Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 111 of 135
Found at i:33482076 original size:29 final size:31
Alignment explanation
Indices: 33482044--33482113 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
33482034 TGGTGAAATC
33482044 GGGGTTAAAATGG-AA-TTTT-AGAAAGTTTG
1 GGGGTTAAAATGGTAATTTTTCA-AAAGTTTG
*
33482073 GGGG-TAAAATGGTAATTTTTCAAAAGTTTT
1 GGGGTTAAAATGGTAATTTTTCAAAAGTTTG
*
33482103 GGGGTCAAAAT
1 GGGGTTAAAAT
33482114 ATAATTTATG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 8 0.23
29 6 0.17
30 15 0.43
31 6 0.17
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (31 bp):
GGGGTTAAAATGGTAATTTTTCAAAAGTTTG
Found at i:33482101 original size:30 final size:30
Alignment explanation
Indices: 33481942--33482100 Score: 127
Period size: 30 Copynumber: 5.4 Consensus size: 30
33481932 AAAAATGAAA
*
33481942 TTTTGAAAAGTTCGAGGGTAAAATGGTAAT
1 TTTTGAAAAGTTCGGGGGTAAAATGGTAAT
* *
33481972 TTTTGGTAAAA-TT-GGGGTTAAAAATGG-GA-
1 TTTT-G-AAAAGTTCGGGGGT-AAAATGGTAAT
* *
33482001 TTTTGGAAAGTTCGAGGGTAAAATGGTAAT
1 TTTTGAAAAGTTCGGGGGTAAAATGGTAAT
* *
33482031 TTTTGGTGAAA--TCGGGGTTAAAATGG-AAT
1 TTTT-G-AAAAGTTCGGGGGTAAAATGGTAAT
* *
33482060 TTTAG-AAAGTTTGGGGGTAAAATGGTAAT
1 TTTTGAAAAGTTCGGGGGTAAAATGGTAAT
*
33482089 TTTTCAAAAGTT
1 TTTTGAAAAGTT
33482101 TTGGGGTCAA
Statistics
Matches: 102, Mismatches: 14, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
26 3 0.03
27 3 0.03
28 24 0.24
29 21 0.21
30 32 0.31
31 11 0.11
32 8 0.08
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (30 bp):
TTTTGAAAAGTTCGGGGGTAAAATGGTAAT
Found at i:33482107 original size:30 final size:28
Alignment explanation
Indices: 33481933--33482113 Score: 84
Period size: 30 Copynumber: 6.2 Consensus size: 28
33481923 ATCAGGGTTA
* * *
33481933 AAAATGAAATTTT-GAAAAGTTCGAGGGT
1 AAAATGGAATTTTAG-AAAGTTTGGGGGT
* * *
33481961 AAAATGGTAATTTTTGGTAAA-ATTGGGGTT
1 AAAATGG-AA-TTTTAG-AAAGTTTGGGGGT
* * * *
33481991 AAAAATGGGATTTTGGAAAGTTCGAGGGT
1 -AAAATGGAATTTTAGAAAGTTTGGGGGT
* * *
33482020 AAAATGGTAATTTTTGGTGAAA--TCGGGGTT
1 AAAATGG-AA-TTTT--AGAAAGTTTGGGGGT
33482050 AAAATGGAATTTTAGAAAGTTTGGGGGT
1 AAAATGGAATTTTAGAAAGTTTGGGGGT
*
33482078 AAAATGGTAATTTTTCA-AAAGTTTTGGGGT
1 AAAATGG-AA-TTTT-AGAAAGTTTGGGGGT
33482108 CAAAAT
1 -AAAAT
33482114 ATAATTTATG
Statistics
Matches: 119, Mismatches: 19, Indels: 27
0.72 0.12 0.16
Matches are distributed among these distances:
26 4 0.03
28 33 0.28
29 18 0.15
30 43 0.36
31 17 0.14
32 4 0.03
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.34
Consensus pattern (28 bp):
AAAATGGAATTTTAGAAAGTTTGGGGGT
Found at i:33483890 original size:6 final size:6
Alignment explanation
Indices: 33483870--33483924 Score: 57
Period size: 6 Copynumber: 10.0 Consensus size: 6
33483860 TTAATACTAT
* *
33483870 TTTAAA TTT-AA -TTAAA TTTAAA CTTAAA -GTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
33483915 --TAAA TTTAAA
1 TTTAAA TTTAAA
33483925 ATCAATTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
4 6 0.15
5 8 0.20
6 27 0.66
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:33483918 original size:27 final size:27
Alignment explanation
Indices: 33483872--33483935 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
33483862 AATACTATTT
*
33483872 TAAATTT-AATTAAATTTAAACTTAAAG
1 TAAATTTAAATTAAA-TTAAACTTAAAA
*
33483899 TAAATTTAAATTTAAA-TAAATTTAAAA
1 TAAATTTAAA-TTAAATTAAACTTAAAA
*
33483926 TCAATTTAAA
1 TAAATTTAAA
33483936 CCTCAATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 25 0.78
28 2 0.06
29 5 0.16
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (27 bp):
TAAATTTAAATTAAATTAAACTTAAAA
Found at i:33483926 original size:17 final size:16
Alignment explanation
Indices: 33483870--33483924 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
33483860 TTAATACTAT
*
33483870 TTTAAATTTAATTAAA
1 TTTAAATTTAAATAAA
*
33483886 TTTAAACTTAAAGTAAA
1 TTTAAATTTAAA-TAAA
33483903 TTTAAATTTAAATAAA
1 TTTAAATTTAAATAAA
33483919 TTTAAA
1 TTTAAA
33483925 ATCAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
16 20 0.57
17 15 0.43
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:33484685 original size:200 final size:200
Alignment explanation
Indices: 33484336--33485073 Score: 1152
Period size: 200 Copynumber: 3.7 Consensus size: 200
33484326 AATCATCTGT
* *
33484336 TTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGCCCACTTCTCTGTGTCTCATCAG
1 TTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCATCAG
* *
33484401 AAAGCTAACCTTTTTATTGCTTCAACCTGCTTCTCAGTACCTCATCAGGAAGCTGGGTTCGAAGA
66 GAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCAGTACCTCATCAGGAAGCTGGGTTCGAAGA
*
33484466 TTCGCTCGCGTTGAGCATTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCATCTCG
131 TTCGCTCGCGTTAAGCATTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCATCTCG
*
33484531 CTTAC
196 CTTGC
*
33484536 TTTAATTCGCTTCTTTGGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCATCAG
1 TTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCATCAG
* *
33484601 GAAGCTAACCTTTTTATTACTTCGACCTGCTTCTCAGTACCTCATCAGGAAGCTAGGTTCGAAGA
66 GAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCAGTACCTCATCAGGAAGCTGGGTTCGAAGA
*
33484666 TTCGCTCGCGTTAAGCATTGAGTTGGTATTCTTCTCTATATCTCATCAGGAAGATGACCATCTCG
131 TTCGCTCGCGTTAAGCATTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCATCTCG
33484731 CTTGC
196 CTTGC
* * * * *
33484736 TTTAATTTGCTTTTTTGGATCTTCTCAGGAAGACGAATCTGGTCCACTTCTTTGTGTCTCATCAG
1 TTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCATCAG
* * ** * * *
33484801 GAAGCTAACTTTTTTATTGCTTCGACCTGCTTCTTAGTGTCTCATTAGGAAACTGGGTTCCAAGA
66 GAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCAGTACCTCATCAGGAAGCTGGGTTCGAAGA
* * * **
33484866 TTTGCTCGTGTTAAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCG
131 TTCGCTCGCGTTAAGCATTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCATCTCG
* *
33484931 GTTGT
196 CTTGC
* *
33484936 TTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTTATCAG
1 TTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCATCAG
* * **
33485001 GAAGCTAACTTTTTTATTGCTTCGACCTGCTTCGCAGTGTCTCATCAGGAAGCTGGGTTCGAAGA
66 GAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCAGTACCTCATCAGGAAGCTGGGTTCGAAGA
*
33485066 TTTGCTCG
131 TTCGCTCG
33485074 TGTTGCTTCA
Statistics
Matches: 495, Mismatches: 43, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
200 495 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (200 bp):
TTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCATCAG
GAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCAGTACCTCATCAGGAAGCTGGGTTCGAAGA
TTCGCTCGCGTTAAGCATTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCATCTCG
CTTGC
Found at i:33492468 original size:21 final size:21
Alignment explanation
Indices: 33492419--33492469 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
33492409 AATTCCTTGT
33492419 ATTGCCTGAATTTTCTCCTCCA
1 ATTGCCT-AATTTTCTCCTCCA
*
33492441 ATAGCCTATATTTT-TCCTCCA
1 ATTGCCTA-ATTTTCTCCTCCA
*
33492462 TTTGCCTA
1 ATTGCCTA
33492470 GGGAGGTCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.20, C:0.29, G:0.08, T:0.43
Consensus pattern (21 bp):
ATTGCCTAATTTTCTCCTCCA
Found at i:33497173 original size:58 final size:59
Alignment explanation
Indices: 33497094--33497288 Score: 249
Period size: 59 Copynumber: 3.3 Consensus size: 59
33497084 TTTGACTTCT
** *
33497094 GGGGTAAAAAT-GTAATTTTTGGTGAAATCAGGGTTAAAAATAAAATTTTGAAAAGTTTA
1 GGGGT-AAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTA
* * * *
33497153 GGGGT-AAATGGTAATTTTTGGT-AAAACCGAGGTT-AAAATGGGATTTTGGAAAG-TTC
1 GGGGTAAAATGGTAATTTTTGGTGAAATCAG-GGTTAAAAATGGAATTTTGGAAAGTTTA
33497209 GAGGGTAAAATGGTAATTTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTA
1 G-GGGTAAAATGGTAA-TTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTA
33497270 -GGGTAAAATGGTAATTTTT
1 GGGGTAAAATGGTAATTTTT
33497289 CAAAAGTTTT
Statistics
Matches: 117, Mismatches: 11, Indels: 17
0.81 0.08 0.12
Matches are distributed among these distances:
56 3 0.03
57 28 0.24
58 30 0.26
59 31 0.26
60 23 0.20
61 2 0.02
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTA
Found at i:33497273 original size:59 final size:58
Alignment explanation
Indices: 33497095--33497288 Score: 252
Period size: 58 Copynumber: 3.3 Consensus size: 58
33497085 TTGACTTCTG
** *
33497095 GGGTAAAAAT-GTAATTTTTGGTGAAATCAGGGTTAAAAATAAAATTTTGAAAAGTTTA
1 GGGT-AAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTA
* * * *
33497153 GGGGT-AAATGGTAATTTTTGGT-AAAACCGAGGTT-AAAATGGGATTTTGGAAAGTTCGA
1 -GGGTAAAATGGTAATTTTTGGTGAAATCAG-GGTTAAAAATGGAATTTTGGAAAGTT-TA
33497211 GGGTAAAATGGTAATTTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTA
1 GGGTAAAATGGTAA-TTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTA
33497270 GGGTAAAATGGTAATTTTT
1 GGGTAAAATGGTAATTTTT
33497289 CAAAAGTTTT
Statistics
Matches: 117, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
57 30 0.26
58 31 0.26
59 31 0.26
60 25 0.21
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.35
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTA
Found at i:33497285 original size:28 final size:28
Alignment explanation
Indices: 33497137--33497287 Score: 96
Period size: 28 Copynumber: 5.2 Consensus size: 28
33497127 TTAAAAATAA
* *
33497137 AATTTTGAAAAGTTTAGGGGT-AAATGGT
1 AATTTTGGAAAGTTGA-GGGTAAAATGGT
*** *
33497165 AATTTTTGGTAAAACCGAGGTTAAAATGG-
1 AA-TTTTGG-AAAGTTGAGGGTAAAATGGT
*
33497194 GATTTTGGAAAGTTCGAGGGTAAAATGGT
1 AATTTTGGAAAGTT-GAGGGTAAAATGGT
*
33497223 AATTTTTTGGTGAAA--TCAGGGTTAAAAATGG-
1 AA--TTTT-G-GAAAGTTGAGGG-T-AAAATGGT
*
33497254 AATTTTGGAAAGTTTAGGGTAAAATGGT
1 AATTTTGGAAAGTTGAGGGTAAAATGGT
33497282 AATTTT
1 AATTTT
33497288 TCAAAAGTTT
Statistics
Matches: 95, Mismatches: 14, Indels: 28
0.69 0.10 0.20
Matches are distributed among these distances:
27 14 0.15
28 28 0.29
29 19 0.20
30 14 0.15
31 8 0.08
32 8 0.08
33 4 0.04
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (28 bp):
AATTTTGGAAAGTTGAGGGTAAAATGGT
Found at i:33497288 original size:29 final size:29
Alignment explanation
Indices: 33497139--33497331 Score: 98
Period size: 29 Copynumber: 6.6 Consensus size: 29
33497129 AAAAATAAAA
*
33497139 TTTTGAAAAGTTTAGGGGT-AAATGGTAAT
1 TTTTGGAAAGTTTA-GGGTAAAATGGTAAT
**** * *
33497168 TTTTGGTAAAACCGAGGTTAAAATGG-GA-
1 TTTTGG-AAAGTTTAGGGTAAAATGGTAAT
*
33497196 TTTTGGAAAGTTCGAGGGTAAAATGGTAATT
1 TTTTGGAAAGTT-TAGGGTAAAATGGTAA-T
*
33497227 TTTTGGTGAAA--TCAGGGTTAAAAATGG-AA-
1 TTTT-G-GAAAGTTTAGGG-T-AAAATGGTAAT
33497256 TTTTGGAAAGTTTAGGGTAAAATGGTAAT
1 TTTTGGAAAGTTTAGGGTAAAATGGTAAT
** * *
33497285 TTTTCAAAAGTTTTGGGGTCAAAAT-ATAAT
1 TTTTGGAAAG-TTTAGGGT-AAAATGGTAAT
*
33497315 TTAT-GAACAGTTTAGGG
1 TTTTGGAA-AGTTTAGGG
33497332 ACCTTTAAGC
Statistics
Matches: 126, Mismatches: 21, Indels: 34
0.70 0.12 0.19
Matches are distributed among these distances:
27 14 0.11
28 22 0.17
29 35 0.28
30 30 0.24
31 13 0.10
32 8 0.06
33 4 0.03
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (29 bp):
TTTTGGAAAGTTTAGGGTAAAATGGTAAT
Found at i:33499118 original size:12 final size:11
Alignment explanation
Indices: 33499084--33499126 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
33499074 AAATTTAAAC
*
33499084 TTAAAATAAAT
1 TTAAAATCAAT
33499095 TTAAAATCAAT
1 TTAAAATCAAT
*
33499106 TTAAACCTCAA-
1 TTAAA-ATCAAT
33499117 TTAAAATCAA
1 TTAAAATCAA
33499127 AAACTCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 4 0.14
11 20 0.71
12 4 0.14
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.33
Consensus pattern (11 bp):
TTAAAATCAAT
Found at i:33502949 original size:18 final size:18
Alignment explanation
Indices: 33502928--33503015 Score: 79
Period size: 18 Copynumber: 4.9 Consensus size: 18
33502918 TTAAGATTTA
* *
33502928 TTTTAAGTTTAAATTGGT
1 TTTTAAATTTAAATTTGT
* **
33502946 TTTTGAATTTAAATTTAA
1 TTTTAAATTTAAATTTGT
33502964 TTTTAAATTTAAATTTTGT
1 TTTTAAATTTAAA-TTTGT
* **
33502983 TTTAAAATTTAAA-TTAA
1 TTTTAAATTTAAATTTGT
*
33503000 ATTTAAATTTAAATTT
1 TTTTAAATTTAAATTT
33503016 ATATATGAAT
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
17 13 0.24
18 27 0.49
19 15 0.27
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTTAAATTTAAATTTGT
Found at i:33502999 original size:5 final size:6
Alignment explanation
Indices: 33502951--33503035 Score: 82
Period size: 6 Copynumber: 14.0 Consensus size: 6
33502941 TTGGTTTTTG
* * **
33502951 AATTTA AATTTA ATTTTA AATTTA AATTTT GTTTTAA AATTTA AA-TTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTT-A AATTTA AATTTA
* * *
33502999 AATTTA AATTTA AATTTA TATATG AATTTAA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTT-A AATTTA
33503036 TTATAAATAT
Statistics
Matches: 62, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
5 5 0.08
6 49 0.79
7 8 0.13
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (6 bp):
AATTTA
Found at i:33503043 original size:36 final size:34
Alignment explanation
Indices: 33502917--33503043 Score: 119
Period size: 36 Copynumber: 3.5 Consensus size: 34
33502907 TTAAACCCAT
* *
33502917 TTTAAGATTTATTTTAAGTTTAAATTGGTTTTTGAA
1 TTTAA-ATTTATTTTAAATTTAAATT-TTTTTTGAA
*
33502953 TTTAAATTTAATTTTAAATTTAAATTTTGTTTTAAAA
1 TTTAAATTT-ATTTTAAATTTAAATTTT-TTTT-GAA
* * * *
33502990 TTTAAATTAAATTTAAATTTAAATTTATATATGAA
1 TTTAAATTTATTTTAAATTTAAATTT-TTTTTGAA
*
33503025 TTTAAAATTTATTATAAAT
1 TTT-AAATTTATTTTAAAT
33503044 ATTGAAAATC
Statistics
Matches: 75, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
35 10 0.13
36 54 0.72
37 11 0.15
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATTTAAATTTTTTTTGAA
Found at i:33503043 original size:42 final size:42
Alignment explanation
Indices: 33502954--33503035 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
33502944 GTTTTTGAAT
* * *
33502954 TTAAATTTAATTTTAAATTTAAATTTTGTTTTAAAATTTAAA
1 TTAAATTTAAATTTAAATTTAAATTATGATTTAAAATTTAAA
*
33502996 TTAAATTTAAATTTAAATTTATA-TATGAATTTAAAATTTA
1 TTAAATTTAAATTTAAATTTAAATTATG-ATTTAAAATTTA
33503036 TTATAAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 3 0.09
42 32 0.91
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (42 bp):
TTAAATTTAAATTTAAATTTAAATTATGATTTAAAATTTAAA
Found at i:33503052 original size:20 final size:19
Alignment explanation
Indices: 33503003--33503043 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
33502993 AAATTAAATT
33503003 TAAATTT-AAATTTATATA
1 TAAATTTAAAATTTATATA
*
33503021 TGAATTTAAAATTTAT-TA
1 TAAATTTAAAATTTATATA
33503039 TAAAT
1 TAAAT
33503044 ATTGAAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TAAATTTAAAATTTATATA
Found at i:33503362 original size:25 final size:25
Alignment explanation
Indices: 33503334--33503397 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
33503324 AGCAAGTTGC
* *
33503334 CTCTGCCACCACCAGCTCTAAACTG
1 CTCTGCCACCACCAGCTCCAAACTA
*
33503359 CTCTGCCACCACCGGCTCCAAACTA
1 CTCTGCCACCACCAGCTCCAAACTA
*
33503384 CTCCGCCACCACCA
1 CTCTGCCACCACCA
33503398 CTGCTACAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.23, C:0.50, G:0.11, T:0.16
Consensus pattern (25 bp):
CTCTGCCACCACCAGCTCCAAACTA
Found at i:33505276 original size:29 final size:29
Alignment explanation
Indices: 33505244--33505455 Score: 129
Period size: 29 Copynumber: 7.3 Consensus size: 29
33505234 AAAATTTCAT
*
33505244 TTTTGCCCTCGATTTCACCAAAATTACCA
1 TTTTACCCTCGATTTCACCAAAATTACCA
* * *
33505273 TTTTACCCCCAAACTTTTA--AAAATT-CCA
1 TTTTACCCTC-GA-TTTCACCAAAATTACCA
*
33505301 TTTTTACCC-CTAATTTCACCAAAATTACCA
1 -TTTTACCCTC-GATTTCACCAAAATTACCA
** *
33505331 TTTTACCCCTAAACTTT--CTAAAATT-CCA
1 TTTTA-CCCTCGA-TTTCACCAAAATTACCA
** * *
33505359 TTTTAAGCTTGATTTTACCAAAAAATTACCA
1 TTTTACCCTCGATTTCACC--AAAATTACCA
* *
33505390 TTTTACCCTCGACCTTT--CCATAATT-CTA
1 TTTTACCCTCGA--TTTCACCAAAATTACCA
33505418 TTTTTACCCTCGATTTCACCAAAATTACCA
1 -TTTTACCCTCGATTTCACCAAAATTACCA
33505448 TTTTACCC
1 TTTTACCC
33505456 CTAAACTTCT
Statistics
Matches: 143, Mismatches: 20, Indels: 40
0.70 0.10 0.20
Matches are distributed among these distances:
26 3 0.02
27 10 0.07
28 17 0.12
29 72 0.50
30 17 0.12
31 21 0.15
33 3 0.02
ACGTcount: A:0.31, C:0.28, G:0.03, T:0.38
Consensus pattern (29 bp):
TTTTACCCTCGATTTCACCAAAATTACCA
Found at i:33505296 original size:58 final size:58
Alignment explanation
Indices: 33505234--33505479 Score: 282
Period size: 58 Copynumber: 4.2 Consensus size: 58
33505224 TAAGTTTTCC
* *
33505234 AAAATTTCATTTTTGCCCTCGATTTCACCAAAATTACCATTTTACCCCCAAACTTTTA
1 AAAATTCCATTTTTACCCTCGATTTCACCAAAATTACCATTTTACCCCCAAACTTTTA
* *
33505292 AAAATTCCATTTTTACCC-CTAATTTCACCAAAATTACCATTTTACCCCTAAACTTTCT-
1 AAAATTCCATTTTTACCCTC-GATTTCACCAAAATTACCATTTTACCCCCAAACTTT-TA
** * * * * * **
33505350 AAAATTCCA-TTTTAAGCTTGATTTTACCAAAAAATTACCATTTTACCCTCGACCTTTCC
1 AAAATTCCATTTTTACCCTCGATTTCACC--AAAATTACCATTTTACCCCCAAACTTTTA
* * * *
33505409 ATAATTCTATTTTTACCCTCGATTTCACCAAAATTACCATTTTACCCCTAAACTTCTA
1 AAAATTCCATTTTTACCCTCGATTTCACCAAAATTACCATTTTACCCCCAAACTTTTA
33505467 AAAATTCCATTTT
1 AAAATTCCATTTT
33505480 CGACCCTGAA
Statistics
Matches: 152, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
57 14 0.09
58 92 0.61
59 31 0.20
60 15 0.10
ACGTcount: A:0.32, C:0.27, G:0.02, T:0.39
Consensus pattern (58 bp):
AAAATTCCATTTTTACCCTCGATTTCACCAAAATTACCATTTTACCCCCAAACTTTTA
Found at i:33505323 original size:117 final size:116
Alignment explanation
Indices: 33505145--33505479 Score: 315
Period size: 117 Copynumber: 2.9 Consensus size: 116
33505135 TGGACTATCT
* * * ** * * *
33505145 AAAAATTA-CATTTTGACCCCTAAACTTTCTAACATTATATTCTTACCCTAAAACTTTC-CAAAA
1 AAAAATTACCATTTT-ACCCCCAAACTTTCAAAAATTCCATTTTTACCCT-CAA-TTTCACCAAA
* ** * *
33505208 ATTA-CATTTTTACCCTTAAGTTTTCCAAAATTTCATTTT-TGCCCTCGATTTCACC
63 ATTACCA-TTTTACCCCTAAACTTTCCAAAATTCCATTTTAAG--CTCGATTTCACC
*
33505263 -AAAATTACCATTTTACCCCCAAACTTTTAAAAATTCCATTTTTACCC-CTAATTTCACCAAAAT
1 AAAAATTACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTTACCCTC-AATTTCACCAAAAT
* * *
33505326 TACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTAAGCTTGATTTTACC
65 TACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAAGCTCGATTTCACC
* * * * * * *
33505378 AAAAAATTACCATTTTACCCTCGACCTTTCCATAATTCTATTTTTACCCTCGATTTCACCAAAAT
1 -AAAAATTACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTTACCCTCAATTTCACCAAAAT
*
33505443 TACCATTTTACCCCTAAAC-TTCTAAAAATTCCATTTT
65 TACCATTTTACCCCTAAACTTTC-CAAAATTCCATTTT
33505480 CGACCCTGAA
Statistics
Matches: 182, Mismatches: 26, Indels: 19
0.80 0.11 0.08
Matches are distributed among these distances:
115 14 0.08
116 40 0.22
117 121 0.66
118 7 0.04
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.39
Consensus pattern (116 bp):
AAAAATTACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTTACCCTCAATTTCACCAAAATT
ACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAAGCTCGATTTCACC
Found at i:33505500 original size:30 final size:29
Alignment explanation
Indices: 33505438--33505544 Score: 80
Period size: 29 Copynumber: 3.7 Consensus size: 29
33505428 CGATTTCACC
33505438 AAAATTACCATTTTACCCCTAAACTTCTA
1 AAAATTACCATTTTACCCCTAAACTTCTA
33505467 AAAATT-CCATTTT-CGACCCTGAAACTT-TCA
1 AAAATTACCATTTTAC--CCCT-AAACTTCT-A
* * * *
33505497 AAAATTA-TATTTTTTCCCCCGAAAC-TCAA
1 AAAATTACCA--TTTTACCCCTAAACTTCTA
*
33505526 AAAATTACTATTTTACCCC
1 AAAATTACCATTTTACCCC
33505545 CAGATGTCCA
Statistics
Matches: 64, Mismatches: 4, Indels: 21
0.72 0.04 0.24
Matches are distributed among these distances:
27 1 0.02
28 15 0.23
29 20 0.31
30 20 0.31
31 3 0.05
32 4 0.06
33 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCTAAACTTCTA
Found at i:33505647 original size:59 final size:59
Alignment explanation
Indices: 33505584--33505721 Score: 160
Period size: 58 Copynumber: 2.4 Consensus size: 59
33505574 TGTTTTTTTT
* *
33505584 AAAAATTACCGTTTTACCCTCAAATG-TTT-AAAATATCATTTTTAACCCTAAATTTT-ACC
1 AAAAATTACCATTTTACCCTCAAA-GCTTTCAAAATACCATTTTTAACCC--AATTTTAACC
* * *
33505643 AAAAATTACCATTTTACCC-CCAAGCTTTCCAAAATCCCATTTTTGACCCAATTTTAACC
1 AAAAATTACCATTTTACCCTCAAAGCTTT-CAAAATACCATTTTTAACCCAATTTTAACC
33505702 -AAAATTACCATTTTACCCTC
1 AAAAATTACCATTTTACCCTC
33505722 GAGTATCCAA
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
57 1 0.01
58 30 0.43
59 22 0.32
60 16 0.23
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.36
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCTCAAAGCTTTCAAAATACCATTTTTAACCCAATTTTAACC
Found at i:33505715 original size:30 final size:29
Alignment explanation
Indices: 33505620--33505715 Score: 81
Period size: 29 Copynumber: 3.2 Consensus size: 29
33505610 TTTAAAATAT
33505620 CATTTTTAACCCTAAATTTTACCAAAAATTAC
1 CATTTTTAACCC--AATTTTACC-AAAATTAC
* * *
33505652 CA-TTTTACCCCCAAGCTTT-CCAAAA-TCC
1 CATTTTTA-ACCCAA-TTTTACCAAAATTAC
*
33505680 CATTTTTGACCCAATTTTAACCAAAATTAC
1 CATTTTTAACCCAATTTT-ACCAAAATTAC
33505710 CATTTT
1 CATTTT
33505716 ACCCTCGAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
27 3 0.06
28 9 0.18
29 14 0.27
30 12 0.24
31 8 0.16
32 5 0.10
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.36
Consensus pattern (29 bp):
CATTTTTAACCCAATTTTACCAAAATTAC
Found at i:33511348 original size:13 final size:12
Alignment explanation
Indices: 33511281--33511349 Score: 50
Period size: 13 Copynumber: 5.5 Consensus size: 12
33511271 AGATGCAATG
33511281 AAGAAAAACAAA
1 AAGAAAAACAAA
* * *
33511293 TAAAAAAGAAGAGA
1 -AAGAAA-AACAAA
*
33511307 AAGAAAAA-GAA
1 AAGAAAAACAAA
*
33511318 AAGCAAAAACAAG
1 AAG-AAAAACAAA
33511331 AAGAAAAACAAA
1 AAGAAAAACAAA
33511343 ATAGAAA
1 A-AGAAA
33511350 GGAGAGGTCG
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
11 4 0.09
12 16 0.37
13 19 0.44
14 4 0.09
ACGTcount: A:0.77, C:0.06, G:0.14, T:0.03
Consensus pattern (12 bp):
AAGAAAAACAAA
Found at i:33512837 original size:101 final size:100
Alignment explanation
Indices: 33512694--33513365 Score: 681
Period size: 101 Copynumber: 6.7 Consensus size: 100
33512684 ATCTCAGAAG
* * * * * *
33512694 ACACGACGGGAAAGATCTAAGATCGCAACGGCGGCTCTAGTACCGCAAAAACACAAAAGGGAAAG
1 ACACGAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAG
** *
33512759 GTCTAAGTCGCAATAGAGGACCGTGTACCTCAGAA
66 GTCTAAGTCGCAACGGAGGACCGTGTACCTCAAAA
* * * *
33512794 GCAGGGAAGGGAAAGATCTAAAACCGTAATGGCAGATCCAGTACCGCAAAAAACACAAAAGGGAA
1 ACA-CGAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGC-AAAAACACAAAAGGGAA
*
33512859 AGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAAAA
64 AGGTCTAAGTCGCAACGGAGGACCGTGTACCTCAAAA
* * *
33512896 ACACGACGGGAAAGATCTAAGACCGC-A-CG-A-ATCTAGTACCGCAAAAACACAAAAGGGAAAG
1 ACACGAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAG
* * * * * * *
33512957 GTCTAAGTCGTAACGGCGGATCATGTTCCTTAGAA
66 GTCTAAGTCGCAACGGAGGACCGTGTACCTCAAAA
* * * * * * *
33512992 GCATGGAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACTGTAAAAATAGAAAAGGGAAT
1 ACA-CGAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAA
* *
33513057 GGTCTAAGTCGCAATGGCA-GACTGTGTACCTCAAAAA
65 GGTCTAAGTCGCAACGG-AGGACCGTGTACCTC-AAAA
* * * * *
33513094 ACACGACGGGAAAGATCTAAGATCGCAATGACGGATCTAGTACCGCAAAAACACAAAAGGGAAAG
1 ACACGAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAG
* * * *
33513159 GTCTGAGTCGCAACGGCGGACCATGTACCTCAGAA
66 GTCTAAGTCGCAACGGAGGACCGTGTACCTCAAAA
* * * * * * * **
33513194 GCATGGGAGGGAAAGATCTAAGACTGTAATGGCAGATCCAGTACCGCAAAAATAGAAAAATGAAA
1 ACA-CGAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAA
33513259 GGTCTAAGTCGCAAC-GACGGACCGTGTACCTCAAAAA
65 GGTCTAAGTCGCAACGGA-GGACCGTGTACCTC-AAAA
* * * * * * * *
33513296 ACACGACGGGAAAGATCTAAAAACCACAACGACAGATCCAGTAACGTAAAAAGACAAAAGGGAAA
1 ACACGAAGGGAAAGATCT-AAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAA
*
33513361 AGTCT
65 GGTCT
33513366 TTCTCTCTCT
Statistics
Matches: 459, Mismatches: 99, Indels: 26
0.79 0.17 0.04
Matches are distributed among these distances:
96 50 0.11
97 32 0.07
98 2 0.00
99 2 0.00
100 10 0.02
101 263 0.57
102 100 0.22
ACGTcount: A:0.40, C:0.21, G:0.25, T:0.14
Consensus pattern (100 bp):
ACACGAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAG
GTCTAAGTCGCAACGGAGGACCGTGTACCTCAAAA
Found at i:33513093 original size:50 final size:50
Alignment explanation
Indices: 33512701--33513295 Score: 168
Period size: 50 Copynumber: 11.9 Consensus size: 50
33512691 AAGACACGAC
* * * * * *
33512701 GGGAAAGATCTAAGATCGCAACGGCGG-CTCTAGTACCGCAAAAACACAAAA
1 GGGAAAGGTCTAAG-TCGCAATGGCGGACTGT-GTACCTCAAAAATAGAAAA
* * * * ** **
33512752 GGGAAAGGTCTAAGTCGCAATAGAGGACCGTGTACCTCAGAAGCAGGGAA
1 GGGAAAGGTCTAAGTCGCAATGGCGGACTGTGTACCTCAAAAATAGAAAA
* ** * * ** * * *
33512802 GGGAAAGATCTAAAACCGTAATGGCAGA-TCCAGTACCGCAAAAAACACAAAA
1 GGGAAAGGTCT-AAGTCGCAATGGCGGACT-GTGTACCTC-AAAAATAGAAAA
* * * *
33512854 GGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAAAAACACG--AC
1 GGGAAAGGTCTAAGTCGCAATGGCGGACTGTGTACCTCAAAAATA-GAAAA
* * * * * * *
33512903 GGGAAAGATCTAAGACCGC-A---CGAATCT-AGTACCGCAAAAACACAAAA
1 GGGAAAGGTCTAAG-TCGCAATGGCGGA-CTGTGTACCTCAAAAATAGAAAA
* * * * *
33512950 GGGAAAGGTCTAAGTCGTAACGGCGGATCATGT-T-CCTTAGAAGCAT-G-GAA
1 GGGAAAGGTCTAAGTCGCAATGGCGGA-C-TGTGTACCTCA-AA-AATAGAAAA
* * * ** *
33513000 GGGAAAGATCTAAGACCGCAATGGCAGA-TCCAGTA-CTGTAAAAATAGAAAA
1 GGGAAAGGTCTAAG-TCGCAATGGCGGACT-GTGTACCT-CAAAAATAGAAAA
* * * * *
33513051 GGGAATGGTCTAAGTCGCAATGGCAGACTGTGTACCTCAAAAA-ACACGAC
1 GGGAAAGGTCTAAGTCGCAATGGCGGACTGTGTACCTCAAAAATAGA-AAA
* * * * * *
33513101 GGGAAAGATCTAAGATCGCAATGACGGATCT-AGTACCGCAAAAACACAAAA
1 GGGAAAGGTCTAAG-TCGCAATGGCGGA-CTGTGTACCTCAAAAATAGAAAA
* * ** * **
33513152 GGGAAAGGTCTGAGTCGCAACGGCGGACCATGTACCTCAGAAGCAT-G-GGA
1 GGGAAAGGTCTAAGTCGCAATGGCGGACTGTGTACCTCA-AA-AATAGAAAA
* * * * ** *
33513202 GGGAAAGATCTAAGACTGTAATGGCAGA-TCCAGTACCGCAAAAATAGAAAA
1 GGGAAAGGTCTAAGTC-GCAATGGCGGACT-GTGTACCTCAAAAATAGAAAA
** * * *
33513253 ATGAAAGGTCTAAGTCGCAACGACGGACCGTGTACCTCAAAAA
1 GGGAAAGGTCTAAGTCGCAATGGCGGACTGTGTACCTCAAAAA
33513296 ACACGACGGG
Statistics
Matches: 383, Mismatches: 122, Indels: 79
0.66 0.21 0.14
Matches are distributed among these distances:
46 18 0.05
47 16 0.04
48 1 0.00
49 22 0.06
50 157 0.41
51 145 0.38
52 24 0.06
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.15
Consensus pattern (50 bp):
GGGAAAGGTCTAAGTCGCAATGGCGGACTGTGTACCTCAAAAATAGAAAA
Found at i:33513207 original size:202 final size:202
Alignment explanation
Indices: 33512694--33513365 Score: 933
Period size: 202 Copynumber: 3.3 Consensus size: 202
33512684 ATCTCAGAAG
* * *
33512694 ACACGACGGGAAAGATCTAAGATCGCAACGGCGGCTCTAGTACCGCAAAAACACAAAAGGGAAAG
1 ACACGACGGGAAAGATCTAAGACCGCAACGACGGATCTAGTACCGCAAAAACACAAAAGGGAAAG
** * * *
33512759 GTCTAAGTCGCAATAGAGGACCGTGTACCTCAGAAGCA-GGGAAGGGAAAGATCTAAAACCGTAA
66 GTCTAAGTCGCAACGGCGGACCATGTACCTCAGAAGCATGGG-AGGGAAAGATCTAAGACCGTAA
* *
33512823 TGGCAGATCCAGTACCGCAAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTA
130 TGGCAGATCCAGTACCG-AAAAAATAGAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTA
33512888 CCTC-AAAA
194 CCTCAAAAA
33512896 ACACGACGGGAAAGATCTAAGACCGC-ACGA---ATCTAGTACCGCAAAAACACAAAAGGGAAAG
1 ACACGACGGGAAAGATCTAAGACCGCAACGACGGATCTAGTACCGCAAAAACACAAAAGGGAAAG
* * * * * *
33512957 GTCTAAGTCGTAACGGCGGATCATGTTCCTTAGAAGCATGGAAGGGAAAGATCTAAGACCGCAAT
66 GTCTAAGTCGCAACGGCGGACCATGTACCTCAGAAGCATGGGAGGGAAAGATCTAAGACCGTAAT
* * * * * *
33513022 GGCAGATCCAGTACTGTAAAAATAGAAAAGGGAATGGTCTAAGTCGCAATGGCAGACTGTGTACC
131 GGCAGATCCAGTACCGAAAAAATAGAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACC
33513087 TCAAAAA
196 TCAAAAA
* *
33513094 ACACGACGGGAAAGATCTAAGATCGCAATGACGGATCTAGTACCGCAAAAACACAAAAGGGAAAG
1 ACACGACGGGAAAGATCTAAGACCGCAACGACGGATCTAGTACCGCAAAAACACAAAAGGGAAAG
* *
33513159 GTCTGAGTCGCAACGGCGGACCATGTACCTCAGAAGCATGGGAGGGAAAGATCTAAGACTGTAAT
66 GTCTAAGTCGCAACGGCGGACCATGTACCTCAGAAGCATGGGAGGGAAAGATCTAAGACCGTAAT
* ** *
33513224 GGCAGATCCAGTACCGCAAAAATAGAAAAATGAAAGGTCTAAGTCGCAACGACGGACCGTGTACC
131 GGCAGATCCAGTACCGAAAAAATAGAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACC
33513289 TCAAAAA
196 TCAAAAA
* * * * * * *
33513296 ACACGACGGGAAAGATCTAAAAACCACAACGACAGATCCAGTAACGTAAAAAGACAAAAGGGAAA
1 ACACGACGGGAAAGATCT-AAGACCGCAACGACGGATCTAGTACCGCAAAAACACAAAAGGGAAA
*
33513361 AGTCT
65 GGTCT
33513366 TTCTCTCTCT
Statistics
Matches: 412, Mismatches: 51, Indels: 13
0.87 0.11 0.03
Matches are distributed among these distances:
197 44 0.11
198 125 0.30
199 5 0.01
201 3 0.01
202 194 0.47
203 41 0.10
ACGTcount: A:0.40, C:0.21, G:0.25, T:0.14
Consensus pattern (202 bp):
ACACGACGGGAAAGATCTAAGACCGCAACGACGGATCTAGTACCGCAAAAACACAAAAGGGAAAG
GTCTAAGTCGCAACGGCGGACCATGTACCTCAGAAGCATGGGAGGGAAAGATCTAAGACCGTAAT
GGCAGATCCAGTACCGAAAAAATAGAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACC
TCAAAAA
Found at i:33514209 original size:40 final size:40
Alignment explanation
Indices: 33514154--33514400 Score: 140
Period size: 40 Copynumber: 5.6 Consensus size: 40
33514144 ACGTCAATTC
33514154 TTATCCTCTTGAAGTTATAGTAAAGTTGGATAACAAACCT
1 TTATCCTCTTGAAGTTATAGTAAAGTTGGATAACAAACCT
* ***
33514194 TTAT-CTCTCTGAAGTTATAATAAGAGCAAGATGAAGCTTCAAACGTCAATT
1 TTATCCTCT-TGAAGTTATAGTAA-AGTTGGAT-AA----CAAAC--C---T
*
33514245 CTTATCCTCTTGAAGTTATAGTAAAGTTGGATAACGAACCT
1 -TTATCCTCTTGAAGTTATAGTAAAGTTGGATAACAAACCT
***
33514286 TTAT-CTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATT
1 TTATCCTCT-TGAAGTTATAGTAA-AGTTGGAT-AA----CAAAC--C---T
* *
33514337 CTTATCCTCTTGAAGTTGTAGTAAAGTTGGATAACGAACCT
1 -TTATCCTCTTGAAGTTATAGTAAAGTTGGATAACAAACCT
33514378 TTAT-CTCTCTGAAGTTATAGTAA
1 TTATCCTCT-TGAAGTTATAGTAA
33514401 GAGCAAGATG
Statistics
Matches: 159, Mismatches: 19, Indels: 58
0.67 0.08 0.25
Matches are distributed among these distances:
39 12 0.08
40 52 0.33
41 12 0.08
42 4 0.03
44 2 0.01
46 17 0.11
48 2 0.01
50 4 0.03
51 12 0.08
52 34 0.21
53 8 0.05
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Consensus pattern (40 bp):
TTATCCTCTTGAAGTTATAGTAAAGTTGGATAACAAACCT
Found at i:33514473 original size:92 final size:92
Alignment explanation
Indices: 33513363--33514466 Score: 1929
Period size: 92 Copynumber: 12.0 Consensus size: 92
33513353 AAGGGAAAAG
* * *
33513363 TCTTTCTCTCTCTGAAGTTATAGTAAGAGCAAGATAAAGCTTCAAACATCAATTCTTATCCTCTT
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTT
*
33513428 GAAGTTATAGTAAAGTTGGATAGCGAA
66 GAAGTTATAGTAAAGTTGGATAACGAA
* * * * *
33513455 TCTTTATCTCTCTGAAGTTATAGTAAGAGTAATATGAAGTTTCAAATGTCAATTCTCATCCTCTT
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTT
33513520 GAAGTTATAGTAAAGTTGGATAACGAA
66 GAAGTTATAGTAAAGTTGGATAACGAA
* * * *
33513547 TCTTTATCTCTCTGAAGTTATAGTAACAGCAAGATGAAGTTTCAAATGTCAATTCTCATCCTCTT
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTT
33513612 GAAGTTATAGTAAAGTTGGATAACGAA
66 GAAGTTATAGTAAAGTTGGATAACGAA
* * *
33513639 TCTTTATTTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAATGTCAATTCTTATCCTCTT
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTT
33513704 GAAGTTATAGTAAAGTTGGATAACGAA
66 GAAGTTATAGTAAAGTTGGATAACGAA
* * *
33513731 TCTTTATCTCTCTGAAGTTATAGTAACAGCAAGATGAAGTTTCAAACATCAATTCTTATCCTCTT
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTT
33513796 GAAGTTATAGTAAAGTTGGATAACGAA
66 GAAGTTATAGTAAAGTTGGATAACGAA
*
33513823 TCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTATCCTCTT
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTT
33513888 GAAGTTATAGTAAAGTTGGATAACGAA
66 GAAGTTATAGTAAAGTTGGATAACGAA
*
33513915 TCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTATCCTCTT
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTT
33513980 GAAGTTATAGTAAAGTTGGATAACGAA
66 GAAGTTATAGTAAAGTTGGATAACGAA
*
33514007 TCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATAAAGCTTCAAACGTCAATTCTTATCCTCTT
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTT
33514072 GAAGTTATAGTAAAGTTGGATAACGAA
66 GAAGTTATAGTAAAGTTGGATAACGAA
*
33514099 CCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTT
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTT
*
33514164 GAAGTTATAGTAAAGTTGGATAACAAA
66 GAAGTTATAGTAAAGTTGGATAACGAA
* *
33514191 CCTTTATCTCTCTGAAGTTATAATAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTT
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTT
33514256 GAAGTTATAGTAAAGTTGGATAACGAA
66 GAAGTTATAGTAAAGTTGGATAACGAA
*
33514283 CCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTT
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTT
*
33514348 GAAGTTGTAGTAAAGTTGGATAACGAA
66 GAAGTTATAGTAAAGTTGGATAACGAA
* * *
33514375 CCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACATCATTTCTTATCCTCTT
1 TCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTT
33514440 GAAGTTATAGTAAAGTTGGATAACGAA
66 GAAGTTATAGTAAAGTTGGATAACGAA
33514467 CGTTTATATA
Statistics
Matches: 979, Mismatches: 33, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 979 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (92 bp):
TCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTT
GAAGTTATAGTAAAGTTGGATAACGAA
Found at i:33514482 original size:28 final size:28
Alignment explanation
Indices: 33514445--33514501 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
33514435 CTCTTGAAGT
*
33514445 TATAGTAAAGTTGGATAACGAACGTTTA
1 TATAGTAAAGTTGGATAACGAACCTTTA
33514473 TATAGTAAAGTTGGATAACGAACCTTTA
1 TATAGTAAAGTTGGATAACGAACCTTTA
33514501 T
1 T
33514502 CTCTCTGAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (28 bp):
TATAGTAAAGTTGGATAACGAACCTTTA
Found at i:33514568 original size:120 final size:120
Alignment explanation
Indices: 33514355--33514593 Score: 433
Period size: 120 Copynumber: 2.0 Consensus size: 120
33514345 CTTGAAGTTG
33514355 TAGTAAAGTTGGATAACGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAA
1 TAGTAAAGTTGGATAACGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAA
*
33514420 ACATCATTTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAACGAACGTTTATA
66 ACATCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAACGAACGTTTATA
*
33514475 TAGTAAAGTTGGATAACGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTTAA
1 TAGTAAAGTTGGATAACGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAA
* * *
33514540 ACGTCAATTCTTATCCTCTTGAAGTTATAGTATAGTTGGATAACGAACTTTTAT
66 ACATCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAACGAACGTTTAT
33514594 CTCTCTGAAG
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 114 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (120 bp):
TAGTAAAGTTGGATAACGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAA
ACATCAATTCTTATCCTCTTGAAGTTATAGTAAAGTTGGATAACGAACGTTTATA
Found at i:33514922 original size:6 final size:6
Alignment explanation
Indices: 33514911--33514978 Score: 57
Period size: 6 Copynumber: 11.3 Consensus size: 6
33514901 TTGATTTTTG
* **
33514911 AATTTA AATTTA AATTTT GTTTTAA AATTTA AATTT- AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTT-A AATTTA AATTTA AATTTA AATTTA
* * * *
33514959 GATTTA TATATG AATTTA AA
1 AATTTA AATTTA AATTTA AA
33514979 ACTTATTATA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
5 5 0.11
6 39 0.83
7 3 0.06
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (6 bp):
AATTTA
Found at i:33514933 original size:25 final size:24
Alignment explanation
Indices: 33514889--33514948 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
33514879 TAAGATTTAT
* **
33514889 TTTAAGTTTAAATTGATTTTTGAA
1 TTTAAATTTAAATTGATTTTAAAA
33514913 TTTAAATTTAAATTTTG-TTTTAAAA
1 TTTAAATTTAAA--TTGATTTTAAAA
33514938 TTTAAATTTAA
1 TTTAAATTTAA
33514949 TTTAAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.35
25 17 0.55
26 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (24 bp):
TTTAAATTTAAATTGATTTTAAAA
Found at i:33515346 original size:28 final size:25
Alignment explanation
Indices: 33515282--33515344 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
33515272 AGCAAGTTGC
* *
33515282 CTCTGCCACCACCGGCTCTAAACTG
1 CTCTGCCACCACCGGCTCCAAACTA
33515307 CTCTGCCACCACCGGCTCCAAACTA
1 CTCTGCCACCACCGGCTCCAAACTA
33515332 CTCTGCCACCACC
1 CTCTGCCACCACC
33515345 ACTACTAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.21, C:0.49, G:0.13, T:0.17
Consensus pattern (25 bp):
CTCTGCCACCACCGGCTCCAAACTA
Found at i:33517128 original size:30 final size:30
Alignment explanation
Indices: 33517088--33517170 Score: 114
Period size: 30 Copynumber: 2.8 Consensus size: 30
33517078 CCCTAGACTA
*
33517088 TCCAAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAAATTACATTTTAACCCCAAAAC-TT
* *
33517119 TCC-AAAATTATATTTTAACACCAAAACTT
1 TCCAAAAATTACATTTTAACCCCAAAACTT
*
33517148 TCCAAAAATTACATTTTTACCCC
1 TCCAAAAATTACATTTTAACCCC
33517171 CTATTTTTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 5 0.11
30 37 0.82
31 3 0.07
ACGTcount: A:0.40, C:0.25, G:0.01, T:0.34
Consensus pattern (30 bp):
TCCAAAAATTACATTTTAACCCCAAAACTT
Found at i:33517205 original size:29 final size:29
Alignment explanation
Indices: 33517152--33517486 Score: 125
Period size: 29 Copynumber: 11.5 Consensus size: 29
33517142 AAACTTTCCA
* * *
33517152 AAAATTACATTTTTACCCCCTATTTTTTC
1 AAAATTCCATTTTTACCCTCGATTTTTTC
* * ***
33517181 AAAATTCTATTTTTGCCCTCGATTTCACC
1 AAAATTCCATTTTTACCCTCGATTTTTTC
*
33517210 AAAATTACCA-TTTTACCC-CTGA-ATTTTC
1 AAAATT-CCATTTTTACCCTC-GATTTTTTC
* ***
33517238 CAAATTCCATTTTTACCCTCGATTTCACC
1 AAAATTCCATTTTTACCCTCGATTTTTTC
* ***
33517267 AAAATTACCA-TTTTACCC-CTAAACTTTC
1 AAAATT-CCATTTTTACCCTCGATTTTTTC
* **
33517295 TAAAATTCCATTTTTAACCC-CAATTTTACC
1 -AAAATTCCATTTTT-ACCCTCGATTTTTTC
* * * ** *
33517325 AAAAATTATCA-TTTTGCCCTCAAACTTTCC
1 -AAAATT-CCATTTTTACCCTCGATTTTTTC
***
33517355 AAAATTCCATTTTTACCCTCGATTTCACC
1 AAAATTCCATTTTTACCCTCGATTTTTTC
* ** *
33517384 AAAATTAC-TATTTTACCCCTAAACTTTTT-
1 AAAATTCCAT-TTTTA-CCCTCGATTTTTTC
* **
33517413 AAAATTCCATATTTAACCC-CGATTTTACC
1 AAAATTCCAT-TTTTACCCTCGATTTTTTC
* **
33517442 AAAAATTACCATTTTT-CCCTTGAACTTTTC
1 -AAAATT-CCATTTTTACCCTCGATTTTTTC
*
33517472 AAAATCCCATTTTTA
1 AAAATTCCATTTTTA
33517487 ACCCCAATTT
Statistics
Matches: 219, Mismatches: 67, Indels: 40
0.67 0.21 0.12
Matches are distributed among these distances:
27 3 0.01
28 39 0.18
29 114 0.52
30 57 0.26
31 6 0.03
ACGTcount: A:0.31, C:0.27, G:0.02, T:0.40
Consensus pattern (29 bp):
AAAATTCCATTTTTACCCTCGATTTTTTC
Found at i:33517389 original size:117 final size:117
Alignment explanation
Indices: 33517177--33517755 Score: 531
Period size: 117 Copynumber: 5.0 Consensus size: 117
33517167 CCCCCTATTT
* * * * * *
33517177 TTTC-AAAATTCTATTTTT-GCCCTCGATTTCACC-AAAATTACCATTTTACCC-CTGAATTTTC
1 TTTCTAAAATTCCATTTTTAACCC-CAATTTTACCAAAAATTACCATTTTACCCTC-AAACTTTC
*
33517238 C-AAATTCCATTTTTACCCTCGATTTCACCAAAATTACCATTTTACCCCTAAAC
64 CAAAATCCCATTTTTACCCTCGATTTCACCAAAATTACCATTTTACCCCTAAAC
* *
33517291 TTTCTAAAATTCCATTTTTAACCCCAATTTTACCAAAAATTATCATTTTGCCCTCAAACTTTCCA
1 TTTCTAAAATTCCATTTTTAACCCCAATTTTACCAAAAATTACCATTTTACCCTCAAACTTTCCA
* *
33517356 AAATTCCATTTTTACCCTCGATTTCACCAAAATTACTATTTTACCCCTAAAC
66 AAATCCCATTTTTACCCTCGATTTCACCAAAATTACCATTTTACCCCTAAAC
* * * * ** *
33517408 TTTTTAAAATTCCATATTTAACCCCGATTTTACCAAAAATTACCATTTTTCCCTTGAACTTTTCA
1 TTTCTAAAATTCCATTTTTAACCCCAATTTTACCAAAAATTACCATTTTACCCTCAAACTTTCCA
* *
33517473 AAATCCCATTTTTAACCC-CAATTTTACCAAAAATTACCATTTTACCCCTAAAC
66 AAATCCCATTTTT-ACCCTCGATTTCACC-AAAATTACCATTTTACCCCTAAAC
* * ** ** ** * * * * *
33517526 TTCCAAAAATTATATTTTTGCCCCCGAA-ACT-CAAAAAATTACTATTTTACCCCCAGA-TGTCC
1 TTTCTAAAATTCCATTTTTAACCCC-AATTTTACCAAAAATTACCATTTTACCCTCAAACTTTCC
** **** * * *
33517588 AAAAATCCCATTTTTGATACT-GATTTTTTTGAAAATTACCGTTGTACCCTTAAA-
65 -AAAATCCCATTTTT-ACCCTCGA-TTTCACCAAAATTACCATTTTACCCCTAAAC
*
33517642 TGTT-TAAAATGT-CATTTTTAACCCTAGATTTTACCAAAAATTACCATTTTACCC-CTAAACTT
1 T-TTCTAAAAT-TCCATTTTTAACCCCA-ATTTTACCAAAAATTACCATTTTACCCTC-AAACTT
* *
33517704 TCCAAAATCCCATTTTTAACC-CAATTTCAACCAAAATTACCATTTTACCCCT
62 TCCAAAATCCCATTTTTACCCTCGATTTC-ACCAAAATTACCATTTTACCCCT
33517756 GAGTTTCCAA
Statistics
Matches: 372, Mismatches: 73, Indels: 37
0.77 0.15 0.08
Matches are distributed among these distances:
114 4 0.01
115 22 0.06
116 48 0.13
117 209 0.56
118 84 0.23
119 5 0.01
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (117 bp):
TTTCTAAAATTCCATTTTTAACCCCAATTTTACCAAAAATTACCATTTTACCCTCAAACTTTCCA
AAATCCCATTTTTACCCTCGATTTCACCAAAATTACCATTTTACCCCTAAAC
Found at i:33517447 original size:30 final size:29
Alignment explanation
Indices: 33517413--33517520 Score: 82
Period size: 30 Copynumber: 3.7 Consensus size: 29
33517403 TAAACTTTTT
33517413 AAAATT-CCATATTTAACCCCGATTTTACCA
1 AAAATTACCAT-TTT-ACCCCGATTTTACCA
* *
33517443 AAAATTACCATTTTTCCCTTGAACTTTT--C-
1 AAAATTACCATTTTACCC-CG-A-TTTTACCA
* *
33517472 AAAA-TCCCATTTTTAACCCCAATTTTACCA
1 AAAATTACCA-TTTT-ACCCCGATTTTACCA
33517502 AAAATTACCATTTTACCCC
1 AAAATTACCATTTTACCCC
33517521 TAAACTTCCA
Statistics
Matches: 61, Mismatches: 7, Indels: 21
0.69 0.08 0.24
Matches are distributed among these distances:
27 4 0.07
28 5 0.08
29 17 0.28
30 22 0.36
31 9 0.15
32 4 0.07
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCGATTTTACCA
Found at i:33517476 original size:59 final size:58
Alignment explanation
Indices: 33517092--33517755 Score: 430
Period size: 59 Copynumber: 11.3 Consensus size: 58
33517082 AGACTATCCA
* ** *** *
33517092 AAAATTA-CATTTTGACCCCAAAACTTTTCCAAAATTATATTTTAACACCAAAACTTTC-CA
1 AAAATTACCATTTT-ACCCCTAAACTTTT-CAAAATTCCATTTTAAC-CCTCGA-TTTCACC
** * **
33517152 AAAATTA-CATTTTTACCCCCT-ATTTTTTCAAAATTCTATTTTTGCCCTCGATTTCACC
1 AAAATTACCA-TTTTA-CCCCTAAACTTTTCAAAATTCCATTTTAACCCTCGATTTCACC
* * *
33517210 AAAATTACCATTTTACCCCTGAA-TTTTCCAAATTCCATTTTTACCCTCGATTTCACC
1 AAAATTACCATTTTACCCCTAAACTTTTCAAAATTCCATTTTAACCCTCGATTTCACC
* *
33517267 AAAATTACCATTTTACCCCTAAAC-TTTCTAAAATTCCATTTTTAACCC-CAATTTTACC
1 AAAATTACCATTTTACCCCTAAACTTTTC-AAAATTCCA-TTTTAACCCTCGATTTCACC
* * * *
33517325 AAAAATTATCATTTT-GCCCTCAAACTTTCCAAAATTCCATTTTTACCCTCGATTTCACC
1 -AAAATTACCATTTTACCCCT-AAACTTTTCAAAATTCCATTTTAACCCTCGATTTCACC
* * *
33517384 AAAATTACTATTTTACCCCTAAACTTTTTAAAATTCCATATTTAACCC-CGATTTTACC
1 AAAATTACCATTTTACCCCTAAACTTTTCAAAATTCCAT-TTTAACCCTCGATTTCACC
* * * * * *
33517442 AAAAATTACCATTTTTCCCTTGAACTTTTCAAAATCCCATTTTTAACCC-CAATTTTACC
1 -AAAATTACCATTTTACCCCTAAACTTTTCAAAATTCCA-TTTTAACCCTCGATTTCACC
* ** ** * ** *
33517501 AAAAATTACCATTTTACCCCTAAAC-TTCCAAAAATTATATTTTTGCCCCCGAAACTCA-A
1 -AAAATTACCATTTTACCCCTAAACTTTTC-AAAATTCCATTTTAACCCTCG-ATTTCACC
* * * * * * * ** ****
33517560 AAAATTACTATTTTACCCCCAGA-TGTCCAAAAATCCCATTTTTGATACT-GATTTTTTTG
1 AAAATTACCATTTTACCCCTAAACTTTTC-AAAATTCCA-TTTTAACCCTCGA-TTTCACC
* * * * *
33517619 AAAATTACCGTTGTACCCTTAAA-TGTTT-AAAATGT-CATTTTTAACCCTAGATTTTACC
1 AAAATTACCATTTTACCCCTAAACT-TTTCAAAAT-TCCA-TTTTAACCCTCGATTTCACC
* * *
33517677 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAA-CC-CAATTTCAACC
1 -AAAATTACCATTTTACCCCTAAACTTTTCAAAATTCCA-TTTTAACCCTCGATTTC-ACC
33517736 AAAATTACCATTTTACCCCT
1 AAAATTACCATTTTACCCCT
33517756 GAGTTTCCAA
Statistics
Matches: 480, Mismatches: 93, Indels: 64
0.75 0.15 0.10
Matches are distributed among these distances:
57 67 0.14
58 168 0.35
59 199 0.41
60 38 0.08
61 8 0.02
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCTAAACTTTTCAAAATTCCATTTTAACCCTCGATTTCACC
Found at i:33517506 original size:176 final size:172
Alignment explanation
Indices: 33517149--33517755 Score: 582
Period size: 176 Copynumber: 3.5 Consensus size: 172
33517139 CCAAAACTTT
** * * *
33517149 CCAAAAATTA-CATTTTTACCCCCT-ATTTTTTCAAAATTCTATTTTTGCCCTCGATTTCACCAA
1 CCAAAAATTACCA-TTTTA-CCCCTAAACTTTCCAAAATTCCATTTTTACCCTCGATTTCACCAA
* ** * *
33517212 AATTACCATTTTACCCCTGAATTTTCCAAATTCCATTTTTACCCTCGATTTCACCAAAATTACCA
64 AATTACCATTTTACCCCTAAATTTTAAAAATTCCATTTTAACCC-CGATTTTACCAAAATTACCA
* *
33517277 TTTTACCCCTAAAC-TTTCTAAAATTCCATTTTTAACCCCAATTTTA
128 TTTTA-CCCTTAACTTTTC-AAAATCCCATTTTTAACCCCAATTTTA
* *
33517323 CCAAAAATTATCATTTT-GCCCTCAAACTTTCCAAAATTCCATTTTTACCCTCGATTTCACCAAA
1 CCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATTCCATTTTTACCCTCGATTTCACCAAA
* *
33517387 ATTACTATTTTACCCCTAAACTTTTTAAAATTCCATATTTAACCCCGATTTTACCAAAAATTACC
65 ATTACCATTTTACCCCTAAA-TTTTAAAAATTCCAT-TTTAACCCCGATTTTACC-AAAATTACC
*
33517452 ATTTTTCCCTTGAACTTTTCAAAATCCCATTTTTAACCCCAATTTTA
127 ATTTTACCCTT-AACTTTTCAAAATCCCATTTTTAACCCCAATTTTA
** * * ** *
33517499 CCAAAAATTACCATTTTACCCCTAAAC-TTCCAAAAATTATATTTTTGCCCCCGAAACTCA-AAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCC-AAAATTCCATTTTTACCCTCG-ATTTCACCAA
* * * ** * * ** * ***
33517562 AATTACTATTTTACCCCCAGATGTCCAAAAATCCCATTTTTGATACTGATTTTTTTGAAAATTAC
64 AATTACCATTTTACCCCTAAAT-TTTAAAAATTCCA-TTTTAACCCCGA-TTTTACCAAAATTAC
* * * ** *
33517627 CGTTGTACCCTTAAATGTTT-AAAATGTCATTTTTAACCCTAGATTTTA
126 CATTTTACCCTTAACT-TTTCAAAATCCCATTTTTAACCCCA-ATTTTA
* * *
33517675 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACC-CAATTTCAACCAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTACCCTCGATTTC-ACCAAA
33517739 ATTACCATTTTACCCCT
65 ATTACCATTTTACCCCT
33517756 GAGTTTCCAA
Statistics
Matches: 359, Mismatches: 55, Indels: 36
0.80 0.12 0.08
Matches are distributed among these distances:
172 4 0.01
174 70 0.19
175 56 0.16
176 208 0.58
177 21 0.06
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (172 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTACCCTCGATTTCACCAAAA
TTACCATTTTACCCCTAAATTTTAAAAATTCCATTTTAACCCCGATTTTACCAAAATTACCATTT
TACCCTTAACTTTTCAAAATCCCATTTTTAACCCCAATTTTA
Found at i:33517579 original size:29 final size:30
Alignment explanation
Indices: 33517501--33517579 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
33517491 CAATTTTACC
* * *
33517501 AAAAATTACCATTTTA-CCCCTAAACTTCC
1 AAAAATTACTATTTTACCCCCGAAACTTCA
*
33517530 AAAAATTA-TATTTTTGCCCCCGAAAC-TCA
1 AAAAATTACTA-TTTTACCCCCGAAACTTCA
33517559 AAAAATTACTATTTTACCCCC
1 AAAAATTACTATTTTACCCCC
33517580 AGATGTCCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
28 1 0.02
29 31 0.74
30 10 0.24
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.32
Consensus pattern (30 bp):
AAAAATTACTATTTTACCCCCGAAACTTCA
Found at i:33517591 original size:29 final size:28
Alignment explanation
Indices: 33517499--33517593 Score: 84
Period size: 29 Copynumber: 3.3 Consensus size: 28
33517489 CCCAATTTTA
* * *
33517499 CCAAAAATTACCATTTTACCCCTAAACTT
1 CCAAAAATTACTATTTTACCCCCAGA-TT
* * *
33517528 CCAAAAATTA-TATTTTTGCCCCCGAAACT
1 CCAAAAATTACTA-TTTTACCCCC-AGATT
*
33517557 CAAAAAATTACTATTTTACCCCCAGATGT
1 CCAAAAATTACTATTTTACCCCCAGAT-T
33517586 CCAAAAAT
1 CCAAAAAT
33517594 CCCATTTTTG
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
28 3 0.06
29 45 0.85
30 5 0.09
ACGTcount: A:0.39, C:0.27, G:0.04, T:0.29
Consensus pattern (28 bp):
CCAAAAATTACTATTTTACCCCCAGATT
Found at i:33517766 original size:28 final size:27
Alignment explanation
Indices: 33517678--33517767 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 27
33517668 GATTTTACCA
33517678 AAAATTACCATTTTACCCCTAAACTTTCC
1 AAAATTACCATTTTACCCCT-AA-TTTCC
* *
33517707 AAAA-TCCCATTTTTAACCC-AATTTCAACC
1 AAAATTACCA-TTTTACCCCTAATTT---CC
*
33517736 AAAATTACCATTTTACCCCTGAGTTTCC
1 AAAATTACCATTTTACCCCT-AATTTCC
33517764 AAAA
1 AAAA
33517768 AGTCCCGTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
26 3 0.06
27 2 0.04
28 10 0.20
29 26 0.53
30 4 0.08
31 4 0.08
ACGTcount: A:0.37, C:0.29, G:0.02, T:0.32
Consensus pattern (27 bp):
AAAATTACCATTTTACCCCTAATTTCC
Found at i:33519089 original size:59 final size:58
Alignment explanation
Indices: 33518979--33519089 Score: 168
Period size: 58 Copynumber: 1.9 Consensus size: 58
33518969 TTAATATAAT
* **
33518979 ATTTGGTACATGAACTTGACATTTTTTTCTAATTTGGTACCTAAATTTTTTTGACCCA
1 ATTTGGTACATGAACCTGACATTTTTTTCTAATTTGGTACCTAAAGCTTTTTGACCCA
* *
33519037 ATTTGGTACCTGAACCTGACATTTTTTCTCTAATTTGGTACCTTAAGCTTTTT
1 ATTTGGTACATGAACCTGACATTTTTT-TCTAATTTGGTACCTAAAGCTTTTT
33519090 TTAGATTCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 25 0.53
59 22 0.47
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (58 bp):
ATTTGGTACATGAACCTGACATTTTTTTCTAATTTGGTACCTAAAGCTTTTTGACCCA
Found at i:33523523 original size:6 final size:6
Alignment explanation
Indices: 33523504--33523585 Score: 73
Period size: 6 Copynumber: 13.8 Consensus size: 6
33523494 AATTTAGAGG
*
33523504 TTAAA- TTAATT TTAAAT TT--AT TTAAAT TTAAAT TTAATTAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAA--AT TTAAAT
** *
33523551 TT-ACC TTAAAT TTAAAT TTAAAT TAAAAT TATAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT T-TAAA
33523586 AACAAATTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
4 4 0.06
5 7 0.11
6 42 0.68
7 3 0.05
8 6 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAAAT
Found at i:33523577 original size:11 final size:11
Alignment explanation
Indices: 33523504--33523581 Score: 59
Period size: 11 Copynumber: 6.7 Consensus size: 11
33523494 AATTTAGAGG
*
33523504 TTAAATTAATT
1 TTAAATTAAAT
*
33523515 TTAAATT-TAT
1 TTAAATTAAAT
33523525 TTAAATTTAAAT
1 TTAAA-TTAAAT
33523537 TTAATTATTTAAAT
1 TTAA--A-TTAAAT
**
33523551 TTACCTTAAAT
1 TTAAATTAAAT
33523562 TTAAATTTAAAT
1 TTAAA-TTAAAT
*
33523574 TAAAATTA
1 TTAAATTA
33523582 TAAAAACAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
10 6 0.11
11 21 0.39
12 16 0.30
14 11 0.20
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:33524327 original size:19 final size:18
Alignment explanation
Indices: 33524313--33524377 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 18
33524303 AGTAATTATG
33524313 TTAAGTAACATTAATAATA
1 TTAA-TAACATTAATAATA
*
33524332 TTAATAACAGTT-TTCAATA
1 TTAATAACA-TTAAT-AATA
*
33524351 TTAATAACTAATAATAAATA
1 TTAATAAC-ATTAAT-AATA
33524371 TTAATAA
1 TTAATAA
33524378 TAATAATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
18 6 0.16
19 19 0.50
20 13 0.34
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.38
Consensus pattern (18 bp):
TTAATAACATTAATAATA
Found at i:33524375 original size:13 final size:13
Alignment explanation
Indices: 33524359--33524406 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
33524349 TATTAATAAC
33524359 TAATAATAAATAT
1 TAATAATAAATAT
*
33524372 TAATAAT-AATAA
1 TAATAATAAATAT
33524384 T-A-AATAAATATT
1 TAATAATAAATA-T
33524396 TAATAA-AAATA
1 TAATAATAAATA
33524407 AAAAAGGAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
10 3 0.10
11 5 0.17
12 6 0.21
13 13 0.45
14 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TAATAATAAATAT
Found at i:33524389 original size:10 final size:10
Alignment explanation
Indices: 33524347--33524390 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
33524337 AACAGTTTTC
*
33524347 AATATTAATA
1 AATAATAATA
*
33524357 ACTAATAATA
1 AATAATAATA
*
33524367 AATATTAAT-
1 AATAATAATA
33524376 AATAATAATA
1 AATAATAATA
33524386 AATAA
1 AATAA
33524391 ATATTTAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
9 8 0.29
10 20 0.71
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (10 bp):
AATAATAATA
Found at i:33524389 original size:23 final size:23
Alignment explanation
Indices: 33524352--33524407 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
33524342 TTTTCAATAT
33524352 TAATAACTAATAATAAATA-TTAA
1 TAATAA-TAATAATAAATATTTAA
33524375 TAATAATAATAAATAAATATTTAA
1 TAATAATAAT-AATAAATATTTAA
*
33524399 TAAAAATAA
1 TAATAATAA
33524408 AAAAGGAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 4 0.13
23 14 0.47
24 12 0.40
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
TAATAATAATAATAAATATTTAA
Found at i:33524676 original size:15 final size:16
Alignment explanation
Indices: 33524650--33524680 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
33524640 ATTTTTTGAA
33524650 ATTTCTCCAGATCTGG
1 ATTTCTCCAGATCTGG
33524666 ATTTC-CCAGATCTGG
1 ATTTCTCCAGATCTGG
33524681 TTCGGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.35
Consensus pattern (16 bp):
ATTTCTCCAGATCTGG
Found at i:33525506 original size:29 final size:29
Alignment explanation
Indices: 33525474--33525811 Score: 145
Period size: 29 Copynumber: 11.5 Consensus size: 29
33525464 CTAATTTCAC
*
33525474 CAAAAAGTACCATTTTATCCCCGAACTC-T
1 CAAAAA-TACCATTTTAACCCCGAACTCAT
* **
33525503 CAAAAATTCCATTTTTAACCCCGATTTCAT
1 CAAAAATACCA-TTTTAACCCCGAACTCAT
*
33525533 CAAAAATTGCCATTTT-ACCCTCGAACTC-T
1 CAAAAA-TACCATTTTAACCC-CGAACTCAT
* ** *
33525562 CAAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATACCA-TTTTAACCCCGAACTCAT
** *
33525592 CAAAAATTACCATTTT-ACCCTTAAACT-TT
1 CAAAAA-TACCATTTTAACCC-CGAACTCAT
* * * ***
33525621 CCAAAATTCTATTTTTAACCCCGGTTTCAT
1 CAAAAATACCA-TTTTAACCCCGAACTCAT
* * * *
33525651 CAGAAATTACCATTTTACCCCCAAAC-CTT
1 CA-AAAATACCATTTTAACCCCGAACTCAT
* * ** **
33525680 CTAAAATTCCATTTTAACCTTGATTTCAT
1 CAAAAATACCATTTTAACCCCGAACTCAT
* *
33525709 CAAAAATTACCATTTT-ACCCCTAAACT-TT
1 CAAAAA-TACCATTTTAACCCC-GAACTCAT
* * * *** *
33525738 CTAGAATTCCATTTTTAACCCCGGTTTCAC
1 CAAAAATACCA-TTTTAACCCCGAACTCAT
*
33525768 CAAAAATTACCATTTTACCCCCGAACTC-T
1 CAAAAA-TACCATTTTAACCCCGAACTCAT
*
33525797 CAAAAATTCCATTTT
1 CAAAAATACCATTTT
33525812 TTAACCCTGA
Statistics
Matches: 216, Mismatches: 73, Indels: 41
0.65 0.22 0.12
Matches are distributed among these distances:
28 38 0.18
29 82 0.38
30 78 0.36
31 18 0.08
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (29 bp):
CAAAAATACCATTTTAACCCCGAACTCAT
Found at i:33525523 original size:59 final size:58
Alignment explanation
Indices: 33525418--33525847 Score: 506
Period size: 59 Copynumber: 7.3 Consensus size: 58
33525408 AGACTGTCCG
* * * * **
33525418 AAAATTACCATTTTGCCCCCAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACCA
1 AAAATTACCATTTTACCCCAAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
33525476 AAAAGTACCATTTTATCCCCGAACTCTCAAAAATTCCATTTTTAACCCCGATTTCATCA
1 AAAATTACCATTTTA-CCCCAAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACCA
* *
33525535 AAAATTGCCATTTTACCCTCGAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCC-CAAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACCA
* * * * * *
33525594 AAAATTACCATTTTACCCTTAAACTTTCCAAAATTCTATTTTTAACCCCGGTTTCATCA
1 AAAATTACCATTTTACCC-CAAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACCA
* * ** *
33525653 GAAATTACCATTTTACCCCCAAAC-CTTCTAAAATTCCA-TTTTAACCTTGATTTCATCA
1 AAAATTACCATTTTA-CCCCAAACTC-TCAAAAATTCCATTTTTAACCCCGATTTCACCA
* * * *
33525711 AAAATTACCATTTTACCCCTAAACTTTCTAGAATTCCATTTTTAACCCCGGTTTCACCA
1 AAAATTACCATTTTACCCC-AAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACCA
* *
33525770 AAAATTACCATTTTACCCCCGAACTCTCAAAAATTCCATTTTTTAACCCTGATTTCACC-
1 AAAATTACCATTTTA-CCCCAAACTCTCAAAAATTCCA-TTTTTAACCCCGATTTCACCA
*
33525829 AAAATTACCATTTTGCCCC
1 AAAATTACCATTTTACCCC
33525848 CGGGTATCCA
Statistics
Matches: 322, Mismatches: 41, Indels: 18
0.85 0.11 0.05
Matches are distributed among these distances:
57 4 0.01
58 66 0.20
59 227 0.70
60 25 0.08
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCAAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:33525589 original size:118 final size:117
Alignment explanation
Indices: 33525418--33525847 Score: 580
Period size: 118 Copynumber: 3.7 Consensus size: 117
33525408 AGACTGTCCG
* * * * *
33525418 AAAATTACCATTTTGCCCCC-AACTTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAAAGT
1 AAAATTACCATTTTACCCCCGAACTCTCAAAAATTCCATTTTTAACCCTGATTTCACCAAAAATT
* * *
33525482 ACCATTTTATCCCCGAACTCTCAAAAATTCCATTTTTAACCCCGATTTCATCA
66 ACCATTTTA-CCCCAAACTTTCAAAAATTCCATTTTTAACCCCGGTTTCATCA
* * *
33525535 AAAATTGCCATTTTACCCTCGAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCCGAACTCTCAAAAATTCCATTTTTAACCCTGATTTCACCAAAAATT
* * *
33525600 ACCATTTTACCCTTAAACTTTCCAAAATTCTATTTTTAACCCCGGTTTCATCA
66 ACCATTTTACCC-CAAACTTTCAAAAATTCCATTTTTAACCCCGGTTTCATCA
* * * * *
33525653 GAAATTACCATTTTACCCCCAAAC-CTTCTAAAATTCCA-TTTTAACCTTGATTTCATCAAAAAT
1 AAAATTACCATTTTACCCCCGAACTC-TCAAAAATTCCATTTTTAACCCTGATTTCACCAAAAAT
* * *
33525716 TACCATTTTACCCCTAAACTTTCTAGAATTCCATTTTTAACCCCGGTTTCACCA
65 TACCATTTTACCCC-AAACTTTCAAAAATTCCATTTTTAACCCCGGTTTCATCA
33525770 AAAATTACCATTTTACCCCCGAACTCTCAAAAATTCCATTTTTTAACCCTGATTTCACC-AAAAT
1 AAAATTACCATTTTACCCCCGAACTCTCAAAAATTCCA-TTTTTAACCCTGATTTCACCAAAAAT
*
33525834 TACCATTTTGCCCC
65 TACCATTTTACCCC
33525848 CGGGTATCCA
Statistics
Matches: 273, Mismatches: 33, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
117 124 0.45
118 132 0.48
119 17 0.06
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (117 bp):
AAAATTACCATTTTACCCCCGAACTCTCAAAAATTCCATTTTTAACCCTGATTTCACCAAAAATT
ACCATTTTACCCCAAACTTTCAAAAATTCCATTTTTAACCCCGGTTTCATCA
Found at i:33525728 original size:176 final size:175
Alignment explanation
Indices: 33525418--33525848 Score: 562
Period size: 176 Copynumber: 2.4 Consensus size: 175
33525408 AGACTGTCCG
* * * *
33525418 AAAATTACCATTTTGCCCCCAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAAAGTA
1 AAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACC-AAAATTA
* * *
33525483 CCATTTTATCCCCGAACTCTCAAAAATTCCATTTTTAACCCCGATTTCATCAAAAATTGCCATTT
65 CCATTTTACCCCCAAACTCTCAAAAATTCCATTTTTAACCCCGATTTCATCAAAAATTACCATTT
*
33525548 TA-CCCTCGAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACCA
130 TACCCCT-AAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACCA
* * * * *
33525594 AAAATTACCATTTTACCCTTAAACTTTCCAAAATTCTATTTTTAACCCCGGTTTCATCAGAAATT
1 AAAATTACCATTTTACCC-CAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCA-AAATT
* **
33525659 ACCATTTTACCCCCAAAC-CTTCTAAAATTCCA-TTTTAACCTTGATTTCATCAAAAATTACCAT
64 ACCATTTTACCCCCAAACTC-TCAAAAATTCCATTTTTAACCCCGATTTCATCAAAAATTACCAT
* * * *
33525722 TTTACCCCTAAACTTTCTAGAATTCCATTTTTAACCCCGGTTTCACCA
128 TTTACCCCTAAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
33525770 AAAATTACCATTTTACCCCCGAACTCTCAAAAATTCCATTTTTTAACCCTGATTTCACCAAAATT
1 AAAATTACCATTTTA-CCCCAAACTTTCCAAAATTCCA-TTTTTAACCCTGATTTCACCAAAATT
*
33525835 ACCATTTTGCCCCC
64 ACCATTTTACCCCC
33525849 GGGTATCCAA
Statistics
Matches: 220, Mismatches: 29, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
176 132 0.60
177 88 0.40
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (175 bp):
AAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAAAATTAC
CATTTTACCCCCAAACTCTCAAAAATTCCATTTTTAACCCCGATTTCATCAAAAATTACCATTTT
ACCCCTAAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:33525878 original size:235 final size:235
Alignment explanation
Indices: 33525419--33525886 Score: 629
Period size: 235 Copynumber: 2.0 Consensus size: 235
33525409 GACTGTCCGA
* *
33525419 AAATTACCATTTTGCCCCCAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAAAGTAC
1 AAATTACCATTTTACCCCCAACCTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAAAGTAC
* * *
33525484 CATTTTATCCCCGAACTCTCAAAAATTCCATTTTTAACCCCGATTTCATCAAAAATTGCCATTTT
66 CATTTTATCCCCAAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTT
* *
33525549 ACCCTCGAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTT
131 ACCCCCGAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTC
* * * *
33525614 AAACTTTCCAAAATTCTATTTTTAACCCCGGTTTCATCAG
196 AAACTATCCAAAAGTCTATTTTCAACCCCGATTTCATCAG
* * * * *
33525654 AAATTACCATTTTACCCCCAAACCTTCTAAAATTCCA-TTTTAACCTTGATTTCATCAAAAATTA
1 AAATTACCATTTTACCCCC-AACCTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAAAGTA
* * * *
33525718 CCATTTTA-CCCCTAAACTTTCTAGAATTCCATTTTTAACCCCGGTTTCACCAAAAATTACCATT
65 CCATTTTATCCCC-AAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATT
* *
33525782 TTACCCCCGAACTCTCAAAAATTCCATTTTTTAACCCTGATTTCACC-AAAATTACCATTTTGCC
129 TTACCCCCGAACTCTCAAAAATTCCA-TTTTTAACCCCGATTTCACCAAAAATTACCATTTTACC
**** *
33525846 C-CCGGGTATCCAAAAGTCTCGTTTTCAACCCCGATTTCATC
193 CTCAAACTATCCAAAAGTCT-ATTTTCAACCCCGATTTCATC
33525887 GTTTCTTCTT
Statistics
Matches: 202, Mismatches: 27, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
234 15 0.07
235 153 0.76
236 34 0.17
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.34
Consensus pattern (235 bp):
AAATTACCATTTTACCCCCAACCTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAAAGTAC
CATTTTATCCCCAAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTT
ACCCCCGAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTC
AAACTATCCAAAAGTCTATTTTCAACCCCGATTTCATCAG
Found at i:33535467 original size:18 final size:19
Alignment explanation
Indices: 33535444--33535479 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33535434 CGGATTTGGA
*
33535444 AAATAAAACTAAA-AAAAT
1 AAATAAAAATAAACAAAAT
33535462 AAATAAAAATAAACAAAA
1 AAATAAAAATAAACAAAA
33535480 AATGAGATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.14
Consensus pattern (19 bp):
AAATAAAAATAAACAAAAT
Found at i:33535493 original size:23 final size:21
Alignment explanation
Indices: 33535455--33535497 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
33535445 AATAAAACTA
33535455 AAAAAATAAATAAAAATAAAC
1 AAAAAATAAATAAAAATAAAC
*
33535476 AAAAAATGAGATACAAAATAAA
1 AAAAAAT-AAATA-AAAATAAA
33535498 TTAAAGTGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 8 0.42
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (21 bp):
AAAAAATAAATAAAAATAAAC
Found at i:33535567 original size:31 final size:30
Alignment explanation
Indices: 33535517--33535584 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
33535507 CCAATCAAAT
*
33535517 AACCCAAACACTAAGCCCAATT-CCTAAACA
1 AACCCAAACACTAAACCCAATTACC-AAACA
* *
33535547 AACCCTAAACTCTAAACCCAATTACCCAACA
1 AACCC-AAACACTAAACCCAATTACCAAACA
33535578 AACCCAA
1 AACCCAA
33535585 TAAGCCCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 7 0.21
31 24 0.73
32 2 0.06
ACGTcount: A:0.47, C:0.38, G:0.01, T:0.13
Consensus pattern (30 bp):
AACCCAAACACTAAACCCAATTACCAAACA
Found at i:33536909 original size:60 final size:59
Alignment explanation
Indices: 33536835--33537065 Score: 243
Period size: 60 Copynumber: 3.9 Consensus size: 59
33536825 AGAGGTCATC
* *
33536835 AAACTTTTCCAAAATTACATTTTAAACCCTAAACTTTTCTAAAATTACATTTTAACCCAT
1 AAACTTTTCCAAAATCACATTTTAAACCCTAAACTTTTCTAAAATTACATTTT-ACCCCT
* * * * * *
33536895 AAACTATTCTAAAATTACATTTTAACCCCTAAACATTTAC-AAAATCACATTTTGACCCCT
1 AAACTTTTCCAAAATCACATTTTAAACCCTAAAC-TTTTCTAAAATTACATTTT-ACCCCT
* * * * * *
33536955 AAACTCTTCCAAAATCACA-TTTGACCCCTAAAATTTTCCAAAATTACATTTTACCCCC
1 AAACTTTTCCAAAATCACATTTTAAACCCTAAACTTTTCTAAAATTACATTTTACCCCT
** * *
33537013 AAACTTTTCCAAAATCACATTTT-AACCCTCGAGTGTTTCTAAAATTTCATTTT
1 AAACTTTTCCAAAATCACATTTTAAACCCTAAACT-TTTCTAAAATTACATTTT
33537066 TATCTCGAGT
Statistics
Matches: 145, Mismatches: 22, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
58 34 0.23
59 43 0.30
60 64 0.44
61 4 0.03
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (59 bp):
AAACTTTTCCAAAATCACATTTTAAACCCTAAACTTTTCTAAAATTACATTTTACCCCT
Found at i:33536993 original size:29 final size:30
Alignment explanation
Indices: 33536835--33537040 Score: 263
Period size: 30 Copynumber: 6.9 Consensus size: 30
33536825 AGAGGTCATC
*
33536835 AAACTTTTCCAAAATTACATTTTAAACCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* *
33536865 AAACTTTTCTAAAATTACATTTTAACCCAT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* *
33536895 AAACTATTCTAAAATTACATTTTAACCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* * * *
33536925 AAACATTTACAAAATCACATTTTGACCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* * *
33536955 AAACTCTTCCAAAATCACA-TTTGACCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* *
33536984 AAAATTTTCCAAAATTACATTTT-ACCCCC
1 AAACTTTTCCAAAATTACATTTTAACCCCT
*
33537013 AAACTTTTCCAAAATCACATTTTAACCC
1 AAACTTTTCCAAAATTACATTTTAACCC
33537041 TCGAGTGTTT
Statistics
Matches: 154, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
29 52 0.34
30 102 0.66
ACGTcount: A:0.39, C:0.26, G:0.01, T:0.34
Consensus pattern (30 bp):
AAACTTTTCCAAAATTACATTTTAACCCCT
Found at i:33541346 original size:66 final size:69
Alignment explanation
Indices: 33541235--33541363 Score: 201
Period size: 66 Copynumber: 1.9 Consensus size: 69
33541225 CACACTATTA
*
33541235 AAAAAAAAGAAGAAGAAATGAAATAAAGAAAAGGGCAAGATGAAAACCCGCAAAGGGCATCTTTT
1 AAAAAAAAGAAGAAGAAAAGAAATAAAGAAAAGGGCAAGATGAAAACCCGCAAAGGGCATCTTTT
33541300 TTTT
66 TTTT
* * *
33541304 AAAAAAAA-AAGAAGAAAAGAAA-AAGGAAAA-GTCAAGATGAAAACTCGCAAAGGGCATCTT
1 AAAAAAAAGAAGAAGAAAAGAAATAAAGAAAAGGGCAAGATGAAAACCCGCAAAGGGCATCTT
33541364 AAAAAAATCT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
66 28 0.50
67 7 0.12
68 13 0.23
69 8 0.14
ACGTcount: A:0.56, C:0.10, G:0.20, T:0.14
Consensus pattern (69 bp):
AAAAAAAAGAAGAAGAAAAGAAATAAAGAAAAGGGCAAGATGAAAACCCGCAAAGGGCATCTTTT
TTTT
Found at i:33543222 original size:49 final size:49
Alignment explanation
Indices: 33543147--33544048 Score: 391
Period size: 49 Copynumber: 18.4 Consensus size: 49
33543137 GGAGATATGG
* * * *
33543147 AGGGAAAGGTTTAAGTCGTAAAGGCGAACCTTGTACCTCAGAAGCATGA
1 AGGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCAGAAGCATGA
* * *
33543196 AGGGAAAGATTTAAGCCGTAACGGCGAATCC-AGTA-C-CATGAAG-ATATA
1 AGGGAAAGATTTAAGTCGCAACGGCGAA-CCTAGTACCTCA-GAAGCAT-GA
* * * * *
33543244 GAGGGAAAGGTTTAAGTCACAACGGCAAACCTTGTACCTCAGAAACATGA
1 -AGGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCAGAAGCATGA
* * * * * * *
33543294 AGGGAAAGACTTAAGCCGCAATGACGAATCC-AATA-C-CATGAAGATATGG
1 AGGGAAAGATTTAAGTCGCAACGGCGAA-CCTAGTACCTCA-GAAG-CATGA
* * * * *
33543343 AGGGAAAGGTTTAAGTCGCAACGGGGAACCTTGTACCTTAGAAACATGA
1 AGGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCAGAAGCATGA
* * * ** * *
33543392 AGGGAAAGATTTAAGCCGCAATGACGAATCC-AGTACAAC-GAAGATATGG
1 AGGGAAAGATTTAAGTCGCAACGGCGAA-CCTAGTACCTCAGAAG-CATGA
* * * * * * *
33543441 AGGGAAAGGTTTAAGTTGTAACAGTGAACCTTGTACCTCAGAAACATGA
1 AGGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCAGAAGCATGA
* * * * * *
33543490 AGGGAAAGATTTAAGTCGTAACGACGAATCTGGTACCAC-GAAGATATGGA
1 AGGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCAGAAG-CAT-GA
* ** * * * * *
33543540 A-GGAAAGGTTTAAGTCGTGACAGCGAACCTTGTACCTCAAAAACATGCT
1 AGGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCAGAAGCATG-A
* * * * * * *
33543589 A-GGAAGGATTGAGGCCGCAACGGTGAATCC-AGT-TC-CATGGAG-ATGA
1 AGGGAAAGATTTAAGTCGCAACGGCGAA-CCTAGTACCTCA-GAAGCATGA
* * * * * * * *
33543635 GATGAGAAAGATTTAAGCCGCAATGGTGAATCTAATA-C-CATGAAGATATGG
1 -A-GGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCA-GAAG-CATGA
* * * * *
33543686 AGGGAAAGGTTTAAGTCGCAATGACGAACCTTGTACCTCAGATA-CATAA
1 AGGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCAGA-AGCATGA
* * * **
33543735 AAGGAAAGATTTAAG-CGACAATGGCGAATCC-AGTACCAC-GAAGGTTTGA
1 AGGGAAAGATTTAAGTCG-CAACGGCGAA-CCTAGTACCTCAGAA-GCATGA
* * * *
33543784 AGGGAAAGGTTTAAGTCGTAACGACGAACCTTGTACCTCAGAAGCATGA
1 AGGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCAGAAGCATGA
* * * * * *
33543833 AGGGAAAGATTTAAGCCACAACGACGAATCC-AGTACCAC-GAGGATATGA
1 AGGGAAAGATTTAAGTCGCAACGGCGAA-CCTAGTACCTCAGAAG-CATGA
* * * * * * * *
33543882 TGGGAAAAATTTAAGCCACAACGACGAATCTAGTACCAC-GAAG-ATTTAA
1 AGGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCAGAAGCA--TGA
* * * * *
33543931 AGGGAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAGAAACATAA
1 AGGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCAGAAGCATGA
* * * * * * * *
33543980 AGGG-AAGGTTGAGGCCGCCACGGCGAACCCAGTACCTTAGAAACATGA
1 AGGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCAGAAGCATGA
* *
33544028 CGGGAAAGATTGAAGTCGCAA
1 AGGGAAAGATTTAAGTCGCAA
33544049 TGATAAATCT
Statistics
Matches: 632, Mismatches: 172, Indels: 98
0.70 0.19 0.11
Matches are distributed among these distances:
47 14 0.02
48 74 0.12
49 491 0.78
50 41 0.06
51 12 0.02
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.19
Consensus pattern (49 bp):
AGGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCAGAAGCATGA
Found at i:33543300 original size:98 final size:98
Alignment explanation
Indices: 33543131--33543632 Score: 646
Period size: 98 Copynumber: 5.1 Consensus size: 98
33543121 CAAGTTGCAT
* * *
33543131 TACCATGGAGATATGGAGGGAAAGGTTTAAGTCGTAAAGGCGAACCTTGTACCTCAGAAGCATGA
1 TACCATGAAGATATGGAGGGAAAGGTTTAAGTCGTAACGGCGAACCTTGTACCTCAGAAACATGA
* *
33543196 AGGGAAAGATTTAAGCCGTAACGGCGAATCCAG
66 AGGGAAAGATTTAAGCCGCAACGACGAATCCAG
* ** *
33543229 TACCATGAAGATATAGAGGGAAAGGTTTAAGTCACAACGGCAAACCTTGTACCTCAGAAACATGA
1 TACCATGAAGATATGGAGGGAAAGGTTTAAGTCGTAACGGCGAACCTTGTACCTCAGAAACATGA
* * *
33543294 AGGGAAAGACTTAAGCCGCAATGACGAATCCAA
66 AGGGAAAGATTTAAGCCGCAACGACGAATCCAG
* * *
33543327 TACCATGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGGGAACCTTGTACCTTAGAAACATGA
1 TACCATGAAGATATGGAGGGAAAGGTTTAAGTCGTAACGGCGAACCTTGTACCTCAGAAACATGA
*
33543392 AGGGAAAGATTTAAGCCGCAATGACGAATCCAG
66 AGGGAAAGATTTAAGCCGCAACGACGAATCCAG
* * * * *
33543425 TACAACGAAGATATGGAGGGAAAGGTTTAAGTTGTAACAGTGAACCTTGTACCTCAGAAACATGA
1 TACCATGAAGATATGGAGGGAAAGGTTTAAGTCGTAACGGCGAACCTTGTACCTCAGAAACATGA
* * **
33543490 AGGGAAAGATTTAAGTCGTAACGACGAATCTGG
66 AGGGAAAGATTTAAGCCGCAACGACGAATCCAG
* * * * *
33543523 TACCACGAAGATATGGAAGGAAAGGTTTAAGTCGTGACAGCGAACCTTGTACCTCAAAAACATGC
1 TACCATGAAGATATGGAGGGAAAGGTTTAAGTCGTAACGGCGAACCTTGTACCTCAGAAACATG-
* * * * **
33543588 TA-GGAAGGATTGAGGCCGCAACGGTGAATCCAG
65 AAGGGAAAGATTTAAGCCGCAACGACGAATCCAG
* *
33543621 TTCCATGGAGAT
1 TACCATGAAGAT
33543633 GAGATGAGAA
Statistics
Matches: 353, Mismatches: 50, Indels: 2
0.87 0.12 0.00
Matches are distributed among these distances:
98 352 1.00
99 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.20
Consensus pattern (98 bp):
TACCATGAAGATATGGAGGGAAAGGTTTAAGTCGTAACGGCGAACCTTGTACCTCAGAAACATGA
AGGGAAAGATTTAAGCCGCAACGACGAATCCAG
Found at i:33543691 original size:245 final size:245
Alignment explanation
Indices: 33543395--33543985 Score: 719
Period size: 245 Copynumber: 2.4 Consensus size: 245
33543385 AACATGAAGG
* * * *
33543395 GAAAGATTTAAGCCGCAATGACGAATCCAGTACAACGAAGATATGGAGGGAAAGGTTTAAGTTGT
1 GAAAGATTTAAGCCGCAATGACGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGC
* * * **
33543460 AAC-AGTGAACCTTGTACCTCAGAAACATGAAGGGAAAGATTTAAGTCG-TAACGACGAATCTGG
66 AACGA-CGAACCTTGTACCTCAGAAACATAAAGGGAAAGATTTAAG-CGACAACGACGAATCCAG
*
33543523 TACCACGAAGATATGGAA-GGAAAGGTTTAAGTCGTGAC-AGCGAACCTTGTACCTCAAAAACAT
129 TACCACGAAGAT-TGGAAGGGAAAGGTTTAAGTCGTAACGA-CGAACCTTGTACCTCAAAAACAT
* * * * ** * *
33543586 GCTA-GGAAGGATTGAGGCCGCAACGGTGAATCCAGTTCCATG-GAGATGA-GATGA
192 G-AAGGGAAAGATTGAAGCCACAACGACGAATCCAGTACCACGAG-GAT-ATGATGA
** * *
33543640 GAAAGATTTAAGCCGCAATGGTGAATCTAATACCATGAAGATATGGAGGGAAAGGTTTAAGTCGC
1 GAAAGATTTAAGCCGCAATGACGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGC
* * * * *
33543705 AATGACGAACCTTGTACCTCAGATACATAAAAGGAAAGATTTAAGCGACAATGGCGAATCCAGTA
66 AACGACGAACCTTGTACCTCAGAAACATAAAGGGAAAGATTTAAGCGACAACGACGAATCCAGTA
* * * *
33543770 CCACGAAGGTTTGAAGGGAAAGGTTTAAGTCGTAACGACGAACCTTGTACCTCAGAAGCATGAAG
131 CCACGAAGATTGGAAGGGAAAGGTTTAAGTCGTAACGACGAACCTTGTACCTCAAAAACATGAAG
* *
33543835 GGAAAGATTTAAGCCACAACGACGAATCCAGTACCACGAGGATATGATGG
196 GGAAAGATTGAAGCCACAACGACGAATCCAGTACCACGAGGATATGATGA
* * * * **
33543885 GAAAAATTTAAGCCACAACGACGAATCTAGTACCACGAAGATTTAAAGGGAAAGGTTTAAGTCGC
1 GAAAGATTTAAGCCGCAATGACGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGC
33543950 AACGACGAACCTTGTACCTCAGAAACATAAAGGGAA
66 AACGACGAACCTTGTACCTCAGAAACATAAAGGGAA
33543986 GGTTGAGGCC
Statistics
Matches: 293, Mismatches: 46, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
244 8 0.03
245 282 0.96
246 3 0.01
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (245 bp):
GAAAGATTTAAGCCGCAATGACGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGC
AACGACGAACCTTGTACCTCAGAAACATAAAGGGAAAGATTTAAGCGACAACGACGAATCCAGTA
CCACGAAGATTGGAAGGGAAAGGTTTAAGTCGTAACGACGAACCTTGTACCTCAAAAACATGAAG
GGAAAGATTGAAGCCACAACGACGAATCCAGTACCACGAGGATATGATGA
Found at i:33543837 original size:147 final size:147
Alignment explanation
Indices: 33543245--33544048 Score: 508
Period size: 147 Copynumber: 5.5 Consensus size: 147
33543235 GAAGATATAG
* * * * *
33543245 AGGGAAAGGTTTAAGTCACAACGGCAAACCTTGTACCTCAGAAACATGAAGGGAAAGACTTAAGC
1 AGGGAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAGATACATGAAGGGAAAGATTTAAGC
* * * * * **
33543310 CGCAATGACGAATCCAATACCATGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGGGAACCTT
66 CGCAACGGCGAATCCAGTACCACGAAGATATGAAGGGAAAGGTTTAAGTCGCAACGACGAACCTT
* *
33543375 GTACCTTAGAAACATGA
131 GTACCTCAGAAGCATGA
* * * * ** * *
33543392 AGGGAAAGATTTAAGCCGCAATGACGAATCC-AGTACAACGAAGAT--ATGGAGGGAAAGGTTTA
1 AGGGAAAGGTTTAAGTCGCAACGACGAA-CCTTGTAC--CTCAGATACATGAAGGGAAAGATTTA
** * * * * * * * *
33543454 AGTTGTAACAGTGAA-CCTTGTACCTCAGAA-ACATGAAGGGAAAGATTTAAGTCGTAACGACGA
63 AGCCGCAACGGCGAATCC-AGTACCAC-GAAGATATGAAGGGAAAGGTTTAAGTCGCAACGACGA
* * * *
33543517 ATCTGGTACCAC-GAAGATATGGA
126 ACCTTGTACCTCAGAAG-CAT-GA
** * * * * * *
33543540 A-GGAAAGGTTTAAGTCGTGAC-AGCGAACCTTGTACCTCAAAAACATGCTA-GGAAGGATTGAG
1 AGGGAAAGGTTTAAGTCGCAACGA-CGAACCTTGTACCTCAGATACATG-AAGGGAAAGATTTAA
* * * * * * * * * ** *
33543602 GCCGCAACGGTGAATCCAGTTCCATGGAGATGA-GATGAGAAAGATTTAAGCCGCAATGGTGAAT
64 GCCGCAACGGCGAATCCAGTACCACGAAGAT-ATGAAGGGAAAGGTTTAAGTCGCAACGACGAAC
** * *
33543666 CTAATA-C-CATGAAGATATGG
128 CTTGTACCTCA-GAAG-CATGA
* * *
33543686 AGGGAAAGGTTTAAGTCGCAATGACGAACCTTGTACCTCAGATACATAAAAGGAAAGATTTAAG-
1 AGGGAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAGATACATGAAGGGAAAGATTTAAGC
* * * *
33543750 CGACAATGGCGAATCCAGTACCACGAAGGTTTGAAGGGAAAGGTTTAAGTCGTAACGACGAACCT
66 CG-CAACGGCGAATCCAGTACCACGAAGATATGAAGGGAAAGGTTTAAGTCGCAACGACGAACCT
33543815 TGTACCTCAGAAGCATGA
130 TGTACCTCAGAAGCATGA
* * * * * * *
33543833 AGGGAAAGATTTAAGCCACAACGACGAATCC-AGTACCACGAGGAT--ATGATGGGAAAAATTTA
1 AGGGAAAGGTTTAAGTCGCAACGACGAA-CCTTGTACCTC-A-GATACATGAAGGGAAAGATTTA
* * * * *
33543895 AGCCACAACGACGAATCTAGTACCACGAAGATTTAAAGGGAAAGGTTTAAGTCGCAACGACGAAC
63 AGCCGCAACGGCGAATCCAGTACCACGAAGATATGAAGGGAAAGGTTTAAGTCGCAACGACGAAC
* *
33543960 CTTGTACCTCAGAAACATAA
128 CTTGTACCTCAGAAGCATGA
* * * * * ** * * * * *
33543980 AGGG-AAGGTTGAGGCCGCCACGGCGAACCCAGTACCTTAGAAACATGACGGGAAAGATTGAAGT
1 AGGGAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAGATACATGAAGGGAAAGATTTAAGC
33544044 CGCAA
66 CGCAA
33544049 TGATAAATCT
Statistics
Matches: 492, Mismatches: 134, Indels: 63
0.71 0.19 0.09
Matches are distributed among these distances:
144 2 0.00
145 7 0.01
146 59 0.12
147 393 0.80
148 22 0.04
149 9 0.02
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.19
Consensus pattern (147 bp):
AGGGAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAGATACATGAAGGGAAAGATTTAAGC
CGCAACGGCGAATCCAGTACCACGAAGATATGAAGGGAAAGGTTTAAGTCGCAACGACGAACCTT
GTACCTCAGAAGCATGA
Found at i:33543967 original size:98 final size:98
Alignment explanation
Indices: 33543147--33543985 Score: 537
Period size: 98 Copynumber: 8.6 Consensus size: 98
33543137 GGAGATATGG
* * *
33543147 AGGGAAAGGTTTAAGTCGTAAAGGCGAACCTTGTACCTC-AGAAGCATGAAGGGAAAGATTTAAG
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCACGAGAA-CATGAAGGGAAAGATTTAAG
* * * *
33543211 CCGTAACGGCGAATCCAGTACCATGAAGATATAG
65 CCGCAACGACGAATCCAGTACCACGAAGATATAA
* * * *
33543245 AGGGAAAGGTTTAAGTCACAACGGCAAACCTTGTACCTC-AGAAACATGAAGGGAAAGACTTAAG
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCACGAG-AACATGAAGGGAAAGATTTAAG
* * * **
33543309 CCGCAATGACGAATCCAATACCATGAAGATATGG
65 CCGCAACGACGAATCCAGTACCACGAAGATATAA
*
33543343 AGGGAAAGGTTTAAGTCGCAACGGGGAACCTTGTACCTTA-GA-AACATGAAGGGAAAGATTTAA
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACC--ACGAGAACATGAAGGGAAAGATTTAA
* * **
33543406 GCCGCAATGACGAATCCAGTACAACGAAGATATGG
64 GCCGCAACGACGAATCCAGTACCACGAAGATATAA
* * * * *
33543441 AGGGAAAGGTTTAAGTTGTAACAGTGAACCTTGTACCTC-AGAAACATGAAGGGAAAGATTTAAG
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCACGAG-AACATGAAGGGAAAGATTTAAG
* * ** *
33543505 TCGTAACGACGAATCTGGTACCACGAAGATATGGA
65 CCGCAACGACGAATCCAGTACCACGAAGATAT-AA
** * * * * * * * *
33543540 A-GGAAAGGTTTAAGTCGTGACAGCGAACCTTGTACCTCAAAAACATGCTA-GGAAGGATTGAGG
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCACGAGAACATG-AAGGGAAAGATTTAAG
** * * * *
33543603 CCGCAACGGTGAATCCAGTTCCATGGAGATGA-GA
65 CCGCAACGACGAATCCAGTACCACGAAGAT-ATAA
* * * * * * * ** * * * *
33543637 TGAGAAAGATTTAAGCCGCAATGGTGAATCTAATACCATGA-AGATATGGAGGGAAAGGTTTAAG
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCACGAGA-ACATGAAGGGAAAGATTTAAG
* * * *
33543701 TCGCAATGACGAA-CCTTGTACCTC--AGATACATAA
65 CCGCAACGACGAATCC-AGTACCACGAAGAT--ATAA
* * * * *** *
33543735 AAGGAAAGATTTAAG-CGACAATGGCGAATCC-AGTACCACGA-AGGTTTGAAGGGAAAGGTTTA
1 AGGGAAAGGTTTAAGTCG-CAACGGCGAA-CCTTGTACCACGAGA-ACATGAAGGGAAAGATTTA
* * * * * *
33543797 AGTCGTAACGACGAA-CCTTGTACCTCAGAAG-CATGA
63 AGCCGCAACGACGAATCC-AGTACCAC-GAAGATATAA
* * * * * * * * *
33543833 AGGGAAAGATTTAAGCCACAACGACGAATCC-AGTACCACGAGGATATGATGGGAAAAATTTAAG
1 AGGGAAAGGTTTAAGTCGCAACGGCGAA-CCTTGTACCACGAGAACATGAAGGGAAAGATTTAAG
* * *
33543897 CCACAACGACGAATCTAGTACCACGAAGATTTAA
65 CCGCAACGACGAATCCAGTACCACGAAGATATAA
* * *
33543931 AGGGAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTC-AGAAACATAAAGGGAA
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCACGAG-AACATGAAGGGAA
33543986 GGTTGAGGCC
Statistics
Matches: 593, Mismatches: 120, Indels: 56
0.77 0.16 0.07
Matches are distributed among these distances:
96 5 0.01
97 17 0.03
98 558 0.94
99 10 0.02
100 1 0.00
101 2 0.00
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (98 bp):
AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCACGAGAACATGAAGGGAAAGATTTAAGC
CGCAACGACGAATCCAGTACCACGAAGATATAA
Found at i:33545811 original size:7 final size:7
Alignment explanation
Indices: 33545799--33545828 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
33545789 AAAAAAGAAG
33545799 GAAGGGA
1 GAAGGGA
33545806 GAAGGGA
1 GAAGGGA
33545813 GAAGGGA
1 GAAGGGA
33545820 GAAGGGA
1 GAAGGGA
33545827 GA
1 GA
33545829 GAGAATTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (7 bp):
GAAGGGA
Found at i:33546421 original size:30 final size:30
Alignment explanation
Indices: 33546341--33546452 Score: 145
Period size: 30 Copynumber: 3.8 Consensus size: 30
33546331 TTCTTAAGAG
* * * **
33546341 TTTCCAAAATTATATTTTAACCCTTAAACT
1 TTTCCAAAATCACATTTTGACCCCCAAACT
*
33546371 TTTCCAAAATTACA-TTTGACCCCCAAACT
1 TTTCCAAAATCACATTTTGACCCCCAAACT
*
33546400 TGTCCAAAATCACATTTTGACCCCCAAACT
1 TTTCCAAAATCACATTTTGACCCCCAAACT
*
33546430 TTTCCAAAATCACATCTTGACCC
1 TTTCCAAAATCACATTTTGACCC
33546453 TCAAGTTTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 24 0.33
30 49 0.67
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (30 bp):
TTTCCAAAATCACATTTTGACCCCCAAACT
Found at i:33547448 original size:13 final size:14
Alignment explanation
Indices: 33547430--33547473 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
33547420 TGTTTTATTC
*
33547430 AAAAATTATAAGAA
1 AAAAATTATAATAA
33547444 AAAATATT-TAATAA
1 AAAA-ATTATAATAA
33547458 AAAAATTAT-ATAA
1 AAAAATTATAATAA
33547471 AAA
1 AAA
33547474 TATGAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 10 0.37
14 14 0.52
15 3 0.11
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (14 bp):
AAAAATTATAATAA
Found at i:33548188 original size:4 final size:4
Alignment explanation
Indices: 33548147--33548172 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
33548137 AATGGACAGA
33548147 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
33548173 TAGAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:33549045 original size:20 final size:20
Alignment explanation
Indices: 33549020--33549065 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
33549010 ATTTAAAATA
* *
33549020 TTTTAT-AATTTTATATGTGT
1 TTTTATAAAATTT-TATGTAT
33549040 TTTTATAAAATTTTATGTAT
1 TTTTATAAAATTTTATGTAT
33549060 TTTTAT
1 TTTTAT
33549066 TGAAAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTATAAAATTTTATGTAT
Found at i:33552826 original size:29 final size:28
Alignment explanation
Indices: 33552761--33552864 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 28
33552751 AAACTTCTCC
* * *
33552761 AAAATTAGCATTTTTCCCCGAATATCCA
1 AAAATTACCATTTTGCCCCGAACATCCA
*
33552789 AAAATTACCATTTTGCTCCGAAACATCCA
1 AAAATTACCATTTTGCCCCG-AACATCCA
33552818 AAAATTACCATTTTGCCCCCGAACATCCA
1 AAAATTACCATTTTG-CCCCGAACATCCA
33552847 AAAATTACCATTTTGCCC
1 AAAATTACCATTTTGCCC
33552865 TCAAATTTCC
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
28 20 0.29
29 45 0.65
30 4 0.06
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (28 bp):
AAAATTACCATTTTGCCCCGAACATCCA
Found at i:33552875 original size:29 final size:28
Alignment explanation
Indices: 33552761--33552880 Score: 141
Period size: 29 Copynumber: 4.2 Consensus size: 28
33552751 AAACTTCTCC
* * * *
33552761 AAAATTAGCATTTTTCCCCGAATATCCA
1 AAAATTACCATTTTGCCCCAAACATCCA
*
33552789 AAAATTACCATTTTGCTCCGAAACATCCA
1 AAAATTACCATTTTGC-CCCAAACATCCA
*
33552818 AAAATTACCATTTTGCCCCCGAACATCCA
1 AAAATTACCATTTTG-CCCCAAACATCCA
**
33552847 AAAATTACCATTTTGCCCTCAAATTTCCA
1 AAAATTACCATTTTGCCC-CAAACATCCA
33552876 AAAAT
1 AAAAT
33552881 CACACTTTCA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
28 17 0.22
29 61 0.77
30 1 0.01
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.29
Consensus pattern (28 bp):
AAAATTACCATTTTGCCCCAAACATCCA
Found at i:33552876 original size:58 final size:57
Alignment explanation
Indices: 33552761--33552880 Score: 161
Period size: 58 Copynumber: 2.1 Consensus size: 57
33552751 AAACTTCTCC
* * * *
33552761 AAAATTAGCATTTTTCCCCGAATATCCAAAAATTACCATTTTGCTCCGAAACATCCA
1 AAAATTACCATTTTCCCCCGAACATCCAAAAATTACCATTTTGCTCCCAAACATCCA
**
33552818 AAAATTACCATTTTGCCCCCGAACATCCAAAAATTACCATTTTGC-CCTCAAATTTCCA
1 AAAATTACCATTTT-CCCCCGAACATCCAAAAATTACCATTTTGCTCC-CAAACATCCA
33552876 AAAAT
1 AAAAT
33552881 CACACTTTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 15 0.27
58 40 0.73
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.29
Consensus pattern (57 bp):
AAAATTACCATTTTCCCCCGAACATCCAAAAATTACCATTTTGCTCCCAAACATCCA
Found at i:33552927 original size:29 final size:31
Alignment explanation
Indices: 33552895--33552960 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
33552885 CTTTCAACCT
*
33552895 CAAATTTTCC-AAAAGTTCGATTTTAAT-CC
1 CAAATTTTCCAAAAAGTTCAATTTTAATCCC
* *
33552924 CAAATTTTCCAAAAATTTCAATTTTGATCCC
1 CAAATTTTCCAAAAAGTTCAATTTTAATCCC
33552955 CAAATT
1 CAAATT
33552961 CCTCGAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 10 0.31
30 14 0.44
31 8 0.25
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (31 bp):
CAAATTTTCCAAAAAGTTCAATTTTAATCCC
Found at i:33554984 original size:23 final size:25
Alignment explanation
Indices: 33554957--33555003 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
33554947 TCAATTTAGA
*
33554957 TTTTGGAGGC-TAAAA-TTATATAT
1 TTTTGGAGGCAAAAAATTTATATAT
*
33554980 TTTTGGTGGCAAAAAATTTATATA
1 TTTTGGAGGCAAAAAATTTATATA
33555004 AAATTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 4 0.20
25 7 0.35
ACGTcount: A:0.36, C:0.04, G:0.17, T:0.43
Consensus pattern (25 bp):
TTTTGGAGGCAAAAAATTTATATAT
Found at i:33556667 original size:20 final size:21
Alignment explanation
Indices: 33556632--33556679 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 21
33556622 TTCAAACTTA
33556632 TTTATTTACATAAAATATTTT
1 TTTATTTACATAAAATATTTT
*
33556653 TTTATTTA-TTAAAATATTAATT
1 TTTATTTACATAAAATATT--TT
33556675 TTTAT
1 TTTAT
33556680 GCTCATCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 8 0.33
22 7 0.29
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTATTTACATAAAATATTTT
Found at i:33557105 original size:20 final size:20
Alignment explanation
Indices: 33557060--33557107 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
33557050 TCTAGTCTAA
*
33557060 ACATCAATCAAACCACTCTC
1 ACATCAAACAAACCACTCTC
* *
33557080 ATATCAAACAAACCACTCTT
1 ACATCAAACAAACCACTCTC
33557100 ACATCAAA
1 ACATCAAA
33557108 TATTGTTGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (20 bp):
ACATCAAACAAACCACTCTC
Found at i:33558642 original size:16 final size:16
Alignment explanation
Indices: 33558621--33558653 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33558611 ATAAAAGACA
33558621 AATGAAGAAA-ATAATT
1 AATGAA-AAATATAATT
33558637 AATGAAAAATATAATT
1 AATGAAAAATATAATT
33558653 A
1 A
33558654 GCACAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (16 bp):
AATGAAAAATATAATT
Found at i:33560151 original size:17 final size:17
Alignment explanation
Indices: 33560122--33560159 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
33560112 CATATTATTT
33560122 TTTAGTTTTTTTTAATA
1 TTTAGTTTTTTTTAATA
33560139 TTTA-TTTTATTTTAATA
1 TTTAGTTTT-TTTTAATA
33560156 TTTA
1 TTTA
33560160 ATAATTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTAGTTTTTTTTAATA
Found at i:33563804 original size:69 final size:68
Alignment explanation
Indices: 33563702--33563867 Score: 188
Period size: 69 Copynumber: 2.4 Consensus size: 68
33563692 ACCTTCGATG
* * * ** * * *
33563702 TCCAAACAATTAGCGAGAGCAAAGTTCCTAGCTGTCATATTAAGACTCATAAGTGAAGAATTGCA
1 TCCAAACAGTTAGCGAGAGCAAAGCTCCCAGCTGTCATAGCAAGACTCACAAGTGAAAAATCGCA
*
33563767 GCC
66 ACC
* * * *
33563770 TCCAATACAGTTAACGAGAGCAAAGCTCCCAGCTGTCATAGCAAGGCTCGCAAGTGAAAAATCGT
1 TCCAA-ACAGTTAGCGAGAGCAAAGCTCCCAGCTGTCATAGCAAGACTCACAAGTGAAAAATCGC
33563835 AACC
65 AACC
*
33563839 TCCAACACAGTTAGCGAGAGTAAAGCTCC
1 TCCAA-ACAGTTAGCGAGAGCAAAGCTCC
33563868 AAACTGTAAT
Statistics
Matches: 81, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
68 5 0.06
69 76 0.94
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (68 bp):
TCCAAACAGTTAGCGAGAGCAAAGCTCCCAGCTGTCATAGCAAGACTCACAAGTGAAAAATCGCA
ACC
Found at i:33563963 original size:68 final size:67
Alignment explanation
Indices: 33563835--33563964 Score: 154
Period size: 68 Copynumber: 1.9 Consensus size: 67
33563825 GAAAAATCGT
* * * * *
33563835 AACCTCCAACACAGTTAGCGAGAGTAAAGCTCCAAACTGTAATCTCAGGCTCGCAGGTTCAACAC
1 AACCTCCAAAACAATTAGCGAGAGTAAAGCTCCAAACTGTAACCTAAGGCTCGCACGTTCAACAC
33563900 CA
66 CA
* * * *
33563902 AACCTCCAAAACAATTAGCGCGAGCTCAAGCTCCTAGCTGTAACCTTAAGGCTCGC-CGTTCAA
1 AACCTCCAAAACAATTAGCGAGAG-TAAAGCTCCAAACTGTAACC-TAAGGCTCGCACGTTCAA
33563965 TATCGCGACC
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
67 21 0.40
68 22 0.42
69 9 0.17
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.19
Consensus pattern (67 bp):
AACCTCCAAAACAATTAGCGAGAGTAAAGCTCCAAACTGTAACCTAAGGCTCGCACGTTCAACAC
CA
Found at i:33564032 original size:69 final size:69
Alignment explanation
Indices: 33563952--33564151 Score: 303
Period size: 69 Copynumber: 2.9 Consensus size: 69
33563942 TAACCTTAAG
**
33563952 GCTCGCC-GTTCAATATCGCGACCTCCAAAATAGTTCGCGGACCTACGTTTTCAGCTGATATTCT
1 GCTCGCCGGTTCAATATCGCGACCTCCAAAATAGTTCGCGGACCTACGTTCCCAGCTGATATTCT
33564016 AAAA
66 AAAA
*
33564020 GCTCGCCGGTTCAATATCGCGACCTCCAAAATAGTTTGCGGACCTACGTTCCCAGCTGATATTCT
1 GCTCGCCGGTTCAATATCGCGACCTCCAAAATAGTTCGCGGACCTACGTTCCCAGCTGATATTCT
*
33564085 AAAG
66 AAAA
** * * * *
33564089 GCTCGTAGGTTCAATATCGTGACCTCCAAAACAGCTCGCGGACCTACGTTCCCAGCTCATATT
1 GCTCGCCGGTTCAATATCGCGACCTCCAAAATAGTTCGCGGACCTACGTTCCCAGCTGATATT
33564152 ATAGAGGTTA
Statistics
Matches: 120, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
68 7 0.06
69 113 0.94
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (69 bp):
GCTCGCCGGTTCAATATCGCGACCTCCAAAATAGTTCGCGGACCTACGTTCCCAGCTGATATTCT
AAAA
Found at i:33564183 original size:69 final size:69
Alignment explanation
Indices: 33563960--33564186 Score: 204
Period size: 69 Copynumber: 3.3 Consensus size: 69
33563950 AGGCTCGCCG
* * * ** * * * *
33563960 TTCAATATCGCGACCTCCAAAATAGTTCGCGGACCTACGTTTTCAGCTGATATTCTAAAAGCTCG
1 TTCAAAATCGCGACCTCCAAAACAGCTCGCGGACCTACGTTCCCAGCTCATATTATAAAGGCTAG
** *
33564025 CCGG
66 TAGA
* * * * * * *
33564029 TTCAATATCGCGACCTCCAAAATAGTTTGCGGACCTACGTTCCCAGCTGATATTCTAAAGGCTCG
1 TTCAAAATCGCGACCTCCAAAACAGCTCGCGGACCTACGTTCCCAGCTCATATTATAAAGGCTAG
*
33564094 TAGG
66 TAGA
* * * *
33564098 TTCAATATCGTGACCTCCAAAACAGCTCGCGGACCTACGTTCCCAGCTCATATTATAGAGGTTAG
1 TTCAAAATCGCGACCTCCAAAACAGCTCGCGGACCTACGTTCCCAGCTCATATTATAAAGGCTAG
33564163 CTA-A
66 -TAGA
* *
33564167 TTTAAAATCGCAACCTCCAA
1 TTCAAAATCGCGACCTCCAA
33564187 TTATTTGAGT
Statistics
Matches: 137, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
69 135 0.99
70 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (69 bp):
TTCAAAATCGCGACCTCCAAAACAGCTCGCGGACCTACGTTCCCAGCTCATATTATAAAGGCTAG
TAGA
Found at i:33564278 original size:31 final size:31
Alignment explanation
Indices: 33564203--33564280 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
33564193 GAGTTAGTTA
* ** *
33564203 ATTTAATATCGCAACTTCACACAGCTCATTG
1 ATTTAAGATCGCAGTTTCACACAACTCATTG
* *
33564234 ATTTAAGATCGCAGTTTCACGCAACTCGTTG
1 ATTTAAGATCGCAGTTTCACACAACTCATTG
33564265 ATTTAAGATCGCAGTT
1 ATTTAAGATCGCAGTT
33564281 GATATTACTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (31 bp):
ATTTAAGATCGCAGTTTCACACAACTCATTG
Found at i:33564901 original size:15 final size:15
Alignment explanation
Indices: 33564883--33564913 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33564873 TATATTTTTA
*
33564883 TAATATTTTTATAAT
1 TAATATTTTAATAAT
33564898 TAATATTTTAATAAT
1 TAATATTTTAATAAT
33564913 T
1 T
33564914 TAATCGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATATTTTAATAAT
Found at i:33566690 original size:17 final size:17
Alignment explanation
Indices: 33566668--33566756 Score: 65
Period size: 17 Copynumber: 5.2 Consensus size: 17
33566658 CCAACTTTTA
33566668 ATTTTAAATTTTAAATT
1 ATTTTAAATTTTAAATT
* ** *
33566685 ATTTTAGATTCGAATTT
1 ATTTTAAATTTTAAATT
33566702 ATTTTAAA-TTTAAATT
1 ATTTTAAATTTTAAATT
* *
33566718 CATTTT-GAGTTTAAATTT
1 -ATTTTAAATTTTAAA-TT
* **
33566736 ATTTTGAATTAAAAATT
1 ATTTTAAATTTTAAATT
33566753 ATTT
1 ATTT
33566757 AATATTAAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
16 6 0.11
17 42 0.76
18 7 0.13
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTTTAAATTTTAAATT
Found at i:33566707 original size:34 final size:34
Alignment explanation
Indices: 33566668--33566756 Score: 101
Period size: 34 Copynumber: 2.6 Consensus size: 34
33566658 CCAACTTTTA
*
33566668 ATTTTAAATTTTAAATTATTTT-AGATTCGAATTT
1 ATTTTAAATTTTAAATTATTTTGAG-TTCAAATTT
*
33566702 ATTTTAAA-TTTAAATTCATTTTGAGTTTAAATTT
1 ATTTTAAATTTTAAATT-ATTTTGAGTTCAAATTT
* **
33566736 ATTTTGAATTAAAAATTATTT
1 ATTTTAAATTTTAAATTATTT
33566757 AATATTAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
33 8 0.17
34 31 0.66
35 8 0.17
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (34 bp):
ATTTTAAATTTTAAATTATTTTGAGTTCAAATTT
Found at i:33566713 original size:23 final size:23
Alignment explanation
Indices: 33566687--33566736 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
33566677 TTTAAATTAT
* *
33566687 TTTAGATTCGAATTT-ATTTTAAA
1 TTTAAATTC-AATTTGAGTTTAAA
*
33566710 TTTAAATTCATTTTGAGTTTAAA
1 TTTAAATTCAATTTGAGTTTAAA
33566733 TTTA
1 TTTA
33566737 TTTTGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (23 bp):
TTTAAATTCAATTTGAGTTTAAA
Found at i:33568149 original size:29 final size:29
Alignment explanation
Indices: 33568117--33568419 Score: 199
Period size: 29 Copynumber: 10.3 Consensus size: 29
33568107 CCAAAATTAT
33568117 ATTTTTGACCCTGAACTTTCAAAAATTCC
1 ATTTTTGACCCTGAACTTTCAAAAATTCC
* * * * *
33568146 ATTTTTAACCCCGAAACTTCCAAAAAAAATAC
1 ATTTTTGACCCTG-AACTTTC--AAAAATTCC
** **
33568178 ATTTTTTCCCCAAAACTTTCAAAAATTCC
1 ATTTTTGACCCTGAACTTTCAAAAATTCC
*
33568207 ATTTTTGACCCCTGAACTTTCAAAAATTAC
1 ATTTTTGA-CCCTGAACTTTCAAAAATTCC
* *
33568237 ATTTTTGACCCTAAAACTTTCATAAA-TCAC
1 ATTTTTGACCCT-GAACTTTCAAAAATTC-C
*** * *
33568267 ATTTTACCCCCTAAACTTCCAAAAATTCC
1 ATTTTTGACCCTGAACTTTCAAAAATTCC
* ** *
33568296 AATTTTGACCCCAAAAC-TTCTAAAACTTCC
1 ATTTTTGA-CCCTGAACTTTC-AAAAATTCC
* **
33568326 ATTTTT-ACCCTCGAACTTCCAAAAACCCC
1 ATTTTTGACCCT-GAACTTTCAAAAATTCC
33568355 A-TTTTGACCC-GAAACTTTCAAAAATTACC
1 ATTTTTGACCCTG-AACTTTCAAAAATT-CC
* *
33568384 A-TTTT-ACCCCT-AAATGTTCAAAAATTTC
1 ATTTTTGA-CCCTGAACT-TTCAAAAATTCC
33568412 ATTTTTGA
1 ATTTTTGA
33568420 TCCCGATTTT
Statistics
Matches: 211, Mismatches: 44, Indels: 37
0.72 0.15 0.13
Matches are distributed among these distances:
27 1 0.00
28 24 0.11
29 86 0.41
30 78 0.37
31 6 0.03
32 16 0.08
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (29 bp):
ATTTTTGACCCTGAACTTTCAAAAATTCC
Found at i:33568278 original size:59 final size:59
Alignment explanation
Indices: 33568105--33568419 Score: 276
Period size: 59 Copynumber: 5.4 Consensus size: 59
33568095 TCCCAAACTT
* **
33568105 TTCC-AAAATTATATTTTTGA-CCCTGAACTTTCAAAAATTCCATTTTTAACCCC-GAAAC
1 TTCCAAAAATTACATTTTTGACCCCAAAACTTTCAAAAATTCCATTTTT-ACCCCTG-AAC
* *
33568163 TTCCAAAAAAAATACATTTTT-TCCCCAAAACTTTCAAAAATTCCATTTTTGACCCCTGAAC
1 TTCC--AAAAATTACATTTTTGACCCCAAAACTTTCAAAAATTCCATTTTT-ACCCCTGAAC
* * * *
33568224 TTTCAAAAATTACATTTTTGACCCTAAAACTTTCATAAA-TCACA-TTTTACCCCCTAAAC
1 TTCCAAAAATTACATTTTTGACCCCAAAACTTTCAAAAATTC-CATTTTTA-CCCCTGAAC
* * *
33568283 TTCCAAAAATTCCAATTTTGACCCCAAAAC-TTCTAAAACTTCCATTTTTA-CCCTCGAAC
1 TTCCAAAAATTACATTTTTGACCCCAAAACTTTC-AAAAATTCCATTTTTACCCCT-GAAC
*** * *
33568342 TTCCAAAAACCCCA-TTTTGA-CCCGAAACTTTCAAAAATTACCA-TTTTACCCCT-AAA
1 TTCCAAAAATTACATTTTTGACCCCAAAACTTTCAAAAATT-CCATTTTTACCCCTGAAC
* *
33568398 TGTTCAAAAATTTCATTTTTGA
1 T-TCCAAAAATTACATTTTTGA
33568420 TCCCGATTTT
Statistics
Matches: 212, Mismatches: 28, Indels: 34
0.77 0.10 0.12
Matches are distributed among these distances:
56 3 0.01
57 27 0.13
58 34 0.16
59 74 0.35
60 25 0.12
61 48 0.23
62 1 0.00
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (59 bp):
TTCCAAAAATTACATTTTTGACCCCAAAACTTTCAAAAATTCCATTTTTACCCCTGAAC
Found at i:33568509 original size:29 final size:28
Alignment explanation
Indices: 33568434--33568537 Score: 88
Period size: 28 Copynumber: 3.6 Consensus size: 28
33568424 GATTTTTTAG
33568434 AAAATTACCATTTTACCCCAAAATATCC
1 AAAATTACCATTTTACCCCAAAATATCC
* * *
33568462 AAAATGTTA--TTTTTAACCCCAAACTTTCC
1 AAAA--TTACCATTTT-ACCCCAAAATATCC
* * *
33568491 TAAAATTACCATTTCACCCCTAAGA-GTCC
1 -AAAATTACCATTTTACCCC-AAAATATCC
33568520 AAAATTACCATTTTACCC
1 AAAATTACCATTTTACCC
33568538 TCGGGTATCC
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
28 28 0.47
29 20 0.33
30 12 0.20
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCAAAATATCC
Found at i:33572201 original size:59 final size:59
Alignment explanation
Indices: 33572050--33572241 Score: 160
Period size: 59 Copynumber: 3.3 Consensus size: 59
33572040 TTTTAAGGGT
* * * * *
33572050 AAAATGGTAA-TTTTTGTGAAATCGGGGCTAAAAATGGAA-TTTGAAAAGTTTGG-GGAAT
1 AAAACGGTAAGTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGAGG--C
* * ** * ** * * *
33572108 AAAATGGTAAATTTTGGCAAAAACAAGGTCAAAAATGAAATTTTGGAAAGTTCGGAGGC
1 AAAACGGTAAGTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGAGGC
* * *
33572167 AAAACGGTAAGTTTTGGTGAAATCGGGGTTAAAAATGGGATTTAGGAAAGTTTTGGAGTC
1 AAAACGGTAAGTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAG-TTTGGAGGC
33572227 AAAAC-GT-AGTTTTGG
1 AAAACGGTAAGTTTTGG
33572242 AAAAGTTTTG
Statistics
Matches: 105, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
58 18 0.17
59 61 0.58
60 24 0.23
61 2 0.02
ACGTcount: A:0.38, C:0.06, G:0.28, T:0.29
Consensus pattern (59 bp):
AAAACGGTAAGTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGAGGC
Found at i:33572249 original size:30 final size:30
Alignment explanation
Indices: 33572213--33572328 Score: 153
Period size: 30 Copynumber: 3.9 Consensus size: 30
33572203 GGGATTTAGG
* * *
33572213 AAAGTTTTGGAGTCAAAACGTAGTTTTGGA
1 AAAGTTTTGGGGTCAAAATGTAATTTTGGA
33572243 AAAGTTTTGGGGTCAAAATGTAATTTTGG-
1 AAAGTTTTGGGGTCAAAATGTAATTTTGGA
* * * *
33572272 ACAGTTTTGGGGTTAAAATATAATTTTGAA
1 AAAGTTTTGGGGTCAAAATGTAATTTTGGA
*
33572302 AAAGTTTTGGGGCCAAAATGTAATTTT
1 AAAGTTTTGGGGTCAAAATGTAATTTT
33572329 TAGAAAGCTA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
29 25 0.34
30 49 0.66
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (30 bp):
AAAGTTTTGGGGTCAAAATGTAATTTTGGA
Found at i:33572261 original size:59 final size:59
Alignment explanation
Indices: 33572198--33572327 Score: 152
Period size: 59 Copynumber: 2.2 Consensus size: 59
33572188 ATCGGGGTTA
* * * * *
33572198 AAAATGGGATTTAGGAAAGTTTTGGAGTCAAAACGTAGTTTTGGAAAAGTTTTGGGGTC
1 AAAATGGAATTTAGGAAAGTTTTGGAGTCAAAACATAATTTTGAAAAAGTTTTGGGGCC
* * * * * *
33572257 AAAATGTAATTTTGGACAGTTTTGGGGTTAAAATATAATTTTGAAAAAGTTTTGGGGCC
1 AAAATGGAATTTAGGAAAGTTTTGGAGTCAAAACATAATTTTGAAAAAGTTTTGGGGCC
*
33572316 AAAATGTAATTT
1 AAAATGGAATTT
33572328 TTAGAAAGCT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (59 bp):
AAAATGGAATTTAGGAAAGTTTTGGAGTCAAAACATAATTTTGAAAAAGTTTTGGGGCC
Found at i:33575722 original size:4 final size:4
Alignment explanation
Indices: 33575713--33575737 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
33575703 CATGTGATGC
33575713 GAAT GAAT GAAT GAAT GAAT GAAT G
1 GAAT GAAT GAAT GAAT GAAT GAAT G
33575738 CAAAAGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (4 bp):
GAAT
Found at i:33579553 original size:59 final size:58
Alignment explanation
Indices: 33579408--33579570 Score: 150
Period size: 59 Copynumber: 2.8 Consensus size: 58
33579398 GGGTAAAATA
* * * * *
33579408 GTAATTTTTGTGAAATCGGGGCTAAAAATGGAA-TTTGGAAAGTTTGGGGAATAAAATG
1 GTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGG-ACAAAACG
** * ** * *
33579466 GTAAATTTTGGCAAAAACAAGGTCAAAAATGAAATTTTGGAAAGTTCGGAGG-CAAAACG
1 GT-AATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGG-GGACAAAACG
* *
33579525 GTAAGTTTTGGTGAAATCGGGGTTAAAAATGGGATTTAGGAAAGTT
1 GTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
33579571 TTGGAGTCAA
Statistics
Matches: 80, Mismatches: 21, Indels: 7
0.74 0.19 0.06
Matches are distributed among these distances:
58 4 0.05
59 61 0.76
60 13 0.16
61 2 0.03
ACGTcount: A:0.38, C:0.06, G:0.28, T:0.28
Consensus pattern (58 bp):
GTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGACAAAACG
Found at i:33579613 original size:59 final size:59
Alignment explanation
Indices: 33579543--33579679 Score: 177
Period size: 59 Copynumber: 2.3 Consensus size: 59
33579533 TGGTGAAATC
* *
33579543 GGGGTTAAAAATGGGATTTAGGAAAGTTTT-GGAGTCAAAATATAGTTTTGGAAAAGTTTT
1 GGGGTT-AAAATGGAATTTAGGAAAGTTTTAGG-GTCAAAATATAATTTTGGAAAAGTTTT
* * *
33579603 GGGGTTAAAATGTAATTTTGGAAAGTTTTAGGGTCAAAATATAATTTTGGGAAAGTTTT
1 GGGGTTAAAATGGAATTTAGGAAAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTTT
* * *
33579662 TGGGTCAAAATGCAATTT
1 GGGGTTAAAATGGAATTT
33579680 TTGGACAACT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
59 60 0.88
60 8 0.12
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.36
Consensus pattern (59 bp):
GGGGTTAAAATGGAATTTAGGAAAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTTT
Found at i:33579680 original size:30 final size:30
Alignment explanation
Indices: 33579563--33579672 Score: 143
Period size: 30 Copynumber: 3.7 Consensus size: 30
33579553 ATGGGATTTA
*
33579563 GGAAAG-TTTTGGAGTCAAAATATAGTTTTG
1 GGAAAGTTTTTGG-GTCAAAATATAATTTTG
* * * *
33579593 GAAAAGTTTTGGGGTTAAAATGTAATTTT-
1 GGAAAGTTTTTGGGTCAAAATATAATTTTG
*
33579622 GGAAAGTTTTAGGGTCAAAATATAATTTTG
1 GGAAAGTTTTTGGGTCAAAATATAATTTTG
33579652 GGAAAGTTTTTGGGTCAAAAT
1 GGAAAGTTTTTGGGTCAAAAT
33579673 GCAATTTTTG
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
29 25 0.37
30 38 0.56
31 5 0.07
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (30 bp):
GGAAAGTTTTTGGGTCAAAATATAATTTTG
Found at i:33579693 original size:59 final size:58
Alignment explanation
Indices: 33579558--33579694 Score: 150
Period size: 59 Copynumber: 2.3 Consensus size: 58
33579548 TAAAAATGGG
* * * * * *
33579558 ATTTAGGAAAGTTTTGGAGTCAAAATATAGTTTTGGAAAAGTTTTGGGGTTAAAATGTA
1 ATTTTGGAAAGCTTAGG-GTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGCA
* * *
33579617 ATTTTGGAAAGTTTTAGGGTCAAAATATAATTTTGGGAAAGTTTTTGGGTCAAAATGCA
1 ATTTTGGAAAG-CTTAGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGCA
33579676 ATTTTTGGACAA-CTTAGGG
1 A-TTTTGGA-AAGCTTAGGG
33579695 ACTTGCAGAG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
59 53 0.79
60 12 0.18
61 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (58 bp):
ATTTTGGAAAGCTTAGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGCA
Found at i:33581111 original size:6 final size:6
Alignment explanation
Indices: 33581102--33581192 Score: 68
Period size: 6 Copynumber: 16.0 Consensus size: 6
33581092 TAATATTATT
* *
33581102 TTTAAA TTT-AA -TCAAA TTTAAA TTTAAA -GTAAA TTTAAA TTTAAGA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A
* * * * *
33581148 --TAAA TTTAAA TCTAAA -TAAAA TTTAAA ATTAAT TTTAAA CTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
33581193 AATCAAAATC
Statistics
Matches: 65, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
4 2 0.03
5 14 0.22
6 48 0.74
7 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:33581137 original size:17 final size:17
Alignment explanation
Indices: 33581102--33581179 Score: 90
Period size: 17 Copynumber: 4.6 Consensus size: 17
33581092 TAATATTATT
*
33581102 TTTAAATTT-AATCAAA
1 TTTAAATTTAAATAAAA
33581118 TTTAAATTTAAAGT-AAA
1 TTTAAATTTAAA-TAAAA
33581135 TTTAAATTTAAGAT-AAA
1 TTTAAATTTAA-ATAAAA
*
33581152 TTTAAATCTAAATAAAA
1 TTTAAATTTAAATAAAA
*
33581169 TTTAAAATTAA
1 TTTAAATTTAA
33581180 TTTTAAACTT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
16 11 0.20
17 42 0.76
18 2 0.04
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (17 bp):
TTTAAATTTAAATAAAA
Found at i:33583631 original size:25 final size:25
Alignment explanation
Indices: 33583589--33583637 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
33583579 ATTCATCAAT
* *
33583589 TTATTTTTATATTAAATAAATATAG
1 TTATTTATATATGAAATAAATATAG
* *
33583614 TTATTTATATATGCAATATATATA
1 TTATTTATATATGAAATAAATATA
33583638 CATAAAATGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (25 bp):
TTATTTATATATGAAATAAATATAG
Found at i:33587299 original size:58 final size:59
Alignment explanation
Indices: 33587237--33587404 Score: 166
Period size: 59 Copynumber: 2.9 Consensus size: 59
33587227 TTTCGACATC
33587237 TAGGGGT-AAAATGGTAATTTTTGAAAGTTTCGA-GGCAAAAATAGAATTTTTAAAAGTT
1 TAGGGGTAAAAAT-GTAATTTTTGAAAGTTTCGAGGGCAAAAATAGAATTTTTAAAAGTT
* * * * **
33587295 TA-GGGTAAAAATGTAA-TTTTCAATAGTTT-TAGGGTCAAAATTAGGATTTTTGGAAGTT
1 TAGGGGTAAAAATGTAATTTTTGAA-AGTTTCGAGGG-CAAAAATAGAATTTTTAAAAGTT
* * * * **
33587353 TAGGGGTAAAAATGTAATTTTAGGAAGTTTCGATGTCAAAAACGGAATTTTT
1 TAGGGGTAAAAATGTAATTTTTGAAAGTTTCGAGGGCAAAAATAGAATTTTT
33587405 GGAATTCGAG
Statistics
Matches: 87, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
56 7 0.08
57 15 0.17
58 28 0.32
59 31 0.36
60 6 0.07
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.36
Consensus pattern (59 bp):
TAGGGGTAAAAATGTAATTTTTGAAAGTTTCGAGGGCAAAAATAGAATTTTTAAAAGTT
Found at i:33587461 original size:28 final size:28
Alignment explanation
Indices: 33587239--33587511 Score: 127
Period size: 29 Copynumber: 9.6 Consensus size: 28
33587229 TCGACATCTA
*
33587239 GGGGT-AAAATGGTAATTTTTGAAAGTTT
1 GGGGTCAAAAT-GTAATTTTTGGAAGTTT
* **
33587267 CGAGG-CAAAAATAG-AATTTTTAAAAGTTT
1 -GGGGTC-AAAAT-GTAATTTTTGGAAGTTT
* * **
33587296 AGGGTAAAAATGTAA-TTTTCAATAGTTTT
1 GGGGTCAAAATGTAATTTTTGGA-AG-TTT
*
33587325 AGGGTCAAAAT-TAGGATTTTTGGAAGTTT
1 GGGGTCAAAATGTA--ATTTTTGGAAGTTT
* *
33587354 AGGGGTAAAAATGTAATTTTAGGAAGTTT
1 -GGGGTCAAAATGTAATTTTTGGAAGTTT
** * *
33587383 CGATGTCAAAAACGGAATTTTTGGAA--TT
1 -GGGGTC-AAAATGTAATTTTTGGAAGTTT
* * *
33587411 --CG--AGAGTGTAATTTTTGGGAAGTTT
1 GGGGTCAAAATGTAATTTTT-GGAAGTTT
*
33587436 GGGGTCAAAATGTAATTTTTGAAAGTTT
1 GGGGTCAAAATGTAATTTTTGGAAGTTT
* *
33587464 AGGGTCAAAATGTAAGTTTTAGGAAGTTTT
1 GGGGTCAAAATGTAA-TTTTTGGAAG-TTT
* * *
33587494 AGGGTTAAAATATAATTT
1 GGGGTCAAAATGTAATTT
33587512 CTAGATAGTT
Statistics
Matches: 189, Mismatches: 34, Indels: 42
0.71 0.13 0.16
Matches are distributed among these distances:
22 10 0.05
23 4 0.02
25 3 0.02
27 8 0.04
28 36 0.19
29 72 0.38
30 49 0.26
31 7 0.04
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (28 bp):
GGGGTCAAAATGTAATTTTTGGAAGTTT
Found at i:33589445 original size:17 final size:17
Alignment explanation
Indices: 33589419--33589456 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
33589409 CTTTTTAATT
*
33589419 AATTTTAATTTACAA-TA
1 AATTTAAATTTA-AAGTA
33589436 AATTTAAATTTAAAGTA
1 AATTTAAATTTAAAGTA
33589453 AATT
1 AATT
33589457 AAAAATTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
AATTTAAATTTAAAGTA
Found at i:33591132 original size:51 final size:52
Alignment explanation
Indices: 33591056--33591182 Score: 186
Period size: 51 Copynumber: 2.5 Consensus size: 52
33591046 GAAAAAGTCT
* * * *
33591056 GATGACTAAGTGTCATTGTGAGTAAATGAATCCTTTACGGATTAAA-GGTCC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATTAAATGGTCC
33591107 GATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATTAAATGGTCC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATTAAATGGTCC
*
33591159 GATGAC-AATATGTCATCGTGAGTA
1 GATGACTAA-GTGTCATCGTGAGTA
33591183 TTAGATGAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
51 44 0.64
52 25 0.36
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (52 bp):
GATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATTAAATGGTCC
Found at i:33596008 original size:16 final size:17
Alignment explanation
Indices: 33595989--33596022 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
33595979 TGATTAAAAT
33595989 ATAAATATAAAT-TCAA
1 ATAAATATAAATATCAA
*
33596005 ATAATTATAAATATCAA
1 ATAAATATAAATATCAA
33596022 A
1 A
33596023 CTACTACATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAATATAAATATCAA
Found at i:33599855 original size:29 final size:28
Alignment explanation
Indices: 33599657--33599870 Score: 141
Period size: 29 Copynumber: 7.4 Consensus size: 28
33599647 ATAAAACGGT
* * *
33599657 AATTTTTGGATGTACGGGGTCAAAAATAG
1 AATTTTTGGAAGTTCGGGGT-AAAAATGG
* *
33599686 AATTTTTGGAAGTTCGAGGTTAAAAATAG
1 AATTTTTGGAAGTTCG-GGGTAAAAATGG
* *
33599715 AATTTTTAGACA-TTCGGGGT-AAAATAGT
1 AATTTTTGGA-AGTTCGGGGTAAAAAT-GG
* * *
33599743 AATTTTTGAAAAATTTGGGGTCAAAAATGG
1 AATTTTTG-GAAGTTCGGGGT-AAAAATGG
* *
33599773 AATTTTTAGACA-TCTGGGGGT-AAAATGG
1 AATTTTTGGA-AGT-TCGGGGTAAAAATGG
** *
33599801 CAATTTTTGGAAAATCAGGGTCAAAAATGG
1 -AATTTTTGGAAGTTCGGGGT-AAAAATGG
*
33599831 AATTTTTGGAAGTTCGGGGGT-AAAATGAT
1 AATTTTTGGAAGTTC-GGGGTAAAAATG-G
33599860 AATTTTTGGAA
1 AATTTTTGGAA
33599871 AAATTAAGGT
Statistics
Matches: 148, Mismatches: 22, Indels: 30
0.74 0.11 0.15
Matches are distributed among these distances:
27 5 0.03
28 30 0.20
29 78 0.53
30 30 0.20
31 5 0.03
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.33
Consensus pattern (28 bp):
AATTTTTGGAAGTTCGGGGTAAAAATGG
Found at i:33599872 original size:58 final size:59
Alignment explanation
Indices: 33599686--33599872 Score: 208
Period size: 58 Copynumber: 3.2 Consensus size: 59
33599676 TCAAAAATAG
* * *
33599686 AATTTTTGG-AAGTTC-GAGGTTAAAAATAGAATTTTTAGACATTC-GGGGTAAAAT-AGT
1 AATTTTTGGAAAATTCAG-GGTCAAAAATGGAATTTTTAGACATTCGGGGGTAAAATGA-T
* ** **
33599743 AATTTTTGAAAAATTTGGGGTCAAAAATGGAATTTTTAGACA-TCTGGGGGTAAAATGGC
1 AATTTTTGGAAAATTCAGGGTCAAAAATGGAATTTTTAGACATTC-GGGGGTAAAATGAT
*
33599802 AATTTTTGGAAAA-TCAGGGTCAAAAATGGAATTTTTGGA-AGTTCGGGGGTAAAATGAT
1 AATTTTTGGAAAATTCAGGGTCAAAAATGGAATTTTTAGACA-TTCGGGGGTAAAATGAT
33599860 AATTTTTGGAAAA
1 AATTTTTGGAAAA
33599873 ATTAAGGTTA
Statistics
Matches: 110, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
57 11 0.10
58 74 0.67
59 25 0.23
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (59 bp):
AATTTTTGGAAAATTCAGGGTCAAAAATGGAATTTTTAGACATTCGGGGGTAAAATGAT
Found at i:33601001 original size:3 final size:3
Alignment explanation
Indices: 33600993--33601060 Score: 59
Period size: 3 Copynumber: 22.0 Consensus size: 3
33600983 TCGTTTTCTT
* * *
33600993 TTA TTA TTA TTA TTA ATA TTA TTA ATG TTA -TA TTTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TT-A
33601039 TTA TTA TTGA -TA TTA TTTA TTA
1 TTA TTA TT-A TTA TTA -TTA TTA
33601061 AATACGTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
2 3 0.06
3 41 0.77
4 9 0.17
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:33601743 original size:17 final size:17
Alignment explanation
Indices: 33601704--33601770 Score: 53
Period size: 17 Copynumber: 3.7 Consensus size: 17
33601694 TTGGACTTTT
* * *
33601704 AATAAACTTAAACTTAC
1 AATAAATTTAAATTTAA
*
33601721 ATTAAATTTAAATTTAA
1 AATAAATTTAAATTTAA
*
33601738 AATAAATAAAATTAATTTTAA
1 AATAAAT----TTAAATTTAA
33601759 AATAAATTTAAA
1 AATAAATTTAAA
33601771 AGAAAGTGGG
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
17 23 0.59
21 16 0.41
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.37
Consensus pattern (17 bp):
AATAAATTTAAATTTAA
Found at i:33601752 original size:21 final size:21
Alignment explanation
Indices: 33601723--33601765 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
33601713 AAACTTACAT
*
33601723 TAAATTTAAATTTAAAATAAA
1 TAAAATTAAATTTAAAATAAA
*
33601744 TAAAATTAATTTTAAAATAAA
1 TAAAATTAAATTTAAAATAAA
33601765 T
1 T
33601766 TTAAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAATTAAATTTAAAATAAA
Found at i:33601761 original size:12 final size:11
Alignment explanation
Indices: 33601729--33601771 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
33601719 ACATTAAATT
33601729 TAAATTTAAAA
1 TAAATTTAAAA
33601740 TAAA--TAAAA
1 TAAATTTAAAA
*
33601749 TTAATTTTAAAA
1 -TAAATTTAAAA
33601761 TAAATTTAAAA
1 TAAATTTAAAA
33601772 GAAAGTGGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
9 5 0.19
10 3 0.11
11 14 0.52
12 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:33604025 original size:29 final size:28
Alignment explanation
Indices: 33603980--33604036 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
33603970 TTACAAAAGC
33603980 TTTGGGGTATTACTGTAAATTTACCAAA
1 TTTGGGGTATTACTGTAAATTTACCAAA
* * *
33604008 TTTGAGGGTGTTATTGTAATTTTACCAAA
1 TTTG-GGGTATTACTGTAAATTTACCAAA
33604037 ATTAAGGCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (28 bp):
TTTGGGGTATTACTGTAAATTTACCAAA
Found at i:33607356 original size:21 final size:21
Alignment explanation
Indices: 33607312--33607356 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
33607302 TTCTAAATTG
* * *
33607312 ACACTTGTTGCTTTTAGGGGA
1 ACACTTGGTGCTTCTAAGGGA
*
33607333 ACACTTGGTGCTTCTAAGGTA
1 ACACTTGGTGCTTCTAAGGGA
33607354 ACA
1 ACA
33607357 GGTGTCAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (21 bp):
ACACTTGGTGCTTCTAAGGGA
Found at i:33611908 original size:12 final size:12
Alignment explanation
Indices: 33611891--33611915 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33611881 ATCGAGGTTT
33611891 AAAAACAAAAAA
1 AAAAACAAAAAA
33611903 AAAAACAAAAAA
1 AAAAACAAAAAA
33611915 A
1 A
33611916 GCTTATTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAA
Done.