Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015302.1 Kokia drynarioides strain JFW-HI SEQ_130347, 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: 404437
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 205 characters in sequence are not A, C, G, or T
File 2 of 2
Found at i:327933 original size:46 final size:46
Alignment explanation
Indices: 327877--327977 Score: 159
Period size: 46 Copynumber: 2.2 Consensus size: 46
327867 GTTTCATTTT
* *
327877 AAATAGTTTTCCTGAAATATTTTTAAGAAATATA-CTAAACAATAGA
1 AAATATTTTTCCTGAAATATTTTTAAGAAATATATC-AAACAATAAA
*
327923 AAATATTTTTCCTGAAATATTTTTAAGAAATCTATCAAACAATAAA
1 AAATATTTTTCCTGAAATATTTTTAAGAAATATATCAAACAATAAA
327969 AAATATTTT
1 AAATATTTT
327978 ATATAAATTC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
46 50 0.98
47 1 0.02
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.38
Consensus pattern (46 bp):
AAATATTTTTCCTGAAATATTTTTAAGAAATATATCAAACAATAAA
Found at i:338081 original size:61 final size:62
Alignment explanation
Indices: 338014--338214 Score: 255
Period size: 61 Copynumber: 3.3 Consensus size: 62
338004 TCTTGTCTAG
* ** * *
338014 AGTTTTGCCACAAAGGCTATCTTTTACATTTAGTACTCGTCACAAAGGCTTTT-TTGTCCAA
1 AGTTTTGCCACAAAGGCTATCTTTTACATTTAATACTCACCACAAAGGCTTTTCCTATCCAA
* * * *
338075 ATTTTTGCCACAAAGGTTGTCTTTTACATTTAATACTTACCACAAAGG-TTTTCCTATCCAA
1 AGTTTTGCCACAAAGGCTATCTTTTACATTTAATACTCACCACAAAGGCTTTTCCTATCCAA
* * *
338136 AGTTTCGCCACAAAGGCTATCCTTTACATTTAATACTCACCACAAAGGC-TTTCCTATCCAG
1 AGTTTTGCCACAAAGGCTATCTTTTACATTTAATACTCACCACAAAGGCTTTTCCTATCCAA
* *
338197 AGTTCTACCACAAAGGCT
1 AGTTTTGCCACAAAGGCT
338215 TTTCTATTAA
Statistics
Matches: 119, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
60 4 0.03
61 115 0.97
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (62 bp):
AGTTTTGCCACAAAGGCTATCTTTTACATTTAATACTCACCACAAAGGCTTTTCCTATCCAA
Found at i:338158 original size:29 final size:29
Alignment explanation
Indices: 338113--338242 Score: 95
Period size: 29 Copynumber: 4.4 Consensus size: 29
338103 TTTAATACTT
*
338113 ACCACAAAGGTTTTCCTATCCAAAGTTTC
1 ACCACAAAGGCTTTCCTATCCAAAGTTTC
* * * * *
338142 GCCACAAAGGCTATCCTTTACATTTAA-TACTC
1 ACCACAAAGGCTTTCCTATCCA---AAGT-TTC
*
338174 ACCACAAAGGCTTTCCTATCCAGAG-TTC
1 ACCACAAAGGCTTTCCTATCCAAAGTTTC
* *
338202 TACCACAAAGGCTTTTCTAT-TAAGAGTTTC
1 -ACCACAAAGGCTTTCCTATCCAA-AGTTTC
*
338232 GCCACAAAGGC
1 ACCACAAAGGC
338243 AATCCTTTAA
Statistics
Matches: 77, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
28 3 0.04
29 48 0.62
30 3 0.04
31 1 0.01
32 22 0.29
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (29 bp):
ACCACAAAGGCTTTCCTATCCAAAGTTTC
Found at i:338636 original size:15 final size:15
Alignment explanation
Indices: 338616--338649 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
338606 TAAATACACT
*
338616 TTCACATCACATTCA
1 TTCACATCACACTCA
*
338631 TTCACATCAGACTCA
1 TTCACATCACACTCA
338646 TTCA
1 TTCA
338650 TAATTTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.32
Consensus pattern (15 bp):
TTCACATCACACTCA
Found at i:341536 original size:13 final size:13
Alignment explanation
Indices: 341518--341546 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
341508 GTGGAGCTTG
341518 ATAACATACCCAA
1 ATAACATACCCAA
341531 ATAACATACCCAA
1 ATAACATACCCAA
341544 ATA
1 ATA
341547 GCGCTCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.28, G:0.00, T:0.17
Consensus pattern (13 bp):
ATAACATACCCAA
Found at i:348865 original size:21 final size:23
Alignment explanation
Indices: 348826--348877 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
348816 TTGCTACTGT
* *
348826 GAGAAAAAAGAAAGAAGAAA-AG
1 GAGAGAAAGGAAAGAAGAAATAG
*
348848 G-GAGAAAGGAAAGGAGAAATAG
1 GAGAGAAAGGAAAGAAGAAATAG
348870 GAGAGAAA
1 GAGAGAAA
348878 TATTCTGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 15 0.60
22 4 0.16
23 6 0.24
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (23 bp):
GAGAGAAAGGAAAGAAGAAATAG
Found at i:359191 original size:25 final size:23
Alignment explanation
Indices: 359134--359194 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 23
359124 TATATGTTTT
*
359134 AAATAATTATTATAAAATATTAAA
1 AAATAA-TAATATAAAATATTAAA
* *
359158 AAA-ACTAATATAAATTATTTACAA
1 AAATAATAATATAAAATA-TTA-AA
359182 AAATAATAATATA
1 AAATAATAATATA
359195 TGGAATATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
22 10 0.33
23 4 0.13
24 8 0.27
25 8 0.27
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATAATAATATAAAATATTAAA
Found at i:359282 original size:18 final size:19
Alignment explanation
Indices: 359259--359295 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
359249 TAATGATATA
359259 TAAAATATAAAT-TAATTT
1 TAAAATATAAATATAATTT
*
359277 TAAAATTTAAATATAATTT
1 TAAAATATAAATATAATTT
359296 AAATAGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAAAATATAAATATAATTT
Found at i:359880 original size:24 final size:24
Alignment explanation
Indices: 359825--359887 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
359815 TTTTTCAGAA
*
359825 ATTCAATATATTTATAAAAAAAATT
1 ATTCAA-AAATTTATAAAAAAAATT
* *
359850 ATCCAAAAATTTAT-AAAAATATAT
1 ATTCAAAAATTTATAAAAAAAAT-T
359874 ATTCAAAAAATTTA
1 ATTC-AAAAATTTA
359888 AAATTATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 7 0.22
24 11 0.34
25 14 0.44
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (24 bp):
ATTCAAAAATTTATAAAAAAAATT
Found at i:359900 original size:19 final size:19
Alignment explanation
Indices: 359873--359913 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
359863 TAAAAATATA
* *
359873 TATTCAAAAAATTTAAAAT
1 TATTAAAAAAATTGAAAAT
*
359892 TATTAAAAATATTGAAAAT
1 TATTAAAAAAATTGAAAAT
359911 TAT
1 TAT
359914 ATAATAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TATTAAAAAAATTGAAAAT
Found at i:360900 original size:45 final size:46
Alignment explanation
Indices: 360851--360944 Score: 172
Period size: 45 Copynumber: 2.1 Consensus size: 46
360841 TCTCATCAGT
*
360851 AGTGCTTAATTAACTAAACAATCCTCCATTTAC-TTATTTAGAAAA
1 AGTGCTTAATTAACTAAACAATCCTCCATATACTTTATTTAGAAAA
360896 AGTGCTTAATTAACTAAACAATCCTCCATATACTTTATTTAGAAAA
1 AGTGCTTAATTAACTAAACAATCCTCCATATACTTTATTTAGAAAA
360942 AGT
1 AGT
360945 TATCATTTAC
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 32 0.68
46 15 0.32
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.35
Consensus pattern (46 bp):
AGTGCTTAATTAACTAAACAATCCTCCATATACTTTATTTAGAAAA
Found at i:365822 original size:24 final size:24
Alignment explanation
Indices: 365804--365872 Score: 111
Period size: 24 Copynumber: 2.9 Consensus size: 24
365794 AGTTTGACTT
365804 AAACAAATAAACAGAGTTTAATTA
1 AAACAAATAAACAGAGTTTAATTA
* *
365828 AAACAAATAAACAGAATTTAATTG
1 AAACAAATAAACAGAGTTTAATTA
*
365852 AAACAATTAAACAGAGTTTAA
1 AAACAAATAAACAGAGTTTAA
365873 CTGAAAGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.25
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTA
Found at i:365877 original size:24 final size:24
Alignment explanation
Indices: 365794--365878 Score: 107
Period size: 24 Copynumber: 3.5 Consensus size: 24
365784 GACTAATAAT
* *
365794 AGTTTGACTTAAACAAATAAACAG
1 AGTTTAACTGAAACAAATAAACAG
* *
365818 AGTTTAATTAAAACAAATAAACAG
1 AGTTTAACTGAAACAAATAAACAG
* * *
365842 AATTTAATTGAAACAATTAAACAG
1 AGTTTAACTGAAACAAATAAACAG
365866 AGTTTAACTGAAA
1 AGTTTAACTGAAA
365879 GATTATTTCT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.27
Consensus pattern (24 bp):
AGTTTAACTGAAACAAATAAACAG
Found at i:367890 original size:24 final size:23
Alignment explanation
Indices: 367805--367891 Score: 84
Period size: 24 Copynumber: 3.7 Consensus size: 23
367795 TAGACTAATA
* *
367805 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAA-AAATAAAC
* *
367829 AGAGTTTAATTAAAATAAATAAAC
1 AGAGTTTAACTGAAA-AAATAAAC
* * *
367853 AGAATTTAATTGAAAAAATTAAAT
1 AGAGTTTAACTGAAAAAA-TAAAC
367877 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
367892 GATTATTTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 3 0.06
24 50 0.94
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.28
Consensus pattern (23 bp):
AGAGTTTAACTGAAAAAATAAAC
Found at i:372398 original size:23 final size:21
Alignment explanation
Indices: 372355--372405 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 21
372345 CACACATAAG
*
372355 TTTCCTTCTTTCCTTTTTTTT
1 TTTCCTTCTTTCATTTTTTTT
372376 TTTCCTGTCTATTCATTTTTTTT
1 TTTCCT-TCT-TTCATTTTTTTT
*
372399 ATTCCTT
1 TTTCCTT
372406 TGCAAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 6 0.23
22 4 0.15
23 16 0.62
ACGTcount: A:0.06, C:0.22, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTCCTTCTTTCATTTTTTTT
Found at i:373613 original size:21 final size:21
Alignment explanation
Indices: 373589--373628 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
373579 TAAAAATTAT
* *
373589 TAAATTTAATTATAAAATACA
1 TAAATATAAATATAAAATACA
373610 TAAATATAAATATAAAATA
1 TAAATATAAATATAAAATA
373629 ATTTTGTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAATATAAATATAAAATACA
Found at i:374138 original size:10 final size:11
Alignment explanation
Indices: 374123--374151 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
374113 AATCACCCAA
374123 TTTATTTTA-T
1 TTTATTTTATT
374133 TTTATTTTATT
1 TTTATTTTATT
374144 TTTATTTT
1 TTTATTTT
374152 CTTCTTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:374355 original size:6 final size:6
Alignment explanation
Indices: 374342--374394 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
374332 CTTTGCTTTT
* * *
374342 CATTGC CGTTGC CGTTGC CATTGC CATTGC CGTTGC CATTGC CATTGC
1 CATTGC CATTGC CATTGC CATTGC CATTGC CATTGC CATTGC CATTGC
374390 CATTG
1 CATTG
374395 ACGGCACTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.11, C:0.32, G:0.23, T:0.34
Consensus pattern (6 bp):
CATTGC
Found at i:374365 original size:18 final size:18
Alignment explanation
Indices: 374342--374390 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
374332 CTTTGCTTTT
*
374342 CATTGCCGTTGCCGTTGC
1 CATTGCCATTGCCGTTGC
374360 CATTGCCATTGCCGTTGC
1 CATTGCCATTGCCGTTGC
374378 CATTGCCATTGCC
1 CATTGCCATTGCC
374391 ATTGACGGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.10, C:0.35, G:0.22, T:0.33
Consensus pattern (18 bp):
CATTGCCATTGCCGTTGC
Found at i:375422 original size:12 final size:12
Alignment explanation
Indices: 375405--375478 Score: 69
Period size: 12 Copynumber: 6.2 Consensus size: 12
375395 TTTCAGTGAC
375405 GATGATGATTAT
1 GATGATGATTAT
*
375417 GATGATGACTT-G
1 GATGATGA-TTAT
*
375429 GATGATGATTGT
1 GATGATGATTAT
** *
375441 GATCTTGATGAT
1 GATGATGATTAT
*
375453 GATGATGATTTT
1 GATGATGATTAT
*
375465 GATGATGGTTAT
1 GATGATGATTAT
375477 GA
1 GA
375479 GTTGGATGAT
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
11 2 0.04
12 44 0.92
13 2 0.04
ACGTcount: A:0.27, C:0.03, G:0.30, T:0.41
Consensus pattern (12 bp):
GATGATGATTAT
Found at i:375450 original size:18 final size:18
Alignment explanation
Indices: 375410--375471 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
375400 GTGACGATGA
*
375410 TGATTATGATGATGA-CT
1 TGATGATGATGATGATCT
375427 TGGATGATGATTG-TGATCT
1 T-GATGATGA-TGATGATCT
*
375446 TGATGATGATGATGATTT
1 TGATGATGATGATGATCT
375464 TGATGATG
1 TGATGATG
375472 GTTATGAGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.08
18 31 0.79
19 5 0.13
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.42
Consensus pattern (18 bp):
TGATGATGATGATGATCT
Found at i:375478 original size:18 final size:18
Alignment explanation
Indices: 375410--375488 Score: 68
Period size: 18 Copynumber: 4.4 Consensus size: 18
375400 GTGACGATGA
* * *
375410 TGATTATGATGATGACTT
1 TGATGATGATTATGATTT
* * *
375428 GGATGATGATTGTGATCT
1 TGATGATGATTATGATTT
*
375446 TGATGATGATGATGATTT
1 TGATGATGATTATGATTT
* *
375464 TGATGATGGTTATGAGTT
1 TGATGATGATTATGATTT
*
375482 GGATGAT
1 TGATGAT
375489 CCTCGTCATC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.25, C:0.03, G:0.30, T:0.42
Consensus pattern (18 bp):
TGATGATGATTATGATTT
Found at i:375487 original size:36 final size:36
Alignment explanation
Indices: 375415--375488 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 36
375405 GATGATGATT
* *
375415 ATGATGATGACTTGGATGATGATTGTGATCTTGATG
1 ATGATGATGACTTGGATGATGATTATGATCTGGATG
* * *
375451 ATGATGATGATTTTGATGATGGTTATGAGT-TGGATG
1 ATGATGATGACTTGGATGATGATTATGA-TCTGGATG
375487 AT
1 AT
375489 CCTCGTCATC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.26, C:0.03, G:0.31, T:0.41
Consensus pattern (36 bp):
ATGATGATGACTTGGATGATGATTATGATCTGGATG
Found at i:375805 original size:12 final size:12
Alignment explanation
Indices: 375788--375814 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
375778 TTCAAGGTGG
375788 CGGTGGTAAAAA
1 CGGTGGTAAAAA
375800 CGGTGGTAAAAA
1 CGGTGGTAAAAA
375812 CGG
1 CGG
375815 CGGTGGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.11, G:0.37, T:0.15
Consensus pattern (12 bp):
CGGTGGTAAAAA
Found at i:376154 original size:3 final size:3
Alignment explanation
Indices: 376146--376171 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
376136 CCCATACCAT
376146 CAA CAA CAA CAA CAA CAA CAA CAA CA
1 CAA CAA CAA CAA CAA CAA CAA CAA CA
376172 GTATTTGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.35, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:379183 original size:25 final size:25
Alignment explanation
Indices: 379149--379211 Score: 110
Period size: 25 Copynumber: 2.6 Consensus size: 25
379139 CAACCGTGTG
379149 TTTT-GCTCTTAAAACTTGCTTCGA
1 TTTTCGCTCTTAAAACTTGCTTCGA
*
379173 TTTTCGGTCTTAAAACTTGCTTCGA
1 TTTTCGCTCTTAAAACTTGCTTCGA
379198 TTTTCGCTCTTAAA
1 TTTTCGCTCTTAAA
379212 TGCTCTCTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 4 0.11
25 32 0.89
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.46
Consensus pattern (25 bp):
TTTTCGCTCTTAAAACTTGCTTCGA
Found at i:386462 original size:23 final size:23
Alignment explanation
Indices: 386418--386529 Score: 102
Period size: 23 Copynumber: 4.9 Consensus size: 23
386408 TTCTTATATC
*
386418 TATGC-TAATTATTAATGA-GATT
1 TATGCTTAAATATTAAT-ATGATT
* *
386440 TGTGTTTAAATATTAATATGATT
1 TATGCTTAAATATTAATATGATT
* * **
386463 TATGATTAAAAATTAACGTGATT
1 TATGCTTAAATATTAATATGATT
* * *
386486 TGTGCTTAAGTATTAATGTGATT
1 TATGCTTAAATATTAATATGATT
*
386509 TATGCTTCAATATTAATATGA
1 TATGCTTAAATATTAATATGA
386530 AGCCTAAATG
Statistics
Matches: 71, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
22 4 0.06
23 67 0.94
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (23 bp):
TATGCTTAAATATTAATATGATT
Found at i:386524 original size:46 final size:46
Alignment explanation
Indices: 386427--386524 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 46
386417 CTATGCTAAT
* *
386427 TATTAATGAGATTTGTGTTTAAATATTAATATGATTTATGATTAAA
1 TATTAACGAGATTTGTGCTTAAATATTAATATGATTTATGATTAAA
* * * * * *
386473 AATTAACGTGATTTGTGCTTAAGTATTAATGTGATTTATGCTTCAA
1 TATTAACGAGATTTGTGCTTAAATATTAATATGATTTATGATTAAA
386519 TATTAA
1 TATTAA
386525 TATGAAGCCT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (46 bp):
TATTAACGAGATTTGTGCTTAAATATTAATATGATTTATGATTAAA
Found at i:397539 original size:21 final size:21
Alignment explanation
Indices: 397493--397545 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
397483 ATGATGGTTT
*
397493 TACCAATACAAGGGTGACTTC
1 TACCGATACAAGGGTGACTTC
397514 TACCGATACAAGGGTGACTTC
1 TACCGATACAAGGGTGACTTC
*
397535 TACCGAAACAA
1 TACCGATACAA
397546 TGCATGCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (21 bp):
TACCGATACAAGGGTGACTTC
Done.