Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000460.1 Hibiscus syriacus cultivar Beakdansim tig00000851_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: 79452
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:87 original size:54 final size:54
Alignment explanation
Indices: 5--147 Score: 220
Period size: 54 Copynumber: 2.7 Consensus size: 54
1 TTCC
* *
5 TCAGAGAGTATAAGACTCGAACAATCTTCAACTATCGCGTCTC-CCCCTATTTCT
1 TCAGAGAGTATAAGACTTGAACAATCTTCAACGATCGCGTC-CGCCCCTATTTCT
*
59 TCAGAGAGTATAAGACTTGAACAATCTTCAACGATCGTGTCCGCCCCTATTTCT
1 TCAGAGAGTATAAGACTTGAACAATCTTCAACGATCGCGTCCGCCCCTATTTCT
*
113 TCAGAGAG--TGAGACTTGAACAATCTTCAACGATCG
1 TCAGAGAGTATAAGACTTGAACAATCTTCAACGATCG
148 TAGGGAACTG
Statistics
Matches: 84, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
52 26 0.31
53 1 0.01
54 57 0.68
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (54 bp):
TCAGAGAGTATAAGACTTGAACAATCTTCAACGATCGCGTCCGCCCCTATTTCT
Found at i:11148 original size:16 final size:16
Alignment explanation
Indices: 11127--11164 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
11117 AACCTTATTC
11127 ACATGATATCTACCCA
1 ACATGATATCTACCCA
11143 ACATGATATCTACCCA
1 ACATGATATCTACCCA
11159 ATCATG
1 A-CATG
11165 CTTTAGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.26
Consensus pattern (16 bp):
ACATGATATCTACCCA
Found at i:16654 original size:22 final size:22
Alignment explanation
Indices: 16626--16669 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
16616 CTAAGAGAGT
16626 TAATGAACAACTGTTATAGTCA
1 TAATGAACAACTGTTATAGTCA
16648 TAATGAACAACTGTTATAGTCA
1 TAATGAACAACTGTTATAGTCA
16670 ATTTCACACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (22 bp):
TAATGAACAACTGTTATAGTCA
Found at i:18419 original size:134 final size:134
Alignment explanation
Indices: 18250--19050 Score: 953
Period size: 134 Copynumber: 6.0 Consensus size: 134
18240 GCGAATCGAA
* * * * *
18250 CTCGATTTAATCTTTCCT-AAGT-GACAGTGGAATGAATCAACATCCCCATATATGATTTTCCCT
1 CTCGATTCAATCTTCCCTGAA-TAGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCT
* * *
18313 CAAGAAAAAGCAGAACATATCCAT-TTTTCTCAATATTTGATATTCCCTGAGTAACAGTGGAACA
65 CAAGAAGAAGCAGAA-ATATCCATCTCTT-TCAAGATTTGATATTCCCTGAGTAACAGTGGAACA
18377 AGTCTGC
128 AGTCTGC
* * * * *
18384 CTCGATTCAATATTCCCT-AATAGGCAGTGGAATGAATCAACGTCCTCATATCTGATTTTCCTTC
1 CTCGATTCAATCTTCCCTGAATAGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTC
* * * * *
18448 AAGAAGAAGCGGAATAGATCCCTCTCTTTCAAGATTTGATATTCTCTGAGTAACAATGGAACAAG
66 AAGAAGAAGCAGAA-ATATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
* **
18513 TTTAT
130 TCTGC
* * * * *
18518 CTCGATTCAATCTTTCCTGAGT-GATAATGGAATGAATCAACGTCCCCAGATATGATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAATAGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTC
18582 AAGAAGAAGC-GAAATAAATCTC-TCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACA
66 AAGAAGAAGCAGAAAT--ATC-CATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACA
* *
18645 AGTTTGT
128 AGTCTGC
* * *
18652 CTCAATTCAATCTTCCCTAAATA-ACAGTAGAATGAATCAACGTCCCCAGATCTGATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAATAGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTC
* * * * * *
18716 AAGAATAAGCAAAACAAATCCATCTCTTTCAAGATTTGATATTCTCTAAGTAGCAGTGGAACAAG
66 AAGAAGAAGCAGAA-ATATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
18781 TCTGC
130 TCTGC
* *
18786 CTCAATTCAATCTTTCCTGAAT-GACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAATAGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTC
* *
18850 AAGAAGAAG-TGAAATTGATCCATCTCTTTCAAGATTTGGTATTCCCTGAGT-A-AGTGGAACAA
66 AAGAAGAAGCAGAAA-T-ATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAA
*
18912 GTCTAC
129 GTCTGC
** * * *
18918 CTCGATTCAATCTTCCCTGAGCA-ACAGTGAAAAGAATCAACGTCCCCAGATCTGATTTTCTCTC
1 CTCGATTCAATCTTCCCTGAATAGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTC
** * *
18982 AAGAAGAAGTGGAATAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTAGAACAAG
66 AAGAAGAAGCAGAA-ATATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
19047 TCTG
130 TCTG
19051 TAATACCCCA
Statistics
Matches: 575, Mismatches: 74, Indels: 36
0.84 0.11 0.05
Matches are distributed among these distances:
132 115 0.20
133 11 0.02
134 440 0.77
135 8 0.01
136 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (134 bp):
CTCGATTCAATCTTCCCTGAATAGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTC
AAGAAGAAGCAGAAATATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
CTGC
Found at i:18744 original size:268 final size:264
Alignment explanation
Indices: 18250--19049 Score: 1068
Period size: 268 Copynumber: 3.0 Consensus size: 264
18240 GCGAATCGAA
* * * *
18250 CTCGATTTAATCTTTCCTAAGTGACAGTGGAATGAATCAACATCCCCATATATGATTTTCCCTCA
1 CTCGATTCAATCTTTCCTGAGTGACAGTGGAATGAATCAACGTCCCCAGATATGATTTTCCCTCA
* * *
18315 AGAAAAAGCAGAACATATCCAT-TTTTCTCAATATTTGATATTCCCTGAGTAACAGTGGAACAAG
66 AGAAGAAGC-GAA-ATATCCATCTCTT-TCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
* * * *
18379 TCTGCCTCGATTCAATATTCCCTAATAGGCAGTGGAATGAATCAACGTCCTCATATCTGATTTTC
128 TCTGCCTCGATTCAATCTTCCCTAATA-ACAGT-GAATGAATCAACGTCCCCAGATCTGATTTTC
* * *
18444 CTTCAAGAAGAAGCGGAATAGATCCCTCTCTTTCAAGATTTGATATTCTCTGAGTAACAATGGAA
191 CCTCAAGAAGAAGCGGAATAGATCCATCTCTTTCAAGATTTGATATTCTCTGAGTAACAGTGGAA
* *
18509 CAAGTTTAT
256 CAAGTCTAC
* *
18518 CTCGATTCAATCTTTCCTGAGTGATAATGGAATGAATCAACGTCCCCAGATATGATTTTCCCTCA
1 CTCGATTCAATCTTTCCTGAGTGACAGTGGAATGAATCAACGTCCCCAGATATGATTTTCCCTCA
18583 AGAAGAAGCGAAATAAATCTC-TCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
66 AGAAGAAGCGAAAT--ATC-CATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
* * *
18647 TTTGTCTCAATTCAATCTTCCCTAAATAACAGTAGAATGAATCAACGTCCCCAGATCTGATTTTC
128 TCTGCCTCGATTCAATCTTCCCT-AATAACAGT-GAATGAATCAACGTCCCCAGATCTGATTTTC
* ** * * * *
18712 CCTCAAGAATAAGCAAAACAAATCCATCTCTTTCAAGATTTGATATTCTCTAAGTAGCAGTGGAA
191 CCTCAAGAAGAAGCGGAATAGATCCATCTCTTTCAAGATTTGATATTCTCTGAGTAACAGTGGAA
*
18777 CAAGTCTGC
256 CAAGTCTAC
* * *
18786 CTCAATTCAATCTTTCCTGAATGACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
1 CTCGATTCAATCTTTCCTGAGTGACAGTGGAATGAATCAACGTCCCCAGATATGATTTTCCCTCA
* *
18851 AGAAGAAGTGAAATTGATCCATCTCTTTCAAGATTTGGTATTCCCTGAGT-A-AGTGGAACAAGT
66 AGAAGAAGCGAAA-T-ATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
* ** * *
18914 CTACCTCGATTCAATCTTCCCTGAGCAACAGTGAAAAGAATCAACGTCCCCAGATCTGATTTTCT
129 CTGCCTCGATTCAATCTTCCCT-AATAACAGTG-AATGAATCAACGTCCCCAGATCTGATTTTCC
* * *
18979 CTCAAGAAGAAGTGGAATAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTAGAAC
192 CTCAAGAAGAAGCGGAATAGATCCATCTCTTTCAAGATTTGATATTCTCTGAGTAACAGTGGAAC
19044 AAGTCT
257 AAGTCT
19050 GTAATACCCC
Statistics
Matches: 467, Mismatches: 57, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
265 1 0.00
266 129 0.28
267 5 0.01
268 323 0.69
269 9 0.02
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (264 bp):
CTCGATTCAATCTTTCCTGAGTGACAGTGGAATGAATCAACGTCCCCAGATATGATTTTCCCTCA
AGAAGAAGCGAAATATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCT
GCCTCGATTCAATCTTCCCTAATAACAGTGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
AGAAGAAGCGGAATAGATCCATCTCTTTCAAGATTTGATATTCTCTGAGTAACAGTGGAACAAGT
CTAC
Found at i:21016 original size:2 final size:2
Alignment explanation
Indices: 21009--21033 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20999 GACGTGTTTA
21009 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 A
21034 ATTGAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21418 original size:3 final size:3
Alignment explanation
Indices: 21406--21488 Score: 107
Period size: 3 Copynumber: 28.3 Consensus size: 3
21396 TCTTGTTTAA
*
21406 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
21453 TAT TAT TAT TAT TGT TGT TGT TGT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
21489 TTTTGGCATG
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
2 4 0.05
3 70 0.95
ACGTcount: A:0.27, C:0.01, G:0.05, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:26655 original size:131 final size:131
Alignment explanation
Indices: 26299--26648 Score: 468
Period size: 131 Copynumber: 2.7 Consensus size: 131
26289 GAAAATTGTA
* * * *
26299 ATATATCTTCATTTCAGTTGGAGTAATAAACGACTACTTTAAGACATGAGAGATTATTTATTCTC
1 ATATATCTTCATTTCGGTTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGATTATTTATTCTC
* * * *
26364 GATTGGAAATAATTAGATATTACCGTTTTCTCTCGAATCAATATTGATTTTTAAGACAGAATAGT
66 GATTGGAAATAATTAGATATTATCGTTTTCACTCAAATCAATATTGAATTTTAAGACAGAATAGT
26429 G
131 G
* * * * * *
26430 ATATATCTTCATTTCGATTTGAGTAATAAATGAATGCTTTAAGGCATGAGAGGTCATATATTCTC
1 ATATATCTTCATTTCGGTTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGATTATTTATTCTC
* * *
26495 AATTGGAAATCATTAGATATTATCGTTTTCACTCAAATCAATATTGAATTTTAAGA-TGAAATAG
66 GATTGGAAATAATTAGATATTATCGTTTTCACTCAAATCAATATTGAATTTTAAGACAG-AATAG
*
26559 TT
130 TG
* * * * *
26561 ATATCTTTTCATTTCGGTTGGAGTAATAAATGACTGCTCTAAGGCTTGAGAGATTATTTATGCTC
1 ATATATCTTCATTTCGGTTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGATTATTTATTCTC
*
26626 GATTGGAAATAATTAAATATTAT
66 GATTGGAAATAATTAGATATTAT
26649 TATTTTCTCT
Statistics
Matches: 186, Mismatches: 32, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
130 1 0.01
131 185 0.99
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (131 bp):
ATATATCTTCATTTCGGTTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGATTATTTATTCTC
GATTGGAAATAATTAGATATTATCGTTTTCACTCAAATCAATATTGAATTTTAAGACAGAATAGT
G
Found at i:27662 original size:131 final size:131
Alignment explanation
Indices: 27491--27777 Score: 373
Period size: 131 Copynumber: 2.2 Consensus size: 131
27481 ATTCGGTTGG
*
27491 AGTAATAAATGATTGCTTTAAGGCATGAGAGATCATTTATTC-TCGATTGGAAATAATTAGATAT
1 AGTAATAAATGATTGCTTTAAGGCATGAGAGATCATTTATTCTTC-ATTGGAAATAATTAAATAT
* * * * * * *
27555 TATTGTTTTCTCTCGAATC-ATTATTGATTTTTAAGACGTAATAGTGATATATATTCATTTCGAT
65 TATCGTTTGCACTCAAATCAATT-TTGAATTTTAAGACGAAAGAGTGATATATATTCATTTCGAT
27619 TAC
129 TAC
* * *
27622 AGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCTTCATTGGAAATCATTAAATATT
1 AGTAATAAATGATTGCTTTAAGGCATGAGAGATCATTTATTCTTCATTGGAAATAATTAAATATT
* * * * *
27687 ATCGTTTGCACTCAAATCAATTTTGAATTTTAATATGAAAGAGTGATATCTTTTCATTTCGGTTA
66 ATCGTTTGCACTCAAATCAATTTTGAATTTTAAGACGAAAGAGTGATATATATTCATTTCGATTA
*
27752 G
131 C
*
27753 AGTAATAAATTATTGC-TTAAGGCAT
1 AGTAATAAATGATTGCTTTAAGGCAT
27778 TCTCGATTGG
Statistics
Matches: 135, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
130 9 0.07
131 121 0.90
132 5 0.04
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.40
Consensus pattern (131 bp):
AGTAATAAATGATTGCTTTAAGGCATGAGAGATCATTTATTCTTCATTGGAAATAATTAAATATT
ATCGTTTGCACTCAAATCAATTTTGAATTTTAAGACGAAAGAGTGATATATATTCATTTCGATTA
C
Found at i:29031 original size:185 final size:185
Alignment explanation
Indices: 28719--29090 Score: 613
Period size: 185 Copynumber: 2.0 Consensus size: 185
28709 AAATTAAATG
* *
28719 TTTTTAATTCAAAAAAAAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCA
1 TTTTTAATTCAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAAATTCA
* *
28784 GATAAAATTTTTAATTAATTAATATTGATTTATGTTTAAAAGTTTTTGGATCTTAAATTATTAAT
66 GATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAAT
* * * *
28849 TGGGTTTTAAATGGTTTGGGCTGAACCCATATGTTATATATAATATATTTAATAT
131 TGAGTTTTAAATGGGTTGGGCTGAACCCACATGCTATATATAATATATTTAATAT
28904 TTTTTAATT-AAAAAAATAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAAAATT
1 TTTTTAATTCAAAAAAA-AGTTTACAATTAATTTAAATAATATATAATTATAAAAT-AAAAAATT
* *
28968 -ATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTA
64 CAGATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTA
*
29032 ATTGAGTTTTAAATGGGTTGGGCTGAGCCCACATGCTATATATAATATATTTAATAT
129 ATTGAGTTTTAAATGGGTTGGGCTGAACCCACATGCTATATATAATATATTTAATAT
29089 TT
1 TT
29091 AAAATTTAAT
Statistics
Matches: 174, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
184 7 0.04
185 160 0.92
186 7 0.04
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (185 bp):
TTTTTAATTCAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAAATTCA
GATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAAT
TGAGTTTTAAATGGGTTGGGCTGAACCCACATGCTATATATAATATATTTAATAT
Found at i:30917 original size:60 final size:60
Alignment explanation
Indices: 30809--30927 Score: 134
Period size: 60 Copynumber: 2.0 Consensus size: 60
30799 TTAGGTGACC
* * * *
30809 ATTTTGTAACTTTTAATAGTTGAAGGACTCAACAAAACAATATCTTATACTTAAGGGACT
1 ATTTTATAACTTTTAATAGTTCAAGGACTCAACAAAACAATAGCTTATACTCAAGGGACT
* ** *
30869 ATTTTATAACTTTTAATAG-TCATAGGACTCAATAAAGTAAT-GCATTATAGTCAAGGGAC
1 ATTTTATAACTTTTAATAGTTCA-AGGACTCAACAAAACAATAGC-TTATACTCAAGGGAC
30928 CGTTTGTGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
59 3 0.06
60 46 0.94
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (60 bp):
ATTTTATAACTTTTAATAGTTCAAGGACTCAACAAAACAATAGCTTATACTCAAGGGACT
Found at i:31336 original size:2 final size:2
Alignment explanation
Indices: 31329--31386 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
31319 GATTTCAATA
31329 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
31371 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
31387 TAATTGTTAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32092 original size:93 final size:92
Alignment explanation
Indices: 31989--32375 Score: 499
Period size: 93 Copynumber: 4.2 Consensus size: 92
31979 GCCGGAGGAC
* * *
31989 TAGGAACATACTTCAACAAATTACTTGTAAGCGACGAAGATTTAACAGCCGTCGGG-GGTGAACC
1 TAGGAGCATACTTCGACAAATT-CTTGTAAGCGACGAAGATGTAACAGCCGT-GGGAGGTGAACC
* *
32053 GATATGATATCGGGTTGCCGGTGGAGGGT
64 AATATGATAGCGGGTTGCCGGTGGAGGGT
* * * *
32082 TAGGAGCATACTTCGACAAATCACTTGTAAGCGACGAAGATGTAACAACTGTGGGGGGTGAACCA
1 TAGGAGCATACTTCGACAAAT-TCTTGTAAGCGACGAAGATGTAACAGCCGTGGGAGGTGAACCA
*
32147 ATATGATAGCGGGTTGCAGGTGGAGGGT
65 ATATGATAGCGGGTTGCCGGTGGAGGGT
* *
32175 TAGGAGCATACTTCGACAAAACTCTTGTAAGCGACGAAGATGTAACAGCTGTGGGAGGTGAACCA
1 TAGGAGCATACTTCGAC-AAATTCTTGTAAGCGACGAAGATGTAACAGCCGTGGGAGGTGAACCA
*
32240 ATATGATAGCGGGTTTCCGGTGGAGGGT
65 ATATGATAGCGGGTTGCCGGTGGAGGGT
* * * * * *
32268 TAGGAACATAAC-CCGACGAATCTCTTGTAAGTGACGAAGATGCAACAGCCGTGGGTGGTGAACC
1 TAGGAGCAT-ACTTCGACAAAT-TCTTGTAAGCGACGAAGATGTAACAGCCGTGGGAGGTGAACC
* * *
32332 GATATGATATCGGGTTGCCGGTGGAGGAT
64 AATATGATAGCGGGTTGCCGGTGGAGGGT
*
32361 TAGGAGCATATTTCG
1 TAGGAGCATACTTCG
32376 CCAACATCAG
Statistics
Matches: 258, Mismatches: 30, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
92 6 0.02
93 247 0.96
94 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.23
Consensus pattern (92 bp):
TAGGAGCATACTTCGACAAATTCTTGTAAGCGACGAAGATGTAACAGCCGTGGGAGGTGAACCAA
TATGATAGCGGGTTGCCGGTGGAGGGT
Found at i:36161 original size:62 final size:63
Alignment explanation
Indices: 36064--36191 Score: 249
Period size: 62 Copynumber: 2.0 Consensus size: 63
36054 TTTCATATAA
36064 TTAAATAGTTCTATATAATGTATGGTTTAAGATTTACTTACATAATGT-AAAAAAAAATAGTT
1 TTAAATAGTTCTATATAATGTATGGTTTAAGATTTACTTACATAATGTAAAAAAAAAATAGTT
36126 TTAAATAGTTCTATATAATGTATGGTTTAAGATTTACTTACATAATGTAAAAAAAAAATAGTT
1 TTAAATAGTTCTATATAATGTATGGTTTAAGATTTACTTACATAATGTAAAAAAAAAATAGTT
36189 TTA
1 TTA
36192 CATTGATTTA
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
62 48 0.74
63 17 0.26
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.41
Consensus pattern (63 bp):
TTAAATAGTTCTATATAATGTATGGTTTAAGATTTACTTACATAATGTAAAAAAAAAATAGTT
Found at i:37192 original size:35 final size:35
Alignment explanation
Indices: 37146--37221 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
37136 AAAACAGTCC
* *
37146 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
37181 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
37216 TCAATT
1 TCAATT
37222 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:37754 original size:130 final size:130
Alignment explanation
Indices: 37616--37863 Score: 417
Period size: 130 Copynumber: 1.9 Consensus size: 130
37606 ATTTTATATA
**
37616 ATCAATTTGGTCCTAAATTAAA-TAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGT
1 ATCAATTTGGTCCTAAATTAAATTA-AATTTAATAAATTAATCATTTAACCAGGATCTGACATGT
* *
37680 GTTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGC
65 GTTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGC
37745 T
130 T
37746 ATCAATTTGGTCCTAAATTAAATTAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATTAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
37811 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
37864 GAAGAAAATT
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
130 108 0.98
131 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATTAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:37894 original size:130 final size:129
Alignment explanation
Indices: 37630--37894 Score: 302
Period size: 130 Copynumber: 2.0 Consensus size: 129
37620 ATTTGGTCCT
** *
37630 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAGAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
37695 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAAAAGT-CA
37760 AAATTAAATTA-AATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATC
1 AAATTAAA-TAGAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATC
* * * *
37824 ATGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAAAAG
65 ATGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAAAAG
37888 T-A
127 TCA
37890 AAATT
1 AAATT
37895 TGGGTCTTGG
Statistics
Matches: 113, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
130 98 0.87
131 2 0.02
132 8 0.07
133 5 0.04
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAGAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAAAAGTCA
Found at i:38225 original size:28 final size:27
Alignment explanation
Indices: 38194--38256 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
38184 AGTTGATACA
*
38194 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
38222 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
38250 ATATTTT
1 ATATTTT
38257 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:38357 original size:16 final size:18
Alignment explanation
Indices: 38336--38369 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
38326 ATTTCTTATT
38336 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
38352 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
38370 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:43555 original size:31 final size:31
Alignment explanation
Indices: 43517--43575 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
43507 TCTTGATGAG
*
43517 CTATGCATATATTGTAACCATTTTTTTCGAT
1 CTATGCATATATCGTAACCATTTTTTTCGAT
43548 CTATGCATATATCGTAACCATTTTTTTC
1 CTATGCATATATCGTAACCATTTTTTTC
43576 TATGGTGCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.47
Consensus pattern (31 bp):
CTATGCATATATCGTAACCATTTTTTTCGAT
Found at i:47232 original size:2 final size:2
Alignment explanation
Indices: 47225--47251 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
47215 GTCGAACATC
47225 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
47252 AGAGTCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49638 original size:5 final size:5
Alignment explanation
Indices: 49628--49660 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
49618 TTTCAAAAGC
49628 CTTAG CTTAG CTTAG CTTAG CTTAG CTTAG CTT
1 CTTAG CTTAG CTTAG CTTAG CTTAG CTTAG CTT
49661 TGTGTGTGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.42
Consensus pattern (5 bp):
CTTAG
Found at i:49772 original size:17 final size:17
Alignment explanation
Indices: 49750--49785 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
49740 ATAAAAGAAT
49750 ATATATAAAAATTTAAA
1 ATATATAAAAATTTAAA
* *
49767 ATATATAATAATTTTAA
1 ATATATAAAAATTTAAA
49784 AT
1 AT
49786 TTTCAACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATATAAAAATTTAAA
Found at i:51370 original size:15 final size:16
Alignment explanation
Indices: 51352--51381 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51342 TATGGAATAG
51352 TTTAAT-ATTTTTTAA
1 TTTAATCATTTTTTAA
51367 TTTAATCATTTTTTA
1 TTTAATCATTTTTTA
51382 TTGAATTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTAATCATTTTTTAA
Found at i:55678 original size:2 final size:2
Alignment explanation
Indices: 55671--55699 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
55661 TGTTTTTCTT
55671 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55700 TCTTTCGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56945 original size:48 final size:47
Alignment explanation
Indices: 56843--56938 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 47
56833 TTATTGCTGG
**
56843 AAATATTATTCAGTTAAAATATTAAAAATAACTTTAAAAAAGTTATCC
1 AAATATTATTCAGTTAAAATATTAAAAATAAC-TTAAAAAAAATATCC
* *
56891 AAATATTATTTAGTTAAAATATTACAAATAA-TTAAAAAAAATATCC
1 AAATATTATTCAGTTAAAATATTAAAAATAACTTAAAAAAAATATCC
56937 AA
1 AA
56939 TCATATTGTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 15 0.34
48 29 0.66
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (47 bp):
AAATATTATTCAGTTAAAATATTAAAAATAACTTAAAAAAAATATCC
Found at i:57703 original size:30 final size:30
Alignment explanation
Indices: 57651--57708 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
57641 TTAGTATGTA
* * *
57651 TACTGTGCGTAAATTGTAGAATTAGTCTTG
1 TACTATGCATAAATTATAGAATTAGTCTTG
*
57681 TACTATGCATAAATTATGGAATTAGTCT
1 TACTATGCATAAATTATAGAATTAGTCT
57709 GTGTTTTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (30 bp):
TACTATGCATAAATTATAGAATTAGTCTTG
Found at i:58760 original size:31 final size:31
Alignment explanation
Indices: 58716--58800 Score: 109
Period size: 31 Copynumber: 2.7 Consensus size: 31
58706 TAGATTGATC
* * *
58716 ATTAAAATTTATCAAACTATTATAAATTAGTT
1 ATTAAAACTTATCAAA-TATTATAAAATAATT
58748 ATT-AAACTTATCAAATTATTATAAAATAATT
1 ATTAAAACTTATCAAA-TATTATAAAATAATT
*
58779 CTTAAAACTTATCAAATATTAT
1 ATTAAAACTTATCAAATATTAT
58801 TAGTATTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
31 32 0.68
32 15 0.32
ACGTcount: A:0.48, C:0.08, G:0.01, T:0.42
Consensus pattern (31 bp):
ATTAAAACTTATCAAATATTATAAAATAATT
Found at i:61292 original size:20 final size:19
Alignment explanation
Indices: 61244--61294 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
61234 AAATGACCAA
* *
61244 CAAAATCGCAACGCGATCT
1 CAAATTCGCAACGCGAACT
*
61263 TAAATTCGCAACGCGAACT
1 CAAATTCGCAACGCGAACT
*
61282 CCAACTTCGCAAC
1 -CAAATTCGCAAC
61295 TCATTTTCCA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.35, C:0.33, G:0.14, T:0.18
Consensus pattern (19 bp):
CAAATTCGCAACGCGAACT
Found at i:61425 original size:21 final size:21
Alignment explanation
Indices: 61396--61457 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
61386 ACTCAATTTT
61396 CAAATTCGCGTTGCGATAGTC
1 CAAATTCGCGTTGCGATAGTC
* * **
61417 CAAAATCGCATTGCGATTTTC
1 CAAATTCGCGTTGCGATAGTC
*
61438 C-ATTTCGCGTTGCGATAGTC
1 CAAATTCGCGTTGCGATAGTC
61458 TTGCTCTTGC
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (21 bp):
CAAATTCGCGTTGCGATAGTC
Found at i:61630 original size:6 final size:6
Alignment explanation
Indices: 61621--61645 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
61611 CCGTCTCGTC
61621 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
61646 AATACGTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:61770 original size:41 final size:41
Alignment explanation
Indices: 61713--61986 Score: 388
Period size: 41 Copynumber: 6.7 Consensus size: 41
61703 AAACAAATAC
*
61713 AATGGAAAATCGCAATGCGATTTTGGACTATCGCAACGCGA
1 AATGGAAAATCGCAATGCGAATTTGGACTATCGCAACGCGA
*
61754 AATGGAAAATCACAATGCGAATTTGGACTATCGCAACGCGA
1 AATGGAAAATCGCAATGCGAATTTGGACTATCGCAACGCGA
* * ** * *
61795 ATTTCGATTATCGCAAATGCGATTTTGGACTATCGCAACGCAA
1 A-ATGGAAAATCGC-AATGCGAATTTGGACTATCGCAACGCGA
61838 AATGGAAAATCGCAA-GCGAATTTGGACTATCGCAACGCGA
1 AATGGAAAATCGCAATGCGAATTTGGACTATCGCAACGCGA
* * *
61878 AATGGAAAATCACAACGCGAATTTGGACTATCGCAACACGA
1 AATGGAAAATCGCAATGCGAATTTGGACTATCGCAACGCGA
* *
61919 AATGGAAAATTGCAATGCGATTTTGGACTATCGCAACGCGA
1 AATGGAAAATCGCAATGCGAATTTGGACTATCGCAACGCGA
**
61960 AATGGAAAATCGCAACACGAATTTGGA
1 AATGGAAAATCGCAATGCGAATTTGGA
61987 AACTGAGTTG
Statistics
Matches: 204, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
40 37 0.18
41 125 0.61
42 15 0.07
43 27 0.13
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (41 bp):
AATGGAAAATCGCAATGCGAATTTGGACTATCGCAACGCGA
Found at i:61773 original size:20 final size:20
Alignment explanation
Indices: 61713--61974 Score: 112
Period size: 21 Copynumber: 12.8 Consensus size: 20
61703 AAACAAATAC
61713 AATGGAAAATCGCAATGCGA
1 AATGGAAAATCGCAATGCGA
** ** *
61733 TTTTGGACTATCGCAACGCGA
1 -AATGGAAAATCGCAATGCGA
*
61754 AATGGAAAATCACAATGCGA
1 AATGGAAAATCGCAATGCGA
* ** *
61774 ATTTGGACTATCGCAACGCGA
1 A-ATGGAAAATCGCAATGCGA
* * **
61795 ATTTCGATTATCGCAAATGCGA
1 A-ATGGAAAATCGC-AATGCGA
** ** * *
61817 TTTTGGACTATCGCAACGCAA
1 -AATGGAAAATCGCAATGCGA
61838 AATGGAAAATCGCAA-GCGA
1 AATGGAAAATCGCAATGCGA
* ** *
61857 ATTTGGACTATCGCAACGCGA
1 A-ATGGAAAATCGCAATGCGA
* *
61878 AATGGAAAATCACAACGCGA
1 AATGGAAAATCGCAATGCGA
* ** **
61898 ATTTGGACTATCGCAACACGA
1 A-ATGGAAAATCGCAATGCGA
*
61919 AATGGAAAATTGCAATGCGA
1 AATGGAAAATCGCAATGCGA
** ** *
61939 TTTTGGACTATCGCAACGCGA
1 -AATGGAAAATCGCAATGCGA
61960 AATGGAAAATCGCAA
1 AATGGAAAATCGCAA
61975 CACGAATTTG
Statistics
Matches: 177, Mismatches: 57, Indels: 15
0.71 0.23 0.06
Matches are distributed among these distances:
19 4 0.02
20 77 0.44
21 80 0.45
22 16 0.09
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (20 bp):
AATGGAAAATCGCAATGCGA
Found at i:68107 original size:30 final size:30
Alignment explanation
Indices: 68073--68183 Score: 116
Period size: 30 Copynumber: 3.7 Consensus size: 30
68063 CATATGTGAA
*
68073 TTAAAGATTAAGGGCTTATTTGGAAACAAG
1 TTAAAGATTAAGGGCTTATTTGGATACAAG
* * * *
68103 TTAAAGTTTAAGGTCTTATTTGGCTGCAAG
1 TTAAAGATTAAGGGCTTATTTGGATACAAG
* *
68133 TTAAAGATTAGGGGCTTATGTGGATACTAA-
1 TTAAAGATTAAGGGCTTATTTGGATAC-AAG
* * *
68163 CTAAAGTTTAAGGGTTTATTT
1 TTAAAGATTAAGGGCTTATTT
68184 AGGTGTAATA
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
30 62 0.97
31 2 0.03
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (30 bp):
TTAAAGATTAAGGGCTTATTTGGATACAAG
Found at i:71548 original size:2 final size:2
Alignment explanation
Indices: 71541--71566 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
71531 TAAAAGCATA
71541 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
71567 GTTAAAATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72072 original size:11 final size:11
Alignment explanation
Indices: 72056--72102 Score: 76
Period size: 11 Copynumber: 4.3 Consensus size: 11
72046 TAGTACTTAA
72056 GTTTCAAAATT
1 GTTTCAAAATT
72067 GTTTCAAAATT
1 GTTTCAAAATT
72078 GTTTCAAAATT
1 GTTTCAAAATT
* *
72089 GTTTTAAATTT
1 GTTTCAAAATT
72100 GTT
1 GTT
72103 ATTTTAATCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.51
Consensus pattern (11 bp):
GTTTCAAAATT
Found at i:74056 original size:18 final size:18
Alignment explanation
Indices: 74018--74055 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
74008 TTCCACTACC
* *
74018 TTTGGTATTGGTACCCCT
1 TTTGGTATCGGTACCACT
74036 TTTGGTATCGGTACCA-T
1 TTTGGTATCGGTACCACT
74053 TTT
1 TTT
74056 TCATTATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.47
Consensus pattern (18 bp):
TTTGGTATCGGTACCACT
Found at i:74137 original size:106 final size:105
Alignment explanation
Indices: 73948--74137 Score: 301
Period size: 106 Copynumber: 1.8 Consensus size: 105
73938 AAAAATAATA
*** *
73948 TTTTATTATGAAATTTGAGCAATGTTGGTAGTATTGATACTACATTGTGAGTATCGATACTTCCA
1 TTTTATTATGAAATTTGAGCAAAACTGGTAGTATTGATAATACATTGTGAGTATCGATACTTCCA
*
74013 CTACCTTTGGTATTGGTACCCCTTTTGGTATCGGTACCAT
66 CTACCTTTGGTATCGGTACCCCTTTTGGTATCGGTACCAT
*
74053 TTTTCATTATGAAATTTGAGCAAAACTGGTAGTATTGATAATATATTGTGAGTATCGATACTTCC
1 TTTT-ATTATGAAATTTGAGCAAAACTGGTAGTATTGATAATACATTGTGAGTATCGATACTTCC
74118 GA-TACCTTTGGTATCGGTAC
65 -ACTACCTTTGGTATCGGTAC
74138 TATATGAACA
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
105 4 0.05
106 72 0.94
107 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (105 bp):
TTTTATTATGAAATTTGAGCAAAACTGGTAGTATTGATAATACATTGTGAGTATCGATACTTCCA
CTACCTTTGGTATCGGTACCCCTTTTGGTATCGGTACCAT
Done.