Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005502.1 Hibiscus syriacus cultivar Beakdansim tig00012669_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: 122172
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:5644 original size:23 final size:23
Alignment explanation
Indices: 5618--5663 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
5608 CACCACAGCT
*
5618 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
5641 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
5664 TATAATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:5882 original size:149 final size:148
Alignment explanation
Indices: 5641--6088 Score: 816
Period size: 149 Copynumber: 3.0 Consensus size: 148
5631 CGAAGTGCCA
5641 CGTAGAATTGCACCGTAGTGCCATATAAT-ATGTCCATAAGGACCACATATC-TTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
*
5704 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATATTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
5769 TATATATCCCGAAGAACCG
131 TATATATCCCGAAG-ACCG
5788 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
*
5853 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTCCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
5918 TATATATCCCGAATGACCG
131 TATATATCCCGAA-GACCG
5937 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAG-AT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
6001 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAG-A-ATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
6064 TATATATCCCGAAGGACCG
131 TATATATCCCGAA-GACCG
6083 CGTAGA
1 CGTAGA
6089 CCCTCTACCC
Statistics
Matches: 294, Mismatches: 4, Indels: 7
0.96 0.01 0.02
Matches are distributed among these distances:
146 27 0.09
147 30 0.10
148 82 0.28
149 154 0.52
150 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.27
Consensus pattern (148 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
TATATATCCCGAAGACCG
Found at i:12433 original size:23 final size:23
Alignment explanation
Indices: 12407--12452 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
12397 CACCACAGCT
*
12407 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
12430 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
12453 TATAATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:12802 original size:147 final size:149
Alignment explanation
Indices: 12430--13011 Score: 1105
Period size: 149 Copynumber: 3.9 Consensus size: 149
12420 CGAAGTGCCA
12430 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
*
12495 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCATAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
12560 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
*
12579 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCTATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
*
12644 CATATACATATACTAGGGATCGAGTATGTGTCTTACAAGACTTCACACATGTTCCACAG-A-ATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
12707 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
*
12726 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCATTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
12791 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
12856 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
*
12875 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
12940 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
13005 TATATAT
131 TATATAT
13012 ATATATATCC
Statistics
Matches: 424, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
147 143 0.34
148 2 0.00
149 279 0.66
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
TATATATCCCGAAGGACCG
Found at i:12968 original size:296 final size:296
Alignment explanation
Indices: 12430--13009 Score: 1115
Period size: 296 Copynumber: 2.0 Consensus size: 296
12420 CGAAGTGCCA
*
12430 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCATTAAGAAT
*
12495 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCATAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
*
12560 TATATATCCCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCTATAAGGACCA
131 TATATATCCCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCA
*
12625 CATATCATTCCTTAAGAATCATATACATATACTAGGGATCGAGTATGTGTCTTACAAGACTTCAC
196 CATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCAC
12690 ACATGTTCCACAGAATATATATATCCCGAAGGACCG
261 ACATGTTCCACAGAATATATATATCCCGAAGGACCG
12726 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCATTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCATTAAGAAT
12791 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
12856 TATATATCCCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCA
131 TATATATCCCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCA
*
12921 CATATCATTCTTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCAC
196 CATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCAC
12986 ACATGTTCCACAGAATATATATAT
261 ACATGTTCCACAGAATATATATAT
13010 ATATATATAT
Statistics
Matches: 279, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
296 279 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (296 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCATTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
TATATATCCCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCA
CATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCAC
ACATGTTCCACAGAATATATATATCCCGAAGGACCG
Found at i:13599 original size:63 final size:63
Alignment explanation
Indices: 13493--13651 Score: 203
Period size: 63 Copynumber: 2.5 Consensus size: 63
13483 TAATGGAGGC
* * * *
13493 ATGCATCGATGCACTCCTGATGCATCGATGCACTGAGGGCATTCGATGTTCAT-TTTATTAGAA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTA-AAGAA
* ** **
13556 ATGCATAGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTTGTATTTAAATTA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTAAAGAA
* *
13619 ATGCATCGATGCACTTCATATGCATCGATGCAC
1 ATGCATCGATGCACTCCTTATGCATCGATGCAC
13652 CTTCAACAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
63 79 0.95
64 4 0.05
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTAAAGAA
Found at i:13643 original size:19 final size:20
Alignment explanation
Indices: 13619--13656 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
13609 ATTTAAATTA
13619 ATGCATCGATGCA-CTTCAT
1 ATGCATCGATGCACCTTCAT
13638 ATGCATCGATGCACCTTCA
1 ATGCATCGATGCACCTTCA
13657 ACAAATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGCATCGATGCACCTTCAT
Found at i:15342 original size:24 final size:24
Alignment explanation
Indices: 15282--15348 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
15272 TAATGGGTTG
15282 ACTCGGTCTGAGTTAACTCGATCA
1 ACTCGGTCTGAGTTAACTCGATCA
* * *
15306 ACCCAGTCTGAGTTAACTTGATCA
1 ACTCGGTCTGAGTTAACTCGATCA
* *
15330 ACTCGGTCCGAGTTGACTC
1 ACTCGGTCTGAGTTAACTC
15349 AGCTTCTGGA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (24 bp):
ACTCGGTCTGAGTTAACTCGATCA
Found at i:22103 original size:34 final size:37
Alignment explanation
Indices: 22059--22160 Score: 158
Period size: 34 Copynumber: 2.8 Consensus size: 37
22049 TTTCGTCCTA
*
22059 CTAGGATTCAAACTCCTAAAAATATGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
22094 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
22129 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
22161 GTTCTACTAA
Statistics
Matches: 61, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
33 1 0.02
34 28 0.46
35 3 0.05
37 28 0.46
38 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:22144 original size:37 final size:35
Alignment explanation
Indices: 22059--22194 Score: 159
Period size: 37 Copynumber: 3.8 Consensus size: 35
22049 TTTCGTCCTA
*
22059 CTAGGATTCAAACTCCTAAAAATATGATAGAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
22094 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
*
22129 GCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCT
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-T
* * * *
22166 ACTAAGATTTAAATTCCTAAAGATAGGAT
1 -CTAGGATTCAAACTCCTAAAAATAGGAT
22195 CCACAAGCAC
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
33 1 0.01
34 28 0.32
35 3 0.03
36 2 0.02
37 53 0.60
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:22575 original size:17 final size:17
Alignment explanation
Indices: 22549--22608 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
22539 ATTATATGGA
*
22549 TATT-TTATTCATTTAT
1 TATTATTATTCATGTAT
*
22565 TTTTATTATTCATGTAT
1 TATTATTATTCATGTAT
22582 TATTATTA-T-ATGTAT
1 TATTATTATTCATGTAT
22597 ATATATATTATT
1 -TAT-TATTATT
22609 TCATTTGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 6 0.16
16 7 0.19
17 23 0.62
18 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (17 bp):
TATTATTATTCATGTAT
Found at i:26258 original size:16 final size:16
Alignment explanation
Indices: 26232--26283 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
26222 AGATCTAATC
26232 AAGAACAAAAAAG-AA
1 AAGAACAAAAAAGCAA
26247 AAGAAGCAAAAAAGCAA
1 AAGAA-CAAAAAAGCAA
* *
26264 AA-AAAAAACAAAGAAA
1 AAGAACAAA-AAAGCAA
26280 AAGA
1 AAGA
26284 GAAAAAGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 8 0.26
16 18 0.58
17 5 0.16
ACGTcount: A:0.79, C:0.08, G:0.13, T:0.00
Consensus pattern (16 bp):
AAGAACAAAAAAGCAA
Found at i:26281 original size:24 final size:24
Alignment explanation
Indices: 26237--26316 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
26227 TAATCAAGAA
* *
26237 CAAAAAAGAAA-AGAAGCAAAAAAG
1 CAAAAAAAAAACA-AAGAAAAAAAG
*
26261 CAAAAAAAAAACAAAGAAAAAGAG
1 CAAAAAAAAAACAAAGAAAAAAAG
* *
26285 -AAAAAGAGAACAAAAGGAAAAAAGAG
1 CAAAAAAAAAAC-AAA-GAAAAAA-AG
26311 CAAAAA
1 CAAAAA
26317 TCAAAAGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
23 9 0.20
24 22 0.49
25 7 0.16
26 2 0.04
27 5 0.11
ACGTcount: A:0.76, C:0.07, G:0.16, T:0.00
Consensus pattern (24 bp):
CAAAAAAAAAACAAAGAAAAAAAG
Found at i:26990 original size:22 final size:22
Alignment explanation
Indices: 26965--27013 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
26955 CCATCAATCT
* *
26965 TTTGAGCATCCAATGTCAAACC
1 TTTGAGCATCAAATGCCAAACC
26987 TTTGAGCATCAAATGCCAAACC
1 TTTGAGCATCAAATGCCAAACC
27009 TTTGA
1 TTTGA
27014 CCAAACACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (22 bp):
TTTGAGCATCAAATGCCAAACC
Found at i:27449 original size:18 final size:18
Alignment explanation
Indices: 27426--27461 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
27416 TCAACATCAA
*
27426 ATATTGGGGCATTTTTGG
1 ATATTGGGGCATCTTTGG
27444 ATATTGGGGCATCTTTGG
1 ATATTGGGGCATCTTTGG
27462 GGATTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (18 bp):
ATATTGGGGCATCTTTGG
Found at i:27993 original size:20 final size:22
Alignment explanation
Indices: 27959--28005 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
27949 GACAGTTTCC
*
27959 CTTGAAACAAATTTT-GTCTCT
1 CTTGAAACAAATTTTCGTCTAT
27980 CTTGAAAC-AATTTTCGTCTAT
1 CTTGAAACAAATTTTCGTCTAT
28001 CTTGA
1 CTTGA
28006 GATAGTTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.43
Consensus pattern (22 bp):
CTTGAAACAAATTTTCGTCTAT
Found at i:28085 original size:65 final size:65
Alignment explanation
Indices: 27984--28158 Score: 199
Period size: 67 Copynumber: 2.6 Consensus size: 65
27974 GTCTCTCTTG
** * * **
27984 AAAC-AATTTTCGTCTATCTTGAGATAGTTTCCCTTGAAACAAAACCTTTGAATTTATTTCCCCT
1 AAACAAATTTT-GTCTCCCTTGAGACAGTTTCTCTTGAAACAAAACCTTCAAATTTATTTCCCCT
28048 A
65 A
* * *
28049 AAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAACCTTCAAATTTATTTCCCC
28114 TA
64 TA
* * *
28116 AAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAA
1 AAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
28159 CAGATATCTT
Statistics
Matches: 93, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
65 24 0.26
66 12 0.13
67 30 0.32
68 27 0.29
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.37
Consensus pattern (65 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAACCTTCAAATTTATTTCCCCTA
Found at i:29004 original size:105 final size:100
Alignment explanation
Indices: 28762--29411 Score: 931
Period size: 100 Copynumber: 6.3 Consensus size: 100
28752 GCCATCCGCG
* * *
28762 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
28827 GGGACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCA
63 GGGACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCA
* *
28865 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
28930 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAA-AA-TTT-C-AT-TCAGAGCCA
28970 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
29035 ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCA
66 ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCA
* * *
29070 ATTTTAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
29135 ACCGCTGTTTGTCAACAACAACTTCCCAATCCCAGAGCCA
66 ACCGCTGCTTGTCAACAA-AA-TT-TC-AT-TCAGAGCCA
*
29175 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
**
29240 ACCGCTGCTTGTCAACAAAATTTCATTCAGATTCA
66 ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCA
* * *
29275 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
29340 ACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
66 ACCGCTGCTTGTCAAC-AA-AATTT--C-ATT-CAGAGCCA
* *
29381 ATTTCAACTTCACGACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
29412 TGAAACAATG
Statistics
Matches: 498, Mismatches: 33, Indels: 29
0.89 0.06 0.05
Matches are distributed among these distances:
100 223 0.45
101 13 0.03
102 12 0.02
103 28 0.06
104 9 0.02
105 178 0.36
106 35 0.07
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (100 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCA
Found at i:29149 original size:205 final size:205
Alignment explanation
Indices: 28762--29411 Score: 1043
Period size: 205 Copynumber: 3.2 Consensus size: 205
28752 GCCATCCGCG
* * *
28762 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
28827 GGGACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTG
63 GGGACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTG
28892 GACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCC
128 GACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCC
28957 AATCTCAGAGCCA
193 AATCTCAGAGCCA
28970 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
29035 ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGGAC
66 ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
* *
29100 TCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGTTTGTCAACAACAACTTCCCAAT
131 TCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAAT
*
29165 CCCAGAGCCA
196 CTCAGAGCCA
*
29175 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
** *
29240 ACCGCTGCTTGTCAACAAAATTTCATTCAGATTCAATTTCAACTTCACAACGAAGGATATTGGAC
66 ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
* ** * * * *
29305 TCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAA-TTTCCCG
131 TCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTT-CCA
*
29369 GT-TCCAGAGCCA
194 ATCT-CAGAGCCA
* *
29381 ATTTCAACTTCACGACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
29412 TGAAACAATG
Statistics
Matches: 414, Mismatches: 25, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
205 345 0.83
206 47 0.11
208 22 0.05
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (205 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
TCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAAT
CTCAGAGCCA
Found at i:30002 original size:34 final size:37
Alignment explanation
Indices: 29958--30059 Score: 167
Period size: 34 Copynumber: 2.8 Consensus size: 37
29948 TTTCGTCCTA
29958 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
29993 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
30028 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
30060 GTTCTACTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
33 1 0.02
34 29 0.47
35 3 0.05
37 28 0.45
38 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:30043 original size:37 final size:35
Alignment explanation
Indices: 29958--30093 Score: 168
Period size: 37 Copynumber: 3.8 Consensus size: 35
29948 TTTCGTCCTA
29958 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
29993 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
*
30028 GCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCT
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-T
* * * *
30065 ACTAAGATTTAAATTCCTAAAGATAGGAT
1 -CTAGGATTCAAACTCCTAAAAATAGGAT
30094 CCACAAGCAC
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
33 1 0.01
34 29 0.33
35 3 0.03
36 2 0.02
37 53 0.60
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:30473 original size:17 final size:17
Alignment explanation
Indices: 30447--30488 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
30437 ATTATATGGA
*
30447 TATT-TTATTCATTTAT
1 TATTATTATTCATGTAT
*
30463 TTTTATTATTCATGTAT
1 TATTATTATTCATGTAT
30480 TATTATTAT
1 TATTATTAT
30489 ATGTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATGTAT
Found at i:40583 original size:18 final size:21
Alignment explanation
Indices: 40546--40587 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 21
40536 AATTTGATTA
40546 TTTTTTATTTGTTTATAATAT
1 TTTTTTATTTGTTTATAATAT
40567 TTTTTTA-TT-TTTA-AATAT
1 TTTTTTATTTGTTTATAATAT
40585 TTT
1 TTT
40588 AGATTACATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 4 0.19
20 2 0.10
21 7 0.33
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTTTATTTGTTTATAATAT
Found at i:40702 original size:3 final size:3
Alignment explanation
Indices: 40694--40726 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
40684 ATTTGTTCTT
40694 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
40727 ATTTTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:45265 original size:18 final size:18
Alignment explanation
Indices: 45253--45291 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45243 ACGTTGACTT
45253 TGACT-TGACCGTTGACA
1 TGACTCTGACCGTTGACA
* *
45270 TGTCTCTGACCGTTGACC
1 TGACTCTGACCGTTGACA
45288 TGAC
1 TGAC
45292 CGTTTACCGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.31
Consensus pattern (18 bp):
TGACTCTGACCGTTGACA
Found at i:56925 original size:21 final size:20
Alignment explanation
Indices: 56839--56996 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
56829 AAATGACCAA
**
56839 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
56858 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
56878 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
56898 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
56919 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
56940 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
56960 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
* *
56981 GAAAATCGTAACGCGA
1 CAAAATCGCAACGCGA
56997 ACACATAAAT
Statistics
Matches: 103, Mismatches: 30, Indels: 11
0.72 0.21 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 47 0.46
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:56987 original size:20 final size:19
Alignment explanation
Indices: 56961--57015 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
56951 TGCGATTTTC
*
56961 CAAAATCGCAACGCGAATA
1 CAAAATCGCAACGCGAACA
* *
56980 TGAAAATCGTAACGCGAACA
1 -CAAAATCGCAACGCGAACA
57000 CATAAATCGCAACGCG
1 CA-AAATCGCAACGCG
57016 TATCCGTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.44, C:0.25, G:0.18, T:0.13
Consensus pattern (19 bp):
CAAAATCGCAACGCGAACA
Found at i:57025 original size:20 final size:20
Alignment explanation
Indices: 57002--57232 Score: 252
Period size: 20 Copynumber: 11.6 Consensus size: 20
56992 CGCGAACACA
57002 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
57022 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
*
57042 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
57062 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
57082 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
57102 TAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
* * *
57122 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCG
* *
57142 TAAAACGCAACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
* * *
57162 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCG
*
57182 TAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
* * *
57202 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCG
*
57222 TAAATCACAAC
1 TAAATCGCAAC
57233 ACTGAAATTT
Statistics
Matches: 178, Mismatches: 27, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.01
20 177 0.99
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:57954 original size:24 final size:24
Alignment explanation
Indices: 57915--57961 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
57905 AAATTTGGTC
57915 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
57939 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
57962 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:58990 original size:19 final size:19
Alignment explanation
Indices: 58939--59012 Score: 77
Period size: 19 Copynumber: 4.2 Consensus size: 19
58929 GATTACTTGC
58939 ACGCGAAACCAAAATCGCA
1 ACGCGAAACCAAAATCGCA
*
58958 A--CG--A-CAAGATCGCA
1 ACGCGAAACCAAAATCGCA
58972 ACGCGAAACCAAAATCGCA
1 ACGCGAAACCAAAATCGCA
* **
58991 ACGCTAAATGAAAATCGCA
1 ACGCGAAACCAAAATCGCA
59010 ACG
1 ACG
59013 ACAGAATCGC
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
14 10 0.22
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 29 0.64
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (19 bp):
ACGCGAAACCAAAATCGCA
Found at i:59021 original size:33 final size:33
Alignment explanation
Indices: 58984--59076 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
58974 GCGAAACCAA
* *
58984 AATCGCAACGCTAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
59017 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
59050 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
59077 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:59022 original size:14 final size:14
Alignment explanation
Indices: 59003--59059 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
58993 GCTAAATGAA
*
59003 AATCGCAACGACAG
1 AATCGCAACGAAAG
59017 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
59034 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
59050 AATCGCAACG
1 AATCGCAACG
59060 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:59041 original size:19 final size:19
Alignment explanation
Indices: 58966--59081 Score: 108
Period size: 19 Copynumber: 6.6 Consensus size: 19
58956 CAACGACAAG
**
58966 ATCGCAACGCGAAACCAAA
1 ATCGCAACGCGAAATGAAA
*
58985 ATCGCAACGCTAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
59004 ATCGCAA--CGACA-G--A
1 ATCGCAACGCGAAATGAAA
*
59018 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
59037 ATCGCAA--CGAAA-G--A
1 ATCGCAACGCGAAATGAAA
59051 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
59070 ATCGCAATGCGA
1 ATCGCAACGCGA
59082 TTTTGGTTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 20
0.75 0.07 0.19
Matches are distributed among these distances:
14 16 0.20
16 11 0.14
17 10 0.12
19 43 0.54
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:59093 original size:19 final size:19
Alignment explanation
Indices: 59077--59224 Score: 163
Period size: 19 Copynumber: 8.3 Consensus size: 19
59067 AAAATCGCAA
59077 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
59096 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
59110 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
59129 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
59143 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
59162 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
59181 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
59200 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
59220 TGCGA
1 TGCGA
59225 AAGTAAACTA
Statistics
Matches: 109, Mismatches: 9, Indels: 21
0.78 0.06 0.15
Matches are distributed among these distances:
14 22 0.20
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 67 0.61
20 13 0.12
ACGTcount: A:0.08, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:59119 original size:33 final size:32
Alignment explanation
Indices: 59077--59207 Score: 172
Period size: 33 Copynumber: 3.8 Consensus size: 32
59067 AAAATCGCAA
59077 TGCGATTTTGGTTTCGCGTTGCGATCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGAT-TTGTCGT
59110 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATT-TGTCGT
**
59143 TGCGATTTTCATTTCGCGTTGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGTTGCGA-TTT-G--T--CGT
59181 TGCGATTTTGGTTTCGCGTTGCGATTT
1 TGCGATTTTGGTTTCGCGTTGCGATTT
59208 TAAGTTTCGT
Statistics
Matches: 87, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
32 1 0.01
33 54 0.62
34 3 0.03
36 1 0.01
37 3 0.03
38 25 0.29
ACGTcount: A:0.07, C:0.18, G:0.29, T:0.47
Consensus pattern (32 bp):
TGCGATTTTGGTTTCGCGTTGCGATTTGTCGT
Found at i:59388 original size:93 final size:93
Alignment explanation
Indices: 59272--59832 Score: 1099
Period size: 93 Copynumber: 6.1 Consensus size: 93
59262 ATGGATTGCA
59272 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
59336 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
59364 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
59429 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
59457 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
59522 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
59550 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
59615 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
59643 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
59708 TAGCAGAATTGGCAGCAACCGAACAAA-
66 TAGCAGAATTGGCAGCAACCGAACAAAT
59735 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
59800 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
59828 TTACT
1 TTACT
59833 AAGCAATCTA
Statistics
Matches: 466, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
92 95 0.20
93 371 0.80
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:61554 original size:14 final size:14
Alignment explanation
Indices: 61535--61624 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
61525 TTGAAATGAA
61535 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
61549 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
61568 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
61582 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
61601 AATCGCAACGAGAG
1 AATCGCAACGAGAG
61615 AATCGCAACG
1 AATCGCAACG
61625 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:61567 original size:33 final size:33
Alignment explanation
Indices: 61527--61641 Score: 230
Period size: 33 Copynumber: 3.5 Consensus size: 33
61517 TCTTTTGGTT
61527 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
61560 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
61593 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
61626 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
61642 TGCGATTTTG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 82 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:61573 original size:19 final size:19
Alignment explanation
Indices: 61549--61646 Score: 99
Period size: 19 Copynumber: 5.7 Consensus size: 19
61539 GCAACGAGAG
61549 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
61568 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
61582 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
61601 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
61615 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
61634 AATCGCAATGCGA
1 AATCGCAACGCGA
61647 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.50
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:61664 original size:19 final size:18
Alignment explanation
Indices: 61642--61700 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
61632 AAAATCGCAA
*
61642 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-ATTTCGCGT
*
61661 TGCGA--TTCTTT--CGT
1 TGCGATTTTATTTCGCGT
61675 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-ATTTCGCGT
61694 TGCGATT
1 TGCGATT
61701 CTCTCGTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 8 0.24
16 5 0.15
17 5 0.15
19 15 0.45
ACGTcount: A:0.08, C:0.19, G:0.25, T:0.47
Consensus pattern (18 bp):
TGCGATTTTATTTCGCGT
Found at i:61677 original size:14 final size:14
Alignment explanation
Indices: 61658--61714 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
61648 TTTGGTTTCG
61658 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
61672 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
61689 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTTT
61705 CGTTGCGATT
1 CGTTGCGATT
61715 TTCATTTCTC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:61690 original size:33 final size:33
Alignment explanation
Indices: 61642--61722 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
61632 AAAATCGCAA
** *
61642 TGCGATTTTGGTTTCGCGTTGCGATTCTTTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
61675 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
61708 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
61723 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.21, G:0.22, T:0.48
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:61755 original size:41 final size:41
Alignment explanation
Indices: 61698--61775 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
61688 TCGCGTTGCG
*
61698 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
61739 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
61776 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:61760 original size:20 final size:21
Alignment explanation
Indices: 61699--61774 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
61689 CGCGTTGCGA
61699 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
61720 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
61740 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
61761 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
61775 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:61895 original size:33 final size:33
Alignment explanation
Indices: 61853--61923 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
61843 AATACTAACT
*
61853 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
61886 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
61919 TGAAA
1 TGAAA
61924 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:62155 original size:22 final size:22
Alignment explanation
Indices: 62103--62157 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
62093 TGGTTGTGAG
**
62103 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
62125 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
62147 GGATTTCTTCG
1 GGATTTCTTCG
62158 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:62430 original size:20 final size:20
Alignment explanation
Indices: 62304--62418 Score: 151
Period size: 20 Copynumber: 5.7 Consensus size: 20
62294 CTTTAAATAT
62304 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
62324 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
62346 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
62365 CGCGTTGCGATATACAGATA
1 CGCGTTGCGATTTACGGATA
*
62385 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
62405 CGCGTTGCGATTTA
1 CGCGTTGCGATTTA
62419 TGTGTTCGCG
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.03
20 62 0.77
21 14 0.17
22 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:62436 original size:40 final size:40
Alignment explanation
Indices: 62303--62437 Score: 173
Period size: 40 Copynumber: 3.4 Consensus size: 40
62293 GCTTTAAATA
62303 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTAT
** * *
62344 TATCGTTGCGATTTACGGATACGCGTTGCGATATACAG-AT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTA-TGTAT
* * *
62384 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTAT
*
62424 TCGCGTTACGATTT
1 TCGCGTTGCGATTT
62438 TCATATTCGT
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 48 0.61
41 30 0.38
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTAT
Found at i:63756 original size:19 final size:18
Alignment explanation
Indices: 63728--63764 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
63718 CTGTGTAAGA
63728 GTAGATGCGTTAGATTAT
1 GTAGATGCGTTAGATTAT
63746 GTAGAATGCGTTAGATTAT
1 GTAG-ATGCGTTAGATTAT
63765 CAACACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (18 bp):
GTAGATGCGTTAGATTAT
Found at i:68341 original size:24 final size:25
Alignment explanation
Indices: 68312--68358 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
68302 TTTTAAATTA
68312 CATTAAA-AAAACTTTAAAGATAAT
1 CATTAAATAAAACTTTAAAGATAAT
* *
68336 CATTAAATCACACTTTAAAGATA
1 CATTAAATAAAACTTTAAAGATA
68359 TAATTTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.30
Consensus pattern (25 bp):
CATTAAATAAAACTTTAAAGATAAT
Found at i:82250 original size:26 final size:26
Alignment explanation
Indices: 82198--82253 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
82188 AATAATAAAA
*
82198 AATTAGTCAAACATATTAGAAATAAT
1 AATTAGTCAAACATATTAGAAACAAT
*
82224 AATTAGTCAAACATGTT-GAAAACAAT
1 AATTAGTCAAACATATTAG-AAACAAT
82250 AATT
1 AATT
82254 TTTTTTTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (26 bp):
AATTAGTCAAACATATTAGAAACAAT
Found at i:82818 original size:5 final size:5
Alignment explanation
Indices: 82808--82875 Score: 57
Period size: 5 Copynumber: 13.8 Consensus size: 5
82798 GGGTCTGATT
* * * * *
82808 TTTTA TTTTA TTTTA TATAA TTTTA TTTTA TTTTA TATAA TTGTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* * *
82858 ATATA TCTT- TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
82876 GTTGCATAAA
Statistics
Matches: 46, Mismatches: 16, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
4 3 0.07
5 43 0.93
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (5 bp):
TTTTA
Found at i:82833 original size:20 final size:20
Alignment explanation
Indices: 82808--82857 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
82798 GGGTCTGATT
82808 TTTTATTTTATTTTATATAA
1 TTTTATTTTATTTTATATAA
82828 TTTTATTTTATTTTATATAA
1 TTTTATTTTATTTTATATAA
*
82848 TTGTATTTTA
1 TTTTATTTTA
82858 ATATATCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTATTTTATTTTATATAA
Found at i:85634 original size:34 final size:31
Alignment explanation
Indices: 85594--85735 Score: 92
Period size: 31 Copynumber: 4.8 Consensus size: 31
85584 CATTTTCATC
85594 AAAATAT--TATT-TATTTATTAATATT-TAT
1 AAAATATAATATTATATTT-TTAATATTATAT
85622 AATAATATAATATTATATTTTTAATATTATAT
1 AA-AATATAATATTATATTTTTAATATTATAT
* *
85654 AAAATAATCA-ATTATA-TTATAATA--ATAT
1 AAAAT-ATAATATTATATTTTTAATATTATAT
* * * *
85682 AAGATATTATATT-TTTATTTTAATAATATAT
1 AAAATATAATATTATAT-TTTTAATATTATAT
*
85713 AATAA-A-AAT-TTATATATTTAATA
1 AA-AATATAATATTATATTTTTAATA
85736 ATGAATAATA
Statistics
Matches: 91, Mismatches: 10, Indels: 25
0.72 0.08 0.20
Matches are distributed among these distances:
27 4 0.04
28 13 0.14
29 21 0.23
30 11 0.12
31 28 0.31
32 14 0.15
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (31 bp):
AAAATATAATATTATATTTTTAATATTATAT
Found at i:85640 original size:22 final size:23
Alignment explanation
Indices: 85609--85652 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
85599 ATTATTTATT
85609 TATTAATATTTATAATAATATAA
1 TATTAATATTTATAATAATATAA
* *
85632 TATT-ATATTTTTAATATTATA
1 TATTAATATTTATAATAATATA
85653 TAAAATAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTAATATTTATAATAATATAA
Found at i:85726 original size:52 final size:51
Alignment explanation
Indices: 85616--85726 Score: 129
Period size: 52 Copynumber: 2.1 Consensus size: 51
85606 ATTTATTAAT
**
85616 ATTTATAATAATATAATATTATATTTTTAATATTATATAAAATAATCAATT
1 ATTTATAATAATATAATATTATATTTTTAATATTATATAAAATAATCAAAA
*
85667 ATATTATAATAATATAAGATATTATATTTTT-ATTTTA-ATAATATATAAT-AAAA
1 AT-TTATAATAATAT-A-ATATTATATTTTTAATATTATATAA-A-ATAATCAAAA
85720 ATTTATA
1 ATTTATA
85727 TATTTAATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
51 2 0.04
52 21 0.40
53 11 0.21
54 18 0.35
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (51 bp):
ATTTATAATAATATAATATTATATTTTTAATATTATATAAAATAATCAAAA
Found at i:85732 original size:29 final size:29
Alignment explanation
Indices: 85594--85777 Score: 99
Period size: 29 Copynumber: 6.1 Consensus size: 29
85584 CATTTTCATC
* *
85594 AAAATATTATTTATTTATTAATATTTATAATA
1 AAAAT-TTATATATTTAATAATA--TATAATA
* *
85626 ATATAATATTATATTTTTAATATTATATAA-A
1 A-A-AAT-TTATATATTTAATAATATATAATA
* **
85657 ATAATCAATTATATTATAATAATATA-AGATA
1 AAAATTTA-TATATT-TAATAATATATA-ATA
* * *
85688 TTATATTTTTAT-TTTAATAATATATAATA
1 -AAAATTTATATATTTAATAATATATAATA
85717 AAAATTTATATATTTAATAATGA-ATAAT-
1 AAAATTTATATATTTAATAAT-ATATAATA
** *
85745 ATTATTTATATATTTAAATAATATTTTAATA
1 AAAATTTATATATTT-AATAATA-TATAATA
85776 AA
1 AA
85778 TATATTTAAA
Statistics
Matches: 116, Mismatches: 22, Indels: 29
0.69 0.13 0.17
Matches are distributed among these distances:
28 23 0.20
29 42 0.36
30 18 0.16
31 7 0.06
32 8 0.07
33 1 0.01
34 17 0.15
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (29 bp):
AAAATTTATATATTTAATAATATATAATA
Found at i:85746 original size:19 final size:19
Alignment explanation
Indices: 85703--85776 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 19
85693 TTTTTATTTT
85703 AATAATATA--TAATAA-A
1 AATAATATATTTAATAATA
* *
85719 AATTTATATATTTAATAATG
1 AA-TAATATATTTAATAATA
*
85739 AATAATATTATTTATATATTTA
1 AATAATA-TATTTA-ATA-ATA
85761 AATAATAT-TTTAATAA
1 AATAATATATTTAATAA
85777 ATATATTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
16 2 0.04
17 6 0.13
19 13 0.29
20 12 0.27
21 4 0.09
22 8 0.18
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (19 bp):
AATAATATATTTAATAATA
Found at i:85779 original size:12 final size:11
Alignment explanation
Indices: 85739--85806 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
85729 TTTAATAATG
85739 AATAATATTATT
1 AATAATATT-TT
* *
85751 TAT-ATATTTA
1 AATAATATTTT
85761 AATAATATTTT
1 AATAATATTTT
85772 AATAAATATATTT
1 AAT-AATAT-TTT
**
85785 AA-AATATACT
1 AATAATATTTT
85795 AATTAATATTTT
1 AA-TAATATTTT
85807 TAAAATATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
10 6 0.14
11 19 0.44
12 13 0.30
13 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (11 bp):
AATAATATTTT
Found at i:85790 original size:15 final size:14
Alignment explanation
Indices: 85752--85787 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
85742 AATATTATTT
85752 ATATATTTAAAT-A
1 ATATATTTAAATAA
85765 ATAT-TTT-AATAA
1 ATATATTTAAATAA
85777 ATATATTTAAA
1 ATATATTTAAA
85788 ATATACTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
11 3 0.15
12 8 0.40
13 7 0.35
14 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATTTAAATAA
Found at i:85790 original size:23 final size:23
Alignment explanation
Indices: 85752--85815 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
85742 AATATTATTT
**
85752 ATATATTTAAATAATATTTTAATAA
1 ATATATTT-AA-AATATACTAATAA
*
85777 ATATATTTAAAATATACTAATTA
1 ATATATTTAAAATATACTAATAA
*
85800 ATATTTTTAAAATATA
1 ATATATTTAAAATATA
85816 ATATAACACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 25 0.71
24 2 0.06
25 8 0.23
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATATTTAAAATATACTAATAA
Found at i:86136 original size:15 final size:15
Alignment explanation
Indices: 86116--86164 Score: 80
Period size: 15 Copynumber: 3.3 Consensus size: 15
86106 CATTTTTCAA
86116 AATTCAAATTCCAGT
1 AATTCAAATTCCAGT
*
86131 AATTCAAATTCCAAT
1 AATTCAAATTCCAGT
*
86146 AATTCAAATTTCAGT
1 AATTCAAATTCCAGT
86161 AATT
1 AATT
86165 TATTTTCTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.43, C:0.16, G:0.04, T:0.37
Consensus pattern (15 bp):
AATTCAAATTCCAGT
Done.