Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004843.1 Hibiscus syriacus cultivar Beakdansim tig00010923_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: 75292
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:7235 original size:17 final size:17
Alignment explanation
Indices: 7213--7250 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
7203 CAACTAAAAC
*
7213 TAAAATTGGGA-AAATAA
1 TAAAATCGGGACAAAT-A
7230 TAAAATCGGGACAAATA
1 TAAAATCGGGACAAATA
7247 TAAA
1 TAAA
7251 TGGATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.21
Consensus pattern (17 bp):
TAAAATCGGGACAAATA
Found at i:7384 original size:16 final size:17
Alignment explanation
Indices: 7350--7385 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
7340 TAATATATAA
7350 AAACCTAATTATAAACT
1 AAACCTAATTATAAACT
*
7367 AAACCTAA-TATGAACT
1 AAACCTAATTATAAACT
7383 AAA
1 AAA
7386 ACTATCCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.56, C:0.17, G:0.03, T:0.25
Consensus pattern (17 bp):
AAACCTAATTATAAACT
Found at i:7387 original size:17 final size:18
Alignment explanation
Indices: 7349--7387 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
7339 TTAATATATA
7349 AAAACCTAATTATAAACT
1 AAAACCTAATTATAAACT
*
7367 -AAACCTAA-TATGAACT
1 AAAACCTAATTATAAACT
7383 AAAAC
1 AAAAC
7388 TATCCTCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.56, C:0.18, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAACCTAATTATAAACT
Found at i:10712 original size:11 final size:11
Alignment explanation
Indices: 10696--10727 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
10686 AAATATGAAT
10696 AATTTTATAAA
1 AATTTTATAAA
10707 AATTTTATAAA
1 AATTTTATAAA
*
10718 AGTTTTATAA
1 AATTTTATAA
10728 CTAGTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (11 bp):
AATTTTATAAA
Found at i:10890 original size:22 final size:22
Alignment explanation
Indices: 10834--10891 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
10824 CTTTATATTC
10834 TTTTTATA-TTTAATTTTATTCAA
1 TTTTTATACTTT--TTTTATTCAA
* *
10857 TTTTAATTCTTTTTTTATTGC-A
1 TTTTTATACTTTTTTTATT-CAA
10879 TTTTTATACTTTT
1 TTTTTATACTTTT
10892 AATTACAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
22 19 0.66
23 7 0.24
24 3 0.10
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTATACTTTTTTTATTCAA
Found at i:10996 original size:21 final size:20
Alignment explanation
Indices: 10940--10996 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
10930 ATTTTTTTTT
10940 TAAAATCAATAAAAATGCAA
1 TAAAATCAATAAAAATGCAA
** *
10960 TAAAAAAGAATTAAAAGTG-AA
1 T-AAAATCAA-TAAAAATGCAA
10981 TAAAATTCAATAAAAA
1 TAAAA-TCAATAAAAA
10997 CGTCAACTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
20 10 0.36
21 11 0.39
22 7 0.25
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (20 bp):
TAAAATCAATAAAAATGCAA
Found at i:11515 original size:335 final size:336
Alignment explanation
Indices: 11100--11776 Score: 1144
Period size: 335 Copynumber: 2.0 Consensus size: 336
11090 TAAAATAAAC
* *
11100 TTTTATTTACAATTGATAAATCAAATGAATTATTATTCATTTTTTTTTAAAAATACAATAAAAAA
1 TTTTAATTACAATTGATAAATCAAATGAATTATTATTCATTTTTTTTAAAAAATACAATAAAAAA
11165 GAATTAAAAGTGAATAAAATTCAATACAAAAAGAATATAAAGTCAA-TT-TTTTTAAAAAATTAT
66 GAATTAAAAGTGAATAAAATTCAATACAAAAA-AATATAAAGTCAATTTGTTTTTAAAAAA-TAT
* *
11228 ATAAAATTTATAATTTTTAAATTATAAAATATTTATTATCATCATCATCATCATTTTGAAAAATA
129 ATAAAATATATAATTTTTAAATTATAAAATATTTATTATCATCATCATCATCATTTTGAAAAAGA
**
11293 AATAATAGTTATAAAATTTTTATAAAATTATTCATATTTTAAAATATTTACCCTCAAAGTTTTCC
194 AATAATAGTTATAAAACATTTATAAAATTATTCATATTTTAAAATATTTACCCTCAAAGTTTTCC
11358 TATACTAGATTATACATATTATGTAATTTCATGCAAAAATCAAAATTTGTCGAGTTATAAAATAA
259 TATACTAGATTATACATATTATGTAATTTCATGCAAAAATCAAAATTTGTCGAGTTATAAAATAA
11423 TTTACAAAAGAAT
324 TTTACAAAAGAAT
* *
11436 TTTTAATTACAATTGATAGATCAAATGAATTATTATTCA-TTTTTTTAAAAAATATAATAAAAAA
1 TTTTAATTACAATTGATAAATCAAATGAATTATTATTCATTTTTTTTAAAAAATACAATAAAAAA
*
11500 GAATTAAAAGTGAATAAAATTCAATACAAAAAAATATAAAGTCAATTTGTTTTTCAAAAATATAT
66 GAATTAAAAGTGAATAAAATTCAATACAAAAAAATATAAAGTCAATTTGTTTTTAAAAAATATAT
* *
11565 AACATATATAATTTTTAAATTATAAAATATTTATTATCATTATCATCATCATTTTGAAAAAGAAA
131 AAAATATATAATTTTTAAATTATAAAATATTTATTATCATCATCATCATCATTTTGAAAAAGAAA
*
11630 TACTAGTTATAAAACATTTATAAAATTATTCATATTTTAAAATATTTACCCTCAAAGTTTTCCTA
196 TAATAGTTATAAAACATTTATAAAATTATTCATATTTTAAAATATTTACCCTCAAAGTTTTCCTA
* * * *
11695 TATTATATTATACGTATTATGTAATTTCATGCAAAAATTAAAATTTGTCGAGTTATAAAATAATT
261 TACTAGATTATACATATTATGTAATTTCATGCAAAAATCAAAATTTGTCGAGTTATAAAATAATT
**
11760 TGTAAAAGAAT
326 TACAAAAGAAT
*
11771 ATTTAA
1 TTTTAA
11777 AGATTTTCAT
Statistics
Matches: 320, Mismatches: 19, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
334 13 0.04
335 260 0.81
336 47 0.15
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (336 bp):
TTTTAATTACAATTGATAAATCAAATGAATTATTATTCATTTTTTTTAAAAAATACAATAAAAAA
GAATTAAAAGTGAATAAAATTCAATACAAAAAAATATAAAGTCAATTTGTTTTTAAAAAATATAT
AAAATATATAATTTTTAAATTATAAAATATTTATTATCATCATCATCATCATTTTGAAAAAGAAA
TAATAGTTATAAAACATTTATAAAATTATTCATATTTTAAAATATTTACCCTCAAAGTTTTCCTA
TACTAGATTATACATATTATGTAATTTCATGCAAAAATCAAAATTTGTCGAGTTATAAAATAATT
TACAAAAGAAT
Found at i:12635 original size:40 final size:40
Alignment explanation
Indices: 12580--12742 Score: 290
Period size: 40 Copynumber: 4.1 Consensus size: 40
12570 AAATATAAAA
12580 TATAATTTTATTTATTCAAACTTTAATTCATGTACACTCT
1 TATAATTTTATTTATTCAAACTTTAATTCATGTACACTCT
*
12620 TATAATTTTATTTATTCAAACTTTAATTCATGTGCACTCT
1 TATAATTTTATTTATTCAAACTTTAATTCATGTACACTCT
* *
12660 TATAATTTTATTTAATCAAACTTTAATTCATGTACGCTCT
1 TATAATTTTATTTATTCAAACTTTAATTCATGTACACTCT
*
12700 TATAATTTTATTTATTCAAACTATAATTCATGTACACTCT
1 TATAATTTTATTTATTCAAACTTTAATTCATGTACACTCT
12740 TAT
1 TAT
12743 GTATACTACT
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 116 1.00
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.49
Consensus pattern (40 bp):
TATAATTTTATTTATTCAAACTTTAATTCATGTACACTCT
Found at i:13944 original size:2 final size:2
Alignment explanation
Indices: 13937--13982 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
13927 TCTTCTTTTA
13937 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13979 AT AT
1 AT AT
13983 TGGGGTTTGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21605 original size:133 final size:133
Alignment explanation
Indices: 21367--21639 Score: 546
Period size: 133 Copynumber: 2.1 Consensus size: 133
21357 ACACAATATG
21367 AGAAGTAATTCAAAGCATCTGCACATCTATTTAGCATTGTTTGAGAAGTTATAGAGGACCGAGAC
1 AGAAGTAATTCAAAGCATCTGCACATCTATTTAGCATTGTTTGAGAAGTTATAGAGGACCGAGAC
21432 TCGGAACTTTGAAGGGAAGAGAAAATAATAAAACAAAACTAAAGCAAAAATGAGCATGAAGAAAT
66 TCGGAACTTTGAAGGGAAGAGAAAATAATAAAACAAAACTAAAGCAAAAATGAGCATGAAGAAAT
21497 ACA
131 ACA
21500 AGAAGTAATTCAAAGCATCTGCACATCTATTTAGCATTGTTTGAGAAGTTATAGAGGACCGAGAC
1 AGAAGTAATTCAAAGCATCTGCACATCTATTTAGCATTGTTTGAGAAGTTATAGAGGACCGAGAC
21565 TCGGAACTTTGAAGGGAAGAGAAAATAATAAAACAAAACTAAAGCAAAAATGAGCATGAAGAAAT
66 TCGGAACTTTGAAGGGAAGAGAAAATAATAAAACAAAACTAAAGCAAAAATGAGCATGAAGAAAT
21630 ACA
131 ACA
21633 AGAAGTA
1 AGAAGTA
21640 GTAGAGAGCA
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 140 1.00
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (133 bp):
AGAAGTAATTCAAAGCATCTGCACATCTATTTAGCATTGTTTGAGAAGTTATAGAGGACCGAGAC
TCGGAACTTTGAAGGGAAGAGAAAATAATAAAACAAAACTAAAGCAAAAATGAGCATGAAGAAAT
ACA
Found at i:23170 original size:43 final size:43
Alignment explanation
Indices: 23076--23348 Score: 243
Period size: 43 Copynumber: 6.3 Consensus size: 43
23066 TTGAGTATTT
* * *
23076 TAATTTTTTTCAATCTCACTTTTTTTACATTTTTAATTGATGAT-CC
1 TAATTTTTTT-AATCTCAC--TTTTTACCTTTATAATT-AAGATCCC
* *
23122 TAATTTTTTTAATCTCACATTCTACCTTTATAATTAAGATCCC
1 TAATTTTTTTAATCTCACTTTTTACCTTTATAATTAAGATCCC
* * * *
23165 TAA-TTTTTTAATCTCACTTTTAATCTTTATAATTAAG-GCTCT
1 TAATTTTTTTAATCTCACTTTTTACCTTTATAATTAAGATC-CC
* * * * * *
23207 TACTTTTTTCAATCCCATTTTTTA-CTTATATAATTTAGACCCC
1 TAATTTTTTTAATCTCACTTTTTACCTT-TATAATTAAGATCCC
* * * * * *
23250 T-ATTTTTTCAATTTCACTCTTTACCTTTAAAATTGAGGTCCC
1 TAATTTTTTTAATCTCACTTTTTACCTTTATAATTAAGATCCC
23292 TAATTTTTTTAATCTCACTTTTTACCTTTATAATTGAAG-TCCC
1 TAATTTTTTTAATCTCACTTTTTACCTTTATAATT-AAGATCCC
*
23335 TAATTTTTTCAATC
1 TAATTTTTTTAATC
23349 ATTTTTTTCC
Statistics
Matches: 185, Mismatches: 34, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
41 1 0.01
42 69 0.37
43 94 0.51
44 3 0.02
45 8 0.04
46 10 0.05
ACGTcount: A:0.26, C:0.19, G:0.04, T:0.51
Consensus pattern (43 bp):
TAATTTTTTTAATCTCACTTTTTACCTTTATAATTAAGATCCC
Found at i:23278 original size:85 final size:85
Alignment explanation
Indices: 23120--23348 Score: 225
Period size: 85 Copynumber: 2.7 Consensus size: 85
23110 AATTGATGAT
* * * * *
23120 CCTAATTTTTTTAATCTCACATTCTACCTTTATAATTAAGATCCCTAATTTTTTAATCTCACTTT
1 CCTAATTTTTTCAATCCCACTTTTTACCTTTATAATTAAGACCCCTAATTTTTTAATCTCACTTT
* *
23185 TAATCTTTATAATTAAGG-C
66 TAACCTTTAAAATTAAGGTC
* * * * *
23204 TCTTACTTTTTTCAATCCCATTTTTTA-CTTATATAATTTAGACCCCT-ATTTTTTCAATTTCAC
1 -CCTAATTTTTTCAATCCCACTTTTTACCTT-TATAATTAAGACCCCTAATTTTTT-AATCTCAC
*
23267 TCTTT-ACCTTTAAAATTGAGGTC
63 T-TTTAACCTTTAAAATTAAGGTC
* * *
23290 CCTAATTTTTTTAATCTCACTTTTTACCTTTATAATTGAAG-TCCCTAATTTTTTCAATC
1 CCTAATTTTTTCAATCCCACTTTTTACCTTTATAATT-AAGACCCCTAATTTTTT-AATC
23349 ATTTTTTTCC
Statistics
Matches: 116, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
84 10 0.09
85 86 0.74
86 20 0.17
ACGTcount: A:0.27, C:0.20, G:0.04, T:0.49
Consensus pattern (85 bp):
CCTAATTTTTTCAATCCCACTTTTTACCTTTATAATTAAGACCCCTAATTTTTTAATCTCACTTT
TAACCTTTAAAATTAAGGTC
Found at i:31236 original size:3 final size:3
Alignment explanation
Indices: 31230--31263 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
31220 ACGGGAGGAG
31230 GAA GAA GAA GGAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA
31264 AGAGTTTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:31544 original size:16 final size:16
Alignment explanation
Indices: 31525--31555 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31515 AAAGTAACTC
*
31525 GAACTTAAAATAACCT
1 GAACCTAAAATAACCT
31541 GAACCTAAAATAACC
1 GAACCTAAAATAACC
31556 CGAATTTAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.23, G:0.06, T:0.19
Consensus pattern (16 bp):
GAACCTAAAATAACCT
Found at i:33936 original size:72 final size:72
Alignment explanation
Indices: 33819--33988 Score: 227
Period size: 72 Copynumber: 2.4 Consensus size: 72
33809 GATGATGATT
* * * *
33819 GTGATCATGATGATGGGCACAATCATGATGGTCATTAATATGAGCATTTTCATGTTTGTGTCCAT
1 GTGATCATGATGGTGGGCACAATCATGATGGTCATGAATATGAGCATGTTCATGTTTATGTCCAT
33884 GGT-CATG
66 GGTCCA-G
* * * * *
33891 GTGATCACGATGGTGGGCAGAATCATGGTTGTCATGACTATGAGCATGTTCATGTTTATGTCCAT
1 GTGATCATGATGGTGGGCACAATCATGATGGTCATGAATATGAGCATGTTCATGTTTATGTCCAT
33956 GGTCCAG
66 GGTCCAG
33963 GTGATCATGATGGCT-GGCACAATCAT
1 GTGATCATGATGG-TGGGCACAATCAT
33989 CTAGAGCTTG
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
72 82 0.96
73 3 0.04
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (72 bp):
GTGATCATGATGGTGGGCACAATCATGATGGTCATGAATATGAGCATGTTCATGTTTATGTCCAT
GGTCCAG
Found at i:43114 original size:21 final size:19
Alignment explanation
Indices: 43090--43147 Score: 82
Period size: 18 Copynumber: 3.0 Consensus size: 19
43080 ATGTTTAATG
43090 AAAAAGATATCAATTGTTA
1 AAAAAGATATCAATTGTTA
*
43109 ACAAAATGACATCAATTGTT-
1 A-AAAA-GATATCAATTGTTA
43129 AAAAAGATATCAATTGTTA
1 AAAAAGATATCAATTGTTA
43148 CCAATTGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 12 0.35
19 5 0.15
20 5 0.15
21 12 0.35
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (19 bp):
AAAAAGATATCAATTGTTA
Found at i:43502 original size:20 final size:20
Alignment explanation
Indices: 43474--43511 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43464 ACTTTATGCA
*
43474 ATACCAATTGTTTAAATTTG
1 ATACCAATTGTTAAAATTTG
*
43494 ATACTAATTGTTAAAATT
1 ATACCAATTGTTAAAATT
43512 AAGTACATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (20 bp):
ATACCAATTGTTAAAATTTG
Found at i:44330 original size:19 final size:20
Alignment explanation
Indices: 44285--44332 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
44275 TCTAAATCCT
*
44285 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* * *
44305 CTGTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
44324 TTTTCAAAA
1 TTTTCAAAA
44333 GAAAATTGTT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.50
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:45501 original size:20 final size:22
Alignment explanation
Indices: 45476--45515 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
45466 TGTTGTATAT
45476 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
45496 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
45516 TCTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:46804 original size:12 final size:11
Alignment explanation
Indices: 46769--46805 Score: 56
Period size: 12 Copynumber: 3.2 Consensus size: 11
46759 GAAGAGGGTG
46769 AAGGAAAAAGA
1 AAGGAAAAAGA
46780 GAAGGAAAAAGA
1 -AAGGAAAAAGA
46792 AAGGGAAAAAGA
1 AA-GGAAAAAGA
46804 AA
1 AA
46806 CGAAGAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 2 0.08
12 22 0.92
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAGGAAAAAGA
Found at i:48686 original size:20 final size:20
Alignment explanation
Indices: 48661--48699 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
48651 ACGCTAAACT
*
48661 CAAAATCGCAATGCGAAAGC
1 CAAAATCGCAACGCGAAAGC
48681 CAAAATCGCAACGCGAAAG
1 CAAAATCGCAACGCGAAAG
48700 TCAATTCGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.26, G:0.21, T:0.08
Consensus pattern (20 bp):
CAAAATCGCAACGCGAAAGC
Found at i:48763 original size:20 final size:20
Alignment explanation
Indices: 48742--48852 Score: 117
Period size: 20 Copynumber: 5.8 Consensus size: 20
48732 GCAATTTTCT
* *
48742 CGTTGCGATAGTTAAATTCT
1 CGTTGCGATAGTCAAATTCG
* *
48762 CGTTGCGATAATCAAGTTCG
1 CGTTGCGATAGTCAAATTCG
48782 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
48802 CGTTGCGAT--T----TTAG
1 CGTTGCGATAGTCAAATTCG
48816 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
48836 TGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
48853 GAATGTGTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
14 12 0.16
16 1 0.01
18 1 0.01
20 61 0.81
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:48824 original size:34 final size:34
Alignment explanation
Indices: 48704--48844 Score: 138
Period size: 34 Copynumber: 4.0 Consensus size: 34
48694 CGAAAGTCAA
* * * * *
48704 TTCGTGTTGCGATAGTCTAATACGCTTTGCAATT
1 TTCGCGTTGCGATAGTCAAATTCGCGTTGCGATT
* * *
48738 TTCTCGTTGCGATAGTTAAATTCTCGTTGCGATAAT
1 TTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT--T
48774 CAAGTTCGCGTTGCGATAGTCAAATTCGCGTTGCGATT
1 ----TTCGCGTTGCGATAGTCAAATTCGCGTTGCGATT
* *
48812 TTAGCGTTGCGATAGTCAAATTCGTGTTGCGAT
1 TTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
48845 ATTCAAATGA
Statistics
Matches: 88, Mismatches: 13, Indels: 12
0.78 0.12 0.11
Matches are distributed among these distances:
34 56 0.64
36 1 0.01
38 1 0.01
40 30 0.34
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (34 bp):
TTCGCGTTGCGATAGTCAAATTCGCGTTGCGATT
Found at i:48833 original size:74 final size:73
Alignment explanation
Indices: 48700--48850 Score: 196
Period size: 74 Copynumber: 2.1 Consensus size: 73
48690 AACGCGAAAG
* * * ** *
48700 TCAATTCGTGTTGCGATAGTCTAATACGCTTTGCAATTTTCTCGTTGCGATAGTTAAATTC-TCG
1 TCAATTCGCGTTGCGATAGTCAAATACGCGTTGCAATTTTAGCGTTGCGATAGTCAAATTCGT-G
48764 TTGCGATAA
65 TTGCGATAA
* *
48773 TCAAGTTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTAGCGTTGCGATAGTCAAATTCGTG
1 TCAA-TTCGCGTTGCGATAGTCAAATACGCGTTGCAATTTTAGCGTTGCGATAGTCAAATTCGTG
*
48838 TTGCGATAT
65 TTGCGATAA
48847 TCAA
1 TCAA
48851 ATGAATGTGT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
73 4 0.06
74 62 0.93
75 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (73 bp):
TCAATTCGCGTTGCGATAGTCAAATACGCGTTGCAATTTTAGCGTTGCGATAGTCAAATTCGTGT
TGCGATAA
Found at i:49046 original size:18 final size:18
Alignment explanation
Indices: 49023--49057 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
49013 AAGCCGGTTG
*
49023 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
49041 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
49058 GCCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:51385 original size:24 final size:24
Alignment explanation
Indices: 51334--51385 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
51324 ATTCGAGTAT
** *
51334 TGACCAAGATCAAAGTCTGGGTAT
1 TGACCAAGATCAAAGTCTGAATAC
* *
51358 TGACCAAGATCAAATTTTGAATAC
1 TGACCAAGATCAAAGTCTGAATAC
51382 TGAC
1 TGAC
51386 TAGTACTCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCTGAATAC
Found at i:52328 original size:19 final size:19
Alignment explanation
Indices: 52304--52340 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
52294 TGCGATACTG
*
52304 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
*
52323 GAGATCGTATTGCGATTT
1 GAGATCGCATTGCGATTT
52341 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:53555 original size:20 final size:20
Alignment explanation
Indices: 53505--53558 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
53495 ATCGAGCATT
*
53505 AGTTTTAGATATCTAACATG
1 AGTTTTAGATGTCTAACATG
53525 AGTTTTAGATGTCTAACATG
1 AGTTTTAGATGTCTAACATG
53545 AGTTTTAGATGTCT
1 AGTTTTAGATGTCT
53559 GCCTGCCACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.43
Consensus pattern (20 bp):
AGTTTTAGATGTCTAACATG
Found at i:60917 original size:425 final size:420
Alignment explanation
Indices: 60367--61178 Score: 1245
Period size: 425 Copynumber: 1.9 Consensus size: 420
60357 ATTTAAGAAT
* *
60367 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACGTTGATGAG
1 TAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACA----GATAAG
*
60432 GGATCAAATCGAAATAATTTTAAATTGTGAGATTGAAATTAATACAAAAAAGTACTAAATTATAC
62 GGATCAAATCAAAATAATTTTAAATTGTGAGATTGAAATTAATACAAAAAAGTACTAAATTATA-
** * * * *
60497 CCATTTAAAAAGTTATGGGCCAA-TTAAAAAAATAGTTAAGTAATAAGTATTGATCAATTTCATA
126 CCATTTAAAAAGTTATGGGCCAATTTAAAAAAATAAATAAGTAATAAGTATGGACCAACTTCAGA
* *
60561 TGCAAATAAAATTTGGAGGACTAAATTGAACAAATATGGAATTACAAATAAAAATTTAAATAAAT
191 TGCAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAAATTAAATAAAT
*
60626 TAAACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATA
256 TAAACAACACA-A---A--AGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATA
* **
60691 CAAAAAAGTACTAAATTATACTCATTTAAAAAGTTATGGGTCAATTTAA-AAATAGAAATAAGTA
315 CAAAAAAGTACTAAATTATACTCA-TTAAAAAATTATGGACCAA-TTAATAAATAGAAATAAGTA
60755 ATAAGTATGGGTCAATTTCAGATGCATATAAAATTTGGAGGAC
378 ATAAGTATGGGTCAATTTCAGATGCATATAAAATTTGGAGGAC
*
60798 TAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATATATTAAACAACACA-A-AAGGGAT
1 TAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACAGATAAGGGAT
* * * *
60861 CAAATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAGGTGCTAAATTATACCATT
66 CAAATCAAAATAATTTTAAATTGTGAGATTGAAATTAATACAAAAAAGTACTAAATTATACCATT
* * *
60926 TAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGGGCCAACTTCAGGTGCAA
131 TAAAAAGTTATGGGCCAATTTAAAAAAATAAATAAGTAATAAGTATGGACCAACTTCAGATGCAA
*
60991 ATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAAATTAAATATATTAAAC
196 ATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAAATTAAATAAATTAAAC
* *
61056 AACACAAAAGGGATCAAATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAATGTAC
261 AACACAAAAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTAC
61121 TAAATTATACTCATTAAAAAATTATGGACCAATTAATAAATAGAAATAAGTAATAAGT
326 TAAATTATACTCATTAAAAAATTATGGACCAATTAATAAATAGAAATAAGTAATAAGT
61179 TGATAAAAAA
Statistics
Matches: 353, Mismatches: 26, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
417 4 0.01
418 37 0.10
419 67 0.19
421 1 0.00
424 24 0.07
425 166 0.47
426 1 0.00
431 53 0.15
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.29
Consensus pattern (420 bp):
TAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACAGATAAGGGAT
CAAATCAAAATAATTTTAAATTGTGAGATTGAAATTAATACAAAAAAGTACTAAATTATACCATT
TAAAAAGTTATGGGCCAATTTAAAAAAATAAATAAGTAATAAGTATGGACCAACTTCAGATGCAA
ATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAAATTAAATAAATTAAAC
AACACAAAAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTAC
TAAATTATACTCATTAAAAAATTATGGACCAATTAATAAATAGAAATAAGTAATAAGTATGGGTC
AATTTCAGATGCATATAAAATTTGGAGGAC
Found at i:61010 original size:209 final size:211
Alignment explanation
Indices: 60367--61178 Score: 1213
Period size: 209 Copynumber: 3.8 Consensus size: 211
60357 ATTTAAGAAT
*
60367 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACGTTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAC----ATAAG
*
60432 GGATCAAATCGAAATAATTTTAAATTGTGAGATTGAAATTAATACAAAAAAGTACTAAATTATAC
62 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * * ** * * *
60497 CCATTTAAAAAGTTATGGGCCAATTAAAAAAATAGTTAAGTAATAAGTATTGATCAATTTCATAT
127 TCATTTAAAAAGTTATGGGCCAATTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGAT
60562 GCAAATAAAATTTGGAGGAC
192 GCAAATAAAATTTGGAGGAC
*
60582 TAAATTGAACAAATATGGAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACA-T-A--AG
*
60647 GGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATAC
62 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
*
60712 TCATTTAAAAAGTTATGGGTCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
127 TCATTTAAAAAGTTATGGGCCAA-TTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
*
60777 TGCATATAAAATTTGGAGGAC
191 TGCAAATAAAATTTGGAGGAC
* *
60798 TAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATATATTAAACAACACA-A-AAGGGAT
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAAGGGAT
* * * *
60861 CAAATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAGGTGCTAAATTATAC-CAT
66 CAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACTCAT
* * * *
60925 TTAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGGGCCAACTTCAGGTGCA
131 TTAAAAAGTTATGGGCCAA-TTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCA
60990 AATAAAATTTGGAGGAC
195 AATAAAATTTGGAGGAC
* *
61007 TAAATTGAACAAATATGAAATTACAAATAAAAAATTAAATATATTAAACAACACA-A-AAGGGAT
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAAGGGAT
* *
61070 CAAATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAATGTACTAAATTATACTCA-
66 CAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACTCAT
* *
61134 TTAAAAAATTATGGACCAATTAATAAATAGAAATAAGTAATAAGT
131 TTAAAAAGTTATGGGCCAATTAA-AAATAGAAATAAGTAATAAGT
61179 TGATAAAAAA
Statistics
Matches: 554, Mismatches: 36, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
208 4 0.01
209 235 0.42
210 64 0.12
211 1 0.00
212 2 0.00
215 142 0.26
216 106 0.19
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.29
Consensus pattern (211 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAAGGGAT
CAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACTCAT
TTAAAAAGTTATGGGCCAATTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAA
ATAAAATTTGGAGGAC
Found at i:61216 original size:2 final size:2
Alignment explanation
Indices: 61203--61303 Score: 66
Period size: 2 Copynumber: 50.0 Consensus size: 2
61193 AAAACAACTA
* * * *
61203 AT AT AG AT AT AT AT -T A- AT AT AA ACT AT AT AGT TT AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT
* * *
61245 AGT AC AT GT AT -T AT AT AT AT AT AA ACT AT AT AGT -T AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT
61286 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
61304 TATGTATAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
1 4 0.05
2 67 0.88
3 5 0.07
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:61244 original size:20 final size:21
Alignment explanation
Indices: 61219--61546 Score: 85
Period size: 20 Copynumber: 16.0 Consensus size: 21
61209 ATATATATTA
61219 ATATAAACTATATAGTT-TAT
1 ATATAAACTATATAGTTATAT
* * *
61239 ATATAAAGTACATGTATTATATAT
1 ATATAAACT--ATATAGT-TATAT
61263 ATATAAACTATATAGTTATAT
1 ATATAAACTATATAGTTATAT
61284 ATATATATA-TATATA-TATATTAT
1 ATATA-A-ACTATATAGT-TA-TAT
* * *
61307 GTATAAAGTATAAAG-TATA-
1 ATATAAACTATATAGTTATAT
* ** * *
61326 A-ATTATGTATAAAGTATAAAT
1 ATATAAACTATATAGT-TATAT
* * *
61347 ATATATAC--CAT-G-TATAA
1 ATATAAACTATATAGTTATAT
61364 ACTATAATACTATATAGTT-TAT
1 A-TATAA-ACTATATAGTTATAT
* *
61386 ATATGAACTAT-T-G-AACTAT
1 ATATAAACTATATAGTTA-TAT
* *
61405 ATACAAACTACATAGTT-TAT
1 ATATAAACTATATAGTTATAT
* *
61425 ATATAAATTATATA-TGAATTAT
1 ATATAAACTATATAGT-TA-TAT
* *
61447 ATATAAACTATACAATT-TAT
1 ATATAAACTATATAGTTATAT
* *
61467 ATTTATA-TAT-TA-TGTATA-
1 ATATAAACTATATAGT-TATAT
61485 ATTATAAACTATATA--TATATT
1 A-TATAAACTATATAGTTATA-T
* *
61506 GTATAAATTATATAGTTTATAT
1 ATATAAACTATATAG-TTATAT
*
61528 ATATATA-TATATA-TTATAT
1 ATATAAACTATATAGTTATAT
61547 GGTTTAGGGT
Statistics
Matches: 224, Mismatches: 45, Indels: 79
0.64 0.13 0.23
Matches are distributed among these distances:
17 5 0.02
18 19 0.08
19 35 0.16
20 57 0.25
21 30 0.13
22 52 0.23
23 15 0.07
24 11 0.05
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (21 bp):
ATATAAACTATATAGTTATAT
Found at i:61318 original size:26 final size:26
Alignment explanation
Indices: 61264--61379 Score: 107
Period size: 25 Copynumber: 4.5 Consensus size: 26
61254 ATTATATATA
* *
61264 TATAA-ACTATATAGTTATATATATA-
1 TATAATACTATATA-TTATGTATAAAG
61289 TATATATA-TATATATTATGTATAAAG
1 TATA-ATACTATATATTATGTATAAAG
* *
61315 TATAA-AGTATAAATTATGTATAAAG
1 TATAATACTATATATTATGTATAAAG
** *
61340 TATAAATA-TATATACCATGTATAAAC
1 TAT-AATACTATATATTATGTATAAAG
61366 TATAATACTATATA
1 TATAATACTATATA
61380 GTTTATATAT
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
24 1 0.01
25 38 0.49
26 36 0.47
27 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (26 bp):
TATAATACTATATATTATGTATAAAG
Found at i:61320 original size:51 final size:48
Alignment explanation
Indices: 61218--61389 Score: 147
Period size: 51 Copynumber: 3.5 Consensus size: 48
61208 GATATATATT
* * *
61218 AATATAAACTATATAGTTTATATATA-A-AGTACATGTATTA--TATA
1 AATATAAACTATATAGTTTATATATATATAATATATATATTATGTATA
*
61262 TATATAAACTATATAGTTATATATATATATATATATATATATTATGTATA
1 AATATAAACTATATAGTT-TATATATATATA-ATATATATATTATGTATA
* * * * **
61312 AAGTATAAAGTATA-AATTATGTATAAAGTATAAATATATATACCATGTATA
1 AA-TATAAACTATATAGTT-TATATATA-TAT-AATATATATATTATGTATA
61363 AACTATAATACTATATAGTTTATATAT
1 AA-TATAA-ACTATATAGTTTATATAT
61390 GAACTATTGA
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
44 17 0.17
45 8 0.08
46 1 0.01
47 1 0.01
48 9 0.09
50 15 0.15
51 36 0.36
52 11 0.11
53 3 0.03
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (48 bp):
AATATAAACTATATAGTTTATATATATATAATATATATATTATGTATA
Found at i:61429 original size:2 final size:2
Alignment explanation
Indices: 61422--61546 Score: 54
Period size: 2 Copynumber: 65.5 Consensus size: 2
61412 CTACATAGTT
* * *
61422 TA TA TA TA AA T- TA TA TA TGA -A T- TA TA TA TA AA CTA TA CA -A
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA -TA TA TA TA
* * * *
61462 TT TA TA TT TA TA TA T- TA TG TA TA -A T- TA TA AA CTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * *
61502 TA T- TG TA TA AA T- TA TA TA GTT TA TA TA TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
61542 TA TA T
1 TA TA T
61547 GGTTTAGGGT
Statistics
Matches: 91, Mismatches: 18, Indels: 28
0.66 0.13 0.20
Matches are distributed among these distances:
1 10 0.11
2 77 0.85
3 4 0.04
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:61498 original size:50 final size:55
Alignment explanation
Indices: 61416--61545 Score: 136
Period size: 52 Copynumber: 2.5 Consensus size: 55
61406 TACAAACTAC
* *
61416 ATAGTTTATATATA-A-AT-TATA-TATGAA-T-TATATATAAACTATACAATT-T
1 ATAGTTTATATATATATATATATATTATAAACTATATATATATACTATA-AATTAT
* **
61465 ATA-TTTATATAT-TATGTATA-ATTATAAACTATATATATATTGTATAAATTAT
1 ATAGTTTATATATATATATATATATTATAAACTATATATATATACTATAAATTAT
61517 ATAGTTTATATATATATATATATATTATA
1 ATAGTTTATATATATATATATATATTATA
61546 TGGTTTAGGG
Statistics
Matches: 65, Mismatches: 6, Indels: 14
0.76 0.07 0.16
Matches are distributed among these distances:
48 10 0.15
49 5 0.08
50 7 0.11
51 5 0.08
52 16 0.25
53 9 0.14
54 7 0.11
55 6 0.09
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.48
Consensus pattern (55 bp):
ATAGTTTATATATATATATATATATTATAAACTATATATATATACTATAAATTAT
Found at i:61545 original size:11 final size:11
Alignment explanation
Indices: 61421--61546 Score: 61
Period size: 11 Copynumber: 11.5 Consensus size: 11
61411 ACTACATAGT
*
61421 TTATATATAAA
1 TTATATATATA
61432 TTATATATGA-A
1 TTATATAT-ATA
*
61443 TTATATATAAA
1 TTATATATATA
* *
61454 CTATACA-AT-
1 TTATATATATA
61463 TTATATTTATATA
1 TTATA--TATATA
*
61476 TTATGTATA-A
1 TTATATATATA
*
61486 TTATAAACTATA
1 TTATATA-TATA
*
61498 -TATATAT-TG
1 TTATATATATA
*
61507 TATAAATTATATA
1 T-TATA-TATATA
61520 GTT-TATATATA
1 -TTATATATATA
61531 -TATATATATA
1 TTATATATATA
61541 TTATAT
1 TTATAT
61547 GGTTTAGGGT
Statistics
Matches: 87, Mismatches: 13, Indels: 30
0.67 0.10 0.23
Matches are distributed among these distances:
9 6 0.07
10 17 0.20
11 49 0.56
12 8 0.09
13 6 0.07
14 1 0.01
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (11 bp):
TTATATATATA
Found at i:61573 original size:6 final size:6
Alignment explanation
Indices: 61562--61587 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
61552 AGGGTTTAGG
61562 ATTTAT ATTTAT ATTTAT ATTTAT AT
1 ATTTAT ATTTAT ATTTAT ATTTAT AT
61588 AAACTACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTAT
Found at i:61620 original size:20 final size:20
Alignment explanation
Indices: 61595--61667 Score: 83
Period size: 20 Copynumber: 3.4 Consensus size: 20
61585 TATAAACTAC
61595 ATACTATAATTTATATTTAT
1 ATACTATAATTTATATTTAT
*
61615 ATACTATATTTTATACTATTTAT
1 ATACTATA-ATT-TA-TATTTAT
*
61638 ATAAACTATAGTTTATATTTAT
1 AT--ACTATAATTTATATTTAT
61660 ATACTATA
1 ATACTATA
61668 TATATGAACT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
20 14 0.30
21 2 0.04
22 11 0.24
23 11 0.24
24 2 0.04
25 6 0.13
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (20 bp):
ATACTATAATTTATATTTAT
Found at i:61631 original size:12 final size:13
Alignment explanation
Indices: 61606--61655 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
61596 TACTATAATT
61606 TATATTTATATAC
1 TATATTTATATAC
61619 TATATTT-TATAC
1 TATATTTATATAC
*
61631 TAT-TTATATAAAC
1 TATATT-TATATAC
61644 TATAGTTTATAT
1 TATA-TTTATAT
61656 TTATATACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 2 0.06
12 9 0.29
13 14 0.45
14 4 0.13
15 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (13 bp):
TATATTTATATAC
Found at i:61646 original size:25 final size:23
Alignment explanation
Indices: 61608--61667 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
61598 CTATAATTTA
*
61608 TATTTATATACTATATTTTATAC
1 TATTTATATACTATAGTTTATAC
61631 TATTTATATAAACTATAG-TT-TA-
1 TATTTATAT--ACTATAGTTTATAC
61653 TATTTATATACTATA
1 TATTTATATACTATA
61668 TATATGAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 6 0.18
22 9 0.26
23 11 0.32
24 2 0.06
25 6 0.18
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (23 bp):
TATTTATATACTATAGTTTATAC
Found at i:61666 original size:33 final size:32
Alignment explanation
Indices: 61619--61706 Score: 115
Period size: 33 Copynumber: 2.8 Consensus size: 32
61609 ATTTATATAC
*
61619 TATATTTTATACTATTTATATAAACTATAGTT
1 TATATTTTATACTATATATATAAACTATAGTT
*
61651 TATATTTATATACTATATATATGAACTATAGTT
1 TATATTT-TATACTATATATATAAACTATAGTT
* * *
61684 TACATATGA-ACTATATATATAAA
1 TATATTTTATACTATATATATAAA
61707 TATGTATATA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
31 13 0.27
32 8 0.16
33 28 0.57
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (32 bp):
TATATTTTATACTATATATATAAACTATAGTT
Found at i:61743 original size:65 final size:61
Alignment explanation
Indices: 61666--61827 Score: 192
Period size: 56 Copynumber: 2.7 Consensus size: 61
61656 TTATATACTA
61666 TATATATGAACTATAGTTTACATATGAACTATATATATAAATATGTATATACTAAGGTTGATA-T
1 TATATATGAACTATAGTTTACATATGAACTATATATATAAAT-T-TATATACTAA--TT-ATAGT
61730 T
61 T
* *
61731 TATATATGAACTATAGTTTACATAT-AA--A-CTATAT-AGTTTATATACTAATTATAGTT
1 TATATATGAACTATAGTTTACATATGAACTATATATATAAATTTATATACTAATTATAGTT
* * *
61787 TACATATAAACTATAGCTTACATATGAACTATATATATAAA
1 TATATATGAACTATAGTTTACATATGAACTATATATATAAA
61828 CTATATAGTT
Statistics
Matches: 84, Mismatches: 7, Indels: 16
0.79 0.07 0.15
Matches are distributed among these distances:
55 3 0.04
56 26 0.31
57 2 0.02
58 10 0.12
59 2 0.02
60 7 0.08
61 6 0.07
62 1 0.01
64 2 0.02
65 25 0.30
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (61 bp):
TATATATGAACTATAGTTTACATATGAACTATATATATAAATTTATATACTAATTATAGTT
Found at i:61750 original size:18 final size:18
Alignment explanation
Indices: 61729--61819 Score: 94
Period size: 18 Copynumber: 4.9 Consensus size: 18
61719 AAGGTTGATA
* *
61729 TTTATATATGAACTATAG
1 TTTACATATAAACTATAG
61747 TTTACATATAAACTATATAG
1 TTTACATATAAAC--TATAG
* *
61767 TTTATATACT-AATTATAG
1 TTTACATA-TAAACTATAG
61785 TTTACATATAAACTATAG
1 TTTACATATAAACTATAG
* *
61803 CTTACATATGAACTATA
1 TTTACATATAAACTATA
61820 TATATAAACT
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
17 1 0.02
18 45 0.74
20 14 0.23
21 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.42
Consensus pattern (18 bp):
TTTACATATAAACTATAG
Found at i:61771 original size:38 final size:38
Alignment explanation
Indices: 61729--61852 Score: 138
Period size: 38 Copynumber: 3.4 Consensus size: 38
61719 AAGGTTGATA
*
61729 TTTATATATGAACTATAGTTTACATATAAACTATATAG
1 TTTACATATGAACTATAGTTTACATATAAACTATATAG
* *
61767 TTTATATACT-AATTATAGTTTACATATAAAC--TATAG
1 TTTACATA-TGAACTATAGTTTACATATAAACTATATAG
*
61803 CTTACATATGAACTATA---T--ATATAAACTATATAG
1 TTTACATATGAACTATAGTTTACATATAAACTATATAG
*
61836 TTTACATATGACCTATA
1 TTTACATATGAACTATA
61853 TATATATACT
Statistics
Matches: 76, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
31 8 0.11
33 21 0.28
35 1 0.01
36 17 0.22
38 28 0.37
39 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.41
Consensus pattern (38 bp):
TTTACATATGAACTATAGTTTACATATAAACTATATAG
Found at i:61808 original size:56 final size:53
Alignment explanation
Indices: 61706--61844 Score: 149
Period size: 56 Copynumber: 2.6 Consensus size: 53
61696 ATATATATAA
* * * *
61706 ATATGTATATACTAAGGTTGATA-TTTATATATGAACTATAGTTTACATATAAACT
1 ATATATATATACTAA--TT-ATAGTTTACATATAAACTATAGCTTACATATAAACT
*
61761 ATATAGTTTATATACTAATTATAGTTTACATATAAACTATAGCTTACATATGAACT
1 ATATA---TATATACTAATTATAGTTTACATATAAACTATAGCTTACATATAAACT
*
61817 ATATATATAAACT-A-TATAGTTTACATAT
1 ATATATATATACTAATTATAGTTTACATAT
61845 GACCTATATA
Statistics
Matches: 74, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
51 14 0.19
52 1 0.01
53 7 0.09
55 7 0.09
56 35 0.47
58 10 0.14
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.42
Consensus pattern (53 bp):
ATATATATATACTAATTATAGTTTACATATAAACTATAGCTTACATATAAACT
Found at i:61867 original size:31 final size:31
Alignment explanation
Indices: 61790--61923 Score: 133
Period size: 33 Copynumber: 4.5 Consensus size: 31
61780 TATAGTTTAC
* * *
61790 ATATAAACTATAGCTTACATATGAACTATAT
1 ATATATACTATAGTTTACATATGACCTATAT
*
61821 ATATAAACTATATAGTTTACATATGACCTATAT
1 ATATATAC--TATAGTTTACATATGACCTATAT
*
61854 ATATATACTATAG-TT-GATAT----T-TAT
1 ATATATACTATAGTTTACATATGACCTATAT
*
61878 ATA-CTA-TATAGTTTACATATGACCTATAT
1 ATATATACTATAGTTTACATATGACCTATAT
61907 ATATATACTATAGTTTA
1 ATATATACTATAGTTTA
61924 TATTTATATA
Statistics
Matches: 85, Mismatches: 7, Indels: 22
0.75 0.06 0.19
Matches are distributed among these distances:
22 5 0.06
23 4 0.05
24 10 0.12
25 1 0.01
28 1 0.01
29 10 0.12
30 4 0.05
31 22 0.26
33 28 0.33
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (31 bp):
ATATATACTATAGTTTACATATGACCTATAT
Found at i:61895 original size:53 final size:53
Alignment explanation
Indices: 61817--61967 Score: 232
Period size: 53 Copynumber: 2.8 Consensus size: 53
61807 CATATGAACT
* *
61817 ATATATATAAACTATATAGTTTACATATGACCTATATATATATACTATAGTTG
1 ATATTTATATACTATATAGTTTACATATGACCTATATATATATACTATAGTTG
*
61870 ATATTTATATACTATATAGTTTACATATGACCTATATATATATACTATAGTTT
1 ATATTTATATACTATATAGTTTACATATGACCTATATATATATACTATAGTTG
* *
61923 ATATTTATATACTATATA-TTATACATATAAACTATATATAGTATA
1 ATATTTATATACTATATAGTT-TACATATGACCTATATATA-TATA
61968 TAGTATAATT
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
52 2 0.02
53 85 0.93
54 4 0.04
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (53 bp):
ATATTTATATACTATATAGTTTACATATGACCTATATATATATACTATAGTTG
Found at i:61925 original size:20 final size:20
Alignment explanation
Indices: 61902--61974 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
61892 ACATATGACC
61902 TATATATATATACTATAGT-T
1 TATATATATATACTATA-TAT
*
61922 TATATTTATATACTATATAT
1 TATATATATATACTATATAT
* *
61942 TATACATATAAACTATATA-
1 TATATATATATACTATATAT
61961 TAGTATATAGTATA
1 TA-TATATA-TATA
61975 ATTTACATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
19 3 0.07
20 38 0.86
21 3 0.07
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (20 bp):
TATATATATATACTATATAT
Found at i:61959 original size:33 final size:33
Alignment explanation
Indices: 61805--61996 Score: 115
Period size: 33 Copynumber: 5.6 Consensus size: 33
61795 AACTATAGCT
* *
61805 TACATATGAACTATATATATAAACTATATAGTT-
1 TACATATAAACTATATATATATACTATATA-TTA
* * *
61838 TACATATGACCTATATATATATACTATAGT-TGA
1 TACATATAAACTATATATATATACTATA-TATTA
** *
61871 TATTTATATACTATATAGTTTACATATGACCTATATATATA
1 TACATATAAACTATATA---T--ATAT-A-CTATATAT-TA
*** *
61912 TAC-TATAGTTTATATTTATATACTATATATTA
1 TACATATAAACTATATATATATACTATATATTA
61944 TACATATAAACTATATATAGTATA-TAGTATAATT-
1 TACATATAAACTATATATA-TATACTA-TAT-ATTA
*
61978 TACATATGAACTATATATA
1 TACATATAAACTATATATA
61997 AAAACCCTAA
Statistics
Matches: 125, Mismatches: 19, Indels: 29
0.72 0.11 0.17
Matches are distributed among these distances:
32 6 0.05
33 59 0.47
34 27 0.22
35 7 0.06
36 1 0.01
37 1 0.01
38 4 0.03
39 2 0.02
40 15 0.12
41 3 0.02
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (33 bp):
TACATATAAACTATATATATATACTATATATTA
Found at i:61983 original size:34 final size:36
Alignment explanation
Indices: 61928--61996 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 36
61918 AGTTTATATT
61928 TATATACTATATATTATACATATAAACTATATATAG
1 TATATACTATATATTATACATATAAACTATATATAG
* *
61964 TATATAGTATA-ATT-TACATATGAACTATATATA
1 TATATACTATATATTATACATATAAACTATATATA
61997 AAAACCCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 18 0.58
35 3 0.10
36 10 0.32
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.42
Consensus pattern (36 bp):
TATATACTATATATTATACATATAAACTATATATAG
Found at i:62049 original size:33 final size:33
Alignment explanation
Indices: 62011--62219 Score: 188
Period size: 33 Copynumber: 6.4 Consensus size: 33
62001 CCCTAAACCC
*
62011 TAAACTATACATTATATAGTTTATTAGTATATA
1 TAAACTATACATTATATAGTTCATTAGTATATA
* *
62044 TAAACTATATAACA-TATATAG-ACTATATGGTATATA
1 TAAAC--TAT-ACATTATATAGTTC-AT-TAGTATATA
62080 TAAACTATACATTATATATAGTTCATTAGTATATA
1 TAAACTATACA-T-TATATAGTTCATTAGTATATA
*
62115 TAAACTATATATTATATAGTTCATTAGTATATA
1 TAAACTATACATTATATAGTTCATTAGTATATA
*
62148 T-AAC----C--TATATAG-T-ATATGGTATATA
1 TAAACTATACATTATATAGTTCAT-TAGTATATA
* * *
62173 CAAATTATATATTATATAGTTCATTAGTATATA
1 TAAACTATACATTATATAGTTCATTAGTATATA
*
62206 TAAACTATATATTA
1 TAAACTATACATTA
62220 ATTTATTAAT
Statistics
Matches: 143, Mismatches: 14, Indels: 38
0.73 0.07 0.19
Matches are distributed among these distances:
24 2 0.01
25 9 0.06
26 9 0.06
32 10 0.07
33 51 0.36
34 6 0.04
35 30 0.21
36 25 0.17
37 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.43
Consensus pattern (33 bp):
TAAACTATACATTATATAGTTCATTAGTATATA
Found at i:62114 original size:17 final size:17
Alignment explanation
Indices: 62092--62149 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
62082 AACTATACAT
62092 TATATATAGTTCATTAG
1 TATATATAGTTCATTAG
**
62109 TATATATA-AAC-TATA-
1 TATATATAGTTCAT-TAG
62124 TATTATATAGTTCATTAG
1 TA-TATATAGTTCATTAG
62142 TATATATA
1 TATATATA
62150 ACCTATATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 3 0.09
16 9 0.28
17 17 0.53
18 3 0.09
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (17 bp):
TATATATAGTTCATTAG
Found at i:62162 original size:18 final size:18
Alignment explanation
Indices: 62035--62164 Score: 101
Period size: 18 Copynumber: 7.4 Consensus size: 18
62025 TATAGTTTAT
62035 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
** *
62053 TAACATATATAGACTATA
1 TAGTATATATAAACTATA
*
62071 TGGTATATATAAACTATA
1 TAGTATATATAAACTATA
* * **
62089 CATTATATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
62106 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
**
62124 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
*
62139 TAGTATATATAACCTATA
1 TAGTATATATAAACTATA
62157 TAGTATAT
1 TAGTATAT
62165 GGTATATACA
Statistics
Matches: 84, Mismatches: 20, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
15 4 0.05
16 8 0.10
17 20 0.24
18 52 0.62
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.42
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:62206 original size:91 final size:94
Alignment explanation
Indices: 62049--62219 Score: 276
Period size: 91 Copynumber: 1.8 Consensus size: 94
62039 ATATATAAAC
*
62049 TATATAACATATATAGACTATATGGTATATATAAACTATACATTATATATAGTTCATTAGTATAT
1 TATATAACATATATAGA-TATATGGTATATACAAACTATACATTATATATAGTTCATTAGTATAT
62114 ATAAACTATATATTATATAGTTCATTAGTA
65 ATAAACTATATATTATATAGTTCATTAGTA
* * *
62144 TATATAACCTATATAG-TATATGGTATATACAAATTATATA-T-TATATAGTTCATTAGTATATA
1 TATATAACATATATAGATATATGGTATATACAAACTATACATTATATATAGTTCATTAGTATATA
62206 TAAACTATATATTA
66 TAAACTATATATTA
62220 ATTTATTAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
91 35 0.49
92 1 0.01
93 21 0.29
95 15 0.21
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (94 bp):
TATATAACATATATAGATATATGGTATATACAAACTATACATTATATATAGTTCATTAGTATATA
TAAACTATATATTATATAGTTCATTAGTA
Found at i:62240 original size:91 final size:94
Alignment explanation
Indices: 62041--62240 Score: 257
Period size: 91 Copynumber: 2.1 Consensus size: 94
62031 TTATTAGTAT
*
62041 ATATAAACTATATAACATATATAGACTATATGGTATATATAAACTATACATTATATATAGTTCAT
1 ATATAAAC-ATATAACATATATAGA-TATATGGTATATACAAACTATACATTATATATAGTTCAT
*
62106 TAGTATATATAAACTATATATTATATAGTTC
64 TAGTATATATAAACTATATATTATATAGTTA
* * * * *
62137 AT-TAGTATATATAACCTATATAG-TATATGGTATATACAAATTATATA-T-TATATAGTTCATT
1 ATATA-AACATATAACATATATAGATATATGGTATATACAAACTATACATTATATATAGTTCATT
*
62198 AGTATATATAAACTATATATTAATTTA-TTA
65 AGTATATATAAACTATATATT-ATATAGTTA
62228 ATATAAACATATA
1 ATATAAACATATA
62241 TATTAATTGA
Statistics
Matches: 91, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
91 44 0.48
92 7 0.08
93 21 0.23
95 16 0.18
96 3 0.03
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (94 bp):
ATATAAACATATAACATATATAGATATATGGTATATACAAACTATACATTATATATAGTTCATTA
GTATATATAAACTATATATTATATAGTTA
Found at i:62391 original size:62 final size:62
Alignment explanation
Indices: 62282--62403 Score: 163
Period size: 62 Copynumber: 2.0 Consensus size: 62
62272 GATCAAATTG
* * * * * *
62282 AAAAAATTTTAAATATGAAGCTTAAATTAATAAATCATAACATTAAATTTGGATTAAATTTA
1 AAAAAAGTTGAAATATGAAGCTTAAATTAATAAATCACAACACTAAATTTGAACTAAATTTA
* * *
62344 AAAAAAGTTGAAATATGAAGCTTAAATTAATATATTACATCACTAAATTTGAACTAAATT
1 AAAAAAGTTGAAATATGAAGCTTAAATTAATAAATCACAACACTAAATTTGAACTAAATT
62404 GAATAAATTT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (62 bp):
AAAAAAGTTGAAATATGAAGCTTAAATTAATAAATCACAACACTAAATTTGAACTAAATTTA
Found at i:66177 original size:17 final size:17
Alignment explanation
Indices: 66155--66248 Score: 69
Period size: 17 Copynumber: 5.7 Consensus size: 17
66145 GTAATTATAT
66155 TAATTTAATTATCATAA
1 TAATTTAATTATCATAA
66172 TAATTT-A-TA--ATAA
1 TAATTTAATTATCATAA
* *
66185 -AATTTTAAAAAGTAATCATAT
1 TAA-TTT---AATTA-TCATAA
66206 TAATTTAATTATCATAA
1 TAATTTAATTATCATAA
66223 TAATTTAATTATCAT--
1 TAATTTAATTATCATAA
66238 TAATTT-ATTAT
1 TAATTTAATTAT
66249 AAATTTAAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 23
0.71 0.03 0.26
Matches are distributed among these distances:
12 2 0.03
13 7 0.11
14 5 0.08
15 8 0.12
16 1 0.02
17 27 0.42
18 6 0.09
21 6 0.09
22 2 0.03
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (17 bp):
TAATTTAATTATCATAA
Found at i:66188 original size:51 final size:51
Alignment explanation
Indices: 66133--66229 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
66123 ATATAAAACT
*
66133 AAATTTTAAAAAGTAATTATATTAATTTAATTATCATAATAATTTATAATA
1 AAATTTTAAAAAGTAATCATATTAATTTAATTATCATAATAATTTATAATA
66184 AAATTTTAAAAAGTAATCATATTAATTTAATTATCATAATAATTTA
1 AAATTTTAAAAAGTAATCATATTAATTTAATTATCATAATAATTTA
66230 ATTATCATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (51 bp):
AAATTTTAAAAAGTAATCATATTAATTTAATTATCATAATAATTTATAATA
Done.