Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 40 of 189
Found at i:12052629 original size:21 final size:23
Alignment explanation
Indices: 12052600--12052654 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 23
12052590 ACATCTTTGA
* *
12052600 TATATATATTTATA-TACATTTT
1 TATATATATTTATATTAAAATTT
*
12052622 TA-ATATATATATATTAAAATTT
1 TATATATATTTATATTAAAATTT
12052644 TATATATATTT
1 TATATATATTT
12052655 GAAAAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 10 0.37
22 10 0.37
23 7 0.26
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
TATATATATTTATATTAAAATTT
Found at i:12052647 original size:19 final size:19
Alignment explanation
Indices: 12052625--12052665 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
12052615 ACATTTTTAA
*
12052625 TATATATATATT-AAAATTT
1 TATATATAT-TTGAAAAATT
12052644 TATATATATTTGAAAAATT
1 TATATATATTTGAAAAATT
12052663 TAT
1 TAT
12052666 CAATCATATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TATATATATTTGAAAAATT
Found at i:12052770 original size:23 final size:23
Alignment explanation
Indices: 12052744--12052811 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
12052734 AATAACTTAC
12052744 ATAACTTATATATAAACTTATA-T
1 ATAACTTATATATAAACTTA-AGT
* *
12052767 ATAACTTACATACATAACTTAAGT
1 ATAACTTATATATA-AACTTAAGT
* *
12052791 AAAATTTATATATAAACTTAA
1 ATAACTTATATATAAACTTAA
12052812 ACAACACAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
23 20 0.54
24 17 0.46
ACGTcount: A:0.50, C:0.10, G:0.01, T:0.38
Consensus pattern (23 bp):
ATAACTTATATATAAACTTAAGT
Found at i:12052844 original size:82 final size:83
Alignment explanation
Indices: 12052758--12052940 Score: 305
Period size: 82 Copynumber: 2.2 Consensus size: 83
12052748 CTTATATATA
* *
12052758 AACTTATATATAACTTACATACATAACTTAAGTAAAATTTATATATAAACTTAAACAACAC-AAC
1 AACTTATATATAACTTACATAAATAACTTAAATAAAATTTATATATAAACTTAAACAACACAAAC
12052822 TTACATAATAACTTACAT
66 TTACATAATAACTTACAT
*
12052840 AACTTATATATAACTTACATAAATAACTTAAATAAAATTTATATATAAACTTACACAACACATAA
1 AACTTATATATAACTTACATAAATAACTTAAATAAAATTTATATATAAACTTAAACAACACA-AA
12052905 CTTACATAATAACTTACAT
65 CTTACATAATAACTTACAT
* *
12052924 AACTTATACATGACTTA
1 AACTTATATATAACTTA
12052941 TATATAACTT
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
82 58 0.62
84 36 0.38
ACGTcount: A:0.50, C:0.16, G:0.01, T:0.33
Consensus pattern (83 bp):
AACTTATATATAACTTACATAAATAACTTAAATAAAATTTATATATAAACTTAAACAACACAAAC
TTACATAATAACTTACAT
Found at i:12052850 original size:49 final size:47
Alignment explanation
Indices: 12052699--12052928 Score: 179
Period size: 49 Copynumber: 5.0 Consensus size: 47
12052689 ATAAATAAAA
12052699 TTTATATATAAACTTACACAACACATAACTTACATAATAACTTACATAAC
1 TTTATATATAAACTTA-ACAACAC--AACTTACATAATAACTTACATAAC
* * * *
12052749 -TTATATATAAACTT-A-TATATAACTTACATACATAACTTA-AGTAAAA
1 TTTATATATAAACTTAACAACACAACTTACATA-ATAACTTACA-T-AAC
12052795 TTTATATATAAACTTAAACAACACAACTTACATAATAACTTACATAAC
1 TTTATATATAAACTT-AACAACACAACTTACATAATAACTTACATAAC
* * *
12052843 -TTATATAT-AACTT-AC-ATA-AA-TAAC-T--TAA-ATA-A-AA-
1 TTTATATATAAACTTAACAACACAACTTACATAATAACTTACATAAC
*
12052877 TTTATATATAAACTTACACAACACATAACTTACATAATAACTTACATAAC
1 TTTATATATAAACTT-AACAACAC--AACTTACATAATAACTTACATAAC
12052927 TT
1 TT
12052929 ATACATGACT
Statistics
Matches: 142, Mismatches: 14, Indels: 48
0.70 0.07 0.24
Matches are distributed among these distances:
35 10 0.07
36 6 0.04
37 2 0.01
38 5 0.04
39 2 0.01
40 1 0.01
41 3 0.02
42 4 0.03
43 5 0.04
44 14 0.10
45 9 0.06
46 12 0.08
47 25 0.18
48 3 0.02
49 26 0.18
50 15 0.11
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (47 bp):
TTTATATATAAACTTAACAACACAACTTACATAATAACTTACATAAC
Found at i:12052913 original size:9 final size:9
Alignment explanation
Indices: 12052887--12053009 Score: 57
Period size: 9 Copynumber: 13.7 Consensus size: 9
12052877 TTTATATATA
*
12052887 AACTTACAC
1 AACTTACAT
12052896 AAC--ACAT
1 AACTTACAT
12052903 AACTTACATAAT
1 AACTTAC---AT
12052915 AACTTACAT
1 AACTTACAT
12052924 AACTTATACAT
1 AAC-T-TACAT
* *
12052935 GACTTATATAT
1 AAC-T-TACAT
*
12052946 AACTTTCAT
1 AACTTACAT
12052955 AACTTAC-T
1 AACTTACAT
*
12052963 TA--TA-AT
1 AACTTACAT
12052969 AACTTACAT
1 AACTTACAT
12052978 AACTTACTTAT
1 AACTTAC--AT
12052989 AA--TA-AT
1 AACTTACAT
12052995 AACTTACAT
1 AACTTACAT
12053004 AACTTA
1 AACTTA
12053010 TTAATATTTA
Statistics
Matches: 89, Mismatches: 9, Indels: 32
0.68 0.07 0.25
Matches are distributed among these distances:
6 8 0.09
7 6 0.07
8 6 0.07
9 38 0.43
10 2 0.02
11 20 0.22
12 9 0.10
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.36
Consensus pattern (9 bp):
AACTTACAT
Found at i:12052939 original size:11 final size:11
Alignment explanation
Indices: 12052899--12052960 Score: 53
Period size: 11 Copynumber: 5.9 Consensus size: 11
12052889 CTTACACAAC
12052899 ACATAACTTACAT
1 ACATAACTT--AT
12052912 A-ATAAC-T-T
1 ACATAACTTAT
12052920 ACATAACTTAT
1 ACATAACTTAT
*
12052931 ACATGACTTAT
1 ACATAACTTAT
*
12052942 ATATAACTT-T
1 ACATAACTTAT
12052952 -CATAACTTA
1 ACATAACTTA
12052961 CTTATAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
8 2 0.05
9 12 0.29
10 2 0.05
11 19 0.46
12 5 0.12
13 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.37
Consensus pattern (11 bp):
ACATAACTTAT
Found at i:12052956 original size:31 final size:32
Alignment explanation
Indices: 12052899--12052979 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 32
12052889 CTTACACAAC
12052899 ACATAACTTACATAATAACTTACATAACTTAT
1 ACATAACTTACATAATAACTTACATAACTTAT
* * *
12052931 ACATGACTTATAT-ATAACTTTCATAACTTACTT
1 ACATAACTTACATAATAACTTACATAACTTA--T
*
12052964 ATAATAACTTACATAA
1 A-CATAACTTACATAA
12052980 CTTACTTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
31 16 0.41
32 11 0.28
33 2 0.05
34 9 0.23
35 1 0.03
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.37
Consensus pattern (32 bp):
ACATAACTTACATAATAACTTACATAACTTAT
Found at i:12052966 original size:84 final size:82
Alignment explanation
Indices: 12052758--12053010 Score: 275
Period size: 82 Copynumber: 3.1 Consensus size: 82
12052748 CTTATATATA
* * * * *
12052758 AACTTATATATAACTTACATACATAACTTAAGTAAAATTTATATATAAACTTAAACAACAC-AAC
1 AACTTATACATAACTTA-ATAAATAACTTAAATAAAACTTATATATAAACTTACACAACACTAAC
12052822 TTACATAATAACTTACAT
65 TTACATAATAACTTACAT
* *
12052840 AACTTATATATAACTTACATAAATAACTTAAATAAAATTTATATATAAACTTACACAACACATAA
1 AACTTATACATAACTTA-ATAAATAACTTAAATAAAACTTATATATAAACTTACACAACAC-TAA
12052905 CTTACATAATAACTTACAT
64 CTTACATAATAACTTACAT
* * ** * * *
12052924 AACTTATACATGACTT-ATATATAACTTTCATAACTTACTTATA-AT-AACTTACA-TA-ACTTA
1 AACTTATACATAACTTAATAAATAACTTAAATAA--AACTTATATATAAACTTACACAACACTAA
*
12052984 CTTATAATAATAACTTACAT
64 CTTA-CATAATAACTTACAT
12053004 AACTTAT
1 AACTTAT
12053011 TAATATTTAT
Statistics
Matches: 153, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
79 6 0.04
80 23 0.15
81 1 0.01
82 80 0.52
83 2 0.01
84 41 0.27
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.36
Consensus pattern (82 bp):
AACTTATACATAACTTAATAAATAACTTAAATAAAACTTATATATAAACTTACACAACACTAACT
TACATAATAACTTACAT
Found at i:12053000 original size:26 final size:25
Alignment explanation
Indices: 12052936--12053009 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 25
12052926 CTTATACATG
*
12052936 ACTTATAT-ATAACTTTCATAACTT
1 ACTTATATAATAACTTACATAACTT
12052960 AC-T-TATAATAACTTACATAACTT
1 ACTTATATAATAACTTACATAACTT
12052983 ACTTATAATAATAACTTACATAACTT
1 ACTTAT-ATAATAACTTACATAACTT
12053009 A
1 A
12053010 TTAATATTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
22 3 0.07
23 18 0.40
24 3 0.07
25 1 0.02
26 20 0.44
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (25 bp):
ACTTATATAATAACTTACATAACTT
Found at i:12053014 original size:23 final size:24
Alignment explanation
Indices: 12052820--12053015 Score: 105
Period size: 26 Copynumber: 8.3 Consensus size: 24
12052810 AAACAACACA
12052820 ACTTACATAATAACTTACATAACTT
1 ACTTA-ATAATAACTTACATAACTT
* *
12052845 A--T-AT-ATAACTTACATAAATA
1 ACTTAATAATAACTTACATAACTT
* *
12052865 ACTTAAATAA-AATTTATATATAAACTT
1 ACTT-AATAATAA-CT-TACAT-AACTT
** * *
12052892 ACACAACACATAACTTACATAA-TA
1 ACTTAATA-ATAACTTACATAACTT
* *
12052916 ACTT-A-CATAACTT--AT-ACATG
1 ACTTAATAATAACTTACATAAC-TT
*
12052936 ACTT-ATATATAACTTTCATAACTT
1 ACTTAATA-ATAACTTACATAACTT
12052960 ACTT-ATAATAACTTACATAACTT
1 ACTTAATAATAACTTACATAACTT
12052983 ACTTATAATAATAACTTACATAACTT
1 AC-T-TAATAATAACTTACATAACTT
12053009 A-TTAATA
1 ACTTAATA
12053016 TTTATATGGA
Statistics
Matches: 132, Mismatches: 19, Indels: 42
0.68 0.10 0.22
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 21 0.16
21 9 0.07
22 8 0.06
23 24 0.18
24 19 0.14
25 8 0.06
26 31 0.23
27 7 0.05
28 2 0.02
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.37
Consensus pattern (24 bp):
ACTTAATAATAACTTACATAACTT
Found at i:12053409 original size:21 final size:21
Alignment explanation
Indices: 12053383--12053453 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
12053373 CTACAACTTA
*
12053383 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
12053404 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
12053425 AAGCAGAGGCTGCAACGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
12053446 AAGCAGAG
1 AAGCAGAG
12053454 CAGAGCAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.32, C:0.20, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:12053913 original size:42 final size:42
Alignment explanation
Indices: 12053770--12053979 Score: 228
Period size: 42 Copynumber: 4.8 Consensus size: 42
12053760 GTTTTTATAT
*
12053770 AAAAGCGCCGCTAAAGAACATGTTCTTTAGCA-GCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAG-AGGCGCTTAGAA
* * *
12053812 AAAAATGCCGCTAAAGATA-ATGTTCTTTAGCGGCGCTTAGAC
1 AAAAACGCCGCTAAAGA-ACATGTTCTTTAGAGGCGCTTAGAA
* *
12053854 AAAAATGCCGCTAAAGACCATGTTCTTTAGAGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAGAA
*
12053896 AAAAACGCCGCTAAAGACTAAAGACTATGTTCTTTAGTGGCGCTTA-AGA
1 AAAAACGCCGCTAAAG-----A-AC-ATGTTCTTTAGAGGCGCTTAGA-A
* *
12053945 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCG
12053980 TTTTTCTCTA
Statistics
Matches: 145, Mismatches: 12, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
42 102 0.70
43 3 0.02
44 1 0.01
47 1 0.01
48 2 0.01
49 36 0.25
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAGAA
Found at i:12053938 original size:49 final size:49
Alignment explanation
Indices: 12053864--12053961 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 49
12053854 AAAAATGCCG
12053864 CTAAAGACCATGTTCTTTAGAGGCGCTT-AGAAAAAAACGCCGCTAAAGA
1 CTAAAGACCATGTTCTTTAGAGGCGCTTAAG-AAAAAACGCCGCTAAAGA
* *
12053913 CTAAAGACTATGTTCTTTAGTGGCGCTTAAGAAAAAACGCCGCTAAAGA
1 CTAAAGACCATGTTCTTTAGAGGCGCTTAAGAAAAAACGCCGCTAAAGA
12053962 ACATGATCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 44 0.96
50 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.22
Consensus pattern (49 bp):
CTAAAGACCATGTTCTTTAGAGGCGCTTAAGAAAAAACGCCGCTAAAGA
Found at i:12054132 original size:22 final size:22
Alignment explanation
Indices: 12054101--12054144 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
12054091 TAGTGGCGTT
* *
12054101 AAAAAGCACCGCTAAAGGCCTA
1 AAAAAACACCGCTAAAGACCTA
12054123 AAAAAACACCGCTAAAGACCTA
1 AAAAAACACCGCTAAAGACCTA
12054145 TTTTGATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.27, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAAACACCGCTAAAGACCTA
Found at i:12055352 original size:15 final size:15
Alignment explanation
Indices: 12055332--12055369 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
12055322 TCGACTTGCA
12055332 CAATGTTGGAACCTT
1 CAATGTTGGAACCTT
12055347 CAATGTTGGAACCTT
1 CAATGTTGGAACCTT
12055362 CAATGTTG
1 CAATGTTG
12055370 ATACGGGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (15 bp):
CAATGTTGGAACCTT
Found at i:12056421 original size:72 final size:72
Alignment explanation
Indices: 12056267--12056409 Score: 198
Period size: 72 Copynumber: 2.0 Consensus size: 72
12056257 TTTATCATAC
* * * * *
12056267 CTAAATATTTTTATTAGGCTCGAATATTAAATACACAATTTGATAAATGAATTTAACCGAGCATA
1 CTAAATAATTTAATTAAGCTCGAATATTAAATACACAATTTGATAAACGAATTTAACCAAGCATA
12056332 AATATTA
66 AATATTA
* * * *
12056339 CTAAATAATTTAATTAAGCTCGAGTATTAAATATACAATTTGATAAACGAATTTAA-TAAGCCTA
1 CTAAATAATTTAATTAAGCTCGAATATTAAATACACAATTTGATAAACGAATTTAACCAAGCATA
12056403 AATATTA
66 AATATTA
12056410 AGTTTTGAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
71 12 0.19
72 50 0.81
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (72 bp):
CTAAATAATTTAATTAAGCTCGAATATTAAATACACAATTTGATAAACGAATTTAACCAAGCATA
AATATTA
Found at i:12059420 original size:31 final size:32
Alignment explanation
Indices: 12059349--12059420 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
12059339 AAATGATTTA
*
12059349 AAGTTTAGAGATTGATTTAAAAAGAATATTAT
1 AAGTTTAGGGATTGATTTAAAAAGAATATTAT
*
12059381 AAGTTTAGGGATTGATTTAAAAAGAATGTTAT
1 AAGTTTAGGGATTGATTTAAAAAGAATATTAT
12059413 -AGTTTAGG
1 AAGTTTAGG
12059421 CATGTATGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 8 0.21
32 30 0.79
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.38
Consensus pattern (32 bp):
AAGTTTAGGGATTGATTTAAAAAGAATATTAT
Found at i:12063765 original size:21 final size:21
Alignment explanation
Indices: 12063741--12063793 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
12063731 CATTATTTCT
*
12063741 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
12063762 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
12063783 AATCTCACCGC
1 AATCTCACCGC
12063794 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:12064527 original size:130 final size:130
Alignment explanation
Indices: 12064313--12064576 Score: 465
Period size: 130 Copynumber: 2.0 Consensus size: 130
12064303 ATTGCGAAGC
12064313 CTTGTCTTAACAACTTTTATGGCTGAAAATGCTTATTCGGTTGTTGCAGTAGACACGATAAGAGT
1 CTTGTCTTAACAACTTTTATGGCTGAAAATGCTTATTCGGTTGTTGCAGTAGACACGATAAGAGT
* *
12064378 TAGTACAAGACGAACAATTCTATCAAGAAGATGATAAATAATTAACTTCTTTGTCTTAGCTAGCA
66 TAGCACAAGACAAACAATTCTATCAAGAAGATGATAAATAATTAACTTCTTTGTCTTAGCTAGCA
* * *
12064443 CTTGTCTTCACAATTTTTATGGCTGAAAATGTTTATTCGGTTGTTGCAGTAGACACGATAAGAGT
1 CTTGTCTTAACAACTTTTATGGCTGAAAATGCTTATTCGGTTGTTGCAGTAGACACGATAAGAGT
* *
12064508 TAGCACAAGACAAATAATTCTATCAAGAAGATGATAAATAATTAACTTTTTTGTCTTAGCTAGCA
66 TAGCACAAGACAAACAATTCTATCAAGAAGATGATAAATAATTAACTTCTTTGTCTTAGCTAGCA
12064573 CTTG
1 CTTG
12064577 ACATAACTCG
Statistics
Matches: 127, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
130 127 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Consensus pattern (130 bp):
CTTGTCTTAACAACTTTTATGGCTGAAAATGCTTATTCGGTTGTTGCAGTAGACACGATAAGAGT
TAGCACAAGACAAACAATTCTATCAAGAAGATGATAAATAATTAACTTCTTTGTCTTAGCTAGCA
Found at i:12066742 original size:30 final size:30
Alignment explanation
Indices: 12066629--12066750 Score: 93
Period size: 30 Copynumber: 3.9 Consensus size: 30
12066619 TACAAGAATG
* * *
12066629 TTTAGGATCTTGAGAAGACCCGATATCTCA
1 TTTAGGAGCTTGAGAAGATCTGATATCTCA
* *
12066659 TTCAGGAGCTTGGGAAGA-CTTGATATCTCA
1 TTTAGGAGCTTGAGAAGATC-TGATATCTCA
* * *
12066689 TTCAAGATCTTGAGATTGAGAAGATCTGATATCTCG
1 TT-TAG-----GAGCTTGAGAAGATCTGATATCTCA
*
12066725 TTTAGGAGCTTGGGAAGATCTGATAT
1 TTTAGGAGCTTGAGAAGATCTGATAT
12066751 TTGATTTTTC
Statistics
Matches: 73, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
29 1 0.01
30 45 0.62
31 2 0.03
35 2 0.03
36 22 0.30
37 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.32
Consensus pattern (30 bp):
TTTAGGAGCTTGAGAAGATCTGATATCTCA
Found at i:12082148 original size:29 final size:29
Alignment explanation
Indices: 12082098--12082157 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
12082088 ATAGCAATCT
* **
12082098 AACTATAATCCAGATATTTATA-ATAAAAA
1 AACTATAATCCAAATAAATATAGA-AAAAA
12082127 AACTATAATCCAAATAAATATAGAAAAAA
1 AACTATAATCCAAATAAATATAGAAAAAA
12082156 AA
1 AA
12082158 TCCAAAATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (29 bp):
AACTATAATCCAAATAAATATAGAAAAAA
Found at i:12099030 original size:125 final size:124
Alignment explanation
Indices: 12098830--12099180 Score: 560
Period size: 125 Copynumber: 2.8 Consensus size: 124
12098820 TAATTTCGAG
* * * *
12098830 TTGACATTTCTGATCAAATAGTATAAAATCGCTTCTAGCAGAATGCTATTTTAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
12098895 AAATCGCGCCCTCGTGGATGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAAATTTTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAAT-AA-TTTTTT
12098956 TTGACGTTTCTGAGCAAATAGTAT-AAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * *
12099020 AAATCACGCCCTCGTGGACGCGCTTTTGCAACAGTAGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTTTTT
* * *
12099079 TTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTAGCAGGATGTTATTTGAAAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
12099144 AAATCGCGCCCTTGTGGACGCGCTTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
12099181 CATGTTTGGG
Statistics
Matches: 209, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
123 29 0.14
124 74 0.35
125 84 0.40
126 22 0.11
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTTTTT
Found at i:12102848 original size:116 final size:116
Alignment explanation
Indices: 12102640--12102879 Score: 426
Period size: 116 Copynumber: 2.1 Consensus size: 116
12102630 TGATAAATTG
*
12102640 TATTAACTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAACTCAAAAAATTGTATTAATGGTTACTAAAATTATCAAATTATATAAAATTATTAATTGT
* * * *
12102705 TAGTATCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATGTAAAAT
66 TACTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
*
12102756 TATTAACTCTAAAAATTGTATTAATGGTTACTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAACTCAAAAAATTGTATTAATGGTTACTAAAATTATCAAATTATATAAAATTATTAATTGT
12102821 TACTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
66 TACTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
12102872 TATTAACT
1 TATTAACT
12102880 TAGTTTAAGA
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 118 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.39
Consensus pattern (116 bp):
TATTAACTCAAAAAATTGTATTAATGGTTACTAAAATTATCAAATTATATAAAATTATTAATTGT
TACTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
Found at i:12102938 original size:21 final size:21
Alignment explanation
Indices: 12102909--12102988 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
12102899 AAATTAGGTT
*
12102909 AGGGGTAGGGTTTTAAAGTTA
1 AGGGTTAGGGTTTTAAAGTTA
*
12102930 AGGGTTAGGGTTTTTAA-TTAA
1 AGGGTTAGGGTTTTAAAGTT-A
* *
12102951 ATTAGGTTAGAGTTTTTAAAGTTA
1 A--GGGTTAG-GGTTTTAAAGTTA
*
12102975 AGGTTTAGGGTTTT
1 AGGGTTAGGGTTTT
12102989 TAATTAAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
20 2 0.04
21 22 0.48
22 5 0.11
23 6 0.13
24 9 0.20
25 2 0.04
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (21 bp):
AGGGTTAGGGTTTTAAAGTTA
Found at i:12102956 original size:45 final size:44
Alignment explanation
Indices: 12102914--12103131 Score: 169
Period size: 45 Copynumber: 5.2 Consensus size: 44
12102904 AGGTTAGGGG
12102914 TAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAATTAAATTAGGT
1 TAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAATTAAATTAGGT
* *
12102958 TAGAGTTTTTAAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGT
1 TAG-GGTTTTAAAGTTAAGGGTTAGGGTTTTTAATTAAATTAGGT
* * * *
12103003 TAGGG--TTAAGGTT-----TT--TG-ATTAAATTAAATTAGGT
1 TAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAATTAAATTAGGT
* * *
12103037 TAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAAGTT-AA--AGTT
1 TAGGGTTTTAAAGTT-AA--GGGTTAGGGTTTTT-AA-TTAAATTAGGT
* * *
12103082 TAGGGTTTT-AAGTTAAGGTTTAAGATTTTTAATTAAATTAGGT
1 TAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAATTAAATTAGGT
12103125 TAGGGTT
1 TAGGGTT
12103132 AGGGTTTTTA
Statistics
Matches: 136, Mismatches: 18, Indels: 41
0.70 0.09 0.21
Matches are distributed among these distances:
34 20 0.15
35 3 0.02
36 3 0.02
37 2 0.01
40 2 0.01
41 4 0.03
42 17 0.12
43 12 0.09
44 8 0.06
45 57 0.42
46 2 0.01
47 4 0.03
48 2 0.01
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (44 bp):
TAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAATTAAATTAGGT
Found at i:12102965 original size:23 final size:23
Alignment explanation
Indices: 12102932--12103517 Score: 271
Period size: 23 Copynumber: 23.6 Consensus size: 23
12102922 TAAAGTTAAG
12102932 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
* *
12102955 GGTTAGAGTTTTT-A--AAGTTAA
1 GGTTAGGGTTTTTAATTAAATT-A
12102976 GGTTTAGGGTTTTTAATTAAATTA
1 GG-TTAGGGTTTTTAATTAAATTA
12103000 GGTTAGGGTTAAGGTTTTTGATTAAATTAAATTA
1 GGTTA--G----GG-TT-T--TT-AATTAAATTA
12103034 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
12103057 GGTTAGGGTTTTTAAAGTT-AA--A
1 GGTTAGGGTTTTT-AA-TTAAATTA
* *
12103079 GTTTAGGG-TTTTAAGTT-AA-G-
1 GGTTAGGGTTTTTAA-TTAAATTA
* * *
12103099 GTTTAAGATTTTTAATTAAATTAGGTTA
1 GGTTAGGGTTTTTAATT-AA--A--TTA
12103127 GGGTTAGGGTTTTTAATTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
12103151 GGTTAGGGTTTTTAAGGTT--A--A
1 GGTTAGGGTTTTTAA--TTAAATTA
*
12103172 GGTTTAGGATTTTTAATTAAATTAGGTTA
1 GG-TTAGGGTTTTTAATT-AA--A--TTA
12103201 GGATTAGGGTTTTTAATTAAATTAAGTTA
1 GG-TTAGGGTTTTTAATT--A--AA-TTA
12103230 GGGTTAGGGTTTTTAATTAAATTAGGTTA
1 -GGTTAGGGTTTTTAATT-AA--A--TTA
12103259 GAGTTAGGGTTTTTAATTAAATTA
1 G-GTTAGGGTTTTTAATTAAATTA
12103283 GGTTAGGGGTAGGATTTTTAATTAAATTA
1 GGTTA---G--GG-TTTTTAATTAAATTA
12103312 GGTTAAGGGTAGGGTTTTTAATTAAATTA
1 GG-T-----TAGGGTTTTTAATTAAATTA
*
12103341 AGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
12103364 GGTTAGGGTTTTGT-ATTAAATTA
1 GGTTAGGGTTTT-TAATTAAATTA
*
12103387 GGTTAGGGTTTTT-A--AAGTTAA
1 GGTTAGGGTTTTTAATTAAATT-A
*
12103408 GGTTTAAGGTTTTTAAGTT--A--A
1 GG-TTAGGGTTTTTAA-TTAAATTA
12103429 GGTTTAGGGTTTTTAATTAAATTA
1 GG-TTAGGGTTTTTAATTAAATTA
*
12103453 GATTAGGGTTAGGGTTTTAATTAAATTA
1 GGTTAGGG-T----TTTTAATTAAATTA
* ****
12103481 GGTCAGGGTTTAGGGTTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
12103504 GGTTAGGATTTTTA
1 GGTTAGGGTTTTTA
12103518 TTACATCAAA
Statistics
Matches: 454, Mismatches: 32, Indels: 154
0.71 0.05 0.24
Matches are distributed among these distances:
20 27 0.06
21 35 0.08
22 45 0.10
23 137 0.30
24 21 0.05
25 10 0.02
26 5 0.01
27 3 0.01
28 33 0.07
29 105 0.23
30 10 0.02
31 1 0.00
32 3 0.01
33 2 0.00
34 15 0.03
35 2 0.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:12103025 original size:29 final size:29
Alignment explanation
Indices: 12102979--12103497 Score: 335
Period size: 29 Copynumber: 17.3 Consensus size: 29
12102969 AAGTTAAGGT
12102979 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
* * **
12103008 TTAAGGTTTTTGATTAAATTAAATTA-GG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
12103036 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
12103065 -T----TTTTAAAGTTAAAGTTTAGGGTTTTAAGTTAAGG
1 TTAGGGTTTTTAA-TTAAA--TTA-GG--TT-AG----GG
* *
12103100 TTTAAGATTTTTAATTAAATTAGGTTAGGG
1 -TTAGGGTTTTTAATTAAATTAGGTTAGGG
12103130 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
* *
12103159 TTTTTAAGGTTAAGGTTTAGGATTTTTAATTAAATTAGGTTAGGA
1 ---TT-A-G----GGTTTT-------TAATTAAATTAGGTTAGGG
*
12103204 TTAGGGTTTTTAATTAAATTAAGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
12103233 TTAGGGTTTTTAATTAAATTAGGTTAGAG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
12103262 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
* *
12103291 GTAGGATTTTTAATTAAATTAGGTTAAGGG
1 TTAGGGTTTTTAATTAAATTAGGTT-AGGG
12103321 -TAGGGTTTTTAATTAAATTA----A--G
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
12103343 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
12103372 -T----TTTGT-ATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
** * * *
12103395 TTTTTAAAGTTAAGGTTTAAGGTT--TTTAAGTTAAGGT
1 ---TTAGGGTT----TTTAA--TTAAATTAGGTT-AGGG
*
12103432 TTAGGGTTTTTAATTAAATTAGATTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
12103461 TTAGGG-TTTTAATTAAATTAGGTCAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
12103489 TTTAGGGTT
1 -TTAGGGTT
12103498 AAATTAGGTT
Statistics
Matches: 392, Mismatches: 36, Indels: 123
0.71 0.07 0.22
Matches are distributed among these distances:
22 1 0.00
23 37 0.09
24 11 0.03
25 5 0.01
27 5 0.01
28 50 0.13
29 181 0.46
30 19 0.05
31 4 0.01
32 2 0.01
33 1 0.00
34 9 0.02
35 6 0.02
36 12 0.03
37 6 0.02
38 10 0.03
40 6 0.02
41 7 0.02
42 2 0.01
45 18 0.05
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (29 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGG
Found at i:12103038 original size:28 final size:29
Alignment explanation
Indices: 12102983--12103066 Score: 107
Period size: 28 Copynumber: 2.9 Consensus size: 29
12102973 TAAGGTTTAG
**
12102983 GGTTTTTAATTAAATTAGGTTAGGGTTAA
1 GGTTTTTAATTAAATTAAATTAGGGTTAA
* *
12103012 GGTTTTTGATTAAATTAAATTA-GGTTAG
1 GGTTTTTAATTAAATTAAATTAGGGTTAA
**
12103040 GGTTTTTAATTAAATTAGGTTAGGGTT
1 GGTTTTTAATTAAATTAAATTAGGGTT
12103067 TTTAAAGTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 24 0.51
29 23 0.49
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (29 bp):
GGTTTTTAATTAAATTAAATTAGGGTTAA
Found at i:12103096 original size:20 final size:22
Alignment explanation
Indices: 12103059--12103113 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 22
12103049 TTAAATTAGG
12103059 TTAGGGTTTTTAAAGTTAAAGT
1 TTAGGGTTTTTAAAGTTAAAGT
*
12103081 TTAGGG-TTTT-AAGTTAAGGT
1 TTAGGGTTTTTAAAGTTAAAGT
* *
12103101 TTAAGATTTTTAA
1 TTAGGGTTTTTAA
12103114 TTAAATTAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 13 0.46
21 8 0.29
22 7 0.25
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (22 bp):
TTAGGGTTTTTAAAGTTAAAGT
Found at i:12103503 original size:28 final size:29
Alignment explanation
Indices: 12103429--12103497 Score: 104
Period size: 28 Copynumber: 2.4 Consensus size: 29
12103419 TTTAAGTTAA
*
12103429 GGTTTAGGGTTTTTAATTAAATTAGATTAG
1 GGTTTAGGG-TTTTAATTAAATTAGATCAG
*
12103459 GG-TTAGGGTTTTAATTAAATTAGGTCAG
1 GGTTTAGGGTTTTAATTAAATTAGATCAG
12103487 GGTTTAGGGTT
1 GGTTTAGGGTT
12103498 AAATTAGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 20 0.56
29 14 0.39
30 2 0.06
ACGTcount: A:0.26, C:0.01, G:0.29, T:0.43
Consensus pattern (29 bp):
GGTTTAGGGTTTTAATTAAATTAGATCAG
Found at i:12103541 original size:25 final size:25
Alignment explanation
Indices: 12103513--12103625 Score: 114
Period size: 25 Copynumber: 4.7 Consensus size: 25
12103503 AGGTTAGGAT
12103513 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
12103538 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *
12103561 --AAATAAC-TCGAAA-AAATTTCTA
1 TTTTATTACATC-AAATAAACTTCTA
*
12103583 TTTTATTACATCAAATAAACTTTTA
1 TTTTATTACATCAAATAAACTTCTA
12103608 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
12103626 TATCAAAATA
Statistics
Matches: 71, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
20 2 0.03
21 11 0.15
22 2 0.03
23 2 0.03
24 11 0.15
25 43 0.61
ACGTcount: A:0.44, C:0.13, G:0.01, T:0.42
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:12103592 original size:70 final size:69
Alignment explanation
Indices: 12103513--12103669 Score: 278
Period size: 70 Copynumber: 2.3 Consensus size: 69
12103503 AGGTTAGGAT
12103513 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAAT
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTC-AAAAAAT
12103578 TTCTA
65 TTCTA
*
12103583 TTTTATTACATCAAATAAACTTTTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
12103648 TCTA
66 TCTA
* *
12103652 TTTTTTTACATAAAATAA
1 TTTTATTACATCAAATAA
12103670 TATCAAAATA
Statistics
Matches: 84, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
69 28 0.33
70 56 0.67
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.41
Consensus pattern (69 bp):
TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
TCTA
Found at i:12103661 original size:44 final size:45
Alignment explanation
Indices: 12103593--12103679 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 45
12103583 TTTTATTACA
*
12103593 TCAAATAAACTTTTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAATAAACTTTTATTTTATTACATAAAATAATATCAAAATAAC
*
12103638 TCAAA-AAA-TTTCTATTTTTTTACATAAAATAATATCAAAATA
1 TCAAATAAACTTT-TATTTTATTACATAAAATAATATCAAAATA
12103680 TTCAAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
43 3 0.08
44 31 0.79
45 5 0.13
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.39
Consensus pattern (45 bp):
TCAAATAAACTTTTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:12104119 original size:18 final size:18
Alignment explanation
Indices: 12104096--12104130 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12104086 CAGAAAAGGA
*
12104096 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
12104114 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
12104131 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:12104790 original size:7 final size:7
Alignment explanation
Indices: 12104780--12104804 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
12104770 TTATATACAT
12104780 AATACTA
1 AATACTA
12104787 AATACTA
1 AATACTA
12104794 AATACTA
1 AATACTA
12104801 AATA
1 AATA
12104805 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:12106004 original size:22 final size:22
Alignment explanation
Indices: 12105979--12106053 Score: 100
Period size: 22 Copynumber: 3.4 Consensus size: 22
12105969 AAATATGGAT
12105979 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
12106001 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
12106023 TTGAGAAGAA-ATT-GAGAGGAAA
1 TTGAG-AGAATTTTGGA-AGGAAA
12106045 TATGAGAGA
1 T-TGAGAGA
12106054 GGATTTGTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
21 2 0.04
22 39 0.80
23 8 0.16
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:12106052 original size:12 final size:11
Alignment explanation
Indices: 12105995--12106052 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
12105985 GAATTTTGGA
12105995 AGGAAATTGAG
1 AGGAAATTGAG
*
12106006 A-GAATTTTG-G
1 AGGAA-ATTGAG
12106016 AAGGAAATTGAG
1 -AGGAAATTGAG
*
12106028 AAGAAATTGAG
1 AGGAAATTGAG
12106039 AGGAAATATGAG
1 AGGAAAT-TGAG
12106051 AG
1 AG
12106053 AGGATTTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
10 4 0.11
11 24 0.63
12 10 0.26
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.21
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:12107745 original size:6 final size:6
Alignment explanation
Indices: 12107734--12107758 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
12107724 GCTTTTTTAT
12107734 TTAATA TTAATA TTAATA TTAATA T
1 TTAATA TTAATA TTAATA TTAATA T
12107759 AAAATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Found at i:12107792 original size:30 final size:31
Alignment explanation
Indices: 12107758--12107822 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
12107748 AATATTAATA
*
12107758 TAAAAT-TTAAATTTATTATTATATAT-TTTT
1 TAAAATATT-AATGTATTATTATATATATTTT
* *
12107788 TAAAATATTTATGTATTTTTATATATATTTT
1 TAAAATATTAATGTATTATTATATATATTTT
12107819 TAAA
1 TAAA
12107823 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 20 0.67
31 10 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (31 bp):
TAAAATATTAATGTATTATTATATATATTTT
Found at i:12107799 original size:20 final size:20
Alignment explanation
Indices: 12107776--12107833 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
12107766 AAATTTATTA
12107776 TTATATATTTTTTAAAATAT
1 TTATATATTTTTTAAAATAT
* *
12107796 TTATGTA-TTTTTATATATAT
1 TTATATATTTTTTA-AAATAT
* *
12107816 TTTTAAATTTTTTAAAAT
1 TTATATATTTTTTAAAAT
12107834 TTTGTAAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 6 0.20
20 18 0.60
21 6 0.20
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTATATATTTTTTAAAATAT
Found at i:12107826 original size:19 final size:19
Alignment explanation
Indices: 12107804--12107845 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
12107794 ATTTATGTAT
*
12107804 TTTTATATATATTTT-TAAA
1 TTTTATA-AAATTTTGTAAA
*
12107823 TTTTTTAAAATTTTGTAAA
1 TTTTATAAAATTTTGTAAA
12107842 TTTT
1 TTTT
12107846 GAGAATTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTATAAAATTTTGTAAA
Found at i:12115050 original size:11 final size:11
Alignment explanation
Indices: 12115034--12115059 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12115024 TTTAAGTATA
12115034 TATTTTTAATT
1 TATTTTTAATT
12115045 TATTTTTAATT
1 TATTTTTAATT
12115056 TATT
1 TATT
12115060 GGGAAACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTTTTAATT
Found at i:12116591 original size:109 final size:110
Alignment explanation
Indices: 12116411--12116913 Score: 753
Period size: 109 Copynumber: 4.6 Consensus size: 110
12116401 GTCAATCGAG
* * ** * *
12116411 AAATCGAAACCCAGCACATTAAAGCTTG-TTCCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* *
12116475 TTGAAA-TTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
66 TTAAAATTTTTTAAAAGGATATTTAGCCATTTGGTTGAACGAGAA
*
12116519 AAATCGACACCCAGCACCTTAGGGCATG-TTCCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTAT
* *
12116583 TTTGAAA-TTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
65 TTTAAAATTTTTTAAAAGGATATTTAGCCATTTGGTTGAACGAGAA
* * * * *
12116628 AAATCGACACCCAACGCATTAGGGCACGTTTTCTCGAATTTCCAAACGTAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
*
12116693 TTAAAATTTTTTAAAAAGATATTTAGCCATTTGGTTGAACGAGAA
66 TTAAAATTTTTTAAAAGGATATTTAGCCATTTGGTTGAACGAGAA
*
12116738 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTACCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
12116803 TTAAAATTTTTTTTAAAAGGATATTTAGCCATTTGGTTGAACGAGAA
66 TTAAAA--TTTTTTAAAAGGATATTTAGCCATTTGGTTGAACGAGAA
* * *
12116850 AAATCGACACCCATCACCTTAGGGCATGTTTTCTCAAATTTCCCAAACGCAAAGCATTGCCTTA
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTA
12116914 ATTGGAAAAA
Statistics
Matches: 364, Mismatches: 25, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
108 35 0.10
109 120 0.33
110 112 0.31
112 77 0.21
113 20 0.05
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (110 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTAAAATTTTTTAAAAGGATATTTAGCCATTTGGTTGAACGAGAA
Found at i:12116989 original size:21 final size:18
Alignment explanation
Indices: 12116957--12116996 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
12116947 ATTTATATGC
12116957 ATAATGGAATAATAAACATG
1 ATAATGGAATAA-AAA-ATG
12116977 ATAATGTGAATAAAAAATG
1 ATAATG-GAATAAAAAATG
12116996 A
1 A
12116997 ACAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.57, C:0.03, G:0.15, T:0.25
Consensus pattern (18 bp):
ATAATGGAATAAAAAATG
Found at i:12117435 original size:24 final size:24
Alignment explanation
Indices: 12117374--12117441 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
12117364 AATATGTAAG
* *
12117374 TGTATATATATATTACAAAAAGTATG
1 TGTATATATATA-TA-AAAAAATATA
*
12117400 TGTGTA-AGTATATAAAAAAATATA
1 TGTATATA-TATATAAAAAAATATA
12117424 TGTATATATATA-AAAAAA
1 TGTATATATATATAAAAAA
12117442 CGTATATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
23 6 0.17
24 17 0.47
25 4 0.11
26 9 0.25
ACGTcount: A:0.53, C:0.01, G:0.10, T:0.35
Consensus pattern (24 bp):
TGTATATATATATAAAAAAATATA
Found at i:12117451 original size:22 final size:22
Alignment explanation
Indices: 12117408--12117453 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
12117398 TGTGTGTAAG
* *
12117408 TATATAAAAAAATATATGTATA
1 TATATAAAAAAACATATATATA
*
12117430 TATATAAAAAAACGTATATATA
1 TATATAAAAAAACATATATATA
12117452 TA
1 TA
12117454 AGGGCAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (22 bp):
TATATAAAAAAACATATATATA
Found at i:12117471 original size:3 final size:3
Alignment explanation
Indices: 12117463--12117495 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
12117453 AAGGGCAATT
*
12117463 ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12117496 TTATTATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12128751 original size:72 final size:72
Alignment explanation
Indices: 12128637--12128778 Score: 221
Period size: 72 Copynumber: 2.0 Consensus size: 72
12128627 CTTTTCAAAC
* * * *
12128637 TCAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATCATGTCCTAACTTGCTGGGCATGATCCTT
1 TCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCATGTCCTAACTTACTAGGCATGATCCCT
12128702 TTTTTTT
66 TTTTTTT
* **
12128709 TCAAGTTTTAAACGATTTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTAGGCATGATCCCT
1 TCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCATGTCCTAACTTACTAGGCATGATCCCT
12128774 TTTTT
66 TTTTT
12128779 AACCCCGAGA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (72 bp):
TCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCATGTCCTAACTTACTAGGCATGATCCCT
TTTTTTT
Found at i:12130295 original size:43 final size:43
Alignment explanation
Indices: 12130234--12130320 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
12130224 CCCAAGGTAC
*
12130234 TGGAATTCCAGAAATATAAAAATTACAAGAAAATGGACTAAAT
1 TGGAATTCCAGAAATATAAAAATTACAAGAAAATAGACTAAAT
12130277 TGGAATTCCAGAAATATAAAAATTACAAGAAAATAGACTAAAT
1 TGGAATTCCAGAAATATAAAAATTACAAGAAAATAGACTAAAT
12130320 T
1 T
12130321 AACTAACCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.54, C:0.09, G:0.13, T:0.24
Consensus pattern (43 bp):
TGGAATTCCAGAAATATAAAAATTACAAGAAAATAGACTAAAT
Found at i:12134508 original size:15 final size:15
Alignment explanation
Indices: 12134488--12134518 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12134478 AAAAATACTT
12134488 GTTGAAAATTGTATG
1 GTTGAAAATTGTATG
12134503 GTTGAAAATTGTATG
1 GTTGAAAATTGTATG
12134518 G
1 G
12134519 ATTTTCATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (15 bp):
GTTGAAAATTGTATG
Found at i:12135174 original size:18 final size:19
Alignment explanation
Indices: 12135151--12135191 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
12135141 AATTTTCAAC
12135151 TTCTTT-AAATTATAATTT
1 TTCTTTAAAATTATAATTT
12135169 TTCTTTAAAAAATTATAATTT
1 TTCTTT--AAAATTATAATTT
12135190 TT
1 TT
12135192 TTATATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
21 14 0.70
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TTCTTTAAAATTATAATTT
Found at i:12145929 original size:15 final size:16
Alignment explanation
Indices: 12145911--12145940 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12145901 GATGATAATA
12145911 ATTAAA-TTTATTTTG
1 ATTAAATTTTATTTTG
12145926 ATTAAATTTTATTTT
1 ATTAAATTTTATTTT
12145941 AATTTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
ATTAAATTTTATTTTG
Found at i:12151905 original size:12 final size:13
Alignment explanation
Indices: 12151882--12151906 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12151872 ATTTTTGGTC
12151882 TTTTGAGTTTTTT
1 TTTTGAGTTTTTT
12151895 TTTTGAGTTTTT
1 TTTTGAGTTTTT
12151907 GACCTCATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (13 bp):
TTTTGAGTTTTTT
Found at i:12152570 original size:31 final size:31
Alignment explanation
Indices: 12152535--12152602 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
12152525 AGGGCTAGAA
*
12152535 ATTAAATTT-TAATATTTATTATTTTTAAGAG
1 ATTAAATTTATAATATTTATCA-TTTTAAGAG
*
12152566 ATT-AATTTGATAATTTTTATCATTTTAAGAG
1 ATTAAATTT-ATAATATTTATCATTTTAAGAG
12152597 ATTAAA
1 ATTAAA
12152603 ATACAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 5 0.16
31 15 0.47
32 12 0.38
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (31 bp):
ATTAAATTTATAATATTTATCATTTTAAGAG
Found at i:12153737 original size:20 final size:20
Alignment explanation
Indices: 12153700--12153738 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
12153690 CAACTACTGA
*
12153700 TTTTTGCTTCTTCTTTTTTC
1 TTTTTGCTTCTTCATTTTTC
12153720 TTTTTGCTAT-TTCATTTTT
1 TTTTTGCT-TCTTCATTTTT
12153739 GCCTAACTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTTTGCTTCTTCATTTTTC
Found at i:12157227 original size:24 final size:24
Alignment explanation
Indices: 12157200--12157251 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
12157190 TTAGTAAGTC
*
12157200 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
12157224 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
12157248 AAAT
1 AAAT
12157252 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:12159196 original size:24 final size:24
Alignment explanation
Indices: 12159169--12159220 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
12159159 TTAGTAAGTC
*
12159169 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
12159193 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
12159217 AAAT
1 AAAT
12159221 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:12163545 original size:29 final size:31
Alignment explanation
Indices: 12163490--12163555 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
12163480 ATTTTGTAAA
12163490 TTTTTGTATTTTTCATAAATTTGAAATTT-AT
1 TTTTTGTATTTTTCAT-AATTTGAAATTTAAT
*
12163521 TTTTTGTATTTTT-AT-TTTTAGAAATTTAAT
1 TTTTTGTATTTTTCATAATTT-GAAATTTAAT
12163551 TTTTT
1 TTTTT
12163556 AATAGATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 3 0.09
29 7 0.22
30 9 0.28
31 13 0.41
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.67
Consensus pattern (31 bp):
TTTTTGTATTTTTCATAATTTGAAATTTAAT
Found at i:12163780 original size:24 final size:23
Alignment explanation
Indices: 12163752--12163796 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
12163742 ATTTTAAAAT
*
12163752 CTAAAAACTAAAAGTATTAAATTC
1 CTAAAAA-TAAAAGTATAAAATTC
12163776 CTAAAAATAAAAGTATAAAAT
1 CTAAAAATAAAAGTATAAAAT
12163797 AAACTGCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.27
Consensus pattern (23 bp):
CTAAAAATAAAAGTATAAAATTC
Found at i:12167245 original size:46 final size:45
Alignment explanation
Indices: 12167178--12167549 Score: 444
Period size: 46 Copynumber: 8.6 Consensus size: 45
12167168 TTTGAGTACT
12167178 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
12167224 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
12167270 TCTGATCAAGTGAAAAAGTGATAA---GT--C----CTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * * *
12167306 TTTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTCA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
12167352 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
12167388 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
12167434 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
12167480 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTAGCTACACTTA
12167525 TCTGATC-AG-G-GACAAGTGATAAGTG
1 TCTGATCAAGTGAGA-AAGTGATAAGTG
12167550 ATCATATGTA
Statistics
Matches: 287, Mismatches: 18, Indels: 45
0.82 0.05 0.13
Matches are distributed among these distances:
36 57 0.20
38 1 0.00
39 3 0.01
40 3 0.01
41 3 0.01
42 5 0.02
43 17 0.06
44 3 0.01
45 19 0.07
46 176 0.61
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:12167302 original size:36 final size:36
Alignment explanation
Indices: 12167261--12167413 Score: 153
Period size: 36 Copynumber: 4.0 Consensus size: 36
12167251 GTAGCATTAG
12167261 CTACACTTATCTGATCAAGTGAAAAAGTGATAAGTC
1 CTACACTTATCTGATCAAGTGAAAAAGTGATAAGTC
* * *
12167297 CTACACTTATTTGATCAAGAGACAAAGTGATAAGTGGTAGC
1 CTACACTTATCTGATCAAGTGAAAAAGTGATAA---GT--C
* *
12167338 TTTAGCTACACTCATCTGATCAAGTGAAAAAGTGATAAGTG
1 -----CTACACTTATCTGATCAAGTGAAAAAGTGATAAGTC
* *
12167379 CTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
12167414 GTTAGCCTTA
Statistics
Matches: 96, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
36 62 0.65
39 2 0.02
41 1 0.01
43 2 0.02
46 29 0.30
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (36 bp):
CTACACTTATCTGATCAAGTGAAAAAGTGATAAGTC
Found at i:12167312 original size:82 final size:81
Alignment explanation
Indices: 12167215--12167548 Score: 438
Period size: 82 Copynumber: 4.0 Consensus size: 81
12167205 GTAGCATTAG
*
12167215 CTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAG
1 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAG
12167280 TGAAAAAGTGATAAGTC
65 TGAAAAAGTGATAAGTC
* * *
12167297 CTACACTTATTTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTCATCTGATCAAG
1 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAG
*
12167362 TGAAAAAGTGATAAGTG
65 TGAAAAAGTGATAAGTC
* *
12167379 CTATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAG
1 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAG
*
12167444 TGAGAAAGTGATAAGTGGTAGC
65 TGAAAAAGTGATAA---GT--C
*
12167466 CTTAGCTACTCTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGAT
1 C-TA-C-A--CTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGAT
* *
12167531 C-AG-GGACAAGTGATAAGT
61 CAAGTGAAAAAGTGATAAGT
12167549 GATCATATGT
Statistics
Matches: 222, Mismatches: 19, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
82 147 0.66
83 1 0.00
85 2 0.01
86 2 0.01
87 1 0.00
88 2 0.01
89 10 0.05
90 3 0.01
91 20 0.09
92 34 0.15
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (81 bp):
CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGT
GAAAAAGTGATAAGTC
Found at i:12167542 original size:128 final size:126
Alignment explanation
Indices: 12167178--12167548 Score: 438
Period size: 128 Copynumber: 2.9 Consensus size: 126
12167168 TTTGAGTACT
*
12167178 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
12167243 GATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTCCTACACTTA
66 GATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAG-GGAAAAGTGATAAGTCCTACACTTA
* * * * *
12167306 TTTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTCATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
12167371 GATAA---GT-GC-TA--T--ACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCT
66 GATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGA-AAAGTGATAA--G-T---C----CT
12167427 ACACTTA
120 ACACTTA
* * *
12167434 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
12167499 GATAAGTGGTAGCCTAGCTACACTTATCTGATC-AGGGACAAGTGATAAGT
66 GATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGAAAAGTGATAAGT
12167549 GATCATATGT
Statistics
Matches: 206, Mismatches: 17, Indels: 36
0.80 0.07 0.14
Matches are distributed among these distances:
117 1 0.00
118 25 0.12
120 2 0.01
121 1 0.00
122 2 0.01
124 3 0.01
125 2 0.01
128 136 0.66
131 2 0.01
132 3 0.01
133 3 0.01
135 10 0.05
136 4 0.02
137 12 0.06
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (126 bp):
TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGAAAAGTGATAAGTCCTACACTTA
Found at i:12172390 original size:17 final size:17
Alignment explanation
Indices: 12172354--12172400 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
12172344 GAATTTTATG
* *
12172354 AAATTATATATCACTATT
1 AAATTATAT-TTAATATT
12172372 AAATTATATTTAATATT
1 AAATTATATTTAATATT
12172389 AAATTAT-TTTAA
1 AAATTATATTTAA
12172401 ATTGTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 5 0.19
17 13 0.48
18 9 0.33
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATTATATTTAATATT
Found at i:12172441 original size:92 final size:92
Alignment explanation
Indices: 12172314--12172523 Score: 273
Period size: 92 Copynumber: 2.3 Consensus size: 92
12172304 TTGATTTTAG
* * *
12172314 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAA-TT-ATATATCACTATTAAATT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTTAATAT-TAACTATTAAATT
* *
12172377 ATATTTAAT-ATTAAATTATTTTAAATTGTA
64 ATATGTAATAATT--ATTATTTTAAATTATA
*
12172407 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTAATATTAATTATTAAATTAT
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTAATATTAACTATTAAATTAT
12172472 ATGTAATAATTATTATTTTAAATTATA
66 ATGTAATAATTATTATTTTAAATTATA
* * * *
12172499 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
12172524 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
92 60 0.58
93 37 0.36
94 7 0.07
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTAATATTAACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:12172486 original size:24 final size:25
Alignment explanation
Indices: 12172451--12172498 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
12172441 TTATGAAATT
12172451 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
12172475 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
12172499 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:12172652 original size:66 final size:63
Alignment explanation
Indices: 12172576--12172787 Score: 203
Period size: 66 Copynumber: 3.4 Consensus size: 63
12172566 AAAATATATT
12172576 TAATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 TAATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
12172641 A
63 A
* * * * *
12172642 GAATATTAATTATTAAGAATTTTA-TTAA--ATCATATATT-TTAATT-A-T-AA-T-ATAT-T
1 TAATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAA
*
12172696 TAATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATAT
1 TAATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATAT
12172760 AA
62 AA
*
12172762 TAATATTAATTATTAAGAATTTTATT
1 TAATATTAATTATTTA-AATTTTATT
12172788 AAATTATATA
Statistics
Matches: 116, Mismatches: 13, Indels: 35
0.71 0.08 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.11
55 5 0.04
56 4 0.03
57 3 0.03
58 1 0.01
59 11 0.09
60 8 0.07
61 11 0.09
62 1 0.01
63 3 0.03
64 4 0.03
65 9 0.08
66 33 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.49
Consensus pattern (63 bp):
TAATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAA
Found at i:12172673 original size:120 final size:120
Alignment explanation
Indices: 12172539--12172831 Score: 493
Period size: 120 Copynumber: 2.4 Consensus size: 120
12172529 AATTATTTTA
* *
12172539 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
12172601 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
12172659 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
12172724 ACAGTATCATATATTATGATTTGAGTAAATTCATATAATAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
12172779 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT
12172832 TAAATATGAT
Statistics
Matches: 165, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
119 6 0.04
120 157 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:12172699 original size:15 final size:15
Alignment explanation
Indices: 12172673--12172825 Score: 54
Period size: 15 Copynumber: 10.1 Consensus size: 15
12172663 TTATTAAATC
12172673 ATATATTTTAATTATA
1 ATATA-TTTAATTATA
*
12172689 ATATATTTAATAATA
1 ATATATTTAATTATA
12172704 AT-TATGTTAATT-T-
1 ATATAT-TTAATTATA
* *
12172717 ATAT-TTTACAGTATC
1 ATATATTTA-ATTATA
*
12172732 ATATATTATGATT-TGA
1 ATATATT-TAATTAT-A
* * *
12172748 GTA-AATTCA-TATA
1 ATATATTTAATTATA
12172761 ATA-ATATTAATTATTA
1 ATATAT-TTAATTA-TA
* * *
12172777 AGA-ATTTTATTAAATT
1 ATATATTTAATT--ATA
12172793 ATATATTTTAATTATA
1 ATATA-TTTAATTATA
*
12172809 ATATATTTAATAATA
1 ATATATTTAATTATA
12172824 AT
1 AT
12172826 TATGTTTAAA
Statistics
Matches: 102, Mismatches: 19, Indels: 33
0.66 0.12 0.21
Matches are distributed among these distances:
12 3 0.03
13 10 0.10
14 12 0.12
15 41 0.40
16 27 0.26
17 3 0.03
18 6 0.06
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (15 bp):
ATATATTTAATTATA
Found at i:12172814 original size:16 final size:16
Alignment explanation
Indices: 12172793--12172834 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
12172783 TTATTAAATT
*
12172793 ATATATTTTAATTATA
1 ATATATTTTAATAATA
12172809 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
12172824 AT-TATGTTTAA
1 ATATAT-TTTAA
12172835 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:12172822 original size:57 final size:57
Alignment explanation
Indices: 12172539--12172823 Score: 199
Period size: 59 Copynumber: 4.8 Consensus size: 57
12172529 AATTATTTTA
* *
12172539 AATTTTATTAAATCATATATTTTAATTAAAATATA-TT--TAATATTAATTATTTCA-
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATATTAATTA-TTAAG
* * * *
12172593 AATTTTCATTTATAGTATCATATATTATGATTTGAGTAA-ATTCATATAAGAATATTAATTATTA
1 AATTTT-A-TTA-A--ATCATATATT-TTAATT-A-TAATA-T-ATTTAATAATATTAATTATTA
12172657 AG
56 AG
* *
12172659 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTA-
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAAT-ATTA-ATT-ATTAAG
* * * * * *
12172718 TATTTTA-CAGTATCATATATTATGATTTGAGTAA-ATTCATATAATAATATTAATTATTAAG
1 AATTTTATTA-AATCATATATT-TTAATT-A-TAATA-T-ATTTAATAATATTAATTATTAAG
*
12172779 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATA
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATA
12172824 ATTATGTTTA
Statistics
Matches: 177, Mismatches: 27, Indels: 51
0.69 0.11 0.20
Matches are distributed among these distances:
54 6 0.03
55 1 0.01
56 3 0.02
57 19 0.11
58 13 0.07
59 32 0.18
60 24 0.14
61 31 0.18
62 12 0.07
63 11 0.06
64 4 0.02
65 4 0.02
66 17 0.10
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (57 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATATTAATTATTAAG
Found at i:12173059 original size:45 final size:43
Alignment explanation
Indices: 12172960--12173069 Score: 111
Period size: 45 Copynumber: 2.6 Consensus size: 43
12172950 TTTTCCATTA
12172960 TGCTATTACACCTCTATT-C-T--ATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
12172999 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
*
12173044 TGCTATTACACCTCTAATCCAGTACA
1 TGCTATTACACCTCTATTCCA-TACA
12173070 CCTCTAATCC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 16 0.29
40 1 0.02
42 1 0.02
44 15 0.27
45 23 0.41
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:12173071 original size:16 final size:16
Alignment explanation
Indices: 12173050--12173085 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
12173040 GATTTGCTAT
*
12173050 TACACCTCTAATCCAG
1 TACACCTCTAATCCAA
12173066 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
12173082 TACA
1 TACA
12173086 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.36, G:0.03, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:12174779 original size:36 final size:35
Alignment explanation
Indices: 12174739--12174854 Score: 135
Period size: 36 Copynumber: 3.2 Consensus size: 35
12174729 CTATCCGCAT
***
12174739 CACCACCATACAATCCTCTGCCCTGC-CCACCACAAC
1 CACCACCATACAATAAGCTGCCCT-CTCCACCAC-AC
* *
12174775 CACCATCATACAAAAAGCTGCCCTCTCCACCATCAC
1 CACCACCATACAATAAGCTGCCCTCTCCACCA-CAC
*
12174811 CACCACTATACAATAAGCTGCCCTCTCCACCACCAC
1 CACCACCATACAATAAGCTGCCCTCTCCACCA-CAC
12174847 CACCACCA
1 CACCACCA
12174855 CCACCACCAC
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
35 1 0.01
36 66 0.97
37 1 0.01
ACGTcount: A:0.31, C:0.49, G:0.05, T:0.15
Consensus pattern (35 bp):
CACCACCATACAATAAGCTGCCCTCTCCACCACAC
Found at i:12174845 original size:3 final size:3
Alignment explanation
Indices: 12174837--12174874 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
12174827 GCTGCCCTCT
12174837 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
12174875 TCATTACTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:12174855 original size:39 final size:37
Alignment explanation
Indices: 12174756--12174852 Score: 137
Period size: 36 Copynumber: 2.7 Consensus size: 37
12174746 ATACAATCCT
*
12174756 CTGCCCTGC-CCACCACAACCACCA-TCATACAAAAAG
1 CTGCCCT-CTCCACCACCACCACCACTCATACAAAAAG
* *
12174792 CTGCCCTCTCCACCATCACCACCACT-ATACAATAAG
1 CTGCCCTCTCCACCACCACCACCACTCATACAAAAAG
12174828 CTGCCCTCTCCACCACCACCACCAC
1 CTGCCCTCTCCACCACCACCACCAC
12174853 CACCACCACC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
35 1 0.02
36 53 0.96
37 1 0.02
ACGTcount: A:0.30, C:0.49, G:0.06, T:0.14
Consensus pattern (37 bp):
CTGCCCTCTCCACCACCACCACCACTCATACAAAAAG
Found at i:12181253 original size:14 final size:14
Alignment explanation
Indices: 12181234--12181272 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
12181224 AAGGGTCATT
12181234 TAAAATGTTTTCCG
1 TAAAATGTTTTCCG
* *
12181248 TAAAATGATTTCTG
1 TAAAATGTTTTCCG
*
12181262 GAAAATGTTTT
1 TAAAATGTTTT
12181273 ACGTTTCTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (14 bp):
TAAAATGTTTTCCG
Found at i:12181281 original size:20 final size:20
Alignment explanation
Indices: 12181256--12181294 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12181246 CGTAAAATGA
*
12181256 TTTCTGGAAAATGTTTTACG
1 TTTCTGGAAAATGATTTACG
*
12181276 TTTCTGTAAAATGATTTAC
1 TTTCTGGAAAATGATTTAC
12181295 TGGAAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.46
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACG
Found at i:12181285 original size:34 final size:35
Alignment explanation
Indices: 12181242--12181307 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 35
12181232 TTTAAAATGT
*
12181242 TTTCCGTAAAATGATTT-CTGGAAAATGTTTTACG
1 TTTCCGTAAAATGATTTACTGGAAAATATTTTACG
*
12181276 TTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTCCGTAAAATGATTTACTGGAAAATATTTT
12181308 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (35 bp):
TTTCCGTAAAATGATTTACTGGAAAATATTTTACG
Found at i:12184058 original size:41 final size:39
Alignment explanation
Indices: 12184013--12184090 Score: 95
Period size: 39 Copynumber: 1.9 Consensus size: 39
12184003 AGATGAACTG
12184013 ATCTAAAAATCAAGAAAAA-ATAGAACCAGACCCGATCTACC
1 ATCTAAAAAT-AA-AAAAACA-AGAACCAGACCCGATCTACC
** *
12184054 ATCTAGCAATAAAAAAACAAGAACCAGAGCCGATCTA
1 ATCTAAAAATAAAAAAACAAGAACCAGACCCGATCTA
12184091 GAAATCAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 22 0.67
40 3 0.09
41 8 0.24
ACGTcount: A:0.51, C:0.23, G:0.12, T:0.14
Consensus pattern (39 bp):
ATCTAAAAATAAAAAAACAAGAACCAGACCCGATCTACC
Found at i:12187355 original size:21 final size:22
Alignment explanation
Indices: 12187315--12187356 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
12187305 TCTTGATGCT
*
12187315 TAATTACAAATGTGTTAATAGC
1 TAATTACAAATATGTTAATAGC
12187337 TAATTACAAATAT-TTAATAG
1 TAATTACAAATATGTTAATAG
12187357 TTATATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (22 bp):
TAATTACAAATATGTTAATAGC
Found at i:12187379 original size:31 final size:30
Alignment explanation
Indices: 12187344--12187444 Score: 78
Period size: 33 Copynumber: 3.1 Consensus size: 30
12187334 AGCTAATTAC
12187344 AAATATTTAATAGTTATATTTAAAAATTTTA
1 AAATATTTAATA-TTATATTTAAAAATTTTA
* * *
12187375 AAATATATATTA-TATATACTAATTAAATTTTA
1 AAATATTTAATATTATAT-TTAA--AAATTTTA
* *
12187407 TAAATAATTAATATTTATTACTTAAAAATATTTA
1 -AAATATTTAATA-TTA-TATTTAAAAAT-TTTA
12187441 AAAT
1 AAAT
12187445 TTATATTTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
29 5 0.09
30 3 0.06
31 10 0.19
32 8 0.15
33 17 0.31
34 4 0.07
35 5 0.09
36 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (30 bp):
AAATATTTAATATTATATTTAAAAATTTTA
Found at i:12191751 original size:15 final size:15
Alignment explanation
Indices: 12191697--12191752 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
12191687 TTTTTTTGAA
*
12191697 ATAAAAAT-TAAATC
1 ATAAAAATATAAAAC
* *
12191711 ATGAAAACTATAAAAT
1 AT-AAAAATATAAAAC
12191727 ATAAAAATATAAAAC
1 ATAAAAATATAAAAC
12191742 A-AAAATATATA
1 ATAAAA-ATATA
12191753 TATAAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
14 6 0.18
15 22 0.65
16 6 0.18
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (15 bp):
ATAAAAATATAAAAC
Found at i:12191761 original size:21 final size:21
Alignment explanation
Indices: 12191722--12191761 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
12191712 TGAAAACTAT
*
12191722 AAAATATAAAAATATAAAACA
1 AAAATATAAAAATAAAAAACA
* *
12191743 AAAATATATATATAAAAAA
1 AAAATATAAAAATAAAAAA
12191762 AGTAAAGGTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATATAAAAATAAAAAACA
Found at i:12195947 original size:42 final size:42
Alignment explanation
Indices: 12195897--12195981 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
12195887 TTTGTCGAAA
**
12195897 ATGGATAATTTGGTTCAAATTCACGATCTTTTTGTTGCACCT
1 ATGGATAATTTGGTTCAAAACCACGATCTTTTTGTTGCACCT
*
12195939 ATGGATAATTTGGTTCAAAACCATGATCTTTTTGTTGCACCT
1 ATGGATAATTTGGTTCAAAACCACGATCTTTTTGTTGCACCT
12195981 A
1 A
12195982 GTCTGCATCG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (42 bp):
ATGGATAATTTGGTTCAAAACCACGATCTTTTTGTTGCACCT
Found at i:12199836 original size:9 final size:8
Alignment explanation
Indices: 12199822--12199893 Score: 67
Period size: 8 Copynumber: 8.6 Consensus size: 8
12199812 AGAATGTTAA
12199822 AAAAAATAG
1 AAAAAA-AG
12199831 AAAAAAAAG
1 -AAAAAAAG
12199840 AAAAAAAG
1 AAAAAAAG
12199848 AAAAAAA-
1 AAAAAAAG
*
12199855 AAAGAAAAT
1 AAA-AAAAG
*
12199864 AAAAGAAG
1 AAAAAAAG
12199872 AAAAAGAA-
1 AAAAA-AAG
12199880 AAGAAAAAG
1 AA-AAAAAG
12199889 AAAAA
1 AAAAA
12199894 GGAGAGGTCA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
7 3 0.06
8 33 0.61
9 12 0.22
10 6 0.11
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:12199836 original size:11 final size:10
Alignment explanation
Indices: 12199820--12199893 Score: 82
Period size: 10 Copynumber: 7.5 Consensus size: 10
12199810 AAAGAATGTT
12199820 AAAAAAAATAG
1 AAAAAAAA-AG
12199831 -AAAAAAAAG
1 AAAAAAAAAG
*
12199840 AAAAAAAGA-
1 AAAAAAAAAG
12199849 AAAAAAAAAG
1 AAAAAAAAAG
*
12199859 AAAATAAAAG
1 AAAAAAAAAG
*
12199869 -AAGAAAAAG
1 AAAAAAAAAG
12199878 AAAAGAAAAAG
1 AAAA-AAAAAG
12199889 AAAAA
1 AAAAA
12199894 GGAGAGGTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
9 17 0.32
10 26 0.49
11 10 0.19
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:12199845 original size:19 final size:19
Alignment explanation
Indices: 12199829--12199893 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
12199819 TAAAAAAAAT
12199829 AGAAAAAAAAGAAAA-AAA
1 AGAAAAAAAAGAAAAGAAA
* *
12199847 GAAAAAAAAAAGAAAATAAA
1 -AGAAAAAAAAGAAAAGAAA
*
12199867 AGAAGAAAAAGAAAAGAAAA
1 AGAAAAAAAAGAAAAG-AAA
12199887 AGAAAAA
1 AGAAAAA
12199894 GGAGAGGTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
19 27 0.69
20 12 0.31
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.02
Consensus pattern (19 bp):
AGAAAAAAAAGAAAAGAAA
Found at i:12199862 original size:24 final size:24
Alignment explanation
Indices: 12199831--12199893 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
12199821 AAAAAAATAG
12199831 AAAA-AAAAGAAAAAAAGAAAAAA
1 AAAAGAAAAGAAAAAAAGAAAAAA
* * *
12199854 AAAAGAAAATAAAAGAAGAAAAAG
1 AAAAGAAAAGAAAAAAAGAAAAAA
12199878 AAAAGAAAAAGAAAAA
1 AAAAG-AAAAGAAAAA
12199894 GGAGAGGTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
23 4 0.12
24 21 0.64
25 8 0.24
ACGTcount: A:0.86, C:0.00, G:0.13, T:0.02
Consensus pattern (24 bp):
AAAAGAAAAGAAAAAAAGAAAAAA
Found at i:12199888 original size:30 final size:27
Alignment explanation
Indices: 12199820--12199893 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 27
12199810 AAAGAATGTT
12199820 AAAAAAAATAGAAAAAAAAGAAAAAAAG
1 AAAAAAAA-AGAAAAAAAAGAAAAAAAG
12199848 AAAAAAAAAAGAAAATAAAAGAAGAAAAAG
1 -AAAAAAAAAGAAAA-AAAAGAA-AAAAAG
12199878 AAAAGAAAAAGAAAAA
1 AAAA-AAAAAGAAAAA
12199894 GGAGAGGTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
28 6 0.14
29 20 0.48
30 16 0.38
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (27 bp):
AAAAAAAAAGAAAAAAAAGAAAAAAAG
Found at i:12201405 original size:45 final size:45
Alignment explanation
Indices: 12201271--12201405 Score: 105
Period size: 45 Copynumber: 3.0 Consensus size: 45
12201261 ATCAAAGAAG
* * * *
12201271 ATAGTAGATCTTGTCTTCC-TGTATTGGCAGTGAAGCAGATCGAAG
1 ATAGCAGATTTTGTC-TCCATGAATTGGCAGTGAAGCAGATCGAAA
* * * * * ** * * *
12201316 ACACCA-ATTTTGCCTCCAAGAGTTTACAGCGGAGCA-AACTGAAA
1 ATAGCAGATTTTGTCTCCATGAATTGGCAGTGAAGCAGATC-GAAA
12201360 ATAGCAGATTTTGTCTCCATGAATTGGCAGTGAAGCAGATCGAAA
1 ATAGCAGATTTTGTCTCCATGAATTGGCAGTGAAGCAGATCGAAA
12201405 A
1 A
12201406 AAAGAAGTCT
Statistics
Matches: 62, Mismatches: 24, Indels: 8
0.66 0.26 0.09
Matches are distributed among these distances:
43 5 0.08
44 24 0.39
45 31 0.50
46 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (45 bp):
ATAGCAGATTTTGTCTCCATGAATTGGCAGTGAAGCAGATCGAAA
Found at i:12201490 original size:43 final size:43
Alignment explanation
Indices: 12201416--12201577 Score: 121
Period size: 43 Copynumber: 3.7 Consensus size: 43
12201406 AAAGAAGTCT
* * *
12201416 TATCTCCCTAAGTAGTAGTGAAGCAGATCGAAAGCACCAGCCC
1 TATCTCCCTAAGTAGCAGCGAAGTAGATCGAAAGCACCAGCCC
* * * * ** *
12201459 TATCTCCCTGAGTAGCAGCGGAGTAGGTCGAAGATTGTA--AATCT
1 TATCTCCCTAAGTAGCAGCGAAGTAGATCGAA-A--GCACCAGCCC
* * * *
12201503 TATCTCCCTAAATAGTAGTGGAGTAGATCGAAAGCACCAGCCC
1 TATCTCCCTAAGTAGCAGCGAAGTAGATCGAAAGCACCAGCCC
* * * *
12201546 TATCTCCCTGAGCAGCAACGAAGTAGGTCGAA
1 TATCTCCCTAAGTAGCAGCGAAGTAGATCGAA
12201578 GATTGTAGAT
Statistics
Matches: 87, Mismatches: 27, Indels: 10
0.70 0.22 0.08
Matches are distributed among these distances:
41 2 0.02
43 53 0.61
44 30 0.34
46 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (43 bp):
TATCTCCCTAAGTAGCAGCGAAGTAGATCGAAAGCACCAGCCC
Found at i:12201545 original size:87 final size:87
Alignment explanation
Indices: 12201413--12201622 Score: 348
Period size: 87 Copynumber: 2.4 Consensus size: 87
12201403 AAAAAAGAAG
* * *
12201413 TCTTATCTCCCTAAGTAGTAGTGAAGCAGATCGAAAGCACCAGCCCTATCTCCCTGAGTAGCAGC
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAAGCACCAGCCCTATCTCCCTGAGCAGCAAC
*
12201478 GGAGTAGGTCGAAGATTGTAAA
66 GAAGTAGGTCGAAGATTGTAAA
* *
12201500 TCTTATCTCCCTAAATAGTAGTGGAGTAGATCGAAAGCACCAGCCCTATCTCCCTGAGCAGCAAC
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAAGCACCAGCCCTATCTCCCTGAGCAGCAAC
*
12201565 GAAGTAGGTCGAAGATTGTAGA
66 GAAGTAGGTCGAAGATTGTAAA
*
12201587 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAA
12201623 ACCACAGATC
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 113 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (87 bp):
TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAAGCACCAGCCCTATCTCCCTGAGCAGCAAC
GAAGTAGGTCGAAGATTGTAAA
Found at i:12201621 original size:44 final size:44
Alignment explanation
Indices: 12201459--12201621 Score: 116
Period size: 44 Copynumber: 3.7 Consensus size: 44
12201449 GCACCAGCCC
* * *
12201459 TATCTCCCTGAGTAGCAGCGGAGTAGGTCGAAGATTGTAAATCT
1 TATCTCCCTAAGCAGCAGCGGAGTAGATCGAAGATTGTAAATCT
** * * * ** *
12201503 TATCTCCCTAAATAGTAGTGGAGTAGATCGAA-A--GCACCAGCCC
1 TATCTCCCTAAGCAGCAGCGGAGTAGATCGAAGATTGTA--AATCT
* * * * *
12201546 TATCTCCCTGAGCAGCAACGAAGTAGGTCGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGCAGCGGAGTAGATCGAAGATTGTAAATCT
* * *
12201590 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
1 TATCTCCCTAAGCAGCAGCGGAGTAGATCGAA
12201622 AACCACAGAT
Statistics
Matches: 85, Mismatches: 29, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
41 2 0.02
43 27 0.32
44 54 0.64
46 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (44 bp):
TATCTCCCTAAGCAGCAGCGGAGTAGATCGAAGATTGTAAATCT
Found at i:12201722 original size:43 final size:44
Alignment explanation
Indices: 12201675--12201852 Score: 95
Period size: 43 Copynumber: 4.1 Consensus size: 44
12201665 CATCCAGTCT
12201675 TATCTCCTTAAGAAGTAGTGGAGTAGA-CAGAAGAAACCAATCC
1 TATCTCCTTAAGAAGTAGTGGAGTAGAGCAGAAGAAACCAATCC
* ** * **
12201718 TATCTCTCTAAAGTTGTAGTGGAGTGGATTA-AA-AAACACAGATCC
1 TATCTC-CTTAAGAAGTAGTGGAGTAGAGCAGAAGAAAC-CA-ATCC
* * * * * **
12201763 TATCT-CTCT--GAAGT--TGCAGTAGAGCAGATCGTATCCAGTTT
1 TATCTCCT-TAAGAAGTAGTGGAGTAGAGCAGA-AGAAACCAATCC
* * * *
12201804 TATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGAAACTAATCC
1 TATCTCCTTAAGAAGTAGTGGAGTAGAGCAGAAGAAACCAATCC
12201847 TATCTC
1 TATCTC
12201853 TCTGAAGTTG
Statistics
Matches: 93, Mismatches: 29, Indels: 26
0.63 0.20 0.18
Matches are distributed among these distances:
40 8 0.09
41 8 0.09
42 6 0.06
43 29 0.31
44 25 0.27
45 17 0.18
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (44 bp):
TATCTCCTTAAGAAGTAGTGGAGTAGAGCAGAAGAAACCAATCC
Found at i:12201737 original size:129 final size:129
Alignment explanation
Indices: 12201620--12201911 Score: 467
Period size: 129 Copynumber: 2.3 Consensus size: 129
12201610 GAGCAGATCG
*
12201620 AAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCTTA
1 AAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTA
*
12201685 AGAAGTAGTGGAGTAGACAGAAGAAACCAATCCTATCTCTCTAAAGTTGTAGTGGAGTGGATTA
66 AGAAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTAAAGTTGTAGTGGAGTGGATTA
* * * *
12201749 AAAAACACAGATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATCGTATCCAGTTTTATCTCCCTA
1 AAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTA
* * * * *
12201814 AGCAGTAGTGGAGCAGACAGAAGAAACTAATCCTATCTCTCTGAAGTTGCAGTAGAGTGGATTA
66 AGAAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTAAAGTTGTAGTGGAGTGGATTA
* *
12201878 AAAACCGCAGATCTTATCTCCCTGAAGTTGCAGT
1 AAAACCACAGATCTTATCTCTCTGAAGTTGCAGT
12201912 CTTATCTCCC
Statistics
Matches: 148, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 148 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (129 bp):
AAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTA
AGAAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTAAAGTTGTAGTGGAGTGGATTA
Found at i:12201914 original size:22 final size:22
Alignment explanation
Indices: 12201884--12201933 Score: 91
Period size: 22 Copynumber: 2.2 Consensus size: 22
12201874 ATTAAAAACC
12201884 GCAGATCTTATCTCCCTGAAGTT
1 GCAG-TCTTATCTCCCTGAAGTT
12201907 GCAGTCTTATCTCCCTGAAGTT
1 GCAGTCTTATCTCCCTGAAGTT
12201929 GCAGT
1 GCAGT
12201934 GGAACAGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (22 bp):
GCAGTCTTATCTCCCTGAAGTT
Found at i:12203920 original size:26 final size:28
Alignment explanation
Indices: 12203891--12203956 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 28
12203881 TTTTTATAAA
12203891 TTATATATATATGAAT-ATATACGT-AC
1 TTATATATATATGAATCATATACGTAAC
* * *
12203917 TTATATAT-TTTTATTCATATACGTAAC
1 TTATATATATATGAATCATATACGTAAC
12203944 TATATATATATAT
1 T-TATATATATAT
12203957 ATTTACTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
25 4 0.12
26 16 0.50
27 3 0.09
28 7 0.22
29 2 0.06
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (28 bp):
TTATATATATATGAATCATATACGTAAC
Found at i:12210498 original size:40 final size:41
Alignment explanation
Indices: 12210453--12210587 Score: 118
Period size: 40 Copynumber: 3.4 Consensus size: 41
12210443 GTTTGGAACA
*
12210453 AAAGCGCCACAAAAAATCGAGCATTAGCGGCGATTTATC-C
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCAC
* * * **
12210493 AAAGCGCCGCTAAAGATAGAGC-TTCAGCGGCGA-TTATCTG
1 AAAGCGCCACAAAAAATAGAGCATT-AGCGGCGATTTATCAC
* * * * * *
12210533 GAAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTA-CAT
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCAC
12210572 AAAGCGCCACAAAAAA
1 AAAGCGCCACAAAAAA
12210588 CCTAAGACCA
Statistics
Matches: 77, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
39 29 0.38
40 48 0.62
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (41 bp):
AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCAC
Found at i:12210684 original size:41 final size:41
Alignment explanation
Indices: 12210627--12210905 Score: 303
Period size: 41 Copynumber: 6.8 Consensus size: 41
12210617 TTTTTTAAAC
* * *
12210627 CTTTAGCGGCGTTTTTGTGTAAGCACTGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* *
12210668 CTTTAGCGGCGTTTTTGTCTAGGTGCCGCTAATGCTC-GAGT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGA-T
** * *
12210709 CTTTAGCGGCGTTTTCATGTAGGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
*
12210750 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* *
12210791 CTTTAGCGGCGTTTTTATAC-AAGCGCCGCTAATACTCGGAT
1 CTTTAGCGGCGTTTTTGT-CTAAGCGCCGCTAATGCTCGGAT
* ** * * * *
12210832 CTTTAGCGGCATTTTTAACTGAGCGCCACTAATTCTCTTG-T
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GGAT
* ** *
12210873 CTTCAGCGGCGTTTTTACCGAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAAT
12210906 AGTAACAAAA
Statistics
Matches: 205, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
40 3 0.01
41 198 0.97
42 4 0.02
ACGTcount: A:0.16, C:0.24, G:0.25, T:0.34
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
Found at i:12211369 original size:16 final size:17
Alignment explanation
Indices: 12211348--12211379 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
12211338 GACGGGGTAT
12211348 AGATTTAAGG-TAATTG
1 AGATTTAAGGTTAATTG
12211364 AGATTTAAGGTTAATT
1 AGATTTAAGGTTAATT
12211380 TAGGGGTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.41
Consensus pattern (17 bp):
AGATTTAAGGTTAATTG
Found at i:12212787 original size:23 final size:23
Alignment explanation
Indices: 12212760--12212805 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
12212750 GTTATGCTTT
12212760 AGGGGTTAGG-GGATTTAGGGGTA
1 AGGGGTTAGGAGGATTT-GGGGTA
12212783 AGGGGTTAGGATGGATTTGGGGT
1 AGGGGTTAGGA-GGATTTGGGGT
12212806 TTAGGGTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.48
24 5 0.24
25 6 0.29
ACGTcount: A:0.20, C:0.00, G:0.52, T:0.28
Consensus pattern (23 bp):
AGGGGTTAGGAGGATTTGGGGTA
Found at i:12215769 original size:23 final size:23
Alignment explanation
Indices: 12215736--12215782 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
12215726 AATATTATAC
12215736 ATAACTGACAACTTACATAACTT
1 ATAACTGACAACTTACATAACTT
*
12215759 ATAACTTACAACTTACATAACTT
1 ATAACTGACAACTTACATAACTT
12215782 A
1 A
12215783 CATTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (23 bp):
ATAACTGACAACTTACATAACTT
Found at i:12215778 original size:16 final size:16
Alignment explanation
Indices: 12215733--12215785 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
12215723 ATTAATATTA
*
12215733 TACATAACTGACAACT
1 TACATAACTTACAACT
*
12215749 TACATAACTTATAACT
1 TACATAACTTACAACT
12215765 TAC--AACTTACATAACT
1 TACATAACTTAC--AACT
12215781 TACAT
1 TACAT
12215786 TTTTTTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 6 0.20
16 24 0.80
ACGTcount: A:0.43, C:0.23, G:0.02, T:0.32
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:12215813 original size:34 final size:33
Alignment explanation
Indices: 12215771--12216364 Score: 187
Period size: 34 Copynumber: 18.2 Consensus size: 33
12215761 AACTTACAAC
*
12215771 TTACATAACTTACATTTTTTTAATTATTCATAAA
1 TTACATAACTTA-ATTTTTTTAATTATACATAAA
* **
12215805 TTACATAACATACA--TTAAT-ATTATACATAAA
1 TTACATAACTTA-ATTTTTTTAATTATACATAAA
* ** *
12215836 TTACATAACTTAGTTAATTAATATTATACATAAA
1 TTACATAACTTAATTTTTTTA-ATTATACATAAA
* *
12215870 TTACATAACTTAATTTTATGTT-CTTATACATAAC
1 TTACATAACTTAATTTT-T-TTAATTATACATAAA
*** * *
12215904 TTACATTAA--T-ATTATACATAAAT-TACATAAC
1 TTACA-TAACTTAATT-TTTTTAATTATACATAAA
** *
12215935 TTA-ATTAA-TTAATTAATTAATATTATACATAAA
1 TTACA-TAACTTAATTTTTTTA-ATTATACATAAA
*
12215968 TTACATAACTTAATTTTATGTT-ATTATACATAAC
1 TTACATAACTTAATTTT-T-TTAATTATACATAAA
12216002 TTAC---A-TTAA------T-ATTATACATAAA
1 TTACATAACTTAATTTTTTTAATTATACATAAA
** *
12216024 TTACATAACTTAA-TTAATTAA-TATACATAAG
1 TTACATAACTTAATTTTTTTAATTATACATAAA
** *
12216055 TTACATAACTTACA--TTAAT-ATGATACATAAA
1 TTACATAACTTA-ATTTTTTTAATTATACATAAA
* ** * **
12216086 TTACATAACTTAGTTAATTAATATTATACATATG
1 TTACATAACTTAATTTTTTTA-ATTATACATAAA
** *
12216120 TTACATAACTTACA--TTAAT-ATGATACATAAA
1 TTACATAACTTA-ATTTTTTTAATTATACATAAA
* * ** * *
12216151 TTACATAAGTTAGTTAATTAATATTATACATAAC
1 TTACATAACTTAATTTTTTTA-ATTATACATAAA
** ** *
12216185 TTAC--AACTTACATAACTTACAACTTACAACTTACATAAC
1 TTACATAACTTA-AT-TTTTTTAA-TT---A--TACATAAA
*
12216224 TTACATAACTTACA-TTTTTTAATTATTCATAAA
1 TTACATAACTTA-ATTTTTTTAATTATACATAAA
**
12216257 TTACATAACTTAA-TTAGTTAA-TATACATAAA
1 TTACATAACTTAATTTTTTTAATTATACATAAA
*
12216288 TTACATAACTTAATTAATTAATTAATATTATACATAAA
1 TTACATAACTTAATT--TT--TTTA-ATTATACATAAA
* ** * *
12216326 TTACATAACTTAGTTAATTAATATTATACATAAC
1 TTACATAACTTAATTTTTTTA-ATTATACATAAA
12216360 TTACA
1 TTACA
12216365 ACTTACATAA
Statistics
Matches: 417, Mismatches: 88, Indels: 110
0.68 0.14 0.18
Matches are distributed among these distances:
22 16 0.04
25 1 0.00
26 4 0.01
30 10 0.02
31 125 0.30
32 27 0.06
33 35 0.08
34 137 0.33
35 6 0.01
36 4 0.01
37 2 0.00
38 26 0.06
39 16 0.04
41 8 0.02
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (33 bp):
TTACATAACTTAATTTTTTTAATTATACATAAA
Found at i:12215971 original size:98 final size:98
Alignment explanation
Indices: 12215849--12216045 Score: 385
Period size: 98 Copynumber: 2.0 Consensus size: 98
12215839 CATAACTTAG
*
12215849 TTAATTAATATTATACATAAATTACATAACTTAATTTTATGTTCTTATACATAACTTACATTAAT
1 TTAATTAATATTATACATAAATTACATAACTTAATTTTATGTTATTATACATAACTTACATTAAT
12215914 ATTATACATAAATTACATAACTTAATTAATTAA
66 ATTATACATAAATTACATAACTTAATTAATTAA
12215947 TTAATTAATATTATACATAAATTACATAACTTAATTTTATGTTATTATACATAACTTACATTAAT
1 TTAATTAATATTATACATAAATTACATAACTTAATTTTATGTTATTATACATAACTTACATTAAT
12216012 ATTATACATAAATTACATAACTTAATTAATTAA
66 ATTATACATAAATTACATAACTTAATTAATTAA
12216045 T
1 T
12216046 ATACATAAGT
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.45, C:0.10, G:0.01, T:0.44
Consensus pattern (98 bp):
TTAATTAATATTATACATAAATTACATAACTTAATTTTATGTTATTATACATAACTTACATTAAT
ATTATACATAAATTACATAACTTAATTAATTAA
Found at i:12216012 original size:56 final size:59
Alignment explanation
Indices: 12215950--12216177 Score: 273
Period size: 65 Copynumber: 3.7 Consensus size: 59
12215940 TAATTAATTA
* *
12215950 ATTAATATTATACATAAATTACATAACTTAATT-TT-ATGTTATTA-TACATAACTTAC
1 ATTAATATGATACATAAATTACATAACTTAATTATTAATATTATTATTACATAACTTAC
* * *
12216006 ATTAATATTATACATAAATTACATAACTTAATTAATTAATATACATAAGTTACATAACTTAC
1 ATTAATATGATACATAAATTACATAACTTAATT-ATTAATAT-TATTA-TTACATAACTTAC
*
12216068 ATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGTTACATAACTTAC
1 ATTAATATGATACATAAATTACATAACTTAATT-ATTAATATTAT---TA--TTACATAACTTAC
* *
12216133 ATTAATATGATACATAAATTACATAAGTTAGTTAATTAATATTAT
1 ATTAATATGATACATAAATTACATAACTTAATT-ATTAATATTAT
12216178 ACATAACTTA
Statistics
Matches: 154, Mismatches: 8, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
56 33 0.21
58 2 0.01
59 3 0.02
60 3 0.02
61 2 0.01
62 52 0.34
64 1 0.01
65 58 0.38
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.41
Consensus pattern (59 bp):
ATTAATATGATACATAAATTACATAACTTAATTATTAATATTATTATTACATAACTTAC
Found at i:12216016 original size:25 final size:25
Alignment explanation
Indices: 12215871--12216016 Score: 63
Period size: 25 Copynumber: 5.9 Consensus size: 25
12215861 ATACATAAAT
* * *
12215871 TACATAACTTAATTTTATGTTCTTA
1 TACATAACTTAATTTAATATTATTA
*
12215896 TACATAACTTACA-TTAATATTATACA
1 TACATAACTTA-ATTTAATATTAT-TA
* * * * *
12215922 TAAATTACATAACTTAAT-TAATTA
1 TACATAACTTAATTTAATATTATTA
* * * *
12215946 -A-TTAA-TTAATATTATACATAAAT-
1 TACATAACTTAAT-TTA-ATATTATTA
* *
12215969 TACATAACTTAATTTTATGTTATTA
1 TACATAACTTAATTTAATATTATTA
12215994 TACATAACTTACA-TTAATATTAT
1 TACATAACTTA-ATTTAATATTAT
12216017 ACATAAATTA
Statistics
Matches: 87, Mismatches: 23, Indels: 22
0.66 0.17 0.17
Matches are distributed among these distances:
21 3 0.03
22 5 0.06
23 2 0.02
24 10 0.11
25 46 0.53
26 21 0.24
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.45
Consensus pattern (25 bp):
TACATAACTTAATTTAATATTATTA
Found at i:12216017 original size:22 final size:22
Alignment explanation
Indices: 12215989--12216156 Score: 76
Period size: 22 Copynumber: 7.9 Consensus size: 22
12215979 AATTTTATGT
*
12215989 TATTATACATAACTTACATTAA
1 TATTATACATAAATTACATTAA
12216011 TATTATACATAAATTACA-T-A
1 TATTATACATAAATTACATTAA
* *
12216031 -ACT-TA-ATTAATTA-ATATACA
1 TATTATACATAAATTACAT-TA-A
* *
12216051 TAAGT-TACATAACTTACATTAA
1 T-ATTATACATAAATTACATTAA
*
12216073 TATGATACATAAATTACA-TAA
1 TATTATACATAAATTACATTAA
*
12216094 CTTAGTTA-A-TTAATATT--A-TACA
1 --TA-TTATACATAA-ATTACATTA-A
*
12216116 TATGT-TACATAACTTACATTAA
1 TAT-TATACATAAATTACATTAA
*
12216138 TATGATACATAAATTACAT
1 TATTATACATAAATTACAT
12216157 AAGTTAGTTA
Statistics
Matches: 110, Mismatches: 15, Indels: 42
0.66 0.09 0.25
Matches are distributed among these distances:
16 1 0.01
17 7 0.06
18 3 0.03
19 3 0.03
20 8 0.07
21 11 0.10
22 57 0.52
23 16 0.15
24 4 0.04
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.39
Consensus pattern (22 bp):
TATTATACATAAATTACATTAA
Found at i:12216030 original size:9 final size:9
Alignment explanation
Indices: 12216016--12216158 Score: 50
Period size: 9 Copynumber: 15.8 Consensus size: 9
12216006 ATTAATATTA
12216016 TACATAAAT
1 TACATAAAT
*
12216025 TACATAACT
1 TACATAAAT
*
12216034 TA-ATTAAT
1 TACATAAAT
12216042 TA-AT--A-
1 TACATAAAT
*
12216047 TACATAAGT
1 TACATAAAT
*
12216056 TACATAACT
1 TACATAAAT
12216065 TACATTAATAT
1 TACA-TAA-AT
12216076 GATACATAAAT
1 --TACATAAAT
*
12216087 TACATAACT
1 TACATAAAT
* *
12216096 TA-GTTAAT
1 TACATAAAT
*
12216104 TA-AT-ATT
1 TACATAAAT
**
12216111 ATACATATGT
1 -TACATAAAT
*
12216121 TACATAACT
1 TACATAAAT
12216130 TACATTAATAT
1 TACA-TAA-AT
12216141 GATACATAAAT
1 --TACATAAAT
12216152 TACATAA
1 TACATAA
12216159 GTTAGTTAAT
Statistics
Matches: 102, Mismatches: 17, Indels: 30
0.68 0.11 0.20
Matches are distributed among these distances:
5 2 0.02
6 3 0.03
7 2 0.02
8 16 0.16
9 52 0.51
10 7 0.07
11 6 0.06
12 6 0.06
13 8 0.08
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (9 bp):
TACATAAAT
Found at i:12216194 original size:7 final size:7
Alignment explanation
Indices: 12216182--12216219 Score: 58
Period size: 7 Copynumber: 5.1 Consensus size: 7
12216172 TATTATACAT
12216182 AACTTAC
1 AACTTAC
12216189 AACTTAC
1 AACTTAC
12216196 ATAACTTAC
1 --AACTTAC
12216205 AACTTAC
1 AACTTAC
12216212 AACTTAC
1 AACTTAC
12216219 A
1 A
12216220 TAACTTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 22 0.76
9 7 0.24
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (7 bp):
AACTTAC
Found at i:12216198 original size:16 final size:16
Alignment explanation
Indices: 12216177--12216237 Score: 90
Period size: 16 Copynumber: 3.8 Consensus size: 16
12216167 ATTAATATTA
12216177 TACATAACTTACAACT
1 TACATAACTTACAACT
12216193 TACATAACTTACAACT
1 TACATAACTTACAACT
12216209 TAC--AACTTACATAACT
1 TACATAACTTAC--AACT
12216225 TACATAACTTACA
1 TACATAACTTACA
12216238 TTTTTTAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.17
16 27 0.66
18 7 0.17
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:12216201 original size:9 final size:9
Alignment explanation
Indices: 12216177--12216568 Score: 118
Period size: 9 Copynumber: 46.3 Consensus size: 9
12216167 ATTAATATTA
12216177 TACATAACT
1 TACATAACT
12216186 TAC--AACT
1 TACATAACT
12216193 TACATAACT
1 TACATAACT
12216202 TAC--AACT
1 TACATAACT
12216209 TAC--AACT
1 TACATAACT
12216216 TACATAACT
1 TACATAACT
12216225 TACATAACT
1 TACATAACT
***
12216234 TACATTTTT
1 TACATAACT
*
12216243 TA-ATTA-T
1 TACATAACT
*
12216250 T-CATAAAT
1 TACATAACT
12216258 TACATAACT
1 TACATAACT
* *
12216267 TA-ATTAGT
1 TACATAACT
12216275 TA-AT-A--
1 TACATAACT
*
12216280 TACATAAAT
1 TACATAACT
12216289 TACATAACT
1 TACATAACT
12216298 TA-ATTAA-T
1 TACA-TAACT
*
12216306 TA-ATTAATATT
1 TACA-T-A-ACT
*
12216317 ATACATAAAT
1 -TACATAACT
12216327 TACATAACT
1 TACATAACT
**
12216336 TAGTTAA-T
1 TACATAACT
*
12216344 TA-AT-ATT
1 TACATAACT
12216351 ATACATAACT
1 -TACATAACT
12216361 TAC--AACT
1 TACATAACT
12216368 TACATAACT
1 TACATAACT
12216377 TAC--AACT
1 TACATAACT
12216384 TACATAACT
1 TACATAACT
***
12216393 TACAATTTTT
1 TAC-ATAACT
*
12216403 TA-ATTA-T
1 TACATAACT
* *
12216410 T-CGTAAAT
1 TACATAACT
12216418 TACATAACT
1 TACATAACT
* *
12216427 TACTTAATT
1 TACATAACT
*
12216436 TTCATAA--
1 TACATAACT
*
12216443 TAAATAACT
1 TACATAACT
12216452 TACATAACT
1 TACATAACT
*
12216461 TGC--AACT
1 TACATAACT
12216468 TACATAACT
1 TACATAACT
* ** *
12216477 TATACGACA
1 TACATAACT
12216486 TACATAACT
1 TACATAACT
* *
12216495 TACATAGCA
1 TACATAACT
*
12216504 TA-ATTTGACT
1 TACA--TAACT
*
12216514 AATACACAACT
1 --TACATAACT
*
12216525 TACATAATT
1 TACATAACT
*
12216534 TTCATAA--
1 TACATAACT
*
12216541 TAAATAACT
1 TACATAACT
12216550 TACATAA--
1 TACATAACT
12216557 TACATAACT
1 TACATAACT
12216566 TAC
1 TAC
12216569 GTAGCTTAGT
Statistics
Matches: 288, Mismatches: 53, Indels: 84
0.68 0.12 0.20
Matches are distributed among these distances:
5 2 0.01
6 3 0.01
7 71 0.25
8 31 0.11
9 157 0.55
10 12 0.04
11 5 0.02
12 5 0.02
13 2 0.01
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.38
Consensus pattern (9 bp):
TACATAACT
Found at i:12216209 original size:23 final size:24
Alignment explanation
Indices: 12216177--12216237 Score: 97
Period size: 23 Copynumber: 2.5 Consensus size: 24
12216167 ATTAATATTA
12216177 TACATAACTTACAACTTACATAACT
1 TACA-AACTTACAACTTACATAACT
12216202 TAC-AACTTACAACTTACATAACT
1 TACAAACTTACAACTTACATAACT
12216225 TACATAACTTACA
1 TACA-AACTTACA
12216238 TTTTTTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
23 23 0.68
25 11 0.32
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (24 bp):
TACAAACTTACAACTTACATAACT
Found at i:12216341 original size:175 final size:170
Alignment explanation
Indices: 12215896--12216396 Score: 497
Period size: 175 Copynumber: 3.0 Consensus size: 170
12215886 TATGTTCTTA
*
12215896 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATTAATTAATATTAT
1 TACATAACTTACATTAATATGATACATAAATTACATAAC--------TTAATTAATTAATATTAT
* * * * *
12215961 ACATAAATTACATAACTTA-ATT-TTATG-T-TAT-TA-TACATAACTTA---CATTAATATTAT
58 ACATAACTTACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTAT
* * * * *
12216017 ACATAAATTAC-A-TAACTTAA-TT--AA-TTA-ATA--TACATAAGT
123 ACATAACTTACAACTTACATAACTTACAACTTACAAACTTACATAACT
* **
12216056 TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATATGT
1 TACATAACTTACATTAATATGATACATAAATTACATAACTTAATTAATTAATATTATACATAACT
*
12216121 TACATAACTTACATTAATATGATACATAAATTACATAAGTTAGTTAATTAATATTATACATAACT
66 TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATAACT
12216186 TACAACTTACATAACTTACAACTTAC-AACTTACATAACT
131 TACAACTTACATAACTTACAACTTACAAACTTACATAACT
** * * *
12216225 TACATAACTTACATTTTTTAATTATTCATAAATTACATAACTTAATTAGTTAATATACATAAATT
1 TACATAACTTACA-TTAAT-ATGATACATAAATTACATAACTTAATTAATTAATAT---T--A-T
*
12216290 ACATAACTTA-ATTAA-TTA-ATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTA
58 ACATAACTTACA-TAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTA
12216352 TACATAACTTACAACTTACATAACTTACAACTTACATAACTTACA
122 TACATAACTTACAACTTACATAACTTACAACTTACA-AACTTACA
12216397 ATTTTTTAAT
Statistics
Matches: 288, Mismatches: 24, Indels: 41
0.82 0.07 0.12
Matches are distributed among these distances:
152 34 0.12
153 3 0.01
154 4 0.01
155 1 0.00
156 2 0.01
157 1 0.00
158 10 0.03
160 38 0.13
161 21 0.07
162 1 0.00
163 6 0.02
164 2 0.01
166 2 0.01
167 4 0.01
169 21 0.07
170 3 0.01
171 32 0.11
174 1 0.00
175 77 0.27
176 5 0.02
177 20 0.07
ACGTcount: A:0.46, C:0.13, G:0.02, T:0.40
Consensus pattern (170 bp):
TACATAACTTACATTAATATGATACATAAATTACATAACTTAATTAATTAATATTATACATAACT
TACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATAACT
TACAACTTACATAACTTACAACTTACAAACTTACATAACT
Found at i:12216373 original size:16 final size:16
Alignment explanation
Indices: 12216352--12216498 Score: 93
Period size: 16 Copynumber: 8.8 Consensus size: 16
12216342 ATTAATATTA
12216352 TACATAACTTACAACT
1 TACATAACTTACAACT
12216368 TACATAACTTACAACT
1 TACATAACTTACAACT
12216384 TACATAACTTACAA-T
1 TACATAACTTACAACT
*** *
12216399 TTTTTAA-TTATTCGTAAAT
1 TACATAACTTA--C--AACT
*
12216418 TACATAACTTACTTAATT
1 TACATAACTTAC--AACT
* * *
12216436 TTCATAA-TAAATAACT
1 TACATAACT-TACAACT
*
12216452 TACATAACTTGCAACT
1 TACATAACTTACAACT
* *
12216468 TACATAACTTATACGACA
1 TACATAAC-T-TACAACT
12216486 TACATAACTTACA
1 TACATAACTTACA
12216499 TAGCATAATT
Statistics
Matches: 101, Mismatches: 20, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
14 3 0.03
15 5 0.05
16 55 0.54
17 4 0.04
18 26 0.26
19 5 0.05
20 3 0.03
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.37
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:12216380 original size:25 final size:25
Alignment explanation
Indices: 12216352--12216478 Score: 59
Period size: 25 Copynumber: 5.1 Consensus size: 25
12216342 ATTAATATTA
12216352 TACATAACTTACAACTTACATAACT
1 TACATAACTTACAACTTACATAACT
***
12216377 TAC--AACTTACATAACTTACAATTTTT
1 TACATAACTTAC--AACTTAC-ATAACT
* *
12216403 TA-ATTA-TT-CGTAAATTACATAACT
1 TACATAACTTAC--AACTTACATAACT
* * * * *
12216427 TACTTAATTTTCATA-ATAAATAACT
1 TACATAACTTACA-ACTTACATAACT
*
12216452 TACATAACTTGCAACTTACATAACT
1 TACATAACTTACAACTTACATAACT
12216477 TA
1 TA
12216479 TACGACATAC
Statistics
Matches: 74, Mismatches: 18, Indels: 20
0.66 0.16 0.18
Matches are distributed among these distances:
23 7 0.09
24 6 0.08
25 49 0.66
26 10 0.14
27 2 0.03
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.39
Consensus pattern (25 bp):
TACATAACTTACAACTTACATAACT
Found at i:12216547 original size:16 final size:16
Alignment explanation
Indices: 12216536--12216568 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12216526 ACATAATTTT
12216536 CATAATAAATAACTTA
1 CATAATAAATAACTTA
*
12216552 CATAATACATAACTTA
1 CATAATAAATAACTTA
12216568 C
1 C
12216569 GTAGCTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (16 bp):
CATAATAAATAACTTA
Found at i:12219883 original size:66 final size:65
Alignment explanation
Indices: 12219788--12219953 Score: 210
Period size: 66 Copynumber: 2.5 Consensus size: 65
12219778 GAGCAAATTA
* * * *
12219788 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
12219852 G
65 G
* *
12219853 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
12219918 G
65 G
* *
12219919 CAGCAGCTTAAAGCAGATG-AGGCAGCAAGAGAAGC
1 CA-CAACTTAAAGCAGATGCA-GCAGCGAGAGAAGC
12219954 AAAGGCCGCA
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
65 3 0.03
66 81 0.92
67 4 0.05
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Done.