Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001631.1 Hibiscus syriacus cultivar Beakdansim tig00003245_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: 80053
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:18416 original size:30 final size:31
Alignment explanation
Indices: 18375--18446 Score: 128
Period size: 31 Copynumber: 2.4 Consensus size: 31
18365 TTATTTCGGG
18375 TTGGGTCGGGTT-GGTTTCTAATTCATATAT
1 TTGGGTCGGGTTGGGTTTCTAATTCATATAT
*
18405 TTGGGTAGGGTTGGGTTTCTAATTCATATAT
1 TTGGGTCGGGTTGGGTTTCTAATTCATATAT
18436 TTGGGTCGGGT
1 TTGGGTCGGGT
18447 GAAACTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 11 0.28
31 28 0.72
ACGTcount: A:0.15, C:0.08, G:0.32, T:0.44
Consensus pattern (31 bp):
TTGGGTCGGGTTGGGTTTCTAATTCATATAT
Found at i:18640 original size:293 final size:288
Alignment explanation
Indices: 18114--18708 Score: 814
Period size: 293 Copynumber: 2.0 Consensus size: 288
18104 TTATTATTTC
*
18114 GGGTCGGGTTTCTAATTCATATATTTGGGTTGATTCGGGTGAAATTTTATTTTGGTCAGGTCGGG
1 GGGTCGGGTTTCTAATTCATATATTTGGG-TGA-TCGGGTGAAACTTTATTTT-GT-A-GTCGGG
* *
18179 TCGGCTTTTTTAAGTGTTATATTCGGGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGAC
61 TCGGCTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGGTCGGGTTTAGGGTGAAAAATACCCGAC
18244 CCGACCCAAAAATATATATAATTTTACCTTATATATTTGAAATAATTACAATAATACCACTCTCT
126 CCGACCCAAAAATATATATAATTTTACCTTATATATTTGAAATAATTACAATAATACCACTCTCT
*
18309 ATATAATTTTTTTTCAATTAAGTCACTATTTTTATTGAATAAAAATAATTTTTTTATTATTTCGG
191 ATATAATTTTTTTTCAATTAAGTCACTATTTTTATTGAATAAAAATAA-TTTTTTATTATTTCGA
* *
18374 GTTGGGTCGGGTTGGTTTCTAATTCATATATTTGGGTA
255 GTCGGGTC----AGGTTTCTAATTCATATATTTGGGTA
*
18412 GGGTTGGGTTTCTAATTCATATATTT-GG-G-TCGGGTGAAACTTTATTTT-T-GTCGGGTCGGT
1 GGGTCGGGTTTCTAATTCATATATTTGGGTGATCGGGTGAAACTTTATTTTGTAGTCGGGTCGG-
* * *
18472 TTTTTTTAAGTGTGATATTCGGGTTGGGTCGGGGTCGGGGTCGGGTTTAGGGTGAAAAATACTCG
65 CTTTTTTAAGTGTGATATTC-----GGGTC-GGGTCGAGGTCGGGTTTAGGGTGAAAAATACCCG
*
18537 ATCCGACCCAAAAA-ATATATAATTTTACCTTATATATTTAGAAATAATTACAATAATACC-C-C
124 ACCCGACCCAAAAATATATATAATTTTACCTTATATATTT-GAAATAATTACAATAATACCACTC
* *
18599 TAC-ATATAATTTTTTTTCAATTAAGTCATTGTTTTTATTGAATAAAAATAATTTTTTATTATTT
188 T-CTATATAATTTTTTTTCAATTAAGTCACTATTTTTATTGAATAAAAATAATTTTTTATTATTT
*
18663 CGAGTCGTGTCAGGTTTCTAATTCATATATTTGGGTCA
252 CGAGTCGGGTCAGGTTTCTAATTCATATATTTGGGT-A
18701 -GGTCGGGT
1 GGGTCGGGT
18709 GAAACTTTAT
Statistics
Matches: 272, Mismatches: 15, Indels: 30
0.86 0.05 0.09
Matches are distributed among these distances:
288 41 0.15
289 19 0.07
291 1 0.00
292 21 0.08
293 66 0.24
294 32 0.12
295 65 0.24
297 2 0.01
298 25 0.09
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (288 bp):
GGGTCGGGTTTCTAATTCATATATTTGGGTGATCGGGTGAAACTTTATTTTGTAGTCGGGTCGGC
TTTTTTAAGTGTGATATTCGGGTCGGGTCGAGGTCGGGTTTAGGGTGAAAAATACCCGACCCGAC
CCAAAAATATATATAATTTTACCTTATATATTTGAAATAATTACAATAATACCACTCTCTATATA
ATTTTTTTTCAATTAAGTCACTATTTTTATTGAATAAAAATAATTTTTTATTATTTCGAGTCGGG
TCAGGTTTCTAATTCATATATTTGGGTA
Found at i:25205 original size:55 final size:55
Alignment explanation
Indices: 25121--25230 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
25111 AATGAATAAG
25121 ATAGTTTCCATGGCTGCAGACACATACATTCTTCGGTCAAATTCTCCATTTTTCT
1 ATAGTTTCCATGGCTGCAGACACATACATTCTTCGGTCAAATTCTCCATTTTTCT
*
25176 ATAGTTTCCATGGCTGCCGACACATACATTCTTCGGTCAAATTCTCCATTTTTCT
1 ATAGTTTCCATGGCTGCAGACACATACATTCTTCGGTCAAATTCTCCATTTTTCT
25231 TCACCTTTGA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (55 bp):
ATAGTTTCCATGGCTGCAGACACATACATTCTTCGGTCAAATTCTCCATTTTTCT
Found at i:25712 original size:2 final size:2
Alignment explanation
Indices: 25700--25731 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
25690 TAGGCTCAAA
25700 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT A
25732 CTTTCATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:34661 original size:29 final size:29
Alignment explanation
Indices: 34618--34700 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
34608 CTCACCTAAC
34618 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
34648 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
34677 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
34701 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:37186 original size:17 final size:17
Alignment explanation
Indices: 37164--37197 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
37154 TTTTTCGGAT
37164 AAAAAACCAGTTTTTTA
1 AAAAAACCAGTTTTTTA
*
37181 AAAAAACCGGTTTTTTA
1 AAAAAACCAGTTTTTTA
37198 TCTGGTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (17 bp):
AAAAAACCAGTTTTTTA
Found at i:51643 original size:32 final size:33
Alignment explanation
Indices: 51607--51672 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
51597 GACATAATTG
**
51607 TTTAAATTTGGAACATCT-AAAAAAATAATACT
1 TTTAAATTTAAAACATCTAAAAAAAATAATACT
51639 TTTAAATTTAAAACATCTAAAAAAAATAATACT
1 TTTAAATTTAAAACATCTAAAAAAAATAATACT
51672 T
1 T
51673 CTTTTTGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (33 bp):
TTTAAATTTAAAACATCTAAAAAAAATAATACT
Found at i:52518 original size:24 final size:24
Alignment explanation
Indices: 52486--52537 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
52476 TTTTGTTCAT
52486 TTTGCTGATTGGTTGTAGCATAAC
1 TTTGCTGATTGGTTGTAGCATAAC
52510 TTTGCTGATTGGTTGTAGCATAAC
1 TTTGCTGATTGGTTGTAGCATAAC
52534 TTTG
1 TTTG
52538 TTATTTTGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.19, C:0.12, G:0.25, T:0.44
Consensus pattern (24 bp):
TTTGCTGATTGGTTGTAGCATAAC
Found at i:52636 original size:2 final size:2
Alignment explanation
Indices: 52625--52657 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
52615 TTAATATAGC
52625 TA TA -A TA TA TA TA TA TA TA TA T- TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
52658 TGTCTTCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:52645 original size:17 final size:17
Alignment explanation
Indices: 52625--52657 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
52615 TTAATATAGC
52625 TATAATATATATATATA
1 TATAATATATATATATA
*
52642 TATATTATATATATAT
1 TATAATATATATATAT
52658 TGTCTTCCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATAATATATATATATA
Found at i:53854 original size:60 final size:61
Alignment explanation
Indices: 53760--53885 Score: 159
Period size: 60 Copynumber: 2.1 Consensus size: 61
53750 TTAATATTTA
* * **
53760 ATAATTTAAGTGATCATTTTATAATTTTTAATAAT-TGAA-AGATTTAATAATGTAATACACT
1 ATAATTTAAGTAATCATTTCATAATTTTTAATAATAT-AAGA-ATTTAATAAAATAATACACT
* *
53821 ATAATTTAAG-AATTATTTCATAATTTTTAATAATATAAGAATTTAATAAAATAATACCCT
1 ATAATTTAAGTAATCATTTCATAATTTTTAATAATATAAGAATTTAATAAAATAATACACT
53881 ATAAT
1 ATAAT
53886 CATTGTATTA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
60 45 0.79
61 12 0.21
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (61 bp):
ATAATTTAAGTAATCATTTCATAATTTTTAATAATATAAGAATTTAATAAAATAATACACT
Found at i:54220 original size:3 final size:3
Alignment explanation
Indices: 54212--54236 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
54202 TCTCTGGGTT
54212 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
54237 CTATTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:57073 original size:20 final size:20
Alignment explanation
Indices: 57048--57096 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
57038 TACCCACCTG
*
57048 GTGAGCACTGATTACCTTTT
1 GTGAGCACCGATTACCTTTT
57068 GTGAGCACCGATTACCTTTT
1 GTGAGCACCGATTACCTTTT
57088 GTGAGCACC
1 GTGAGCACC
57097 ACTTTGCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.33
Consensus pattern (20 bp):
GTGAGCACCGATTACCTTTT
Found at i:57998 original size:58 final size:59
Alignment explanation
Indices: 57913--58025 Score: 165
Period size: 58 Copynumber: 1.9 Consensus size: 59
57903 TTAATATATG
* *
57913 ATTAAGATTAAATTAATAATAATGTATAATTAATGAAAAATAAATATATTATTATCTAA
1 ATTAACATTAAATTAATAATAATGTATAAATAATGAAAAATAAATATATTATTATCTAA
** * *
57972 ATTAACATTAAATTAAT-ATAATGTATAAATAATGAGGAGTAAATATATTTTTAT
1 ATTAACATTAAATTAATAATAATGTATAAATAATGAAAAATAAATATATTATTAT
58026 ACAAAATTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
58 32 0.67
59 16 0.33
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (59 bp):
ATTAACATTAAATTAATAATAATGTATAAATAATGAAAAATAAATATATTATTATCTAA
Found at i:58073 original size:18 final size:18
Alignment explanation
Indices: 58046--58083 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
58036 TAACTGCCAC
58046 GTCAACTATCATGTAATA
1 GTCAACTATCATGTAATA
*
58064 GTCAATTATCATGTAATA
1 GTCAACTATCATGTAATA
58082 GT
1 GT
58084 TAATAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (18 bp):
GTCAACTATCATGTAATA
Found at i:64571 original size:19 final size:18
Alignment explanation
Indices: 64547--64582 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
64537 AAACATTATG
*
64547 ATATAATATATATATATAT
1 ATATAATAAATAT-TATAT
64566 ATATAATAAATATTATA
1 ATATAATAAATATTATA
64583 ACGAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATAATAAATATTATAT
Found at i:64621 original size:16 final size:16
Alignment explanation
Indices: 64600--64637 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
64590 AAAAATAATT
64600 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
64616 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
64632 T-ATAAA
1 TAATAAA
64638 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:64863 original size:27 final size:25
Alignment explanation
Indices: 64809--64863 Score: 58
Period size: 27 Copynumber: 2.1 Consensus size: 25
64799 GTTAATAGTA
*
64809 AAATAATAATAAATATAATAGTTAT
1 AAATAATAATAAATATAATACTTAT
*
64834 AAATATATATATATATATAATAACTT-T
1 AAATA-ATA-ATAAATATAAT-ACTTAT
64861 AAA
1 AAA
64864 AAACATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 5 0.20
26 3 0.12
27 14 0.56
28 3 0.12
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
AAATAATAATAAATATAATACTTAT
Found at i:65371 original size:35 final size:36
Alignment explanation
Indices: 65301--65400 Score: 130
Period size: 35 Copynumber: 2.8 Consensus size: 36
65291 GTGCTTGTGG
* * *
65301 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGCAAAATTCT
*
65338 ATCCTATTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
65373 ATCCTATTTTTGAGAGTTTGAATCCTAG
1 ATCCTATTTTAG-GAGTTTGAATCCTAG
65401 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 27 0.48
36 11 0.20
37 18 0.32
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:66265 original size:109 final size:106
Alignment explanation
Indices: 65910--66801 Score: 544
Period size: 109 Copynumber: 8.6 Consensus size: 106
65900 TGGAACTGGG
** * * * *
65910 AAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGT-CT
1 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGC-
* * * * *
65974 A--ATATCCTTCG-CTGTGAAGATGAAATTGAC-TCTG-AA-CG-
65 ACGATATCCTCCGTC-GTGGAGTTGAAA-TG-CGGCTGAAATTGA
* *
66012 AAA-T-CTTGTTGACAATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-C-
1 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCA
* * *
66073 CAATATCCTTCG-C-TGCGAAGTTGAAATTG-GCTCTGAAATTTGA
66 CGATATCCTCCGTCGTG-G-AGTTGAAA-TGCG-GCTGAAA-TTGA
*
66116 AAAATGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGC
1 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GC
* * *
66181 ACGATATCCTCCGTCGTGGAGTTAAAATCGCGGATGAAACTGA
65 ACGATATCCTCCGTCGTGGAGTTGAAAT-GCGGCTGAAATTGA
* *
66224 AAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAG
1 AAA-TTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-G
* *
66289 CACGATATCCTCCGTCGTGGAGTTGAAAT-CGGCTCTAGAATTGGG
64 CACGATATCCTCCGTCGTGGAGTTGAAATGCGGCT-GA-AATT-GA
*
66334 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGT-C-
1 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCA
* * * * * **
66397 CAAAATCCTTCAC-T-GTGAAGTTGAGAT-TGGCT----CCG-
66 CGATATCC-TC-CGTCGTGGAGTTGAAATGCGGCTGAAATTGA
* * ** * * * * * *
66432 AAATT-TCTTATCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGT-C
1 AAATTGT-TTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGC
* * * * * *
66495 -CAATATCCTTCG-CTGTGAAGTTGAAATTG-GCCCTGAAACTAGG
65 ACGATATCCTCCGTC-GTGGAGTTGAAA-TGCG-GCTGAAA-TTGA
* *
66538 AAATT-ATTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTCA
1 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCA
* * * * **
66602 --ATATCCTTCG-CTGTGAAGTTGAGAT-TGGCT----CCG-
66 CGATATCCTCCGTC-GTGGAGTTGAAATGCGGCTGAAATTGA
* ** * * * * * *
66635 AAATTGTTTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGT-C-
1 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCA
* * * * * * *
66698 CAATATCCTTCG-CTGTGAAGTTAAAATTG-GCCCTGAAACTGGG
66 CGATATCCTCCGTC-GTGGAGTTGAAA-TGCG-GCTGAAA-TTGA
* *
66741 AAATT-ATTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGCTGAACTTGTGTTGTCTCGAGT
1 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT
66802 CCAATAGCCT
Statistics
Matches: 645, Mismatches: 92, Indels: 103
0.77 0.11 0.12
Matches are distributed among these distances:
96 1 0.00
97 8 0.01
98 141 0.22
99 5 0.01
100 80 0.12
101 3 0.00
102 3 0.00
103 3 0.00
104 5 0.01
105 116 0.18
106 86 0.13
107 8 0.01
108 10 0.02
109 167 0.26
110 7 0.01
111 2 0.00
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (106 bp):
AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCA
CGATATCCTCCGTCGTGGAGTTGAAATGCGGCTGAAATTGA
Found at i:66503 original size:98 final size:97
Alignment explanation
Indices: 66333--66831 Score: 498
Period size: 98 Copynumber: 4.9 Consensus size: 97
66323 CTAGAATTGG
* ** * *
66333 GAAATTGTTTGTTGACAACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCC
1 GAAATT-TTTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCC
* * *
66398 AAAATCCTTCACTGTGAAGTTGAGATTGGCTCC
65 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCC
* * * *
66431 GAAATTTCTTATCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCC
1 GAAATTT-TTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCC
66496 AATATCCTTCGCTGTGAAGTTGAAATTGGC-CC
65 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCC
* ** * * *
66528 TGAAACTAGGAAATTATTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
1 -GAAA-T------TT-TTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTC
* *
66593 TCGAGTTCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCC
57 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCC
* * *
66634 GAAATTGTTTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCC
1 GAAATT-TTTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCC
*
66699 AATATCCTTCGCTGTGAAGTTAAAATTGGC-CC
65 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCC
* ** * * * *
66731 TGAAACTGGGAAATTATTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGCTGAACTTGTGTTGTC
1 -GAAA-T------TT-TTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTC
* *
66796 TCGAGTCCAATAGCCTTCGCTGTGAAGTCGAAATTG
57 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTG
66832 ACTCTAGATA
Statistics
Matches: 331, Mismatches: 50, Indels: 33
0.80 0.12 0.08
Matches are distributed among these distances:
97 5 0.02
98 165 0.50
99 3 0.01
104 2 0.01
105 154 0.47
106 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.32
Consensus pattern (97 bp):
GAAATTTTTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCA
ATATCCTTCGCTGTGAAGTTGAAATTGGCTCC
Found at i:66593 original size:105 final size:104
Alignment explanation
Indices: 65861--66831 Score: 890
Period size: 105 Copynumber: 9.3 Consensus size: 104
65851 AATATTGTTC
* ** * *
65861 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACT-GGAAATT-ATTGTTGACA
** *
65926 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
64 ACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
* * * * * *
65967 CGAGTCTAATATCCTTCGCTGTGAAGATGAAATTGACTCTG-AAC--GAAA-TCTTGTTGACAAT
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGAAATTATTGTTGACAAC
* * *
66028 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 CAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
* * * *
66067 CGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGT-TTGTTGAC
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAA-CTG-GAAAT-TATTGTTGAC
* * *
66131 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
63 AACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
* * * * * ** * *
66173 CGAGTGGCACGATATCCTCCG-TCGTGGAGTT-AAAATCGCGGATGAAACTGAAAAGTTGTTCGT
1 CGAGT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGC-CCTGAAACTGGAAA-TTATT-GT
* * *
66236 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
59 TGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
* * * * * * * *
66282 CGGGTAGCACGATATCCTCCG-TCGTGGAGTTGAAATCGGCTCT-AGAATTGGGAAATTGTTTGT
1 CGAGT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGCCCTGA-AACT-GGAAATT-ATTGT
* *
66345 TGACAACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCT
59 TGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
* * * * * * *
66391 CGAGTCCAAAATCCTTCACTGTGAAGTTGAGATTGGCTCC-GAAA-T-----TTCTTATCGACAG
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGC-CCTGAAACTGGAAATTATTGTTGACAA
* *
66449 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
65 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
* *
66489 TGGGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTAGGAAATTATTGTTGACAA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACT-GGAAATTATTGTTGACAA
* * *
66554 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
65 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
* * * * *
66594 CGAGTTCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCC-GAAA-TTG----T-TTGTCGACAG
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGC-CCTGAAACTGGAAATTATTGTTGACAA
* *
66652 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
65 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
* * *
66692 TGGGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAACTGGGAAATTATTGTTGACAA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACT-GGAAATTATTGTTGACAA
* * * *
66757 CCAGCCGTCCCTTCGTTGTGAAGCTGAACTTGTGTTGTCT
65 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
* *
66797 CGAGTCCAATAGCCTTCGCTGTGAAGTCGAAATTG
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTG
66832 ACTCTAGATA
Statistics
Matches: 726, Mismatches: 100, Indels: 79
0.80 0.11 0.09
Matches are distributed among these distances:
97 4 0.01
98 158 0.22
99 5 0.01
100 83 0.11
101 3 0.00
102 4 0.01
103 1 0.00
104 2 0.00
105 160 0.22
106 116 0.16
107 10 0.01
108 14 0.02
109 155 0.21
110 11 0.02
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (104 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGAAATTATTGTTGACAAC
CAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
Found at i:66651 original size:203 final size:202
Alignment explanation
Indices: 65864--66831 Score: 1091
Period size: 203 Copynumber: 4.7 Consensus size: 202
65854 ATTGTTCCGA
* * * * **
65864 GTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACAGTC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATT-ATTGTTGACAACC
* * * * * *
65929 AGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCTAATATCCTTCGCTGTGAAGA
65 AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
* * * * *
65994 TGAAATTGACTCTGAACGAAA-TCTTGTTGACAATCAGCCGTCCCTTCGTTGTGAAGTTGAACTT
130 TGAAATTGGCTC----CGAAATTTTTGTCGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAACTT
* *
66058 GTGTTGTCTCGA
191 GTGCTGTCTCGG
* * **
66070 GTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGT-TTGTTGACAAC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-CTGGGAAAT-TATTGTTGACAAC
* *
66134 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGCACGATATCCTCCG-TCGT
64 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT--C-CAATATCCTTCGCT-GT
* * * * * * * * * *
66198 GGAGTTAAAATCGCGGATGAAACTGAAAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTTGTGA
125 GAAGTTGAAAT--TGGCT----CCG-AAA-TT-TTTGTCGACAATCAGCCGCCCCTTCGCTGTGA
*
66263 AGTTGAACTTGTGTTGTCTCGG
181 AGTTGAACTTGTGCTGTCTCGG
* * * * * *
66285 GTAGCACGATATCCTCCG-TCGTGGAGTTGAAATCGGCTCT-AGAATTGGGAAATTGTTTGTTGA
1 GT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGA-AACTGGGAAATT-ATTGTTGA
* * *
66348 CAACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAAAATCCTTCACTGT
60 CAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGT
* * * *
66413 GAAGTTGAGATTGGCTCCGAAATTTCTTATCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGC
125 GAAGTTGAAATTGGCTCCGAAATTT-TTGTCGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAAC
*
66478 TTGTGCTGTCTTGG
189 TTGTGCTGTCTCGG
* *
66492 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTAGGAAATTATTGTTGACAACCA
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTATTGTTGACAACCA
*
66557 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTCAATATCCTTCGCTGTGAAGTT
66 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTT
* * *
66622 GAGATTGGCTCCGAAATTGTTTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGC
131 GAAATTGGCTCCGAAATT-TTTGTCGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGC
*
66687 TGTCTTGG
195 TGTCTCGG
* *
66695 GTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAACTGGGAAATTATTGTTGACAACCA
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTATTGTTGACAACCA
* * *
66760 GCCGTCCCTTCGTTGTGAAGCTGAACTTGTGTTGTCTCGAGTCCAATAGCCTTCGCTGTGAAGTC
66 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTT
66825 GAAATTG
131 GAAATTG
66832 ACTCTAGATA
Statistics
Matches: 659, Mismatches: 75, Indels: 59
0.83 0.09 0.07
Matches are distributed among these distances:
203 274 0.42
204 38 0.06
205 3 0.00
206 87 0.13
207 53 0.08
208 6 0.01
209 21 0.03
211 3 0.00
212 3 0.00
213 3 0.00
214 1 0.00
215 71 0.11
216 3 0.00
217 10 0.02
218 83 0.13
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (202 bp):
GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTATTGTTGACAACCA
GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTT
GAAATTGGCTCCGAAATTTTTGTCGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCT
GTCTCGG
Found at i:67342 original size:103 final size:103
Alignment explanation
Indices: 67150--67378 Score: 250
Period size: 103 Copynumber: 2.2 Consensus size: 103
67140 ATTTTGTTTT
* * * *
67150 AAGA-AAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAGAAATTGTCTCACGGGGAGATGAA
1 AAGAGAAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAGAAACTGTCTCACAGAGAGACGAA
67214 ATTAGTTCCAAGGAAAACATATTCAAAGATGATGCTTC
66 ATTAGTTCCAAGGAAAACATATTCAAAGATGATGCTTC
* * * *
67252 AAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCA-AGAGAGACGA
1 AAGAGAAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAA-AGAAACTGTCTCACAGAGAGACGA
* * ** * * * * *
67316 AATTCA-TTTCAAGGGAAATGTTTTCAATGTTTATGTTTC
65 AATT-AGTTCCAAGGAAAACATATTCAAAGATGATGCTTC
*
67355 AAGAG-AAACTATCTCAAGAGAGAC
1 AAGAGAAAACTGTCTCAAGAGAGAC
67379 GGAATTCATT
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
102 21 0.20
103 71 0.68
104 13 0.12
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (103 bp):
AAGAGAAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAGAAACTGTCTCACAGAGAGACGAA
ATTAGTTCCAAGGAAAACATATTCAAAGATGATGCTTC
Found at i:67388 original size:65 final size:65
Alignment explanation
Indices: 67284--67464 Score: 290
Period size: 65 Copynumber: 2.8 Consensus size: 65
67274 GACAAAATTT
67284 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* *
67349 TGTTTCAAGAGAAACTATCTCAAGAGAGACGGAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * * **
67414 TGTTTCATGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA-TTCATTTCAAGGGAAA
67465 CTATCTCAAG
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
65 92 0.87
66 14 0.13
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.31
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:67455 original size:102 final size:102
Alignment explanation
Indices: 67349--67704 Score: 550
Period size: 102 Copynumber: 3.5 Consensus size: 102
67339 TCAATGTTTA
* **
67349 TGTTTCAAGAGAAACTATCTCAAGAGAGACGGAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
67414 TGTTTCATGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
67451 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * * **
67516 TGTTTCAAGAGAAATTGCCTCAATGGAGACGGAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
67553 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * *
67618 TGTTTTAAGAGAAACTGTCTCAAGGGAGAAAAAAATT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * * **
67655 TGTTTCAAGGGAAACTGTCTCAACAGAGACAAAGTTTGTTTCAAGGGAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
67705 CTGTCTCAAG
Statistics
Matches: 230, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 230 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:67465 original size:37 final size:37
Alignment explanation
Indices: 67414--67719 Score: 165
Period size: 37 Copynumber: 8.8 Consensus size: 37
67404 TCAATGTTTA
* * *
67414 TGTTTCATGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
67451 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
67487 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* * * **
67515 ATGTTTCAAGAGAAATTGCCTCAATG-GAGACGGAATTT
1 -TGTTTCAAGGGAAACTGTCTCAA-GAGAGACAAAATTT
* *
67553 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-CT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
67589 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* * * * *
67617 ATGTTTTAAGAGAAACTGTCTCAAGGGAGAAAAAAATT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* *
67655 TGTTTCAAGGGAAACTGTCTCAACAGAGAC-AAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
67691 TGTTTCAAGGGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGA
67720 TAATGGTGAG
Statistics
Matches: 198, Mismatches: 43, Indels: 57
0.66 0.14 0.19
Matches are distributed among these distances:
28 3 0.02
29 26 0.13
30 6 0.03
32 2 0.01
33 2 0.01
34 2 0.01
35 4 0.02
36 67 0.34
37 81 0.41
38 5 0.03
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:67547 original size:167 final size:169
Alignment explanation
Indices: 67249--67566 Score: 525
Period size: 167 Copynumber: 1.9 Consensus size: 169
67239 AAGATGATGC
*
67249 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
* *
67314 GAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTACCTCAAGAGAGAC
67379 GGAA-TTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
131 GGAATTTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
* *
67417 TTCATGAG-AAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
* *
67481 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAATTGCCTCAATG-GAGA
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTACCTCAA-GAGAGA
**
67545 CGGAATTTTGTTTCAAGGGAAA
130 CGGAATTTCATTTCAAGGGAAA
67567 CTATCTCAAG
Statistics
Matches: 139, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
167 117 0.84
168 22 0.16
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (169 bp):
TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTACCTCAAGAGAGAC
GGAATTTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
Found at i:67700 original size:36 final size:36
Alignment explanation
Indices: 67618--67719 Score: 141
Period size: 36 Copynumber: 2.8 Consensus size: 36
67608 TCAATGTTTA
* * *
67618 TGTTTTAAGAGAAACTGTCTCAAGGGAGAAAAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAG-AAAAAATT
* * *
67655 TGTTTCAAGGGAAACTGTCTCAACAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAATT
67691 TGTTTCAAGGGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGA
67720 TAATGGTGAG
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
36 34 0.59
37 24 0.41
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAATT
Found at i:68547 original size:22 final size:22
Alignment explanation
Indices: 68521--68571 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
68511 TTGTGTTTGG
68521 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
68543 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
68565 TCAAAGG
1 TCAAAGG
68572 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:69223 original size:21 final size:21
Alignment explanation
Indices: 69178--69227 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
69168 CTTTTTGTCC
* *
69178 CCTTTTTTATTTTTGTTCTTT
1 CCTTTTTTGTTCTTGTTCTTT
*
69199 -CTTTTTTGTTCTTGTTTTTT
1 CCTTTTTTGTTCTTGTTCTTT
69219 CCTTTTTTG
1 CCTTTTTTG
69228 CTCCTTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.02, C:0.14, G:0.08, T:0.76
Consensus pattern (21 bp):
CCTTTTTTGTTCTTGTTCTTT
Found at i:69240 original size:22 final size:20
Alignment explanation
Indices: 69196--69262 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
69186 ATTTTTGTTC
*
69196 TTTCTTTTTTG-TTCTTGTTT
1 TTTCTTTTTTGCTCCTT-TTT
69216 TTTCCTTTTTTGCTCCTTTTCT
1 TTT-CTTTTTTGCTCCTTTT-T
*
69238 TTTTTCTTTTTGC-CCTTTTT
1 TTTCT-TTTTTGCTCCTTTTT
*
69258 GTTCT
1 TTTCT
69263 GATTGAATCA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 17 0.44
22 15 0.38
ACGTcount: A:0.00, C:0.19, G:0.07, T:0.73
Consensus pattern (20 bp):
TTTCTTTTTTGCTCCTTTTT
Found at i:70425 original size:21 final size:22
Alignment explanation
Indices: 70388--70429 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
70378 TTTCATGTTT
*
70388 ATGAATATGCTAAAAAATGTAG
1 ATGAAGATGCTAAAAAATGTAG
70410 ATGAAGATGC-AAAAAATGTA
1 ATGAAGATGCTAAAAAATGTA
70430 AGAATGCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.52, C:0.05, G:0.19, T:0.24
Consensus pattern (22 bp):
ATGAAGATGCTAAAAAATGTAG
Found at i:72616 original size:15 final size:16
Alignment explanation
Indices: 72596--72632 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
72586 AAAAATAATT
72596 TAATAAAGTAA-ATAA
1 TAATAAAGTAATATAA
*
72611 TAATAATGTAATATAA
1 TAATAAAGTAATATAA
72627 T-ATAAA
1 TAATAAA
72633 TACATGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAATATAA
Found at i:73348 original size:35 final size:37
Alignment explanation
Indices: 73278--73373 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 37
73268 GTGCTTGTGG
* *
73278 ATCCTATCTTTAG-GAGTTTAAAAT-ATAGCAAAATTCT
1 ATCCTAT-TTTAGAGAGTTT-GAATCCTAGCAAAATTCT
*
73315 ATCCTATTTTAG-GAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAGAGAGTTTGAATCCTAGCAAAATTCT
*
73350 ATCCTATTTTTGAGAGTTTGAATC
1 ATCCTATTTTAGAGAGTTTGAATC
73374 ATAGTAGGAC
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
34 3 0.06
35 24 0.46
36 11 0.21
37 14 0.27
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTAGAGAGTTTGAATCCTAGCAAAATTCT
Done.