Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004978.1 Hibiscus syriacus cultivar Beakdansim tig00011175_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 73467
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:4686 original size:12 final size:12
Alignment explanation
Indices: 4652--4686 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4642 TATCATGTTC
**
4652 TCATATCACAGG
1 TCATATCACATA
4664 TCATATCACATA
1 TCATATCACATA
4676 TCATATCACAT
1 TCATATCACAT
4687 GAACATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (12 bp):
TCATATCACATA
Found at i:5103 original size:64 final size:64
Alignment explanation
Indices: 4995--5116 Score: 149
Period size: 64 Copynumber: 1.9 Consensus size: 64
4985 TAATGAAGCT
* *
4995 ATGCATCGATGCACTACTGATGCATCAGTGCATAAAAGGTATTCGATGTATT-ATTATTGCTGGG
1 ATGCATCGATGCACTACTGATGCATCAGTGCACAAAAGGCATTCGATGT-TTCATTATTGCTGGG
* * * **
5059 ATGCATCGATGCACTCCTTATGCATC-GATGCACCAATTGCATTCGATGTTTCATTATT
1 ATGCATCGATGCACTACTGATGCATCAG-TGCACAAAAGGCATTCGATGTTTCATTATT
5117 AAAAGAGTGC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
63 3 0.06
64 46 0.94
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTGATGCATCAGTGCACAAAAGGCATTCGATGTTTCATTATTGCTGGG
Found at i:9225 original size:11 final size:11
Alignment explanation
Indices: 9209--9233 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9199 TTTTATATTC
9209 ATTAAAGGTAA
1 ATTAAAGGTAA
9220 ATTAAAGGTAA
1 ATTAAAGGTAA
9231 ATT
1 ATT
9234 TAGCATGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (11 bp):
ATTAAAGGTAA
Found at i:9870 original size:30 final size:31
Alignment explanation
Indices: 9835--9902 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
9825 CAAGCCTTAG
* * *
9835 AAAAGTTTGGGGACC-ATTCTATAATTTTTA
1 AAAAGTTAGGGGACCAATTCAACAATTTTTA
*
9865 AAAAGTTAGGGGACCAATTCAACAATTTTTG
1 AAAAGTTAGGGGACCAATTCAACAATTTTTA
9896 AAAAGTT
1 AAAAGTT
9903 GTTAATGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 14 0.42
31 19 0.58
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (31 bp):
AAAAGTTAGGGGACCAATTCAACAATTTTTA
Found at i:10815 original size:26 final size:26
Alignment explanation
Indices: 10779--10859 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 26
10769 AGGACACTAA
10779 GTGTA-TATGGTGGGCACGACCTTAT
1 GTGTATTATGGTGGGCACGACCTTAT
10804 GTGTATTATGGTGGGCACGACCTTAT
1 GTGTATTATGGTGGGCACGACCTTAT
*
10830 GTGTATTAT-GTGGGCACAACCTTAT
1 GTGTATTATGGTGGGCACGACCTTAT
10855 GTGTA
1 GTGTA
10860 ATGTACTTCG
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
25 25 0.46
26 29 0.54
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.35
Consensus pattern (26 bp):
GTGTATTATGGTGGGCACGACCTTAT
Found at i:10917 original size:40 final size:40
Alignment explanation
Indices: 10830--10915 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
10820 ACGACCTTAT
* *
10830 GTGTATTAT-GTGGGCACAACCTTATGTGTAATGTACTTCG
1 GTGTA-TATGGTGGGCACAACCTTATGTGTAATGCACTACG
10870 GTGTATATGGTGGGCACAACCTTATGTGT-A-GCACTACG
1 GTGTATATGGTGGGCACAACCTTATGTGTAATGCACTACG
*
10908 GTGCATAT
1 GTGTATAT
10916 ATTACTCGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
38 13 0.31
39 4 0.10
40 25 0.60
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (40 bp):
GTGTATATGGTGGGCACAACCTTATGTGTAATGCACTACG
Found at i:12110 original size:13 final size:13
Alignment explanation
Indices: 12094--12123 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12084 TGCACATGAG
12094 ATTTCAAACAGAT
1 ATTTCAAACAGAT
*
12107 ATTTCAAACAGTT
1 ATTTCAAACAGAT
12120 ATTT
1 ATTT
12124 TAGACACAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (13 bp):
ATTTCAAACAGAT
Found at i:20677 original size:16 final size:17
Alignment explanation
Indices: 20652--20684 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
20642 AGATGATCCT
20652 AATAAATTAT-ATTCTG
1 AATAAATTATGATTCTG
*
20668 AATAACTTATGATTCTG
1 AATAAATTATGATTCTG
20685 TCAGTTATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.42
Consensus pattern (17 bp):
AATAAATTATGATTCTG
Found at i:20902 original size:24 final size:24
Alignment explanation
Indices: 20875--20953 Score: 122
Period size: 24 Copynumber: 3.2 Consensus size: 24
20865 ATATCTTACT
20875 TGGATTCTGATCGGATACTTGACC
1 TGGATTCTGATCGGATACTTGACC
*
20899 TGGATTCTGATCGAATACTTGACC
1 TGGATTCTGATCGGATACTTGACC
* *
20923 TGGATTTTTGATCTGATACTTGACC
1 TGGA-TTCTGATCGGATACTTGACC
20948 TGGATT
1 TGGATT
20954 ATGTTTTGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 29 0.58
25 21 0.42
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.38
Consensus pattern (24 bp):
TGGATTCTGATCGGATACTTGACC
Found at i:25288 original size:2 final size:2
Alignment explanation
Indices: 25281--25314 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
25271 TAATTAAATA
25281 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25315 AATGCCAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26239 original size:21 final size:22
Alignment explanation
Indices: 26187--26239 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
26177 TATTGCCTTT
26187 AAATTGACATAGGATTTAGTAC
1 AAATTGACATAGGATTTAGTAC
26209 AAATTGACATAGGATTTAGTAC
1 AAATTGACATAGGATTTAGTAC
26231 AAA-TGACAT
1 AAATTGACAT
26240 TTAGAATGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.19
22 25 0.81
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.30
Consensus pattern (22 bp):
AAATTGACATAGGATTTAGTAC
Found at i:30408 original size:98 final size:99
Alignment explanation
Indices: 30300--30478 Score: 263
Period size: 98 Copynumber: 1.8 Consensus size: 99
30290 ATATGTTTAT
** * *
30300 AATAAAGCTTGAGTTGTCCCTCTAG-TGTAATTAGTTAAACACCCTG-CTTTATTGATAAGATTC
1 AATAAAGCTTGAACTGTCCCTCTAGAT-AAATTAGTTAAACACCCTGACTTTATGGATAAGATTC
* *
30363 AGCTAGCCTGGTAAAGGTGATTATAATATATATAC
65 AACTAGCCTGATAAAGGTGATTATAATATATATAC
* *
30398 AATAAAGCTTGAACTGTCCCTCTAGATAAATTGGTTAAACGCCCTGACTTTATGGATAAGATTCA
1 AATAAAGCTTGAACTGTCCCTCTAGATAAATTAGTTAAACACCCTGACTTTATGGATAAGATTCA
30463 ACTAGCCTGATAAAGG
66 ACTAGCCTGATAAAGG
30479 CGAATTACAA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
98 39 0.55
99 32 0.45
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Consensus pattern (99 bp):
AATAAAGCTTGAACTGTCCCTCTAGATAAATTAGTTAAACACCCTGACTTTATGGATAAGATTCA
ACTAGCCTGATAAAGGTGATTATAATATATATAC
Found at i:32365 original size:37 final size:37
Alignment explanation
Indices: 32234--32348 Score: 185
Period size: 37 Copynumber: 3.1 Consensus size: 37
32224 TGAGATTGGG
* * *
32234 GCAAGTCAATCTTAAGCCTTAACGGAAGAGCAGTGAA
1 GCAAATCAATCTTAAGCCTTCACGGAAGAGTAGTGAA
32271 GCAAATCAATCTTAAGCCTTCACGGAAGAGTAGTGAA
1 GCAAATCAATCTTAAGCCTTCACGGAAGAGTAGTGAA
* *
32308 TCAAATCAATCTTAAGCCTTCACAGAAGAGTAGTGAA
1 GCAAATCAATCTTAAGCCTTCACGGAAGAGTAGTGAA
32345 GCAA
1 GCAA
32349 GCCATCAGTA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (37 bp):
GCAAATCAATCTTAAGCCTTCACGGAAGAGTAGTGAA
Found at i:32483 original size:36 final size:36
Alignment explanation
Indices: 32433--32504 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
32423 GTACTCCGGG
* * *
32433 CCATCTTAAGCCTTCATGGAAGAGTAGTGAAGCAAA
1 CCATCTTAAACCTTCACGAAAGAGTAGTGAAGCAAA
32469 CCATCTTAAACCTTCACGAAAGAGTAGTGAAGCAAA
1 CCATCTTAAACCTTCACGAAAGAGTAGTGAAGCAAA
32505 TCAATCTCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (36 bp):
CCATCTTAAACCTTCACGAAAGAGTAGTGAAGCAAA
Found at i:32635 original size:55 final size:55
Alignment explanation
Indices: 32574--33141 Score: 528
Period size: 55 Copynumber: 10.5 Consensus size: 55
32564 GGTTTGTGTT
* * * *
32574 CTATACTCCCTAAAATAATAGGGAGCAGACACGTTTACTAAAGATTGTTCGAGTC
1 CTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTACTGAAGATTGTTCAAGTC
* *
32629 CTATACTCCCTGAAAGAATAGGGAGC-GAACACGTTTGCTGAAGATTGTTCGAGTC
1 CTATACTCCCTGAAAGAATAGGGAGCAG-ACACGTTTACTGAAGATTGTTCAAGTC
* * *
32684 TTATACTCCCT----G---AGGGAGCAGACACGTTTATTGAAGATTGTTCGAGTC
1 CTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTACTGAAGATTGTTCAAGTC
* * * * *
32732 CTATACTCCCTGAAAGAATAGGGAGCAAACCCATTT-TTCGAAGATTGTTTAAGTC
1 CTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTACT-GAAGATTGTTCAAGTC
* * *
32787 TTATACTCCCTGAAAGAATAGGGAGC-GTACCCGTTCTAC-GAAGATTGTTTAAGTC
1 CTATACTCCCTGAAAGAATAGGGAGCAG-ACACGTT-TACTGAAGATTGTTCAAGTC
* *
32842 TTATACTCCCTGAAAGAATAGGGAGC-GTACCCGTTCTAC-GAAGATTGTTCAAGT-
1 CTATACTCCCTGAAAGAATAGGGAGCAG-ACACGTT-TACTGAAGATTGTTCAAGTC
* * * *
32896 CTATACTCCCTGAAAGAATAGGGAAC-GA-ACCTGTTTTCCGAATATTGTTCAAGTC
1 CTATACTCCCTGAAAGAATAGGGAGCAGACA-C-GTTTACTGAAGATTGTTCAAGTC
* * * * * *
32951 ATATACT-CCTAAAAGAGTAGGGAGCAGACCCATTCT-CCGAAGATTGTTCAAGTC
1 CTATACTCCCTGAAAGAATAGGGAGCAGACACGTT-TACTGAAGATTGTTCAAGTC
* * *
33005 CTATACTCCCTGAAAGAATAGGGGGCA-A-ATCTGTTTTCTGAAGATTATTCAAGTC
1 CTATACTCCCTGAAAGAATAGGGAGCAGACA-C-GTTTACTGAAGATTGTTCAAGTC
* * * * * *
33060 CTATACTCCCTAAAAGAATAGAGAGCAGACCCGTTTTCCGAAGATTATTTCAAGTC
1 CTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTACTGAAGATT-GTTCAAGTC
* *
33116 CTATACTCTCTGATAGAATAGGGAGC
1 CTATACTCCCTGAAAGAATAGGGAGC
33142 GTACTCGTCC
Statistics
Matches: 438, Mismatches: 48, Indels: 53
0.81 0.09 0.10
Matches are distributed among these distances:
48 42 0.10
49 1 0.00
51 1 0.00
52 1 0.00
53 4 0.01
54 88 0.20
55 268 0.61
56 33 0.08
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (55 bp):
CTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTACTGAAGATTGTTCAAGTC
Found at i:32719 original size:48 final size:48
Alignment explanation
Indices: 32648--32744 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
32638 CTGAAAGAAT
* *
32648 AGGGAGCGAACACGTTTGCTGAAGATTGTTCGAGTCTTATACTCCCTG
1 AGGGAGCGAACACGTTTACTGAAGATTGTTCGAGTCCTATACTCCCTG
*
32696 AGGGAGC-AGACACGTTTATTGAAGATTGTTCGAGTCCTATACTCCCTG
1 AGGGAGCGA-ACACGTTTACTGAAGATTGTTCGAGTCCTATACTCCCTG
32744 A
1 A
32745 AAGAATAGGG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 1 0.02
48 44 0.98
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.29
Consensus pattern (48 bp):
AGGGAGCGAACACGTTTACTGAAGATTGTTCGAGTCCTATACTCCCTG
Found at i:32743 original size:103 final size:101
Alignment explanation
Indices: 32593--32908 Score: 359
Period size: 103 Copynumber: 3.0 Consensus size: 101
32583 CTAAAATAAT
*
32593 AGGGAGCAGACACGTTTACTAAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCGAA
1 AGGGAGCAGACACGTTTA-TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCGAA
* *
32658 CACGTTTGCTGAAGATTGTTCGAGTCTTATACTCCCTG
65 CCCGTTT-CTGAAGATTGTTCAAGTCTTATACTCCCTG
*
32696 AGGGAGCAGACACGTTTATTGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCAAA
1 AGGGAGCAGACACGTTTA-TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCGAA
* * *
32761 CCCATTTTTCGAAGATTGTTTAAGTCTTATACTCCCTGAAAG
65 CCCGTTTCT-GAAGATTGTTCAAGTCTTATACTCCCT----G
* * ** *
32803 AATAGGGAGC-GTACCCGTTCTACGAAGATTGTTTAAGTCTTATACTCCCTGAAAGAATAGGGAG
1 ---AGGGAGCAG-ACACGTT-TATGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAG
*
32867 CGTACCCG-TTCTACGAAGATTGTTCAAGTC-TATACTCCCTG
61 CGAACCCGTTTCT--GAAGATTGTTCAAGTCTTATACTCCCTG
32908 A
1 A
32909 AAGAATAGGG
Statistics
Matches: 184, Mismatches: 18, Indels: 23
0.82 0.08 0.10
Matches are distributed among these distances:
102 2 0.01
103 92 0.50
105 1 0.01
107 1 0.01
109 14 0.08
110 72 0.39
111 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (101 bp):
AGGGAGCAGACACGTTTATGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCGAAC
CCGTTTCTGAAGATTGTTCAAGTCTTATACTCCCTG
Found at i:33025 original size:218 final size:212
Alignment explanation
Indices: 32574--33139 Score: 595
Period size: 218 Copynumber: 2.6 Consensus size: 212
32564 GGTTTGTGTT
* * * * *
32574 CTATACTCCCTAAAATAATAGGGAGCAGACACGTTTACTAAAGATTGTTCGAGTCCTATACTCCC
1 CTATACTCCCTGAAAGAATAGGGAGC-GACCCGTTTACTGAAGATTGTTCAAGTCCTATACTCCC
* * * ** **
32639 TGAAAGAATAGGGAGCGAACACGTTTGCTGAAGATTGTTCGAGTCTTATACTCCCTGAGGGAGCA
65 TGAAAGAATAGGGAGCG-ACCCGTTTAC-GAAGATTGTTCAAGTC-TATACTCCCTGAAAGAATA
* * * *
32704 --G-ACACGTTTATTGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCAAACCCAT
127 GGGAACACGTTTATCGAAGATTGTTCAAGTCATATACTCCCTAAAAGAATAGGGAGCAAACCCAT
* * *
32766 TTTTCGAAGATTGTTTAAGTC
192 TCTCCGAAGATTGTTCAAGTC
* * *
32787 TTATACTCCCTGAAAGAATAGGGAGCGTACCCGTTCTAC-GAAGATTGTTTAAGTCTTATACTCC
1 CTATACTCCCTGAAAGAATAGGGAGCG-ACCCGTT-TACTGAAGATTGTTCAAGTCCTATACTCC
32851 CTGAAAGAATAGGGAGCGTACCCGTTCTACGAAGATTGTTCAAGTCTATACTCCCTGAAAGAATA
64 CTGAAAGAATAGGGAGCG-ACCCGTT-TACGAAGATTGTTCAAGTCTATACTCCCTGAAAGAATA
* * *
32916 GGGAACGAACCTGTTT-TCCGAATATTGTTCAAGTCATATACT-CCTAAAAGAGTAGGGAGCAGA
127 GGGAAC--A-C-GTTTAT-CGAAGATTGTTCAAGTCATATACTCCCTAAAAGAATAGGGAGCAAA
32979 CCCATTCTCCGAAGATTGTTCAAGTC
187 CCCATTCTCCGAAGATTGTTCAAGTC
* * * * * *
33005 CTATACTCCCTGAAAGAATAGGGGGCAAATCTGTTTTCTGAAGATTATTCAAGTCCTATACTCCC
1 CTATACTCCCTGAAAGAATAGGGAGC-GACCCGTTTACTGAAGATTGTTCAAGTCCTATACTCCC
* * * * * *
33070 TAAAAGAATAGAGAGCAGACCCGTTTTCCGAAGATTATTTCAAGTCCTATACTCTCTGATAGAAT
65 TGAAAGAATAGGGAGC-GACCCG-TTTACGAAGATT-GTTCAAGT-CTATACTCCCTGAAAGAAT
33135 AGGGA
126 AGGGA
33140 GCGTACTCGT
Statistics
Matches: 295, Mismatches: 41, Indels: 27
0.81 0.11 0.07
Matches are distributed among these distances:
212 16 0.05
213 89 0.30
214 6 0.02
215 2 0.01
217 3 0.01
218 123 0.42
219 34 0.12
220 22 0.07
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (212 bp):
CTATACTCCCTGAAAGAATAGGGAGCGACCCGTTTACTGAAGATTGTTCAAGTCCTATACTCCCT
GAAAGAATAGGGAGCGACCCGTTTACGAAGATTGTTCAAGTCTATACTCCCTGAAAGAATAGGGA
ACACGTTTATCGAAGATTGTTCAAGTCATATACTCCCTAAAAGAATAGGGAGCAAACCCATTCTC
CGAAGATTGTTCAAGTC
Found at i:39112 original size:21 final size:20
Alignment explanation
Indices: 39086--39183 Score: 74
Period size: 21 Copynumber: 4.8 Consensus size: 20
39076 ATCAGTTTCC
39086 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
* **
39107 AAAATCGCAATGCGATAGT-
1 AAAATCGCAACGCGATTTTG
**
39126 ACAAATTCGCATTGCG-TTTTG
1 A-AAA-TCGCAACGCGATTTTG
* *
39147 CCAAAATCGCAACGCGAATATG
1 --AAAATCGCAACGCGATTTTG
39169 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
39184 ACACATAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
19 1 0.02
20 21 0.34
21 32 0.52
22 6 0.10
23 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTG
Found at i:39212 original size:20 final size:20
Alignment explanation
Indices: 39150--39343 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
39140 CGTTTTGCCA
* ** *
39150 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
39170 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
39190 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
39210 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
39230 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
39250 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
39270 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
39290 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
39310 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
39331 AAATCGCAACGCG
1 AAATCGCAACGCG
39344 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:39234 original size:60 final size:60
Alignment explanation
Indices: 39150--39343 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
39140 CGTTTTGCCA
* ** * *
39150 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
39210 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
39270 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
39331 AAATCGCAACGCG
1 AAATCGCAACGCG
39344 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:39758 original size:33 final size:33
Alignment explanation
Indices: 39719--39789 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
39709 TTCACTTAGA
* *
39719 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
39752 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
39785 TTTCA
1 TTTCA
39790 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:39895 original size:21 final size:20
Alignment explanation
Indices: 39869--39974 Score: 91
Period size: 21 Copynumber: 5.5 Consensus size: 20
39859 TGCAGAAGAG
39869 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
39890 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
39910 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
*
39931 GCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
39945 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
39964 TCGCAACGAGA
1 TCGCAACGAGA
39975 GAATCGCAAC
Statistics
Matches: 66, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
14 10 0.15
16 2 0.03
17 2 0.03
19 11 0.17
20 16 0.24
21 25 0.38
ACGTcount: A:0.45, C:0.19, G:0.25, T:0.10
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:39913 original size:20 final size:21
Alignment explanation
Indices: 39867--39945 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
39857 TTTGCAGAAG
*
39867 AGTCGCAACGAGATAAATGAAA
1 AGTCGCAACGAGA-GAATGAAA
*
39889 A-TCGCAACGAGAGAATG-AC
1 AGTCGCAACGAGAGAATGAAA
*
39908 TGTCGCAACGAGAGAAATGAAA
1 AGTCGCAACGAGAG-AATGAAA
39930 AG-CGCAACGAGAGAAT
1 AGTCGCAACGAGAGAAT
39946 CGCAACGCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 19 0.39
21 26 0.53
22 3 0.06
ACGTcount: A:0.46, C:0.16, G:0.27, T:0.11
Consensus pattern (21 bp):
AGTCGCAACGAGAGAATGAAA
Found at i:39926 original size:41 final size:38
Alignment explanation
Indices: 39862--39978 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 38
39852 TTCAATTTGC
* *
39862 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
39900 AGAATGACTGTCGCAACGAGAGAAATGAAAAGCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
39941 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
39974 AGAAT
1 AGAAT
39979 CGCAACGCGA
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
33 22 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 32 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.10
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:39951 original size:14 final size:14
Alignment explanation
Indices: 39932--39985 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
39922 AAATGAAAAG
39932 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
*
39946 CGCAACGCGAAATGAAAAT
1 CGCAA--CG--A-GAGAAT
39965 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
39979 CGCAACG
1 CGCAACG
39986 CGAAACCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.43, C:0.24, G:0.26, T:0.07
Consensus pattern (14 bp):
CGCAACGAGAGAAT
Found at i:39961 original size:33 final size:33
Alignment explanation
Indices: 39921--39990 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
39911 CGCAACGAGA
39921 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
*
39954 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
39987 GAAA
1 GAAA
39991 CCAAAATCGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.47, C:0.20, G:0.26, T:0.07
Consensus pattern (33 bp):
GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
Found at i:39997 original size:33 final size:33
Alignment explanation
Indices: 39927--40001 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
39917 GAGAGAAATG
* **
39927 AAAAGCGCAACGAGAGAATCGCAACGCGAAATG
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
39960 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
39993 AAAATCGCA
1 AAAATCGCA
40002 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.47, C:0.24, G:0.23, T:0.07
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAACGCGAAACC
Found at i:40019 original size:19 final size:19
Alignment explanation
Indices: 39997--40094 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
39987 GAAACCAAAA
*
39997 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
40016 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
40030 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
40049 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
40063 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
40082 TCGCGTTGCGATT
1 TCGCGTTGCGATT
40095 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:40038 original size:14 final size:14
Alignment explanation
Indices: 40019--40108 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
40009 TTTCATTTCG
40019 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
40033 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
40052 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
40066 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
40083 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
40099 CGTTGCGATT
1 CGTTGCGATT
40109 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:40044 original size:33 final size:33
Alignment explanation
Indices: 40002--40116 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
39992 CAAAATCGCA
40002 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
40035 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
40068 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
40101 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
40117 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:41974 original size:93 final size:93
Alignment explanation
Indices: 41815--42381 Score: 1080
Period size: 93 Copynumber: 6.1 Consensus size: 93
41805 TAGATTGCTT
*
41815 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
41880 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
41908 AGTAAATTTGTTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
41973 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
42001 AGTAAATTTGTTTGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
42066 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
42094 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTATGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
42159 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
42187 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
42252 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
42280 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
42345 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
42373 AGTAAATTT
1 AGTAAATTT
42382 ATCCATTCAA
Statistics
Matches: 463, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 463 1.00
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:42465 original size:19 final size:19
Alignment explanation
Indices: 42425--42553 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
42415 TAGTTTACTT
* *
42425 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
42445 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
42464 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
42483 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
42497 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
42516 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
42530 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
42549 TCGCA
1 TCGCA
42554 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:42504 original size:33 final size:32
Alignment explanation
Indices: 42461--42553 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
42451 CGCGAAACCA
**
42461 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
42493 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
42526 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
42554 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:42551 original size:52 final size:52
Alignment explanation
Indices: 42425--42553 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
42415 TAGTTTACTT
**
42425 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
42477 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
42530 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
42554 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:42571 original size:19 final size:19
Alignment explanation
Indices: 42549--42683 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
42539 GAAACCAAAA
*
42549 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
42568 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
42584 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
42601 TCGCGTTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
42617 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
42634 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
42653 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
42673 TCGTGTTGCGA
1 TCGCGTTGCGA
42684 AAGTAAACTA
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:42590 original size:14 final size:14
Alignment explanation
Indices: 42571--42627 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
42561 TTTCATTTCG
42571 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
42585 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
42602 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
42618 CGTTGCGATT
1 CGTTGCGATT
42628 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.09, C:0.21, G:0.25, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:42596 original size:33 final size:33
Alignment explanation
Indices: 42554--42646 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
42544 CAAAATCGCA
*
42554 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
42587 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
42620 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
42647 TTGGTTTCGC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:43563 original size:14 final size:14
Alignment explanation
Indices: 43544--43579 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
43534 ATTGTTTAAT
43544 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
43558 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
43572 TGATTTGT
1 TGATTTGT
43580 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:43710 original size:19 final size:19
Alignment explanation
Indices: 43686--43785 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
43676 AAAATTGACT
43686 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
43705 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
43724 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
43738 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
43757 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
43777 ATCGCAATG
1 ATCGCAATG
43786 GGAGAATCGC
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.53
20 18 0.25
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:43815 original size:53 final size:53
Alignment explanation
Indices: 43686--43802 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
43676 AAAATTGACT
43686 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
* *
43738 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
43791 ATCGCAATGCGA
1 ATCGCAATGCGA
43803 TTTTAATTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 29 0.47
53 33 0.53
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:43820 original size:19 final size:19
Alignment explanation
Indices: 43792--43940 Score: 130
Period size: 19 Copynumber: 8.6 Consensus size: 19
43782 AATGGGAGAA
* *
43792 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
43811 TCGCATTGCGA--TT-ATC
1 TCGCATTGCGATTTTCATT
43827 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
43844 TTGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
43863 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
43879 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
43896 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
43912 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
43929 TCCGCATTGCGA
1 T-CGCATTGCGA
43941 AATGTAATGG
Statistics
Matches: 105, Mismatches: 9, Indels: 31
0.72 0.06 0.21
Matches are distributed among these distances:
14 18 0.17
16 21 0.20
17 18 0.17
18 2 0.02
19 40 0.38
20 6 0.06
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:43864 original size:52 final size:52
Alignment explanation
Indices: 43792--43908 Score: 198
Period size: 52 Copynumber: 2.2 Consensus size: 52
43782 AATGGGAGAA
*
43792 TCGCAATGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
* * *
43844 TTGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
43896 TCGCATTGCGATT
1 TCGCATTGCGATT
43909 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
Found at i:43886 original size:33 final size:33
Alignment explanation
Indices: 43849--43940 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
43839 TCATTTTGCA
43849 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
43882 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
43915 TTGCGATTTTCATTTCCGCATTGCGA
1 TTGCGATTTTCATTT-CGCATTGCGA
43941 AATGTAATGG
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 48 0.83
34 10 0.17
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:43887 original size:14 final size:14
Alignment explanation
Indices: 43868--43922 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
43858 TCATTTCGCA
43868 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
43882 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
43899 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
43915 TTGCGATT
1 TTGCGATT
43923 TTCATTTCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:44023 original size:19 final size:19
Alignment explanation
Indices: 43999--44096 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
43989 AAAATTGACT
43999 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
44018 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
44037 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
44051 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
44070 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
44090 ATCGCAA
1 ATCGCAA
44097 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:44128 original size:53 final size:53
Alignment explanation
Indices: 43999--44115 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
43989 AAAATTGACT
43999 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
44051 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
44104 ATCGCAATGCGA
1 ATCGCAATGCGA
44116 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:44840 original size:20 final size:20
Alignment explanation
Indices: 44812--45061 Score: 268
Period size: 20 Copynumber: 12.5 Consensus size: 20
44802 AAATTTCAGT
* * *
44812 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
44832 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
44852 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
44872 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
44892 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
44912 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
44932 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
44952 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
*
44972 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
44992 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
45012 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
45032 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
45052 GTTGCGATTT
1 GTTGCGATTT
45062 TGGAAAATCG
Statistics
Matches: 202, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 201 1.00
21 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:45078 original size:21 final size:21
Alignment explanation
Indices: 45048--45165 Score: 82
Period size: 21 Copynumber: 5.7 Consensus size: 21
45038 ATTTTCATAT
*
45048 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
45069 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
45090 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
45111 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* **
45132 T-G-ATTTGCGATTCTGG-GGA
1 TCGCA-TTGCGATTTTGGAAAA
*
45151 TCGCGTTGCGATTTT
1 TCGCATTGCGATTTT
45166 TATTTCGCGT
Statistics
Matches: 73, Mismatches: 19, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
19 2 0.03
20 23 0.32
21 46 0.63
22 2 0.03
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:45121 original size:42 final size:43
Alignment explanation
Indices: 45028--45126 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
45018 ATTTATGTGT
* *
45028 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
45069 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
45111 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
45127 GAAAATGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:54802 original size:16 final size:16
Alignment explanation
Indices: 54781--54819 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
54771 GGTATTACCC
54781 GACCTGTTTTCAACCT
1 GACCTGTTTTCAACCT
*
54797 GACCTGTTTTTAACCT
1 GACCTGTTTTCAACCT
54813 GACCTGT
1 GACCTGT
54820 AAATGATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.28, G:0.15, T:0.38
Consensus pattern (16 bp):
GACCTGTTTTCAACCT
Found at i:55110 original size:14 final size:14
Alignment explanation
Indices: 55088--55134 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
55078 TGCAAAGGAA
*
55088 AATTAATATAGTTT
1 AATTTATATAGTTT
55102 AATTTATATA----
1 AATTTATATAGTTT
55112 AA-TTATATAGTTT
1 AATTTATATAGTTT
55125 AATTTATATA
1 AATTTATATA
55135 AAGAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:55121 original size:23 final size:24
Alignment explanation
Indices: 55087--55136 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
55077 ATGCAAAGGA
55087 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
55111 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
55134 AAA
1 AAA
55137 GAAAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:55321 original size:14 final size:14
Alignment explanation
Indices: 55299--55369 Score: 63
Period size: 14 Copynumber: 5.1 Consensus size: 14
55289 TTCATTTAAA
55299 TTAGGGTTTATGGT
1 TTAGGGTTTATGGT
*
55313 TTAGTGTTTATGGT
1 TTAGGGTTTATGGT
** **
55327 TTAAAGTTTA-GAA
1 TTAGGGTTTATGGT
*
55340 TTAGGGTTTATGAT
1 TTAGGGTTTATGGT
* *
55354 TTAGGATTTAGGGT
1 TTAGGGTTTATGGT
55368 TT
1 TT
55370 CTATAAACAA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
13 9 0.20
14 36 0.80
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:55369 original size:41 final size:40
Alignment explanation
Indices: 55293--55369 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 40
55283 TGCTAGTTCA
* *
55293 TTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAAG
1 TTTAAATTAGGGTTTATGATTTAGTGTTTAGGGTTTAAAG
55333 TTTAGAATTAGGGTTTATGATTTAG-GATTTAGGGTTT
1 TTTA-AATTAGGGTTTATGATTTAGTG-TTTAGGGTTT
55370 CTATAAACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
40 5 0.15
41 28 0.85
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (40 bp):
TTTAAATTAGGGTTTATGATTTAGTGTTTAGGGTTTAAAG
Found at i:55462 original size:13 final size:13
Alignment explanation
Indices: 55444--55473 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
55434 TAATTTACTT
55444 TATATAGTTTATA
1 TATATAGTTTATA
55457 TATATAGTTTATA
1 TATATAGTTTATA
55470 TATA
1 TATA
55474 CTATACATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:55478 original size:20 final size:21
Alignment explanation
Indices: 55454--55504 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
55444 TATATAGTTT
*
55454 ATATATATAGTTTATATATAC
1 ATATATATAGTTTATACATAC
* *
55475 -TATACATGGTTTATACATAC
1 ATATATATAGTTTATACATAC
55495 ATATTATATA
1 ATA-TATATA
55505 AAATTATTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 17 0.74
21 2 0.09
22 4 0.17
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (21 bp):
ATATATATAGTTTATACATAC
Found at i:55971 original size:48 final size:49
Alignment explanation
Indices: 55899--56007 Score: 139
Period size: 49 Copynumber: 2.2 Consensus size: 49
55889 AGAGTTTAGG
* ** *
55899 GTTTATGATTTAGGGTTTCTATAAACTATATATTTTA-TTACTTTATATA
1 GTTTATG-TATAGGGTTTCTATAAACTATATAAGTAATTTACTTTATATA
* *
55948 GTTTATGTATAGTGTTTCTATAAACTATATAAGTAATTTATTTTATATA
1 GTTTATGTATAGGGTTTCTATAAACTATATAAGTAATTTACTTTATATA
*
55997 GTTTATATATA
1 GTTTATGTATA
56008 TATATATATA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
48 24 0.46
49 28 0.54
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (49 bp):
GTTTATGTATAGGGTTTCTATAAACTATATAAGTAATTTACTTTATATA
Found at i:56000 original size:547 final size:540
Alignment explanation
Indices: 55221--56263 Score: 1641
Period size: 547 Copynumber: 1.9 Consensus size: 540
55211 TTTTGGCAAT
*
55221 ACATTAGTTTACAAAGGCCAATACATAAGTCCACTCTTTTATTACAAATATATATGCATTAGTGC
1 ACATTAGTTTACAAAGGCCAATACACAAGTCCACTCTTTTATTACAAATATATATGCATTAGTGC
* * * *
55286 TAGTTCATTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAAGTTTAGAATTAGGGTTTAT
66 TAGTCCATTTAAATTAGGGTTTATGATTTAGTGTTTATGGTTTAAAGTTTAGAATTAGAGTTTAG
55351 GATTTAGGATTTAGGGTTTCTATAAACAATATATTTTATTACTTTATATAGTTTATGCATAGTGT
131 GATTTAGGATTTAGGGTTTCTATAAACAATATATTTTATTACTTTATATAGTTTATGCATAGTGT
55416 TTCTATAAACTATATAAGTAATTTACTTTATATAG-T-T-TATATATATAGTTTATATATACTAT
196 TTCTATAAACTATATAAGTAATTTACTTTATATAGTTATATATATATATAGTTTATATATACTAT
55478 ACATGGTTTATACATACATATTATATAAAATTATTTAATAAAATTAATAAAATTATTTAAATGTA
261 ACATGGTTTATACATACATATTATAT--AA--A-TT-AT----TTAATAAAATTATTTAAATGTA
*
55543 AATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGT
316 AATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTCCATATTATATGGT
*
55608 TCATAAATAGTAGTACATGTCATATTAATTTAAATTGCATAATTTGTATTTTAGTTGCATGTTAG
381 TCATAAATAGTAGTACATGTCATATTAATTTAAATTGCATAATTAGTATTTTAGTTGCATGTTAG
*
55673 GTTAATTCACATTAATGGCTCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACTCAAAAAT
446 GTTAATTCACATTAATGGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACTCAAAAAT
55738 AAGTCCATTTACAATAGTGCTAGTCCATTA
511 AAGTCCATTTACAATAGTGCTAGTCCATTA
* * *
55768 ACATTAGTTTACATAGGCCCA-ACGCAAG-CTCACTCTTTTATTACAAATATATATGCATTAGTG
1 ACATTAGTTTACAAAGGCCAATACACAAGTC-CACTCTTTTATTACAAATATATATGCATTAGTG
* ***
55831 CTAGTCCATTTACATTAGGGTTTATGATTTAGTGTTTA-GTGTTTGTGGTTTA-AAGTTTAGAGT
65 CTAGTCCATTTAAATTAGGGTTTATGATTTAGTGTTTATG-GTTTAAAGTTTAGAA--TTAGAGT
* * * *
55894 TTAGGGTTTATGATTTAGGGTTTCTATAAACTATATATTTTATTACTTTATATAGTTTATGTATA
127 TTAGGATTTAGGATTTAGGGTTTCTATAAACAATATATTTTATTACTTTATATAGTTTATGCATA
*
55959 GTGTTTCTATAAACTATATAAGTAATTTATTTTATATAGTTTATATATATATATATATATAGTTT
192 GTGTTTCTATAAACTATATAAGTAATTTACTTTATATAG------T-TATATATATATATAGTTT
56024 ATATATACTATACATGGTTTATACATACATATTATATAAATTATTTAATAAAATTATTTAAATGT
250 ATATATACTATACATGGTTTATACATACATATTATATAAATTATTTAATAAAATTATTTAAATGT
*
56089 AAATTATATAAAACATGATTAATTATGTGTTAAATAATTAGTATGTCACATTCCATATTATATGG
315 AAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTCCATATTATATGG
* *
56154 TTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTA
380 TTCATAAATAGTAGTACATGTCATATTAATTTAAATTGCATAATTAGTATTTTAGTTGCATGTTA
56219 GGTTAATTCACATTAATGGCCCATTTATTTTGTTGTTATGAATAA
445 GGTTAATTCACATTAATGGCCCATTTATTTTGTTGTTATGAATAA
56264 AGTAGGGGTG
Statistics
Matches: 459, Mismatches: 23, Indels: 28
0.90 0.05 0.05
Matches are distributed among these distances:
545 4 0.01
546 82 0.18
547 313 0.68
551 2 0.00
552 2 0.00
553 1 0.00
555 3 0.01
556 1 0.00
557 51 0.11
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.44
Consensus pattern (540 bp):
ACATTAGTTTACAAAGGCCAATACACAAGTCCACTCTTTTATTACAAATATATATGCATTAGTGC
TAGTCCATTTAAATTAGGGTTTATGATTTAGTGTTTATGGTTTAAAGTTTAGAATTAGAGTTTAG
GATTTAGGATTTAGGGTTTCTATAAACAATATATTTTATTACTTTATATAGTTTATGCATAGTGT
TTCTATAAACTATATAAGTAATTTACTTTATATAGTTATATATATATATAGTTTATATATACTAT
ACATGGTTTATACATACATATTATATAAATTATTTAATAAAATTATTTAAATGTAAATTATATAA
AACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTCCATATTATATGGTTCATAAATAG
TAGTACATGTCATATTAATTTAAATTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCAC
ATTAATGGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACTCAAAAATAAGTCCATTT
ACAATAGTGCTAGTCCATTA
Found at i:56019 original size:23 final size:24
Alignment explanation
Indices: 55991--56035 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
55981 TAATTTATTT
55991 TATATAGTTTATATATA-TATATA
1 TATATAGTTTATATATACTATATA
56014 TATATAGTTTATATATACTATA
1 TATATAGTTTATATATACTATA
56036 CATGGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (24 bp):
TATATAGTTTATATATACTATATA
Found at i:57339 original size:21 final size:21
Alignment explanation
Indices: 57310--57368 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
57300 TCTATTTACA
* **
57310 TTAGGGTTTATGATTTAGTGT
1 TTAGGGTTTATGGTTTAAAGT
* *
57331 TTAGTGTTTCTGGTTTAAAGT
1 TTAGGGTTTATGGTTTAAAGT
57352 TTAGGGTTTATGGTTTA
1 TTAGGGTTTATGGTTTA
57369 TGATTTAAGG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.02, G:0.27, T:0.53
Consensus pattern (21 bp):
TTAGGGTTTATGGTTTAAAGT
Found at i:57375 original size:21 final size:20
Alignment explanation
Indices: 57310--57381 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
57300 TCTATTTACA
* *
57310 TTAGGGTTTATGATTTAGTGT
1 TTAGGGTTTATGGTTTAG-AT
* * *
57331 TTAGTGTTTCTGGTTTAAAGT
1 TTAGGGTTTATGGTTTAGA-T
57352 TTAGGGTTTATGGTTTATGAT
1 TTAGGGTTTATGGTTTA-GAT
*
57373 TTAAGGTTT
1 TTAGGGTTT
57382 CTATAAACTA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 39 0.98
22 1 0.03
ACGTcount: A:0.19, C:0.01, G:0.26, T:0.53
Consensus pattern (20 bp):
TTAGGGTTTATGGTTTAGAT
Found at i:57432 original size:19 final size:20
Alignment explanation
Indices: 57403--57474 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
57393 ATAAGTAATT
*
57403 TACTTTATATAGTTTATATA
1 TACTATATATAGTTTATATA
57423 TA-TATATATAGTTTATATA
1 TACTATATATAGTTTATATA
* * *
57442 TACTATACATGGTTTATACA
1 TACTATATATAGTTTATATA
57462 TACATATTATATA
1 TAC-TA-TATATA
57475 AAATTATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
19 18 0.42
20 19 0.44
21 2 0.05
22 4 0.09
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.49
Consensus pattern (20 bp):
TACTATATATAGTTTATATA
Found at i:57482 original size:13 final size:13
Alignment explanation
Indices: 57472--57498 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57462 TACATATTAT
57472 ATAAAATTATTTA
1 ATAAAATTATTTA
57485 ATAAAATTATTTA
1 ATAAAATTATTTA
57498 A
1 A
57499 ATGTAAATTA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:57508 original size:15 final size:14
Alignment explanation
Indices: 57472--57514 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
57462 TACATATTAT
57472 ATAAAATTATTT-A
1 ATAAAATTATTTAA
57485 ATAAAATTATTTAA
1 ATAAAATTATTTAA
* *
57499 ATGTAAATTATATAA
1 AT-AAAATTATTTAA
57514 A
1 A
57515 ACATGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:57651 original size:34 final size:34
Alignment explanation
Indices: 57613--57677 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
57603 TCCATTTATA
* *
57613 TTAGGGTTTATGGTTTAGTG-TTTATGGTTTAAAG
1 TTAGGGTGTATGGTTTA-TGATTTAGGGTTTAAAG
57647 TTAGGGTGTATGGTTTATGATTTAGGGTTTA
1 TTAGGGTGTATGGTTTATGATTTAGGGTTTA
57678 TGATTTCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 2 0.07
34 26 0.93
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (34 bp):
TTAGGGTGTATGGTTTATGATTTAGGGTTTAAAG
Found at i:57683 original size:14 final size:14
Alignment explanation
Indices: 57613--57679 Score: 64
Period size: 14 Copynumber: 4.9 Consensus size: 14
57603 TCCATTTATA
57613 TTAGGGTTTATGGT
1 TTAGGGTTTATGGT
*
57627 TTAGTGTTTATGGT
1 TTAGGGTTTATGGT
** *
57641 TTAAAG-TTAGGGT
1 TTAGGGTTTATGGT
* * *
57654 GTATGGTTTATGAT
1 TTAGGGTTTATGGT
57668 TTAGGGTTTATG
1 TTAGGGTTTATG
57680 ATTTCTATAA
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
13 9 0.22
14 32 0.78
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.49
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:57897 original size:21 final size:21
Alignment explanation
Indices: 57844--57898 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
57834 ATATACATAT
57844 CATACATGCATTAATAAATTATA
1 CATACATGCA-TAAT-AATTATA
**
57867 CATATTTGCATACAT-ATTATA
1 CATACATGCATA-ATAATTATA
57888 CATACATGCAT
1 CATACATGCAT
57899 GCATTAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 15 0.56
22 2 0.07
23 10 0.37
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.36
Consensus pattern (21 bp):
CATACATGCATAATAATTATA
Found at i:59759 original size:7 final size:7
Alignment explanation
Indices: 59722--59774 Score: 70
Period size: 7 Copynumber: 7.3 Consensus size: 7
59712 TCGACAGTAG
59722 AAATTAT
1 AAATTAT
*
59729 AAATTGT
1 AAATTAT
59736 AATATTATT
1 AA-ATTA-T
*
59745 ATATTAT
1 AAATTAT
59752 AAATTAT
1 AAATTAT
59759 AAATTAT
1 AAATTAT
59766 AAATTAT
1 AAATTAT
59773 AA
1 AA
59775 TACATTTACA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
7 31 0.77
8 7 0.17
9 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (7 bp):
AAATTAT
Found at i:60894 original size:27 final size:27
Alignment explanation
Indices: 60864--60946 Score: 139
Period size: 27 Copynumber: 3.1 Consensus size: 27
60854 ATTATTTTTA
* *
60864 TTATTTATCCATATGTATATACAAACG
1 TTATTTATCAATATATATATACAAACG
*
60891 TTATTTATCAATATATATATACAAAAG
1 TTATTTATCAATATATATATACAAACG
60918 TTATTTATCAATATATATATACAAACG
1 TTATTTATCAATATATATATACAAACG
60945 TT
1 TT
60947 TTTTTATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (27 bp):
TTATTTATCAATATATATATACAAACG
Found at i:61186 original size:9 final size:9
Alignment explanation
Indices: 61164--61247 Score: 50
Period size: 9 Copynumber: 9.4 Consensus size: 9
61154 TATCTTTCTT
*
61164 TTTTATTTG
1 TTTTATTTA
*
61173 CTTTATTTA
1 TTTTATTTA
*
61182 TTTTATTCA
1 TTTTATTTA
**
61191 TTTTA-CCA
1 TTTTATTTA
61199 --TTACTTTA
1 TTTTA-TTTA
61207 TTTTTATTT-
1 -TTTTATTTA
61216 TTTTATTTA
1 TTTTATTTA
* *
61225 TCTTCTTTA
1 TTTTATTTA
61234 TTTTATATTA
1 TTTTAT-TTA
61244 TTTT
1 TTTT
61248 CCTTATTTCG
Statistics
Matches: 57, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
6 3 0.05
8 11 0.19
9 30 0.53
10 10 0.18
11 3 0.05
ACGTcount: A:0.19, C:0.08, G:0.01, T:0.71
Consensus pattern (9 bp):
TTTTATTTA
Found at i:61244 original size:19 final size:18
Alignment explanation
Indices: 61216--61255 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
61206 ATTTTTATTT
*
61216 TTTTATTTATCTTCTTTA
1 TTTTATTTATCTTCCTTA
*
61234 TTTTATATTATTTTCCTTA
1 TTTTAT-TTATCTTCCTTA
61253 TTT
1 TTT
61256 CGTTCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTATTTATCTTCCTTA
Found at i:63491 original size:12 final size:12
Alignment explanation
Indices: 63474--63509 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
63464 AGGAGGATAA
63474 GGAAAAGAAGAT
1 GGAAAAGAAGAT
63486 GGAAAAGAAGAT
1 GGAAAAGAAGAT
* *
63498 TGAAGAGAAGAT
1 GGAAAAGAAGAT
63510 CAAGATGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.33, T:0.11
Consensus pattern (12 bp):
GGAAAAGAAGAT
Found at i:65298 original size:95 final size:95
Alignment explanation
Indices: 65130--65311 Score: 294
Period size: 95 Copynumber: 1.9 Consensus size: 95
65120 ATATTATTTA
* * *
65130 TATATAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCCCGGCTTTATGGATAAT
1 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAG
*
65195 ATTCAGCTAGCCTGATAAAGGTGATTATAC
66 ATTCAGCTAACCTGATAAAGGTGATTATAC
*
65225 TATACAATAAAGCTTGAGTTGTCCCTCTA-AGGCAATTGGTTAAACGCCCTGGCTTTATGGATAA
1 TATACAATAAAGCTTGAGTTGTCCCTCTAGA-GCAATTGGTTAAACGCCCCGGCTTTATGGATAA
*
65289 GGTTCAGCTAACCTGATAAAGGT
65 GATTCAGCTAACCTGATAAAGGT
65312 ATTTACATAT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
94 1 0.01
95 79 0.99
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (95 bp):
TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAG
ATTCAGCTAACCTGATAAAGGTGATTATAC
Found at i:66791 original size:37 final size:37
Alignment explanation
Indices: 66739--66810 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
66729 TTTAAAGAAG
* * *
66739 ATTTTATCTCGCTTGATATAGTTTCCCTTGAAACAAA
1 ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACAAA
* *
66776 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACA
66811 TAAACATTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (37 bp):
ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:66888 original size:87 final size:87
Alignment explanation
Indices: 66739--66905 Score: 271
Period size: 87 Copynumber: 1.9 Consensus size: 87
66729 TTTAAAGAAG
* * *
66739 ATTTTATCTCGCTTGATATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTATCTCGCTTGAGATAGTTTCCCTAGAAACAAAATTTTGTCTCCCTTGAGACAATTTCTCT
66804 TGAAACATAAACATTGAAATGA
66 TGAAACATAAACATTGAAATGA
* * *
66826 ATTTTGTCTCTCTTGAGATAGTTTTCCTAGAAACAAAATTTTGTCTCCCTTGAGACAATTTCTCT
1 ATTTTATCTCGCTTGAGATAGTTTCCCTAGAAACAAAATTTTGTCTCCCTTGAGACAATTTCTCT
*
66891 TGAAATATAAACATT
66 TGAAACATAAACATT
66906 AAAAACATTT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.40
Consensus pattern (87 bp):
ATTTTATCTCGCTTGAGATAGTTTCCCTAGAAACAAAATTTTGTCTCCCTTGAGACAATTTCTCT
TGAAACATAAACATTGAAATGA
Found at i:66963 original size:102 final size:102
Alignment explanation
Indices: 66817--67128 Score: 473
Period size: 102 Copynumber: 3.1 Consensus size: 102
66807 AACATAAACA
* *
66817 TTGAAATGAATTTTGTCTCTCTTGAGATAGTTTTCCTAGAAACAAAATTTTGTCTCCCTTGAGAC
1 TTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGAC
*
66882 AATTTCTCTTGAAATATAAACATTAAAAACATTTCCC
66 AATTTCTCTTGAAATATAAACATTGAAAACATTTCCC
* *
66919 TTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAAATTTGTCTCCCTAGAGAC
1 TTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGAC
* * *
66984 AGTTTCTCTTGGAACATAAACATTGAAAACATTTCCC
66 AATTTCTCTTGAAATATAAACATTGAAAACATTTCCC
* * *
67021 TTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTTGGAAC-AAATTTTGTCTCCATTGAGAC
1 TTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGAC
* * * *
67085 GATTTCTCTTGAAATATAAAACTTTGAAAACGTTTCCA
66 AATTTCTCTTGAAATAT-AAACATTGAAAACATTTCCC
67123 TTGAAA
1 TTGAAA
67129 CACAAAATGT
Statistics
Matches: 189, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
101 31 0.16
102 158 0.84
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.38
Consensus pattern (102 bp):
TTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGAC
AATTTCTCTTGAAATATAAACATTGAAAACATTTCCC
Found at i:66988 original size:37 final size:37
Alignment explanation
Indices: 66913--66999 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 37
66903 ATTAAAAACA
** * * * *
66913 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAAATTTGTCTCCCTAGAGACAG
66949 TTTCCCTTGAAACAAAAATTTGTCTCCCTAGAGACAG
1 TTTCCCTTGAAACAAAAATTTGTCTCCCTAGAGACAG
* *
66986 TTTCTCTTGGAACA
1 TTTCCCTTGAAACA
67000 TAAACATTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 12 0.29
37 30 0.71
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAAATTTGTCTCCCTAGAGACAG
Found at i:67069 original size:36 final size:36
Alignment explanation
Indices: 67015--67083 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
67005 ATTGAAAACA
** *
67015 TTTCCCTTGAAATGAATTTTTTCTCTC-TTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTC-CATTGAGATAG
*
67051 TTTCCCTTGGAACAAATTTTGTCTCCATTGAGA
1 TTTCCCTTGAAACAAATTTTGTCTCCATTGAGA
67084 CGATTTCTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 1 0.04
36 27 0.96
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCCATTGAGATAG
Found at i:67172 original size:29 final size:29
Alignment explanation
Indices: 67116--67192 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
67106 CTTTGAAAAC
* *
67116 GTTTCCATTGAAACACAAAATGTTTGAATCA
1 GTTTCCCTTG-AA-ACAAAATATTTGAATCA
*
67147 GTTTCCCTTGAAACAAAATATTTGAATCT
1 GTTTCCCTTGAAACAAAATATTTGAATCA
* *
67176 GTTTTCCTTTAAACAAA
1 GTTTCCCTTGAAACAAA
67193 TTTTGTCACT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
29 30 0.73
30 2 0.05
31 9 0.22
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (29 bp):
GTTTCCCTTGAAACAAAATATTTGAATCA
Found at i:67308 original size:68 final size:70
Alignment explanation
Indices: 67223--67359 Score: 183
Period size: 68 Copynumber: 2.0 Consensus size: 70
67213 TTTTTCTTGA
* **
67223 AAAATTTTGTCTCCCTTGAGA-CGGTTTCTTTTGAAAC-ACAAA-ATCTTTGA-ATTTATTTCCC
1 AAAATTTTGTCTACCTTGAGATC-GTTTCTCATGAAACAACAAATATCTTTGAGA-TTATTTCCC
67284 TTAAAAC
64 TTAAAAC
* *
67291 AAAATTTTGTTTACCTTGAGATCGTTTCTCATGAAACAACAAATATCTTTGAGATTGTTTCCCTT
1 AAAATTTTGTCTACCTTGAGATCGTTTCTCATGAAACAACAAATATCTTTGAGATTATTTCCCTT
67356 AAAA
66 AAAA
67360 TGAATTCTGT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
68 31 0.52
69 6 0.10
70 22 0.37
71 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (70 bp):
AAAATTTTGTCTACCTTGAGATCGTTTCTCATGAAACAACAAATATCTTTGAGATTATTTCCCTT
AAAAC
Found at i:69000 original size:29 final size:26
Alignment explanation
Indices: 68971--69060 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 26
68961 ATTATTTTTA
*
68971 TTATTTATCCATATGTATATACAAAC
1 TTATTTATCCATATATATATACAAAC
68997 TTATTTATCCATATATATATATACAAAC
1 TTATTTATCC--ATATATATATACAAAC
*
69025 GTTATTTGTCCATATATATATACAAAC
1 -TTATTTATCCATATATATATACAAAC
*
69052 GTTTTTTAT
1 -TTATTTAT
69061 TTTGTATACC
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 10 0.18
27 23 0.40
28 15 0.26
29 9 0.16
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (26 bp):
TTATTTATCCATATATATATACAAAC
Found at i:69204 original size:2 final size:2
Alignment explanation
Indices: 69194--69226 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
69184 ATATTACCAT
*
69194 TA TA T- TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
69227 CATCTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:69259 original size:25 final size:24
Alignment explanation
Indices: 69192--69262 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 24
69182 ATATATTACC
69192 ATTATATTATATA-TATATATATAT
1 ATTATATTATATATTAT-TATATAT
* *
69216 ATTTATATATACATCTTATTACTAT-T
1 A-TTATAT-TATATATTATTA-TATAT
69242 ATTATATGTATATATTATTAT
1 ATTATAT-TATATATTATTAT
69263 TACTATCTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
24 2 0.05
25 22 0.58
26 8 0.21
27 6 0.16
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (24 bp):
ATTATATTATATATTATTATATAT
Found at i:69333 original size:25 final size:24
Alignment explanation
Indices: 69287--69335 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
69277 ATTTTATTTG
69287 CTTTATTTATTTTATTCATTTTTAC
1 CTTTATTTATTTTATT-ATTTTTAC
69312 CTTTACTTTATTTTTATT-TTTTTA
1 CTTTA-TTTA-TTTTATTATTTTTA
69336 TTTATCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 11 0.50
26 4 0.18
27 7 0.32
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.71
Consensus pattern (24 bp):
CTTTATTTATTTTATTATTTTTAC
Found at i:69353 original size:14 final size:13
Alignment explanation
Indices: 69270--69354 Score: 50
Period size: 13 Copynumber: 6.1 Consensus size: 13
69260 TATTACTATC
*
69270 TTTCTTCATTTTA
1 TTTCTTTATTTTA
69283 TTTGCTTTA-TTTA
1 TTT-CTTTATTTTA
69296 TTT-TATTCATTTTTA
1 TTTCT-TT-A-TTTTA
69311 CCTTTACTTTATTTTTA
1 --TTT-CTTTA-TTTTA
*
69328 TTTTTTTA-TTTA
1 TTTCTTTATTTTA
69340 TCTTCTTTATTTTA
1 T-TTCTTTATTTTA
69354 T
1 T
69355 AATATTTTCC
Statistics
Matches: 58, Mismatches: 3, Indels: 21
0.71 0.04 0.26
Matches are distributed among these distances:
11 1 0.02
12 7 0.12
13 17 0.29
14 13 0.22
15 7 0.12
17 10 0.17
18 2 0.03
19 1 0.02
ACGTcount: A:0.16, C:0.11, G:0.01, T:0.72
Consensus pattern (13 bp):
TTTCTTTATTTTA
Found at i:70300 original size:17 final size:18
Alignment explanation
Indices: 70263--70306 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
70253 AAAATCCGTA
70263 GAACACTTACGAAAGGGG
1 GAACACTTACGAAAGGGG
70281 GAACACTTACGAAA-GGG
1 GAACACTTACGAAAGGGG
70298 GAACACTTA
1 GAACACTTA
70307 TAAGAGGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.41, C:0.18, G:0.27, T:0.14
Consensus pattern (18 bp):
GAACACTTACGAAAGGGG
Found at i:71620 original size:20 final size:20
Alignment explanation
Indices: 71588--71639 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
71578 AAATAAATAT
* * *
71588 TAAA-ATTTGATTTTTTTTT
1 TAAATATTTTATTTATTTTA
*
71607 TAATTATTTTATTTATTTTA
1 TAAATATTTTATTTATTTTA
71627 TAAATATTTTATT
1 TAAATATTTTATT
71640 ACAAACTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TAAATATTTTATTTATTTTA
Found at i:73191 original size:33 final size:33
Alignment explanation
Indices: 73149--73223 Score: 141
Period size: 33 Copynumber: 2.2 Consensus size: 33
73139 TCAACTTGTG
73149 TTTGAGCTCATTGCAAATCTTTTTATTGTTTTC
1 TTTGAGCTCATTGCAAATCTTTTTATTGTTTTC
73182 TTTGAGCTCATTGCAAATCTTTTTATTGTTTTC
1 TTTGAGCTCATTGCAAATCTTTTTATTGTTTTC
73215 TTGTGAGCT
1 TT-TGAGCT
73224 TAATTTTTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 35 0.85
34 6 0.15
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.53
Consensus pattern (33 bp):
TTTGAGCTCATTGCAAATCTTTTTATTGTTTTC
Done.