Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold1154
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1159333
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.30
Warning! 97731 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:8746 original size:199 final size:198
Alignment explanation
Indices: 8406--8802 Score: 785
Period size: 199 Copynumber: 2.0 Consensus size: 198
8396 AAGGCAGAAA
8406 AATTGAGATACAGCGTATTTGGATAATTTTGAAATCTATATTTGAAAGGTGCTCTTTGATTTTTG
1 AATTGAGATACAGCGTATTTGGATAATTTTGAAATCTATATTTGAAAGGTGCTCTTTGATTTTTG
8471 TACAATCTAGCATGTTATCATTCAAAATGAGTAACTTGTGTCCCGTTCATGGTAAAGACCTGAAA
66 TACAATCTAGCATGTTATCATTCAAAATGAGTAACTTGTGTCCCGTTCATGGTAAAGACCTGAAA
8536 GTTAAAGACAACTAGGTCATATCAGAAGGTCAAAGGTAAAATATAATGATTTTTTTTTTCAATTT
131 GTTAAAGACAACTAGGTCATATCAGAAGGTCAAAGGTAAAATATAATGATTTTTTTTTTCAATTT
8601 TCG
196 TCG
8604 NAATTGAGATACAGCGTATTTGGATAATTTTGAAATCTATATTTGAAAGGTGCTCTTTGATTTTT
1 -AATTGAGATACAGCGTATTTGGATAATTTTGAAATCTATATTTGAAAGGTGCTCTTTGATTTTT
8669 GTACAATCTAGCATGTTATCATTCAAAATGAGTAACTTGTGTCCCGTTCATGGTAAAGACCTGAA
65 GTACAATCTAGCATGTTATCATTCAAAATGAGTAACTTGTGTCCCGTTCATGGTAAAGACCTGAA
8734 AGTTAAAGACAACTAGGTCATATCAGAAGGTCAAAGGTAAAATATAATGATTTTTTTTTTCAATT
130 AGTTAAAGACAACTAGGTCATATCAGAAGGTCAAAGGTAAAATATAATGATTTTTTTTTTCAATT
8799 TTCG
195 TTCG
8803 CTTCCATCAA
Statistics
Matches: 198, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
199 198 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (198 bp):
AATTGAGATACAGCGTATTTGGATAATTTTGAAATCTATATTTGAAAGGTGCTCTTTGATTTTTG
TACAATCTAGCATGTTATCATTCAAAATGAGTAACTTGTGTCCCGTTCATGGTAAAGACCTGAAA
GTTAAAGACAACTAGGTCATATCAGAAGGTCAAAGGTAAAATATAATGATTTTTTTTTTCAATTT
TCG
Found at i:9147 original size:11 final size:11
Alignment explanation
Indices: 9127--9167 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
9117 ATACATGTGG
9127 AAAAAA-AATA
1 AAAAAATAATA
9137 AAAAAATAATA
1 AAAAAATAATA
9148 AAATAAATAA-A
1 AAA-AAATAATA
9159 AATAAAATA
1 AA-AAAATA
9168 CATACCGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 6 0.21
11 15 0.54
12 7 0.25
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAAATAATA
Found at i:10166 original size:2 final size:2
Alignment explanation
Indices: 10159--10186 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10149 NNNNNGGTAA
10159 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
10187 GTGTGTGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14326 original size:2 final size:2
Alignment explanation
Indices: 14319--14349 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14309 TCAACTCAGC
14319 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
14350 CGAGCGCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:18905 original size:12 final size:12
Alignment explanation
Indices: 18888--18912 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18878 TTTTCATGTA
18888 AAAAAAAAAATC
1 AAAAAAAAAATC
18900 AAAAAAAAAATC
1 AAAAAAAAAATC
18912 A
1 A
18913 GATTATACAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (12 bp):
AAAAAAAAAATC
Found at i:19770 original size:23 final size:23
Alignment explanation
Indices: 19744--19835 Score: 132
Period size: 23 Copynumber: 4.0 Consensus size: 23
19734 TTCTTTGTGC
*
19744 TAAATAATCATTATTATATCATA
1 TAAATAATCATTATCATATCATA
* *
19767 TAAATAATCATTATCATGTCAAA
1 TAAATAATCATTATCATATCATA
*
19790 TAAATAATCATTATCATGTC-TAA
1 TAAATAATCATTATCATATCAT-A
19813 TAAATAATCATTATCATATCATA
1 TAAATAATCATTATCATATCATA
19836 AAAAGACGAC
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
23 61 0.98
24 1 0.02
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (23 bp):
TAAATAATCATTATCATATCATA
Found at i:23549 original size:2 final size:2
Alignment explanation
Indices: 23542--23590 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
23532 CAGTGTACTC
23542 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
23584 CT CT CT C
1 CT CT CT C
23591 GTTAAATCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:26730 original size:28 final size:28
Alignment explanation
Indices: 26690--26744 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
26680 GAGGAATCTT
26690 TGATTAAGGAGTGATACTTGATAAGTAG
1 TGATTAAGGAGTGATACTTGATAAGTAG
26718 TGATTAAGGAGTGATACTTGATAAGTA
1 TGATTAAGGAGTGATACTTGATAAGTA
26745 TCTGCTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (28 bp):
TGATTAAGGAGTGATACTTGATAAGTAG
Found at i:29759 original size:12 final size:12
Alignment explanation
Indices: 29742--29780 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
29732 AAAATCAAGG
29742 ATATTGAATATT
1 ATATTGAATATT
29754 ATATTGAATATT
1 ATATTGAATATT
*
29766 ATACTGAATATT
1 ATATTGAATATT
29778 ATA
1 ATA
29781 AGCGCTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (12 bp):
ATATTGAATATT
Found at i:32161 original size:13 final size:13
Alignment explanation
Indices: 32143--32167 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32133 TATTAACCTA
32143 GTTTTTTTTTTTT
1 GTTTTTTTTTTTT
32156 GTTTTTTTTTTT
1 GTTTTTTTTTTT
32168 ACAGAAACTG
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
GTTTTTTTTTTTT
Found at i:54875 original size:31 final size:29
Alignment explanation
Indices: 54823--54889 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 29
54813 TACTGTGCAC
*
54823 TTTTTAAATTTAAATGAAACATA-TCTTG
1 TTTTTAAATTTAAAAGAAACATATTCTTG
*
54851 TTTTGTAAATGTTAAAAGACAACATATTCTTT
1 TTTT-TAAAT-TTAAAAGA-AACATATTCTTG
54883 TTTTTAA
1 TTTTTAA
54890 TTTTTCAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 4 0.12
29 5 0.15
30 7 0.21
31 9 0.27
32 8 0.24
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (29 bp):
TTTTTAAATTTAAAAGAAACATATTCTTG
Found at i:54883 original size:29 final size:27
Alignment explanation
Indices: 54822--54884 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 27
54812 TTACTGTGCA
*
54822 CTTTTTAAATTTAAATGAAACATATCTT
1 CTTTTTAAATTTAAAAGAAACATA-CTT
*
54850 GTTTTGTAAATGTTAAAAGACAACATA-TT
1 CTTTT-TAAAT-TTAAAAGA-AACATACTT
54879 CTTTTT
1 CTTTTT
54885 TTTAATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
28 5 0.17
29 11 0.38
30 7 0.24
31 6 0.21
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.46
Consensus pattern (27 bp):
CTTTTTAAATTTAAAAGAAACATACTT
Found at i:55366 original size:13 final size:13
Alignment explanation
Indices: 55348--55374 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55338 AAAACCTTGC
55348 TATTTTACATAAT
1 TATTTTACATAAT
55361 TATTTTACATAAT
1 TATTTTACATAAT
55374 T
1 T
55375 TGAATTATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTTTACATAAT
Found at i:60775 original size:2 final size:2
Alignment explanation
Indices: 60768--60813 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
60758 NNNNNNNNNN
60768 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
60810 CT CT
1 CT CT
60814 GTTATTCGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:76155 original size:21 final size:21
Alignment explanation
Indices: 76131--76210 Score: 133
Period size: 21 Copynumber: 3.8 Consensus size: 21
76121 CTTTTAAATT
76131 TCTCATAGCATAGCATACAAA
1 TCTCATAGCATAGCATACAAA
76152 TCTCATAGCATAGCATACAAA
1 TCTCATAGCATAGCATACAAA
76173 TCTCATAGCATAGCATACAAA
1 TCTCATAGCATAGCATACAAA
* * *
76194 TCCCATACCATATCATA
1 TCTCATAGCATAGCATA
76211 GCATAAAATT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.25
Consensus pattern (21 bp):
TCTCATAGCATAGCATACAAA
Found at i:76205 original size:26 final size:24
Alignment explanation
Indices: 76134--76219 Score: 96
Period size: 21 Copynumber: 3.8 Consensus size: 24
76124 TTAAATTTCT
76134 CATAGCATAGCATACAAAT-C-T-
1 CATAGCATAGCATACAAATCCATA
76155 CATAGCATAGCATACAAAT-C-T-
1 CATAGCATAGCATACAAATCCATA
76176 CATAGCATAGCATACAAATCCCATA
1 CATAGCATAGCATACAAAT-CCATA
*
76201 CCATATCATAGCATA-AAAT
1 -CATAGCATAGCATACAAAT
76220 TGTAAAAGAT
Statistics
Matches: 59, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
21 40 0.68
23 1 0.02
24 1 0.02
25 4 0.07
26 13 0.22
ACGTcount: A:0.44, C:0.24, G:0.08, T:0.23
Consensus pattern (24 bp):
CATAGCATAGCATACAAATCCATA
Found at i:78851 original size:46 final size:46
Alignment explanation
Indices: 78772--78863 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
78762 TTACGTTCAG
* * * *
78772 GTATCTTTACTCAAGCGACAACGAGATTTAAATCTACCCAATCTCC
1 GTATCATTACTCAAACAACAACGAGATTCAAATCTACCCAATCTCC
* * * *
78818 GTATCATTACTCAAACAACACCGATATTCAAATCTAGCCGATCTCC
1 GTATCATTACTCAAACAACAACGAGATTCAAATCTACCCAATCTCC
78864 ATTCATAGTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.34, C:0.29, G:0.10, T:0.27
Consensus pattern (46 bp):
GTATCATTACTCAAACAACAACGAGATTCAAATCTACCCAATCTCC
Found at i:79201 original size:26 final size:26
Alignment explanation
Indices: 79160--79226 Score: 98
Period size: 26 Copynumber: 2.6 Consensus size: 26
79150 CCTACAATAC
* *
79160 CCATTGTGTTGTGGGGTTAAAAATCT
1 CCATTGTCTTGGGGGGTTAAAAATCT
* *
79186 TCATTGTCTTGGGGGGTTATAAATCT
1 CCATTGTCTTGGGGGGTTAAAAATCT
79212 CCATTGTCTTGGGGG
1 CCATTGTCTTGGGGG
79227 TTCATACTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.18, C:0.13, G:0.30, T:0.39
Consensus pattern (26 bp):
CCATTGTCTTGGGGGGTTAAAAATCT
Found at i:80105 original size:1 final size:1
Alignment explanation
Indices: 80101--80172 Score: 126
Period size: 1 Copynumber: 72.0 Consensus size: 1
80091 GTTGTTGTGG
**
80101 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
80166 TTTTTTT
1 TTTTTTT
80173 GGCTACTAGT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:88788 original size:12 final size:12
Alignment explanation
Indices: 88760--88816 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
88750 ATCACATTTT
88760 GTCTGTC-GTCC
1 GTCTGTCTGTCC
*
88771 GTCTGTCTGTCT
1 GTCTGTCTGTCC
88783 GTCTGTCTGTCC
1 GTCTGTCTGTCC
* *
88795 GTCCGTCCGTCC
1 GTCTGTCTGTCC
88807 GTCTGTCTGT
1 GTCTGTCTGT
88817 AAACTTTTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
11 7 0.18
12 32 0.82
ACGTcount: A:0.00, C:0.33, G:0.26, T:0.40
Consensus pattern (12 bp):
GTCTGTCTGTCC
Found at i:88814 original size:4 final size:4
Alignment explanation
Indices: 88759--88816 Score: 64
Period size: 4 Copynumber: 14.8 Consensus size: 4
88749 GATCACATTT
* * * *
88759 TGTC TGTC -GTC CGTC TGTC TGTC TGTC TGTC TGTC CGTC CGTC CGTC
1 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC
*
88806 CGTC TGTC TGT
1 TGTC TGTC TGT
88817 AAACTTTTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
3 3 0.06
4 47 0.94
ACGTcount: A:0.00, C:0.33, G:0.26, T:0.41
Consensus pattern (4 bp):
TGTC
Found at i:89343 original size:166 final size:165
Alignment explanation
Indices: 88985--89812 Score: 1128
Period size: 166 Copynumber: 5.1 Consensus size: 165
88975 AGAAATTTTC
* *
88985 AAAAATCTTCTTCTCATGAACCATAAGACCAGGAAAGCTGAAACTTGTGTGGAAGCATCATCTGG
1 AAAAATCTTCTTCTCATGAACCATAAGACCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
*
89050 TAGTGTAGATTCTAATTTGTGAAAATCATGACCCCAGGGGTAGGGTGGGGCCACAATGGGGGGTC
66 TAGTGTAAATTCTAATTTGTGAAAATCATGACCCCAGGGGTAGGGTGGGGCCACAATGGGGGGTC
* * *
89115 GAAGTTTTACATAGGAATATACAGAGTAAATCTTT
131 AAAGTTTTAAATAGGAATATATAGAGTAAATCTTT
*
89150 GAAAATCTTCTTCTCATGAACCATAAGACCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
1 AAAAATCTTCTTCTCATGAACCATAAGACCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
* *
89215 TAGTGTAAATGCTCATTTGTGAAAATCATGACCCTC-GAGGGTAGGGTGGGGCCACAATGGGGGG
66 TAGTGTAAATTCTAATTTGTGAAAATCATGACCC-CAG-GGGTAGGGTGGGGCCACAATGGGGGG
89279 TCAAAGTTTTAAATAGGAATATATAGAGTAAATCTTT
129 TCAAAGTTTTAAATAGGAATATATAGAGTAAATCTTT
89316 AAAAATCTTCTTCTCATGAACCATAAGACCAGGAAA---G---C-----T-GAA--A--CTCAGG
1 AAAAATCTTCTTCTCATGAACCATAAGACCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
* * * * *
89365 TAGTGTTAATTCTAATTTGTGAAAATCATGACCCCGGGGGTAGAGTTGGGCCACAATGGGGTGTC
66 TAGTGTAAATTCTAATTTGTGAAAATCATGACCCCAGGGGTAGGGTGGGGCCACAATGGGGGGTC
*
89430 GAAG-TTTAACATAGGAATATATAGAGTAAATCTTT
131 AAAGTTTTAA-ATAGGAATATATAGAGTAAATCTTT
* * *
89465 AAAAATCTTCTTCTCA-GAAAC-TAATCAGCCAGGAAAGCTGACACTTGTGTGGAAGCATCCTCA
1 AAAAATCTTCTTCTCATGAACCATAA-GA-CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCA
* *
89528 GGTAGTGTAAATTCAAAGTTGTGAAAATCATGATCCCCAGGGGTAGGGTGGGGCCACAATGGGGG
64 GGTAGTGTAAATTCTAATTTGTGAAAATCATGA-CCCCAGGGGTAGGGTGGGGCCACAATGGGGG
89593 GTCAAAGTTTTAAATAGGAATATATAGAGTAAATCTTT
128 GTCAAAGTTTTAAATAGGAATATATAGAGTAAATCTTT
* * * * *
89631 AAAAATCTTCTTCTCA-GAAAC-TAATCAGCTAGGAAAGCTTAAACTTGTGTGGAAGCGTCCTCA
1 AAAAATCTTCTTCTCATGAACCATAA-GA-CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCA
* *
89694 GGTAGTGTAAATTCAAAGTTGTGAAAATCATGATCCCCAGGGGTAGGGTGGGGCCACAATGGGGG
64 GGTAGTGTAAATTCTAATTTGTGAAAATCATGA-CCCCAGGGGTAGGGTGGGGCCACAATGGGGG
* *
89759 TTCAAAG-TTTAACAAAGGAATATATATG-GTAAATCTTT
128 GTCAAAGTTTTAA-ATAGGAATATATA-GAGTAAATCTTT
89797 AAAAATCTTCTTCTCA
1 AAAAATCTTCTTCTCA
89813 GAAACTAATC
Statistics
Matches: 604, Mismatches: 33, Indels: 51
0.88 0.05 0.07
Matches are distributed among these distances:
147 3 0.00
148 10 0.02
149 78 0.13
150 38 0.06
152 2 0.00
154 3 0.00
155 2 0.00
160 2 0.00
161 3 0.00
163 2 0.00
165 133 0.22
166 322 0.53
167 6 0.01
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (165 bp):
AAAAATCTTCTTCTCATGAACCATAAGACCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
TAGTGTAAATTCTAATTTGTGAAAATCATGACCCCAGGGGTAGGGTGGGGCCACAATGGGGGGTC
AAAGTTTTAAATAGGAATATATAGAGTAAATCTTT
Found at i:89425 original size:315 final size:315
Alignment explanation
Indices: 89048--89828 Score: 1047
Period size: 315 Copynumber: 2.4 Consensus size: 315
89038 AGCATCATCT
*
89048 GGTAGTGTAGATTCTAATTTGTGAAAATCATGACCCCAGGGGTAGGGTGGGGCCACAATGGGGGG
1 GGTAGTGTAGATTCTAATTTGTGAAAATCATGACCCCAGGGGTAGAGTGGGGCCACAATGGGGGG
* * * *
89113 TCGAAGTTTTACATAGGAATATACAGAGTAAATCTTTGAAAATCTTCTTCTCATG-AAC-CATAA
66 TCGAAGTTTAACATAGGAATATACAGAGTAAATCTTTAAAAATCTTCTTCTCA-GAAACTAATCA
** *
89176 GACCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAAATGCTCATTTGTGAAAAT
130 G-CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAAATGCAAAGTTGTGAAAAT
89241 CATGA-CCCTC-GAGGGTAGGGTGGGGCCACAATGGGGGGTCAAAGTTTTAAATAGGAATATATA
194 CATGATCCC-CAG-GGGTAGGGTGGGGCCACAATGGGGGGTCAAAGTTTTAAATAGGAATATATA
89304 GAGTAAATCTTTAAAAATCTTCTTCTCATGAACCATAAGACCAGGAAAGCTGAAACTCA
257 GAGTAAATCTTTAAAAATCTTCTTCTCATGAACCATAAGACCAGGAAAGCTGAAACTCA
* * *
89363 GGTAGTGTTA-ATTCTAATTTGTGAAAATCATGACCCCGGGGGTAGAGTTGGGCCACAATGGGGT
1 GGTAGTG-TAGATTCTAATTTGTGAAAATCATGACCCCAGGGGTAGAGTGGGGCCACAATGGGGG
*
89427 GTCGAAGTTTAACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCA
65 GTCGAAGTTTAACATAGGAATATACAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCA
* *
89492 GCCAGGAAAGCTGACACTTGTGTGGAAGCATCCTCAGGTAGTGTAAATTCAAAGTTGTGAAAATC
130 GCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAAATGCAAAGTTGTGAAAATC
89557 ATGATCCCCAGGGGTAGGGTGGGGCCACAATGGGGGGTCAAAGTTTTAAATAGGAATATATAGAG
195 ATGATCCCCAGGGGTAGGGTGGGGCCACAATGGGGGGTCAAAGTTTTAAATAGGAATATATAGAG
* * *
89622 TAAATCTTTAAAAATCTTCTTCTCA-GAAAC-TAATCAGCTAGGAAAGCTTAAACTTGTGTGGAA
260 TAAATCTTTAAAAATCTTCTTCTCATGAACCATAA-GA-CCAGGAAAG------C-----T-GAA
*
89685 GCGTCCTCA
311 ----ACTCA
* * * *
89694 GGTAGTGTAAATTCAAAGTTGTGAAAATCATGATCCCCAGGGGTAGGGTGGGGCCACAATGGGGG
1 GGTAGTGTAGATTCTAATTTGTGAAAATCATGA-CCCCAGGGGTAGAGTGGGGCCACAATGGGGG
* * * *
89759 TTCAAAGTTTAACAAAGGAATATATATG-GTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATC
65 GTCGAAGTTTAACATAGGAATATACA-GAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATC
89823 AGCCAG
129 AGCCAG
89829 ATGATTCTTT
Statistics
Matches: 413, Mismatches: 27, Indels: 35
0.87 0.06 0.07
Matches are distributed among these distances:
313 3 0.01
314 6 0.01
315 262 0.63
316 10 0.02
321 1 0.00
326 1 0.00
327 3 0.01
330 2 0.00
331 32 0.08
332 92 0.22
333 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (315 bp):
GGTAGTGTAGATTCTAATTTGTGAAAATCATGACCCCAGGGGTAGAGTGGGGCCACAATGGGGGG
TCGAAGTTTAACATAGGAATATACAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAG
CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAAATGCAAAGTTGTGAAAATCA
TGATCCCCAGGGGTAGGGTGGGGCCACAATGGGGGGTCAAAGTTTTAAATAGGAATATATAGAGT
AAATCTTTAAAAATCTTCTTCTCATGAACCATAAGACCAGGAAAGCTGAAACTCA
Found at i:93432 original size:166 final size:166
Alignment explanation
Indices: 92844--97676 Score: 6446
Period size: 166 Copynumber: 29.2 Consensus size: 166
92834 ACAAGTTTAG
** * * * * *
92844 GCTTTTCTGGCCAAATAGTCTTTAAAAAGAAGA-TATTAAAGATTTTCTCTATATATTCCTATGT
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATGT
* * * * * ** * * *
92908 AAAAATTCATCCCCC-ATTGTGGCCTCACCATA-CCCC-ATGACTATTATTTAAACAAACTTGAA
66 AAAACTTGACCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAA
** * * * *
92970 TCTTTACGATCTTG-GGATGCTTCCACTTAAATTTGG
131 TCTACACTA-CCTGAGGATGCTTCCACTTTAATTTGA
* * *
93006 GCTTTCCTGGCCTTATAG-TTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATA----TA---
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATGT
* * * *
93063 AAAA-TTTATCCCCC-ATTGTGGCCCCGCCCTACCCCCAGGGACCATGATTTGAACAAACTTGAA
66 AAAACTTGACCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAA
* * *
93126 TCTACATTATCTGAGGATGGTT--AC---AATTTGA
131 TCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* * *
93157 GC-TTTCTTGGCCAT-AAAG-TTTTGAAAAGAA-ATTTTTTTAAAGATTTTCTCTATATATTCCT
1 GCTTTTC-TGGCC-TGATAGTTTTTGAGAAGAAGA--TTTTTAAAGATTTTGTCTATATATTCCT
* * * * *
93218 ATATAAAAATTTA-TCCCCTAATTGTGGCCCCACCCTACCCCTGGGGACCATGATTTGAACAAAC
62 ATGTAAAACTTGACCCCCCT-ATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAAC
* ** *
93282 TTGAATCTACACTATCTGAGGATGCTTCCACTCAAATTTAA
126 TTGAATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* * * *** *
93323 GCTTTTCTGACCTTATAGTTTTTGAGAAGAAGATTTTTAAAAAAAAAT-TCGATATATTCCTATG
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTT-AAAGATTTTGTCTATATATTCCTATG
* * *
93387 TAAAACATGACCCCCCTCTTGTGGCCCCACCCTACCCCCGGGGACCATAATTTGAACAAACTTGA
65 TAAAACTTGACCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
*
93452 ATCTACACTACCTGAGGATGCTTCCATTTTAATTTGA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* *
93489 GCTTTTCTGGCCTGATAGTTTTTTAGAAGAAGATTTTTAAAGATTTTGTCTATATATTTCTATGT
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATGT
* *
93554 AAAACTTGA-TCCCCTAATTGTGGCCCCACCCTACCCCTGGGGACCATGATTTGAACAAACTTGA
66 AAAACTTGACCCCCCT-ATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* ** *
93618 ATCTACACTATCTGAGGATGCTTCCACTCAAATTTAA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* * * *** *
93655 GCTTTTCTGACCTTATAGTTTTTGAGAAGAAGATTTTTAAAAAAAAAT-TCGATATATTCCTATG
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTT-AAAGATTTTGTCTATATATTCCTATG
* * *
93719 TAAAACATGACCCCCCTCTTGTGGCCCCACCCTACCCCCGGGGACCATAATTTGAACAAACTTGA
65 TAAAACTTGACCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
*
93784 ATCTACACTACCTGAGGATGCTTCCATTTTAATTTGA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* *
93821 GCTTTTCTGGCCTGATAGTTTTTTAGAAGAAGATTTTTAAAGATTTTGTCTATATATTTCTATGT
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATGT
* * *
93886 AAAACTTGA-TCCCCTAATTGTGGCCCCACCCTAGCCCCGGAGACCATGATTTGAACAAACTTGA
66 AAAACTTGACCCCCCT-ATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* *
93950 ATCTACACTACCTGAGGAAGCTTCCACTTTTATTTGA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* * * *
93987 GCTTTTCTGGCCTAATAATTTTTTAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGT
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATGT
*
94052 AAAACTTGATCCCCCC-ATTGTGGCCCCACCCTACCCCTGGGGACCATGATTTGAACAAACTTGA
66 AAAACTTGA-CCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* *
94116 ATCTACACTACCTGAGGAAGCTTCCACTTTGATTTGA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* * * * *
94153 GCTTCTCTGGCCTAATAATTTTTTAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGT
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATGT
*
94218 AAAACTTGATCCCCCC-ATTGTGGCCCCACCCTACCCCTGGGGACCATGATTTGAACAAACTTGA
66 AAAACTTGA-CCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* *
94282 ATCTACACTACCTGAGGAAGCTTCCACTTTGATTTGA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* * * * *
94319 GCTTCTCTGGCCTAATAATGTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGT
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATGT
*
94384 AAAACTTGATCCCCCC-ATTGTGGCCCCACCCTACCCCTGGGGACCATGATTTGAACAAACTTGA
66 AAAACTTGA-CCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* ** *
94448 ATCTACACTATCTGAGGATGCTTCCACTCAAATTTAA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* * * ***
94485 GCTTTTCTGACCTTATAGTTTTTGAGAAGAAGATTTTTAAAAAAAAAT-TCTATATATTCCTATG
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTT-AAAGATTTTGTCTATATATTCCTATG
* * *
94549 TAAAACATGACCCCCCTCTTGTGGCCCCACCCTACCCCCGGGGACCATAATTTGAACAAACTTGA
65 TAAAACTTGACCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
*
94614 ATCTACACTACCTGAGGATGCTTCCATTTTAATTTGA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* *
94651 GCTTTTCTGGCCTGATAGTTTTTTAGAAGAAGATTTTTAAAGATTTTGTCTATATATTTCTATGT
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATGT
* *
94716 AAAACTTGA-TCCCCTAATTGTGGCCCCACCCTACCCCTGGGGACCATGATTTGAACAAACTTGA
66 AAAACTTGACCCCCCT-ATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* ** *
94780 ATCTACACTATCTGAGGATGCTTCCACTCAAATTTAA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* * * *** *
94817 GCTTTTCTGACCTTATAGTTTTTGAGAAGAAGATTTTTAAAAAAAAAT-TCTGTATATTCCTATG
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTT-AAAGATTTTGTCTATATATTCCTATG
* *
94881 TAAAACATGACCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATAATTTGAACAAACTTGA
65 TAAAACTTGACCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
*
94946 ATCTACACTACCTGAGGATGCTTCCATTTTAATTTGA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* *
94983 GCTTTTCTGGCCTGATAGTTTTTTAGAAGAAGATTTTTAAAGATTTTGTCTATATATTTCTATGT
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATGT
* *
95048 AAAACTTGA-TCCCCTAATTGTGGCCCCACCCTACCCCTGGGGACCATGATTTGAACAAACTTGA
66 AAAACTTGACCCCCCT-ATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* ** *
95112 ATCTACACTATCTGAGGATGCTTCCACTCAAATTTAA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* * * *** *
95149 GCTTTTCTGACCTTATAGTTTTTGAGAAGAAGATTTTTAAAAAAAAAT-TCGATATATTCCTATG
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTT-AAAGATTTTGTCTATATATTCCTATG
* * *
95213 TAAAACATGACCCCCCTCTTGTGGCCCCACCCTACCCCCGGGGACCATAATTTGAACAAACTTGA
65 TAAAACTTGACCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
*
95278 ATCTACACTACCTGAGGATGCTTCCATTTTAATTTGA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* *
95315 GCTTTTCTGGCCTGATAGTTTTTTAGAAGAAGATTTTTAAAGATTTTGTCTATATATTTCTATGT
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATGT
* *
95380 AAAACTTGA-TCCCCTAATTGTGGCCCCACCCTACCCCTGGGGACCATGATTTGAACAAACTTGA
66 AAAACTTGACCCCCCT-ATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* ** *
95444 ATCTACACTATCTGAGGATGCTTCCACTCAAATTTAA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* * ** *
95481 GCTTTTCTGGCCTTATAGTTTTTGAGAAGAAGATTTTTAAAAAAAATT-TCGATATATTCCTATG
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTT-AAAGATTTTGTCTATATATTCCTATG
* * *
95545 TAAAACATGACCCCCCTCTTGTGGCCCCACCCTACCCCCGGGGACCATAATTTGAACAAACTTGA
65 TAAAACTTGACCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
*
95610 ATCTACACTACCTGAGGATGCTTCCATTTTAATTTGA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* *
95647 GCTTTTCTGGCCTGATAGTTTTTTAGAAGAAGATTTTTAAAGATTTTGTCTATATATTTCTATGT
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATGT
* *
95712 AAAACTTGA-TCCCCTAATTGTGGCCCCACCCTACCCCTGGGGACCATGATTTGAACAAACTTGA
66 AAAACTTGACCCCCCT-ATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* ** *
95776 ATCTACACTATCTGAGGATGCTTCCACTCAAATTTAA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* * * *** *
95813 GCTTTTCTGACCTTATAGTTTTTGAGAAGAAGATTTTTAAAAAAAAAT-TCTGTATATTCCTATG
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTT-AAAGATTTTGTCTATATATTCCTATG
* * *
95877 TAAAACATGACCCCCCTCTTGTGGCCCCACCCTACCCCCGGGGACCATAATTTGAACAAACTTGA
65 TAAAACTTGACCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
*
95942 ATCTACACTACCTGAGGATGCTTCCATTTTAATTTGA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* *
95979 GCTTTTCTGGCCTGATAGTTTTTTAGAAGAAGATTTTTAAAGATTTTGTCTATATATTTCTATGT
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATGT
* *
96044 AAAACTTGA-TCCCCTAATTGTGGCCCCACCCTACCCCTGGGGACCATGATTTGAACAAACTTGA
66 AAAACTTGACCCCCCT-ATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* ** *
96108 ATCTACACTATCTGAGGATGCTTCCACTCAAATTTAA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* * * ***
96145 GCTTTTCTGACCTTATAGTTTTTGAGAAGAAGATTTTTAAAAAAAAAT-TCTATATATTCCTATG
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTT-AAAGATTTTGTCTATATATTCCTATG
* * *
96209 TAAAACATGACCCCCCTCTTGTGGCCCCACCCTACCCCCGGGGACCATAATTTGAACAAACTTGA
65 TAAAACTTGACCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
*
96274 ATCTACACTACCTGAGGATGCTTCCATTTTAATTTGA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* *
96311 GCTTTTCTGGCCTGATAGTTTTTTAGAAGAAGATTTTTAAAGATTTTGTCTATATATTTCTATGT
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATGT
* *
96376 AAAACTTGA-TCCCCTAATTGTGGCCCCACCCTACCCCTGGGGACCATGATTTGAACAAACTTGA
66 AAAACTTGACCCCCCT-ATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* ** *
96440 ATCTACACTATCTGAGGATGCTTCCACTCAAATTTAA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* * * * ** *
96477 GCTTTTCTGACCTTATAGTTTTTGAGAAGAAGATTTTAAAAAAAAATT-TCGATATATTCCTATG
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTT-TAAAGATTTTGTCTATATATTCCTATG
* * *
96541 TAAAACATGACCCCCCTCTTGTGGCCCCACCCTACCCCCGGGGACCATAATTTGAACAAACTTGA
65 TAAAACTTGACCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
*
96606 ATCTACACTACCTGAGGATGCTTCCATTTTAATTTGA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* *
96643 GCTTTTCTGGCCTGATAGTTTTTTAGAAGAAGATTTTTAAAGATTTTGTCTATATATTTCTATGT
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATGT
* *
96708 AAAACTTGA-TCCCCTAATTGTGGCCCCACCCTACCCCTGGGGACCATGATTTGAACAAACTTGA
66 AAAACTTGACCCCCCT-ATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* ** *
96772 ATCTACACTATCTGAGGATGCTTCCACTCAAATTTAA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* * * *** *
96809 GCTTTTCTGACCTTATAGTTTTTGAGAAGAAGATTTTTAAAAAAAAAT-TCGATATATTCCTATG
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTT-AAAGATTTTGTCTATATATTCCTATG
* * *
96873 TAAAACATGACCCCCCTCTTGTGGCCCCACCCTACCCCCGGGGACCATAATTTGAACAAACTTGA
65 TAAAACTTGACCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
*
96938 ATCTACACTACCTGAGGATGCTTCCATTTTAATTTGA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* *
96975 GCTTTTCTGGCCTGATAGTTTTTTAGAAGAAGATTTTTAAAGATTTTGTCTATATATTTCTATGT
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATGT
* * *
97040 AAAACTTGA-TCCCCTAATTGTGGCCCCACCCTAGCCCCGGAGACCATGATTTGAACAAACTTGA
66 AAAACTTGACCCCCCT-ATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
* *
97104 ATCTACACTACCTGAGGAAGCTTCCACTTTTATTTGA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* * *
97141 GCTTTTCTGGCCTCATAATATTTT-AGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
1 GCTTTTCTGGCCTGATAGT-TTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATG
*
97205 TAAAACTTGATCCCCCC-ATTGTGGCCCCACCCTACCCCTGGGGACCATGATTTGAACAAACTTG
65 TAAAACTTGA-CCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTG
* *
97269 AATCTACACTACCTGAGGAAGCTTCCACTTTGATTTGA
129 AATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* * * *
97307 GCTTCTCTGGCCTAATAATGTTTT-AGAAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
1 GCTTTTCTGGCCTGATAGT-TTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATG
*
97371 TAAAACTTGATCCCCCC-ATTGAGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTG
65 TAAAACTTGA-CCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTG
* * * *
97435 AATCTACACTATCTGAGGAGGCTCCCATTTTAATTTGA
129 AATCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
* * *
97473 GCTTTTCTGGCCTGATAGTTTTTTAGAAGAAGATTTTTAAGGATTTTGTCTATATATTTCTATGT
1 GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATGT
* * *
97538 AAAACTTGATCCCCCC-ATTGTGGCCCCTCCCTACCCCTGGGGACCATAATTTGAACAAACTTGA
66 AAAACTTGA-CCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGA
** **
97602 ATCTACACTACCTGAGGATGCCGCCAC-ACAAGTTTGA
130 ATCTACACTACCTGAGGATGCTTCCACTTTAA-TTTGA
*
97639 GCTTTTCAGGCC-GAATAGTTTTTGAGAAGAAGATTTTT
1 GCTTTTCTGGCCTG-ATAGTTTTTGAGAAGAAGATTTTT
97677 GAAAAATACC
Statistics
Matches: 4136, Mismatches: 460, Indels: 146
0.87 0.10 0.03
Matches are distributed among these distances:
150 4 0.00
151 27 0.01
152 24 0.01
154 25 0.01
155 10 0.00
156 35 0.01
158 2 0.00
159 8 0.00
160 4 0.00
161 77 0.02
162 36 0.01
163 2 0.00
165 116 0.03
166 3641 0.88
167 116 0.03
168 9 0.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (166 bp):
GCTTTTCTGGCCTGATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTGTCTATATATTCCTATGT
AAAACTTGACCCCCCTATTGTGGCCCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAA
TCTACACTACCTGAGGATGCTTCCACTTTAATTTGA
Found at i:97869 original size:18 final size:19
Alignment explanation
Indices: 97846--97893 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
97836 TGAAAAGTTT
* *
97846 ACAACGCCAACGCCGAC-G
1 ACAACGACAACGACGACAG
97864 ACAACGACAACGACGACAG
1 ACAACGACAACGACGACAG
97883 ACAACGGACAA
1 ACAAC-GACAA
97894 ATTGTGATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 15 0.58
19 6 0.23
20 5 0.19
ACGTcount: A:0.44, C:0.35, G:0.21, T:0.00
Consensus pattern (19 bp):
ACAACGACAACGACGACAG
Found at i:107157 original size:2 final size:2
Alignment explanation
Indices: 107152--107264 Score: 208
Period size: 2 Copynumber: 56.5 Consensus size: 2
107142 ATTGCACACA
* *
107152 CT CT CT CT CT CT CT CT CT AT CT CT CT AT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
107194 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
107236 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
107265 AATTTTAAAT
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 107 1.00
ACGTcount: A:0.02, C:0.49, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:107565 original size:2 final size:2
Alignment explanation
Indices: 107553--107603 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
107543 ACTGGAGACT
*
107553 GA GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
107595 GA GA GA GA G
1 GA GA GA GA G
107604 GCACATAGCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:107865 original size:2 final size:2
Alignment explanation
Indices: 107858--107907 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
107848 GCTATGTACT
107858 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
107900 GA GG GA GA
1 GA GA GA GA
107908 CCATGTGGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:108534 original size:2 final size:2
Alignment explanation
Indices: 108527--108569 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
108517 TTAATTGTTC
108527 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
108569 A
1 A
108570 TCCTACCTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:109401 original size:2 final size:2
Alignment explanation
Indices: 109394--109470 Score: 145
Period size: 2 Copynumber: 38.5 Consensus size: 2
109384 TTAACTAGTT
109394 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
109436 TC TC TC TC TC TC TC CC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
109471 AGCCTTACAA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:113602 original size:76 final size:76
Alignment explanation
Indices: 113513--113721 Score: 244
Period size: 76 Copynumber: 2.8 Consensus size: 76
113503 TAAACACATT
* * * * *
113513 AATGTAGAATATAAGTGGAGTAAAATGAGAAAATTAAAC-TAAAACTCGACGTAAAATTGGGTAT
1 AATGTGGAATATAAGTCGAGTAAAATGAG-AAATTAAACTTGAAACTCGACGTAAAATTCGATAT
113577 AA-AAACCATTTA
65 AATAAA-CATTTA
* * *
113589 AATGTGGAATATAAGTCGAGTAAAATAAGTGAA-TAAACTTGAAACTCGACGTAAAATTCGATTT
1 AATGTGGAATATAAGTCGAGTAAAATGAG-AAATTAAACTTGAAACTCGACGTAAAATTCGATAT
*
113653 AATAAACATTTG
65 AATAAACATTTA
* * * **
113665 TATCTGGACTATAAGTCGAGTAAAATGAGTGATTAAACTTGAAACTCGACGTAAAAT
1 AATGTGGAATATAAGTCGAGTAAAATGAGAAATTAAACTTGAAACTCGACGTAAAAT
113722 GGTGTAAAAT
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
75 6 0.05
76 105 0.92
77 3 0.03
ACGTcount: A:0.45, C:0.10, G:0.18, T:0.27
Consensus pattern (76 bp):
AATGTGGAATATAAGTCGAGTAAAATGAGAAATTAAACTTGAAACTCGACGTAAAATTCGATATA
ATAAACATTTA
Found at i:116685 original size:16 final size:16
Alignment explanation
Indices: 116649--116691 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
116639 CCGAAATGAA
116649 ATAT-AAATATAAATG
1 ATATGAAATATAAATG
* *
116664 AAATGAAATATAAATT
1 ATATGAAATATAAATG
116680 ATATGATAATAT
1 ATATGA-AATAT
116692 TGTAGTGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 3 0.13
16 15 0.65
17 5 0.22
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (16 bp):
ATATGAAATATAAATG
Found at i:117223 original size:20 final size:21
Alignment explanation
Indices: 117198--117248 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
117188 CACGACCTAG
117198 CTTTATATATATACACAATT-
1 CTTTATATATATACACAATTC
***
117218 CTTTATATATATTGGCAATTC
1 CTTTATATATATACACAATTC
117239 CTTTATATAT
1 CTTTATATAT
117249 TTAAAGCTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (21 bp):
CTTTATATATATACACAATTC
Found at i:122020 original size:2 final size:2
Alignment explanation
Indices: 122015--122056 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
122005 TATAAATTGA
122015 AT AT AT AT AT 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 AT AT AT AT AT
122057 TTTGGTGAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:124291 original size:32 final size:32
Alignment explanation
Indices: 124250--124312 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
124240 AAGAATTGAA
124250 AATATTGGATTATTATTAACAATTATGATGAC
1 AATATTGGATTATTATTAACAATTATGATGAC
124282 AATATTGGATTATTATTAACAATTATGATGA
1 AATATTGGATTATTATTAACAATTATGATGA
124313 AAAGCTAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (32 bp):
AATATTGGATTATTATTAACAATTATGATGAC
Found at i:126116 original size:90 final size:90
Alignment explanation
Indices: 126001--126175 Score: 251
Period size: 90 Copynumber: 1.9 Consensus size: 90
125991 ATATAAGACA
* * * * * *
126001 ACAATTTTGTAAATAAAGAGAATAAATCATACACATGAATGCTATGTAAATCTGGGACTTTGTAT
1 ACAATGTTGTAAATAAAGAAAATAAACCATACACATGAATGCTATGTAAATCAGGGACGTTATAT
*
126066 ATAATTTCTGATCAGATCTATGACT
66 ATAATTTCTGAGCAGATCTATGACT
* * * *
126091 ACAATGTTGTAAATCAAGAAAATAAACCATACACATTAATGCTCTGTAATTCAGGGACGTTATAT
1 ACAATGTTGTAAATAAAGAAAATAAACCATACACATGAATGCTATGTAAATCAGGGACGTTATAT
126156 ATAATTTCTGAGCAGATCTA
66 ATAATTTCTGAGCAGATCTA
126176 AAAAGCCTAA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 74 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (90 bp):
ACAATGTTGTAAATAAAGAAAATAAACCATACACATGAATGCTATGTAAATCAGGGACGTTATAT
ATAATTTCTGAGCAGATCTATGACT
Found at i:132082 original size:16 final size:16
Alignment explanation
Indices: 132063--132096 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
132053 TCACCGAGAC
132063 GAGACATCACCCTTAT
1 GAGACATCACCCTTAT
* *
132079 GAGACTTCACCTTTAT
1 GAGACATCACCCTTAT
132095 GA
1 GA
132097 AACCACCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (16 bp):
GAGACATCACCCTTAT
Found at i:132747 original size:53 final size:53
Alignment explanation
Indices: 132676--132776 Score: 121
Period size: 53 Copynumber: 1.9 Consensus size: 53
132666 ATATATTTTA
* * ** *
132676 CAATATCATACAAAACAATTTCATGTGATGTGATATTATATCATATTATAAAC
1 CAATATCATACAAAACAATATCATATGATACGATATTATATAATATTATAAAC
** * *
132729 CAATATCATATTATACAATATCGTATGATACGATATTATATAATATTA
1 CAATATCATACAAAACAATATCATATGATACGATATTATATAATATTA
132777 CAGTATCTTA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
53 39 1.00
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.38
Consensus pattern (53 bp):
CAATATCATACAAAACAATATCATATGATACGATATTATATAATATTATAAAC
Found at i:132749 original size:15 final size:15
Alignment explanation
Indices: 132713--132769 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
132703 ATGTGATATT
132713 ATATCATATTATAAACCA
1 ATATCATATTAT--A-CA
132731 ATATCATATTATACA
1 ATATCATATTATACA
* * *
132746 ATATCGTATGATACG
1 ATATCATATTATACA
*
132761 ATATTATAT
1 ATATCATAT
132770 AATATTACAG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 21 0.62
16 1 0.03
18 12 0.35
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (15 bp):
ATATCATATTATACA
Found at i:132847 original size:15 final size:15
Alignment explanation
Indices: 132829--132862 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
132819 ACAGAAACTT
*
132829 ATATCATATTATACA
1 ATATCATATGATACA
*
132844 ATATCGTATGATACA
1 ATATCATATGATACA
132859 ATAT
1 ATAT
132863 TATAGAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (15 bp):
ATATCATATGATACA
Found at i:132983 original size:20 final size:20
Alignment explanation
Indices: 132954--133002 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
132944 ATAAATTAAT
* *
132954 AATACAATATAATATTATAC
1 AATACTATATAATAATATAC
* *
132974 AATATTATATCATAATATAC
1 AATACTATATAATAATATAC
132994 AATACTATA
1 AATACTATA
133003 CATAACGATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (20 bp):
AATACTATATAATAATATAC
Found at i:133977 original size:162 final size:163
Alignment explanation
Indices: 133774--134380 Score: 581
Period size: 177 Copynumber: 3.5 Consensus size: 163
133764 GACCTGTTCA
* * * * *
133774 AAAAAACTTAACCATATCCAGCATCTGAAACCTATGGCTCAGACTCAGCATTCAAGCCTGCCAGG
1 AAAAACCTTAACCTTCTCCAGCATCTGAAACCTATGGCTCAGATTCAGCATTCAAGCCTGCCTGG
133839 TGCATCAGTATCATAAGAC-GTCTGGTGAAGTTAGGACAAGTAATAACTAAGATATAATCATCAG
66 TGCATCAGTATCATAAGACAGTCTGGTGAAGTTAGGACAAGTAATAACTAAGATATAATCATCAG
****
133903 AGGGCACCTGTTTTAAAAACTTTAACCAGCTCT
131 AGGGCACCTGCAACAAAAACTTTAACCAGCTCT
* *
133936 AAAAACCTTAACCTTCTCCAGCATCCGAAACCTATGGCTCAGATTCAGCATTCAAGCCTGTCTGG
1 AAAAACCTTAACCTTCTCCAGCATCTGAAACCTATGGCTCAGATTCAGCATTCAAGCCTGCCTGG
*
134001 TGCATCAGTATCATAAGACGCACCATCCATGGAAGTCTGGTGAAGTTAGGACAAGTAGTAACTAA
66 TGCATCAGTATCAT-A-A-G----A--C-----AGTCTGGTGAAGTTAGGACAAGTAATAACTAA
134066 GATATAATCATCAGAGGGCACCTGCAACAAAAACTTTAACCAGCTCT
117 GATATAATCATCAGAGGGCACCTGCAACAAAAACTTTAACCAGCTCT
* * * *
134113 AAAAACCTTAACCTCCTTCAGCATCTGTAACCTATAGCTCAGATTCAGCATTCAAGCCTGCCTGG
1 AAAAACCTTAACCTTCTCCAGCATCTGAAACCTATGGCTCAGATTCAGCATTCAAGCCTGCCTGG
* * * *
134178 TGCATCAGTATCATAAGACACACCATCAATGCAAGTTTGGTGAAG-TACGGACCAGCAGTAACTT
66 TGCATCAGTATCATAAG-----------A--C-AGTCTGGTGAAGTTA-GGACAAGTAATAAC-T
* * * * * *
134242 ACATGTAGATATTGCTATCAAAGGGCACCTGCAACAAAAACTTTAACCTGATCC
115 A-A-G-ATATAAT-C-ATCAGAGGGCACCTGCAACAAAAACTTTAACCAGCTCT
* * * * *
134296 AAAAACCTTAACCTCCTCCAGCATCAGAAACC-ATAAGCTCAGATTCAGCACTCAAGCCTGTCTG
1 AAAAACCTTAACCTTCTCCAGCATCTGAAACCTAT-GGCTCAGATTCAGCATTCAAGCCTGCCTG
*
134360 GTGCGTCAGTATCATAAGACA
65 GTGCATCAGTATCATAAGACA
134381 CACCATCCAT
Statistics
Matches: 378, Mismatches: 37, Indels: 53
0.81 0.08 0.11
Matches are distributed among these distances:
162 72 0.19
163 1 0.00
164 1 0.00
165 1 0.00
169 2 0.01
170 1 0.00
171 1 0.00
172 1 0.00
174 1 0.00
175 1 0.00
176 3 0.01
177 170 0.45
178 2 0.01
179 1 0.00
180 1 0.00
181 9 0.02
182 3 0.01
183 107 0.28
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (163 bp):
AAAAACCTTAACCTTCTCCAGCATCTGAAACCTATGGCTCAGATTCAGCATTCAAGCCTGCCTGG
TGCATCAGTATCATAAGACAGTCTGGTGAAGTTAGGACAAGTAATAACTAAGATATAATCATCAG
AGGGCACCTGCAACAAAAACTTTAACCAGCTCT
Found at i:134155 original size:177 final size:180
Alignment explanation
Indices: 133858--134528 Score: 837
Period size: 177 Copynumber: 3.8 Consensus size: 180
133848 ATCATAAGAC
* * * ****
133858 GTCTGGTGAAGTTA-GGACAAGTAATAACTAAGATATAAT-C-ATCAGAGGGCACCTGTTTTAAA
1 GTCTGGTGAAGTTACGGACAAGCAGTAACTAAGATATAATGCTATCAAAGGGCACCTGCAACAAA
* * * *
133920 AACTTTAACCAGCTCTAAAAACCTTAACCTTCTCCAGCATCCGAAACCTATGGCTCAGATTCAGC
66 AACTTTAACCAGCTCCAAAAACCTTAACCTCCTCCAGCATCTGAAACCTATAGCTCAGATTCAGC
* *
133985 ATTCAAGCCTGTCTGGTGCATCAGTATCATAAGACGCACCATCCATGGAA
131 ATTCAAGCCTGTCTGGTGCATCAGTATCATAAGACACACCATCCATGCAA
* *
134035 GTCTGGTGAAGTTA-GGACAAGTAGTAACTAAGATATAAT-C-ATCAGAGGGCACCTGCAACAAA
1 GTCTGGTGAAGTTACGGACAAGCAGTAACTAAGATATAATGCTATCAAAGGGCACCTGCAACAAA
* * *
134097 AACTTTAACCAGCTCTAAAAACCTTAACCTCCTTCAGCATCTGTAACCTATAGCTCAGATTCAGC
66 AACTTTAACCAGCTCCAAAAACCTTAACCTCCTCCAGCATCTGAAACCTATAGCTCAGATTCAGC
* *
134162 ATTCAAGCCTGCCTGGTGCATCAGTATCATAAGACACACCATCAATGCAA
131 ATTCAAGCCTGTCTGGTGCATCAGTATCATAAGACACACCATCCATGCAA
* * * *
134212 GTTTGGTGAAG-TACGGACCAGCAGTAACTTACATGTAGATATTGCTATCAAAGGGCACCTGCAA
1 GTCTGGTGAAGTTACGGACAAGCAGTAAC-TA-A-G-ATATAATGCTATCAAAGGGCACCTGCAA
* * *
134276 CAAAAACTTTAACCTGATCCAAAAACCTTAACCTCCTCCAGCATCAGAAACC-ATAAGCTCAGAT
62 CAAAAACTTTAACCAGCTCCAAAAACCTTAACCTCCTCCAGCATCTGAAACCTAT-AGCTCAGAT
* *
134340 TCAGCACTCAAGCCTGTCTGGTGCGTCAGTATCATAAGACACACCATCCATGCAA
126 TCAGCATTCAAGCCTGTCTGGTGCATCAGTATCATAAGACACACCATCCATGCAA
* * * * *
134395 GTTTGGTG-AGGTACGGACCAGCAGTAACTTAGATAT--TGCTGTCAAAGGGCACCTGCAACAAA
1 GTCTGGTGAAGTTACGGACAAGCAGTAACTAAGATATAATGCTATCAAAGGGCACCTGCAACAAA
* * * *
134457 AACTTTAACCGGGTCCAACAACCTTAACCTCCTCCAGCATCTGAAA--TTTAGGACTCAGATTCA
66 AACTTTAACCAGCTCCAAAAACCTTAACCTCCTCCAGCATCTGAAACCTATA-G-CTCAGATTCA
*
134520 GCATCCAAG
129 GCATTCAAG
134529 TCTTTCAAGT
Statistics
Matches: 442, Mismatches: 40, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
175 1 0.00
176 4 0.01
177 269 0.61
178 2 0.00
179 4 0.01
180 2 0.00
181 6 0.01
182 6 0.01
183 148 0.33
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (180 bp):
GTCTGGTGAAGTTACGGACAAGCAGTAACTAAGATATAATGCTATCAAAGGGCACCTGCAACAAA
AACTTTAACCAGCTCCAAAAACCTTAACCTCCTCCAGCATCTGAAACCTATAGCTCAGATTCAGC
ATTCAAGCCTGTCTGGTGCATCAGTATCATAAGACACACCATCCATGCAA
Found at i:134315 original size:19 final size:19
Alignment explanation
Indices: 134276--134315 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
134266 GCACCTGCAA
* *
134276 CAAAAACTTTAACCTGATC
1 CAAAAACCTTAACCTCATC
*
134295 CAAAAACCTTAACCTCCTC
1 CAAAAACCTTAACCTCATC
134314 CA
1 CA
134316 GCATCAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.35, G:0.03, T:0.23
Consensus pattern (19 bp):
CAAAAACCTTAACCTCATC
Found at i:134572 original size:360 final size:358
Alignment explanation
Indices: 133917--134582 Score: 867
Period size: 360 Copynumber: 1.8 Consensus size: 358
133907 CACCTGTTTT
* * * * *
133917 AAAAACTTTAACCAGCTCTAAAAACCTTAACCTTCTCCAGCATCCGAAACCTATGGCTCAGATTC
1 AAAAACTTTAACCAGATCCAAAAACCTTAACCTCCTCCAGCATCAGAAACCTATAGCTCAGATTC
* * * *
133982 AGCATTCAAGCCTGTCTGGTGCATCAGTATCATAAGACGCACCATCCATGGAAGTCTGGTGAAGT
66 AGCACTCAAGCCTGTCTGGTGCATCAGTATCATAAGACACACCATCCATGCAAGTCTGGTGAAGG
* *
134047 TAGGACAAGTAGTAACTAAGATATAATCATCAGAGGGCACCTGCAACAAAAACTTTAACCAGCTC
131 TAGGACAAGCAGTAACTAAGATAT-ATCATCAAAGGGCACCTGCAACAAAAACTTTAACCAGCTC
* * * * **
134112 TAAAAACCTTAACCTCCTTCAGCATCTGTAACCTATAGCTCAGATTCAGCATTCAAGCCTGCCTG
195 CAAAAACCTTAACCTCCTCCAGCATCTGTAACATATAGCTCAGATTCAGCATCCAAGCCTGCCAA
* *
134177 GTGCATCAGTATCATAAGACACACCATCAATGCAAGTTTGGTGAAGTACGGACCAGCAGTAACTT
260 GTCCATAAGTATCA-AAGACACACCATCAATGCAAGTTTGGTGAAGTACGGACCAGCAGTAACTT
134242 ACATGTAGATATTGCTATCAAAGGGCACCTGCAAC
324 ACATGTAGATATTGCTATCAAAGGGCACCTGCAAC
*
134277 AAAAACTTTAACCTGATCCAAAAACCTTAACCTCCTCCAGCATCAGAAACC-ATAAGCTCAGATT
1 AAAAACTTTAACCAGATCCAAAAACCTTAACCTCCTCCAGCATCAGAAACCTAT-AGCTCAGATT
* *
134341 CAGCACTCAAGCCTGTCTGGTGCGTCAGTATCATAAGACACACCATCCATGCAAGTTTGGTG-AG
65 CAGCACTCAAGCCTGTCTGGTGCATCAGTATCATAAGACACACCATCCATGCAAGTCTGGTGAAG
* * * *
134405 GTACGGACCAGCAGTAACTTAGATAT-TGCTGTCAAAGGGCACCTGCAACAAAAACTTTAACCGG
130 GTA-GGACAAGCAGTAACTAAGATATAT-C-ATCAAAGGGCACCTGCAACAAAAACTTTAACCAG
* * * *
134469 GTCCAACAACCTTAACCTCCTCCAGCATCTG-AA-ATTTAGGACTCAGATTCAGCATCCAAGTCT
192 CTCCAAAAACCTTAACCTCCTCCAGCATCTGTAACATATA-G-CTCAGATTCAGCATCCAAGCCT
** * ** * *
134532 TTCAAGTCCATAAGTAGGTC-CAGATGCATCATCCATGCAAGTTTGGTGAAG
255 GCCAAGTCCATAAGTA--TCAAAGACACACCATCAATGCAAGTTTGGTGAAG
134583 AAAGGACAAG
Statistics
Matches: 261, Mismatches: 37, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
358 4 0.02
359 10 0.04
360 245 0.94
362 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (358 bp):
AAAAACTTTAACCAGATCCAAAAACCTTAACCTCCTCCAGCATCAGAAACCTATAGCTCAGATTC
AGCACTCAAGCCTGTCTGGTGCATCAGTATCATAAGACACACCATCCATGCAAGTCTGGTGAAGG
TAGGACAAGCAGTAACTAAGATATATCATCAAAGGGCACCTGCAACAAAAACTTTAACCAGCTCC
AAAAACCTTAACCTCCTCCAGCATCTGTAACATATAGCTCAGATTCAGCATCCAAGCCTGCCAAG
TCCATAAGTATCAAAGACACACCATCAATGCAAGTTTGGTGAAGTACGGACCAGCAGTAACTTAC
ATGTAGATATTGCTATCAAAGGGCACCTGCAAC
Found at i:134605 original size:177 final size:175
Alignment explanation
Indices: 133861--134606 Score: 759
Period size: 177 Copynumber: 4.2 Consensus size: 175
133851 ATAAGACGTC
* * * ****
133861 TGGTGAAGTTAGGACAAGTAATAACTAAGATATAAT-C-ATCAGAGGGCACCTGTTTTAAAAACT
1 TGGTGAAGTAAGGACAAGTAATAACTTAGATAT--TGCTATCAAAGGGCACCTGCAACAAAAACT
* * * * *
133924 TTAACCAGCTCTAAAAACCTTAACCTTCTCCAGCATCCGAAACCTATGGCTCAGATTCAGCATTC
64 TTAACCAGCTCCAAAAACCTTAACCTCCTCCAGCATCTGAAACATA-GGCTCAGATTCAGCATCC
* * *
133989 AAGCCTGTCTGGTGCATCAGTATCATAAGACGCACCATCCATGGAAGTC
128 AAGCCTGTCTGGTGCATCAGTATCA-AAGACACACCATCCATGCAAGTT
* * * *
134038 TGGTGAAGTTAGGACAAGTAGTAACTAAGATATAAT-C-ATCAGAGGGCACCTGCAACAAAAACT
1 TGGTGAAGTAAGGACAAGTAATAACTTAGATAT--TGCTATCAAAGGGCACCTGCAACAAAAACT
* * * *
134101 TTAACCAGCTCTAAAAACCTTAACCTCCTTCAGCATCTGTAACCTATA-GCTCAGATTCAGCATT
64 TTAACCAGCTCCAAAAACCTTAACCTCCTCCAGCATCTG-AAAC-ATAGGCTCAGATTCAGCATC
* *
134165 CAAGCCTGCCTGGTGCATCAGTATCATAAGACACACCATCAATGCAAGTT
127 CAAGCCTGTCTGGTGCATCAGTATCA-AAGACACACCATCCATGCAAGTT
* *
134215 TGGTGAAGTACGGACCAGCAGTAACTTACATGTAGATATTGCTATCAAAGGGCACCTGCAACAAA
1 TGGTGAAGTAAGGA-CA--AGTAA-TAAC-T-TAGATATTGCTATCAAAGGGCACCTGCAACAAA
* * * *
134280 AACTTTAACCTGATCCAAAAACCTTAACCTCCTCCAGCATCAGAAACCATAAGCTCAGATTCAGC
60 AACTTTAACCAGCTCCAAAAACCTTAACCTCCTCCAGCATCTGAAA-CATAGGCTCAGATTCAGC
*
134345 A-CTCAAGCCTGTCTGGTGCGTCAGTATCATAAGACACACCATCCATGCAAGTT
124 ATC-CAAGCCTGTCTGGTGCATCAGTATCA-AAGACACACCATCCATGCAAGTT
* * * * * *
134398 TGGTGAGGTACGGACCAGCAGTAACTTAGATATTGCTGTCAAAGGGCACCTGCAACAAAAACTTT
1 TGGTGAAGTAAGGACAAGTAATAACTTAGATATTGCTATCAAAGGGCACCTGCAACAAAAACTTT
* * * **
134463 AACCGGGTCCAACAACCTTAACCTCCTCCAGCATCTGAAATTTAGGACTCAGATTCAGCATCCAA
66 AACCAGCTCCAAAAACCTTAACCTCCTCCAGCATCTGAAACATAGG-CTCAGATTCAGCATCCAA
* * ** * * * ** *
134528 GTCTTTCAAGTCCATAAGTAGGTC-CAGATGCATCATCCATGCAAGTT
130 GCCTGTCTGGTGCATCAGTA--TCAAAGACACACCATCCATGCAAGTT
* *
134575 TGGTGAAGAAAGGACAAGTAATAGCTTAGATA
1 TGGTGAAGTAAGGACAAGTAATAACTTAGATA
134607 CAGGACCTGC
Statistics
Matches: 490, Mismatches: 62, Indels: 34
0.84 0.11 0.06
Matches are distributed among these distances:
176 3 0.01
177 314 0.64
178 7 0.01
179 7 0.01
180 7 0.01
181 4 0.01
182 8 0.02
183 140 0.29
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (175 bp):
TGGTGAAGTAAGGACAAGTAATAACTTAGATATTGCTATCAAAGGGCACCTGCAACAAAAACTTT
AACCAGCTCCAAAAACCTTAACCTCCTCCAGCATCTGAAACATAGGCTCAGATTCAGCATCCAAG
CCTGTCTGGTGCATCAGTATCAAAGACACACCATCCATGCAAGTT
Found at i:143500 original size:156 final size:159
Alignment explanation
Indices: 143124--143592 Score: 624
Period size: 168 Copynumber: 2.9 Consensus size: 159
143114 TCCACATGTT
* *
143124 TGGGAGTAAAGAAGAAGATTTTTTAAGATTTAATACATTTTTACTATATGGCCATATTGGCCCCA
1 TGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATATGGCCATATTGGCCCCA
* * * *
143189 CCCTAGAGCCTGAATCCCTGACACAGGAGTCATTAATTTCACAATTTTGGTAGAGGGCTTCATGG
66 CCCTAGAGCCAGAACCCCTGACACAGGGGTCATGAATTTCACAATTTTGGTAGAGGGCTTCATGG
*
143254 ACATCATAATAATGCATTTAGTTTTTAACAAATATATA
131 ACATCATAATCATGC----A--TTTTAAC--A-ATATA
** *
143292 TGGGAGTAGAGAAG-ATTTTCTTCTAAGATTTAATACATTTTTACTATATGGCCAAATTGGCCCC
1 TGGGAGTAGAGAAGAAGATT-TTCTAAGATTTAATACATTTTTACTATATGGCCATATTGGCCCC
* * *
143356 ACCCTAGAGCCAGAACCCCTGACACAGGGGTCATGAATTTTACAATTTTTGTAGAGGGTTTCATG
65 ACCCTAGAGCCAGAACCCCTGACACAGGGGTCATGAATTTCACAATTTTGGTAGAGGGCTTCATG
143421 GACATCATAATCATGCA-TTT-AC-ATATA
130 GACATCATAATCATGCATTTTAACAATATA
* * *
143448 TGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTCACTTTTTGGCCATATTGGCCCCA
1 TGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATATGGCCATATTGGCCCCA
* * * *
143513 CCCTAGAGACAGAACCCCTGACCCACGGGCCATGAATTTCAC-ATTTTGGTAGAGGGCTTCATGG
66 CCCTAGAGCCAGAACCCCTGACACAGGGGTCATGAATTTCACAATTTTGGTAGAGGGCTTCATGG
*
143577 ACATCATAACCATGCA
131 ACATCATAATCATGCA
143593 ACCAGTTTTT
Statistics
Matches: 272, Mismatches: 27, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
155 35 0.13
156 97 0.36
157 3 0.01
160 2 0.01
161 3 0.01
164 1 0.00
167 3 0.01
168 128 0.47
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (159 bp):
TGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATATGGCCATATTGGCCCCA
CCCTAGAGCCAGAACCCCTGACACAGGGGTCATGAATTTCACAATTTTGGTAGAGGGCTTCATGG
ACATCATAATCATGCATTTTAACAATATA
Found at i:147961 original size:166 final size:166
Alignment explanation
Indices: 147593--148151 Score: 619
Period size: 166 Copynumber: 3.4 Consensus size: 166
147583 ATGCCACATC
* * * * * *
147593 TTTAAACATTTTACCAATATAATTCTATGTTTAAAACTTTAAACACCTCTTGGGACC-CTAGTAT
1 TTTAAACATTTTCCCTATATATTTCTATG-TT-AAACTTTAAACTCCTCTTGGGGCCTC-AGTAA
* * * * *
147657 TAGTCCAGGGATCACGATTTTAACAATTTAGTATCTGCATCATTTGAAGATGCTTGCATAG-TAA
63 TAGTCCAGGAATCATGATTTTAACAATTTAGTATCTACATCATTTGAGGATGCTTGCATAGTTAT
147721 ATCACAAATTGTAGCATTGTAGTTCTTCAA-AAGAAGATT
128 ATCACAAATTGTAGCATTGTAGTTCTT-AAGAAGAAGATT
*
147760 TTTAAACATTTTCCCTATATATTTCTATGTTAAACTTTAAACTCCTCATGGGGCCTCAGTAATAG
1 TTTAAACATTTTCCCTATATATTTCTATGTTAAACTTTAAACTCCTCTTGGGGCCTCAGTAATAG
** * *
147825 TCCAGCCATCATGATTTTAAGAATTTAGTATCTACATCATTTGAGGATGCTTGCATAGTTATCTC
66 TCCAGGAATCATGATTTTAACAATTTAGTATCTACATCATTTGAGGATGCTTGCATAGTTATATC
*
147890 ACAAATTGTAGCATTGTACTTCTTAAGAAGAAGATT
131 ACAAATTGTAGCATTGTAGTTCTTAAGAAGAAGATT
* * * * ** * * *
147926 TTTAAACATTTTCCCTATTTATTTCTTTGTTAAACTCTGAACTCCTCTCAGAGCCTCAGTACTGG
1 TTTAAACATTTTCCCTATATATTTCTATGTTAAACTTTAAACTCCTCTTGGGGCCTCAGTAATAG
** * * *
147991 TCTGGGAAT--TGCAATTTTAACAATTTA-TAATCTACATCACTTGAGGATGCTTGCATAATAAT
66 TCCAGGAATCATG--ATTTTAACAATTTAGT-ATCTACATCATTTGAGGATGCTTGCATAGTTAT
* * * * *
148053 ATCACAAATTGGAGCACTGCAGTTCTTGAGAGGAAGA-T
128 ATCACAAATTGTAGCATTGTAGTTCTTAAGAAGAAGATT
* * * * * * *
148091 TTTAAACATTTTCTCTATATATTTCTTTGTTAAATTTTGAACCCCTTTTGGGGCCTAAGTA
1 TTTAAACATTTTCCCTATATATTTCTATGTTAAACTTTAAACTCCTCTTGGGGCCTCAGTA
148152 TTGCTCCATC
Statistics
Matches: 335, Mismatches: 51, Indels: 14
0.84 0.13 0.04
Matches are distributed among these distances:
164 2 0.01
165 135 0.40
166 172 0.51
167 26 0.08
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (166 bp):
TTTAAACATTTTCCCTATATATTTCTATGTTAAACTTTAAACTCCTCTTGGGGCCTCAGTAATAG
TCCAGGAATCATGATTTTAACAATTTAGTATCTACATCATTTGAGGATGCTTGCATAGTTATATC
ACAAATTGTAGCATTGTAGTTCTTAAGAAGAAGATT
Found at i:157352 original size:33 final size:31
Alignment explanation
Indices: 157274--157340 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
157264 ACAATGGTAA
157274 CATTCTCAGCAGTTATCTCTCTTTGCCCATT
1 CATTCTCAGCAGTTATCTCTCTTTGCCCATT
157305 CATTCTCAGCAGTTATCTCTCTTTGCCCATT
1 CATTCTCAGCAGTTATCTCTCTTTGCCCATT
157336 C-TTCT
1 CATTCT
157341 TATGCATAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 4 0.11
31 32 0.89
ACGTcount: A:0.15, C:0.33, G:0.09, T:0.43
Consensus pattern (31 bp):
CATTCTCAGCAGTTATCTCTCTTTGCCCATT
Found at i:157541 original size:16 final size:16
Alignment explanation
Indices: 157520--157557 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
157510 ACGGAAGAGT
*
157520 GACAGACGGACGGACG
1 GACAGAAGGACGGACG
157536 GACAGAAGGACGGACG
1 GACAGAAGGACGGACG
157552 GACAGA
1 GACAGA
157558 GTGATTACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.21, G:0.42, T:0.00
Consensus pattern (16 bp):
GACAGAAGGACGGACG
Found at i:170473 original size:70 final size:69
Alignment explanation
Indices: 170360--170514 Score: 265
Period size: 70 Copynumber: 2.2 Consensus size: 69
170350 CAATATCTGT
**
170360 GAATATCACTGATACAGCAGCTATTACAGTTGTACCTGAGAATATCACTGATTACAACAGTTGTA
1 GAATATCACTGATACAGCAGCTATTACAAATGTACCTGAGAATATCACTGA-TACAACAGTTGTA
170425 CCTGA
65 CCTGA
*
170430 GAATATCACTGATACAGCAGCTATTACAAATGTATCTGAGAATATCACTGATACAACAGTTGTAC
1 GAATATCACTGATACAGCAGCTATTACAAATGTACCTGAGAATATCACTGATACAACAGTTGTAC
170495 CTGA
66 CTGA
*
170499 GAATATCAATGATACA
1 GAATATCACTGATACA
170515 ACACTTGAAC
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
69 33 0.41
70 48 0.59
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (69 bp):
GAATATCACTGATACAGCAGCTATTACAAATGTACCTGAGAATATCACTGATACAACAGTTGTAC
CTGA
Found at i:170499 original size:30 final size:30
Alignment explanation
Indices: 170460--170545 Score: 118
Period size: 30 Copynumber: 2.9 Consensus size: 30
170450 CTATTACAAA
* * *
170460 TGTATCTGAGAATATCACTGATACAACAGT
1 TGTACCTGAGAATATCAATGATACAACACT
170490 TGTACCTGAGAATATCAATGATACAACACT
1 TGTACCTGAGAATATCAATGATACAACACT
* * *
170520 TGAACCTGTGAATACCAATGATACAA
1 TGTACCTGAGAATATCAATGATACAA
170546 TACATGTAGC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (30 bp):
TGTACCTGAGAATATCAATGATACAACACT
Found at i:185958 original size:44 final size:44
Alignment explanation
Indices: 185901--186004 Score: 172
Period size: 44 Copynumber: 2.4 Consensus size: 44
185891 TGAAATATTA
185901 ATAATAATTCTTTTTTGATATAATATTTTTTCAATGGATAATAT
1 ATAATAATTCTTTTTTGATATAATATTTTTTCAATGGATAATAT
*
185945 ATAATAATTCTTTTTCGATATAATATTTTTTCAATGGATAATAT
1 ATAATAATTCTTTTTTGATATAATATTTTTTCAATGGATAATAT
** *
185989 ATGCTAATACTTTTTT
1 ATAATAATTCTTTTTT
186005 TAATGCATTC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.52
Consensus pattern (44 bp):
ATAATAATTCTTTTTTGATATAATATTTTTTCAATGGATAATAT
Found at i:216478 original size:51 final size:51
Alignment explanation
Indices: 216417--216592 Score: 307
Period size: 51 Copynumber: 3.5 Consensus size: 51
216407 GAATCTTAGT
* *
216417 GATAAAGCAGTAAAAATGCAGTACCTTTGATGCCAGTATCTAAGTGATAAA
1 GATAATGCAGTAGAAATGCAGTACCTTTGATGCCAGTATCTAAGTGATAAA
216468 GATAATGCAGTAGAAATGCAGTACCTTTGATGCCAGTATCTAAGTGATAAA
1 GATAATGCAGTAGAAATGCAGTACCTTTGATGCCAGTATCTAAGTGATAAA
*
216519 GATAATGCAGTAGAAATGCAGTACCTTTGATGGCAGTATCTAAGTGATAAA
1 GATAATGCAGTAGAAATGCAGTACCTTTGATGCCAGTATCTAAGTGATAAA
* *
216570 GATAATGCAGTACAAATTCAGTA
1 GATAATGCAGTAGAAATGCAGTA
216593 AACCTATGAC
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 120 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (51 bp):
GATAATGCAGTAGAAATGCAGTACCTTTGATGCCAGTATCTAAGTGATAAA
Found at i:225763 original size:21 final size:21
Alignment explanation
Indices: 225713--225766 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
225703 TCGTAATTAT
* *
225713 GGGCATTTAGGTGTTTTCGAC
1 GGGCATTTCGGTGTTTTCAAC
225734 GGGCATTTCGGTGTTTTCAAC
1 GGGCATTTCGGTGTTTTCAAC
225755 GGGCATTTCGGT
1 GGGCATTTCGGT
225767 AAATCCCGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.13, C:0.17, G:0.33, T:0.37
Consensus pattern (21 bp):
GGGCATTTCGGTGTTTTCAAC
Found at i:229669 original size:26 final size:24
Alignment explanation
Indices: 229640--229726 Score: 90
Period size: 21 Copynumber: 3.6 Consensus size: 24
229630 ACAACATACA
229640 TCATAGCATAGCATAGCATTGAAA-
1 TCATA-CATAGCATAGCATTGAAAT
229664 TC-T-CATAGCATAGCATTGAAAT
1 TCATACATAGCATAGCATTGAAAT
* * *
229686 CTCATATCATAGCATTGCATGGAATT
1 -TCATA-CATAGCATAGCATTGAAAT
229712 TCATACCATAGCATA
1 TCATA-CATAGCATA
229727 CAATCTCATA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
21 18 0.34
23 3 0.06
24 3 0.06
25 13 0.25
26 16 0.30
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.30
Consensus pattern (24 bp):
TCATACATAGCATAGCATTGAAAT
Found at i:229672 original size:21 final size:21
Alignment explanation
Indices: 229646--229702 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
229636 TACATCATAG
229646 CATAGCATAGCATTGAAATCT
1 CATAGCATAGCATTGAAATCT
229667 CATAGCATAGCATTGAAATCT
1 CATAGCATAGCATTGAAATCT
*
229688 CATATCATAGCATTG
1 CATAGCATAGCATTG
229703 CATGGAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (21 bp):
CATAGCATAGCATTGAAATCT
Found at i:229920 original size:10 final size:10
Alignment explanation
Indices: 229905--229938 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
229895 GTTCAAATCT
229905 CATAGCATAC
1 CATAGCATAC
* *
229915 CATAGCAAAG
1 CATAGCATAC
229925 CATAGCATAC
1 CATAGCATAC
229935 CATA
1 CATA
229939 TCATTAAGCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.44, C:0.26, G:0.12, T:0.18
Consensus pattern (10 bp):
CATAGCATAC
Found at i:229992 original size:21 final size:20
Alignment explanation
Indices: 229966--230020 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
229956 TCAATTTCTT
*
229966 ATAGCATAGCATACAAATCTC
1 ATAGCATAGCATA-AAATCGC
*
229987 ATAGCATATCATTAAAATCGC
1 ATAGCATAGCA-TAAAATCGC
*
230008 ATACCATAGCATA
1 ATAGCATAGCATA
230021 GCATTAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 2 0.07
21 25 0.86
22 2 0.07
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (20 bp):
ATAGCATAGCATAAAATCGC
Found at i:245374 original size:3 final size:3
Alignment explanation
Indices: 245366--245403 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
245356 CATTTCAGTC
245366 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
245404 AAACAACATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:275055 original size:5 final size:5
Alignment explanation
Indices: 275045--275103 Score: 75
Period size: 5 Copynumber: 11.2 Consensus size: 5
275035 TGAGACAAAA
275045 CTATC CTATC CTATC CTTTATC CTGTATC CTAT- CTATC CTATC CTATC
1 CTATC CTATC CTATC C--TATC C--TATC CTATC CTATC CTATC CTATC
275093 CTATC CTATC C
1 CTATC CTATC C
275104 CATACCTTCA
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
4 4 0.08
5 35 0.70
7 11 0.22
ACGTcount: A:0.19, C:0.37, G:0.02, T:0.42
Consensus pattern (5 bp):
CTATC
Found at i:275289 original size:21 final size:21
Alignment explanation
Indices: 275264--275338 Score: 116
Period size: 21 Copynumber: 3.6 Consensus size: 21
275254 GCATCGATTT
* *
275264 ACCCAAAAGGAACCCAAACGG
1 ACCCAAAAGGAACACAAAAGG
275285 ACCCAAAAGGAACACAAAAGG
1 ACCCAAAAGGAACACAAAAGG
275306 ACCCAAAAGGAACACAAAAGG
1 ACCCAAAAGGAACACAAAAGG
275327 TA-CCAAAAGGAA
1 -ACCCAAAAGGAA
275339 ATTTTAATGT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
21 50 0.98
22 1 0.02
ACGTcount: A:0.55, C:0.25, G:0.19, T:0.01
Consensus pattern (21 bp):
ACCCAAAAGGAACACAAAAGG
Found at i:275290 original size:10 final size:11
Alignment explanation
Indices: 275264--275338 Score: 93
Period size: 11 Copynumber: 7.1 Consensus size: 11
275254 GCATCGATTT
275264 ACCCAAAAGGA
1 ACCCAAAAGGA
*
275275 ACCCAAACGG-
1 ACCCAAAAGGA
275285 ACCCAAAAGGA
1 ACCCAAAAGGA
*
275296 ACACAAAAGG-
1 ACCCAAAAGGA
275306 ACCCAAAAGGA
1 ACCCAAAAGGA
* *
275317 ACACAAAAGGT
1 ACCCAAAAGGA
275328 A-CCAAAAGGA
1 ACCCAAAAGGA
275338 A
1 A
275339 ATTTTAATGT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
10 26 0.48
11 28 0.52
ACGTcount: A:0.55, C:0.25, G:0.19, T:0.01
Consensus pattern (11 bp):
ACCCAAAAGGA
Found at i:276498 original size:15 final size:15
Alignment explanation
Indices: 276467--276545 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
276457 TGAAATTTAT
*
276467 TCACAATCGGT-TAG
1 TCACATTCGGTATAG
*
276481 TCACATTTGGTATAG
1 TCACATTCGGTATAG
276496 TCACATTCGGTAGATAG
1 TCACATTCGGT--ATAG
** **
276513 AAACATTCGGTACGG
1 TCACATTCGGTATAG
*
276528 TCACATTTGGTATAG
1 TCACATTCGGTATAG
276543 TCA
1 TCA
276546 TAGTCGGGAA
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
14 9 0.18
15 28 0.56
17 13 0.26
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.32
Consensus pattern (15 bp):
TCACATTCGGTATAG
Found at i:278424 original size:20 final size:20
Alignment explanation
Indices: 278394--278452 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
278384 TGGGTCTCAC
*
278394 TAAAA-AGCGCCCGGGATAA
1 TAAAATAGCGCCCGGGAGAA
*
278413 TAAAATAGCGCCCGAGGAGCA
1 TAAAATAGCGCCCG-GGAGAA
278434 -AAAATAGGCGCCCGGGAGA
1 TAAAATA-GCGCCCGGGAGA
278453 TTATTTATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 5 0.15
20 18 0.53
21 11 0.32
ACGTcount: A:0.39, C:0.22, G:0.31, T:0.08
Consensus pattern (20 bp):
TAAAATAGCGCCCGGGAGAA
Found at i:279168 original size:73 final size:67
Alignment explanation
Indices: 279087--279225 Score: 179
Period size: 67 Copynumber: 2.0 Consensus size: 67
279077 AAACTTCATT
* * * *
279087 GAATTTGTAGCAAGTTGCGTTATTTTAATATGAATACATTTATTTACAAACATTTCATTATATAC
1 GAATTTGTAACAAGTTGCGTTA-TTTAA-AT--ATA-A-ATATCTACAAACATTTCACTATATAC
279152 AATAAATG
60 AATAAATG
*
279160 GAATTTGTAATAAGTTGCGTTATTTAAATATAAATATCTACAAACATTTCACTATATACAATAAA
1 GAATTTGTAACAAGTTGCGTTATTTAAATATAAATATCTACAAACATTTCACTATATACAATAAA
279225 T
66 T
279226 TGTTTACATA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
67 30 0.49
68 1 0.02
69 3 0.05
71 2 0.03
72 5 0.08
73 20 0.33
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (67 bp):
GAATTTGTAACAAGTTGCGTTATTTAAATATAAATATCTACAAACATTTCACTATATACAATAAA
TG
Found at i:293396 original size:21 final size:21
Alignment explanation
Indices: 293367--293473 Score: 124
Period size: 21 Copynumber: 5.1 Consensus size: 21
293357 GCTACACGCT
* *
293367 CGCTAAACGGTTCACACGAAA
1 CGCTGAACGGTTTACACGAAA
293388 CGCTGAACGGTTTACACGAAA
1 CGCTGAACGGTTTACACGAAA
* * * * *
293409 CACTGCACGCTTTGCCCGAAA
1 CGCTGAACGGTTTACACGAAA
* *
293430 CGCTAAACGATTTACACGAAA
1 CGCTGAACGGTTTACACGAAA
*
293451 CGCTGAACGGTTTACAAGAAA
1 CGCTGAACGGTTTACACGAAA
293472 CG
1 CG
293474 ATTCTCGCAC
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 70 1.00
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.18
Consensus pattern (21 bp):
CGCTGAACGGTTTACACGAAA
Found at i:293630 original size:21 final size:21
Alignment explanation
Indices: 293604--293652 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
293594 ACGATTCACT
*
293604 CGAAACGCTAAATGGTTTACA
1 CGAAACGCTAAACGGTTTACA
293625 CGAAACGCTAAACGGTTTACA
1 CGAAACGCTAAACGGTTTACA
293646 CGAAACG
1 CGAAACG
293653 TTTCTCGCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.18
Consensus pattern (21 bp):
CGAAACGCTAAACGGTTTACA
Found at i:296841 original size:16 final size:16
Alignment explanation
Indices: 296820--296854 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
296810 AACTGAAGTG
296820 GGACAGACAGACGGAC
1 GGACAGACAGACGGAC
*
296836 GGACAGACAGATGGAC
1 GGACAGACAGACGGAC
296852 GGA
1 GGA
296855 TGGACTGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.37, C:0.20, G:0.40, T:0.03
Consensus pattern (16 bp):
GGACAGACAGACGGAC
Found at i:296846 original size:20 final size:20
Alignment explanation
Indices: 296821--296866 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
296811 ACTGAAGTGG
296821 GACAGACAGACGGACGGACA
1 GACAGACAGACGGACGGACA
** * *
296841 GACAGATGGACGGATGGACT
1 GACAGACAGACGGACGGACA
296861 GACAGA
1 GACAGA
296867 TGCAGAGGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.20, G:0.37, T:0.07
Consensus pattern (20 bp):
GACAGACAGACGGACGGACA
Found at i:296867 original size:20 final size:20
Alignment explanation
Indices: 296829--296868 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
296819 GGGACAGACA
296829 GACGGACGGACAGACAGATG
1 GACGGACGGACAGACAGATG
* *
296849 GACGGATGGACTGACAGATG
1 GACGGACGGACAGACAGATG
296869 CAGAGGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.40, T:0.10
Consensus pattern (20 bp):
GACGGACGGACAGACAGATG
Found at i:298551 original size:131 final size:130
Alignment explanation
Indices: 298395--298657 Score: 517
Period size: 131 Copynumber: 2.0 Consensus size: 130
298385 GGTAAGTACA
298395 TGTAATAATTTGATACATGTATGTGAATTTGTTATTTTAAAATTTCTCTCATGAGAAATCATAAA
1 TGTAATAATTTGATACATGTATGTGAATTTGTTATTTTAAAATTTCTCTCATGAGAAATCATAAA
298460 TATATATGAACAGAATCTATAGCAAATTTCCAATGAAAATTTACAGGTATTTGTTTTATCATTTC
66 TATATATGAACAGAATCTATAGCAAATTTCCAATGAAAATTTACAGGTATTTGTTTTATCATTTC
298525 TGNTAATAATTTGATACATGTATGTGAATTTGTTATTTTAAAATTTCTCTCATGAGAAATCATAA
1 TG-TAATAATTTGATACATGTATGTGAATTTGTTATTTTAAAATTTCTCTCATGAGAAATCATAA
298590 ATATATATGAACAGAATCTATAGCAAATTTCCAATGAAAATTTACAGGTATTTGTTTTATCATTT
65 ATATATATGAACAGAATCTATAGCAAATTTCCAATGAAAATTTACAGGTATTTGTTTTATCATTT
298655 C
130 C
298656 TG
1 TG
298658 AGTTTATTCA
Statistics
Matches: 132, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
130 2 0.02
131 130 0.98
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (130 bp):
TGTAATAATTTGATACATGTATGTGAATTTGTTATTTTAAAATTTCTCTCATGAGAAATCATAAA
TATATATGAACAGAATCTATAGCAAATTTCCAATGAAAATTTACAGGTATTTGTTTTATCATTTC
Found at i:305306 original size:11 final size:11
Alignment explanation
Indices: 305290--305318 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
305280 ATTTTAGTTT
305290 AGTATTTACCA
1 AGTATTTACCA
305301 AGTATTTACCA
1 AGTATTTACCA
305312 AGT-TTTA
1 AGTATTTA
305319 TTCCTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.41
Consensus pattern (11 bp):
AGTATTTACCA
Found at i:306117 original size:163 final size:164
Alignment explanation
Indices: 305682--306143 Score: 777
Period size: 164 Copynumber: 2.8 Consensus size: 164
305672 GTGAGGTTGG
* *
305682 CCAGTTCTTGGAGCCACCTTTAGTGGGACACATGAAAGACATCTTCAGCTCCAATTTGTGTGATC
1 CCAGTTCTTAGAGCCACCTTTAGTGGGACACATGAAAGACATCTTCAGCTCAAATTTGTGTGATC
* *
305747 CCCATTCAAGGGAACTGTTCTTTACCAAGTTTTATTCCTTGAGGGTATCCGTAAGTGTTCAGACA
66 CCCATTCAAGGGAACTGTTCTTTACCAAGTTTTATTCCTTGAGGGTATCCATATGTGTTCAGACA
*
305812 GTGTGTCACATTTTCAACAGGCACAGAGCAAGGC
131 GTGTGTCACATGTTCAACAGGCACAGAGCAAGGC
* *
305846 CCAGTTAC-TAGAGCCACCTTTAGTGGGACACATGAAAGACATCTTAAGCGCAAATTTGTGTGAT
1 CCAGTT-CTTAGAGCCACCTTTAGTGGGACACATGAAAGACATCTTCAGCTCAAATTTGTGTGAT
*
305910 CCCCATTCAAGGGAACTGTTCTTTACCAAGTTTTATTTCTTGAGGGTATCCATATGTGTTCAGAC
65 CCCCATTCAAGGGAACTGTTCTTTACCAAGTTTTATTCCTTGAGGGTATCCATATGTGTTCAGAC
305975 AGTGTGTCACATGTTCAACAGGCACAGAGCAA-GC
130 AGTGTGTCACATGTTCAACAGGCACAGAGCAAGGC
*
306009 CCAGTTCTTAGAGCCACCTTTAGTGGGACACATGAAAGACATCTTCAGCTCGAATTTGTGTGA-C
1 CCAGTTCTTAGAGCCACCTTTAGTGGGACACATGAAAGACATCTTCAGCTCAAATTTGTGTGATC
* * *
306073 CCTCATGCAAGGGAACTGTTCTTTACCAAGTTTTATTCCTTGAGGCTATCCATATGTGTTCAGAG
66 CC-CATTCAAGGGAACTGTTCTTTACCAAGTTTTATTCCTTGAGGGTATCCATATGTGTTCAGAC
306138 AGTGTG
130 AGTGTG
306144 CACTGGCGGA
Statistics
Matches: 280, Mismatches: 15, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
162 4 0.01
163 124 0.44
164 151 0.54
165 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (164 bp):
CCAGTTCTTAGAGCCACCTTTAGTGGGACACATGAAAGACATCTTCAGCTCAAATTTGTGTGATC
CCCATTCAAGGGAACTGTTCTTTACCAAGTTTTATTCCTTGAGGGTATCCATATGTGTTCAGACA
GTGTGTCACATGTTCAACAGGCACAGAGCAAGGC
Found at i:320360 original size:31 final size:31
Alignment explanation
Indices: 320325--320391 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
320315 CTTTAGATTA
* *
320325 AATAAGATACCTATGATAAATGCTCCCTGAT
1 AATAAGATAACTATAATAAATGCTCCCTGAT
*
320356 AATAAGATAACTATAATGAATGCTCCCTGAT
1 AATAAGATAACTATAATAAATGCTCCCTGAT
*
320387 TATAA
1 AATAA
320392 ACCAATGCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (31 bp):
AATAAGATAACTATAATAAATGCTCCCTGAT
Found at i:323774 original size:2 final size:2
Alignment explanation
Indices: 323767--323795 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
323757 CATCTAAAAG
323767 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
323796 NNNNNNNNNN
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:349764 original size:13 final size:13
Alignment explanation
Indices: 349746--349770 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
349736 TAAACTGATG
349746 TATTTTCTATATC
1 TATTTTCTATATC
349759 TATTTTCTATAT
1 TATTTTCTATAT
349771 GGGGCATTCC
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:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTCTATATC
Found at i:351030 original size:2 final size:2
Alignment explanation
Indices: 351023--351081 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
351013 NNNNNNNNNN
351023 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
351065 TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG T
351082 TAGAAATAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:373473 original size:13 final size:13
Alignment explanation
Indices: 373455--373479 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
373445 GGAATTGGAG
373455 GGGGGGGGGGGGT
1 GGGGGGGGGGGGT
373468 GGGGGGGGGGGG
1 GGGGGGGGGGGG
373480 GGGTTGGAGG
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:0.00, C:0.00, G:0.96, T:0.04
Consensus pattern (13 bp):
GGGGGGGGGGGGT
Found at i:373473 original size:14 final size:14
Alignment explanation
Indices: 373454--373480 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
373444 TGGAATTGGA
373454 GGGGGGGGGGGGGT
1 GGGGGGGGGGGGGT
373468 GGGGGGGGGGGGG
1 GGGGGGGGGGGGG
373481 GGTTGGAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.96, T:0.04
Consensus pattern (14 bp):
GGGGGGGGGGGGGT
Found at i:374040 original size:17 final size:17
Alignment explanation
Indices: 374018--374054 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
374008 GTGGTTCTGA
374018 GAATTCGTTATAACTGG
1 GAATTCGTTATAACTGG
374035 GAATTCGTTATAACTGG
1 GAATTCGTTATAACTGG
374052 GAA
1 GAA
374055 CTCCTCGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.32
Consensus pattern (17 bp):
GAATTCGTTATAACTGG
Found at i:374641 original size:2 final size:2
Alignment explanation
Indices: 374636--374719 Score: 168
Period size: 2 Copynumber: 42.0 Consensus size: 2
374626 GAGATTAACA
374636 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
374678 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
374720 GGGAGAGACA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:383993 original size:20 final size:20
Alignment explanation
Indices: 383970--384009 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
383960 TGTCTGGCGC
*
383970 AAGTCACACTTCTCTGCCAT
1 AAGTCACAATTCTCTGCCAT
*
383990 AAGTCACAATTCTTTGCCAT
1 AAGTCACAATTCTCTGCCAT
384010 TATCTCTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (20 bp):
AAGTCACAATTCTCTGCCAT
Found at i:384277 original size:2 final size:2
Alignment explanation
Indices: 384270--384324 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
384260 TCCTTAGGAA
384270 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
384312 AC AC AC AC AC AC A
1 AC AC AC AC AC AC A
384325 AAAACATCAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:393308 original size:1 final size:1
Alignment explanation
Indices: 393297--393326 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
393287 TCAAAATACA
*
393297 CCCCACCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
393327 GAGTGTGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.03, C:0.97, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:394603 original size:1 final size:1
Alignment explanation
Indices: 394597--394627 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
394587 GAACCATCAA
394597 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
394628 TCTCGGCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:396226 original size:8 final size:8
Alignment explanation
Indices: 396213--396261 Score: 80
Period size: 8 Copynumber: 6.1 Consensus size: 8
396203 TGCTTTGTTC
396213 GTATGTGT
1 GTATGTGT
*
396221 GTATGTAT
1 GTATGTGT
396229 GTATGTGT
1 GTATGTGT
*
396237 GTATGTAT
1 GTATGTGT
396245 GTATGTGT
1 GTATGTGT
396253 GTATGTGT
1 GTATGTGT
396261 G
1 G
396262 CACTCCATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.49
Consensus pattern (8 bp):
GTATGTGT
Found at i:396229 original size:4 final size:4
Alignment explanation
Indices: 396213--396258 Score: 65
Period size: 4 Copynumber: 11.5 Consensus size: 4
396203 TGCTTTGTTC
* * *
396213 GTAT GTGT GTAT GTAT GTAT GTGT GTAT GTAT GTAT GTGT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
396259 GTGCACTCCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:396234 original size:16 final size:16
Alignment explanation
Indices: 396213--396258 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
396203 TGCTTTGTTC
396213 GTATGTGTGTATGTAT
1 GTATGTGTGTATGTAT
396229 GTATGTGTGTATGTAT
1 GTATGTGTGTATGTAT
396245 GTATGTGTGTATGT
1 GTATGTGTGTATGT
396259 GTGCACTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (16 bp):
GTATGTGTGTATGTAT
Found at i:407238 original size:14 final size:14
Alignment explanation
Indices: 407219--407245 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
407209 GGGACATTTA
407219 TTTCTCTCTCTCTC
1 TTTCTCTCTCTCTC
407233 TTTCTCTCTCTCT
1 TTTCTCTCTCTCT
407246 AACAAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTCTCTCTCTCTC
Found at i:408710 original size:15 final size:17
Alignment explanation
Indices: 408690--408721 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
408680 ACATATATAC
408690 TGTTTG-TA-AAAAAAA
1 TGTTTGTTACAAAAAAA
408705 TGTTTGTTACAAAAAAA
1 TGTTTGTTACAAAAAAA
408722 GATAAATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.34
Consensus pattern (17 bp):
TGTTTGTTACAAAAAAA
Found at i:409767 original size:15 final size:17
Alignment explanation
Indices: 409747--409778 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
409737 ACATATATAC
409747 TGTTTG-TA-AAAAAAA
1 TGTTTGTTACAAAAAAA
409762 TGTTTGTTACAAAAAAA
1 TGTTTGTTACAAAAAAA
409779 GATAAATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.34
Consensus pattern (17 bp):
TGTTTGTTACAAAAAAA
Found at i:412648 original size:45 final size:45
Alignment explanation
Indices: 412584--412674 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
412574 AAGTGAAAGC
412584 GCGGAAGCCTTGAAAATTAACGACGATTCCGAGGCTATTTTTTGA
1 GCGGAAGCCTTGAAAATTAACGACGATTCCGAGGCTATTTTTTGA
412629 GCGGAAGCCTTGAAAATTAACGACGATTCCGAGGCTATTTTTTGA
1 GCGGAAGCCTTGAAAATTAACGACGATTCCGAGGCTATTTTTTGA
412674 G
1 G
412675 ACGTACCGTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (45 bp):
GCGGAAGCCTTGAAAATTAACGACGATTCCGAGGCTATTTTTTGA
Found at i:418579 original size:26 final size:26
Alignment explanation
Indices: 418543--418594 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
418533 GTAGTAAAGT
418543 TATGAACAGCAAAATGTGCAAATATA
1 TATGAACAGCAAAATGTGCAAATATA
418569 TATGAACAGCAAAATGTGCAAATATA
1 TATGAACAGCAAAATGTGCAAATATA
418595 AGCAGGGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.23
Consensus pattern (26 bp):
TATGAACAGCAAAATGTGCAAATATA
Found at i:424365 original size:4 final size:4
Alignment explanation
Indices: 424356--424403 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
424346 TACATTTCAT
* *
424356 TATC TATC TATC TATC TATC AATC -AT- TATC TATT TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
424402 TA
1 TA
424404 GATAGATAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
3 4 0.10
4 35 0.90
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (4 bp):
TATC
Found at i:424388 original size:26 final size:26
Alignment explanation
Indices: 424352--424401 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
424342 CGAATACATT
424352 TCATTATCTATCTATCTATCTATCAA
1 TCATTATCTATCTATCTATCTATCAA
*
424378 TCATTATCTATTTATCTATCTATC
1 TCATTATCTATCTATCTATCTATC
424402 TAGATAGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.22, G:0.00, T:0.50
Consensus pattern (26 bp):
TCATTATCTATCTATCTATCTATCAA
Found at i:424593 original size:52 final size:52
Alignment explanation
Indices: 424537--424636 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
424527 ACAACAACTG
*
424537 CAACAACTAACAACATGGCTCCTAAAAACTGTAAACAAGGAACTTCAAACAA
1 CAACAACTAACAACATGCCTCCTAAAAACTGTAAACAAGGAACTTCAAACAA
* * * *
424589 CAACAACTAACGACATGCCTTCTGAAAACTGTCAACAAGGAACTTCAA
1 CAACAACTAACAACATGCCTCCTAAAAACTGTAAACAAGGAACTTCAA
424637 CTTCTCAATG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.46, C:0.26, G:0.11, T:0.17
Consensus pattern (52 bp):
CAACAACTAACAACATGCCTCCTAAAAACTGTAAACAAGGAACTTCAAACAA
Found at i:429056 original size:20 final size:20
Alignment explanation
Indices: 429027--429072 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
429017 TTCCCATTAT
429027 TTCCCAGGAAATACCAGTAA
1 TTCCCAGGAAATACCAGTAA
* * *
429047 TTCCCGGGAATTACCAGTAT
1 TTCCCAGGAAATACCAGTAA
429067 TTCCCA
1 TTCCCA
429073 CCGTCCAGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (20 bp):
TTCCCAGGAAATACCAGTAA
Found at i:432484 original size:17 final size:17
Alignment explanation
Indices: 432464--432496 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
432454 AACTCTCAGT
432464 TTAGCCGATAACTGGTC
1 TTAGCCGATAACTGGTC
432481 TTAGCCGATAACTGGT
1 TTAGCCGATAACTGGT
432497 ACAGTACCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (17 bp):
TTAGCCGATAACTGGTC
Found at i:442883 original size:178 final size:178
Alignment explanation
Indices: 442584--442939 Score: 642
Period size: 178 Copynumber: 2.0 Consensus size: 178
442574 GATGTCCTAC
* *
442584 TATATCCATGAAAAAGTTTTACTCTACCACCCTAAACAAAAGAGATCTAAACACTCAAAAATTAA
1 TATATCCATGAAAAAGTTTTACTCTACCACCCAAAACAAAAGAGATCTAAAAACTCAAAAATTAA
442649 TAGATTTCCAAATACCTTGACATTTGGCCAAGACGGACGCTTCTATCCAAAGAAGTCCGAAGTCT
66 TAGATTTCCAAATACCTTGACATTTGGCCAAGACGGACGCTTCTATCCAAAGAAGTCCGAAGTCT
*
442714 CTATGATAAATAATAAAAAAATT-GAAGTAATTTTATGGAAATTTGAAT
131 CTATGATAAATAAT-AAAAAATTGGAAGTAATTTTATGAAAATTTGAAT
*
442762 TATATCCATGAAAAAGTTTTACTCTACCACCCAAAACAAAAGAGATCTAAAAACTCATAAATTAA
1 TATATCCATGAAAAAGTTTTACTCTACCACCCAAAACAAAAGAGATCTAAAAACTCAAAAATTAA
*
442827 TAGATTTCCAAATACCTTGACATTTGGCCAAGATGGACGCTTCTATCCAAAGAAGTCCGAAGTCT
66 TAGATTTCCAAATACCTTGACATTTGGCCAAGACGGACGCTTCTATCCAAAGAAGTCCGAAGTCT
*
442892 CTATGATAAATAATAAAAAATTGGAAGTAATTTTATTAAAATTTGAAT
131 CTATGATAAATAATAAAAAATTGGAAGTAATTTTATGAAAATTTGAAT
442940 ATTTCAGGGG
Statistics
Matches: 171, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
177 8 0.05
178 163 0.95
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (178 bp):
TATATCCATGAAAAAGTTTTACTCTACCACCCAAAACAAAAGAGATCTAAAAACTCAAAAATTAA
TAGATTTCCAAATACCTTGACATTTGGCCAAGACGGACGCTTCTATCCAAAGAAGTCCGAAGTCT
CTATGATAAATAATAAAAAATTGGAAGTAATTTTATGAAAATTTGAAT
Found at i:448548 original size:178 final size:179
Alignment explanation
Indices: 448249--448648 Score: 712
Period size: 178 Copynumber: 2.2 Consensus size: 179
448239 NNNNNNNNNN
*
448249 AGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCATTGTACGGATAA
1 AGCTTTTGAACTTAGTCATTTTTTGGCAAAATGTTGCATATAGGGTACCCTCATTGTACGGATAA
*
448314 CTCCTCCTACATTTCTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTGTACATATATCAGAGG
66 CTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTGTACATATATCAGAGG
**
448379 TGT-ATATTGCTAGGATTTTGATTTCCAATAATTTATGGAAAAAATACC
131 TGTCATATTGCTAGGATTTTGATTTCCAATAATTTATAAAAAAAATACC
448427 AGCTTTTGAACTTAGTCATTTTTTGGCAAAATGTTGCATATAGGGTACCCTCATTGTACGGATAA
1 AGCTTTTGAACTTAGTCATTTTTTGGCAAAATGTTGCATATAGGGTACCCTCATTGTACGGATAA
* *
448492 CTTCTCCTACAGTTCTCAAGATAGGAAGTTGTTTTTTTGCAGATCAATTGTACATATATCAGAGG
66 CTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTGTACATATATCAGAGG
* *
448557 TGTGCATATTGCTAGGATTTTGATTTCCGATAATTTATAAAAAAAATACT
131 TGT-CATATTGCTAGGATTTTGATTTCCAATAATTTATAAAAAAAATACC
448607 AGCTTTTGAACTTAGTCATTTTTTGGCAAAATGTTGCATATA
1 AGCTTTTGAACTTAGTCATTTTTTGGCAAAATGTTGCATATA
448649 CATGTAGGGT
Statistics
Matches: 212, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
178 129 0.61
180 83 0.39
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (179 bp):
AGCTTTTGAACTTAGTCATTTTTTGGCAAAATGTTGCATATAGGGTACCCTCATTGTACGGATAA
CTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTGTACATATATCAGAGG
TGTCATATTGCTAGGATTTTGATTTCCAATAATTTATAAAAAAAATACC
Found at i:450862 original size:22 final size:22
Alignment explanation
Indices: 450835--450903 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
450825 ACCGATCAGA
450835 CCCAACCTAACAGAAAATAAAC
1 CCCAACCTAACAGAAAATAAAC
* *
450857 CTCAACCTAACAGAAAGTAAAC
1 CCCAACCTAACAGAAAATAAAC
* * *
450879 CCCAAACTAACAGAAAGTAACC
1 CCCAACCTAACAGAAAATAAAC
450901 CCC
1 CCC
450904 CAAAAAACCT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.49, C:0.33, G:0.07, T:0.10
Consensus pattern (22 bp):
CCCAACCTAACAGAAAATAAAC
Found at i:463348 original size:4 final size:4
Alignment explanation
Indices: 463339--463371 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
463329 ACCCACACAT
463339 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
463372 CAAATACGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:463378 original size:12 final size:12
Alignment explanation
Indices: 463333--463387 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
463323 GAGTGCACCC
*
463333 ACACATATACAT
1 ACACACATACAT
*
463345 ACATACATACAT
1 ACACACATACAT
*
463357 ACATACATACAT
1 ACACACATACAT
*
463369 ACACAAATACGA-
1 ACACACATAC-AT
463381 ACACACA
1 ACACACA
463388 CACGCACGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 36 0.97
13 1 0.03
ACGTcount: A:0.53, C:0.27, G:0.02, T:0.18
Consensus pattern (12 bp):
ACACACATACAT
Found at i:468596 original size:44 final size:45
Alignment explanation
Indices: 468505--468596 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
468495 CTTCTTTATA
*
468505 ACTGTTCATTACACAGACACTAGGTTTGGTTTTATATTATCATTT
1 ACTGTTCATTACAAAGACACTAGGTTTGGTTTTATATTATCATTT
468550 ACTGTTCATTACAAAGACAC-ATGGTTT-GTTTTATATTATCATTT
1 ACTGTTCATTACAAAGACACTA-GGTTTGGTTTTATATTATCATTT
468594 ACT
1 ACT
468597 CCTGTAGTGT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
44 21 0.47
45 24 0.53
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (45 bp):
ACTGTTCATTACAAAGACACTAGGTTTGGTTTTATATTATCATTT
Found at i:469152 original size:18 final size:18
Alignment explanation
Indices: 469129--469165 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
469119 TACATCAACA
469129 ACCTTAAGTCCATACTGT
1 ACCTTAAGTCCATACTGT
469147 ACCTTAAGTCCATACTGT
1 ACCTTAAGTCCATACTGT
469165 A
1 A
469166 TGACTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (18 bp):
ACCTTAAGTCCATACTGT
Found at i:470401 original size:176 final size:175
Alignment explanation
Indices: 470047--470507 Score: 750
Period size: 176 Copynumber: 2.6 Consensus size: 175
470037 CAGTATACTT
*
470047 GTATCGACCAATGCTGATTTTCGAACTTGACCAAGGTATTAGTGGTATAAACATTTGGTATAATT
1 GTATCGACCAATGCTGATTTTCGAACTTGACCAAGGTATTAGTGGTATAAACATTTGGTATAAAT
* *
470112 TTATTGAAAATCCGTCAAAATTTGTAGGCATGAGAGCGC---TTACGAGGTCAATTTTTGGATAA
66 TTAATGAAAATCCGTCAAAATTTGTAGGCATGAGAGCGCTTATTACAAGGTCAATTTTTGGATAA
*
470174 AACGGAGTCATTGTTGTGGTCAAAGTCCCATAACTCCAACAAAAA
131 AACAGAGTCATTGTTGTGGTCAAAGTCCCATAACTCCAACAAAAA
470219 GTATCGACCAATGCTGATTTTCGAAACTTGACCGAA-GTATTAGTGGTATAAACATTTGGTATAA
1 GTATCGACCAATGCTGATTTTCG-AACTTGACC-AAGGTATTAGTGGTATAAACATTTGGTATAA
* * *
470283 ATTTAATGAAAATCCGTCAAAATGTGTAGGCATGAGAGTGCTTATTACAAGGTCAATTTTTTGAT
64 ATTTAATGAAAATCCGTCAAAATTTGTAGGCATGAGAGCGCTTATTACAAGGTCAATTTTTGGAT
470348 AAAACAGAGTCATTGTTGTGGTCAAAGTCCCATAACTCCAACAAAAA
129 AAAACAGAGTCATTGTTGTGGTCAAAGTCCCATAACTCCAACAAAAA
*
470395 GTATCGACCAATGCTGATTTTCGAACTTGACCAAGGTAATAGTGGTACTTGTATAAACATTTGGT
1 GTATCGACCAATGCTGATTTTCGAACTTGACCAAGGTATTAGT-G-----GTATAAACATTTGGT
470460 ATAAATTTAATGAAAATCCGTCAAAATTTGTAGGCATGAGAGCGCTTA
60 ATAAATTTAATGAAAATCCGTCAAAATTTGTAGGCATGAGAGCGCTTA
470508 CAAAAAAGTG
Statistics
Matches: 267, Mismatches: 10, Indels: 15
0.91 0.03 0.05
Matches are distributed among these distances:
172 23 0.09
173 74 0.28
174 4 0.01
175 16 0.06
176 89 0.33
181 61 0.23
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (175 bp):
GTATCGACCAATGCTGATTTTCGAACTTGACCAAGGTATTAGTGGTATAAACATTTGGTATAAAT
TTAATGAAAATCCGTCAAAATTTGTAGGCATGAGAGCGCTTATTACAAGGTCAATTTTTGGATAA
AACAGAGTCATTGTTGTGGTCAAAGTCCCATAACTCCAACAAAAA
Found at i:476403 original size:4 final size:4
Alignment explanation
Indices: 476394--476441 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
476384 TTTACCCTTG
* * * *
476394 TGTC TGTC TGTC TGTC CGTC CGTC CGTC TGTC TGTC CGTC TGTC TGTC
1 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC
476442 CGTCCGTAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.00, C:0.33, G:0.25, T:0.42
Consensus pattern (4 bp):
TGTC
Found at i:476424 original size:16 final size:16
Alignment explanation
Indices: 476403--476448 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
476393 GTGTCTGTCT
476403 GTCTGTCCGTCCGTCC
1 GTCTGTCCGTCCGTCC
* *
476419 GTCTGTCTGTCCGTCT
1 GTCTGTCCGTCCGTCC
476435 GTCTGTCCGTCCGT
1 GTCTGTCCGTCCGT
476449 AACAAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.00, C:0.37, G:0.26, T:0.37
Consensus pattern (16 bp):
GTCTGTCCGTCCGTCC
Found at i:476432 original size:12 final size:12
Alignment explanation
Indices: 476395--476445 Score: 75
Period size: 12 Copynumber: 4.2 Consensus size: 12
476385 TTACCCTTGT
*
476395 GTCTGTCTGTCT
1 GTCTGTCTGTCC
* *
476407 GTCCGTCCGTCC
1 GTCTGTCTGTCC
476419 GTCTGTCTGTCC
1 GTCTGTCTGTCC
476431 GTCTGTCTGTCC
1 GTCTGTCTGTCC
476443 GTC
1 GTC
476446 CGTAACAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.00, C:0.35, G:0.25, T:0.39
Consensus pattern (12 bp):
GTCTGTCTGTCC
Found at i:477030 original size:166 final size:166
Alignment explanation
Indices: 476472--477765 Score: 1925
Period size: 166 Copynumber: 7.8 Consensus size: 166
476462 GTCGCATTTA
* *
476472 TCTCAGCAACTATTTATCGCAGATGCTTGACATTTTAACACAGTGTTTGCTAAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGCTAAGGCATGCCATAT
*
476537 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGTTTA-TTT
* *
476602 TTAACCAAAATTTTCAAACAAATTTTCGTCAAAGTTT
130 TTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
* *
476639 TCTCAGCAACTATTTATCGCAGATGCTTGACATTTTAACACAGTGTTTG-TGAAGGCATGCCATA
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGCT-AAGGCATGCCATA
*
476703 TCGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGCTTTTTT
65 TCGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTG-TTTATT
* *
476768 TTTAACCAAAATTTTCAAACAAATTTTCGTCAAAGTTT
129 TTTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
* *
476806 TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTG-TATAGGCATGCCATA
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGCTA-AGGCATGCCATA
* *
476870 TTGTGGGATATATTTTTGTACCAATCAGACGTCAACTTCCTGTTAAATGACGACTTTGTTTATTT
65 TCGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGTTTATTT
* * *
476935 TTAGCAAAAATTTTCAAACAAATTTCCGTCAAAGAAT
130 TTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
* *
476972 TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGCTAAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGCTAAGGCATGCCATAT
* *
477037 CGTGGGATATATTTTTGTACCAATCAGACGTCAACTTTCTGTTAAATGA-GTACTTTGTTTATTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACG-ACTTTGTTTATTT
* * *
477101 TTTGCCAAAATTTTCAAACAAATTTCCGTCAAAGAAT
130 TTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
* * *
477138 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTAAACACACTATTTGCTTAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGCTAAGGCATGCCATAT
* * *
477203 CGTGGGATTTATTTTTGTATCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGTTTA-TTT
477268 TTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
130 TTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
* * * * **
477305 TCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTAAACACACTATTTGTTTTGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGCTAAGGCATGCCATAT
* *
477370 TGTGGGATATATTTTTGTATCAATCGGACGTCAACTTCCTGTTAAATGA-GTACTTTGTTTATTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACG-ACTTTGTTTATTT
*
477434 TTTGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
130 TTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
* * * * *
477471 TCTCAGCAGCTATTTATCGGAGATGCTTGAAATTTTTACACAGTGTTTGTTAAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGCTAAGGCATGCCATAT
477536 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGA-GTACTTTGTTTA-TT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACG-ACTTTGTTTATTT
* *
477599 TTAGCCAAAATGTTCAAACAAATTTTCCTCAAAGATT
130 TTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
* * * * * *
477636 TCTCAGCAGCTATTTATTGCAGATGCTTGAAATTTTAATACACTATTTGTTTAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGCTAAGGCATGCCATAT
* * * * * * * * *
477701 TGTGGGATATATTTCTGTACCAATCGGATGCCAGCTTTCTGTTAATTGCCGACTTTGCTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGTTTATTTT
477766 GCATATTCAC
Statistics
Matches: 1049, Mismatches: 68, Indels: 21
0.92 0.06 0.02
Matches are distributed among these distances:
165 145 0.14
166 470 0.45
167 432 0.41
168 2 0.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (166 bp):
TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGCTAAGGCATGCCATAT
CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGTTTATTTT
TAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
Found at i:477402 original size:499 final size:498
Alignment explanation
Indices: 476472--477765 Score: 2056
Period size: 499 Copynumber: 2.6 Consensus size: 498
476462 GTCGCATTTA
*
476472 TCTCAGCAACTATTTATCGCAGATGCTTGACATTTTAACACAGTGTTTGCTAAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGCTAAGGCATGCCATAT
*
476537 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACG-ACTTTGCTTATTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGA-GTACTTTGTTTATTT
* * *
476601 TTTAACCAAAATTTTCAAACAAATTTTCGTCAAAGTTTTCTCAGCAACTATTTATCGCAGATGCT
130 TTT-GCCAAAATTTTCAAACAAATTTCCGTCAAAGATTTCTCAGCAACTATTTATCGCAGATGCT
* * * *
476666 TGACATTTTAACACAGTGTTTGTGAAGGCATGCCATATCGTGGGATATATTTTTGTACCAATCGG
194 TGAAATTTTAACACACTATTTGT-TAGGCATGCCATATCGTGGGATATATTTTTGTACCAATCGG
*
476731 ACGTCAACTTCCTGTTAAATGACGACTTTGCTTTTTTTTTAACCAAAATTTTCAAACAAATTTTC
258 ACGTCAACTTCCTGTTAAATGACGACTTTGCTTATTTTTTAACCAAAATTTTCAAACAAATTTTC
* * ** *
476796 GTCAAAGTTTTCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGG
323 GTCAAAGATTTCTCAGCAACTATTTATCGCAGATGCTTGAAATTTAAACACACTATTTGTATAGG
476861 CATGCCATATTGTGGGATATATTTTTGTACCAATCAGACGTCAACTTCCTGTTAAATGACG-ACT
388 CATGCCATATTGTGGGATATATTTTTGTACCAATCAGACGTCAACTTCCTGTTAAATGA-GTACT
476925 TTGTTTATTTTTAGCAAAAATTTTCAAACAAATTTCCGTCAAAGAAT
452 TTGTTTATTTTTAGCAAAAATTTTCAAACAAATTTCCGTCAAAGAAT
*
476972 TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGCTAAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGCTAAGGCATGCCATAT
* *
477037 CGTGGGATATATTTTTGTACCAATCAGACGTCAACTTTCTGTTAAATGAGTACTTTGTTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAGTACTTTGTTTATTTT
*
477102 TTGCCAAAATTTTCAAACAAATTTCCGTCAAAGAATTCTCAGCAACTATTTATCGCAGATGCTTG
131 TTGCCAAAATTTTCAAACAAATTTCCGTCAAAGATTTCTCAGCAACTATTTATCGCAGATGCTTG
* * *
477167 AAATTTAAACACACTATTTGCTTAGGCATGCCATATCGTGGGATTTATTTTTGTATCAATCGGAC
196 AAATTTTAACACACTATTTG-TTAGGCATGCCATATCGTGGGATATATTTTTGTACCAATCGGAC
*
477232 GTCAACTTCCTGTTAAATGACGACTTTGCTTATTTTTTAGCCAAAATTTTCAAACAAATTTTCGT
260 GTCAACTTCCTGTTAAATGACGACTTTGCTTATTTTTTAACCAAAATTTTCAAACAAATTTTCGT
* * *
477297 CAAAGATTTCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTAAACACACTATTTGTTTTGGCA
325 CAAAGATTTCTCAGCAACTATTTATCGCAGATGCTTGAAATTTAAACACACTATTTGTATAGGCA
* *
477362 TGCCATATTGTGGGATATATTTTTGTATCAATCGGACGTCAACTTCCTGTTAAATGAGTACTTTG
390 TGCCATATTGTGGGATATATTTTTGTACCAATCAGACGTCAACTTCCTGTTAAATGAGTACTTTG
* * * *
477427 TTTATTTTTTGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
455 TTTATTTTTAGCAAAAATTTTCAAACAAATTTCCGTCAAAGAAT
* * * *
477471 TCTCAGCAGCTATTTATCGGAGATGCTTGAAATTTTTACACAGTGTTTGTTAAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGCTAAGGCATGCCATAT
477536 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAGTACTTTGTTTA-TTT
66 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAGTACTTTGTTTATTTT
* * * *
477600 TAGCCAAAATGTTCAAACAAATTTTCC-TCAAAGATTTCTCAGCAGCTATTTATTGCAGATGCTT
131 TTGCCAAAATTTTCAAACAAA-TTTCCGTCAAAGATTTCTCAGCAACTATTTATCGCAGATGCTT
* * *
477664 GAAATTTTAATACACTATTTGTTTAGGCATGCCATATTGTGGGATATATTTCTGTACCAATCGGA
195 GAAATTTTAACACACTATTTG-TTAGGCATGCCATATCGTGGGATATATTTTTGTACCAATCGGA
* * * * * *
477729 TGCCAGCTTTCTGTTAATTGCCGACTTTGCTTATTTT
259 CGTCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
477766 GCATATTCAC
Statistics
Matches: 733, Mismatches: 57, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
498 146 0.20
499 461 0.63
500 126 0.17
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (498 bp):
TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGCTAAGGCATGCCATAT
CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAGTACTTTGTTTATTTT
TTGCCAAAATTTTCAAACAAATTTCCGTCAAAGATTTCTCAGCAACTATTTATCGCAGATGCTTG
AAATTTTAACACACTATTTGTTAGGCATGCCATATCGTGGGATATATTTTTGTACCAATCGGACG
TCAACTTCCTGTTAAATGACGACTTTGCTTATTTTTTAACCAAAATTTTCAAACAAATTTTCGTC
AAAGATTTCTCAGCAACTATTTATCGCAGATGCTTGAAATTTAAACACACTATTTGTATAGGCAT
GCCATATTGTGGGATATATTTTTGTACCAATCAGACGTCAACTTCCTGTTAAATGAGTACTTTGT
TTATTTTTAGCAAAAATTTTCAAACAAATTTCCGTCAAAGAAT
Found at i:482755 original size:200 final size:200
Alignment explanation
Indices: 482407--482801 Score: 781
Period size: 200 Copynumber: 2.0 Consensus size: 200
482397 ATTTTAATTT
*
482407 CACCTTGAAAACAACATGTTAAATTATCACTTGGCAATATGGAATACAATATCTGTTCTATATAG
1 CACCCTGAAAACAACATGTTAAATTATCACTTGGCAATATGGAATACAATATCTGTTCTATATAG
482472 GTAATCTAATTTGATATTTGTTACATTGTATACTTGTAGGAATAAATTATATGCATTTATGCATT
66 GTAATCTAATTTGATATTTGTTACATTGTATACTTGTAGGAATAAATTATATGCATTTATGCATT
482537 GTATGCGCATTCTAAATGAAACTGTCAAGATTCTTCAGACTCTTGAAACGCATCACCTAGACCCC
131 GTATGCGCATTCTAAATGAAACTGTCAAGATTCTTCAGACTCTTGAAACGCATCACCTAGACCCC
482602 AAGAC
196 AAGAC
482607 CACCCTGAAAACAACATGTTAAATTATCACTTGGCAATATGGAATACAATATCTGTTCTATATAG
1 CACCCTGAAAACAACATGTTAAATTATCACTTGGCAATATGGAATACAATATCTGTTCTATATAG
482672 GTAATCTAATTTGATATTTGTTACATTGTATACTTGTAGGAATAAATTATATGCATTTATGCATT
66 GTAATCTAATTTGATATTTGTTACATTGTATACTTGTAGGAATAAATTATATGCATTTATGCATT
482737 GTATGCGCATTCTAAATGAAACTGTCAAGATTCTTCAGACTCTTGAAACGCATCACCTAGACCCC
131 GTATGCGCATTCTAAATGAAACTGTCAAGATTCTTCAGACTCTTGAAACGCATCACCTAGACCCC
482802 CCGACCCCCC
Statistics
Matches: 194, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 194 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (200 bp):
CACCCTGAAAACAACATGTTAAATTATCACTTGGCAATATGGAATACAATATCTGTTCTATATAG
GTAATCTAATTTGATATTTGTTACATTGTATACTTGTAGGAATAAATTATATGCATTTATGCATT
GTATGCGCATTCTAAATGAAACTGTCAAGATTCTTCAGACTCTTGAAACGCATCACCTAGACCCC
AAGAC
Found at i:482851 original size:1 final size:1
Alignment explanation
Indices: 482806--482831 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
482796 GACCCCCCGA
482806 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
482832 ACCCACACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:493005 original size:17 final size:18
Alignment explanation
Indices: 492970--493005 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
492960 ATATAGTCTC
*
492970 CTTCTAATTGTGTTAAAA
1 CTTCTAAGTGTGTTAAAA
492988 CTTCTAAGTGTG-TAAAA
1 CTTCTAAGTGTGTTAAAA
493005 C
1 C
493006 ATTTCTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (18 bp):
CTTCTAAGTGTGTTAAAA
Found at i:511437 original size:20 final size:20
Alignment explanation
Indices: 511412--511575 Score: 310
Period size: 20 Copynumber: 8.2 Consensus size: 20
511402 CAAACAAGTG
511412 GTAACAGTCTGTACAGTAAA
1 GTAACAGTCTGTACAGTAAA
*
511432 GTAACAGTCTGTACAGCAAA
1 GTAACAGTCTGTACAGTAAA
511452 GTAACAGTCTGTACAGTAAA
1 GTAACAGTCTGTACAGTAAA
511472 GTAACAGTCTGTACAGTAAA
1 GTAACAGTCTGTACAGTAAA
511492 GTAACAGTCTGTACAGTAAA
1 GTAACAGTCTGTACAGTAAA
511512 GTAACAGTCTGTACAGTAAA
1 GTAACAGTCTGTACAGTAAA
*
511532 ATAACAGTCTGTACAGTAAA
1 GTAACAGTCTGTACAGTAAA
511552 GTAACAGTCTGTACAGTAAA
1 GTAACAGTCTGTACAGTAAA
511572 GTAA
1 GTAA
511576 AAATTACAAA
Statistics
Matches: 140, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 140 1.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (20 bp):
GTAACAGTCTGTACAGTAAA
Found at i:512013 original size:42 final size:42
Alignment explanation
Indices: 511966--512548 Score: 932
Period size: 42 Copynumber: 13.6 Consensus size: 42
511956 ACTGAATTGA
**
511966 ACAAAATACCAGCGACTGTATCTAACTATCCAGGGACAATTC
1 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
512008 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
1 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
* * *
512050 ACAAAATACCAGCTAATGTATCTAACTATCCAGGAACAATTC
1 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
*
512092 ACAAAATACCAGTTACTGTATCTGACTATCCAGGGACAATTC
1 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
512134 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
1 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
512176 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
1 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
*
512218 ACAAAATACCAGCTACTGTATCTAATTATAACTATCCAGGGACAATTC
1 ACAAAATACCAGTTACTGTATC------TAACTATCCAGGGACAATTC
* *
512266 ACAAAATATCAGTTACTGTTTCTAACTATCCAGGGACAATTC
1 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
*
512308 ACAAAATACCAGTTACTATATCTAACTATCCAGGGACAATTC
1 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
512350 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
1 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
*
512392 ACAAAATACCAGTTACTGTATCTAATTATAACTATCCAGGAACAATTC
1 ACAAAATACCAGTTACTGTATC------TAACTATCCAGGGACAATTC
512440 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
1 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
* * *
512482 AAAAAATACCAGTTACCGTAACTAACTATCCAGGGACAATTC
1 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
512524 ACAAAATACCAGTTACTGTATCTAA
1 ACAAAATACCAGTTACTGTATCTAA
512549 TTATAACTAT
Statistics
Matches: 503, Mismatches: 26, Indels: 24
0.91 0.05 0.04
Matches are distributed among these distances:
42 423 0.84
48 80 0.16
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.26
Consensus pattern (42 bp):
ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
Found at i:512347 original size:174 final size:174
Alignment explanation
Indices: 511966--512548 Score: 1016
Period size: 174 Copynumber: 3.4 Consensus size: 174
511956 ACTGAATTGA
**
511966 ACAAAATACCAGCGACTGTATCTAACTATCCAGGGACAATTCACAAAATACCAGTTACTGTATCT
1 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTCACAAAATACCAGTTACTGTATCT
*
512031 AACTATCCAGGGACAATTCACAAAATACCAGCTAATGTATC------TAACTATCCAGGAACAAT
66 AACTATCCAGGGACAATTCACAAAATACCAGCTACTGTATCTAATTATAACTATCCAGGAACAAT
*
512090 TCACAAAATACCAGTTACTGTATCTGACTATCCAGGGACAATTC
131 TCACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
512134 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTCACAAAATACCAGTTACTGTATCT
1 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTCACAAAATACCAGTTACTGTATCT
*
512199 AACTATCCAGGGACAATTCACAAAATACCAGCTACTGTATCTAATTATAACTATCCAGGGACAAT
66 AACTATCCAGGGACAATTCACAAAATACCAGCTACTGTATCTAATTATAACTATCCAGGAACAAT
* *
512264 TCACAAAATATCAGTTACTGTTTCTAACTATCCAGGGACAATTC
131 TCACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
*
512308 ACAAAATACCAGTTACTATATCTAACTATCCAGGGACAATTCACAAAATACCAGTTACTGTATCT
1 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTCACAAAATACCAGTTACTGTATCT
*
512373 AACTATCCAGGGACAATTCACAAAATACCAGTTACTGTATCTAATTATAACTATCCAGGAACAAT
66 AACTATCCAGGGACAATTCACAAAATACCAGCTACTGTATCTAATTATAACTATCCAGGAACAAT
512438 TCACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
131 TCACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
* * *
512482 AAAAAATACCAGTTACCGTAACTAACTATCCAGGGACAATTCACAAAATACCAGTTACTGTATCT
1 ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTCACAAAATACCAGTTACTGTATCT
512547 AA
66 AA
512549 TTATAACTAT
Statistics
Matches: 393, Mismatches: 16, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
168 103 0.26
174 290 0.74
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.26
Consensus pattern (174 bp):
ACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTCACAAAATACCAGTTACTGTATCT
AACTATCCAGGGACAATTCACAAAATACCAGCTACTGTATCTAATTATAACTATCCAGGAACAAT
TCACAAAATACCAGTTACTGTATCTAACTATCCAGGGACAATTC
Found at i:516478 original size:41 final size:41
Alignment explanation
Indices: 516432--516891 Score: 773
Period size: 41 Copynumber: 11.5 Consensus size: 41
516422 TAATAAGGCT
*
516432 TACATGTAACGATCATGTAACTTAGCTGATGGCTTACAGCG
1 TACATGTAACGATCATGTAACTTAGATGATGGCTTACAGCG
*
516473 TACATGTAACGATCATGTAACTTAGCTGATGGCTTACAGCG
1 TACATGTAACGATCATGTAACTTAGATGATGGCTTACAGCG
516514 TACATGTAACGATCATGTAACTTAGATGATGGCTTACAGCG
1 TACATGTAACGATCATGTAACTTAGATGATGGCTTACAGCG
* *
516555 TACATGTAACGATCATGAAACTTAGATGATGGCCTACAGCG
1 TACATGTAACGATCATGTAACTTAGATGATGGCTTACAGCG
516596 TACATGTAACGATCATGTAACTTAGATGATGGCTTACAGCG
1 TACATGTAACGATCATGTAACTTAGATGATGGCTTACAGCG
516637 TACATGTAACGATCATGTAACTTAGATGATGGCTTACAGCG
1 TACATGTAACGATCATGTAACTTAGATGATGGCTTACAGCG
516678 TACATGTAACGATCATGTAACTTAGATGATGGCTTACAGCG
1 TACATGTAACGATCATGTAACTTAGATGATGGCTTACAGCG
516719 TACATGTAACGATCATGTAACTTAGATGATGGCTTACAGCG
1 TACATGTAACGATCATGTAACTTAGATGATGGCTTACAGCG
*
516760 TACATGTAACGATCATGTAACTAAGATGATGGCTTACAGCG
1 TACATGTAACGATCATGTAACTTAGATGATGGCTTACAGCG
516801 TACATGTAACGATCATGTAACTT--A-GA----TT--A---
1 TACATGTAACGATCATGTAACTTAGATGATGGCTTACAGCG
* *
516830 TGCATGTAACGATCATGTAACTTAGATTATGGCTTACAGCG
1 TACATGTAACGATCATGTAACTTAGATGATGGCTTACAGCG
516871 TACATGTAACGATCATGTAAC
1 TACATGTAACGATCATGTAAC
516892 GTACTTATTA
Statistics
Matches: 397, Mismatches: 10, Indels: 24
0.92 0.02 0.06
Matches are distributed among these distances:
29 22 0.06
31 1 0.00
32 2 0.01
34 2 0.01
36 2 0.01
38 3 0.01
39 1 0.00
41 364 0.92
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (41 bp):
TACATGTAACGATCATGTAACTTAGATGATGGCTTACAGCG
Found at i:516880 original size:30 final size:29
Alignment explanation
Indices: 516803--516860 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
516793 TTACAGCGTA
516803 CATGTAACGATCATGTAACTTAGATTATG
1 CATGTAACGATCATGTAACTTAGATTATG
516832 CATGTAACGATCATGTAACTTAGATTATG
1 CATGTAACGATCATGTAACTTAGATTATG
516861 GCTTACAGCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (29 bp):
CATGTAACGATCATGTAACTTAGATTATG
Done.