Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002681.1 Hibiscus syriacus cultivar Beakdansim tig00005544_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: 123604
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1455 original size:72 final size:72
Alignment explanation
Indices: 1369--1560 Score: 303
Period size: 72 Copynumber: 2.7 Consensus size: 72
1359 GTGAGGTTTC
* *
1369 GGCTTATAAATCGGAATCGGCGGCGGAAGCGGCTTCTTATAAACCGGAACTGGATGAGGCTTATA
1 GGCTTGTAAATCGGAACCGGCGGCGGAAGCGGCTTCTTATAAACCGGAACTGGATGAGGCTTATA
*
1434 AACTGGA
66 AACCGGA
1441 GGCTTGTAAATCGGAACCGGCGGCGGAAGCGGCTTCTTATAAACCGGAACTGGATGAGGCTTATA
1 GGCTTGTAAATCGGAACCGGCGGCGGAAGCGGCTTCTTATAAACCGGAACTGGATGAGGCTTATA
1506 AACCGGA
66 AACCGGA
* * * * * *
1513 GGCTTGTAGACCGGAACCGGCGGTGGTAGCGGCTTCTTGTAAATCGGA
1 GGCTTGTAAATCGGAACCGGCGGCGGAAGCGGCTTCTTATAAACCGGA
1561 GGGTGAGGGT
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (72 bp):
GGCTTGTAAATCGGAACCGGCGGCGGAAGCGGCTTCTTATAAACCGGAACTGGATGAGGCTTATA
AACCGGA
Found at i:3819 original size:26 final size:27
Alignment explanation
Indices: 3782--3836 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
3772 AAGTTGATTT
3782 ACGACGGACTTTTCAAATAGAATTTAA
1 ACGACGGACTTTTCAAATAGAATTTAA
*
3809 ACGAC-GACTTTTTAAATAGAATTTAA
1 ACGACGGACTTTTCAAATAGAATTTAA
3835 AC
1 AC
3837 ATTTACAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.31
Consensus pattern (27 bp):
ACGACGGACTTTTCAAATAGAATTTAA
Found at i:4971 original size:3 final size:3
Alignment explanation
Indices: 4963--5009 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
4953 AAGGGGAGTT
4963 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5010 TATATGGGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10471 original size:12 final size:12
Alignment explanation
Indices: 10454--10478 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10444 TTTTTCACAT
10454 GAAGATAATGAG
1 GAAGATAATGAG
10466 GAAGATAATGAG
1 GAAGATAATGAG
10478 G
1 G
10479 GTGACGGTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (12 bp):
GAAGATAATGAG
Found at i:12050 original size:20 final size:20
Alignment explanation
Indices: 12027--12113 Score: 59
Period size: 20 Copynumber: 4.2 Consensus size: 20
12017 ATTTTAAAAG
12027 TTATTAAATGATCATAAATT
1 TTATTAAATGATCATAAATT
* * *
12047 TTATTGAATGGTTATAAAATAT
1 TTATTAAATGATCAT-AAAT-T
* * *
12069 TTATTAAATTTATTA-AAATA
1 TTATTAAA-TGATCATAAATT
* *
12089 TTATAAAATAATCATTAAATT
1 TTATTAAATGATCA-TAAATT
12110 TTAT
1 TTAT
12114 AAAGTTATTA
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
19 4 0.08
20 19 0.37
21 16 0.31
22 8 0.16
23 4 0.08
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (20 bp):
TTATTAAATGATCATAAATT
Found at i:12081 original size:31 final size:31
Alignment explanation
Indices: 12058--12127 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
12048 TATTGAATGG
* *
12058 TTATAAAATATTTATTAAATTTATTAAAATA
1 TTATAAAATAATCATTAAATTTATTAAAATA
*
12089 TTATAAAATAATCATTAAATTT-TATAAAGTTA
1 TTATAAAATAATCATTAAATTTAT-TAAA-ATA
12121 TTATAAA
1 TTATAAA
12128 TTATTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 1 0.03
31 24 0.71
32 9 0.26
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (31 bp):
TTATAAAATAATCATTAAATTTATTAAAATA
Found at i:12124 original size:11 final size:10
Alignment explanation
Indices: 12058--12133 Score: 50
Period size: 11 Copynumber: 7.3 Consensus size: 10
12048 TATTGAATGG
*
12058 TTATAAAATA
1 TTATAAATTA
12068 TTTATTAAATTTA
1 -TTA-TAAA-TTA
12081 TTA-AAA-TA
1 TTATAAATTA
*
12089 TTATAAAATAA
1 TTAT-AAATTA
*
12100 TCATTAAATT-
1 TTA-TAAATTA
12110 TTATAAAGTTA
1 TTATAAA-TTA
12121 TTATAAATTA
1 TTATAAATTA
12131 TTA
1 TTA
12134 ATTTTTATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 17
0.70 0.07 0.23
Matches are distributed among these distances:
8 5 0.10
9 4 0.08
10 16 0.31
11 17 0.33
12 8 0.15
13 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (10 bp):
TTATAAATTA
Found at i:30320 original size:18 final size:18
Alignment explanation
Indices: 30297--30335 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
30287 TTGAAAACTA
30297 AAAAAATAAAAGAAAAAT
1 AAAAAATAAAAGAAAAAT
* * *
30315 AAAAAATGATATAAAAAT
1 AAAAAATAAAAGAAAAAT
30333 AAA
1 AAA
30336 TATAAATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (18 bp):
AAAAAATAAAAGAAAAAT
Found at i:31645 original size:42 final size:42
Alignment explanation
Indices: 31586--31670 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
31576 CCTGGGATAC
31586 CCCAGGCAACCCCTCAAAATTGTAACTTAGTGTTAATTTTTT
1 CCCAGGCAACCCCTCAAAATTGTAACTTAGTGTTAATTTTTT
31628 CCCAGGCAACCCCTCAAAATTGTAACTTAGTGTTAATTTTTT
1 CCCAGGCAACCCCTCAAAATTGTAACTTAGTGTTAATTTTTT
31670 C
1 C
31671 TATTTTTTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (42 bp):
CCCAGGCAACCCCTCAAAATTGTAACTTAGTGTTAATTTTTT
Found at i:31766 original size:82 final size:82
Alignment explanation
Indices: 31629--31790 Score: 306
Period size: 82 Copynumber: 2.0 Consensus size: 82
31619 TAATTTTTTC
* *
31629 CCAGGCAACCCCTCAAAATTGTAACTTAGTGTTAATTTTTTCTATTTTTTTAATTAATATAATTG
1 CCAGGCAACCCCTCAAAATTGTAACTTAGTGTTAATATTTTCTATTTTTTTAATTAATACAATTG
31694 CTACCCCTAATATTACT
66 CTACCCCTAATATTACT
31711 CCAGGCAACCCCTCAAAATTGTAACTTAGTGTTAATATTTTCTATTTTTTTAATTAATACAATTG
1 CCAGGCAACCCCTCAAAATTGTAACTTAGTGTTAATATTTTCTATTTTTTTAATTAATACAATTG
31776 CTACCCCTAATATTA
66 CTACCCCTAATATTA
31791 TGTGTAAATG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.41
Consensus pattern (82 bp):
CCAGGCAACCCCTCAAAATTGTAACTTAGTGTTAATATTTTCTATTTTTTTAATTAATACAATTG
CTACCCCTAATATTACT
Found at i:35168 original size:18 final size:18
Alignment explanation
Indices: 35145--35190 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
35135 AATAAGTTTG
35145 ACAAGTTTGACCGATTTA
1 ACAAGTTTGACCGATTTA
35163 ACAAGTTTGACCGATTTA
1 ACAAGTTTGACCGATTTA
35181 ACAAGTTTGA
1 ACAAGTTTGA
35191 TATGCAAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (18 bp):
ACAAGTTTGACCGATTTA
Found at i:38915 original size:17 final size:19
Alignment explanation
Indices: 38882--38916 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
38872 TAAAGTTTTT
38882 ATCTCAATTATTTATATTC
1 ATCTCAATTATTTATATTC
38901 ATCT-AATTA-TTATATT
1 ATCTCAATTATTTATATT
38917 TTCTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (19 bp):
ATCTCAATTATTTATATTC
Found at i:39946 original size:13 final size:13
Alignment explanation
Indices: 39928--39953 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39918 CGTCTTTATT
39928 AAAAGATTTTTTA
1 AAAAGATTTTTTA
39941 AAAAGATTTTTTA
1 AAAAGATTTTTTA
39954 TATTATTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
AAAAGATTTTTTA
Found at i:40100 original size:18 final size:19
Alignment explanation
Indices: 40063--40100 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
40053 TGTTTTTTTA
*
40063 TCATATTCAGTATGTCATT
1 TCATATTCAGGATGTCATT
*
40082 TCATTTTCAGGAT-TCATT
1 TCATATTCAGGATGTCATT
40100 T
1 T
40101 ACTGTACATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.50
Consensus pattern (19 bp):
TCATATTCAGGATGTCATT
Found at i:41180 original size:94 final size:94
Alignment explanation
Indices: 41019--41206 Score: 313
Period size: 94 Copynumber: 2.0 Consensus size: 94
41009 AATTGTTACT
** * *
41019 ACTTGCAAACCTTTAGTTCTGCGAGTGTTTATATAAGTGAATATATTACTCATGTGAACATTTAA
1 ACTTGCAAACCTTTAGTTCCACAAGTGTTTATATAAGTGAATATATTACTCATGCGAACATTTAA
* *
41084 GAATGCAAATATAAGATCCATGTAAGTTC
66 GAATACAAATATAAGATCCATGCAAGTTC
*
41113 ACTTGCAAACCTTTAGTTCCACAAGTGTTTGTATAAGTGAATATATTACTCATGCGAACATTTAA
1 ACTTGCAAACCTTTAGTTCCACAAGTGTTTATATAAGTGAATATATTACTCATGCGAACATTTAA
41178 GAATACAAATATAAGATCCATGCAAGTTC
66 GAATACAAATATAAGATCCATGCAAGTTC
41207 TCAGACACAT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 87 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (94 bp):
ACTTGCAAACCTTTAGTTCCACAAGTGTTTATATAAGTGAATATATTACTCATGCGAACATTTAA
GAATACAAATATAAGATCCATGCAAGTTC
Found at i:43877 original size:20 final size:20
Alignment explanation
Indices: 43849--43894 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
43839 TCCATAAAAT
*
43849 ACAATTATTAGGAACACTTG
1 ACAACTATTAGGAACACTTG
43869 ACAACTATTAGGAACACTTG
1 ACAACTATTAGGAACACTTG
43889 ACAACT
1 ACAACT
43895 TTCTTGTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (20 bp):
ACAACTATTAGGAACACTTG
Found at i:45189 original size:18 final size:18
Alignment explanation
Indices: 45166--45218 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
45156 TTGGTACTTA
45166 TAAATAAATAAATAATAT
1 TAAATAAATAAATAATAT
45184 TAAATACAATAAA-AATAT
1 TAAATA-AATAAATAATAT
* *
45202 GATATAAATACAATAAT
1 TAAATAAATA-AATAAT
45219 TCAAATTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 4 0.13
18 17 0.57
19 9 0.30
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (18 bp):
TAAATAAATAAATAATAT
Found at i:45212 original size:22 final size:20
Alignment explanation
Indices: 45164--45217 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 20
45154 TTTTGGTACT
*
45164 TATAAATA-AATAAATAATA
1 TATAAATACAATAAAAAATA
45183 T-TAAATACAATAAAAATATGA
1 TATAAATACAATAAAAA-AT-A
45204 TATAAATACAATAA
1 TATAAATACAATAA
45218 TTCAAATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.20
19 8 0.27
20 2 0.07
21 2 0.07
22 12 0.40
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (20 bp):
TATAAATACAATAAAAAATA
Found at i:51030 original size:55 final size:56
Alignment explanation
Indices: 50958--51402 Score: 240
Period size: 55 Copynumber: 8.1 Consensus size: 56
50948 GTCGGGATAA
* ** *
50958 ATAAGACTTGAAAAATCTTCAA-ATGACGAGCCTGCTCCCTATTCCTTCAG-GAAGT
1 ATAAGACTTGAACAATCTTCAATAAAACGAGCCTGCTCCCTATTCATTCAGAG-AGT
* * * * *
51013 ATAAGACTCGAACAATCTT-AATAAAATGTGTCTGCTCTCTATTCATTCAGAGAGT
1 ATAAGACTTGAACAATCTTCAATAAAACGAGCCTGCTCCCTATTCATTCAGAGAGT
* * * *
51068 ATAAGACTTGAACAATCTTCAATAAAGCGGGTCC-GCTCTCTATTCCTTCAGAGAGT
1 ATAAGACTTGAACAATCTTCAATAAAACGAG-CCTGCTCCCTATTCATTCAGAGAGT
* *
51124 AT-AGAACTCGGAA-AATCTTCAAT-AAAC-AGGTCC-GCTCCCTATTCTTTCAGAGAGT
1 ATAAG-ACT-TGAACAATCTTCAATAAAACGA-G-CCTGCTCCCTATTCATTCAGAGAGT
* * * * * *
51179 ATAGGAC-T---CAATCTTTAA-CAAACGTG-TTCGCTCCCTATTCCTTCAGAGAGT
1 ATAAGACTTGAACAATCTTCAATAAAACGAGCCT-GCTCCCTATTCATTCAGAGAGT
** * * * * *
51230 AT-AGAACACGAGCAATCTTC-ATTAAACGGGTCC-GCTCTCTATTCCTTCAGAGAGT
1 ATAAG-ACTTGAACAATCTTCAATAAAACGAG-CCTGCTCCCTATTCATTCAGAGAGT
* * * *
51285 AT-AGAACTCGAACAATCTTCAA-CAAAC-ATGTCC-GCTCTCTATTCCTTCAGAGAGT
1 ATAAG-ACTTGAACAATCTTCAATAAAACGA-G-CCTGCTCCCTATTCATTCAGAGAGT
* * * *
51340 AT-AGAACTCGAACAATCTTCAA-CAAAC-ATGTCC-GCTCTCTATTCCTTCAGAGAGT
1 ATAAG-ACTTGAACAATCTTCAATAAAACGA-G-CCTGCTCCCTATTCATTCAGAGAGT
*
51395 ATAGGACT
1 ATAAGACT
51403 CAATCTTCAA
Statistics
Matches: 328, Mismatches: 38, Indels: 48
0.79 0.09 0.12
Matches are distributed among these distances:
50 1 0.00
51 38 0.12
54 3 0.01
55 234 0.71
56 48 0.15
57 4 0.01
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (56 bp):
ATAAGACTTGAACAATCTTCAATAAAACGAGCCTGCTCCCTATTCATTCAGAGAGT
Found at i:51345 original size:110 final size:106
Alignment explanation
Indices: 50991--51418 Score: 508
Period size: 110 Copynumber: 4.0 Consensus size: 106
50981 TGACGAGCCT
*
50991 GCTCCCTATTCCTTCAG-GAAGTATA-AGACTCGAACAATCTT-AATAAA-ATGTGTCTGCTCTC
1 GCTCCCTATTCCTTCAGAG-AGTATAGA-ACTCGAACAATCTTCAATAAACA-G-GTCCGCTCTC
* * *
51052 TATTCATTCAGAGAGTATA-AGACTTGAACAATCTTCAATAAAGCGGGTCC
62 TATTCCTTCAGAGAGTATAGA-AC-T---CAATCTTCAACAAA-CGTGTCC
* *
51102 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGGAA-AATCTTCAATAAACAGGTCCGCTCCCTAT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTC-GAACAATCTTCAATAAACAGGTCCGCTCTCTAT
* * * *
51166 TCTTTCAGAGAGTATAGGACTCAATCTTTAACAAACGTGTTC
65 TCCTTCAGAGAGTATAGAACTCAATCTTCAACAAACGTGTCC
* * * *
51208 GCTCCCTATTCCTTCAGAGAGTATAGAACACGAGCAATCTTCATTAAACGGGTCCGCTCTCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACAGGTCCGCTCTCTATT
*
51273 CCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACATGTCC
66 CCTTCAGAGAGTATAGAACT----CAATCTTCAACAAACGTGTCC
* * *
51318 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACATGTCCGCTCTCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACAGGTCCGCTCTCTATT
*
51383 CCTTCAGAGAGTATAGGACTCAATCTTCAACAAACG
66 CCTTCAGAGAGTATAGAACTCAATCTTCAACAAACG
51419 AGTTTGCTCC
Statistics
Matches: 277, Mismatches: 29, Indels: 27
0.83 0.09 0.08
Matches are distributed among these distances:
105 2 0.01
106 94 0.34
107 12 0.04
110 96 0.35
111 60 0.22
112 12 0.04
113 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (106 bp):
GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACAGGTCCGCTCTCTATT
CCTTCAGAGAGTATAGAACTCAATCTTCAACAAACGTGTCC
Found at i:51392 original size:216 final size:217
Alignment explanation
Indices: 50991--51428 Score: 634
Period size: 216 Copynumber: 2.0 Consensus size: 217
50981 TGACGAGCCT
* * * *
50991 GCTCCCTATTCCTTCAGGAAGTATAAGACTCGAACAATCTTAATAAAATGTGTCTGCTCTCTATT
1 GCTCCCTATTCCTTCAGGAAGTATAAGACACGAACAATCTTAATAAAACGGGTCCGCTCTCTATT
* * *
51056 CATTCAGAGAGTATAAGACTTGAACAATCTTCAATAAAGCGGGTCCGCTCTCTATTCCTTCAGAG
66 CATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAGCAGGTCCGCTCTCTATTCCTTCAGAG
* *
51121 AGTATAGAACTCGGAAAATCTTCAATAAACAGGTCCGCTCCCTATTCTTTCAGAGAGTATAGGAC
131 AGTATAGAACTCGGAAAATCTTCAACAAACAGGTCCGCTCCCTATTCCTTCAGAGAGTATAGGAC
* *
51186 TCAATCTTTAACAAACGTGTTC
196 TCAATCTTCAACAAACGAGTTC
* * *
51208 GCTCCCTATTCCTTCA-GAGAGTAT-AGAACACGAGCAATCTTCATTAAACGGGTCCGCTCTCTA
1 GCTCCCTATTCCTTCAGGA-AGTATAAG-ACACGAACAATCTTAATAAAACGGGTCCGCTCTCTA
* *
51271 TTCCTTCAGAGAGTAT-AGAACTCGAACAATCTTCAACAAA-CATGTCCGCTCTCTATTCCTTCA
64 TTCATTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAAGCAGGTCCGCTCTCTATTCCTTCA
* *
51334 GAGAGTATAGAACTC-GAACAATCTTCAACAAACATGTCCGCTCTCTATTCCTTCAGAGAGTATA
128 GAGAGTATAGAACTCGGAA-AATCTTCAACAAACAGGTCCGCTCCCTATTCCTTCAGAGAGTATA
*
51398 GGACTCAATCTTCAACAAACGAGTTT
192 GGACTCAATCTTCAACAAACGAGTTC
51424 GCTCC
1 GCTCC
51429 ACTACTCTTC
Statistics
Matches: 198, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
215 3 0.02
216 111 0.56
217 84 0.42
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (217 bp):
GCTCCCTATTCCTTCAGGAAGTATAAGACACGAACAATCTTAATAAAACGGGTCCGCTCTCTATT
CATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAAGCAGGTCCGCTCTCTATTCCTTCAGAG
AGTATAGAACTCGGAAAATCTTCAACAAACAGGTCCGCTCCCTATTCCTTCAGAGAGTATAGGAC
TCAATCTTCAACAAACGAGTTC
Found at i:51409 original size:161 final size:162
Alignment explanation
Indices: 50991--51412 Score: 513
Period size: 161 Copynumber: 2.6 Consensus size: 162
50981 TGACGAGCCT
* *
50991 GCTCCCTATTCCTTCAG-GAAGTATA-AGACTCGAACAATCTTAATAAA-ATGTGTCTGCTCTCT
1 GCTCCCTATTCCTTCAGAG-AGTATAGA-ACTCGAACAATCTTAACAAACA--TGTCCGCTCTCT
* * *
51053 ATTCATTCAGAGAGTATAAGACTTGAACAATCTTCAATAAAGCGGGTCCGCTCTCTATTCCTTCA
62 ATTCCTTCAGAGAGTATAGGAC---ATCAATCTTCAATAAAGCGGGTCCGCTCTCTATTCCTTCA
*
51118 GAGAGTATAGAACTCGGAAAATCTTCAATAAACAGGTCC
124 GAGAGTATAGAACTCGGAAAATCTTCAACAAACAGGTCC
* * * * *
51157 GCTCCCTATTCTTTCAGAGAGTATAGGACT----CAATCTTTAACAAACGTGTTCGCTCCCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATC-TTAACAAACATGTCCGCTCTCTATT
* * *
51218 CCTTCAGAGAGTATAGAACACGAGCAATCTTCATTAAA-CGGGTCCGCTCTCTATTCCTTCAGAG
65 CCTTCAGAGAGTATAG--GAC-ATCAATCTTCAATAAAGCGGGTCCGCTCTCTATTCCTTCAGAG
*
51282 AGTATAGAACTC-GAACAATCTTCAACAAACATGTCC
127 AGTATAGAACTCGGAA-AATCTTCAACAAACAGGTCC
*
51318 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACATGTCCGCTCTCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTT-AACAAACATGTCCGCTCTCTATT
51383 CCTTCAGAGAGTATAGGAC-TCAATCTTCAA
65 CCTTCAGAGAGTATAGGACATCAATCTTCAA
51413 CAAACGAGTT
Statistics
Matches: 221, Mismatches: 23, Indels: 29
0.81 0.08 0.11
Matches are distributed among these distances:
160 3 0.01
161 92 0.42
162 46 0.21
163 9 0.04
164 4 0.02
165 41 0.19
166 25 0.11
167 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (162 bp):
GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTAACAAACATGTCCGCTCTCTATTC
CTTCAGAGAGTATAGGACATCAATCTTCAATAAAGCGGGTCCGCTCTCTATTCCTTCAGAGAGTA
TAGAACTCGGAAAATCTTCAACAAACAGGTCC
Found at i:51468 original size:36 final size:36
Alignment explanation
Indices: 51421--51527 Score: 151
Period size: 36 Copynumber: 2.9 Consensus size: 36
51411 AACAAACGAG
*
51421 TTTGCTCCACTACTCTTCCGTGAAGGCTTAAGATGA
1 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATGA
*
51457 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGTTTGA
1 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAG-ATGA
* * * *
51494 ATTGCTTCACTGCTCTTTCATGAAGGCTTAAGAT
1 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGAT
51528 TGACCTGTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
36 32 0.51
37 31 0.49
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.37
Consensus pattern (36 bp):
TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATGA
Found at i:51510 original size:37 final size:36
Alignment explanation
Indices: 51422--51530 Score: 146
Period size: 37 Copynumber: 3.0 Consensus size: 36
51412 ACAAACGAGT
* * *
51422 TTGCTCCACTACTCTTCCGTGAAGGCTTAAGATGAT
1 TTGCTTCACTACTCTTCCGTGAAGGCTTAAGTTGAA
51458 TTGCTTCACTACTCTTCCGTGAAGGCTTAAGTTTGAA
1 TTGCTTCACTACTCTTCCGTGAAGGCTTAAG-TTGAA
* * *
51495 TTGCTTCACTGCTCTTTCATGAAGGCTTAAGATTGA
1 TTGCTTCACTACTCTTCCGTGAAGGCTTAAG-TTGA
51531 CCTGTTTTGA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
36 30 0.46
37 35 0.54
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (36 bp):
TTGCTTCACTACTCTTCCGTGAAGGCTTAAGTTGAA
Found at i:52833 original size:16 final size:15
Alignment explanation
Indices: 52813--52934 Score: 77
Period size: 16 Copynumber: 7.5 Consensus size: 15
52803 TTATTTCTCT
52813 TTTTTTTCATTTTTC
1 TTTTTTTCATTTTTC
52828 TCTTTTTTCATTTTTC
1 T-TTTTTTCATTTTTC
* *
52844 ATTTTTTCTTCCCTTTTCC
1 --TTTTT-TT-CATTTTTC
*
52863 ATTTTTTC-TTCTTT-
1 TTTTTTTCATT-TTTC
* *
52877 TTTTTTTCCTTTTCC
1 TTTTTTTCATTTTTC
52892 TTTTTTCCATCATTTTTC
1 TTTTTT---TCATTTTTC
*
52910 TTTTTTCTCATTTTTT
1 TTTTTT-TCATTTTTC
52926 TATTTTTTC
1 T-TTTTTTC
52935 TCTTTTATTT
Statistics
Matches: 85, Mismatches: 10, Indels: 23
0.72 0.08 0.19
Matches are distributed among these distances:
14 11 0.13
15 12 0.14
16 27 0.32
17 13 0.15
18 16 0.19
19 6 0.07
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTTCATTTTTC
Found at i:52879 original size:19 final size:18
Alignment explanation
Indices: 52812--52947 Score: 72
Period size: 18 Copynumber: 7.6 Consensus size: 18
52802 TTTATTTCTC
*
52812 TTTTTTTTCATTTTT-C-
1 TTTTTTTTCTTTTTTCCA
* *
52828 TCTTTTTTCATTTTT-CA
1 TTTTTTTTCTTTTTTCCA
**
52845 TTTTTTCTTCCCTTTTCCA
1 TTTTTT-TTCTTTTTTCCA
52864 TTTTTTCTTCTTTTTT---
1 TTTTTT-TTCTTTTTTCCA
52880 TTTTCCTTTTCCTTTTTTCCA
1 TTTT--TTTT-CTTTTTTCCA
**
52901 TCATTTTTCTTTTTTCTCA
1 TTTTTTTTCTTTTTTC-CA
*
52920 -TTTTTTTATTTTTTCTC-
1 TTTTTTTTCTTTTTTC-CA
*
52937 TTTTATTTCTT
1 TTTTTTTTCTT
52948 CTTCAAGCAA
Statistics
Matches: 96, Mismatches: 13, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
16 19 0.20
17 7 0.07
18 46 0.48
19 22 0.23
21 2 0.02
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTTTCTTTTTTCCA
Found at i:52908 original size:30 final size:30
Alignment explanation
Indices: 52842--52914 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 30
52832 TTTTCATTTT
* * *
52842 TCATTTTTTCTTCCCTTTTCCATTTTTTCT
1 TCATTTTTTTTTTCCTTTTCCATTTTTTCA
52872 TC-TTTTTTTTTTCCTTTTCC-TTTTTTCCA
1 TCATTTTTTTTTTCCTTTTCCATTTTTT-CA
52901 TCATTTTTCTTTTT
1 TCATTTTT-TTTTT
52915 TCTCATTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 6 0.16
29 19 0.51
30 7 0.19
31 5 0.14
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.71
Consensus pattern (30 bp):
TCATTTTTTTTTTCCTTTTCCATTTTTTCA
Found at i:52914 original size:7 final size:7
Alignment explanation
Indices: 52814--52917 Score: 57
Period size: 7 Copynumber: 13.1 Consensus size: 7
52804 TATTTCTCTT
52814 TTTTTTC
1 TTTTTTC
52821 ATTTTTCTC
1 -TTTTT-TC
52830 TTTTTTC
1 TTTTTTC
*
52837 ATTTTTC
1 TTTTTTC
52844 ATTTTTTC
1 -TTTTTTC
52852 TTCCCTTTTCC
1 TT---TTTT-C
52863 ATTTTTTC
1 -TTTTTTC
52871 TTCTTTT-
1 TT-TTTTC
52878 TTTTTTC
1 TTTTTTC
* *
52885 CTTTTCC
1 TTTTTTC
52892 TTTTTTCC
1 TTTTTT-C
52900 ATCATTTTTC
1 -T--TTTTTC
52910 TTTTTTC
1 TTTTTTC
52917 T
1 T
52918 CATTTTTTTA
Statistics
Matches: 77, Mismatches: 6, Indels: 27
0.70 0.05 0.25
Matches are distributed among these distances:
6 4 0.05
7 30 0.39
8 22 0.29
9 8 0.10
10 5 0.06
11 6 0.08
12 2 0.03
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTTC
Found at i:62629 original size:45 final size:45
Alignment explanation
Indices: 62562--62704 Score: 198
Period size: 45 Copynumber: 3.1 Consensus size: 45
62552 TGTTATCCAC
* * *
62562 AAAAAGAAATCCTAACCTCATGATATCTAATTCGCATGCTTATTC-
1 AAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGCTTATTCG
*
62607 AGAAAATAAACCTAACCGCATGATATCTAGTTCGCATGCTTGTTCG
1 A-AAAATAAACCTAACCGCATGATATCTAGTTCGCATGCTTATTCG
*
62653 AAAAATAAACCTAACCGCATGATATCTAGTTCGCAAGCATTTATTCG
1 AAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC--TTATTCG
62700 AAAAA
1 AAAAA
62705 ATGAAAATAA
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
45 69 0.78
46 8 0.09
47 11 0.12
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (45 bp):
AAAAATAAACCTAACCGCATGATATCTAGTTCGCATGCTTATTCG
Found at i:76809 original size:76 final size:77
Alignment explanation
Indices: 76643--76853 Score: 291
Period size: 77 Copynumber: 2.8 Consensus size: 77
76633 CAAAGCCAAA
* * * * **
76643 AATTACAGATTGCTCAGAGGGAACTGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
76708 TTTGGCCCCGAG
66 TTTGGCCCCGAG
*
76720 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
*
76785 TTT-GCTCCGAG
66 TTTGGCCCCGAG
* * * *
76796 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGGTACCGATTCCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATA-GGAGGAACCGATTCCCCCCT
76854 TGTACAACGG
Statistics
Matches: 120, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
75 1 0.01
76 58 0.48
77 61 0.51
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (77 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
TTTGGCCCCGAG
Found at i:77090 original size:18 final size:17
Alignment explanation
Indices: 77050--77091 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
77040 ATTGATCAAT
*
77050 AACAAGAAACATCAAGC
1 AACAAGAAACATCAAGA
77067 AACAAGAAATCAT-AGAGA
1 AACAAGAAA-CATCA-AGA
77085 AACAAGA
1 AACAAGA
77092 GAGAAAGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.62, C:0.17, G:0.14, T:0.07
Consensus pattern (17 bp):
AACAAGAAACATCAAGA
Found at i:82684 original size:21 final size:21
Alignment explanation
Indices: 82658--82697 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
82648 CCCCCTTTGA
*
82658 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
82679 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
82698 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:84643 original size:9 final size:8
Alignment explanation
Indices: 84621--84671 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
84611 TGTTTCAACA
84621 TTTTGGAT
1 TTTTGGAT
84629 ATTTTGGAT
1 -TTTTGGAT
84638 TGTTT-GAT
1 T-TTTGGAT
84646 TTTGTGGAT
1 TTT-TGGAT
*
84655 TGTTGGA-
1 TTTTGGAT
84662 TTTTGGAT
1 TTTTGGAT
84670 TT
1 TT
84672 ATGAATGGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
7 8 0.22
8 12 0.33
9 16 0.44
ACGTcount: A:0.14, C:0.00, G:0.27, T:0.59
Consensus pattern (8 bp):
TTTTGGAT
Found at i:84655 original size:17 final size:17
Alignment explanation
Indices: 84623--84666 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
84613 TTTCAACATT
84623 TTGGATATTT-TGGATTG
1 TTGGAT-TTTGTGGATTG
*
84640 TTTGATTTTGTGGATTG
1 TTGGATTTTGTGGATTG
84657 TTGGATTTTG
1 TTGGATTTTG
84667 GATTTATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (17 bp):
TTGGATTTTGTGGATTG
Found at i:85422 original size:55 final size:55
Alignment explanation
Indices: 85298--85422 Score: 180
Period size: 54 Copynumber: 2.3 Consensus size: 55
85288 CCCCATAGGA
** *
85298 GGAACCGATTCCCCCCTAAATGGTTTTGGCCCCGAGATTTCCAGAATGCTCAGAG
1 GGAACCGATTCCCCCCTAAACAGTTTTGGCCCCGAGAATTCCAGAATGCTCAGAG
* * *
85353 GGAACCGATTCCCCCCTAAACAGTTTT-GCTCCGAGAATTCCAGTATGCTCGGAG
1 GGAACCGATTCCCCCCTAAACAGTTTTGGCCCCGAGAATTCCAGAATGCTCAGAG
*
85407 GGAACCGATCCCCCCC
1 GGAACCGATTCCCCCC
85423 AAGGGGGTAC
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 38 0.60
55 25 0.40
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (55 bp):
GGAACCGATTCCCCCCTAAACAGTTTTGGCCCCGAGAATTCCAGAATGCTCAGAG
Found at i:85680 original size:18 final size:17
Alignment explanation
Indices: 85640--85681 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
85630 ATTGATCAAT
*
85640 AACAAGAAACATCAAGC
1 AACAAGAAACATCAAGA
85657 AACAAGAAATCAT-AGAGA
1 AACAAGAAA-CATCA-AGA
85675 AACAAGA
1 AACAAGA
85682 GAGAAAGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.62, C:0.17, G:0.14, T:0.07
Consensus pattern (17 bp):
AACAAGAAACATCAAGA
Found at i:91187 original size:2 final size:2
Alignment explanation
Indices: 91180--91204 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
91170 AAAATTAATG
91180 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
91205 TAATAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:92480 original size:33 final size:33
Alignment explanation
Indices: 92439--92538 Score: 173
Period size: 33 Copynumber: 3.0 Consensus size: 33
92429 AAAATGCTTC
92439 GGTTTTAGTGTTTCAATAGGACTCAAATACGTT
1 GGTTTTAGTGTTTCAATAGGACTCAAATACGTT
92472 GGTTTTAGTGTTTCAATAGGACTCAAATACGTT
1 GGTTTTAGTGTTTCAATAGGACTCAAATACGTT
* * *
92505 AGTTTTAGTATTTTAATAGGACTCAAATACGTT
1 GGTTTTAGTGTTTCAATAGGACTCAAATACGTT
92538 G
1 G
92539 ATTTATTTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (33 bp):
GGTTTTAGTGTTTCAATAGGACTCAAATACGTT
Found at i:92614 original size:17 final size:17
Alignment explanation
Indices: 92590--92636 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
92580 AGGGCCTACA
92590 AAAATAATAAAAT-AAT
1 AAAATAATAAAATAAAT
92606 AATAATAAT-AAATAAAT
1 AA-AATAATAAAATAAAT
92623 AAATATAATAAAAT
1 AAA-ATAATAAAAT
92637 GTTTTTGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 7 0.26
17 16 0.59
18 4 0.15
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAATAATAAAATAAAT
Found at i:93283 original size:169 final size:169
Alignment explanation
Indices: 92982--93507 Score: 681
Period size: 169 Copynumber: 3.1 Consensus size: 169
92972 GAATGGAATT
* * * * * * * *
92982 GAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATAT-A
* * * * *
93046 CCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC---T--TTGGCAGATAACCCTTCTCGACTTAA
65 CCTTGGAGCTGAGTGTAGTTGAACTCGAAGGTCTTTTGGTTGGCAGATAACCCTTCTCGACTTAA
*
93106 GTTATGCTACAAATGATGTGCCTTGGAGCTGAGTGTAGTC
130 GTTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTC
*
93146 GAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATAC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATAC
* * *
93211 CTTGGAGCTGCGCGTAGTTGAACTCGAAGGTCTTTTGGTTGGCAGATAGCCCTTCTCGACTTAAG
66 CTTGGAGCTGAGTGTAGTTGAACTCGAAGGTCTTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
*
93276 TTATGCTACAAATGATGTGCCTTGAAGCTGAGCGTAGTC
131 TTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTC
* * * *
93315 GAACTCGAAGGTATTTGGTTGGCAAATAACCCTTCTCAACTTAAGTTATGCTGCAAATGATATGC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATAC
* *
93380 CTTGGAGCTTAGTGTAG-TCAATCTCGAAGGTCTTTTGGTTGGCAGATAACCCTTCTCGACTTAA
66 CTTGGAGCTGAGTGTAGTTGAA-CTCGAAGGTCTTTTGGTTGGCAGATAACCCTTCTCGACTTAA
* ** * *
93444 -TCTATACTGTAAATGTTGTGCCTTTGAGCTGAGCGTAGTC
130 GT-TATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTC
* *
93484 GAACTTGAAGGTCTTTGGTGGGCA
1 GAACTCGAAGGTCTTTGGTTGGCA
93508 CAATTCCCTT
Statistics
Matches: 316, Mismatches: 38, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
164 44 0.14
165 36 0.11
167 1 0.00
168 4 0.01
169 231 0.73
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (169 bp):
GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATAC
CTTGGAGCTGAGTGTAGTTGAACTCGAAGGTCTTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
TTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTC
Found at i:93288 original size:85 final size:84
Alignment explanation
Indices: 92982--93507 Score: 661
Period size: 84 Copynumber: 6.3 Consensus size: 84
92972 GAATGGAATT
* * * * * *
92982 GAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-
* * * *
93046 CCTCGAAGCTGAGTGTAATC
65 CCTTGGAGCTGAGCGTAGTC
* *
93066 GAACTCGAGGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATGTGC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
*
93127 CTTGGAGCTGAGTGTAGTC
66 CTTGGAGCTGAGCGTAGTC
* * *
93146 GAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATAC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
* *
93211 CTTGGAGCTGCGCGTAGTT
66 CTTGGAGCTGAGCGTAGTC
* *
93230 GAACTCGAAGGTCTTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTACAAATGATGTG
1 GAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
*
93295 CCTTGAAGCTGAGCGTAGTC
65 CCTTGGAGCTGAGCGTAGTC
* * * *
93315 GAACTCGAAGGTATTTGGTTGGCAAATAACCCTTCTCAACTTAAGTTATGCTGCAAATGATATGC
1 GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
* *
93380 CTTGGAGCTTAGTGTAGTC
66 CTTGGAGCTGAGCGTAGTC
* * *
93399 -AATCTCGAAGGTCTTTTGGTTGGCAGATAACCCTTCTCGACTTAA-TCTATACTGTAAATGTTG
1 GAA-CTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGT-TATGCTGCAAATGATG
*
93462 TGCCTTTGAGCTGAGCGTAGTC
63 TGCCTTGGAGCTGAGCGTAGTC
* *
93484 GAACTTGAAGGTCTTTGGTGGGCA
1 GAACTCGAAGGTCTTTGGTTGGCA
93508 CAATTCCCTT
Statistics
Matches: 384, Mismatches: 48, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
80 29 0.08
81 38 0.10
82 2 0.01
83 2 0.01
84 167 0.43
85 144 0.38
86 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (84 bp):
GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
CTTGGAGCTGAGCGTAGTC
Found at i:93834 original size:110 final size:110
Alignment explanation
Indices: 93619--94029 Score: 609
Period size: 110 Copynumber: 3.8 Consensus size: 110
93609 ATATGTTGCT
* *
93619 TCGAGGCCAATATCATTCGCCGTGAAGTTGAAATTGACTC----TGAAACTGGAAAA-TTGTTTG
1 TCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACT-GAAAAGTTGTTTG
* *
93679 TTGACAGCCAGTCTCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
65 TTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* * *
93725 TCGAGTCCAATATCATTCGTTGTGAAGTTAAAATTGCCTCTGAATGAAACTGAAAAGTTGTTTGT
1 TCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
* * *
93790 TGGCAGTCAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* * * *
93835 TTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATAAAAC-GAAAAAGTTTTTTG
1 TCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTG-AAAAGTTGTTTG
*
93899 TTGACAGTCAGTCGCCCCTTCACTGTGAAGTTGAGCTTGTGTTGTC
65 TTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
*
93945 TCGAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
1 TCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
*
94010 TGACAGTCAGTCACCCCTTC
66 TGACAGTCAGTCGCCCCTTC
94030 TGTAACATCC
Statistics
Matches: 272, Mismatches: 26, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
106 35 0.13
109 6 0.02
110 230 0.85
111 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (110 bp):
TCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
Found at i:96406 original size:18 final size:18
Alignment explanation
Indices: 96376--96448 Score: 83
Period size: 18 Copynumber: 3.9 Consensus size: 18
96366 AGGGATTATC
96376 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* * * *
96394 AGTAGTTCTTCGGAAAAAT
1 AGTGGTCCTTCGG-GACAT
*
96413 CAGTGGTCCTTTGGGACAT
1 -AGTGGTCCTTCGGGACAT
96432 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
96449 AATATTCAGT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
18 27 0.63
19 6 0.14
20 10 0.23
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:101534 original size:34 final size:34
Alignment explanation
Indices: 101496--101577 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 34
101486 GTCCTACTTG
*
101496 GACTCAAAATGC-TTCGGTTTTAGTGTTTCAATAA
1 GACTCAAAATACGTT-GGTTTTAGTGTTTCAATAA
* *
101530 GACTC-AAATACGTTGGTTTTATTGTTTCAATAT
1 GACTCAAAATACGTTGGTTTTAGTGTTTCAATAA
101563 GACTC-AAATACGTTG
1 GACTCAAAATACGTTG
101578 ATTTATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 37 0.84
34 7 0.16
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (34 bp):
GACTCAAAATACGTTGGTTTTAGTGTTTCAATAA
Found at i:101556 original size:33 final size:33
Alignment explanation
Indices: 101511--101577 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
101501 AAAATGCTTC
101511 GGTTTTAGTGTTTCAATAAGACTCAAATACGTT
1 GGTTTTAGTGTTTCAATAAGACTCAAATACGTT
* *
101544 GGTTTTATTGTTTCAATATGACTCAAATACGTT
1 GGTTTTAGTGTTTCAATAAGACTCAAATACGTT
101577 G
1 G
101578 ATTTATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (33 bp):
GGTTTTAGTGTTTCAATAAGACTCAAATACGTT
Found at i:101639 original size:3 final size:3
Alignment explanation
Indices: 101633--101700 Score: 79
Period size: 3 Copynumber: 22.3 Consensus size: 3
101623 CCTACAAAAA
101633 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT -AAT
101681 AA- ATAT AAT -AT AAT AA- AAT A
1 AAT A-AT AAT AAT AAT AAT AAT A
101701 TTTTTGTAGA
Statistics
Matches: 60, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
2 5 0.08
3 43 0.72
4 12 0.20
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:102253 original size:18 final size:18
Alignment explanation
Indices: 102230--102264 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
102220 ATTTTTATTG
102230 AATAAAAATAATATTTTT
1 AATAAAAATAATATTTTT
* *
102248 AATAAATATATTATTTT
1 AATAAAAATAATATTTT
102265 AGGTCGGGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATAAAAATAATATTTTT
Found at i:103057 original size:23 final size:23
Alignment explanation
Indices: 103027--103087 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
103017 TACTGCATGG
*
103027 TAAACCAGAATGGCAGCAGCAGC
1 TAAACCAGAATGGCAGCAGCAAC
103050 TAAACCAGAATGGCAGCAGCAAC
1 TAAACCAGAATGGCAGCAGCAAC
*
103073 AAAACCAGAATGGCA
1 TAAACCAGAATGGCA
103088 ATAATAAGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (23 bp):
TAAACCAGAATGGCAGCAGCAAC
Found at i:104001 original size:28 final size:27
Alignment explanation
Indices: 103954--104010 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
103944 ACTCTAATTA
103954 TTTATTATATATTTAGAAT-AATTGTAT
1 TTTATTATATATTTAGAATAAATT-TAT
*
103981 TTTACTTATATTTATTA-AATAAATTTAT
1 TTTA-TTATATAT-TTAGAATAAATTTAT
104009 TT
1 TT
104011 ATTTCGGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
27 4 0.15
28 15 0.58
29 7 0.27
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (27 bp):
TTTATTATATATTTAGAATAAATTTAT
Found at i:110870 original size:2 final size:2
Alignment explanation
Indices: 110863--110902 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
110853 ATTTGAGCTG
110863 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110903 CTTTTGATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111036 original size:2 final size:2
Alignment explanation
Indices: 111029--111130 Score: 177
Period size: 2 Copynumber: 50.5 Consensus size: 2
111019 CACCAACAGC
111029 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
111071 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
111113 CAG CT CT CT CT CT CT CT C
1 C-T CT CT CT CT CT CT CT C
111131 GTTTTTTGTT
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
2 94 0.99
3 1 0.01
ACGTcount: A:0.01, C:0.51, G:0.01, T:0.47
Consensus pattern (2 bp):
CT
Found at i:112062 original size:39 final size:36
Alignment explanation
Indices: 112003--112082 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 36
111993 TATTAATAAA
112003 TAATAAATAATAAAAAATTAACTAAT-ATATTATTTT
1 TAATAAATAATAAAAAATTAACTAATAATATTA-TTT
*
112039 TAATAAATAATAAAATATCATTAATTAATAATATTATTT
1 TAATAAATAATAAAA-A--ATTAACTAATAATATTATTT
112078 TAATA
1 TAATA
112083 CCAAAAAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
36 15 0.38
37 1 0.03
39 17 0.44
40 6 0.15
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (36 bp):
TAATAAATAATAAAAAATTAACTAATAATATTATTT
Found at i:115454 original size:2 final size:2
Alignment explanation
Indices: 115447--115472 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
115437 TTATAATTCT
115447 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
115473 AGTAGAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:116627 original size:178 final size:180
Alignment explanation
Indices: 116227--116696 Score: 660
Period size: 178 Copynumber: 2.6 Consensus size: 180
116217 GATCCAAATT
* * * * **
116227 AAAAATATATCGATCTACAACGATATAACAGGTAAAACTATGACAAAACCGTTATTGAAATGATA
1 AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCGATATCAAAATGATA
* * * * * *
116292 AAACCGGTAAAGCGGTATC-AGATATATTTAAAGTGTCGGTACTTTAATATAATGATCGACACTT
66 AAACCGGTAAAACGCTACCGA-ATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* *
116356 CGTTAATTTAAAAGAGAAGTAGTTTTAGCACCTATAAAGTGTCGATACTTTAA
130 CGTGAATTTAAAAGAGAAGCAGTTTTAGCACC--TAAAGTGTCGATACTTTAA
* * * *
116409 AAAAATGTATCGATCCACAATGATATAACAGGTAAAAATATGATAAAACCGATATCAAAATGATG
1 AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCGATATCAAAATGATA
* *
116474 AAACCGGTAAAACGCTACCGAATATATTGAAAATGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGCTACCGAATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
*
116538 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCC-AAAGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAGCACCTAAAGTGTCGATACTTTAA
*
116587 AAAAA-ATTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 AAAAATA-TATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCGATATCAAAATGAT
* *
116651 AAAATCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTT
65 AAAACCGGTAAAACGCTACCGAATATATTGAAAGTGTCGATACTTT
116697 TGTAAGTACG
Statistics
Matches: 258, Mismatches: 28, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
178 119 0.46
181 45 0.17
182 93 0.36
183 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (180 bp):
AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCGATATCAAAATGATA
AAACCGGTAAAACGCTACCGAATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAGCACCTAAAGTGTCGATACTTTAA
Found at i:116640 original size:20 final size:19
Alignment explanation
Indices: 116617--116663 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
116607 CGATATAACA
116617 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
* *
116637 GGTATCAAAATGATAAAATC
1 GGTA-AAAAATGATAAAACC
116657 GGTAAAA
1 GGTAAAA
116664 CGCTACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:118792 original size:15 final size:15
Alignment explanation
Indices: 118774--118806 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
118764 ATGTTGTATT
*
118774 GGGGGATGACGGTGA
1 GGGGGACGACGGTGA
118789 GGGGGACGACGGTGA
1 GGGGGACGACGGTGA
118804 GGG
1 GGG
118807 AAAACAGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.09, G:0.64, T:0.09
Consensus pattern (15 bp):
GGGGGACGACGGTGA
Found at i:118912 original size:21 final size:21
Alignment explanation
Indices: 118886--118950 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
118876 AAGACAATCA
*
118886 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
118907 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* * *
118928 AGAGTCAAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
118949 AG
1 AG
118951 GCATAAGGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.43, C:0.11, G:0.29, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:120845 original size:19 final size:19
Alignment explanation
Indices: 120821--120869 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
120811 AATGTAGGTT
120821 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
120840 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
120859 TAATTTTGTAT
1 TAATTTTGTAT
120870 GTGAATGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:121777 original size:198 final size:199
Alignment explanation
Indices: 121094--122059 Score: 1499
Period size: 198 Copynumber: 4.9 Consensus size: 199
121084 AATTTACAAT
* * * * *
121094 ATGGCAAACAGGGTGCAATCATAAAGTGTC--CCCATATATAAAAAGTGTCGATTCCAGAAACAT
1 ATGGCAATCAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
* **
121157 CGAAACTCATAA-TATAATGTAATAGGT-ATTTTTCAATCTAACCAGTAT-A-CCTACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACC-GTATAAGTATACCGG-TTT
* *
121218 TATGAGAGAATAGGTGTAATATA--TATCGACACTTTTTAATTTTATGTTTGATACTATTGGTCC
129 TATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTG-TCGATACTATTGGTCC
*
121281 AGAATAA
193 AGAATGA
* * *
121288 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATAAATAAAAAGTGTCGATCCCAGAAACAT
1 ATGGCAATCAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
*
121353 CAAAACCCATAAGTATAATGTAATAGGT-ATTTTTCAATCTAACCGTATAAGTATACC-GTTTTA
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGTATAAGTATACCGGTTTTA
*
121416 TGAGAGAATAGATGT-ATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAGA
131 TGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAGA
121480 ATGA
196 ATGA
*
121484 ATGGCAA-CAGGGTGC-ACCATAAAGTATCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAATCAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
*
121547 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACTGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACC-GTATAAGTATACCGGTTTT
121612 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
130 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
121677 AATGA
195 AATGA
*
121682 ATGACAATCA-GGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAATCAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
121746 CGAAACCCATAAGTATAATGTAATA-GTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACC-GTATAAGTATACCGGTTTT
* *
121810 ATGAGAGAATAGGTGTAATATATGTATCAATACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
130 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
121875 AATGA
195 AATGA
* * *
121880 ATGGCAATCAAGGTGCAACCAT-AAGTGTTGATCC-TATATAAAAGGTGTCGATCCCAAAAAC-T
1 ATGGCAATCAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
*
121942 CGAAACCCATAAGTAT-ATGTAATAGGTAA-TTTTCAATCTAACCGTATAA-TATATCGGTTTTA
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGTATAAGTATACCGGTTTTA
*
122004 TGAGAGAATAGGTGTAATATATGTATCGACACTTTTT-TTTTTGTGTCGATACTATT
131 TGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATT
122060 TTAAATATCG
Statistics
Matches: 727, Mismatches: 30, Indels: 32
0.92 0.04 0.04
Matches are distributed among these distances:
192 18 0.02
193 47 0.06
194 107 0.15
195 51 0.07
196 124 0.17
197 101 0.14
198 194 0.27
199 85 0.12
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (199 bp):
ATGGCAATCAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGTATAAGTATACCGGTTTTA
TGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAGA
ATGA
Found at i:121977 original size:393 final size:391
Alignment explanation
Indices: 121125--122059 Score: 1462
Period size: 393 Copynumber: 2.4 Consensus size: 391
121115 TAAAGTGTCC
* * * *
121125 CCATATATAAAAAGTGTCGATTCCAGAAACATCGAAACTCATAA-TATAATGTAATAGGTATTTT
1 CCATATATAAAAGGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTT
** *
121189 TCAATCTAACCAGTAT-ACCTACCGGTTTTTATGAGAGAATAGGTGTAATATA--TATCGACACT
66 TCAATCTAACC-GTATAATATACTGG-TTTTATGAGAGAATAGGTGTAATATATGTATCGACACT
* * *
121251 TTTTAATTTTATGTTTGATACTATTGGTCCAGAATAAATGGCAAACAGGGTGCAACCATAAAGTG
129 TTTTAATTTTGTG-TCGATACTATTGGTCCAGAATAAATGACAAACAGGGTGCAACCATAAAGTG
121316 TCGATCCATAAATAAAAAGTGTCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATAGGT
193 TCGATCCATAAATAAAAAGTGTCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATAGGT
*
121381 ATTTTTCAATCTAACCGTATAAGTATACCGTTTTATGAGAGAATAGATGTATATATGTATCGACA
258 ATTTTTCAATCTAACCGTATAAGTATACCGTTTTATGAGAGAATAGATGTATATATGTATCAACA
*
121446 CTTTTTAATTTTGTGTCGATACTATTGGTCCAGAATGAATGGCAACAGGGTGCACCATAAAGTAT
323 CTTTTTAATTTTGTGTCGATACTATTGGTCCAGAATGAATGGCAACAAGGTGCACCATAAAGTAT
121511 CGAT
388 CGAT
121515 CCATATATAAAAGGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTT
1 CCATATATAAAAGGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAA-TT
121580 TTCAATCTAACCGGTATAAGTATACTGGTTTTATGAGAGAATAGGTGTAATATATGTATCGACAC
65 TTCAATCTAACC-GTATAA-TATACTGGTTTTATGAGAGAATAGGTGTAATATATGTATCGACAC
* *
121645 TTTTTAATTTTGTGTCGATACTATTGGTCCAGAATGAATGACAATCA-GGTGCAACCATAAAGTG
128 TTTTTAATTTTGTGTCGATACTATTGGTCCAGAATAAATGACAAACAGGGTGCAACCATAAAGTG
* * *
121709 TCGATCCATATATAAAAGGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA-GT
193 TCGATCCATAAATAAAAAGTGTCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATAGGT
*
121773 AATTTTTCAATCTAACCGGTATAAGTATACCGGTTTTATGAGAGAATAGGTGTAATATATGTATC
258 -ATTTTTCAATCTAACC-GTATAAGTATACC-GTTTTATGAGAGAATAGATGT-ATATATGTATC
*
121838 AATACTTTTTAATTTTGTGTCGATACTATTGGTCCAGAATGAATGGCAATCAAGGTGCAACCAT-
319 AACACTTTTTAATTTTGTGTCGATACTATTGGTCCAGAATGAATGGCAA-CAAGGTGC-ACCATA
* *
121902 AAGTGTTGAT
382 AAGTATCGAT
*
121912 CC-TATATAAAAGGTGTCGATCCCAAAAAC-TCGAAACCCATAAGTAT-ATGTAATAGGTAATTT
1 CCATATATAAAAGGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTT
121974 TCAATCTAACCGTATAATATA-TCGGTTTTATGAGAGAATAGGTGTAATATATGTATCGACACTT
66 TCAATCTAACCGTATAATATACT-GGTTTTATGAGAGAATAGGTGTAATATATGTATCGACACTT
*
122038 TTT-TTTTTGTGTCGATACTATT
130 TTTAATTTTGTGTCGATACTATT
122060 TTAAATATCG
Statistics
Matches: 508, Mismatches: 24, Indels: 26
0.91 0.04 0.05
Matches are distributed among these distances:
390 60 0.12
391 64 0.13
392 26 0.05
393 133 0.26
394 60 0.12
395 59 0.12
396 84 0.17
397 17 0.03
398 5 0.01
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Consensus pattern (391 bp):
CCATATATAAAAGGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTT
TCAATCTAACCGTATAATATACTGGTTTTATGAGAGAATAGGTGTAATATATGTATCGACACTTT
TTAATTTTGTGTCGATACTATTGGTCCAGAATAAATGACAAACAGGGTGCAACCATAAAGTGTCG
ATCCATAAATAAAAAGTGTCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATAGGTATT
TTTCAATCTAACCGTATAAGTATACCGTTTTATGAGAGAATAGATGTATATATGTATCAACACTT
TTTAATTTTGTGTCGATACTATTGGTCCAGAATGAATGGCAACAAGGTGCACCATAAAGTATCGA
T
Found at i:123537 original size:6 final size:6
Alignment explanation
Indices: 123526--123578 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
123516 CAAGCGGTCA
* * * * *
123526 ATGAAG ATGAAG TTGACG ATGAAG ATGACG ATGAATG ATGATG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAA-G ATGAAG ATGAAG
123575 ATGA
1 ATGA
123579 TCCAAACAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
6 34 0.87
7 5 0.13
ACGTcount: A:0.40, C:0.04, G:0.32, T:0.25
Consensus pattern (6 bp):
ATGAAG
Found at i:123548 original size:12 final size:12
Alignment explanation
Indices: 123526--123578 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
123516 CAAGCGGTCA
*
123526 ATGAAGATGAAG
1 ATGACGATGAAG
*
123538 TTGACGATGAAG
1 ATGACGATGAAG
123550 ATGACGATGAATG
1 ATGACGATGAA-G
* *
123563 ATGATGATGATG
1 ATGACGATGAAG
123575 ATGA
1 ATGA
123579 TCCAAACAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
12 25 0.71
13 10 0.29
ACGTcount: A:0.40, C:0.04, G:0.32, T:0.25
Consensus pattern (12 bp):
ATGACGATGAAG
Done.