Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 1 of 335
Found at i:4793 original size:44 final size:44
Alignment explanation
Indices: 4730--5108 Score: 196
Period size: 43 Copynumber: 8.8 Consensus size: 44
4720 AATTTCTAGC
* * *
4730 CTGTTACCCTACTGTTTAGGGGGTTAAGG-CTTGTCACCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTC-TGTCACATTCGAT
* * * * * *
4774 CTGTTTCCCTACTGCTTA-GGGGTTAAGATTTGTGA-ATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTGTCACATTCGAT
* * * * *
4816 CTGTTACCCTACTACTTA-GGGTTTAAGGTCTGT-AGATTTG-G
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTGTCACATTCGAT
* *
4857 CTTGCTACCCTACTGCTTAGGGGGTTAAAGGTCTGTCACCTTCGAT
1 C-TGTTACCCTACTGCTTAGGGGGTT-AAGGTCTGTCACATTCGAT
* * * * * * * *
4903 CTGTTTCCCTACTACTTAGTGGGTTAAGATTTG-GAAATTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTGTCACATTCGA-T
* * *
4946 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCT-TCGTC-TTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGG-TCTGTC-ACATTCGAT
* * * * * * *
4990 CTGCT-CCACTACTGCTTAGGGAGATAAGATCT-ACA-ATTTGGT
1 CTGTTACC-CTACTGCTTAGGGGGTTAAGGTCTGTCACATTCGAT
* ** *
5032 CTGTTACCCTACTGCTTA-GGGTTTAAGACCCT-TCGTC-TTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAG-GTCTGTC-ACATTCGAT
* * *
5075 CTGTTTCTCTACTGCTTAGGGGGTTAAGATCTGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTGT
5109 AAATGTTTAT
Statistics
Matches: 245, Mismatches: 70, Indels: 40
0.69 0.20 0.11
Matches are distributed among these distances:
41 8 0.03
42 71 0.29
43 75 0.31
44 65 0.27
45 25 0.10
46 1 0.00
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.37
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTGTCACATTCGAT
Found at i:4834 original size:42 final size:43
Alignment explanation
Indices: 4729--4969 Score: 157
Period size: 42 Copynumber: 5.6 Consensus size: 43
4719 TAATTTCTAG
* * * * **
4729 CCTGTTACCCTACTGTTTAGGGGGTTAAG-GCTTGTCACCTTTGA
1 CCTGTTACCCTACTGCTTA-GGGGTTAAGATC-TGTGACATTCAA
* * *
4773 TCTGTTTCCCTACTGCTTAGGGGTTAAGATTTGTGA-ATTCAA
1 CCTGTTACCCTACTGCTTAGGGGTTAAGATCTGTGACATTCAA
* * * * ***
4815 CCTGTTACCCTACTACTTAGGGTTTAAGGTCTGT-AGATTTGG
1 CCTGTTACCCTACTGCTTAGGGGTTAAGATCTGTGACATTCAA
* * * * * *
4857 CTTGCTACCCTACTGCTTAGGGGGTTAAAGGTCTGTCACCTTCGA
1 CCTGTTACCCTACTGCTTA-GGGGTT-AAGATCTGTGACATTCAA
* * * * * *
4902 TCTGTTTCCCTACTACTTAGTGGGTTAAGATTTG-GAAATTCAG
1 CCTGTTACCCTACTGCTTAG-GGGTTAAGATCTGTGACATTCAA
4945 CCTGTTACCCTACTGCTTAGGGGTT
1 CCTGTTACCCTACTGCTTAGGGGTT
4970 TAAGGCCCTT
Statistics
Matches: 150, Mismatches: 41, Indels: 14
0.73 0.20 0.07
Matches are distributed among these distances:
41 1 0.01
42 55 0.37
43 39 0.26
44 32 0.21
45 23 0.15
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (43 bp):
CCTGTTACCCTACTGCTTAGGGGTTAAGATCTGTGACATTCAA
Found at i:4965 original size:130 final size:129
Alignment explanation
Indices: 4734--4974 Score: 380
Period size: 130 Copynumber: 1.9 Consensus size: 129
4724 TCTAGCCTGT
* * *
4734 TACCCTACTGTTTAGGGGGTTAAGGCTTGTCACCTTTGATCTGTTTCCCTACTGCTTAGGGGTTA
1 TACCCTACTGCTTAGGGGGTTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTACTTAGGGGTTA
4799 AGATTTGTGAATTCAACCTGTTACCCTACTACTTA-GGGTTTAAGGTCTGTAGATTTGGCTTGC
66 AGATTTGTGAATTCAACCTGTTACCCTACTACTTAGGGGTTTAAGGTCTGTAGATTTGGCTTGC
4862 TACCCTACTGCTTAGGGGGTTAAAGG-TCTGTCACCTTCGATCTGTTTCCCTACTACTTAGTGGG
1 TACCCTACTGCTTAGGGGGTT-AAGGCT-TGTCACCTTCGATCTGTTTCCCTACTACTTAG-GGG
* *
4926 TTAAGATTTG-GAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG
63 TTAAGATTTGTG-AATTCAACCTGTTACCCTACTACTTAGGGGTTTAAGG
4975 CCCTTCGTCT
Statistics
Matches: 103, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
128 21 0.20
129 35 0.34
130 37 0.36
131 10 0.10
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (129 bp):
TACCCTACTGCTTAGGGGGTTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTACTTAGGGGTTA
AGATTTGTGAATTCAACCTGTTACCCTACTACTTAGGGGTTTAAGGTCTGTAGATTTGGCTTGC
Found at i:5076 original size:85 final size:86
Alignment explanation
Indices: 4946--5106 Score: 261
Period size: 85 Copynumber: 1.9 Consensus size: 86
4936 GAAATTCAGC
*
4946 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGG
5011 AGATAAGATCTACAATTTGGT
66 AGATAAGATCTACAATTTGGT
* * *
5032 CTGTTACCCTACTGCTTA-GGGTTTAAGACCCTTCGTCTTCGATCTGTTTCTCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGG
* *
5096 GGTTAAGATCT
66 AGATAAGATCT
5107 GTAAATGTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
85 51 0.74
86 18 0.26
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (86 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGG
AGATAAGATCTACAATTTGGT
Found at i:5204 original size:64 final size:64
Alignment explanation
Indices: 5115--5238 Score: 221
Period size: 64 Copynumber: 1.9 Consensus size: 64
5105 CTGTAAATGT
*
5115 TTATGCCAAATAATTAGGACGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGC
1 TTATGCCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTGATGC
* *
5179 TTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
1 TTATGCCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
5239 TCACGAATAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (64 bp):
TTATGCCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTGATGC
Found at i:16103 original size:45 final size:46
Alignment explanation
Indices: 16039--16213 Score: 225
Period size: 45 Copynumber: 3.8 Consensus size: 46
16029 TGTAACCCGC
*
16039 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
16084 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* * *
16134 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
16177 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16214 TGCTCACCAT
Statistics
Matches: 112, Mismatches: 8, Indels: 19
0.81 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 37 0.33
46 29 0.26
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:16205 original size:93 final size:92
Alignment explanation
Indices: 16047--16216 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 92
16037 GCCCATAAGT
*
16047 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
16112 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
16139 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16204 CGAGTTCGGATGC
65 CGAGTTCGGATGC
16217 TCACCATCCT
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 27 0.36
93 48 0.64
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:18631 original size:29 final size:29
Alignment explanation
Indices: 18592--18679 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
18582 CAAAGATAAC
*
18592 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
18621 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
18650 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
18680 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:18650 original size:15 final size:15
Alignment explanation
Indices: 18592--18670 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
18582 CAAAGATAAC
*
18592 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
18606 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
18621 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
18635 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
18650 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
18665 AAGAAA
1 AAGAAA
18671 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:18679 original size:15 final size:15
Alignment explanation
Indices: 18603--18679 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
18593 AGAAAACCGA
18603 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
18618 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
18632 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
18646 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
18662 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
18677 ATA
1 ATA
18680 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:21741 original size:93 final size:93
Alignment explanation
Indices: 21629--21799 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
21619 GCCCATAAGT
* *
21629 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21694 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
21722 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21787 CGAGTTCGGATGC
66 CGAGTTCGGATGC
21800 TCACCATCCT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:21796 original size:46 final size:46
Alignment explanation
Indices: 21621--21796 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
21611 TGTAACCCGC
* * *
21621 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
21667 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
21717 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
21760 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
21797 TGCTCACCAT
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:25539 original size:21 final size:22
Alignment explanation
Indices: 25486--25544 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
25476 GATACCTATG
25486 CATAGTATATATATAAAAATGT
1 CATAGTATATATATAAAAATGT
25508 -ATACGTA-ATATAATAAAAAT-T
1 CATA-GTATATAT-ATAAAAATGT
25529 ACATAGTATATATATA
1 -CATAGTATATATATA
25545 TATATATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
21 8 0.25
22 17 0.53
23 7 0.22
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.36
Consensus pattern (22 bp):
CATAGTATATATATAAAAATGT
Found at i:25940 original size:11 final size:11
Alignment explanation
Indices: 25926--25975 Score: 55
Period size: 11 Copynumber: 4.3 Consensus size: 11
25916 TATTAAAAGC
25926 ATATACATAAT
1 ATATACATAAT
25937 ATATACATAAT
1 ATATACATAAT
* *
25948 ATACAAAACAAAAT
1 AT---ATACATAAT
25962 ATATACATAAT
1 ATATACATAAT
25973 ATA
1 ATA
25976 CTTAAAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
11 23 0.72
14 9 0.28
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (11 bp):
ATATACATAAT
Found at i:26000 original size:20 final size:21
Alignment explanation
Indices: 25957--26002 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
25947 TATACAAAAC
25957 AAAATATATACATAATATACTT
1 AAAATATATACATAATATA-TT
* *
25979 AAAATATATATATAATGT-TT
1 AAAATATATACATAATATATT
25999 AAAA
1 AAAA
26003 AGAACAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
22 16 0.73
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAATATATACATAATATATT
Found at i:28981 original size:15 final size:15
Alignment explanation
Indices: 28961--29002 Score: 54
Period size: 13 Copynumber: 3.0 Consensus size: 15
28951 CAATTTTTTA
28961 TCAAAAAAAAATTGT
1 TCAAAAAAAAATTGT
*
28976 TC-AAAAAAAA-T-A
1 TCAAAAAAAAATTGT
28988 TCAAAAAAAAATTGT
1 TCAAAAAAAAATTGT
29003 ATATATTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
12 2 0.09
13 9 0.41
14 9 0.41
15 2 0.09
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.24
Consensus pattern (15 bp):
TCAAAAAAAAATTGT
Found at i:30005 original size:2 final size:2
Alignment explanation
Indices: 29998--30029 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
29988 CCCTGTGCTA
29998 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30030 TTATTGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32237 original size:6 final size:6
Alignment explanation
Indices: 32191--32233 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
32181 AATCGTCCTC
* * *
32191 CGCCAT CGCCAT CGCAAT CGCCAT CGCCA- CGTCAT CGTCAT CG
1 CGCCAT CGCCAT CGCCAT CGCCAT CGCCAT CGCCAT CGCCAT CG
32234 TCATGGCCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.19, C:0.44, G:0.19, T:0.19
Consensus pattern (6 bp):
CGCCAT
Found at i:33349 original size:6 final size:6
Alignment explanation
Indices: 33338--33450 Score: 129
Period size: 6 Copynumber: 18.8 Consensus size: 6
33328 CAACGATGGG
* * * * *
33338 TCCGGT TCCGGT TCGGGT TCCGGT TCTGGT TCTGGT TCTGGT TCTGGT
1 TCCGGT TCCGGT TCCGGT TCCGGT TCCGGT TCCGGT TCCGGT TCCGGT
* * *
33386 TCTGGT TCCGG- TCCTGGT TCCGAT TCCGAT TCCGGT TCCGGT TCCGGT
1 TCCGGT TCCGGT TCC-GGT TCCGGT TCCGGT TCCGGT TCCGGT TCCGGT
*
33434 TCCGAT TCCGGT TCCGG
1 TCCGGT TCCGGT TCCGG
33451 CTCCAAGAAG
Statistics
Matches: 97, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
5 3 0.03
6 91 0.94
7 3 0.03
ACGTcount: A:0.03, C:0.28, G:0.32, T:0.37
Consensus pattern (6 bp):
TCCGGT
Found at i:42873 original size:23 final size:23
Alignment explanation
Indices: 42842--42885 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
42832 GTCTTATATG
42842 CTCAACTAGATTAAATTGGAGCT
1 CTCAACTAGATTAAATTGGAGCT
*
42865 CTCAGCTAGATTAAATTGGAG
1 CTCAACTAGATTAAATTGGAG
42886 GCCACGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (23 bp):
CTCAACTAGATTAAATTGGAGCT
Found at i:43842 original size:12 final size:13
Alignment explanation
Indices: 43817--43841 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43807 AATTTTAATC
43817 AAATAAATTTTTT
1 AAATAAATTTTTT
43830 AAATAAATTTTT
1 AAATAAATTTTT
43842 ATACAATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAATAAATTTTTT
Found at i:53598 original size:19 final size:20
Alignment explanation
Indices: 53574--53611 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
53564 GGTACCACCA
53574 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
53593 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
53612 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:53951 original size:93 final size:93
Alignment explanation
Indices: 53841--54011 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
53831 GCCCCTAAGT
* *
53841 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
53906 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
53934 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
53999 CGAGTTCGGATGC
66 CGAGTTCGGATGC
54012 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:54008 original size:46 final size:46
Alignment explanation
Indices: 53836--54008 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
53826 AACCCGCCCC
* * * *
53836 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
53882 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
53930 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
53975 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
54009 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:54465 original size:30 final size:30
Alignment explanation
Indices: 54431--54490 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
54421 ATTTAATACG
54431 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
54461 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
54491 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:56387 original size:30 final size:30
Alignment explanation
Indices: 56351--56413 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
56341 ACTTAATAAT
*
56351 CAAATGCCTCTAAAATAATAACAAATTTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
56381 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
56411 CAA
1 CAA
56414 TAAAGTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:58501 original size:50 final size:50
Alignment explanation
Indices: 58426--58601 Score: 253
Period size: 50 Copynumber: 3.5 Consensus size: 50
58416 TATGGCAACC
* * *
58426 AGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGATAAGTGAA
1 AGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
* *
58476 AGTGATAAGTAATAACTTCGGCTACACTAATCTGATCAAGGACAAGTGAA
1 AGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
* * *
58526 AGTGATAAGGGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGACA
1 AGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAGTGA-A
* *
58577 AGTGAAAAGTGGTAACTTCGGCTAC
1 AGTGATAAGTGATAACTTCGGCTAC
58602 CTGATCAGTG
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 89 0.80
51 22 0.20
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (50 bp):
AGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
Found at i:58615 original size:31 final size:31
Alignment explanation
Indices: 58577--58694 Score: 173
Period size: 31 Copynumber: 3.8 Consensus size: 31
58567 ACAAATGACA
* *
58577 AGTGAAAAGTGGTAACTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
58608 AGTGAAAAGTGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
58639 AGTGAAAAATGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* * *
58670 AGTGAATAGTAGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
58695 AAGTGACAAG
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:58835 original size:49 final size:49
Alignment explanation
Indices: 58713--58853 Score: 171
Period size: 49 Copynumber: 2.9 Consensus size: 49
58703 AGTGATTTCC
* * *
58713 GTATAAGACCATATCTGGGATATGGCATCG--GTGTAATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGATATGTGATATGTGCTACT
*
58760 GTATAAGACCATATCTGGGATATGGCATCGATATGTGATATGTGATTAC-
1 GTATAAGACCATATCTGGGATATGGCATCGATATGTGATATGTG-CTACT
* * * *
58809 GTGTAAGACCATAGCTGGGTTATGGCATCGATATATGAATATGTG
1 GTATAAGACCATATCTGGGATATGGCATCGATATGTG-ATATGTG
58854 TATGACCATA
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
47 30 0.37
49 42 0.51
50 10 0.12
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.32
Consensus pattern (49 bp):
GTATAAGACCATATCTGGGATATGGCATCGATATGTGATATGTGCTACT
Found at i:71633 original size:11 final size:11
Alignment explanation
Indices: 71617--71668 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
71607 TATACTAAAT
71617 AAATAATAATA
1 AAATAATAATA
*
71628 AAATAAT-ATT
1 AAATAATAATA
* *
71638 AAATATCTCATA
1 AAATA-ATAATA
*
71650 AAATATTAATA
1 AAATAATAATA
71661 AAATAATA
1 AAATAATA
71669 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:76731 original size:11 final size:11
Alignment explanation
Indices: 76715--76766 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
76705 TATACTAAAT
76715 AAATAATAATA
1 AAATAATAATA
*
76726 AAATAAT-ATT
1 AAATAATAATA
* *
76736 AAATATCTCATA
1 AAATA-ATAATA
*
76748 AAATATTAATA
1 AAATAATAATA
76759 AAATAATA
1 AAATAATA
76767 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:97942 original size:6 final size:6
Alignment explanation
Indices: 97931--97993 Score: 81
Period size: 6 Copynumber: 10.5 Consensus size: 6
97921 TAGTTGAGTA
* * *
97931 GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GTGCCT GTGCCT GTGCCT
1 GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT
* *
97979 GTGCCT GTGCCT GAG
1 GAGCCT GAGCCT GAG
97994 TTTATTGTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.10, C:0.32, G:0.35, T:0.24
Consensus pattern (6 bp):
GAGCCT
Found at i:97948 original size:12 final size:12
Alignment explanation
Indices: 97931--97993 Score: 90
Period size: 12 Copynumber: 5.2 Consensus size: 12
97921 TAGTTGAGTA
*
97931 GAGCCTGAGCCT
1 GAGCCTGTGCCT
*
97943 GAGCCTGAGCCT
1 GAGCCTGTGCCT
97955 GAGCCTGTGCCT
1 GAGCCTGTGCCT
*
97967 GTGCCTGTGCCT
1 GAGCCTGTGCCT
*
97979 GTGCCTGTGCCT
1 GAGCCTGTGCCT
97991 GAG
1 GAG
97994 TTTATTGTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 48 1.00
ACGTcount: A:0.10, C:0.32, G:0.35, T:0.24
Consensus pattern (12 bp):
GAGCCTGTGCCT
Found at i:97954 original size:18 final size:18
Alignment explanation
Indices: 97931--97993 Score: 90
Period size: 18 Copynumber: 3.5 Consensus size: 18
97921 TAGTTGAGTA
*
97931 GAGCCTGAGCCTGAGCCT
1 GAGCCTGAGCCTGTGCCT
97949 GAGCCTGAGCCTGTGCCT
1 GAGCCTGAGCCTGTGCCT
* *
97967 GTGCCTGTGCCTGTGCCT
1 GAGCCTGAGCCTGTGCCT
*
97985 GTGCCTGAG
1 GAGCCTGAG
97994 TTTATTGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.10, C:0.32, G:0.35, T:0.24
Consensus pattern (18 bp):
GAGCCTGAGCCTGTGCCT
Found at i:115922 original size:67 final size:67
Alignment explanation
Indices: 115841--115974 Score: 241
Period size: 67 Copynumber: 2.0 Consensus size: 67
115831 CATGATCGTT
* *
115841 TAATGTTTGTGAATATATTTGATTAAGTTAAATAAACATGTTCGTAAACATTAAATAAACGAACA
1 TAATGTTTGTGAATATATTTGATTAAATTAAATAAACATGCTCGTAAACATTAAATAAACGAACA
115906 TG
66 TG
*
115908 TAATGTTTGTGAATATATTTGATTAAATTAAATAAACATGCTCGTGAACATTAAATAAACGAACA
1 TAATGTTTGTGAATATATTTGATTAAATTAAATAAACATGCTCGTAAACATTAAATAAACGAACA
115973 TG
66 TG
115975 GAACACATGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.35
Consensus pattern (67 bp):
TAATGTTTGTGAATATATTTGATTAAATTAAATAAACATGCTCGTAAACATTAAATAAACGAACA
TG
Found at i:118701 original size:26 final size:26
Alignment explanation
Indices: 118649--118697 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
118639 ATCAAAATTA
*
118649 AATTAATAAAATATATAAACTATACC
1 AATTAAAAAAATATATAAACTATACC
*
118675 AATTAAAAAAAT-TATAATCTATA
1 AATTAAAAAAATATATAAACTATA
118698 ACCATATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (26 bp):
AATTAAAAAAATATATAAACTATACC
Found at i:125200 original size:16 final size:17
Alignment explanation
Indices: 125159--125200 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
125149 AACTTCAAAT
125159 TAAT-TTTTTTTATATA
1 TAATATTTTTTTATATA
*
125175 TAAAAGTTTTTTTAT-TA
1 TAATA-TTTTTTTATATA
125192 TAATATTTT
1 TAATATTTT
125201 ATCACAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 7 0.32
17 6 0.27
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TAATATTTTTTTATATA
Found at i:134121 original size:2 final size:2
Alignment explanation
Indices: 134114--134145 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
134104 AAAGTAAAAG
*
134114 GA GA GA GA GA GA GA GA GA GA GA GA CA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
134146 AGGGGGAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:148730 original size:20 final size:20
Alignment explanation
Indices: 148703--148747 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
148693 AAAATGTTAA
148703 ATAA-ATATATTATAATATT
1 ATAATATATATTATAATATT
*
148722 ATAATATATATTATATTATT
1 ATAATATATATTATAATATT
148742 ATAATA
1 ATAATA
148748 AAACAAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAATATATATTATAATATT
Found at i:152437 original size:19 final size:17
Alignment explanation
Indices: 152375--152438 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 17
152365 GTCCATGCTG
152375 AAGAAGAGAATAAGAGA
1 AAGAAGAGAATAAGAGA
*
152392 GAAG-AGAGAAT-AGAAGG
1 -AAGAAGAGAATAAG-AGA
152409 AAGAAGGAGAAATAAGAGA
1 AAGAA-GAG-AATAAGAGA
152428 AAGAGAGAGAA
1 AAGA-AGAGAA
152439 GGAAGAAGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
16 5 0.13
17 10 0.26
18 8 0.21
19 12 0.32
20 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.34, T:0.05
Consensus pattern (17 bp):
AAGAAGAGAATAAGAGA
Found at i:152456 original size:36 final size:34
Alignment explanation
Indices: 152374--152447 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 34
152364 CGTCCATGCT
152374 GAAGAA-GAG-AATAAGAGAGAAGAGAGAATAGAAG
1 GAAGAAGGAGAAATAAGAGAGAAGAGAG-A-AGAAG
152408 GAAGAAGGAGAAATAAGAGA-AAGAGAG-AGAAG
1 GAAGAAGGAGAAATAAGAGAGAAGAGAGAAGAAG
152440 GAAGAAGG
1 GAAGAAGG
152448 GATGAGAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
32 13 0.34
34 6 0.16
35 10 0.26
36 9 0.24
ACGTcount: A:0.58, C:0.00, G:0.38, T:0.04
Consensus pattern (34 bp):
GAAGAAGGAGAAATAAGAGAGAAGAGAGAAGAAG
Found at i:152761 original size:25 final size:25
Alignment explanation
Indices: 152728--152778 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
152718 AGGGATGGGA
152728 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
152753 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
152778 A
1 A
152779 GTAACAGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:152975 original size:307 final size:298
Alignment explanation
Indices: 152455--153008 Score: 946
Period size: 307 Copynumber: 1.8 Consensus size: 298
152445 AGGGATGAGA
* * *
152455 AAATGCTACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGGTGCTTAAAAGGACGA
1 AAATGCTACTGTATTTTCATAACAGAGTAACAGACTCAGCGCACAAAAGGTGCTTAAAAGGACGA
*
152520 CGGTCATTACAGCTGTGCTGTCAATTTGTTACAAGAAACAAATTGTTCGGAAATGAATTTCAATT
66 CGATCATTACAGCTGTGCTGTCAATTTGTTACAAGAAACAAATTGTTCGGAAATGAATTTCAATT
152585 GTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGTATTCTATTATGCTAATTAATTTT
131 GTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGTATTCTATTATGCTAATTAATTTT
*
152650 TCTTATTGAAGGTTTCTCCTAATTTTATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAGGA
196 TCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAGGA
152715 AGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
261 AGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
* *
152753 AAATGGTACTGTATTTTCATAACAGAGTAACAGACTCAGCGCACAAAAGTTGCTTAAAAGGACGA
1 AAATGCTACTGTATTTTCATAACAGAGTAACAGACTCAGCGCACAAAAGGTGCTTAAAAGGACGA
*
152818 CGATCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
66 CGATCATTACAGCTGTGCTGTCAATTTGTTACAAGAAACAAATT-G--------TTCGGAAATGA
*
152883 ATTTCAATTGTTTGCTTTTGGTGCTCTAGTCAAAATGGTCAAATGCCAAGTATTCTATTATGCTA
122 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGTATTCTATTATGCTA
152948 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTT
187 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTT
153009 GCTATTGTTT
Statistics
Matches: 238, Mismatches: 9, Indels: 9
0.93 0.04 0.04
Matches are distributed among these distances:
298 102 0.43
299 1 0.00
307 135 0.57
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (298 bp):
AAATGCTACTGTATTTTCATAACAGAGTAACAGACTCAGCGCACAAAAGGTGCTTAAAAGGACGA
CGATCATTACAGCTGTGCTGTCAATTTGTTACAAGAAACAAATTGTTCGGAAATGAATTTCAATT
GTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGTATTCTATTATGCTAATTAATTTT
TCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAGGA
AGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
Found at i:154091 original size:18 final size:18
Alignment explanation
Indices: 154068--154103 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
154058 TTAATATATT
154068 ATTTTG-TATTTAAATTTG
1 ATTTTGATATTT-AATTTG
154086 ATTTTGATATTTAATTTG
1 ATTTTGATATTTAATTTG
154104 GTACAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (18 bp):
ATTTTGATATTTAATTTG
Found at i:156327 original size:19 final size:19
Alignment explanation
Indices: 156262--156327 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
156252 ATGCTAAAGA
156262 AGAGAA-GAAGAGAGA-AG
1 AGAGAAGGAAGAGAGAGAG
156279 AGAGAATGGAAG-GA-AGA-
1 AGAGAA-GGAAGAGAGAGAG
**
156296 AGGAGAAATAAGAGAGAGAG
1 A-GAGAAGGAAGAGAGAGAG
156316 AGAGAAGGAAGA
1 AGAGAAGGAAGA
156328 AGGGATGAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
17 11 0.29
18 10 0.26
19 16 0.42
20 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.03
Consensus pattern (19 bp):
AGAGAAGGAAGAGAGAGAG
Found at i:156653 original size:25 final size:25
Alignment explanation
Indices: 156620--156670 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
156610 AGGGATGGGA
156620 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
156645 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
156670 A
1 A
156671 GTGACAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:156847 original size:307 final size:307
Alignment explanation
Indices: 156338--156900 Score: 1045
Period size: 307 Copynumber: 1.8 Consensus size: 307
156328 AGGGATGAGA
*
156338 AAATGCTACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGGTGCTTAAAATGACGA
1 AAATGCTACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGGTGCTTAAAAGGACGA
*
156403 CGGTCATTACAGCTGTGCTGCCAATTTGTTCCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTACCAATTTGTTCCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
*
156468 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGTATTCTATTATGCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
156533 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
156598 AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
261 AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
* * *
156645 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
1 AAATGCTACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGGTGCTTAAAAGGACGA
* *
156710 CGGTCATTACAGCTGTGCTATCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTACCAATTTGTTCCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
*
156775 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATTCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
156840 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTT
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTT
156901 GCTCTTGTTT
Statistics
Matches: 247, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
307 247 1.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (307 bp):
AAATGCTACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGGTGCTTAAAAGGACGA
CGGTCATTACAGCTGTGCTACCAATTTGTTCCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
Found at i:157990 original size:18 final size:18
Alignment explanation
Indices: 157967--158002 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
157957 TTCATATATT
157967 ATTTTG-TATTTAAATTTG
1 ATTTTGATATTT-AATTTG
157985 ATTTTGATATTTAATTTG
1 ATTTTGATATTTAATTTG
158003 GTACAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (18 bp):
ATTTTGATATTTAATTTG
Found at i:165362 original size:25 final size:25
Alignment explanation
Indices: 165329--165379 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
165319 AGGGATGGGA
165329 AAATGGTACCGTATTTTCATAACAG
1 AAATGGTACCGTATTTTCATAACAG
* *
165354 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACCGTATTTTCATAACAG
165379 A
1 A
165380 GTGACAGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (25 bp):
AAATGGTACCGTATTTTCATAACAG
Found at i:165555 original size:305 final size:306
Alignment explanation
Indices: 165047--165913 Score: 1612
Period size: 305 Copynumber: 2.8 Consensus size: 306
165037 AGGGATGAGA
* * *
165047 AAATGCTACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGGTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTT-AAAGGACGA
*
165112 CGGTCATTACAGCTGTGCTGTCAATTTGTTACAAGAAACAAATTGGAAAATCAATTCGGAAATGA
65 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
*
165177 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGTATTCTATTATGCTA
130 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
165242 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
195 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
165307 AGAGAAGGAAGAAGGGATGGGAAAATGGTACCGTATTTTCATAACAG
260 AGAGAAGGAAGAAGGGATGGGAAAATGGTACCGTATTTTCATAACAG
*
165354 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTT-AAGGAAGAC
1 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAGGACGAC
*
165418 GATCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAA
66 GGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAA
*
165483 TTTCAATTGTTTGCTTTTGGTCCTCTAATCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAA
131 TTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAA
165548 TTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGA
196 TTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGA
*
165613 GAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
261 GAGAAGGAAGAAGGGATGGGAAAATGGTACCGTATTTTCATAACAG
165659 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTT-AAAGGACGA
165724 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
65 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
165789 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCT-TTATGCTA
130 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
*
165853 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCAACTTCTTGACCCCAAACTT
195 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTT
165914 GCTCTTGTTT
Statistics
Matches: 545, Mismatches: 13, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
305 299 0.55
306 68 0.12
307 178 0.33
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (306 bp):
AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAGGACGAC
GGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAA
TTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAA
TTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGA
GAGAAGGAAGAAGGGATGGGAAAATGGTACCGTATTTTCATAACAG
Found at i:165667 original size:25 final size:25
Alignment explanation
Indices: 165634--165684 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
165624 AGGGATGGGA
165634 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
165659 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
165684 A
1 A
165685 GTGACAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:169556 original size:25 final size:25
Alignment explanation
Indices: 169523--169573 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
169513 AGGGATGGGA
169523 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
**
169548 AAATGGTACTGTATTTTTGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
169573 A
1 A
169574 GTGACAGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:169862 original size:25 final size:25
Alignment explanation
Indices: 169829--169879 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
169819 AGGGATGGGA
169829 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
169854 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
169879 A
1 A
169880 GTGACAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:169903 original size:306 final size:307
Alignment explanation
Indices: 169241--170109 Score: 1641
Period size: 306 Copynumber: 2.8 Consensus size: 307
169231 AGGGATGAGA
* * *
169241 AAATGCTACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGGTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
* *
169306 CGGTCATTACAGCTGTGCTGTCAATTTGTTACAAGAATCAAATTGGAAAATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
*
169371 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGTATTCTATTATGCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
169436 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
169501 AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
261 AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
*
169548 AAATGGTACTGTATTTTTGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
* *
169613 CGGTCATTACAGCTGTGCTGTAAATTTGTTTCAAGAAACAAATTGGAATATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
169678 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
169743 ATTAATTTTT-TTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
169807 AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
261 AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
169854 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
169919 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
169984 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
*
170049 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCAACTTCTTGACCCCAAACTT
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTT
170110 GCTCTTGTTT
Statistics
Matches: 548, Mismatches: 13, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
306 303 0.55
307 245 0.45
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (307 bp):
AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
Found at i:173430 original size:19 final size:19
Alignment explanation
Indices: 173365--173430 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
173355 ATGCTGAAGA
173365 AGAGAA-GAAGAGAGA-AG
1 AGAGAAGGAAGAGAGAGAG
173382 AGAGAATGGAAG-GA-AGA-
1 AGAGAA-GGAAGAGAGAGAG
**
173399 AGGAGAAATAAGAGAGAGAG
1 A-GAGAAGGAAGAGAGAGAG
173419 AGAGAAGGAAGA
1 AGAGAAGGAAGA
173431 AGGGATGAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
17 11 0.29
18 10 0.26
19 16 0.42
20 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.03
Consensus pattern (19 bp):
AGAGAAGGAAGAGAGAGAG
Found at i:173442 original size:36 final size:36
Alignment explanation
Indices: 173360--173429 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
173350 CGTCCATGCT
*
173360 GAAGAA-GAG-AAGAAGAGAGAAGAGAGAATGGAAG
1 GAAGAAGGAGAAATAAGAGAGAAGAGAGAATGGAAG
173394 GAAGAAGGAGAAATAAGAGAGAGAGAGAGAA-GGAAG
1 GAAGAAGGAGAAATAAGAGAGA-AGAGAGAATGGAAG
173430 AAGGGATGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 6 0.19
35 3 0.09
36 15 0.47
37 8 0.25
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.03
Consensus pattern (36 bp):
GAAGAAGGAGAAATAAGAGAGAAGAGAGAATGGAAG
Found at i:173753 original size:25 final size:25
Alignment explanation
Indices: 173720--173770 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
173710 AGGGATGGGA
173720 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
173745 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
173770 A
1 A
173771 GTGACAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:180803 original size:19 final size:19
Alignment explanation
Indices: 180738--180803 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
180728 ATGTTGAAGA
180738 AGAGAA-GAAGAGAGA-AG
1 AGAGAAGGAAGAGAGAGAG
180755 AGAGAATGGAAG-GA-AGA-
1 AGAGAA-GGAAGAGAGAGAG
**
180772 AGGAGAAATAAGAGAGAGAG
1 A-GAGAAGGAAGAGAGAGAG
180792 AGAGAAGGAAGA
1 AGAGAAGGAAGA
180804 AGGGATGAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
17 11 0.29
18 10 0.26
19 16 0.42
20 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.03
Consensus pattern (19 bp):
AGAGAAGGAAGAGAGAGAG
Found at i:180815 original size:36 final size:36
Alignment explanation
Indices: 180733--180802 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
180723 CGTCCATGTT
*
180733 GAAGAA-GAG-AAGAAGAGAGAAGAGAGAATGGAAG
1 GAAGAAGGAGAAATAAGAGAGAAGAGAGAATGGAAG
180767 GAAGAAGGAGAAATAAGAGAGAGAGAGAGAA-GGAAG
1 GAAGAAGGAGAAATAAGAGAGA-AGAGAGAATGGAAG
180803 AAGGGATGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 6 0.19
35 3 0.09
36 15 0.47
37 8 0.25
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.03
Consensus pattern (36 bp):
GAAGAAGGAGAAATAAGAGAGAAGAGAGAATGGAAG
Found at i:181128 original size:25 final size:25
Alignment explanation
Indices: 181095--181145 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
181085 AGGGATGGGA
181095 AAATAGTACTGTATTTTCATAACAG
1 AAATAGTACTGTATTTTCATAACAG
* *
181120 AAATGGTACTGTATTTTCGTAACAG
1 AAATAGTACTGTATTTTCATAACAG
181145 A
1 A
181146 GTGACAGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (25 bp):
AAATAGTACTGTATTTTCATAACAG
Found at i:181321 original size:305 final size:307
Alignment explanation
Indices: 180820--181374 Score: 979
Period size: 306 Copynumber: 1.8 Consensus size: 307
180810 GAGAAAATAC
*
180820 TACTGTATTTTCATAACAGAGTGATAGACTCAGCGCACACAGGGTGCTTAAAAGGACGACGGCCA
1 TACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGGTGCTTAAAAGGACGACGGCCA
180885 TTACAGCTGTGCTGCCAATTTGTTACAAGAAACAAATTGAAAAACCAATTCGGAAATGAATTTCA
66 TTACAGCTGTGCTGCCAATTTGTTACAAGAAACAAATTGAAAAACCAATTCGGAAATGAATTTCA
*
180950 ATTGTTTGCTTTTGGTCCTCCAGTCAAAATGGTTAAATGCCAAGAATTCTATTATGCTAATTAAT
131 ATTGTTTGCTTTTGGTCCTCCAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAAT
* * *
181015 TTTT-TTATTGACGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCTCAAACTTAGAGAGAGAA
196 TTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCAACTTCTTGACCCCAAACTTAGAGAGAGAA
181079 GGAAGAAGGGATGGGAAAATAGTACTGTATTTTCATAACAGAAATGG
261 GGAAGAAGGGATGGGAAAATAGTACTGTATTTTCATAACAGAAATGG
* * *
181126 TACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCA
1 TACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGGTGCTTAAAAGGACGACGGCCA
* * * *
181191 TTACAGCTGTGCTGTCAATTTGTT-TAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCA
66 TTACAGCTGTGCTGCCAATTTGTTACAAGAAACAAATTGAAAAACCAATTCGGAAATGAATTTCA
*
181255 ATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAAT
131 ATTGTTTGCTTTTGGTCCTCCAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAAT
181320 TTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCAACTTCTTGACCCCAAACTT
196 TTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCAACTTCTTGACCCCAAACTT
181375 GCTCTTGTTT
Statistics
Matches: 235, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
305 104 0.44
306 131 0.56
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (307 bp):
TACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGGTGCTTAAAAGGACGACGGCCA
TTACAGCTGTGCTGCCAATTTGTTACAAGAAACAAATTGAAAAACCAATTCGGAAATGAATTTCA
ATTGTTTGCTTTTGGTCCTCCAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAAT
TTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCAACTTCTTGACCCCAAACTTAGAGAGAGAA
GGAAGAAGGGATGGGAAAATAGTACTGTATTTTCATAACAGAAATGG
Found at i:193422 original size:25 final size:25
Alignment explanation
Indices: 193389--193439 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
193379 AGGGATGGGA
193389 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
193414 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
193439 A
1 A
193440 GTAACAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:193667 original size:307 final size:307
Alignment explanation
Indices: 193114--194894 Score: 3332
Period size: 307 Copynumber: 5.8 Consensus size: 307
193104 AGAAAATGCT
* *
193114 ACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGGTGCTTAAAAGGACGACGGTCAT
1 ACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCAT
* *
193179 TATAGCTGTGCTGTCAATTTGTTACAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAA
66 TACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAA
*
193244 TTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGTATTCTATTATGCTAATTAATT
131 TTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATT
*
193309 TTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACATAGAGAGAGAAG
196 TTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAG
*
193374 GAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAGAAATGGT
261 GAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAGAAATGGA
* * *
193421 ACTGTATTTTCGTAACAGAGTAACAGACTCAGCGCACACAGGTTGCTGAAAAGGACAACGGTCAT
1 ACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCAT
193486 TACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAA
66 TACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAA
193551 TTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATT
131 TTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATT
* *
193616 TTTCTTATTGAAGGTTTCTCCTAATTTAATTTTCATCTTCTTGACCCCAAACTTAGAGGGAGAAG
196 TTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAG
193681 GAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAGAAATGGA
261 GAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAGAAATGGA
193728 ACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCAT
1 ACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCAT
*
193793 GACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAA
66 TACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAA
193858 TTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATT
131 TTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATT
*
193923 TTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGGGAGAAG
196 TTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAG
193988 GAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAGAAATGGA
261 GAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAGAAATGGA
* *
194035 ACTGTATTTTCGTAACAGAGTGACAGACGCAGCGCACACTGGTTGCTTAAAAGGACGACGGTCAT
1 ACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCAT
194100 TACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAA
66 TACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAA
194165 TTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATT
131 TTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATT
194230 TTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG-GAGAAG
196 TTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAG
194294 GAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAGAAATGGA
261 GAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAGAAATGGA
194341 ACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCAT
1 ACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCAT
194406 TACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATT-GATAAATCAATTCGGAAATGAATTTCA
66 TACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGA-AAATCAATTCGGAAATGAATTTCA
* *
194470 ATTGTTTGCTTTTGGTCCTCTAGACAAAATAGTCAAATGCCAAGAATTCTATTATGCTAATTAAT
130 ATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAAT
* *
194535 TTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCAACTTCTTGACCCCAAACTTAGAAAGAGAA
195 TTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAA
*
194600 GGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAGAAATGGT
260 GGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAGAAATGGA
*
194648 ACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGATCAT
1 ACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCAT
194713 TACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAA
66 TACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAA
194778 TTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATT
131 TTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATT
*
194843 TTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCAACTTCTTGACCCCAAAC
196 TTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAAC
194895 GTGCTCTTGT
Statistics
Matches: 1441, Mismatches: 30, Indels: 6
0.98 0.02 0.00
Matches are distributed among these distances:
305 2 0.00
306 297 0.21
307 1140 0.79
308 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (307 bp):
ACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCAT
TACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAA
TTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATT
TTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAG
GAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAGAAATGGA
Found at i:193731 original size:25 final size:25
Alignment explanation
Indices: 193696--193746 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
193686 AGGGATGGGA
*
193696 AAATGGTACTGTATTTTCATAACAG
1 AAATGGAACTGTATTTTCATAACAG
*
193721 AAATGGAACTGTATTTTCGTAACAG
1 AAATGGAACTGTATTTTCATAACAG
193746 A
1 A
193747 GTGACAGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (25 bp):
AAATGGAACTGTATTTTCATAACAG
Found at i:194038 original size:25 final size:25
Alignment explanation
Indices: 194003--194053 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
193993 AGGGATGGGA
*
194003 AAATGGTACTGTATTTTCATAACAG
1 AAATGGAACTGTATTTTCATAACAG
*
194028 AAATGGAACTGTATTTTCGTAACAG
1 AAATGGAACTGTATTTTCATAACAG
194053 A
1 A
194054 GTGACAGACG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (25 bp):
AAATGGAACTGTATTTTCATAACAG
Found at i:194344 original size:25 final size:25
Alignment explanation
Indices: 194309--194359 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
194299 AGGGATGGGA
*
194309 AAATGGTACTGTATTTTCATAACAG
1 AAATGGAACTGTATTTTCATAACAG
*
194334 AAATGGAACTGTATTTTCGTAACAG
1 AAATGGAACTGTATTTTCATAACAG
194359 A
1 A
194360 GTGACAGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (25 bp):
AAATGGAACTGTATTTTCATAACAG
Found at i:194592 original size:613 final size:614
Alignment explanation
Indices: 193114--194894 Score: 3350
Period size: 613 Copynumber: 2.9 Consensus size: 614
193104 AGAAAATGCT
* *
193114 ACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGGTGCTTAAAAGGACGACGGTCAT
1 ACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCAT
* *
193179 TATAGCTGTGCTGTCAATTTGTTACAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAA
66 TACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAA
*
193244 TTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGTATTCTATTATGCTAATTAATT
131 TTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATT
*
193309 TTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACATAGAGAGAGAAG
196 TTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAG
193374 GAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAGAAATGGTACTGTATTTTCGTAACAG
261 GAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAGAAATGGTACTGTATTTTCGTAACAG
* * *
193439 AGTAACAGACTCAGCGCACACAGGTTGCTGAAAAGGACAACGGTCATTACAGCTGTGCTGTCAAT
326 AGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCATTACAGCTGTGCTGTCAAT
193504 TTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAATTGTTTGCTTTTGGTCCT
391 TTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAATTGTTTGCTTTTGGTCCT
193569 CTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGTTTC
456 CTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGTTTC
*
193634 TCCTAATTTAATTTTCATCTTCTTGACCCCAAACTTAGAGGGAGAAGGAAGAAGGGATGGGAAAA
521 TCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGGGAGAAGGAAGAAGGGATGGGAAAA
193699 TGGTACTGTATTTTCATAACAGAAATGGA
586 TGGTACTGTATTTTCATAACAGAAATGGA
193728 ACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCAT
1 ACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCAT
*
193793 GACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAA
66 TACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAA
193858 TTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATT
131 TTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATT
*
193923 TTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGGGAGAAG
196 TTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAG
*
193988 GAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAGAAATGGAACTGTATTTTCGTAACAG
261 GAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAGAAATGGTACTGTATTTTCGTAACAG
* *
194053 AGTGACAGACGCAGCGCACACTGGTTGCTTAAAAGGACGACGGTCATTACAGCTGTGCTGTCAAT
326 AGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCATTACAGCTGTGCTGTCAAT
194118 TTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAATTGTTTGCTTTTGGTCCT
391 TTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAATTGTTTGCTTTTGGTCCT
194183 CTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGTTTC
456 CTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGTTTC
194248 TCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGA-GGAGAAGGAAGAAGGGATGGGAAAA
521 TCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGGGAGAAGGAAGAAGGGATGGGAAAA
194312 TGGTACTGTATTTTCATAACAGAAATGGA
586 TGGTACTGTATTTTCATAACAGAAATGGA
194341 ACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCAT
1 ACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCAT
194406 TACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATT-GATAAATCAATTCGGAAATGAATTTCA
66 TACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGA-AAATCAATTCGGAAATGAATTTCA
* *
194470 ATTGTTTGCTTTTGGTCCTCTAGACAAAATAGTCAAATGCCAAGAATTCTATTATGCTAATTAAT
130 ATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAAT
* *
194535 TTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCAACTTCTTGACCCCAAACTTAGAAAGAGAA
195 TTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAA
194600 GGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAGAAATGGTACTGTATTTTCGTAACA
260 GGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAGAAATGGTACTGTATTTTCGTAACA
*
194665 GAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGATCATTACAGCTGTGCTGTCAA
325 GAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCATTACAGCTGTGCTGTCAA
194730 TTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAATTGTTTGCTTTTGGTCC
390 TTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAATTGTTTGCTTTTGGTCC
194795 TCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGTTT
455 TCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGTTT
*
194860 CTCCTAATTTCATTTTCAACTTCTTGACCCCAAAC
520 CTCCTAATTTCATTTTCATCTTCTTGACCCCAAAC
194895 GTGCTCTTGT
Statistics
Matches: 1140, Mismatches: 26, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
612 2 0.00
613 594 0.52
614 544 0.48
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (614 bp):
ACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCAT
TACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAA
TTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATT
TTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAG
GAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAGAAATGGTACTGTATTTTCGTAACAG
AGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGACGGTCATTACAGCTGTGCTGTCAAT
TTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGAATTTCAATTGTTTGCTTTTGGTCCT
CTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGTTTC
TCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGGGAGAAGGAAGAAGGGATGGGAAAA
TGGTACTGTATTTTCATAACAGAAATGGA
Found at i:194649 original size:25 final size:25
Alignment explanation
Indices: 194616--194666 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
194606 AGGGATGGGA
194616 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
194641 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
194666 A
1 A
194667 GTGACAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:198179 original size:22 final size:22
Alignment explanation
Indices: 198153--198226 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
198143 GTCCATGCTG
198153 AAGAAGAGAAGAAGAGAGGAGA
1 AAGAAGAGAAGAAGAGAGGAGA
* *
198175 GAGAATAGAAGGAAGA-AGGAGA
1 AAGAAGAGAA-GAAGAGAGGAGA
* * *
198197 AATAAGAGAGAGAGAGAGAGAAGG
1 AAGAAGAGA-AGA-AGAGAGGAGA
198221 AAGAAG
1 AAGAAG
198227 GGATGAGAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
22 22 0.55
23 9 0.22
24 9 0.22
ACGTcount: A:0.57, C:0.00, G:0.41, T:0.03
Consensus pattern (22 bp):
AAGAAGAGAAGAAGAGAGGAGA
Found at i:198219 original size:34 final size:35
Alignment explanation
Indices: 198152--198227 Score: 104
Period size: 34 Copynumber: 2.2 Consensus size: 35
198142 CGTCCATGCT
*
198152 GAAGAA-GAGAAGAAGAGAGGAGAGAGAATAGAAG
1 GAAGAAGGAGAAGAAGAGAGGAGAGAGAAGAGAAG
*
198186 GAAGAAGGAGAAATAAGAGA-GAGAGAG-AGAGAAG
1 GAAGAAGGAG-AAGAAGAGAGGAGAGAGAAGAGAAG
198220 GAAGAAGG
1 GAAGAAGG
198228 GATGAGAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
34 20 0.53
35 10 0.26
36 8 0.21
ACGTcount: A:0.55, C:0.00, G:0.42, T:0.03
Consensus pattern (35 bp):
GAAGAAGGAGAAGAAGAGAGGAGAGAGAAGAGAAG
Found at i:202348 original size:51 final size:50
Alignment explanation
Indices: 202277--202436 Score: 239
Period size: 51 Copynumber: 3.2 Consensus size: 50
202267 CCGATCACAT
*
202277 TTATCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
202328 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
202378 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
202429 TTGTCACT
1 TTATCACT
202437 GATCAGAAGT
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 46 0.46
51 54 0.54
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:207852 original size:28 final size:27
Alignment explanation
Indices: 207789--207858 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
207779 ATAGTGAGTC
207789 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
207816 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
207844 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
207859 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:211999 original size:46 final size:44
Alignment explanation
Indices: 211940--212054 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
211930 ACAGGACAGA
* *
211940 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
211986 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
212030 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
212055 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:212035 original size:44 final size:45
Alignment explanation
Indices: 211940--212073 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
211930 ACAGGACAGA
* *
211940 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
211986 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
212030 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
212074 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:218655 original size:28 final size:27
Alignment explanation
Indices: 218592--218661 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
218582 ATAGTGAGTC
218592 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
218619 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
218647 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
218662 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:222890 original size:50 final size:51
Alignment explanation
Indices: 222781--222941 Score: 234
Period size: 50 Copynumber: 3.2 Consensus size: 51
222771 CTGATCACAT
*
222781 TTATCACTTGTCACTGATTCAGATAAGTGCAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGA-TCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* *
222833 TTATCACTTGTCACTGATCAGATAAGAGTAGCT-AAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* * * *
222883 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
222934 TTGTCACT
1 TTATCACT
222942 GATCAGAAGT
Statistics
Matches: 100, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
50 46 0.46
51 37 0.37
52 17 0.17
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:226272 original size:35 final size:35
Alignment explanation
Indices: 226245--226410 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
226235 CATGGCAAAG
*
226245 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
226280 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
226315 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
226355 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
226390 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
226411 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:226364 original size:75 final size:75
Alignment explanation
Indices: 226245--226415 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
226235 CATGGCAAAG
** *
226245 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
226304 CCATACTGAGC
65 CCATACCGAGC
226315 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
226380 CATACCGAGT
66 CATACCGAGC
**
226390 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
226416 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:233856 original size:39 final size:35
Alignment explanation
Indices: 233743--233904 Score: 202
Period size: 35 Copynumber: 4.5 Consensus size: 35
233733 GGCAAAGTGT
* *
233743 GAAATGTAGGTATGGTATCATCCATACTGAGTTGT
1 GAAATGTAGGTATGGTATTATCCATACTGAGTTGA
* *
233778 GAAATGTAGGTATGGTATTATCCATACTGAGCTGT
1 GAAATGTAGGTATGGTATTATCCATACTGAGTTGA
*
233813 GAAATGTAGGTATGGTATTATCAAATCATACTGAGTTAA
1 GAAATGTAGGTATGGTATTATC----CATACTGAGTTGA
* *
233852 GAAATGTAGGTATGGCATT-TCCCATACCGAGTTGA
1 GAAATGTAGGTATGGTATTAT-CCATACTGAGTTGA
233887 -AAATGTAGGTATGGTATT
1 GAAATGTAGGTATGGTATT
233905 TCAATGAGGA
Statistics
Matches: 113, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
34 17 0.15
35 66 0.58
38 1 0.01
39 29 0.26
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTATCCATACTGAGTTGA
Found at i:233866 original size:74 final size:71
Alignment explanation
Indices: 233738--233908 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 71
233728 TCCATGGCAA
* ** *
233738 AGTGTGAAATGTAGGTATGGTATCATC--CATACTGAGTTGTGAAATGTAGGTATGGTATTAT-C
1 AGTGTGAAATGTAGGTATGGTATTATCAACATACTGAGTTAAGAAATGTAGGTATGGCATT-TCC
*
233800 CATACTG
65 CATACCG
233807 AGCTGTGAAATGTAGGTATGGTATTATCAAATCATACTGAGTTAAGAAATGTAGGTATGGCATTT
1 AG-TGTGAAATGTAGGTATGGTATTATC-AA-CATACTGAGTTAAGAAATGTAGGTATGGCATTT
233872 CCCATACCG
63 CCCATACCG
233881 AGT-TGAAAATGTAGGTATGGTATT-TCAA
1 AGTGTG-AAATGTAGGTATGGTATTATCAA
233909 TGAGGAAAAC
Statistics
Matches: 90, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
69 2 0.02
70 24 0.27
71 2 0.02
72 4 0.04
73 20 0.22
74 38 0.42
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.33
Consensus pattern (71 bp):
AGTGTGAAATGTAGGTATGGTATTATCAACATACTGAGTTAAGAAATGTAGGTATGGCATTTCCC
ATACCG
Found at i:238329 original size:25 final size:25
Alignment explanation
Indices: 238296--238346 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
238286 AGGGATGGGA
238296 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
238321 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
238346 A
1 A
238347 GTGACAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:238636 original size:25 final size:25
Alignment explanation
Indices: 238603--238654 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
238593 AGGGATGGGA
238603 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
**
238628 AAATGGTACTGTATTTTTGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
238653 AA
1 AA
238655 TGACAGACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:238725 original size:307 final size:307
Alignment explanation
Indices: 238166--238883 Score: 1364
Period size: 307 Copynumber: 2.3 Consensus size: 307
238156 GGGTTTTACA
238166 CCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGT
1 CCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGT
238231 TTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAGGAAGAAGGGATGGGA
66 TTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAGGAAGAAGGGATGGGA
*
238296 AAATGGTACTGTATTTTCATAACAGAAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGC
131 AAATGGTACTGTATTTTCATAACAGAAATGGTACTGTATTTTCGTAACAGAATGACAGACTCAGC
238361 GCACACAGGTTCCTTAAAAGGACGACGGTCATTACAGCTGTGCTGTCAATCTGTTTCAAGAAACA
196 GCACACAGGTTCCTTAAAAGGACGACGGTCATTACAGCTGTGCTGTCAATCTGTTTCAAGAAACA
238426 AATTGGAAAATCAATTCGGAAATGAATTTCAATTGTTTGCTTTTGGT
261 AATTGGAAAATCAATTCGGAAATGAATTTCAATTGTTTGCTTTTGGT
238473 CCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGT
1 CCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGT
238538 TTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAGGAAGAAGGGATGGGA
66 TTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAGGAAGAAGGGATGGGA
*
238603 AAATGGTACTGTATTTTCATAACAGAAATGGTACTGTATTTTTGTAACAGAATGACAGACTCAGC
131 AAATGGTACTGTATTTTCATAACAGAAATGGTACTGTATTTTCGTAACAGAATGACAGACTCAGC
* * *
238668 GCACACAGGTTGCTTAAAAGGACGACGGTCATTACAGTTGTGCTGTCAATTTGTTTCAAGAAACA
196 GCACACAGGTTCCTTAAAAGGACGACGGTCATTACAGCTGTGCTGTCAATCTGTTTCAAGAAACA
238733 AATTGGAAAATCAATTCGGAAATGAATTTCAATTGTTTGCTTTTGGT
261 AATTGGAAAATCAATTCGGAAATGAATTTCAATTGTTTGCTTTTGGT
* *
238780 CCTCTAGTCAAAATGGCCAAATGCCAAGAATTCTATTATGCTAATTAATTTCTCTTATTGAAGGT
1 CCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGT
*
238845 TTCTCCTAATTTCATTTTCAACTTCTTGACCCCAAACTT
66 TTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTT
238884 GCTCTTGTTT
Statistics
Matches: 403, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
307 403 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (307 bp):
CCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGT
TTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAGGAAGAAGGGATGGGA
AAATGGTACTGTATTTTCATAACAGAAATGGTACTGTATTTTCGTAACAGAATGACAGACTCAGC
GCACACAGGTTCCTTAAAAGGACGACGGTCATTACAGCTGTGCTGTCAATCTGTTTCAAGAAACA
AATTGGAAAATCAATTCGGAAATGAATTTCAATTGTTTGCTTTTGGT
Found at i:242180 original size:19 final size:19
Alignment explanation
Indices: 242115--242180 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
242105 ATGCTGAATA
242115 AGAGAA-GAAGAGAGA-AG
1 AGAGAAGGAAGAGAGAGAG
242132 AGAGAATGGAAG-GA-AGA-
1 AGAGAA-GGAAGAGAGAGAG
**
242149 AGGAGAAATAAGAGAGAGAG
1 A-GAGAAGGAAGAGAGAGAG
242169 AGAGAAGGAAGA
1 AGAGAAGGAAGA
242181 AGGGATGAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
17 11 0.29
18 10 0.26
19 16 0.42
20 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.03
Consensus pattern (19 bp):
AGAGAAGGAAGAGAGAGAG
Found at i:242505 original size:25 final size:25
Alignment explanation
Indices: 242472--242522 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
242462 AGGGATGGGA
242472 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
242497 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
242522 A
1 A
242523 GTGACAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:242698 original size:305 final size:305
Alignment explanation
Indices: 242191--243056 Score: 1637
Period size: 305 Copynumber: 2.8 Consensus size: 305
242181 AGGGATGAGA
* * *
242191 AAATGCTACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGGTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
*
242256 CGGTCATTACAGCTGTGCTGTCAATTTGTTACAAGAAACAAATTGGAAAATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
242321 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
242386 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCACTTCTTGACCCCAAACTTAGAGA
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCACTTCTTGACCCCAAACTTAGA-A
242451 GAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
260 GAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
242497 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCA-CGCACACAGGTTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
*
242561 CGGTCATTACAGCTATGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
242626 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
242691 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAA
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCA-CTTCTTGACCCCAAACTTAGAA
242756 GAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
260 GAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
242802 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
242867 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTC-GAAATGA
66 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
242931 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
*
242996 ATTAATTTTTCTTATAGAAGGTTTCTCCTAATTTCATTTTCAACTTCTTGACCCCAAACTT
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTC-ACTTCTTGACCCCAAACTT
243057 GCTCTTGTTT
Statistics
Matches: 550, Mismatches: 7, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
305 410 0.75
306 140 0.25
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (305 bp):
AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCACTTCTTGACCCCAAACTTAGAAG
AGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
Found at i:242810 original size:25 final size:25
Alignment explanation
Indices: 242777--242827 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
242767 AGGGATGGGA
242777 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
242802 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
242827 A
1 A
242828 GTGACAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:246386 original size:19 final size:19
Alignment explanation
Indices: 246321--246386 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
246311 ATGCTGAATA
246321 AGAGAA-GAAGAGAGA-AG
1 AGAGAAGGAAGAGAGAGAG
246338 AGAGAATGGAAG-GA-AGA-
1 AGAGAA-GGAAGAGAGAGAG
**
246355 AGGAGAAATAAGAGAGAGAG
1 A-GAGAAGGAAGAGAGAGAG
246375 AGAGAAGGAAGA
1 AGAGAAGGAAGA
246387 AGGGATGAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
17 11 0.29
18 10 0.26
19 16 0.42
20 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.03
Consensus pattern (19 bp):
AGAGAAGGAAGAGAGAGAG
Found at i:260350 original size:25 final size:25
Alignment explanation
Indices: 260317--260366 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
260307 AGGGATGGGA
260317 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
260342 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
260367 TGTGACAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:260654 original size:25 final size:25
Alignment explanation
Indices: 260621--260671 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
260611 AGGGATGGGA
260621 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
260646 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
260671 A
1 A
260672 GTGACAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:260875 original size:305 final size:306
Alignment explanation
Indices: 260035--261204 Score: 2199
Period size: 304 Copynumber: 3.8 Consensus size: 306
260025 AGGGATGAGA
* *
260035 AAATGCTACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGGTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
*
260100 CGGTCATTACAGCTGTGCTGTCAATTTGTTACAAGAAACAAATTGGAAAATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
* *
260165 ATTTCAATTGTTTGCTTTAGGTCCTCTAGTCAAAATGGTCAAATGCCAAGTATTCTATTATGCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
260230 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
260295 AGAGAAGAAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
261 AGAGAAG-AAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
* *
260342 AAATGGTACTGTATTTTCGTAACAGTGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
260407 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
260472 ATTTCAATTGTTTGC-TTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
260536 ATTAATTTTTC-TATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
260600 AGAGAAGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
261 AGAGAAGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
*
260646 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
260711 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
260776 ATTTCAATTGTTTGCTTTTGGTCCTCTA-TCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
260840 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
260905 AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
261 AGAGAA-GAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
260952 AAATGGTACTGTATTTTCATAACAGAGTGACAGACTCAG-GCACACAGGTTGCTT-AAAGGACGA
1 AAATGGTACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
261015 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
261080 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCT-TTATGCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
*
261144 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCAACTTCTTGACCCCAAACTT
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTT
261205 GCTCTTGTTT
Statistics
Matches: 849, Mismatches: 10, Indels: 11
0.98 0.01 0.01
Matches are distributed among these distances:
304 400 0.47
305 173 0.20
306 136 0.16
307 140 0.16
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (306 bp):
AAATGGTACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
AGAGAAGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
Found at i:260960 original size:25 final size:25
Alignment explanation
Indices: 260927--260977 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
260917 AGGGATGGGA
260927 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
260952 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
260977 A
1 A
260978 GTGACAGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:264534 original size:19 final size:19
Alignment explanation
Indices: 264469--264534 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
264459 ATGCTGAAGA
264469 AGAGAA-GAAGAGAGA-AG
1 AGAGAAGGAAGAGAGAGAG
264486 AGAGAATGGAAG-GA-AGA-
1 AGAGAA-GGAAGAGAGAGAG
**
264503 AGGAGAAATAAGAGAGAGAG
1 A-GAGAAGGAAGAGAGAGAG
264523 AGAGAAGGAAGA
1 AGAGAAGGAAGA
264535 AGGGATGAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
17 11 0.29
18 10 0.26
19 16 0.42
20 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.03
Consensus pattern (19 bp):
AGAGAAGGAAGAGAGAGAG
Found at i:264546 original size:36 final size:36
Alignment explanation
Indices: 264464--264533 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
264454 CGTCCATGCT
*
264464 GAAGAA-GAG-AAGAAGAGAGAAGAGAGAATGGAAG
1 GAAGAAGGAGAAATAAGAGAGAAGAGAGAATGGAAG
264498 GAAGAAGGAGAAATAAGAGAGAGAGAGAGAA-GGAAG
1 GAAGAAGGAGAAATAAGAGAGA-AGAGAGAATGGAAG
264534 AAGGGATGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 6 0.19
35 3 0.09
36 15 0.47
37 8 0.25
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.03
Consensus pattern (36 bp):
GAAGAAGGAGAAATAAGAGAGAAGAGAGAATGGAAG
Found at i:264860 original size:25 final size:25
Alignment explanation
Indices: 264827--264877 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
264817 AGGGATGGGA
264827 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
264852 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
264877 A
1 A
264878 GTGACAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:265054 original size:307 final size:307
Alignment explanation
Indices: 264545--265413 Score: 1677
Period size: 307 Copynumber: 2.8 Consensus size: 307
264535 AGGGATGAGA
* * *
264545 AAATGCTACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGGTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
*
264610 CGGTCATTACAGCTGTGCTGTCAATTTGTTACAAGAAACAAATTGGAAAATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
*
264675 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGTATTCTATTATGCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
264740 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
264805 AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
261 AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
264852 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
264917 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
264982 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
265047 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
265112 AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
261 AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
265159 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
265224 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
265289 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCT-TTATGCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
*
265353 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCAACTTCTTGACCCCAAACTT
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTT
265414 GCTCTTGTTT
Statistics
Matches: 556, Mismatches: 6, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
306 68 0.12
307 488 0.88
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (307 bp):
AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
Found at i:265167 original size:25 final size:25
Alignment explanation
Indices: 265134--265184 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
265124 AGGGATGGGA
265134 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
265159 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
265184 A
1 A
265185 GTGACAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:268715 original size:19 final size:19
Alignment explanation
Indices: 268650--268715 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
268640 ATGCTGAAGA
268650 AGAGAA-GAAGAGAGA-AG
1 AGAGAAGGAAGAGAGAGAG
268667 AGAGAATGGAAG-GA-AGA-
1 AGAGAA-GGAAGAGAGAGAG
**
268684 AGGAGAAATAAGAGAGAGAG
1 A-GAGAAGGAAGAGAGAGAG
268704 AGAGAAGGAAGA
1 AGAGAAGGAAGA
268716 AGGGATGAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
17 11 0.29
18 10 0.26
19 16 0.42
20 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.03
Consensus pattern (19 bp):
AGAGAAGGAAGAGAGAGAG
Found at i:268727 original size:36 final size:36
Alignment explanation
Indices: 268645--268714 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
268635 CGTCCATGCT
*
268645 GAAGAA-GAG-AAGAAGAGAGAAGAGAGAATGGAAG
1 GAAGAAGGAGAAATAAGAGAGAAGAGAGAATGGAAG
268679 GAAGAAGGAGAAATAAGAGAGAGAGAGAGAA-GGAAG
1 GAAGAAGGAGAAATAAGAGAGA-AGAGAGAATGGAAG
268715 AAGGGATGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 6 0.19
35 3 0.09
36 15 0.47
37 8 0.25
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.03
Consensus pattern (36 bp):
GAAGAAGGAGAAATAAGAGAGAAGAGAGAATGGAAG
Found at i:269053 original size:24 final size:25
Alignment explanation
Indices: 269007--269056 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
268997 AAGGGATGGA
269007 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
269032 AAATGGTACT-TATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
269056 A
1 A
269057 GTGACAGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:269288 original size:305 final size:307
Alignment explanation
Indices: 268726--269593 Score: 1652
Period size: 305 Copynumber: 2.8 Consensus size: 307
268716 AGGGATGAGA
* * *
268726 AAATGCTACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAGGGTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
*
268791 CGGTCATTACAGCTGTGCTGTCAATTTGTTACAAGAAACAAATTGGAAAATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
*
268856 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGTATTCTATTATGCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
268921 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
268986 AGAGAAGGAAGAAGGGAT-GGAAAATGGTACTGTATTTTCATAACAG
261 AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
269032 AAATGGTACT-TATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
269096 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
269161 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
269226 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
269291 AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
261 AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
269338 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
269403 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
269468 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCT-TTAATGCT
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATT-ATGCT
*
269532 AATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCAACTTCTTGACCCCAAACTT
195 AATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTT
269594 GCTCTTGTTT
Statistics
Matches: 553, Mismatches: 6, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
305 263 0.48
306 49 0.09
307 241 0.44
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (307 bp):
AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
Found at i:269346 original size:25 final size:25
Alignment explanation
Indices: 269313--269363 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
269303 AGGGATGGGA
269313 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
269338 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
269363 A
1 A
269364 GTGACAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:272921 original size:19 final size:19
Alignment explanation
Indices: 272856--272921 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 19
272846 ATGCTGAAGA
*
272856 AGAGAA-GAATAGAGA-AG
1 AGAGAAGGAAGAGAGAGAG
272873 AGAGAATGGAAG-GA-AGA-
1 AGAGAA-GGAAGAGAGAGAG
**
272890 AGGAGAAATAAGAGAGAGAG
1 A-GAGAAGGAAGAGAGAGAG
272910 AGAGAAGGAAGA
1 AGAGAAGGAAGA
272922 AGGGATGAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
17 11 0.30
18 10 0.27
19 15 0.41
20 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.39, T:0.05
Consensus pattern (19 bp):
AGAGAAGGAAGAGAGAGAG
Found at i:277661 original size:46 final size:46
Alignment explanation
Indices: 277608--277783 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
277598 TGGTTGAGCA
277608 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
277654 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
277699 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
277747 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
277784 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 6 0.06
43 5 0.05
45 2 0.02
46 59 0.54
47 26 0.24
48 2 0.02
50 3 0.03
51 6 0.06
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:277764 original size:93 final size:93
Alignment explanation
Indices: 277605--277776 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
277595 GAATGGTTGA
* * *
277605 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
277670 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
*
277698 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
277763 TGAGTCCGAGTTTG
66 TGAGTCCGAGTTTG
277777 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:279247 original size:25 final size:25
Alignment explanation
Indices: 279214--279264 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
279204 AGGGATGGGA
279214 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
279239 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
279264 A
1 A
279265 GTGACAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:279553 original size:25 final size:25
Alignment explanation
Indices: 279520--279570 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
279510 AGGGATGGGA
279520 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
279545 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
279570 A
1 A
279571 GTGACAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:279646 original size:306 final size:307
Alignment explanation
Indices: 279084--279800 Score: 1418
Period size: 306 Copynumber: 2.3 Consensus size: 307
279074 GGGCGTTACA
279084 CCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGT
1 CCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGT
279149 TTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAGGAAGAAGGGATGGGA
66 TTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAGGAAGAAGGGATGGGA
279214 AAATGGTACTGTATTTTCATAACAGAAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGC
131 AAATGGTACTGTATTTTCATAACAGAAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGC
279279 GCACACAGGTTGCTTAAAAGGACGACGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACA
196 GCACACAGGTTGCTTAAAAGGACGACGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACA
279344 AATTGGAAAATCAATTCGGAAATGAATTTCAATTGTTTGCTTTTGGT
261 AATTGGAAAATCAATTCGGAAATGAATTTCAATTGTTTGCTTTTGGT
279391 CCTCTAGT-AAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGT
1 CCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGT
279455 TTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAGGAAGAAGGGATGGGA
66 TTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAGGAAGAAGGGATGGGA
279520 AAATGGTACTGTATTTTCATAACAGAAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGC
131 AAATGGTACTGTATTTTCATAACAGAAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGC
279585 GCACACAGGTTGCTTAAAAGGACGACGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACA
196 GCACACAGGTTGCTTAAAAGGACGACGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACA
279650 AATTGGAAAATCAATTCGGAAATGAATTTCAATTGTTTGCTTTTGGT
261 AATTGGAAAATCAATTCGGAAATGAATTTCAATTGTTTGCTTTTGGT
279697 CCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGT
1 CCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGT
*
279762 TTCTCCTAATTTCATTTTCAACTTCTTGACCCCAAACTT
66 TTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTT
279801 GCTCTTGTTT
Statistics
Matches: 408, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
306 306 0.75
307 102 0.25
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (307 bp):
CCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTAATTAATTTTTCTTATTGAAGGT
TTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAGAGAGAAGGAAGAAGGGATGGGA
AAATGGTACTGTATTTTCATAACAGAAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGC
GCACACAGGTTGCTTAAAAGGACGACGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACA
AATTGGAAAATCAATTCGGAAATGAATTTCAATTGTTTGCTTTTGGT
Found at i:283642 original size:307 final size:307
Alignment explanation
Indices: 283133--284002 Score: 1634
Period size: 307 Copynumber: 2.8 Consensus size: 307
283123 AGGGATGAGA
* *
283133 AAATGCTACTGTATTTTCATAACAGAGTGACAGACTCAGCGCACACAAGG-TGCTTAAAAGGACG
1 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACAC-AGGTTGCTTAAAAGGACG
* * *
283197 GCAGTCATTACAGATGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATG
65 ACGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATG
*
283262 AATTTCAATTGTTTACTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCT
130 AATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCT
283327 AATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGA
195 AATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGA
283392 GAGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
260 GAGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
*
283440 AAATGGTACTGTATTTTCGTAAAAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
*
283505 TGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
283570 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
283635 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
283700 AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
261 AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
283747 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
1 AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
283812 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
66 CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
283877 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
131 ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
* *
283942 ATTAATTTTTCTTATTGAAGGTTTCTCTTAATTTCATTTTCAACTTCTTGACCCCAAACTT
196 ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTT
284003 GCTCTTGTTT
Statistics
Matches: 550, Mismatches: 12, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
306 3 0.01
307 547 0.99
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.33
Consensus pattern (307 bp):
AAATGGTACTGTATTTTCGTAACAGAGTGACAGACTCAGCGCACACAGGTTGCTTAAAAGGACGA
CGGTCATTACAGCTGTGCTGTCAATTTGTTTCAAGAAACAAATTGGAAAATCAATTCGGAAATGA
ATTTCAATTGTTTGCTTTTGGTCCTCTAGTCAAAATGGTCAAATGCCAAGAATTCTATTATGCTA
ATTAATTTTTCTTATTGAAGGTTTCTCCTAATTTCATTTTCATCTTCTTGACCCCAAACTTAGAG
AGAGAAGGAAGAAGGGATGGGAAAATGGTACTGTATTTTCATAACAG
Found at i:283755 original size:25 final size:25
Alignment explanation
Indices: 283722--283772 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
283712 AGGGATGGGA
283722 AAATGGTACTGTATTTTCATAACAG
1 AAATGGTACTGTATTTTCATAACAG
*
283747 AAATGGTACTGTATTTTCGTAACAG
1 AAATGGTACTGTATTTTCATAACAG
283772 A
1 A
283773 GTGACAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
AAATGGTACTGTATTTTCATAACAG
Found at i:286802 original size:50 final size:50
Alignment explanation
Indices: 286727--286903 Score: 284
Period size: 50 Copynumber: 3.5 Consensus size: 50
286717 CCATGGCAAC
*
286727 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
286777 AAGTGATAAGT-AGTAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGA-TAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
286827 AAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
286877 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
286904 CTGATCAGTG
Statistics
Matches: 117, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
49 1 0.01
50 92 0.79
51 24 0.21
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:286917 original size:31 final size:31
Alignment explanation
Indices: 286881--287027 Score: 233
Period size: 31 Copynumber: 4.7 Consensus size: 31
286871 AAATGACAAG
*
286881 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAA
*
286912 TGAAAAGTGTTAGCTTCGGCTACCTGATCAA
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAA
*
286943 TGAAAAGTGGTAGC-TCTTGCTACCTGATCAA
1 TGAAAAGTGGTAGCTTC-GGCTACCTGATCAA
*
286974 TGAAAAGTGGTAGCTCCGGCTACCTGATCAA
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAA
*
287005 TGAATAGTGGTAGCTTCGGCTAC
1 TGAAAAGTGGTAGCTTCGGCTAC
287028 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
30 2 0.02
31 103 0.97
32 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAA
Found at i:287166 original size:46 final size:47
Alignment explanation
Indices: 287046--287210 Score: 155
Period size: 47 Copynumber: 3.6 Consensus size: 47
287036 AGTGATTTCC
* * * *
287046 GTATAAGACCATATCTGGGATATGGCACCGGTGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACT
* * *
287093 GTATAAGGCCATATCTGGGATATGGCATCAGTGAGATATGTGATTC-
1 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACT
* * *
287139 GTGTAAGACCATAACTGGGTTATGGCATC-----GATATATGAATA-T
1 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG-ATACT
* * *
287181 GTATAAAACCATAGCTGGGCTATGGCATCA
1 GTATAAGACCATATCTGGGATATGGCATCA
287211 TTATGCGAAG
Statistics
Matches: 98, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
41 7 0.07
42 27 0.28
46 25 0.26
47 39 0.40
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (47 bp):
GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACT
Found at i:287205 original size:42 final size:42
Alignment explanation
Indices: 287146--287253 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 42
287136 TTCGTGTAAG
* * *
287146 ACCATAACTGGGTTATGGCATCGATATAT-GAATATGTATAAA
1 ACCATAGCTGGGCTATGGCATCGAT-TATCGAAGATGTATAAA
* *
287188 ACCATAGCTGGGCTATGGCATC-ATTATGCGAAGATGTGTAAG
1 ACCATAGCTGGGCTATGGCATCGATTAT-CGAAGATGTATAAA
* **
287230 ACCATAGTTGAACTATGGCATCGA
1 ACCATAGCTGGGCTATGGCATCGA
287254 GAAAACGAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
40 3 0.05
41 2 0.04
42 49 0.89
43 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (42 bp):
ACCATAGCTGGGCTATGGCATCGATTATCGAAGATGTATAAA
Found at i:293875 original size:6 final size:6
Alignment explanation
Indices: 293864--293889 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
293854 AAAAATGCAA
293864 GATATG GATATG GATATG GATATG GA
1 GATATG GATATG GATATG GATATG GA
293890 AGTATGGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (6 bp):
GATATG
Found at i:311072 original size:3 final size:3
Alignment explanation
Indices: 311064--311096 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
311054 TCAAACTTAA
311064 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
311097 TACAATGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:313101 original size:24 final size:23
Alignment explanation
Indices: 313074--313128 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
313064 TGACGTACAA
*
313074 AAATTAATTTTTAACCATAAAAAT
1 AAATTAATTTTTAA-CAAAAAAAT
*
313098 AAATGAAATTTTTAACAAAAAAAT
1 AAAT-TAATTTTTAACAAAAAAAT
*
313122 TAATTAA
1 AAATTAA
313129 CATGTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.08
24 15 0.58
25 9 0.35
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (23 bp):
AAATTAATTTTTAACAAAAAAAT
Found at i:326550 original size:48 final size:48
Alignment explanation
Indices: 326492--326583 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
326482 CACCTTGGCT
*
326492 TCTTTTATCCCTATCATGATCATCATCACTTTCAGTTCTCCGGTACCA
1 TCTTCTATCCCTATCATGATCATCATCACTTTCAGTTCTCCGGTACCA
*
326540 TCTTCTATCCCTATCATGATCATCATCACTTTTAGTTCTCCGGT
1 TCTTCTATCCCTATCATGATCATCATCACTTTCAGTTCTCCGGT
326584 GCCTATCTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.20, C:0.30, G:0.09, T:0.41
Consensus pattern (48 bp):
TCTTCTATCCCTATCATGATCATCATCACTTTCAGTTCTCCGGTACCA
Found at i:335206 original size:6 final size:6
Alignment explanation
Indices: 335195--335229 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
335185 CACGGGTCTC
*
335195 ATTTTT ATTTTT ATTTTT A-TTTT ATTTTC ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
335230 TTGCTATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:335217 original size:11 final size:11
Alignment explanation
Indices: 335195--335228 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
335185 CACGGGTCTC
335195 ATTTTTATTTTT
1 ATTTTTA-TTTT
335207 ATTTTTATTTT
1 ATTTTTATTTT
*
335218 ATTTTCATTTT
1 ATTTTTATTTT
335229 TTTGCTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (11 bp):
ATTTTTATTTT
Done.