 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
14637855 CATAAGACCT
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 16 0.33
42 33 0.67
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
Found at i:14638008 original size:215 final size:214
Alignment explanation
Indices: 14637636--14638610 Score: 1471
Period size: 214 Copynumber: 4.6 Consensus size: 214
14637626 TGAAGCAAAT
* * *
14637636 CCATCCATAAAACCTTCGGGTATGATGTTTTCAAATGAATTTGAAAATGAAAAAT-AGTATTTTA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGA-TGTTTTA
* * * *
14637700 AGAAGATGGAACTTTTGAAAATGAAGAATGCGATTTTCAAAATTACACAATTTATAAGTCCTTCG
65 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
*
14637765 GGCCATCAGTGAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
130 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
14637830 AAGATGATAAGTCCTTCGGG
195 AAGATGATAAGTCCTTCGGG
14637850 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATG-AAAAATGATGTTTTA
* *
14637915 AGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTTG
65 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
* * * *
14637980 GGCCATCAGTAAGTCATTCGAACATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTGGAGC
130 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
14638045 AAGATGATAAGTCCTTCGGG
195 AAGATGATAAGTCCTTCGGG
** * *
14638065 CCATCCATAAGACCTTTAGGTAGGATGTTTTCACAA-GAATTTGAAAATAAAAAATAATGTTTTA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCA-AATGAATTTGAAAATGAAAAATGATGTTTTA
* * *
14638129 AGAAGATGAAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACGATTTGTAAGTCCTTCG
65 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
* *
14638194 GGCCATCAGTAAGTCTTTCGAGCATGGTGCTTAAATCCTTCGGGTCATCCGTAAGCCTTTAGAG-
130 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
14638258 AAGGATGATAAGTCCTTCGGG
195 AA-GATGATAAGTCCTTCGGG
* **
14638279 CCATCCATAAGACCTTCGGGTAGGATGTCTTCAAATGAATTCAAAAATG-AAAA--A-----T--
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
* *
14638334 ---GATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATGTATAAGTCCTTCGG
66 GAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
14638396 GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCA
131 GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCA
*
14638461 TGATGATAAGTCCTTCGGG
196 AGATGATAAGTCCTTCGGG
* * *
14638480 CCATCCGTAAGACCTTCGGGTAGGATGTTTT-AAATGAATTTGAAAATGGAAAATGAAGTTTTAA
1 CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
* * *
14638544 GAAGATGAAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTTTAAAATCCTTCG
66 GAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTAT-AAGTCCTTCG
14638609 GG
130 GG
14638611 TAATTTTTAA
Statistics
Matches: 693, Mismatches: 48, Indels: 40
0.89 0.06 0.05
Matches are distributed among these distances:
200 15 0.02
201 169 0.24
202 1 0.00
203 1 0.00
206 1 0.00
208 1 0.00
211 1 0.00
213 57 0.08
214 248 0.36
215 196 0.28
216 3 0.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (214 bp):
CCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAATGATGTTTTAA
GAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCA
AGATGATAAGTCCTTCGGG
Found at i:14638062 original size:41 final size:42
Alignment explanation
Indices: 14637968--14638069 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 42
14637958 TTCACAATTT
* *
14637968 ATAAGTCCTTTGGGCCATCAGTAAGTCATTCGAACATGATGC
1 ATAAGTCCTTCGGGCCATCAGTAAGTCATTCGAACAAGATGC
* * * * * * *
14638010 TTAAATCCTTCGGGTCATCTGTAAGTCTTTGGAGCAAGATG-
1 ATAAGTCCTTCGGGCCATCAGTAAGTCATTCGAACAAGATGC
14638051 ATAAGTCCTTCGGGCCATC
1 ATAAGTCCTTCGGGCCATC
14638070 CATAAGACCT
Statistics
Matches: 48, Mismatches: 12, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
41 16 0.33
42 32 0.67
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (42 bp):
ATAAGTCCTTCGGGCCATCAGTAAGTCATTCGAACAAGATGC
Found at i:14638284 original size:41 final size:42
Alignment explanation
Indices: 14638183--14638294 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
14638173 TCACGATTTG
* * * * *
14638183 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGGTGCT
1 TAAGTCCTTCGGGCCATCCGTAAGCCTTTAGAGCAAGGTGCA
* *
14638225 TAAATCCTTCGGGTCATCCGTAAGCCTTTAGAG-AAGGATG-A
1 TAAGTCCTTCGGGCCATCCGTAAGCCTTTAGAGCAAGG-TGCA
*
14638266 TAAGTCCTTCGGGCCATCCATAAGACCTT
1 TAAGTCCTTCGGGCCATCCGTAAG-CCTT
14638295 CGGGTAGGAT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
41 24 0.41
42 34 0.59
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (42 bp):
TAAGTCCTTCGGGCCATCCGTAAGCCTTTAGAGCAAGGTGCA
Found at i:14638409 original size:20 final size:19
Alignment explanation
Indices: 14638384--14638499 Score: 54
Period size: 20 Copynumber: 5.7 Consensus size: 19
14638374 TCACAATGTA
14638384 TAAGTCCTTCGGGCCATCAG
1 TAAGTCCTTCGGG-CATCAG
* * *
14638404 TAAGTCTTTCGAGCATGATG
1 TAAGTCCTTCGGGCATCA-G
* *
14638424 CTTAAATCCTTCGGGTCATCTG
1 --TAAGTCCTTCGGG-CATCAG
* * *
14638446 TAAG-CCTTTAGAGCATGATG
1 TAAGTCC-TTCGGGCATCA-G
*
14638466 ATAAGTCCTTCGGGCCATCCG
1 -TAAGTCCTTCGGG-CATCAG
*
14638487 TAAGACCTTCGGG
1 TAAGTCCTTCGGG
14638500 TAGGATGTTT
Statistics
Matches: 69, Mismatches: 18, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
19 9 0.13
20 32 0.46
21 9 0.13
22 16 0.23
23 3 0.04
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (19 bp):
TAAGTCCTTCGGGCATCAG
Found at i:14638490 original size:41 final size:42
Alignment explanation
Indices: 14638383--14638495 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 42
14638373 TTCACAATGT
* *
14638383 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGC
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCATGATGC
* * * *
14638425 TTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCATGATG-
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCATGATGC
*
14638466 ATAAGTCCTTCGGGCCATCCGTAAGACCTT
1 ATAAGTCCTTCGGGCCATCAGTAAG-CCTT
14638496 CGGGTAGGAT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 21 0.35
42 39 0.65
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (42 bp):
ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCATGATGC
Found at i:14644595 original size:6 final size:6
Alignment explanation
Indices: 14644584--14644612 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
14644574 ATCATCTTAT
14644584 AAATTA AAATTA AAATTA AAATTA AAATT
1 AAATTA AAATTA AAATTA AAATTA AAATT
14644613 GATAATTTTA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AAATTA
Found at i:14648067 original size:23 final size:23
Alignment explanation
Indices: 14648037--14648080 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
14648027 ATACAATAGT
14648037 GAGGCAATCCAGGTGAGTGCAGC
1 GAGGCAATCCAGGTGAGTGCAGC
14648060 GAGGCAATCCAGGTGAGTGCA
1 GAGGCAATCCAGGTGAGTGCA
14648081 TTTAATTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.39, T:0.14
Consensus pattern (23 bp):
GAGGCAATCCAGGTGAGTGCAGC
Found at i:14648223 original size:54 final size:54
Alignment explanation
Indices: 14648156--14648656 Score: 732
Period size: 54 Copynumber: 9.3 Consensus size: 54
14648146 TTACAAAATA
*
14648156 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAATCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * * *
14648210 AGCACTAAATGTGCAATTCACGGAATTCATCATATATTGATGAATAATCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
14648264 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* *
14648318 GGCACTAAGTGTGCAATTAACAGAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * *
14648372 GGCACTAAGTGAGTAATTCACAGAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * *
14648426 GGCACTAAGTGAGTAATTCACGGAATTCATCATATGTTGATGAATAATCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* *
14648480 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGTTGAATAACCGCTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* **
14648534 GGCACTAAGTGTGCAATTCACGAAATTCATCATATGTTGATGAATAATTGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* ** ** * * * * * *
14648588 GGCAGTAAGTGTGCAACCCACAAAATTCATAATATGTTTATGAATGACAGTATG
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
*
14648642 GGCACTACGTGTGCA
1 GGCACTAAGTGTGCA
14648657 TTGCAAAGAA
Statistics
Matches: 410, Mismatches: 37, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 410 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (54 bp):
GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
Found at i:14653765 original size:3 final size:3
Alignment explanation
Indices: 14653752--14653846 Score: 52
Period size: 3 Copynumber: 32.3 Consensus size: 3
14653742 AAACATAAAC
* * * ** ** *
14653752 AAT ATT AAT AAT AAT ACT AAT AAT AAT TAT AAT TTT AAT TGT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
14653800 AAT AAC AAT AAT AGT TAT AAT -AT AAT -AT AAAT AAT TAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
14653843 AAT A
1 AAT A
14653847 TTTATAATCC
Statistics
Matches: 66, Mismatches: 22, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
2 6 0.09
3 58 0.88
4 2 0.03
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:14653825 original size:5 final size:5
Alignment explanation
Indices: 14653815--14653847 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
14653805 CAATAATAGT
14653815 TATAA TATAA TATAA -ATAA TTATAA TATAA TAT
1 TATAA TATAA TATAA TATAA -TATAA TATAA TAT
14653848 TTATAATCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.69
6 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:14653854 original size:20 final size:20
Alignment explanation
Indices: 14653809--14653847 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14653799 TAATAACAAT
*
14653809 AATAGTTATAATATAATATA
1 AATAATTATAATATAATATA
14653829 AATAATTATAATATAATAT
1 AATAATTATAATATAATAT
14653848 TTATAATCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
AATAATTATAATATAATATA
Found at i:14662787 original size:19 final size:21
Alignment explanation
Indices: 14662761--14662826 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 21
14662751 AAATGGAGTT
14662761 GATACCGTA-ATAG-AGTATC
1 GATACCGTAGATAGTAGTATC
*
14662780 GGTACCGTAGTATAGTAGTATC
1 GATACCGTAG-ATAGTAGTATC
* **
14662802 GATACCAT-GATAGGGGTATC
1 GATACCGTAGATAGTAGTATC
14662822 GATAC
1 GATAC
14662827 TATGGAGCCA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 8 0.21
20 14 0.36
21 5 0.13
22 12 0.31
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (21 bp):
GATACCGTAGATAGTAGTATC
Found at i:14663227 original size:54 final size:54
Alignment explanation
Indices: 14663150--14663680 Score: 720
Period size: 54 Copynumber: 9.8 Consensus size: 54
14663140 TTACCAAATA
* *
14663150 GGCACTAAGTGTGCAATTGACGGAAATCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * *
14663204 AGCACTAAATGTGTAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * * * *
14663258 AGAACTAAGTGAGCAATTTACGAAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * * *
14663312 GACACTAAGTGTACAATCCACGGAATTCATCATATGTTGATGAATAACCGTTTT
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * * *
14663366 GGCACTAAATATGCAATTCACGAAATTCTTCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * **
14663420 GACACTAAATGTGCAATTCACGGAATTCATCATATGTTGATGAATAATTGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* *
14663474 GGCACTAAGTGTGCAATTCACAGAATTCATCATATGTTGATGAATAAACGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * *
14663528 GGCACTAAGTGTGCAATTCACGGAATTCATCATATATTGATGAATAATCATTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * *
14663582 GGCACTAAGTGTGCAATTCATGGAATTCATCATATGTTGATAAATAACCATTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
** * ** * * *
14663636 AACACTATGTGTGCAACCCACGAAATTCATAATATGTTTATGAAT
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAAT
14663681 GATAGTATGG
Statistics
Matches: 420, Mismatches: 57, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 420 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (54 bp):
GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
Found at i:14663258 original size:26 final size:26
Alignment explanation
Indices: 14663176--14663258 Score: 64
Period size: 26 Copynumber: 3.1 Consensus size: 26
14663166 TTGACGGAAA
14663176 TCATCATATGTTGATGAATAACCGTT
1 TCATCATATGTTGATGAATAACCGTT
* * * *
14663202 TCAGCACTAAATG-TG-T-AATTCACGGAAT
1 TCATCA-T--ATGTTGATGAA-TAACCG-TT
14663230 TCATCATATGTTGATGAATAACCGTT
1 TCATCATATGTTGATGAATAACCGTT
14663256 TCA
1 TCA
14663259 GAACTAAGTG
Statistics
Matches: 41, Mismatches: 8, Indels: 16
0.63 0.12 0.25
Matches are distributed among these distances:
25 3 0.07
26 13 0.32
27 12 0.29
28 10 0.24
29 3 0.07
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (26 bp):
TCATCATATGTTGATGAATAACCGTT
Found at i:14667113 original size:16 final size:16
Alignment explanation
Indices: 14667088--14667127 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
14667078 GATTGAGGAA
*
14667088 ACATATATCAACACAT
1 ACATACATCAACACAT
14667104 ACATACATCAACACAT
1 ACATACATCAACACAT
14667120 ACATACAT
1 ACATACAT
14667128 GATACATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.23
Consensus pattern (16 bp):
ACATACATCAACACAT
Found at i:14667708 original size:31 final size:30
Alignment explanation
Indices: 14667627--14667710 Score: 78
Period size: 31 Copynumber: 2.7 Consensus size: 30
14667617 TTCATCTCGC
* ** *
14667627 TTGAGATAGTTTTCCCTCAAAACATCAAATT
1 TTGAGATTG-TTTCCCTTGAAACATAAAATT
* * * *
14667658 TGGAAATTATTTCACTTGAAACATAAAATCT
1 TTGAGATTGTTTCCCTTGAAACATAAAAT-T
14667689 TTGAGATTGTTTCCCTTGAAAC
1 TTGAGATTGTTTCCCTTGAAAC
14667711 GAGTTTTGTC
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
30 16 0.40
31 24 0.60
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.37
Consensus pattern (30 bp):
TTGAGATTGTTTCCCTTGAAACATAAAATT
Found at i:14667752 original size:67 final size:67
Alignment explanation
Indices: 14667666--14667878 Score: 270
Period size: 67 Copynumber: 3.2 Consensus size: 67
14667656 TTTGGAAATT
* * **
14667666 ATTTCACTTGAAACATAAAATCTTTGAGATTGTTTCCCTTGAAACGAGTTTTGTCTCCCTTGAGA
1 ATTTCTCTCGAAACATAAAATCTTTGAGATCATTTCCCTTGAAACGAGTTTTGTCTCCCTTGAGA
14667731 CA
66 CA
*
14667733 ATTTCTCTCGAAACATAAAATCTTTGAGATCATTTCCCTTGAAATGAGTTTTGTCTCCCTTGAGA
1 ATTTCTCTCGAAACATAAAATCTTTGAGATCATTTCCCTTGAAACGAGTTTTGTCTCCCTTGAGA
14667798 CA
66 CA
* * * * * * * *
14667800 GTTTTTCTCTAAACAT--CATATTTGAGATCATTT-CCTTGAAACAAATTTTGTCTCTCTTGAGA
1 ATTTCTCTCGAAACATAAAATCTTTGAGATCATTTCCCTTGAAACGAGTTTTGTCTCCCTTGAGA
14667862 CA
66 CA
* *
14667864 GTTTCTCTTGAAACA
1 ATTTCTCTCGAAACA
14667879 AATTCCTAAA
Statistics
Matches: 129, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
64 39 0.30
65 15 0.12
67 75 0.58
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (67 bp):
ATTTCTCTCGAAACATAAAATCTTTGAGATCATTTCCCTTGAAACGAGTTTTGTCTCCCTTGAGA
CA
Found at i:14668263 original size:134 final size:133
Alignment explanation
Indices: 14667883--14668274 Score: 409
Period size: 134 Copynumber: 3.0 Consensus size: 133
14667873 GAAACAAATT
* * * * * *
14667883 CCTAAAGATGGCCAACCGTCCTCATCGCTTAGGAATTGTGCCATCCATCAACCAGATCTCCTCAT
1 CCTAAAGATGGCCTACCATCCTCATCACATAGGAATTGTGTCATCCACCAACCAGATCTCCTCAT
* * * *
14667948 CGCGTAGGAGCCGTGTCACCCTTAGATAACCAGTCGA-CCTCATCATGTAGGAACTATG-T-T-A
66 CACGTAGGAGCCGTGTCACCCTTAGATAACCAG--AATCCTCATCACGTAGGAACTGTGTTATCA
14668009 TCATC
129 TCATC
* * * * * * *
14668014 CCTAAATAT-GACTAGTCATCCTCATCACATAAGAATTATGTCATCC-CCGACCAGATCTCCTTA
1 CCTAAAGATGGCCTA-CCATCCTCATCACATAGGAATTGTGTCATCCACCAACCAGATCTCCTCA
** ** * * *
14668077 TCACGTATAAGCCACGTCACCCCTAGATAACCAGCCATCCTCATCACGTAGGAATTGTGTTATCA
65 TCACGTAGGAGCCGTGTCACCCTTAGATAACCAG-AATCCTCATCACGTAGGAACTGTGTTATCA
14668142 TCATC
129 TCATC
* * * *
14668147 CCTAAAGATGGCCTACCAACCTCATCACGTAGGAACTGTGTCATCCACCAACCATATCTCCTCAT
1 CCTAAAGATGGCCTACCATCCTCATCACATAGGAATTGTGTCATCCACCAACCAGATCTCCTCAT
* * * *
14668212 CAAGTAGGAGCCGTGTTACCCTTAGATAGCCAGAATTCCTCATCACGTAGGAACCGTGTTATC
66 CACGTAGGAGCCGTGTCACCCTTAGATAACCAGAA-TCCTCATCACGTAGGAACTGTGTTATC
14668275 TCCAACTTTA
Statistics
Matches: 208, Mismatches: 45, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
129 2 0.01
130 63 0.30
131 33 0.16
132 1 0.00
133 40 0.19
134 69 0.33
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.26
Consensus pattern (133 bp):
CCTAAAGATGGCCTACCATCCTCATCACATAGGAATTGTGTCATCCACCAACCAGATCTCCTCAT
CACGTAGGAGCCGTGTCACCCTTAGATAACCAGAATCCTCATCACGTAGGAACTGTGTTATCATC
ATC
Done.