Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008064.1 Hibiscus syriacus cultivar Beakdansim tig00110561_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: 399611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
File 1 of 2
Found at i:375 original size:69 final size:68
Alignment explanation
Indices: 272--407 Score: 186
Period size: 69 Copynumber: 2.0 Consensus size: 68
262 GGAATCGGTT
* *
272 CCCCCCCTGGGTATCGATCCCCTTAAGCAATCTGGAATTCATATACGATG-AGGGGTATCGGTTC
1 CCCCCCCTGGGTACCGATCCCCTTAAGCAATCTGGAAATCATATACGATGAAGGGGTATCGGTTC
336 CCC
66 CCC
* * *
339 CCCCCCCTGGGGTACCGATTCCCCTCT-AGCATTCTGGAAATCATATTCGTTGAAGGGGTATCGG
1 CCCCCCCT-GGGTACCGA-TCCCCT-TAAGCAATCTGGAAATCATATACGATGAAGGGGTATCGG
403 TTCCC
63 TTCCC
408 TTGAATGGTA
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
67 8 0.13
68 8 0.13
69 27 0.45
70 17 0.28
ACGTcount: A:0.19, C:0.32, G:0.23, T:0.26
Consensus pattern (68 bp):
CCCCCCCTGGGTACCGATCCCCTTAAGCAATCTGGAAATCATATACGATGAAGGGGTATCGGTTC
CCC
Found at i:4551 original size:11 final size:11
Alignment explanation
Indices: 4535--4559 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4525 CAACGGGTTC
4535 CTTCCTCGCCT
1 CTTCCTCGCCT
4546 CTTCCTCGCCT
1 CTTCCTCGCCT
4557 CTT
1 CTT
4560 TGTGAAAAAG
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:0.00, C:0.52, G:0.08, T:0.40
Consensus pattern (11 bp):
CTTCCTCGCCT
Found at i:6371 original size:21 final size:22
Alignment explanation
Indices: 6318--6383 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
6308 CTCGTATAAA
6318 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
6340 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
6362 TGCA-CGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
6383 T
1 T
6384 TTGTCCATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
21 18 0.41
22 26 0.59
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.20
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:6712 original size:29 final size:28
Alignment explanation
Indices: 6670--6748 Score: 101
Period size: 29 Copynumber: 2.9 Consensus size: 28
6660 TTTTCTGCAT
*
6670 ATTCATGTCATGTAATACATATA-AGATGA
1 ATTCATGTCATGTAATACATATATACA--A
*
6699 ATTCATGTCATGTAATACATTTATACAA
1 ATTCATGTCATGTAATACATATATACAA
6727 ATTCATGTCATGT-AT-CATATAT
1 ATTCATGTCATGTAATACATATAT
6749 GGAATGTAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
26 6 0.13
27 2 0.04
28 14 0.30
29 22 0.48
30 2 0.04
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (28 bp):
ATTCATGTCATGTAATACATATATACAA
Found at i:7153 original size:67 final size:64
Alignment explanation
Indices: 7037--7183 Score: 199
Period size: 67 Copynumber: 2.3 Consensus size: 64
7027 CTTTTCTCAT
* * *
7037 GGGGGAATCGGTTCCCCCCCTGGGGTATCGATTCCCCTTAAGCAATCTGGAATTCATATACGATG
1 GGGGGTATCGGTTCCCCCCCTGGGGTACCGATTCCCCTTAAGCAATCTGGAAATCATATACGA--
7102 A
64 A
* *
7103 GGGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCCCTCT-AGCATTCTGGAAATCATATTCGA
1 GGGGGTATCGGTTCCCCCCCT-GGGGTACCGATTCCCCT-TAAGCAATCTGGAAATCATATACGA
7167 A
64 A
7168 -GGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
7184 TTGAATGGGT
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
64 16 0.22
65 1 0.01
66 20 0.27
67 36 0.49
68 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.26
Consensus pattern (64 bp):
GGGGGTATCGGTTCCCCCCCTGGGGTACCGATTCCCCTTAAGCAATCTGGAAATCATATACGAA
Found at i:8850 original size:6 final size:6
Alignment explanation
Indices: 8839--8914 Score: 71
Period size: 6 Copynumber: 12.7 Consensus size: 6
8829 CAAGCGGTCA
* * * * *
8839 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * *
8887 CTGACG ATGAAG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGA
8915 TGGATGATGA
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:8876 original size:3 final size:3
Alignment explanation
Indices: 8856--8925 Score: 68
Period size: 3 Copynumber: 23.0 Consensus size: 3
8846 TGAAGCTGAC
* * * * * * *
8856 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
8904 GAT GAT GAT GAT GGAT GAT GAT
1 GAT GAT GAT GAT -GAT GAT GAT
8926 CCAAACAAGT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:8891 original size:36 final size:36
Alignment explanation
Indices: 8839--8914 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
8829 CAAGCGGTCA
8839 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
* *
8875 ATGACGATGAAGCTGACGATGAAGATGATGATGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
8911 ATGA
1 ATGA
8915 TGGATGATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.21
Consensus pattern (36 bp):
ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
Found at i:8916 original size:12 final size:12
Alignment explanation
Indices: 8839--8914 Score: 98
Period size: 12 Copynumber: 6.3 Consensus size: 12
8829 CAAGCGGTCA
*
8839 ATGAAGATGAAG
1 ATGACGATGAAG
*
8851 CTGACGATGAAG
1 ATGACGATGAAG
*
8863 ATGACGATGATG
1 ATGACGATGAAG
8875 ATGACGATGAAG
1 ATGACGATGAAG
*
8887 CTGACGATGAAG
1 ATGACGATGAAG
* *
8899 ATGATGATGATG
1 ATGACGATGAAG
8911 ATGA
1 ATGA
8915 TGGATGATGA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 55 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.21
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:10111 original size:16 final size:16
Alignment explanation
Indices: 10090--10122 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10080 TATCCACAAC
*
10090 AAAGTGTCGATTTAAA
1 AAAGTGTCGATTGAAA
10106 AAAGTGTCGATTGAAA
1 AAAGTGTCGATTGAAA
10122 A
1 A
10123 TGTAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.27
Consensus pattern (16 bp):
AAAGTGTCGATTGAAA
Found at i:10500 original size:20 final size:20
Alignment explanation
Indices: 10477--10541 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
10467 TAAAAATATG
10477 ATGTAATAGGTAGCGCTTAT
1 ATGTAATAGGTAGCGCTTAT
* * *
10497 ATGT-A-AGATATCGTTTAT
1 ATGTAATAGGTAGCGCTTAT
* * *
10515 ATATAATAGGTAGTGGTTAT
1 ATGTAATAGGTAGCGCTTAT
10535 ATTGTAA
1 A-TGTAA
10542 AGTATCTATC
Statistics
Matches: 33, Mismatches: 9, Indels: 5
0.70 0.19 0.11
Matches are distributed among these distances:
18 13 0.39
19 2 0.06
20 14 0.42
21 4 0.12
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.40
Consensus pattern (20 bp):
ATGTAATAGGTAGCGCTTAT
Found at i:11513 original size:181 final size:181
Alignment explanation
Indices: 10902--11560 Score: 1105
Period size: 181 Copynumber: 3.7 Consensus size: 181
10892 GCAATGCTAT
* *
10902 CGGTATAA-ATATCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTG
1 CGGTATAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTG
10966 TGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACAT
66 TGTCGGTACTTTATGTCCAGATTGGAAG-AAAATGTGTCGATACATTGTCAAAAAGTGTCGACAT
11031 TTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 TTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
11083 CGGTATAA-ATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATA-T-
1 CGGTATAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTG
*
11145 TGTCGGTACTTTATGTCCATATTGGAAGAAAATGTGTCGATACATTGTCAAAAAGTGTCGACATT
66 TGTCGGTACTTTATGTCCAGATTGGAAGAAAATGTGTCGATACATTGTCAAAAAGTGTCGACATT
11210 TACACATCGGAACCCATAATTATAATGT-ATAGATAA-TTTGTAATATAAC
131 TACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
11259 CGG--T-ATATACCGGTTTTATGAGCGAATAGGTCTAC-ACCTATATCGACACTTTCTAATATTG
1 CGGTATAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTG
*
11320 TGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCG-TACCATT-TAAAAAAGTGTCGACA
66 TGTCGGTACTTTATGTCCAGATTGGAAG-AAAATGTGTCGATA-CATTGTCAAAAAGTGTCGACA
* *
11383 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
129 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
11436 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC-ACCTATATCGACACTTTCTAATATT
1 CGGTAT-AATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
11500 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAATGTGTCGATACCCATT-T-AAAAAGTGTCG
65 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAATGTGTCGATA--CATTGTCAAAAAGTGTCG
11561 GTAATTTTAA
Statistics
Matches: 458, Mismatches: 7, Indels: 26
0.93 0.01 0.05
Matches are distributed among these distances:
173 24 0.05
174 31 0.07
175 72 0.16
176 39 0.09
177 24 0.05
178 65 0.14
179 28 0.06
180 12 0.03
181 157 0.34
182 6 0.01
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Consensus pattern (181 bp):
CGGTATAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTG
TGTCGGTACTTTATGTCCAGATTGGAAGAAAATGTGTCGATACATTGTCAAAAAGTGTCGACATT
TACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:13989 original size:25 final size:25
Alignment explanation
Indices: 13961--14025 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
13951 TTATCATTAA
*
13961 ATTTAGGTATGTACGATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
13986 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
14011 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
14026 TCTTTTGAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:14400 original size:23 final size:22
Alignment explanation
Indices: 14369--14440 Score: 99
Period size: 23 Copynumber: 3.2 Consensus size: 22
14359 ATAGGTAAAA
*
14369 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCG-TT
*
14392 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCG-TT
*
14415 ATATAATGTAATAGGTAGTGTT
1 ATATAATGTAATAGGTAGCGTT
14437 ATAT
1 ATAT
14441 GTAAAGTATC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 6 0.14
23 38 0.86
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (22 bp):
ATATAATGTAATAGGTAGCGTT
Found at i:14828 original size:23 final size:23
Alignment explanation
Indices: 14797--14869 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
14787 ATAGGTAAAA
*
14797 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
14820 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
14843 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
14866 ATAT
1 ATAT
14870 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:15259 original size:23 final size:23
Alignment explanation
Indices: 15228--15300 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
15218 ATAGGTAAAA
*
15228 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
15251 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
15274 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
15297 ATAT
1 ATAT
15301 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:15415 original size:431 final size:431
Alignment explanation
Indices: 14165--15465 Score: 2396
Period size: 430 Copynumber: 3.0 Consensus size: 431
14155 GTTAATGTTG
*
14165 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
*
14229 ATGAAATTATTAAATTAGTATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
*
14294 AAATTACATAACTTTAAACAAAGTATCGATCCTTTTTTATAAAAAGTATGGACACTTTCAATATA
130 AAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTTATAAAAAGTATGGACACTTTCAATATA
14359 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
195 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
14424 AATAGGTAGT-GTTATA-TGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACT
260 AATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACT
14487 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
325 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
*
14552 GCGTCTAATGATTTCTTTTTTACGTTACGATATATATTATTA
390 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
* * *
14594 TTAAATTAAAAATTCTATATATTATTTTATCAAATATCAAAAAAATCAAATAATTTTTTGTGTAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
14659 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
* *
14723 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTTATAAAAAGTATAGACACTTTCAATATAA
131 AATTACATAACTTTAAAAAAAGTATCGATCCTTTTTTATAAAAAGTATGGACACTTTCAATATAA
14788 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* * *
14853 ATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATATTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
14918 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
*
14983 CGTTTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
15024 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
15089 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA-TTGAAACAT
15154 AAATTACATAACTTTAAAAAAAGTATCGATCC-TTTTTATAAAAAGTATGGACACTTTCAATATA
130 AAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTTATAAAAAGTATGGACACTTTCAATATA
*
15218 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGT
195 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
*
15283 AATAGGTAGTGGTTATATTGTAAAGTATTTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACT
260 AATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACT
*
15348 GTGGAAAACATTAATTTAATGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
325 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
15413 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
390 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
15455 TTAAATTAAAA
1 TTAAATTAAAA
15466 GCAATAAACA
Statistics
Matches: 841, Mismatches: 26, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
428 152 0.18
429 13 0.02
430 358 0.43
431 278 0.33
432 40 0.05
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (431 bp):
TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
AATTACATAACTTTAAAAAAAGTATCGATCCTTTTTTATAAAAAGTATGGACACTTTCAATATAA
TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:16227 original size:2 final size:2
Alignment explanation
Indices: 16222--16251 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16212 CTAAATACAA
16222 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
16252 GTATGTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19422 original size:42 final size:43
Alignment explanation
Indices: 19218--19527 Score: 206
Period size: 43 Copynumber: 7.3 Consensus size: 43
19208 TAATTTTAAT
* *
19218 TTTTTATCCTTATAATTGATGTTCTTAATTTTTGT-AATC-CTAC
1 TTTTTATCTTTATAATTGATGTTCCTAATTTTT-TCAATCTC-AC
* ** * *
19261 TTTTTATCTTTATAATAGA-GACCCTTAATTTTTTCAATCCCAT
1 TTTTTATCTTTATAATTGATGTTCC-TAATTTTTTCAATCTCAC
* * * *
19304 TTTTTTTCATTTATAATTGATGATCCTAAGTTTTTCAATCCCAC
1 TTTTTATC-TTTATAATTGATGTTCCTAATTTTTTCAATCTCAC
* * * *** * **
19348 CTTGTACCTTTATAATT-AAACTACTGCTTTTTTCAATCTCAC
1 TTTTTATCTTTATAATTGATGTTCCTAATTTTTTCAATCTCAC
* * *
19390 TTTTTATTTTTATAATTGAGGTTCCTAATTTTTTCAATATCAC
1 TTTTTATCTTTATAATTGATGTTCCTAATTTTTTCAATCTCAC
* * * * * *
19433 CTTTTA-CCTTAAAATTTGATGCTCCT-ATTTTTTTAATATCAC
1 TTTTTATCTTTATAA-TTGATGTTCCTAATTTTTTCAATCTCAC
* * *
19475 TTTTTAGCTTTATAATTG-TGGTCCCTAATTTTTTTAATCAT-AC
1 TTTTTATCTTTATAATTGAT-GTTCCTAATTTTTTCAATC-TCAC
19518 TTTTTA-CTTT
1 TTTTTATCTTT
19528 TATAGTTTAA
Statistics
Matches: 209, Mismatches: 47, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
41 1 0.00
42 69 0.33
43 103 0.49
44 32 0.15
45 4 0.02
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.52
Consensus pattern (43 bp):
TTTTTATCTTTATAATTGATGTTCCTAATTTTTTCAATCTCAC
Found at i:19464 original size:85 final size:85
Alignment explanation
Indices: 19288--19508 Score: 214
Period size: 85 Copynumber: 2.6 Consensus size: 85
19278 GAGACCCTTA
* * * * * *
19288 ATTTTTTCAATCCCA-TTTTTTTTCATTTATAATTGATGATCCTAAGTTTTTCAATCCCACCTTG
1 ATTTTTTCAATCTCACTTTTTATT--TTTATAATTGAGGTTCCTAATTTTTTCAATACCACCTTG
*
19352 TACCTTTATAATTAAACTACTG
64 TACCTTTAAAATTAAACTACTG
* * *
19374 CTTTTTTCAATCTCACTTTTTATTTTTATAATTGAGGTTCCTAATTTTTTCAATATCACCTTTTA
1 ATTTTTTCAATCTCACTTTTTATTTTTATAATTGAGGTTCCTAATTTTTTCAATACCACCTTGTA
** *
19439 CC-TTAAAATTTGATGCTCCT-
66 CCTTTAAAA-TT-AAACTACTG
* * ** * *
19459 ATTTTTTTAATATCACTTTTTAGCTTTATAATTGTGGTCCCTAATTTTTT
1 ATTTTTTCAATCTCACTTTTTATTTTTATAATTGAGGTTCCTAATTTTTT
19509 TAATCATACT
Statistics
Matches: 112, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
84 5 0.04
85 82 0.73
86 18 0.16
87 7 0.06
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.52
Consensus pattern (85 bp):
ATTTTTTCAATCTCACTTTTTATTTTTATAATTGAGGTTCCTAATTTTTTCAATACCACCTTGTA
CCTTTAAAATTAAACTACTG
Found at i:19544 original size:43 final size:43
Alignment explanation
Indices: 19375--19547 Score: 117
Period size: 43 Copynumber: 4.0 Consensus size: 43
19365 AAACTACTGC
* * ** **
19375 TTTTTTCAATCTCACTTTTTATTTTTATAATTG-AGGTTCCTAA
1 TTTTTTTAATATCACTTTTTAGCTTTATAATTGTA-GCCCCTAA
* * * * *
19418 TTTTTTCAATATCACCTTTTA-CCTTAAAATT-TGATGCTCCT-A
1 TTTTTTTAATATCACTTTTTAGCTTTATAATTGT-A-GCCCCTAA
* *
19460 TTTTTTTAATATCACTTTTTAGCTTTATAATTGTGGTCCCTAA
1 TTTTTTTAATATCACTTTTTAGCTTTATAATTGTAGCCCCTAA
*
19503 TTTTTTTAATCAT-ACTTTTTA-CTTTTATAGTT-TAAGCCCCTAA
1 TTTTTTTAAT-ATCACTTTTTAGC-TTTATAATTGT-AGCCCCTAA
19546 TT
1 TT
19548 CAATCATTTT
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
42 33 0.31
43 69 0.66
44 3 0.03
ACGTcount: A:0.24, C:0.16, G:0.06, T:0.53
Consensus pattern (43 bp):
TTTTTTTAATATCACTTTTTAGCTTTATAATTGTAGCCCCTAA
Found at i:20486 original size:31 final size:31
Alignment explanation
Indices: 20444--20696 Score: 443
Period size: 31 Copynumber: 8.2 Consensus size: 31
20434 GGTCACAATA
*
20444 TAAACTATTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
20475 TAGACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
20506 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
20537 TAGACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
20568 TAAACTGTTCATATATGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
20599 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
20630 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
20661 TAAACTGTTTATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
20692 TAAAC
1 TAAAC
20697 CCTCGACTCT
Statistics
Matches: 210, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 210 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.39
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:20489 original size:15 final size:15
Alignment explanation
Indices: 20469--20552 Score: 50
Period size: 15 Copynumber: 5.5 Consensus size: 15
20459 TGCCTTTAAA
20469 CATATGTAGACTGTT
1 CATATGTAGACTGTT
*
20484 CATATGT-GCCT-TT
1 CATATGTAGACTGTT
* *
20497 AAACATATATAAACTGTT
1 ---CATATGTAGACTGTT
*
20515 CATATGT-GCCT-TT
1 CATATGTAGACTGTT
20528 AAACATATGTAGACTGTT
1 ---CATATGTAGACTGTT
20546 CATATGT
1 CATATGT
20553 GCCTTTAAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 20
0.65 0.10 0.25
Matches are distributed among these distances:
13 4 0.08
14 5 0.10
15 20 0.39
16 13 0.25
17 5 0.10
18 4 0.08
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (15 bp):
CATATGTAGACTGTT
Found at i:21403 original size:64 final size:64
Alignment explanation
Indices: 21206--21430 Score: 204
Period size: 64 Copynumber: 3.5 Consensus size: 64
21196 TAATGAAGGT
* * * ** * * *** *
21206 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGT-ATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATCAATTGCATTCGATGT-TTCATTATTAAAGAG
* * * * *
21270 ATGCATCAATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATCAATTGCATTCGATGTTTCATTATTAAAGAG
* * *
21334 ATGCATCGATGCGCTACTTATGCATCGATGCATGAATTGCATTCGATGTATTTATT-TTAAA-AG
1 ATGCATCGATGCACTACTTATGCATCGATGCATCAATTGCATTCGATGT-TTCATTATTAAAGAG
** *
21397 AGTGCATCGATGCACTACCAATGCATCGGTGCAT
1 A-TGCATCGATGCACTACTTATGCATCGATGCAT
21431 ATTCAAACAA
Statistics
Matches: 134, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
63 3 0.02
64 126 0.94
65 5 0.04
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATCAATTGCATTCGATGTTTCATTATTAAAGAG
Found at i:21492 original size:21 final size:21
Alignment explanation
Indices: 21460--21536 Score: 136
Period size: 21 Copynumber: 3.7 Consensus size: 21
21450 TTAACCTTGA
*
21460 TGCATCGATGCACTAGGAATG
1 TGCATCGGTGCACTAGGAATG
*
21481 TGTATCGGTGCACTAGGAATG
1 TGCATCGGTGCACTAGGAATG
21502 TGCATCGGTGCACTAGGAATG
1 TGCATCGGTGCACTAGGAATG
21523 TGCATCGGTGCACT
1 TGCATCGGTGCACT
21537 CTACCCAGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.26
Consensus pattern (21 bp):
TGCATCGGTGCACTAGGAATG
Found at i:24387 original size:37 final size:35
Alignment explanation
Indices: 24319--24387 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
24309 TATTTTTTTA
*
24319 TTTTGTAAAAAAATTATAAATATTATGAATTTAAT
1 TTTTGTAAAAAAATTATAAATATTATCAATTTAAT
* *
24354 TTTTTTAAAAAAATATATAAATATTTTACAATTT
1 TTTTGTAAAAAAAT-TATAAATATTAT-CAATTT
24388 GTAATATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 13 0.45
36 11 0.38
37 5 0.17
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (35 bp):
TTTTGTAAAAAAATTATAAATATTATCAATTTAAT
Found at i:25263 original size:20 final size:20
Alignment explanation
Indices: 25171--25257 Score: 156
Period size: 20 Copynumber: 4.3 Consensus size: 20
25161 TATTCCCTGG
* *
25171 TAATCTTTCATTCCCACTGA
1 TAATCTTTTATTCCTACTGA
25191 TAATCTTTTATTCCTACTGA
1 TAATCTTTTATTCCTACTGA
25211 TAATCTTTTATTCCTACTGA
1 TAATCTTTTATTCCTACTGA
25231 TAATCTTTTATTCCTACTGA
1 TAATCTTTTATTCCTACTGA
25251 TAATCTT
1 TAATCTT
25258 ACATTCTGTG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.25, C:0.22, G:0.05, T:0.48
Consensus pattern (20 bp):
TAATCTTTTATTCCTACTGA
Found at i:27634 original size:18 final size:17
Alignment explanation
Indices: 27591--27637 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
27581 ACAACATTCT
27591 CAGTAATCTTATTCCCG
1 CAGTAATCTTATTCCCG
*
27608 CAGTAATCTTATTCCTG
1 CAGTAATCTTATTCCCG
*
27625 CTGATAATCTTAT
1 CAG-TAATCTTAT
27638 ATTCCGTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (17 bp):
CAGTAATCTTATTCCCG
Found at i:27940 original size:65 final size:66
Alignment explanation
Indices: 27835--27963 Score: 206
Period size: 65 Copynumber: 2.0 Consensus size: 66
27825 TAATACATCG
* * *
27835 CCCTAGTTAATAGGGTTGGCAAGTCTTGGTCTTTGGGATGTATATAGTATAGGTTGGCCATTGAT
1 CCCTAGTTAATAGGGTTGGCAAGTATTGGTCTTTGAGATGTATATAGTACAGGTTGGCCATTGAT
27900 A
66 A
* *
27901 CCCTAGTT-ATTGGGTTGGCAAGTATTGGTCTTTGAGATGTATCTAGTACAGGTTGGCCATTGA
1 CCCTAGTTAATAGGGTTGGCAAGTATTGGTCTTTGAGATGTATATAGTACAGGTTGGCCATTGA
27964 CACATCGCCA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
65 50 0.86
66 8 0.14
ACGTcount: A:0.22, C:0.13, G:0.29, T:0.36
Consensus pattern (66 bp):
CCCTAGTTAATAGGGTTGGCAAGTATTGGTCTTTGAGATGTATATAGTACAGGTTGGCCATTGAT
A
Found at i:27997 original size:65 final size:64
Alignment explanation
Indices: 27802--27998 Score: 161
Period size: 65 Copynumber: 2.9 Consensus size: 64
27792 ATCCGTTACT
* *
27802 TGTATCTATTACAGGTTGGCCATTAATACATCGCCCTAGTTAATAGGGTTGGCAAGTCTTGGTCT
1 TGTATCTAGTACAGGTTGGCCATTGA-ACATCG-CCTAGTTAATAGGGTTGGCAA----T-GTCT
*
27867 TTGGGA
59 TTGAGA
* * * *
27873 TGTATATAGTATAGGTTGGCCATTG-ATA-C-CCTAGTT-ATTGGGTTGGCAAGTATTGGTCTTT
1 TGTATCTAGTACAGGTTGGCCATTGAACATCGCCTAGTTAATAGGGTTGGC-A--A-T-GTCTTT
27934 GAGA
61 GAGA
*
27938 TGTATCTAGTACAGGTTGGCCATTGACACATCGCCATAGTTAATAGGGTCGGCAA-GTCTTT
1 TGTATCTAGTACAGGTTGGCCATTGA-ACATCGCC-TAGTTAATAGGGTTGGCAATGTCTTT
27999 TTTTTAGGAT
Statistics
Matches: 105, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
65 51 0.49
66 8 0.08
67 2 0.02
68 4 0.04
69 4 0.04
70 6 0.06
71 30 0.29
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (64 bp):
TGTATCTAGTACAGGTTGGCCATTGAACATCGCCTAGTTAATAGGGTTGGCAATGTCTTTGAGA
Found at i:28566 original size:21 final size:21
Alignment explanation
Indices: 28540--28583 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
28530 TGATTCAGTC
28540 CATCGACATGCAACCAACGTT
1 CATCGACATGCAACCAACGTT
28561 CATCGACATGCAACCAACGTT
1 CATCGACATGCAACCAACGTT
28582 CA
1 CA
28584 AGTCTATCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.18
Consensus pattern (21 bp):
CATCGACATGCAACCAACGTT
Found at i:38615 original size:21 final size:20
Alignment explanation
Indices: 38577--38615 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38567 TCGATAATTA
*
38577 AAAAAAACCCAATCAAGAAG
1 AAAAAAACCCAAACAAGAAG
*
38597 AAAAACACCCAAACGAAGA
1 AAAAAAACCCAAAC-AAGA
38616 TCGAAGCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.64, C:0.23, G:0.10, T:0.03
Consensus pattern (20 bp):
AAAAAAACCCAAACAAGAAG
Found at i:41686 original size:60 final size:60
Alignment explanation
Indices: 41619--41749 Score: 138
Period size: 60 Copynumber: 2.2 Consensus size: 60
41609 TATGGAGATC
* * * * * *
41619 CGTTCCCCGTCCTAATTTTGCATGAGAATTCATTTCCC-TTCTTAATACTGCATGGGACTT
1 CGTTCCCCATCCTAATTCTACATGAGAATTC-GTTCCCAGTCCTAATACTGCATGGGACTT
* * * **
41679 CGTTCCCCATCCTGATTCTACATGGGACTTCGTTCCCAGTCCTAATACTTTATGGGACTT
1 CGTTCCCCATCCTAATTCTACATGAGAATTCGTTCCCAGTCCTAATACTGCATGGGACTT
*
41739 CGTTCCTCATC
1 CGTTCCCCATC
41750 TTGCTTTTTA
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
59 5 0.09
60 53 0.91
ACGTcount: A:0.18, C:0.30, G:0.15, T:0.37
Consensus pattern (60 bp):
CGTTCCCCATCCTAATTCTACATGAGAATTCGTTCCCAGTCCTAATACTGCATGGGACTT
Found at i:41703 original size:30 final size:30
Alignment explanation
Indices: 41661--41749 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 30
41651 TTTCCCTTCT
*
41661 TAATACTGCATGGGACTTCGTTCCCCATCC
1 TAATACTACATGGGACTTCGTTCCCCATCC
* *
41691 TGATTCTACATGGGACTTCGTT-CCCAGTCC
1 TAATACTACATGGGACTTCGTTCCCCA-TCC
** *
41721 TAATACTTTATGGGACTTCGTTCCTCATC
1 TAATACTACATGGGACTTCGTTCCCCATC
41750 TTGCTTTTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 4 0.08
30 42 0.86
31 3 0.06
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (30 bp):
TAATACTACATGGGACTTCGTTCCCCATCC
Found at i:49695 original size:35 final size:35
Alignment explanation
Indices: 49649--49722 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
49639 CCTTGTAGGT
49649 TTATATGGTTTAAATAGAATATTCACCATGAAAAA
1 TTATATGGTTTAAATAGAATATTCACCATGAAAAA
49684 TTATATGGTTTAAATAGAATATTCACCATGAAAAA
1 TTATATGGTTTAAATAGAATATTCACCATGAAAAA
49719 TTAT
1 TTAT
49723 TGGAAAGCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.36
Consensus pattern (35 bp):
TTATATGGTTTAAATAGAATATTCACCATGAAAAA
Found at i:52897 original size:17 final size:19
Alignment explanation
Indices: 52869--52917 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
52859 TATTTTGAAA
52869 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
52887 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
52906 CACCGATGCACT
1 CATCGATGCACT
52918 AAGGATCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:52898 original size:64 final size:64
Alignment explanation
Indices: 52738--52923 Score: 234
Period size: 65 Copynumber: 2.9 Consensus size: 64
52728 AATTAAATTG
* *
52738 AACATCGAATGCATTTCATGCATCGATGCACGTACCATGCACCGATGCACTGAGGATTTTATGAA
1 AACATCGAATGCATTTGATGCATCGATGCAC-TACCATGCACCGATGCACTCAGGATTTTATGAA
* * *
52803 AACATCGAATGCATTTGATGCATCGATGCACTAGCCATGCATCGATGCACTCTGGCTATTT-TG-
1 AACATCGAATGCATTTGATGCATCGATGCACTA-CCATGCACCGATGCACTCAGGAT-TTTATGA
52866 A
64 A
* * *
52867 AACATCGAATGCACTTGATGCATCGATGCACT-CTTAGTGCACCGATGCACTAAGGAT
1 AACATCGAATGCATTTGATGCATCGATGCACTAC-CA-TGCACCGATGCACTCAGGAT
52924 CCAACGGTCA
Statistics
Matches: 106, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 50 0.47
65 51 0.48
66 3 0.03
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACTACCATGCACCGATGCACTCAGGATTTTATGAA
Found at i:60259 original size:21 final size:21
Alignment explanation
Indices: 60217--60260 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
60207 ACTCCGGGAG
* *
60217 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
60238 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
60259 CT
1 CT
60261 CCTCCTCCTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:60261 original size:3 final size:3
Alignment explanation
Indices: 60253--60280 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
60243 TCCTCTCGTG
60253 CTC CTC CTC CTC CTC CTC CTC CTC CTC C
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC C
60281 GACTTCTGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (3 bp):
CTC
Found at i:61441 original size:65 final size:63
Alignment explanation
Indices: 61367--61524 Score: 194
Period size: 65 Copynumber: 2.5 Consensus size: 63
61357 TTAAATTGAT
*
61367 CATCGAATGCATTTCATGCATCGATGCACATACCATGCACCGATGCACT-GAGGAT-TTTATGAA
1 CATCGAATGCATTTGATGCATCGATGCACA-ACCATGCACCGATGCACTCGA-GATATTT-TG-A
61430 AA
62 AA
* * * *
61432 CATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCTAGCTATTTTGAAA
1 CATCGAATGCATTTGATGCATCGATGCA-CAACCATGCACCGATGCACTCGAGATATTTTGAAA
* *
61496 CATTGAATGCACTTGATGCATCGATGCAC
1 CATCGAATGCATTTGATGCATCGATGCAC
61525 TAAGGATCCA
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
63 1 0.01
64 29 0.35
65 47 0.57
66 6 0.07
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (63 bp):
CATCGAATGCATTTGATGCATCGATGCACAACCATGCACCGATGCACTCGAGATATTTTGAAA
Found at i:62656 original size:15 final size:15
Alignment explanation
Indices: 62636--62666 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
62626 TACATCATCC
62636 CATTCATTAATGGAT
1 CATTCATTAATGGAT
62651 CATTCATTAATGGAT
1 CATTCATTAATGGAT
62666 C
1 C
62667 GAAGGAAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (15 bp):
CATTCATTAATGGAT
Found at i:65790 original size:3 final size:3
Alignment explanation
Indices: 65782--65843 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
65772 CTATTAGTAA
65782 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65830 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
65844 AAGTTCAATT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:66640 original size:19 final size:18
Alignment explanation
Indices: 66597--66640 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
66587 CCAGTAATCC
*
66597 TATTCCCTAATAATCTTT
1 TATTCCCTAATAATCTTA
*
66615 TATTTCCACTGATAATCTTA
1 TA-TTCC-CTAATAATCTTA
66635 TATTCC
1 TATTCC
66641 GTAAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 8 0.36
20 12 0.55
ACGTcount: A:0.27, C:0.23, G:0.02, T:0.48
Consensus pattern (18 bp):
TATTCCCTAATAATCTTA
Found at i:68758 original size:60 final size:60
Alignment explanation
Indices: 68694--68839 Score: 143
Period size: 60 Copynumber: 2.4 Consensus size: 60
68684 AAGCTTTTTG
* *
68694 ACATTTTAATTTCATCCTTAAATTATCA-CTATCATTTTAAATTAGTCCTCAAAC-TTTTAA
1 ACATTTTAATTTCATCC-TAAATTATCATCT-TCATTCTAAATTAGTCCCCAAACTTTTTAA
* * * * * * * *
68754 ACATTTCATTTTCATCCCGAAACTGTGATCTTCATTCTAAATTGGTCCCCAAACTTTTTGA
1 ACATTTTAATTTCAT-CCTAAATTATCATCTTCATTCTAAATTAGTCCCCAAACTTTTTAA
* *
68815 ATATTTTAATTTTATCCTAAATTAT
1 ACATTTTAATTTCATCCTAAATTAT
68840 ACATATATAC
Statistics
Matches: 66, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
60 46 0.70
61 20 0.30
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.45
Consensus pattern (60 bp):
ACATTTTAATTTCATCCTAAATTATCATCTTCATTCTAAATTAGTCCCCAAACTTTTTAA
Found at i:69051 original size:46 final size:46
Alignment explanation
Indices: 68960--69052 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
68950 TATTTGGATG
* *
68960 AATTTGGGGATGAAATTGGAAGACCTAAAAGTTTAGGGACCAATTT
1 AATTTGGGGATGAAAATGGAAGACCTAAAAGTTTAAGGACCAATTT
** * *
69006 AATTTGGGGATGAAAATGGAACG-TTTAAAAGTTTAATGACTAATTT
1 AATTTGGGGATGAAAATGGAA-GACCTAAAAGTTTAAGGACCAATTT
69052 A
1 A
69053 GAATGGCAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
46 39 0.98
47 1 0.03
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.31
Consensus pattern (46 bp):
AATTTGGGGATGAAAATGGAAGACCTAAAAGTTTAAGGACCAATTT
Found at i:70783 original size:10 final size:10
Alignment explanation
Indices: 70770--70810 Score: 55
Period size: 10 Copynumber: 3.8 Consensus size: 10
70760 AACACAAACG
70770 AACGAACATA
1 AACGAACATA
70780 AACGAACACAATA
1 AACG-A-AC-ATA
70793 AACGAACATA
1 AACGAACATA
70803 AACGAACA
1 AACGAACA
70811 ACACAAACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 15 0.54
11 3 0.11
12 3 0.11
13 7 0.25
ACGTcount: A:0.61, C:0.22, G:0.10, T:0.07
Consensus pattern (10 bp):
AACGAACATA
Found at i:70800 original size:23 final size:23
Alignment explanation
Indices: 70753--70810 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 23
70743 CATTTAATAA
*
70753 ATAAACAAACACAAACGAACGAAC
1 ATAAACGAACACAAAC-AACGAAC
70777 ATAAACGAACACAATA-AACGAAC
1 ATAAACGAACACAA-ACAACGAAC
70800 ATAAACGAACA
1 ATAAACGAACA
70811 ACACAAACAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 18 0.56
24 13 0.41
25 1 0.03
ACGTcount: A:0.62, C:0.22, G:0.09, T:0.07
Consensus pattern (23 bp):
ATAAACGAACACAAACAACGAAC
Found at i:70813 original size:13 final size:13
Alignment explanation
Indices: 70760--70818 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
70750 TAAATAAACA
*
70760 AACACAAACGAAC
1 AACATAAACGAAC
70773 GAACATAAACGAAC
1 -AACATAAACGAAC
70787 -ACAATAAACG---
1 AAC-ATAAACGAAC
70797 AACATAAACGAAC
1 AACATAAACGAAC
*
70810 AACACAAAC
1 AACATAAAC
70819 ACACAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 7 0.18
11 2 0.05
12 2 0.05
13 15 0.39
14 12 0.32
ACGTcount: A:0.61, C:0.25, G:0.08, T:0.05
Consensus pattern (13 bp):
AACATAAACGAAC
Found at i:70818 original size:23 final size:23
Alignment explanation
Indices: 70753--70818 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 23
70743 CATTTAATAA
* *
70753 ATAAACAAACACAAACGAACGAAC
1 ATAAACGAACAC-AACAAACGAAC
*
70777 ATAAACGAACACAATAAACGAAC
1 ATAAACGAACACAACAAACGAAC
70800 ATAAACGAACA-ACACAAAC
1 ATAAACGAACACA-ACAAAC
70819 ACACAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 1 0.03
23 25 0.68
24 11 0.30
ACGTcount: A:0.62, C:0.24, G:0.08, T:0.06
Consensus pattern (23 bp):
ATAAACGAACACAACAAACGAAC
Found at i:71091 original size:14 final size:14
Alignment explanation
Indices: 71072--71107 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
71062 GTCCTCTGTT
71072 CGAACATAAATAAA
1 CGAACATAAATAAA
*
71086 CGAACATAAATGAA
1 CGAACATAAATAAA
71100 CGAACATA
1 CGAACATA
71108 TAATCGAACG
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:0.58, C:0.17, G:0.11, T:0.14
Consensus pattern (14 bp):
CGAACATAAATAAA
Found at i:72479 original size:36 final size:35
Alignment explanation
Indices: 72424--72504 Score: 126
Period size: 36 Copynumber: 2.3 Consensus size: 35
72414 GAATTAAACG
* * *
72424 GGGACGAGAAAAAACCGTTTATGTTAAACGGGGAT
1 GGGACGGGGAAAAACCGTTTATGTTAAACGGGGAC
72459 GGAGACGGGGAAAAACCGTTTATGTTAAACGGGGAC
1 GG-GACGGGGAAAAACCGTTTATGTTAAACGGGGAC
72495 GGGACGGGGA
1 GGGACGGGGA
72505 CGAGTTTAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
35 10 0.24
36 32 0.76
ACGTcount: A:0.33, C:0.12, G:0.38, T:0.16
Consensus pattern (35 bp):
GGGACGGGGAAAAACCGTTTATGTTAAACGGGGAC
Found at i:72586 original size:2 final size:2
Alignment explanation
Indices: 72579--72674 Score: 60
Period size: 2 Copynumber: 51.0 Consensus size: 2
72569 TAAAAATAAT
* * *
72579 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A TA AA TT TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
72619 T- TA AA T- TA AA AA TA TA TA TA TA TA TA -A TA TT TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
72658 TA -A TT TA AA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
72675 CCCGGCCCGA
Statistics
Matches: 70, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
1 6 0.09
2 64 0.91
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:72634 original size:32 final size:38
Alignment explanation
Indices: 72592--72674 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 38
72582 ATATATATAT
72592 ATATATATATATATTAATAAATTTA-A-A-TTAAATTAAAA
1 ATATATATATATA-TAAT--ATTTATATATTTAAATTAAAA
* *
72630 ATATATATATATATAATATTTATATATTTAATTTAAAT
1 ATATATATATATATAATATTTATATATTTAAATTAAAA
72668 ATATATA
1 ATATATA
72675 CCCGGCCCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
35 5 0.12
36 1 0.03
37 5 0.12
38 29 0.73
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (38 bp):
ATATATATATATATAATATTTATATATTTAAATTAAAA
Found at i:77802 original size:18 final size:16
Alignment explanation
Indices: 77771--77825 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
77761 TAATTGGATG
77771 AAATAAAT--ATAAAA
1 AAATAAATGAATAAAA
77785 AAATGAAATTGAATAAAATA
1 AAAT-AAA-TGAAT-AAA-A
*
77805 AAATAAATGAAGAAAA
1 AAATAAATGAATAAAA
77821 AAATA
1 AAATA
77826 TATATACAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 4 0.12
15 3 0.09
16 7 0.21
17 3 0.09
18 6 0.18
19 6 0.18
20 5 0.15
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (16 bp):
AAATAAATGAATAAAA
Found at i:77935 original size:26 final size:25
Alignment explanation
Indices: 77906--78002 Score: 69
Period size: 26 Copynumber: 3.7 Consensus size: 25
77896 AACTAAAAAC
77906 ATAATGAAAATAAATAAATAGTATAA
1 ATAAT-AAAATAAATAAATAGTATAA
77932 ATAA-AATAATAAAATAAAATATATGTATAA
1 ATAATAA-AAT-AAAT--AA-ATA-GTATAA
*
77962 TATAATAAAAT-ACTAAATAGTA-ACA
1 -ATAATAAAATAAATAAATAGTATA-A
77987 ATAAT--AATAAATAAAT
1 ATAATAAAATAAATAAAT
78003 GAAAAATAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 23
0.70 0.02 0.27
Matches are distributed among these distances:
22 3 0.05
23 6 0.10
24 8 0.14
25 7 0.12
26 11 0.19
27 2 0.03
28 2 0.03
29 5 0.08
30 6 0.10
31 7 0.12
32 2 0.03
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (25 bp):
ATAATAAAATAAATAAATAGTATAA
Found at i:78083 original size:2 final size:2
Alignment explanation
Indices: 78076--78112 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
78066 TGAAGTAAGA
78076 AT AT AT AT 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 AT AT AT AT A
78113 ACATTAGGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:78732 original size:37 final size:37
Alignment explanation
Indices: 78691--78775 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
78681 GGATCCAATC
* * *
78691 TTTAGGATTTTAAATAATAGTAGAACTCTATCCTATT
1 TTTAGGAGTTTAAATAATAGCAAAACTCTATCCTATT
* ** *
78728 TTTAGGAGTTTGAATCCTAGCAAAATTCTATCCTATT
1 TTTAGGAGTTTAAATAATAGCAAAACTCTATCCTATT
78765 TTTAGGAGTTT
1 TTTAGGAGTTT
78776 GAATCCTAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.44
Consensus pattern (37 bp):
TTTAGGAGTTTAAATAATAGCAAAACTCTATCCTATT
Found at i:79845 original size:106 final size:106
Alignment explanation
Indices: 79537--80594 Score: 1504
Period size: 106 Copynumber: 10.0 Consensus size: 106
79527 GCATTGTTCT
* * ** * *
79537 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGAGAAATTATTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACA
* * * *
79601 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * **
79643 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTAACTCTG-AA-T--GAAATT-TTT-TTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAA
* * * * *
79702 TCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * * * *
79744 G-GTCCAAGATCCTTCGATGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAA
*
79808 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
79849 GAGTCCAATATCCTACGCTGTGAAGTTGAAAAAT-GCTCTGAAATTGGGAAATTGTTTATTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTG-AAATTGGCTCTGAAATTGAGAAATTGTTTATTGACA
* *
79913 ACCAGTGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
79955 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAA
80020 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * *
80061 GAGTCCAATATTATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAA
* * *
80126 CCAGCGGTCCCTTCGTCGTGAAGTTAAAGTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
80167 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAA
80232 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
80273 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGCCTCTGAAATTGAGAAGTCGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAA
* *
80338 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTTCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
80379 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAA
80444 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
80485 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAA
* * * *
80550 CCAGCGGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
80591 GAGT
1 GAGT
80595 GGCACGATAT
Statistics
Matches: 860, Mismatches: 81, Indels: 22
0.89 0.08 0.02
Matches are distributed among these distances:
100 74 0.09
101 7 0.01
102 7 0.01
104 5 0.01
105 11 0.01
106 751 0.87
107 5 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:82095 original size:21 final size:20
Alignment explanation
Indices: 82049--82094 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
82039 TTCCTTTTGA
82049 TTTTTTCTTTTTTGTTCTTG
1 TTTTTTCTTTTTTGTTCTTG
82069 TTTTTTCTTTTTTGCTTCTT-
1 TTTTTTCTTTTTTG-TTCTTG
82089 TTTTTT
1 TTTTTT
82095 TGTTCTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.83
Consensus pattern (20 bp):
TTTTTTCTTTTTTGTTCTTG
Found at i:85513 original size:19 final size:20
Alignment explanation
Indices: 85485--85522 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
85475 TGCAGATGAT
*
85485 GGAAATAAAAT-AAAAGAGA
1 GGAAAAAAAATGAAAAGAGA
85504 GGAAAAAAAATGAAAAGAG
1 GGAAAAAAAATGAAAAGAG
85523 TTAGTAAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (20 bp):
GGAAAAAAAATGAAAAGAGA
Found at i:86708 original size:18 final size:18
Alignment explanation
Indices: 86685--86733 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
86675 TGAAATAAAT
86685 ATAAAAAAATA-AAATTGA
1 ATAAAAAAATATAAA-TGA
86703 ATAAAATAAA-ATAAATGA
1 ATAAAA-AAATATAAATGA
*
86721 AGAAAAAAATATA
1 ATAAAAAAATATA
86734 TATACAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 3 0.11
18 18 0.67
19 6 0.22
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.20
Consensus pattern (18 bp):
ATAAAAAAATATAAATGA
Found at i:86867 original size:20 final size:20
Alignment explanation
Indices: 86844--86899 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
86834 AAATAAAATA
86844 ATAAAATAAAAAATATATAT
1 ATAAAATAAAAAATATATAT
*
86864 AT-AAATATAAAAATATATGT
1 ATAAAATA-AAAAATATATAT
*
86884 ATAATATAATAAAATA
1 ATAAAATAA-AAAATA
86900 CTAAATAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 5 0.16
20 16 0.52
21 10 0.32
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
ATAAAATAAAAAATATATAT
Found at i:87009 original size:2 final size:2
Alignment explanation
Indices: 87002--87036 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
86992 TGAAGTAAGA
87002 AT AT AT 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 AT AT AT A
87037 ATTAGGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90165 original size:15 final size:15
Alignment explanation
Indices: 90145--90174 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
90135 GAAGAATGAC
90145 TGGAGTGCCCAAGAA
1 TGGAGTGCCCAAGAA
90160 TGGAGTGCCCAAGAA
1 TGGAGTGCCCAAGAA
90175 CGGAAGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.33, T:0.13
Consensus pattern (15 bp):
TGGAGTGCCCAAGAA
Found at i:93184 original size:20 final size:19
Alignment explanation
Indices: 93159--93205 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
93149 ATTCAAATTC
93159 TTATGAATATGAAAAATAAG
1 TTATGAATATG-AAAATAAG
* *
93179 TTATGAATTTGGAAATAAG
1 TTATGAATATGAAAATAAG
*
93198 TTTTGAAT
1 TTATGAAT
93206 CGAGAATGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (19 bp):
TTATGAATATGAAAATAAG
Found at i:93983 original size:71 final size:71
Alignment explanation
Indices: 93896--94036 Score: 228
Period size: 71 Copynumber: 2.0 Consensus size: 71
93886 TTGCTGCCTC
* *
93896 AAACTAATATTAATTCAAATGTTTTAATATTATATTATTATTTTAAATGATTATATTACTTTATT
1 AAACTAATATTAATTCAAATGTTTAAAGATTATATTATTATTTTAAATGATTATATTACTTTATT
93961 GAAAGA
66 GAAAGA
* * * *
93967 AAACTGATATTGATTCAAATGTTTAAAGATTATATTATTATTTTAAATGATTATGTTATTTTATT
1 AAACTAATATTAATTCAAATGTTTAAAGATTATATTATTATTTTAAATGATTATATTACTTTATT
94032 GAAAG
66 GAAAG
94037 GATTGAATGG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.48
Consensus pattern (71 bp):
AAACTAATATTAATTCAAATGTTTAAAGATTATATTATTATTTTAAATGATTATATTACTTTATT
GAAAGA
Found at i:94025 original size:21 final size:20
Alignment explanation
Indices: 93988--94026 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
93978 GATTCAAATG
93988 TTTAAAGATTATATTATTAT
1 TTTAAAGATTATATTATTAT
*
94008 TTTAAATGATTATGTTATT
1 TTTAAA-GATTATATTATT
94027 TTATTGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
TTTAAAGATTATATTATTAT
Found at i:94313 original size:26 final size:28
Alignment explanation
Indices: 94249--94308 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
94239 AATCTTTTCC
* * *
94249 TAATATTTATTATCATGAGCTTATTTTT
1 TAATATTTATTATCATGAACCTATTTTA
*
94277 TAATATTTATTATTATGAACCTATTTTA
1 TAATATTTATTATCATGAACCTATTTTA
94305 TAAT
1 TAAT
94309 TTATTTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (28 bp):
TAATATTTATTATCATGAACCTATTTTA
Found at i:96160 original size:16 final size:16
Alignment explanation
Indices: 96135--96165 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96125 CCAAAGCTAA
*
96135 GAACACAACAAGAAGC
1 GAACAAAACAAGAAGC
96151 GAACAAAACAAGAAG
1 GAACAAAACAAGAAG
96166 GCTTGCAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.19, G:0.19, T:0.00
Consensus pattern (16 bp):
GAACAAAACAAGAAGC
Found at i:101831 original size:6 final size:6
Alignment explanation
Indices: 101820--101848 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
101810 TGCATTGTAT
101820 TTTATC TTTATC TTTATC TTTATC TTTAT
1 TTTATC TTTATC TTTATC TTTATC TTTAT
101849 TATTTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTATC
Found at i:102374 original size:20 final size:20
Alignment explanation
Indices: 102351--102419 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 20
102341 ATTTATTAAC
102351 AAAATATTATTATTATTTTT
1 AAAATATTATTATTATTTTT
** *
102371 AAAATATTAGAATAATTTATTT
1 AAAATATTATTATTA-TT-TTT
*
102393 AATAAT-TTATTATATATTATT
1 AA-AATATTATTAT-TATTTTT
102414 AAAATA
1 AAAATA
102420 AAATTATAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
20 15 0.41
21 6 0.16
22 12 0.32
23 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (20 bp):
AAAATATTATTATTATTTTT
Found at i:102436 original size:34 final size:34
Alignment explanation
Indices: 102392--102462 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
102382 ATAATTTATT
102392 TAATAATTTAT-TATATATTATTAA-AATAAAATTA
1 TAATAATTTATAT-TATATTA-TAATAATAAAATTA
* *
102426 TAATATTTTATATTATATTATAATAATACAATTA
1 TAATAATTTATATTATATTATAATAATAAAATTA
102460 TAA
1 TAA
102463 CAAAAAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 3 0.09
34 29 0.88
35 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (34 bp):
TAATAATTTATATTATATTATAATAATAAAATTA
Found at i:108191 original size:48 final size:48
Alignment explanation
Indices: 108139--108311 Score: 224
Period size: 48 Copynumber: 3.6 Consensus size: 48
108129 TGGACAAATC
* *
108139 GACGGCCGAGCTAGACGTAGTAC-TCGCCGCTGCAGTTGAAACCCCGA-T
1 GACGGCCGAGGTAGAAGTAGT-CGTCGCCGCTGCAGTTGAAACCCC-ATT
* * *
108187 GACGGTCGAGGTTGAAGTAGTCGTCGCCGCTGCGGTTGAAACCCCATT
1 GACGGCCGAGGTAGAAGTAGTCGTCGCCGCTGCAGTTGAAACCCCATT
* *
108235 GACGGCCGAGGTAGAAGTAGTCGTCTCCGCTGCAGTTGAAACCCTATT
1 GACGGCCGAGGTAGAAGTAGTCGTCGCCGCTGCAGTTGAAACCCCATT
* * *
108283 GACGGCTGAGGTAGAAGAAGTCGCCGCCG
1 GACGGCCGAGGTAGAAGTAGTCGTCGCCG
108312 TTTCTGTTTC
Statistics
Matches: 109, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
47 2 0.02
48 107 0.98
ACGTcount: A:0.22, C:0.27, G:0.32, T:0.19
Consensus pattern (48 bp):
GACGGCCGAGGTAGAAGTAGTCGTCGCCGCTGCAGTTGAAACCCCATT
Found at i:109145 original size:31 final size:31
Alignment explanation
Indices: 109110--109188 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
109100 GTCGTTTTTA
109110 TTTTTATTTAATTAAGATATGGTCACTTTCG
1 TTTTTATTTAATTAAGATATGGTCACTTTCG
* * * *
109141 TTTTTATATACTTAAGATATGGTCATTTTCT
1 TTTTTATTTAATTAAGATATGGTCACTTTCG
109172 TTTTTATTTAATTAAGA
1 TTTTTATTTAATTAAGA
109189 CGTGATCATC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.54
Consensus pattern (31 bp):
TTTTTATTTAATTAAGATATGGTCACTTTCG
Found at i:109956 original size:25 final size:24
Alignment explanation
Indices: 109918--109993 Score: 70
Period size: 25 Copynumber: 3.1 Consensus size: 24
109908 CCGGATTATA
109918 TATAATATAATTTTATATATATTAACT
1 TATAA-AT-ATTTT-TATATATTAACT
109945 TGA-AAATA-TTTT-TATATTAACT
1 T-ATAAATATTTTTATATATTAACT
109967 TATTAAATATATTTTAT-TATTAACT
1 TA-TAAATAT-TTTTATATATTAACT
109992 TA
1 TA
109994 ATTTAAAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
21 1 0.02
22 11 0.26
23 6 0.14
24 3 0.07
25 15 0.35
26 3 0.07
27 3 0.07
28 1 0.02
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (24 bp):
TATAAATATTTTTATATATTAACT
Found at i:109961 original size:22 final size:23
Alignment explanation
Indices: 109935--109993 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 23
109925 TAATTTTATA
109935 TATATTAACTTGA-AAATAT-TTT
1 TATATTAACTT-ATAAATATATTT
109957 TATATTAACTTATTAAATATATTT
1 TATATTAACTTA-TAAATATATTT
109981 TATTATTAACTTA
1 TA-TATTAACTTA
109994 ATTTAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
21 1 0.03
22 11 0.33
23 6 0.18
24 5 0.15
25 10 0.30
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATTAACTTATAAATATATTT
Found at i:111250 original size:2 final size:2
Alignment explanation
Indices: 111243--111282 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
111233 CATAATATTA
*
111243 AT AT AT AT AA 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
111283 TAAATCAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:111255 original size:10 final size:10
Alignment explanation
Indices: 111237--111281 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
111227 ATCAAACATA
*
111237 ATATTAATAT
1 ATATAAATAT
111247 ATATAAATAT
1 ATATAAATAT
*
111257 ATATATATAT
1 ATATAAATAT
*
111267 ATATATATAT
1 ATATAAATAT
111277 ATATA
1 ATATA
111282 TTAAATCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATATAAATAT
Found at i:111256 original size:8 final size:8
Alignment explanation
Indices: 111213--111287 Score: 53
Period size: 8 Copynumber: 8.8 Consensus size: 8
111203 TATACCAAAC
*
111213 ATAAATTT
1 ATAAATAT
111221 ATAAATAT
1 ATAAATAT
111229 CA-AACATAAT
1 -ATAA-AT-AT
111239 ATTAATATAT
1 A-TAA-ATAT
111249 ATAAATAT
1 ATAAATAT
*
111257 ATATATAT
1 ATAAATAT
*
111265 ATATATAT
1 ATAAATAT
*
111273 ATATATAT
1 ATAAATAT
111281 ATTAAAT
1 A-TAAAT
111288 CAAAGAAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
8 37 0.65
9 11 0.19
10 5 0.09
11 4 0.07
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (8 bp):
ATAAATAT
Found at i:113140 original size:54 final size:54
Alignment explanation
Indices: 113057--113765 Score: 593
Period size: 54 Copynumber: 13.1 Consensus size: 54
113047 GCGCATGTAA
* * * *
113057 TGCCTATACGG-TAGTTCATCAAC-TCATGATGAATTATGTGGGTTGCACACATCG
1 TGCCTAAACGGTTA-TTCATCAACAT-ATGATGAATTCTGTGGTTTGCACACATAG
*
113111 TGCCTATACGGTTATTCATCAAC-TAATGATGAATT-TCGTGGATTTGCACACATAG
1 TGCCTAAACGGTTATTCATCAACAT-ATGATGAATTCT-GTGG-TTTGCACACATAG
* ** * *
113166 TGCTTGTACGGTTATTCATCAAC-TCATGATGAATTCCGTGGATTTACACACATAG
1 TGCCTAAACGGTTATTCATCAACAT-ATGATGAATTCTGTGG-TTTGCACACATAG
* ** * *
113221 TGCATGTACGGTTATTCATCAAC-TCGTGATGAATT-TCGTGGGTTTGCACAGATAG
1 TGCCTAAACGGTTATTCATCAACAT-ATGATGAATTCT-GT-GGTTTGCACACATAG
* * * * * * ** *
113276 TG-CTGAAATGATTGTCCATCAATATATGATGAATTTTGTGAATTGCACACTTAG
1 TGCCT-AAACGGTTATTCATCAACATATGATGAATTCTGTGGTTTGCACACATAG
* * * * *
113330 TGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGGATTGCACACTTAG
1 TGCCTAAACGGTTATTCATCAACATATGATGAATTCTGTGGTTTGCACACATAG
** * * *
113384 TGCCGCAACGGTTATTCATCAACATATGATGAATTCCGTGATTTGCACAAATAG
1 TGCCTAAACGGTTATTCATCAACATATGATGAATTCTGTGGTTTGCACACATAG
* * * * * *
113438 TTCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGGATTGCACACTTAG
1 TGCCTAAACGGTTATTCATCAACATATGATGAATTCTGTGGTTTGCACACATAG
* ** * *
113492 TGCCGAAACGGTTATTCATCAACATATGATGAATTCCATGATTT--ACACACAG
1 TGCCTAAACGGTTATTCATCAACATATGATGAATTCTGTGGTTTGCACACATAG
* * * *
113544 TG-CTGAAATGGTTATTCATCAATATATGATGAATT-TCGTGATTTGCACACTTAG
1 TGCCT-AAACGGTTATTCATCAACATATGATGAATTCT-GTGGTTTGCACACATAG
* * * * *
113598 T-ACTGAAACTGTTGTTCATCAACATATGATGAATT-TCGTGGATTGCACACTTAG
1 TGCCT-AAACGGTTATTCATCAACATATGATGAATTCT-GTGGTTTGCACACATAG
* ** *
113652 TGCCTAAACGGTTGTTCATCAACATATGATGAATTCCATGATTTGCACACATAG
1 TGCCTAAACGGTTATTCATCAACATATGATGAATTCTGTGGTTTGCACACATAG
** * * * *
113706 TATCGAAACGGTTATTCATCAACATATGATGAATT-TCATGGATTGCACACTTAG
1 TGCCTAAACGGTTATTCATCAACATATGATGAATTCT-GTGGTTTGCACACATAG
113760 TGCCTA
1 TGCCTA
113766 TTTGGTAATC
Statistics
Matches: 552, Mismatches: 85, Indels: 36
0.82 0.13 0.05
Matches are distributed among these distances:
51 1 0.00
52 42 0.08
53 1 0.00
54 369 0.67
55 135 0.24
56 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (54 bp):
TGCCTAAACGGTTATTCATCAACATATGATGAATTCTGTGGTTTGCACACATAG
Found at i:113616 original size:268 final size:268
Alignment explanation
Indices: 113064--113763 Score: 885
Period size: 268 Copynumber: 2.6 Consensus size: 268
113054 TAATGCCTAT
* * * * * *
113064 ACGGTAGTTCATCAAC-TCATGATGAATTATGTGGGTTGCACACATCGTGCCTATACGGTTATTC
1 ACGGTTGTTCATCAACAT-ATGATGAATTACGTGGATTGCACACTTAGTGCC-AAACGGTTATTC
* * * *
113128 ATCAAC-TAATGATGAATTTCGTGGATTTGCACACATAGTGCTTG-TACGGTTATTCATCAAC-T
64 ATCAACAT-ATGATGAATTCCGT-GATTTGCACACATAGTTC-CGAAACGGTTATTCATCAACAT
* * * * *
113190 CATGATGAATTCCGTGGATTTACACACATAGTGCATGTACGGTTATTCATCAACTCGTGATGAAT
126 -ATGATGAATTCCGTGGA-TTGCACACTTAGTGC-CGAACGGTTATTCATCAACTCATGATGAAT
* * * * * * *
113255 TTCGTGGGTTTGCACAGATAGTGCTGAAATGATTGTCCATCAATATATGATGAATTTTGTGAATT
188 TCCATGGATTT-CACACACAGTGCTGAAATGATTATCCATCAATATATGATGAATTTCGTGAATT
*
113320 GCACACTTAGTGCCGAA
252 GCACACTTAGTACCGAA
* *
113337 ACGGTTGTTCATCAACATATGATGAATTCCGTGGATTGCACACTTAGTGCCGCAACGGTTATTCA
1 ACGGTTGTTCATCAACATATGATGAATTACGTGGATTGCACACTTAGTGCC-AAACGGTTATTCA
* *
113402 TCAACATATGATGAATTCCGTGATTTGCACAAATAGTTCCGAAACGGTTGTTCATCAACATATGA
65 TCAACATATGATGAATTCCGTGATTTGCACACATAGTTCCGAAACGGTTATTCATCAACATATGA
113467 TGAATTCCGTGGATTGCACACTTAGTGCCGAAACGGTTATTCATCAACAT-ATGATGAATTCCAT
130 TGAATTCCGTGGATTGCACACTTAGTGCCG-AACGGTTATTCATCAAC-TCATGATGAATTCCAT
* * *
113531 -GATTT-ACACACAGTGCTGAAATGGTTATTCATCAATATATGATGAATTTCGTGATTTGCACAC
193 GGATTTCACACACAGTGCTGAAATGATTATCCATCAATATATGATGAATTTCGTGAATTGCACAC
*
113594 TTAGTACTGAA
258 TTAGTACCGAA
* * *
113605 ACTGTTGTTCATCAACATATGATGAATTTCGTGGATTGCACACTTAGTGCCTAAACGGTTGTTCA
1 ACGGTTGTTCATCAACATATGATGAATTACGTGGATTGCACACTTAGTGCC-AAACGGTTATTCA
*
113670 TCAACATATGATGAATTCCATGATTTGCACACATAGTAT-CGAAACGGTTATTCATCAACATATG
65 TCAACATATGATGAATTCCGTGATTTGCACACATAGT-TCCGAAACGGTTATTCATCAACATATG
* *
113734 ATGAATTTCATGGATTGCACACTTAGTGCC
129 ATGAATTCCGTGGATTGCACACTTAGTGCC
113764 TATTTGGTAA
Statistics
Matches: 378, Mismatches: 42, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
268 207 0.55
269 1 0.00
270 5 0.01
271 41 0.11
272 49 0.13
273 73 0.19
274 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (268 bp):
ACGGTTGTTCATCAACATATGATGAATTACGTGGATTGCACACTTAGTGCCAAACGGTTATTCAT
CAACATATGATGAATTCCGTGATTTGCACACATAGTTCCGAAACGGTTATTCATCAACATATGAT
GAATTCCGTGGATTGCACACTTAGTGCCGAACGGTTATTCATCAACTCATGATGAATTCCATGGA
TTTCACACACAGTGCTGAAATGATTATCCATCAATATATGATGAATTTCGTGAATTGCACACTTA
GTACCGAA
Found at i:113764 original size:108 final size:109
Alignment explanation
Indices: 113071--113765 Score: 716
Period size: 108 Copynumber: 6.4 Consensus size: 109
113061 TATACGGTAG
* * *
113071 TTCATCAAC-TCATGATGAATTAT-GTGGGTTGCACACATCGTGCCTATACGGTTATTCATCAAC
1 TTCATCAACAT-ATGATGAATT-TCGTGGATTGCACACATAGTGCCTAAACGGTTATTCATCAAC
* * * *
113134 -TAATGATGAATTTCGTGGATTTGCACACATAGTGCTTG-TACGGTTA
64 AT-ATGATGAATTCCGTGGATTTGCACACATAGTAC-CGAAACGGTTA
* * * **
113180 TTCATCAAC-TCATGATGAATTCCGTGGATTTACACACATAGTGCATGTACGGTTATTCATCAAC
1 TTCATCAACAT-ATGATGAATTTCGTGGA-TTGCACACATAGTGCCTAAACGGTTATTCATCAAC
* * * * * * * * *
113244 -TCGTGATGAATTTCGTGGGTTTGCACAGATAGTGCTGAAATGATTG
64 AT-ATGATGAATTCCGTGGATTTGCACACATAGTACCGAAACGGTTA
* * * * * * *
113290 TCCATCAATATATGATGAATTTTGTGAATTGCACACTTAGTGCCGAAACGGTTGTTCATCAACAT
1 TTCATCAACATATGATGAATTTCGTGGATTGCACACATAGTGCCTAAACGGTTATTCATCAACAT
* * *
113355 ATGATGAATTCCGTGGA-TTGCACACTTAGTGCCGCAACGGTTA
66 ATGATGAATTCCGTGGATTTGCACACATAGTACCGAAACGGTTA
* * * * *
113398 TTCATCAACATATGATGAATTCCGT-GATTTGCACAAATAGTTCCGAAACGGTTGTTCATCAACA
1 TTCATCAACATATGATGAATTTCGTGGA-TTGCACACATAGTGCCTAAACGGTTATTCATCAACA
* *
113462 TATGATGAATTCCGTGGA-TTGCACACTTAGTGCCGAAACGGTTA
65 TATGATGAATTCCGTGGATTTGCACACATAGTACCGAAACGGTTA
* * * * * *
113506 TTCATCAACATATGATGAATTCCAT-GATT-TACACACAGTG-CTGAAATGGTTATTCATCAATA
1 TTCATCAACATATGATGAATTTCGTGGATTGCACACATAGTGCCT-AAACGGTTATTCATCAACA
* * * * *
113568 TATGATGAATTTCGT-GATTTGCACACTTAGTACTGAAACTGTTG
65 TATGATGAATTCCGTGGATTTGCACACATAGTACCGAAACGGTTA
* *
113612 TTCATCAACATATGATGAATTTCGTGGATTGCACACTTAGTGCCTAAACGGTTGTTCATCAACAT
1 TTCATCAACATATGATGAATTTCGTGGATTGCACACATAGTGCCTAAACGGTTATTCATCAACAT
* *
113677 ATGATGAATTCCAT-GATTTGCACACATAGTATCGAAACGGTTA
66 ATGATGAATTCCGTGGATTTGCACACATAGTACCGAAACGGTTA
* *
113720 TTCATCAACATATGATGAATTTCATGGATTGCACACTTAGTGCCTA
1 TTCATCAACATATGATGAATTTCGTGGATTGCACACATAGTGCCTA
113766 TTTGGTAATC
Statistics
Matches: 500, Mismatches: 75, Indels: 23
0.84 0.13 0.04
Matches are distributed among these distances:
105 3 0.01
106 82 0.16
107 7 0.01
108 248 0.50
109 71 0.14
110 88 0.18
111 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (109 bp):
TTCATCAACATATGATGAATTTCGTGGATTGCACACATAGTGCCTAAACGGTTATTCATCAACAT
ATGATGAATTCCGTGGATTTGCACACATAGTACCGAAACGGTTA
Found at i:114143 original size:22 final size:21
Alignment explanation
Indices: 114105--114148 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
114095 TCGACACCCC
* *
114105 TACCATGGTATCGATACTACTA
1 TACCATGGTACCAATACT-CTA
114127 TACCATGGTACCAATACTCTA
1 TACCATGGTACCAATACTCTA
114148 T
1 T
114149 TACGGTACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (21 bp):
TACCATGGTACCAATACTCTA
Found at i:115230 original size:35 final size:35
Alignment explanation
Indices: 115167--115233 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
115157 CTTAGATCTG
***
115167 TAAGGAATTACCAGTTCAATCGGTCTGAACCTATA
1 TAAGGAATTACCAGTTCAATCAAACTGAACCTATA
**
115202 TAAGGAATTACCAGTTTGATCAAACTGAACCT
1 TAAGGAATTACCAGTTCAATCAAACTGAACCT
115234 GCAGAAACTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (35 bp):
TAAGGAATTACCAGTTCAATCAAACTGAACCTATA
Found at i:117098 original size:20 final size:20
Alignment explanation
Indices: 117065--117105 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
117055 TAATGGATCA
*
117065 GGTTGAGTTAACTCTGTTTG
1 GGTTGAGTTAACTCGGTTTG
* *
117085 GGTTGGGTTGACTCGGTTTG
1 GGTTGAGTTAACTCGGTTTG
117105 G
1 G
117106 TCAAACAGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.10, G:0.39, T:0.41
Consensus pattern (20 bp):
GGTTGAGTTAACTCGGTTTG
Found at i:117294 original size:16 final size:16
Alignment explanation
Indices: 117273--117312 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
117263 ACACACCATT
117273 CCAAAACAGAATTAAG
1 CCAAAACAGAATTAAG
117289 CCAAAACAGAATTAAG
1 CCAAAACAGAATTAAG
117305 CCAAAACA
1 CCAAAACA
117313 TCAACCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.57, C:0.23, G:0.10, T:0.10
Consensus pattern (16 bp):
CCAAAACAGAATTAAG
Found at i:117981 original size:11 final size:12
Alignment explanation
Indices: 117937--117983 Score: 55
Period size: 11 Copynumber: 4.0 Consensus size: 12
117927 TTGAAATTTA
117937 CAAATACTAAAT
1 CAAATACTAAAT
117949 CAACATA-T-AAT
1 CAA-ATACTAAAT
117960 CAAATCACTAAAT
1 CAAAT-ACTAAAT
117973 CAAAT-CTAAAT
1 CAAATACTAAAT
117984 TCATAACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
10 2 0.06
11 13 0.42
12 5 0.16
13 11 0.35
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (12 bp):
CAAATACTAAAT
Found at i:118298 original size:26 final size:26
Alignment explanation
Indices: 118262--118314 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
118252 GTAGTATCTA
118262 TAACATTTACCAATTATAACTCATTT
1 TAACATTTACCAATTATAACTCATTT
118288 TAACATTTACCAATTATAACTCATTT
1 TAACATTTACCAATTATAACTCATTT
118314 T
1 T
118315 CTTACCTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.43
Consensus pattern (26 bp):
TAACATTTACCAATTATAACTCATTT
Found at i:120090 original size:23 final size:23
Alignment explanation
Indices: 120047--120090 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
120037 GAGTCGAGGG
**
120047 TCTACGCGGTCCTTCGGGACAAT
1 TCTACGCGGTCCTTCAAGACAAT
*
120070 TCTACGTGGTCCTTCAAGACA
1 TCTACGCGGTCCTTCAAGACA
120091 TATATGTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (23 bp):
TCTACGCGGTCCTTCAAGACAAT
Found at i:121657 original size:17 final size:17
Alignment explanation
Indices: 121637--121669 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
121627 GAAATATGTA
121637 TTTTTATAAA-ATTTAAT
1 TTTTTA-AAATATTTAAT
121654 TTTTTAAAATATTTAA
1 TTTTTAAAATATTTAA
121670 AATAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTTAAAATATTTAAT
Found at i:122408 original size:120 final size:119
Alignment explanation
Indices: 122186--122425 Score: 354
Period size: 120 Copynumber: 2.0 Consensus size: 119
122176 AAAATTGACT
* * **
122186 GTAACATACTAAGAACACTTAATATTTTATTATTATTGTTCATTGTCTTAATGGTATGAACAATT
1 GTAACATACTAAGAACACTTAATATTTTATTATTATTGTTCATTATCTAAATGACATGAACAATT
* * *
122251 TAATTTCTACCTTAAAAACTGGTGTTCGGATTGGAACTGAACTCAATGTGTTGAA
66 TAATTTCTACCTTAAAAACTAGTGTTCAGATTAGAACTG-ACTCAATGTGTTGAA
* *
122306 GTAACATACTAAGAACACTTCATATTTTATTATTGTTGTTCATTATCTAAATGACATGAACAATT
1 GTAACATACTAAGAACACTTAATATTTTATTATTATTGTTCATTATCTAAATGACATGAACAATT
* * * *
122371 TAGTTTTTTCCTTAAAAATTAGTGTTCAGATTAGAACTGACTCAATGTGTTGAA
66 TAATTTCTACCTTAAAAACTAGTGTTCAGATTAGAACTGACTCAATGTGTTGAA
122425 G
1 G
122426 AAAAGCTCCC
Statistics
Matches: 107, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
119 16 0.15
120 91 0.85
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (119 bp):
GTAACATACTAAGAACACTTAATATTTTATTATTATTGTTCATTATCTAAATGACATGAACAATT
TAATTTCTACCTTAAAAACTAGTGTTCAGATTAGAACTGACTCAATGTGTTGAA
Found at i:122884 original size:60 final size:57
Alignment explanation
Indices: 122786--122902 Score: 180
Period size: 60 Copynumber: 2.0 Consensus size: 57
122776 TGAATATGCA
*
122786 GAATATGCAAAAGTGTCAATTTACGTAGTTGCAGAGGAGAATTCCAAGAGAAATGGTCAT
1 GAATATGCAAAAGTGTCAATTTACGTAGCTGCAGAGGAGAATT-C-A-AGAAATGGTCAT
* *
122846 GAATATGCAAAAGTGTCAATTTGCGTAGCTGCATAGGAGAATTCAAGAAATGGTCAT
1 GAATATGCAAAAGTGTCAATTTACGTAGCTGCAGAGGAGAATTCAAGAAATGGTCAT
122903 TTCTTATTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
57 12 0.22
58 1 0.02
59 1 0.02
60 40 0.74
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.26
Consensus pattern (57 bp):
GAATATGCAAAAGTGTCAATTTACGTAGCTGCAGAGGAGAATTCAAGAAATGGTCAT
Found at i:123072 original size:21 final size:21
Alignment explanation
Indices: 123048--123141 Score: 75
Period size: 21 Copynumber: 4.5 Consensus size: 21
123038 GGTTCTAAAA
123048 TCGCAATGCGATTTTCCAAAT
1 TCGCAATGCGATTTTCCAAAT
* * * **
123069 TCGCAACGCGAATATGTAAA-
1 TCGCAATGCGATTTTCCAAAT
* *
123089 TCGCAACT-TGATTTTCTAAAT
1 TCGCAA-TGCGATTTTCCAAAT
** *
123110 TCGCAACACGGTTTTCCAAAT
1 TCGCAATGCGATTTTCCAAAT
123131 TCGCAATGCGA
1 TCGCAATGCGA
123142 ATATGTAAAT
Statistics
Matches: 53, Mismatches: 17, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
20 14 0.26
21 39 0.74
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAAAT
Found at i:123114 original size:62 final size:62
Alignment explanation
Indices: 123040--123157 Score: 191
Period size: 62 Copynumber: 1.9 Consensus size: 62
123030 GTAACACAGG
**
123040 TTCTAAAATCGCAATGCGATTTTCCAAATTCGCAACGCGAATATGTAAATCGCAACTTGATT
1 TTCTAAAATCGCAACACGATTTTCCAAATTCGCAACGCGAATATGTAAATCGCAACTTGATT
* * *
123102 TTCTAAATTCGCAACACGGTTTTCCAAATTCGCAATGCGAATATGTAAATCGCAAC
1 TTCTAAAATCGCAACACGATTTTCCAAATTCGCAACGCGAATATGTAAATCGCAAC
123158 ATTAATTACC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (62 bp):
TTCTAAAATCGCAACACGATTTTCCAAATTCGCAACGCGAATATGTAAATCGCAACTTGATT
Found at i:123213 original size:20 final size:20
Alignment explanation
Indices: 123188--123241 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
123178 AACAGTACTA
* *
123188 TCGCAACGCGATTTTTAAAT
1 TCGCAACGCGAATTTCAAAT
*
123208 TCGCAACGAGAATTTCAAAT
1 TCGCAACGCGAATTTCAAAT
*
123228 TCGCAACGCTAATT
1 TCGCAACGCGAATT
123242 ACCGATATAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (20 bp):
TCGCAACGCGAATTTCAAAT
Found at i:123297 original size:57 final size:57
Alignment explanation
Indices: 123208--123407 Score: 310
Period size: 57 Copynumber: 3.5 Consensus size: 57
123198 ATTTTTAAAT
* *
123208 TCGCAACGAGAATTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTATTA
1 TCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTATTA
* * * *
123265 TCGCAACGCGATTTTCAAATTCACAACACTAATTACCGATATAGGTTAACAGTACTA
1 TCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTATTA
* * *
123322 TCGCAACGCGATTTACAAATTCGCAACGCTAATTACCGATATAGGTAAACATTGTTA
1 TCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTATTA
*
123379 TCGCAACACGATTTTCAAATTCGCAACGC
1 TCGCAACGCGATTTTCAAATTCGCAACGC
123408 GATTTTCAAA
Statistics
Matches: 128, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 128 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (57 bp):
TCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTATTA
Found at i:123404 original size:20 final size:20
Alignment explanation
Indices: 123379--123425 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
123369 AACATTGTTA
123379 TCGCAACACGATTTTCAAAT
1 TCGCAACACGATTTTCAAAT
*
123399 TCGCAACGCGATTTTCAAAT
1 TCGCAACACGATTTTCAAAT
123419 TCGCAAC
1 TCGCAAC
123426 TCTAATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (20 bp):
TCGCAACACGATTTTCAAAT
Found at i:123523 original size:20 final size:20
Alignment explanation
Indices: 123466--123529 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
123456 TCGCAACGTA
123466 ATTTTGGAAACTGTGTTGCG
1 ATTTTGGAAACTGTGTTGCG
** * **
123486 A-TTTACAAATTCACGTTGCG
1 ATTTTGGAAACT-GTGTTGCG
123506 ATTTTGGAAACTGTGTTGCG
1 ATTTTGGAAACTGTGTTGCG
123526 ATTT
1 ATTT
123530 ACAAATTCGC
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
19 7 0.22
20 18 0.56
21 7 0.22
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.41
Consensus pattern (20 bp):
ATTTTGGAAACTGTGTTGCG
Found at i:123546 original size:20 final size:20
Alignment explanation
Indices: 123523--123562 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
123513 AAACTGTGTT
123523 GCGATTTACAAATTCGCAAC
1 GCGATTTACAAATTCGCAAC
*
123543 GCGATTTTCAAATTCGCAAC
1 GCGATTTACAAATTCGCAAC
123563 TCTAATTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (20 bp):
GCGATTTACAAATTCGCAAC
Found at i:123547 original size:40 final size:40
Alignment explanation
Indices: 123456--123550 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
123446 AACAGTACTA
**
123456 TCGCAACGTAATTTTGGAAACTGTGTTGCGATTTACAAAT
1 TCGCAACGCGATTTTGGAAACTGTGTTGCGATTTACAAAT
* ***
123496 TCACGTTGCGATTTTGGAAACTGTGTTGCGATTTACAAAT
1 TCGCAACGCGATTTTGGAAACTGTGTTGCGATTTACAAAT
123536 TCGCAACGCGATTTT
1 TCGCAACGCGATTTT
123551 CAAATTCGCA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (40 bp):
TCGCAACGCGATTTTGGAAACTGTGTTGCGATTTACAAAT
Found at i:123625 original size:20 final size:20
Alignment explanation
Indices: 123600--123646 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
123590 CTATCGCAAC
123600 GCGATTTTAGAAACTGTGTT
1 GCGATTTTAGAAACTGTGTT
*
123620 GCGATTTTGGAAACTGTGTT
1 GCGATTTTAGAAACTGTGTT
*
123640 TCGATTT
1 GCGATTT
123647 ATAAATTCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.43
Consensus pattern (20 bp):
GCGATTTTAGAAACTGTGTT
Found at i:124323 original size:48 final size:48
Alignment explanation
Indices: 124244--124463 Score: 298
Period size: 48 Copynumber: 4.6 Consensus size: 48
124234 TGGACAAATC
* * * *
124244 GACGGCCGAGCTAGAAGTAGTAGTCGCCGCTGTAGTTGAAACCCCGTT
1 GACGGCCGAGGTAGAAGTAGTCGTCGCCGCTGCAGTTGAAACCCCATT
* * * *
124292 GACGGTCGACGTAGAAGTAGTCGTCGTCGCTGCGGTTGAAACCCCATT
1 GACGGCCGAGGTAGAAGTAGTCGTCGCCGCTGCAGTTGAAACCCCATT
* *
124340 GACGCCCGAGGTAGAAGTAGCCGTCGCCGCTGCAGTTGAAACCCCATT
1 GACGGCCGAGGTAGAAGTAGTCGTCGCCGCTGCAGTTGAAACCCCATT
* * *
124388 GACGGCCGAGGTAGAAGTACTCGTCGCTGCTGCCGTTGAAA-CCCATT
1 GACGGCCGAGGTAGAAGTAGTCGTCGCCGCTGCAGTTGAAACCCCATT
* *
124435 GACGGCCGAGGTAGAAGAAGTCGCCGCCG
1 GACGGCCGAGGTAGAAGTAGTCGTCGCCG
124464 TTTCTGTTTC
Statistics
Matches: 149, Mismatches: 23, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 31 0.21
48 118 0.79
ACGTcount: A:0.22, C:0.27, G:0.32, T:0.19
Consensus pattern (48 bp):
GACGGCCGAGGTAGAAGTAGTCGTCGCCGCTGCAGTTGAAACCCCATT
Found at i:126757 original size:36 final size:34
Alignment explanation
Indices: 126687--126752 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 34
126677 TACTAATAGG
126687 TAATAAAAAATGATAAATTACTAATTTATTATTTT
1 TAATAAAAAA-GATAAATTACTAATTTATTATTTT
* *
126722 TAATAAAAAA-ATAAATTATTAATTAATTATT
1 TAATAAAAAAGATAAATTACTAATTTATTATT
126753 ATTTTATTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 19 0.66
35 10 0.34
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (34 bp):
TAATAAAAAAGATAAATTACTAATTTATTATTTT
Found at i:145085 original size:2 final size:2
Alignment explanation
Indices: 145036--145069 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
145026 CTATATTTGC
145036 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
145070 GCAGGGCCGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:147230 original size:19 final size:21
Alignment explanation
Indices: 147192--147231 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
147182 ATATTATCAA
147192 TTAAATATATATTAACAAAAC
1 TTAAATATATATTAACAAAAC
147213 TTAAATATATATTAA-AAAA
1 TTAAATATATATTAACAAAA
147232 GTCACACCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TTAAATATATATTAACAAAAC
Found at i:154063 original size:23 final size:23
Alignment explanation
Indices: 154003--154089 Score: 93
Period size: 23 Copynumber: 3.8 Consensus size: 23
153993 TACTTTTGTG
* * *
154003 CTGAATCATTCAACATTGTTTTA
1 CTGAATCAATCAGCACTGTTTTA
* *
154026 CTGAATCAGTTAGCACTGTTTTA
1 CTGAATCAATCAGCACTGTTTTA
* **
154049 CTGAATAAATCAGCACTGTTTGG
1 CTGAATCAATCAGCACTGTTTTA
*
154072 TTGAATCAATCAGCACTG
1 CTGAATCAATCAGCACTG
154090 AATCATTCAG
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (23 bp):
CTGAATCAATCAGCACTGTTTTA
Found at i:155936 original size:32 final size:32
Alignment explanation
Indices: 155878--155968 Score: 114
Period size: 32 Copynumber: 2.9 Consensus size: 32
155868 TATTGATGTA
* *
155878 TCACATGTCACAT-ATTATCTTGGATGATATG
1 TCACATGTCACATCATTATCTTAGATGAAATG
*
155909 AT-ACATGTCACATCATGATCTTAGATGAAATG
1 -TCACATGTCACATCATTATCTTAGATGAAATG
* *
155941 TCACATGTAACATCATTATCTTTGATGA
1 TCACATGTCACATCATTATCTTAGATGA
155969 CACGTTAGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
31 12 0.24
32 39 0.76
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (32 bp):
TCACATGTCACATCATTATCTTAGATGAAATG
Found at i:157964 original size:21 final size:21
Alignment explanation
Indices: 157940--157982 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
157930 GCTGTTGTAA
157940 TAGTTATTTTCCATTTGAATT
1 TAGTTATTTTCCATTTGAATT
157961 TAGTTATTTTCCATTTGAATT
1 TAGTTATTTTCCATTTGAATT
157982 T
1 T
157983 GGACAGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.58
Consensus pattern (21 bp):
TAGTTATTTTCCATTTGAATT
Found at i:159994 original size:9 final size:9
Alignment explanation
Indices: 159980--160004 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
159970 ATGAAACTAG
159980 AGAAGAAAA
1 AGAAGAAAA
159989 AGAAGAAAA
1 AGAAGAAAA
159998 AGAAGAA
1 AGAAGAA
160005 TGAAGACGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (9 bp):
AGAAGAAAA
Found at i:163579 original size:16 final size:16
Alignment explanation
Indices: 163547--163590 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
163537 CAACATATAA
*
163547 ACACC-TATCAATGGG
1 ACACCATATCAATAGG
*
163562 ACACCATATCACTAGG
1 ACACCATATCAATAGG
163578 ACACCATTATCAA
1 ACACCA-TATCAA
163591 GTACAAGAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 5 0.21
16 14 0.58
17 5 0.21
ACGTcount: A:0.39, C:0.30, G:0.11, T:0.20
Consensus pattern (16 bp):
ACACCATATCAATAGG
Found at i:164756 original size:43 final size:42
Alignment explanation
Indices: 164694--164834 Score: 153
Period size: 43 Copynumber: 3.4 Consensus size: 42
164684 GTTTATAATC
* * *
164694 AAAACGCAACTAAGGTACATGACTATTGCAGCGTTTATTACAA
1 AAAACGCCACTAAAGTACATGATTATTGCAGCGTTTATTA-AA
* * * *
164737 AAAATGCCACTAAATTACATGATTATTGCGGCGTTTATTATA
1 AAAACGCCACTAAAGTACATGATTATTGCAGCGTTTATTAAA
* * * *
164779 CAAACGCCACTAAAGTACAAGATTATTGCAGCG-TT-TGAAT
1 AAAACGCCACTAAAGTACATGATTATTGCAGCGTTTATTAAA
164819 AAAA-GCCACTAAAGTA
1 AAAACGCCACTAAAGTA
164835 GAATTCTATA
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 12 0.15
40 5 0.06
41 2 0.02
42 29 0.35
43 34 0.41
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (42 bp):
AAAACGCCACTAAAGTACATGATTATTGCAGCGTTTATTAAA
Found at i:164803 original size:42 final size:41
Alignment explanation
Indices: 164683--164834 Score: 157
Period size: 42 Copynumber: 3.7 Consensus size: 41
164673 ACAATCGCGA
* * * *
164683 CGTTTATAATCAAAACGCAACTAAGGTACATGACTATTGCAG
1 CGTTTATTAT-AAAACGCCACTAAAGTACATGATTATTGCAG
* * * *
164725 CGTTTATTACAAAAAATGCCACTAAATTACATGATTATTGCGG
1 CGTTTATT--ATAAAACGCCACTAAAGTACATGATTATTGCAG
*
164768 CGTTTATTATACAAACGCCACTAAAGTACAAGATTATTGCAG
1 CGTTTATTATA-AAACGCCACTAAAGTACATGATTATTGCAG
164810 CGTTTGA--ATAAAA-GCCACTAAAGTA
1 CGTTT-ATTATAAAACGCCACTAAAGTA
164835 GAATTCTATA
Statistics
Matches: 93, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
39 12 0.13
40 3 0.03
41 5 0.05
42 38 0.41
43 34 0.37
44 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (41 bp):
CGTTTATTATAAAACGCCACTAAAGTACATGATTATTGCAG
Found at i:166277 original size:23 final size:23
Alignment explanation
Indices: 166251--166298 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
166241 ATAAAGTACA
*
166251 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
166274 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
166297 AT
1 AT
166299 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:166742 original size:23 final size:23
Alignment explanation
Indices: 166716--166788 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
166706 ATATTTTACA
166716 ATATAACCACTACCTATTACATT
1 ATATAACCACTACCTATTACATT
*
166739 ATATAAACGA-TACCTATTACATT
1 ATAT-AACCACTACCTATTACATT
* * * *
166762 ATATAAGCGCTACTTATTACATC
1 ATATAACCACTACCTATTACATT
166785 ATAT
1 ATAT
166789 TTTTACCTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
22 2 0.05
23 36 0.86
24 4 0.10
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAACCACTACCTATTACATT
Found at i:167173 original size:430 final size:431
Alignment explanation
Indices: 166372--168716 Score: 4430
Period size: 430 Copynumber: 5.4 Consensus size: 431
166362 TTATAATATG
166372 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
* *
166437 TCAATTTTTTTTAATAGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* *
166502 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATA
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTAAATTTAACAATA
166567 ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
196 ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
166632 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAA
261 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAA
*
166697 AAAGGATAGATATTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATT
326 AAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATT
*
166762 ATATAAGCGCTACTTATTACATCATATTTTTACCTATTATA
391 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
166803 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
166868 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
166933 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTAAATTTAACAATA
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTAAATTTAACAATA
*
166997 ATATATATCATAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
196 ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
167062 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAA
261 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAA
*
167127 AAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATATTACATT
326 AAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATT
167192 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
391 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
167233 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
167298 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* * * *
167362 CAAAAAATTATTTGATTGTTTTCATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATA
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTAAATTTAACAATA
*
167427 ATATATATCGTAACGTAAAAAATAAATCATTAGACGTCTATAATTACTAAATTAATATCTTAAAA
196 ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
167492 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAA
261 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAA
* *
167557 AAAGGATAGATATTTTACAATATAACCACTACCTATTACATTATATAAACGATATCTATTACATT
326 AAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATT
167622 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
391 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
167663 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
167728 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
167793 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTAAATTTAACAATA
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTAAATTTAACAATA
*
167857 ATATATATCATAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
196 ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
167922 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAA
261 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAA
*
167987 AAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACTTATTACATT
326 AAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATT
168052 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
391 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
168093 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
168158 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* * * *
168223 CAAAAAATTATTTGATTGTTTTCATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATA
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTAAATTTAACAAT-
*
168288 ATATATATATCGTAACGTAAAAAATAAATCATTAGACGTCTATAATTACTAAATTAATATCTTAA
195 A-ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAA
168353 AACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTAT
259 AACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTAT
*
168418 AAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATATCTATTACA
324 AAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACA
168483 TTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
389 TTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
168526 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
168591 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
168655 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTAAATTTAACAA
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTAAATTTAACAA
168717 CATTAACCAA
Statistics
Matches: 1871, Mismatches: 38, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
429 106 0.06
430 1050 0.56
431 307 0.16
432 107 0.06
433 301 0.16
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.41
Consensus pattern (431 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTAAATTTAACAATA
ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAA
AAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATT
ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:167186 original size:23 final size:23
Alignment explanation
Indices: 167160--167218 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
167150 AACCACTACC
167160 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
167183 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
167206 TATTACATCATAT
1 TATTACATTATAT
167219 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:167602 original size:23 final size:23
Alignment explanation
Indices: 167576--167648 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
167566 ATATTTTACA
167576 ATATAACCACTACCTATTACATT
1 ATATAACCACTACCTATTACATT
* *
167599 ATATAAACGA-TATCTATTACATT
1 ATAT-AACCACTACCTATTACATT
* * *
167622 ATATAAGCGCTACCTATTACATC
1 ATATAACCACTACCTATTACATT
167645 ATAT
1 ATAT
167649 TTTTACCTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
22 2 0.05
23 35 0.85
24 4 0.10
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAACCACTACCTATTACATT
Found at i:168046 original size:23 final size:23
Alignment explanation
Indices: 168016--168078 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
168006 ATATAACCAC
168016 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
168039 TACTTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
168062 TACCTATTACATCATAT
1 TACCTATTACATTATAT
168079 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:168478 original size:23 final size:23
Alignment explanation
Indices: 168449--168511 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
168439 ATATAACCAC
168449 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
168472 TATCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
168495 TACCTATTACATCATAT
1 TACCTATTACATTATAT
168512 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:171699 original size:183 final size:184
Alignment explanation
Indices: 171370--171700 Score: 549
Period size: 183 Copynumber: 1.8 Consensus size: 184
171360 ACACTTTTTT
**
171370 CAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAGCAAGTGT
1 CAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
* *
171435 CGATATAGGTTGTAGACCTATCCGCTCATAAAACCGGTATATTTATACCGGTTATATTACAAAAT
66 CGATATAGGTTGTAGACCTATCCGCTCATAAAACCGGTATATTTATACCGGATACATTACAAAAT
*
171500 TATCTATTACATTATAATTCTGGGTTCTGATGTGTAACTGTCGACACGTTTTGA
131 TACCTATTACATTATAATTCTGGGTTCTGATGTGTAACTGTCGACACGTTTTGA
171554 CAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
1 CAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
* * *
171618 CGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACC-GATAGCATTGCAAAT
66 CGATATAGGTTGTAGACCTATCCGCTCATAAAACCGGTATATTTATACCGGATA-CATTACAAAA
**
171682 TTACCTATTTTATTATAAT
130 TTACCTATTACATTATAAT
171701 ATGTTGAAAG
Statistics
Matches: 136, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
182 3 0.02
183 129 0.95
184 4 0.03
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (184 bp):
CAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
CGATATAGGTTGTAGACCTATCCGCTCATAAAACCGGTATATTTATACCGGATACATTACAAAAT
TACCTATTACATTATAATTCTGGGTTCTGATGTGTAACTGTCGACACGTTTTGA
Done.