Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002012.1 Hibiscus syriacus cultivar Beakdansim tig00004111_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: 773058
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 2 of 3
Found at i:328830 original size:23 final size:23
Alignment explanation
Indices: 328781--328849 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
328771 GTGTTATATT
* * **
328781 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTTATTAAA
328804 ATATTTTAAATATATTTATTAAA
1 ATATTTTAAATATATTTATTAAA
*
328827 ATATTATTAGAT-TATTATATTAA
1 ATATT-TTAAATATATT-TATTAA
328850 TATTAAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
23 28 0.72
24 11 0.28
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (23 bp):
ATATTTTAAATATATTTATTAAA
Found at i:329055 original size:23 final size:23
Alignment explanation
Indices: 329019--329079 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
329009 TAATATTAAA
329019 AATATAATAT-TTTTAGAA-ATATT
1 AATA-AATATATTTTA-AATATATT
*
329042 AATAAATATATTTTAAATATTTT
1 AATAAATATATTTTAAATATATT
*
329065 AATAATTAATATTTT
1 AATAAAT-ATATTTT
329080 GATTAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 7 0.21
23 19 0.58
24 7 0.21
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
AATAAATATATTTTAAATATATT
Found at i:329338 original size:42 final size:42
Alignment explanation
Indices: 329287--329368 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
329277 CAAACTCTGG
* * * *
329287 AAAACATTTTTCGAAAAACGAATTATGTTAAACAAACACGAA
1 AAAACATTTTTCAAAAAACGAATGACGTGAAACAAACACGAA
* *
329329 AAAATATTTTTTAAAAAACGAATGACGTGAAACAAACACG
1 AAAACATTTTTCAAAAAACGAATGACGTGAAACAAACACG
329369 TGATTTCGGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.52, C:0.13, G:0.11, T:0.23
Consensus pattern (42 bp):
AAAACATTTTTCAAAAAACGAATGACGTGAAACAAACACGAA
Found at i:335395 original size:4 final size:4
Alignment explanation
Indices: 335386--336342 Score: 1828
Period size: 4 Copynumber: 239.8 Consensus size: 4
335376 TATAGTTTAT
335386 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
335434 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
335482 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
335530 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
335578 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
335626 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
335674 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
335722 ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATGC ATAC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
335770 ATAC ATGC ATAC ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
335818 ATGC ATAC ATGC ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
335866 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
335914 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
335962 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
336010 ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
336056 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
336104 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
336152 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
336200 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
336248 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
336296 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
336343 TCTAATAGTT
Statistics
Matches: 935, Mismatches: 16, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
2 2 0.00
4 933 1.00
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:345773 original size:27 final size:27
Alignment explanation
Indices: 345733--345793 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
345723 AATAGCTCTG
* *
345733 AATCATTTAGAATGTACTTCTGTGCTA
1 AATCATTCAAAATGTACTTCTGTGCTA
* * *
345760 AATCATTCAAAATGTACTTTTGTGTTG
1 AATCATTCAAAATGTACTTCTGTGCTA
345787 AATCATT
1 AATCATT
345794 TAGCACTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (27 bp):
AATCATTCAAAATGTACTTCTGTGCTA
Found at i:346536 original size:89 final size:90
Alignment explanation
Indices: 346369--346536 Score: 212
Period size: 89 Copynumber: 1.9 Consensus size: 90
346359 TTTTGCAACG
* * * * * ***
346369 GGTTTTAATCTAAAATGTTATTATGTTTAATCTAAAAAGTTATACAATTGACAATAATTTTGGTT
1 GGTTTTAATCTAAAATATTATTATATCTAATCTAAAAAGTTACAAAATTGACAATAATTTCAATT
* *
346434 ACAATCGAGAATGTTACATCGTAAC
66 ACAACCGAAAATGTTACATCGTAAC
* *
346459 GGTTTTAATCTAAAATATTATT-TATCTATTCTAAAAAGTTACAAAATTGATAATAATTTCAATT
1 GGTTTTAATCTAAAATATTATTATATCTAATCTAAAAAGTTACAAAATTGACAATAATTTCAATT
*
346523 TCAACCGAAAATGT
66 ACAACCGAAAATGT
346537 CTTAACAATA
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
89 44 0.68
90 21 0.32
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (90 bp):
GGTTTTAATCTAAAATATTATTATATCTAATCTAAAAAGTTACAAAATTGACAATAATTTCAATT
ACAACCGAAAATGTTACATCGTAAC
Found at i:352099 original size:15 final size:15
Alignment explanation
Indices: 352079--352108 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
352069 CTATTTCATG
352079 TGTTTCCTTAATCTT
1 TGTTTCCTTAATCTT
352094 TGTTTCCTTAATCTT
1 TGTTTCCTTAATCTT
352109 CAACTTCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.20, G:0.07, T:0.60
Consensus pattern (15 bp):
TGTTTCCTTAATCTT
Found at i:353540 original size:60 final size:60
Alignment explanation
Indices: 353418--353572 Score: 166
Period size: 60 Copynumber: 2.6 Consensus size: 60
353408 ATAAAATTAG
* * * * * * * *
353418 AATATTCAAAAGTTTGATGACTAATTTAGAATGAGAGACATAGTTTGTGGATAAAATCAA
1 AATATTCAAAAATTTAAGGACTAATTTAAAATGAGAGACATAATTTGAGAACAAAATCAA
* * * * *
353478 AATGTTTAAAAATTTAAGGACTAATTTAAAATGAGAGTCATAATTTGAGAACGAAATTAA
1 AATATTCAAAAATTTAAGGACTAATTTAAAATGAGAGACATAATTTGAGAACAAAATCAA
* * *
353538 AATATTCAAAAATTTAAGAACCATTTTAAAATGAG
1 AATATTCAAAAATTTAAGGACTAATTTAAAATGAG
353573 GATCATAGTC
Statistics
Matches: 77, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 77 1.00
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (60 bp):
AATATTCAAAAATTTAAGGACTAATTTAAAATGAGAGACATAATTTGAGAACAAAATCAA
Found at i:360101 original size:15 final size:16
Alignment explanation
Indices: 360063--360103 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
360053 CTAAAGCCTA
*
360063 TGAATCATTCAACATT
1 TGAATCATTCAACACT
*
360079 TGAATCATTCAACGCT
1 TGAATCATTCAACACT
360095 T-AATCATTC
1 TGAATCATTC
360104 TGAAGTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (16 bp):
TGAATCATTCAACACT
Found at i:370759 original size:90 final size:91
Alignment explanation
Indices: 370581--370759 Score: 279
Period size: 90 Copynumber: 2.0 Consensus size: 91
370571 TAATCTTGAA
* * *
370581 TATTTAATTTTAATTAATTAAATATAAATTTAATTAATTTTGAAATAATAAAATCCCTAATATGA
1 TATTAAATTTCAATTAATTAAATATAAATTTAATTAATTTTGAAATAATAAAAACCCTAATATGA
* * *
370646 TTAGGGTAAGTTGTATATGAAAGGAT
66 TTAGGGTAAATTGGATATAAAAGGAT
*
370672 TATTAAATTTCAATTAATTAAATATAGATTTAATTAA-TTTGAAATAATAAAAACCCTAATATGA
1 TATTAAATTTCAATTAATTAAATATAAATTTAATTAATTTTGAAATAATAAAAACCCTAATATGA
*
370736 TTAGGGTAAATTGGCTATAAAAGG
66 TTAGGGTAAATTGGATATAAAAGG
370760 TGTGTTAGGT
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
90 46 0.57
91 34 0.43
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.39
Consensus pattern (91 bp):
TATTAAATTTCAATTAATTAAATATAAATTTAATTAATTTTGAAATAATAAAAACCCTAATATGA
TTAGGGTAAATTGGATATAAAAGGAT
Found at i:384728 original size:174 final size:173
Alignment explanation
Indices: 384429--384860 Score: 562
Period size: 174 Copynumber: 2.5 Consensus size: 173
384419 TCAACACAAA
* * * *
384429 CAGAC-TTCTGCTGCAAATAAAATTCAGAGCCATTTCCGGAGTTGTCCTTTAAGGAGAAATTTTA
1 CAGACATT-TGCTGCAACTAAAATTCAGAGCCATTTCCGG-GTTGGCATTTAAGGAGAAGTTTTA
* * *
384493 TGAAGCAAAAGCAAGCAATAATAAAAATTCAAAGTAATTTCCGACTACTGAAATCTTGGAGGGCC
64 TGAAGCAGAAGCAAGCAATAATAAAAATCCAAAGTAATTTCCGACAACTGAAATCTTGGAGGGCC
* * * ** * *
384558 TTTCAGACTGCTCAGAAGGAATTTGTCTGTAGATATATCCAAAAT
129 TTCCAGACTGCCCAGAAGGAATTTGCCCATAGATACATCCAAAAG
*
384603 CAGACATTTGCTGCAACTAAAATTCAGAGCCATTACCAGGGTTGGCATTTAAGGAGAAGTTTTAT
1 CAGACATTTGCTGCAACTAAAATTCAGAGCCATTTCC-GGGTTGGCATTTAAGGAGAAGTTTTAT
* * *
384668 GAAGCAGAAGCAAGCTATAATAAAAGTCCAAAGTAATTAT-CGACAACTGAAATGTTGGAGGGCC
65 GAAGCAGAAGCAAGCAATAATAAAAATCCAAAGTAATT-TCCGACAACTGAAATCTTGGAGGGCC
** * *
384732 TTCCAGGTTGCCCAGAAGGAATTTGCCCATAGATCCCTCCAAAAG
129 TTCCAGACTGCCCAGAAGGAATTTGCCCATAGATACATCCAAAAG
* * * *
384777 CAGACATTTGCTGCAACAAAAATTCAGAGTCATTTCCGTGGTTGGCAGTTAAGGAGTAGTTTTAT
1 CAGACATTTGCTGCAACTAAAATTCAGAGCCATTTCCG-GGTTGGCATTTAAGGAGAAGTTTTAT
*
384842 CAAGCAGAAGCAAGCAATA
65 GAAGCAGAAGCAAGCAATA
384861 CTACCTATTC
Statistics
Matches: 225, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
173 1 0.00
174 219 0.97
175 5 0.02
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (173 bp):
CAGACATTTGCTGCAACTAAAATTCAGAGCCATTTCCGGGTTGGCATTTAAGGAGAAGTTTTATG
AAGCAGAAGCAAGCAATAATAAAAATCCAAAGTAATTTCCGACAACTGAAATCTTGGAGGGCCTT
CCAGACTGCCCAGAAGGAATTTGCCCATAGATACATCCAAAAG
Found at i:399475 original size:30 final size:30
Alignment explanation
Indices: 399441--399509 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
399431 TGATCGAATT
*
399441 GAATTAGTTCGGTTAATTCGGTCAGTCACC
1 GAATTAGTTCGGTTAATTCGGTCAGCCACC
*
399471 GAATTAGTTCGGTTAATTCGGTCGGCCACC
1 GAATTAGTTCGGTTAATTCGGTCAGCCACC
399501 GAATTAGTT
1 GAATTAGTT
399510 TGGTCGAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (30 bp):
GAATTAGTTCGGTTAATTCGGTCAGCCACC
Found at i:399765 original size:16 final size:16
Alignment explanation
Indices: 399744--399782 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
399734 TTGAATCAAA
399744 TTAATTAGATATTATT
1 TTAATTAGATATTATT
399760 TTAATTAGATATTATT
1 TTAATTAGATATTATT
*
399776 TAAATTA
1 TTAATTA
399783 ATTGTAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (16 bp):
TTAATTAGATATTATT
Found at i:399783 original size:20 final size:19
Alignment explanation
Indices: 399741--399785 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 19
399731 TGTTTGAATC
399741 AAATTAATTAGATATTATT
1 AAATTAATTAGATATTATT
399760 ---TTAATTAGATATTATTT
1 AAATTAATTAGATATTA-TT
399777 AAATTAATT
1 AAATTAATT
399786 GTAAACTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
16 14 0.64
17 2 0.09
20 6 0.27
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (19 bp):
AAATTAATTAGATATTATT
Found at i:400452 original size:14 final size:14
Alignment explanation
Indices: 400420--400446 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
400410 TTTGAAATGT
400420 AAAAAAAACAAAAC
1 AAAAAAAACAAAAC
400434 AAAAAAAACAAAA
1 AAAAAAAACAAAA
400447 GGAAAAGGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAACAAAAC
Found at i:401353 original size:23 final size:23
Alignment explanation
Indices: 401307--401370 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
401297 AGTGTTATAT
* *
401307 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAATATATTAACTAG
* *
401330 TATATTTTAAATATCTTTACTAG
1 TATATTTTAAATATATTAACTAG
401353 TATATGTTTTAAATATAT
1 TATA--TTTTAAATATAT
401371 AAATAAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 23 0.68
25 11 0.32
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (23 bp):
TATATTTTAAATATATTAACTAG
Found at i:401412 original size:25 final size:24
Alignment explanation
Indices: 401371--401417 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
401361 TTAAATATAT
* *
401371 AAATAAAATTATTATATATTATTA
1 AAATAAAAATATAATATATTATTA
*
401395 AAATAAAAAATATAATATCTTAT
1 AAAT-AAAAATATAATATATTAT
401418 ATTATTACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
AAATAAAAATATAATATATTATTA
Found at i:401496 original size:18 final size:18
Alignment explanation
Indices: 401461--401509 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
401451 TAAAAATATT
*
401461 ATATTATAT-TATTATAA
1 ATATTAAATATATTATAA
*
401478 ATATTAAATATATTTTAA
1 ATATTAAATATATTATAA
*
401496 ATATTTAATA-ATTA
1 ATATTAAATATATTA
401510 ATATTTTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTAAATATATTATAA
Found at i:401705 original size:14 final size:14
Alignment explanation
Indices: 401686--401712 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
401676 ATGAATTACG
401686 TTCCGGAAAACGAT
1 TTCCGGAAAACGAT
401700 TTCCGGAAAACGA
1 TTCCGGAAAACGA
401713 ATTACGTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (14 bp):
TTCCGGAAAACGAT
Found at i:402815 original size:2 final size:2
Alignment explanation
Indices: 402804--402853 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
402794 TTTGGAGATG
402804 TA TA -A TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA 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
402844 TA -A TA TA TA T
1 TA TA TA TA TA T
402854 TTAAAAGCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 42 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:402831 original size:17 final size:17
Alignment explanation
Indices: 402811--402853 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
402801 ATGTATAATA
402811 TATATATATATATATAT
1 TATATATATATATATAT
402828 TATATATATATATATAT
1 TATATATATATATATAT
*
402845 AATATATAT
1 TATATATAT
402854 TTAAAAGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATATATATATATATAT
Found at i:402831 original size:19 final size:19
Alignment explanation
Indices: 402804--402853 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
402794 TTTGGAGATG
402804 TATAATATATATATATATA
1 TATAATATATATATATATA
*
402823 TATATTATATATATATATA
1 TATAATATATATATATATA
402842 TATAATATATAT
1 TATAATATATAT
402854 TTAAAAGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATAATATATATATATATA
Found at i:402958 original size:27 final size:26
Alignment explanation
Indices: 402903--402972 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
402893 GAAAAAACCT
*
402903 TTTTTGAAAATTTAT-GA-TATATAG
1 TTTTTGAAAATTTATATATTATATAG
402927 TTTTTGAAACATTTATATATTATATAG
1 TTTTTGAAA-ATTTATATATTATATAG
* *
402954 TTTTTAAAAATGTATATAT
1 TTTTTGAAAATTTATATAT
402973 ATTTTAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
24 9 0.22
25 6 0.15
26 10 0.25
27 15 0.38
ACGTcount: A:0.39, C:0.01, G:0.09, T:0.51
Consensus pattern (26 bp):
TTTTTGAAAATTTATATATTATATAG
Found at i:402973 original size:21 final size:19
Alignment explanation
Indices: 402941--402994 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 19
402931 TGAAACATTT
402941 ATATATTATATAGTTTTTAAAA
1 ATATA-TATATA--TTTTAAAA
*
402963 ATGTATATATATTTTAAAA
1 ATATATATATATTTTAAAA
402982 ATATATAATATAT
1 ATATAT-ATATAT
402995 AATTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 13 0.45
20 6 0.21
21 6 0.21
22 4 0.14
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (19 bp):
ATATATATATATTTTAAAA
Found at i:402975 original size:28 final size:27
Alignment explanation
Indices: 402903--402972 Score: 85
Period size: 26 Copynumber: 2.7 Consensus size: 27
402893 GAAAAAACCT
*
402903 TTTTTG-AAAATTTAT-GA-TATATAG
1 TTTTTGAAAAATTTATATATTATATAG
*
402927 TTTTTGAAACATTTATATATTATATAG
1 TTTTTGAAAAATTTATATATTATATAG
*
402954 TTTTT-AAAAATGTATATAT
1 TTTTTGAAAAATTTATATAT
402973 ATTTTAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 6 0.15
25 8 0.21
26 13 0.33
27 12 0.31
ACGTcount: A:0.39, C:0.01, G:0.09, T:0.51
Consensus pattern (27 bp):
TTTTTGAAAAATTTATATATTATATAG
Found at i:403001 original size:24 final size:24
Alignment explanation
Indices: 402903--403001 Score: 64
Period size: 27 Copynumber: 4.2 Consensus size: 24
402893 GAAAAAACCT
* * * *
402903 TTTTTGAAAATTTATGATATATAG
1 TTTTTAAAAATATATAATATATAA
* * *
402927 TTTTTGAAACATTTATATATTATATAG
1 TTTTT-AAA-A-ATATATAATATATAA
*
402954 TTTTT-AAAA-ATGT-ATATAT-A
1 TTTTTAAAAATATATAATATATAA
402974 -TTTTAAAAATATATAATATATAA
1 TTTTTAAAAATATATAATATATAA
402997 TTTTT
1 TTTTT
403002 TTTTAAAGCA
Statistics
Matches: 57, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
19 4 0.07
20 4 0.07
21 8 0.14
22 9 0.16
23 1 0.02
24 10 0.18
25 4 0.07
26 1 0.02
27 16 0.28
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (24 bp):
TTTTTAAAAATATATAATATATAA
Found at i:403116 original size:3 final size:3
Alignment explanation
Indices: 403103--403166 Score: 69
Period size: 3 Copynumber: 21.3 Consensus size: 3
403093 TATATTATAC
* * *
403103 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAG TGT AAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
403150 TATT TAT TAT TAT TAT T
1 TA-T TAT TAT TAT TAT T
403167 TCTTATTTCA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
2 4 0.08
3 41 0.79
4 7 0.13
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:403172 original size:20 final size:19
Alignment explanation
Indices: 403113--403174 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
403103 TATTATATTA
*
403113 TTATTATTATTATTATTAT
1 TTATTATTATTATTTTTAT
* * *
403132 TATATTAGTGTAATTATTTAT
1 T-TATTATTATTATT-TTTAT
403153 TTATTATTATTATTTCTTAT
1 TTATTATTATTATTT-TTAT
403173 TT
1 TT
403175 CATTTTTGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
19 2 0.06
20 26 0.79
21 5 0.15
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (19 bp):
TTATTATTATTATTTTTAT
Found at i:403175 original size:7 final size:7
Alignment explanation
Indices: 403083--403174 Score: 57
Period size: 8 Copynumber: 12.7 Consensus size: 7
403073 TTTTAAAAAA
403083 TATTTAT
1 TATTTAT
*
403090 ATATATAT
1 -TATTTAT
*
403098 TATACTAT
1 TAT-TTAT
403106 TATATTAT
1 TAT-TTAT
403114 TA-TTAT
1 TATTTAT
403120 TA-TTAT
1 TATTTAT
403126 TA-TTAT
1 TATTTAT
403132 TATATTAGT
1 TAT-TTA-T
*
403141 GTAATTATT
1 -TATTTA-T
403150 TATTTAT
1 TATTTAT
403157 TA-TTAT
1 TATTTAT
*
403163 TATTTCT
1 TATTTAT
403170 TATTT
1 TATTT
403175 CATTTTTGTT
Statistics
Matches: 71, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
6 24 0.34
7 14 0.20
8 26 0.37
9 5 0.07
10 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (7 bp):
TATTTAT
Found at i:404485 original size:17 final size:18
Alignment explanation
Indices: 404459--404501 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
404449 TTGCCCTAAA
404459 TTTATTTTATTA-TTATTG
1 TTTATTTTATTACTT-TTG
404477 TTT-TTTTATTACTTTTG
1 TTTATTTTATTACTTTTG
404494 TTTATTTT
1 TTTATTTT
404502 GTTTTTTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTATTTTATTACTTTTG
Found at i:406313 original size:19 final size:19
Alignment explanation
Indices: 406279--406323 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
406269 ATTTAGACAT
406279 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
406297 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
406316 TTTGCATT
1 TTTGCATT
406324 CATATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:409966 original size:164 final size:165
Alignment explanation
Indices: 409644--410332 Score: 1032
Period size: 164 Copynumber: 4.2 Consensus size: 165
409634 TTAACAAACT
* * * *
409644 ATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTCGAGTTCGACTACG
* * *
409709 CTCAGCTTCGAAGGCACATCATTTGCAGGATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
66 CTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACC
409774 CCCGAGTTCGATTACACTCAGC-TCGAGGGCACATC
130 CCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * *
409809 A-TTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAAGACCTTCGAGTTCGACTAC
1 ATTTACAGCATAACTCAAGTCAAGAAGGGTTATCTGCT-AACAAAAGACCTTCGAGTTCGACTAC
409872 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACC
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACC
*
409937 CCCGAGTTCGATCACACTCAGCTTCGAGGGCACATC
130 CCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * * *
409973 ATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTCGAGTTCGACTACG
* *
410038 CTCAGCTCCAAGGCACATCA-TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAGGACCC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCC
*
410102 CCAAGTTCGATTACACTCAGCTTCGAGGGCACATC
131 CCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * **
410137 ATTTGCAG-ATAACTTAAGTCAAGAAGGGTTATCTG-TCGCCAAAAGACCTTCGAGTTCGACTAC
1 ATTTACAGCATAACTCAAGTCAAGAAGGGTTATCTGCT-AACAAAAGACCTTCGAGTTCGACTAC
*
410200 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAGGA-C
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACC
* * *
410264 CCCGAGTTCGATTACACTCAACTTCGAGGTCATATC
130 CCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * * *
410300 GTTTACAACATAGCTCAAGACAAGAAGGGTTAT
1 ATTTACAGCATAACTCAAGTCAAGAAGGGTTAT
410333 TTGTCAATAA
Statistics
Matches: 481, Mismatches: 36, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
162 1 0.00
163 186 0.39
164 218 0.45
165 75 0.16
166 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (165 bp):
ATTTACAGCATAACTCAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCC
CCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
Found at i:411055 original size:2 final size:2
Alignment explanation
Indices: 411048--411090 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
411038 TTTGGAGATG
411048 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
411090 T
1 T
411091 TTAAAAGCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:411143 original size:38 final size:38
Alignment explanation
Indices: 411100--411173 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
411090 TTTAAAAGCA
*
411100 TTTTTTTAAAACGTATATAATATATAGTTTTGAAAAACC
1 TTTTTTGAAAACGTAT-TAATATATAGTTTTGAAAAACC
** *
411139 TTTTTTGAAAATTTATTGATATATAGTTTTGAAAA
1 TTTTTTGAAAACGTATTAATATATAGTTTTGAAAA
411174 CATTTATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 18 0.58
39 13 0.42
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.47
Consensus pattern (38 bp):
TTTTTTGAAAACGTATTAATATATAGTTTTGAAAAACC
Found at i:411143 original size:39 final size:39
Alignment explanation
Indices: 411074--411178 Score: 110
Period size: 39 Copynumber: 2.7 Consensus size: 39
411064 TATATATATA
* *
411074 TATATATATATATA-TATTT-AAAAGCATTTTTTTAAAACG
1 TATATA-ATATATAGT-TTTGAAAAACATTTTTTGAAAACG
* **
411113 TATATAATATATAGTTTTGAAAAACCTTTTTTGAAAATT
1 TATATAATATATAGTTTTGAAAAACATTTTTTGAAAACG
*
411152 TAT-TGATATATAGTTTTG-AAAACATTT
1 TATATAATATATAGTTTTGAAAAACATTT
411179 ATATTATATA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
37 8 0.14
38 24 0.42
39 25 0.44
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.47
Consensus pattern (39 bp):
TATATAATATATAGTTTTGAAAAACATTTTTTGAAAACG
Found at i:411168 original size:24 final size:23
Alignment explanation
Indices: 411141--411209 Score: 70
Period size: 25 Copynumber: 2.9 Consensus size: 23
411131 GAAAAACCTT
411141 TTTTGAAAATTTAT-TGATATATAG
1 TTTTGAAAATTTATAT--TATATAG
411165 TTTTGAAAACATTTATATTATATAG
1 TTTTG-AAA-ATTTATATTATATAG
* *
411190 TTTTTAAAATGTATA-TATAT
1 TTTTGAAAATTTATATTATAT
411210 TTTAAAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 5 0.12
23 6 0.15
24 8 0.20
25 14 0.35
26 6 0.15
27 1 0.03
ACGTcount: A:0.39, C:0.01, G:0.09, T:0.51
Consensus pattern (23 bp):
TTTTGAAAATTTATATTATATAG
Found at i:411233 original size:21 final size:20
Alignment explanation
Indices: 411178--411233 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
411168 TGAAAACATT
*
411178 TATATTATATAGTTTTTAAAA
1 TATA-TATATAATTTTTAAAA
* *
411199 TGTATATAT-ATTTTAAAAA
1 TATATATATAATTTTTAAAA
411218 TATATATATAATTTTT
1 TATATATATAATTTTT
411234 TTTAAAGCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 16 0.55
20 10 0.34
21 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
TATATATATAATTTTTAAAA
Found at i:411346 original size:3 final size:3
Alignment explanation
Indices: 411333--411396 Score: 69
Period size: 3 Copynumber: 21.3 Consensus size: 3
411323 TATATATTTC
* * *
411333 TAT TA- TAT TAT TAT TAT TATT TAT TAT TAT TAT TAG TGT AAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
411378 T-T TATT TAT TAT TAT TAT T
1 TAT TA-T TAT TAT TAT TAT T
411397 TCTTATTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
2 4 0.08
3 41 0.80
4 6 0.12
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:411378 original size:15 final size:13
Alignment explanation
Indices: 411334--411396 Score: 62
Period size: 13 Copynumber: 4.9 Consensus size: 13
411324 ATATATTTCT
411334 ATTA-TATTATT-
1 ATTATTATTATTA
411345 ATTATTATTTATT-
1 ATTATTA-TTATTA
411358 ATTATTATTAGTGTA
1 ATTATTATTA-T-TA
*
411373 ATTATT-TTATTT
1 ATTATTATTATTA
411385 ATTATTATTATT
1 ATTATTATTATT
411397 TCTTATTTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
11 4 0.09
12 12 0.27
13 19 0.42
14 4 0.09
15 6 0.13
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (13 bp):
ATTATTATTATTA
Found at i:412675 original size:12 final size:12
Alignment explanation
Indices: 412644--412686 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
412634 TTATTTCATA
* *
412644 TTTATTAGTATA
1 TTTATTATTATT
412656 TTTATTATTATT
1 TTTATTATTATT
412668 TTTATTATTTCATT
1 TTTATTA-TT-ATT
412682 TTTAT
1 TTTAT
412687 CTTATTTGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 17 0.63
13 2 0.07
14 8 0.30
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (12 bp):
TTTATTATTATT
Found at i:412728 original size:14 final size:14
Alignment explanation
Indices: 412706--412751 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
412696 CCTAAATTTA
*
412706 TTTTATTATTATTG
1 TTTTTTTATTATTG
*
412720 TTTTTTTATTACT-
1 TTTTTTTATTATTG
*
412733 TTTGTTTATT-TTG
1 TTTTTTTATTATTG
412746 TTTTTT
1 TTTTTT
412752 ACTTATTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
12 1 0.04
13 14 0.54
14 11 0.42
ACGTcount: A:0.13, C:0.02, G:0.07, T:0.78
Consensus pattern (14 bp):
TTTTTTTATTATTG
Found at i:412728 original size:17 final size:18
Alignment explanation
Indices: 412702--412744 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
412692 TTGCCCTAAA
412702 TTTATTTTATTA-TTATTG
1 TTTATTTTATTACTT-TTG
412720 TTT-TTTTATTACTTTTG
1 TTTATTTTATTACTTTTG
412737 TTTATTTT
1 TTTATTTT
412745 GTTTTTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTATTTTATTACTTTTG
Found at i:412785 original size:16 final size:16
Alignment explanation
Indices: 412766--412813 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
412756 ATTTAATATG
412766 TTTTCATTTTATTCAT
1 TTTTCATTTTATTCAT
*
412782 TTTTCAATTTA-TC--
1 TTTTCATTTTATTCAT
*
412795 TTTT-ATTTTATTTAT
1 TTTTCATTTTATTCAT
412810 TTTT
1 TTTT
412814 TCTTTTCTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
12 5 0.19
13 5 0.19
15 6 0.23
16 10 0.38
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTCATTTTATTCAT
Found at i:412860 original size:3 final size:3
Alignment explanation
Indices: 412852--412876 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
412842 TCTAGTTAAT
412852 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
412877 ATTTTTTTTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:413342 original size:37 final size:36
Alignment explanation
Indices: 413257--413392 Score: 179
Period size: 37 Copynumber: 3.8 Consensus size: 36
413247 TTTCGTCCTA
413257 CTAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
413292 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGA-ATTTT
*
413327 GCTAGGATTCAAACTCCTAAAAATAGGATAGAATTCTA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-TT
* * * *
413365 CTAAGATTTAAATTCCTAAAGATAGGAT
1 CTAGGATTCAAACTCCTAAAAATAGGAT
413393 CCACAAGCAC
Statistics
Matches: 90, Mismatches: 5, Indels: 10
0.86 0.05 0.10
Matches are distributed among these distances:
33 1 0.01
34 29 0.32
35 3 0.03
37 55 0.61
38 2 0.02
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:413782 original size:18 final size:17
Alignment explanation
Indices: 413743--413785 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
413733 ATTATATGGA
413743 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
413759 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
413777 TATTATTAT
1 TATTATTAT
413786 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:414062 original size:9 final size:9
Alignment explanation
Indices: 414048--414103 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
414038 TATAACTTTA
414048 TATTATTTT
1 TATTATTTT
414057 TATTATTTT
1 TATTATTTT
**
414066 CGTT-TTTT
1 TATTATTTT
*
414074 TATTCATTAT
1 TATT-ATTTT
414084 TATTA-TTT
1 TATTATTTT
414092 TATTTATTTT
1 TA-TTATTTT
414102 TA
1 TA
414104 AAAAATATTG
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
8 10 0.27
9 15 0.41
10 12 0.32
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (9 bp):
TATTATTTT
Found at i:414295 original size:2 final size:2
Alignment explanation
Indices: 414288--414319 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
414278 TAATACTTTG
414288 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
414320 TTTTCCTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:416927 original size:8 final size:8
Alignment explanation
Indices: 416914--416952 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
416904 GAACATTTCA
*
416914 TGCATTCT
1 TGCATTTT
416922 TGCA-TTT
1 TGCATTTT
416929 TGCATTTT
1 TGCATTTT
*
416937 TGCCTTTT
1 TGCATTTT
416945 TGCATTTT
1 TGCATTTT
416953 CATCTACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Found at i:418085 original size:13 final size:13
Alignment explanation
Indices: 418067--418113 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 13
418057 CAATCAGAAT
418067 AAAAAAGGCAAAAA
1 AAAAAAGGC-AAAA
418081 AAAAAAGAAGCAAAA
1 AAAAAAG--GCAAAA
418096 AACAAAA-GCAAAA
1 AA-AAAAGGCAAAA
418109 AAAAA
1 AAAAA
418114 CAAAAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.10
13 8 0.27
14 7 0.23
15 6 0.20
16 6 0.20
ACGTcount: A:0.81, C:0.09, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAGGCAAAA
Found at i:418093 original size:16 final size:16
Alignment explanation
Indices: 418074--418133 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
418064 AATAAAAAAG
418074 GCAAAAAAAAAAAGAA
1 GCAAAAAAAAAAAGAA
*
418090 GC--AAAAAACAA-AA
1 GCAAAAAAAAAAAGAA
*
418103 GCAAAAAAAAACAAAAA
1 GCAAAAAAAAA-AAGAA
418120 G-AAAAAAGAAAAAG
1 GCAAAAAA-AAAAAG
418134 GGACAAAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
13 4 0.11
14 8 0.22
15 6 0.17
16 12 0.33
17 6 0.17
ACGTcount: A:0.80, C:0.08, G:0.12, T:0.00
Consensus pattern (16 bp):
GCAAAAAAAAAAAGAA
Found at i:418107 original size:29 final size:30
Alignment explanation
Indices: 418069--418131 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
418059 ATCAGAATAA
*
418069 AAAAGGCAAAAAAAAA-AAGAAGCAAAAAAC
1 AAAAGGCAAAAAAAAACAAAAAG-AAAAAAC
*
418099 AAAA-GCAAAAAAAAACAAAAAGAAAAAAG
1 AAAAGGCAAAAAAAAACAAAAAGAAAAAAC
418128 AAAA
1 AAAA
418132 AGGGACAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.81, C:0.08, G:0.11, T:0.00
Consensus pattern (30 bp):
AAAAGGCAAAAAAAAACAAAAAGAAAAAAC
Found at i:418759 original size:22 final size:22
Alignment explanation
Indices: 418731--418774 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
418721 AGCTACCCAA
418731 TCAAACC-TTTGAGCATCAAATG
1 TCAAACCATTT-AGCATCAAATG
418753 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
418775 AACAAGAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:419232 original size:18 final size:18
Alignment explanation
Indices: 419209--419244 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
419199 TCAACATCAA
*
419209 ATATTGGGGCATTTTTGG
1 ATATTGGGGCATCTTTGG
419227 ATATTGGGGCATCTTTGG
1 ATATTGGGGCATCTTTGG
419245 GGATTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (18 bp):
ATATTGGGGCATCTTTGG
Found at i:419765 original size:37 final size:37
Alignment explanation
Indices: 419680--419784 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
419670 GTGCTCACCA
419680 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
*
419716 TTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
* *
419753 TTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
419785 TAAACATTGA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 30 0.47
37 34 0.53
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
Found at i:419857 original size:37 final size:38
Alignment explanation
Indices: 419814--419891 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 38
419804 CCTTGAAATG
* *
419814 AATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACA-A
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACATA
* *
419851 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACATA
419889 AAT
1 AAT
419892 ATTGAAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 32 0.89
38 4 0.11
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (38 bp):
AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACATA
Found at i:419874 original size:102 final size:102
Alignment explanation
Indices: 419698--419951 Score: 454
Period size: 102 Copynumber: 2.5 Consensus size: 102
419688 CTTGAGACAG
**
419698 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
419763 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
*
419800 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
419865 TGAGACAGTTTCTCTTGAAACATAAATATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* *
419902 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACA
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
419952 TAAACATTGA
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 145 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.38
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:419941 original size:65 final size:65
Alignment explanation
Indices: 419851--420020 Score: 297
Period size: 65 Copynumber: 2.6 Consensus size: 65
419841 CTCGAAACAA
* *
419851 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAATATTGAAAACATTTCCCTTGAAATG
1 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATATTGAAAACATTTCCCTTGAAATG
* *
419916 AATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
1 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATATTGAAAACATTTCCCTTGAAATG
419981 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACA-AAAT
1 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAAT
420021 TTTGTCTCCC
Statistics
Matches: 99, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 3 0.03
65 96 0.97
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (65 bp):
AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATATTGAAAACATTTCCCTTGAAATG
Found at i:419964 original size:167 final size:169
Alignment explanation
Indices: 419734--420051 Score: 541
Period size: 167 Copynumber: 1.9 Consensus size: 169
419724 CTTGAGATAG
*
419734 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
* *
419799 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAAAATTTTGTCTCCC
66 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCCCTCGAAACAAAATTTTGTCTCCC
419864 TTGAGACAG-TTTCTCTTGAAACATAAATATTGAAAACA
131 TTGAGACAGTTTTCTCTTGAAACATAAATATTGAAAACA
** * *
419902 TTTCCCTTGAAA-TGAATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
* *
419966 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATTTTGTCTCCC
66 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCCCTCGAAACAAAATTTTGTCTCCC
420031 TTGAGACAGTTTTCTCTTGAA
131 TTGAGACAGTTTTCTCTTGAA
420052 GCATCATCTT
Statistics
Matches: 140, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
167 117 0.84
168 23 0.16
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (169 bp):
TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCCCTCGAAACAAAATTTTGTCTCCC
TTGAGACAGTTTTCTCTTGAAACATAAATATTGAAAACA
Found at i:421027 original size:105 final size:105
Alignment explanation
Indices: 420839--421670 Score: 1278
Period size: 105 Copynumber: 8.0 Consensus size: 105
420829 GCACTCGAGG
* * * *
420839 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
*
420904 AGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
420945 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAATAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
421010 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
421050 CAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
421115 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAAA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
421155 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* * * *
421220 GCTAATTTAAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
421260 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
421325 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * *
421365 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTAAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
421430 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
421470 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** *
421530 TTCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * * * * ** *
421570 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
* * *
421635 AACCAATTTCAACTTCACGACGGAGGATATTGGACT
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACT
421671 TGGAACAATG
Statistics
Matches: 671, Mismatches: 49, Indels: 12
0.92 0.07 0.02
Matches are distributed among these distances:
100 82 0.12
101 3 0.00
102 3 0.00
103 4 0.01
104 3 0.00
105 500 0.75
106 76 0.11
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Found at i:422303 original size:37 final size:36
Alignment explanation
Indices: 422218--422353 Score: 179
Period size: 37 Copynumber: 3.8 Consensus size: 36
422208 TTTCGTCCTA
422218 CTAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
422253 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGA-ATTTT
*
422288 GCTAGGATTCAAACTCCTAAAAATAGGATAGAATTCTA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-TT
* * * *
422326 CTAAGATTTAAATTCCTAAAGATAGGAT
1 CTAGGATTCAAACTCCTAAAAATAGGAT
422354 CCACAAGCAC
Statistics
Matches: 90, Mismatches: 5, Indels: 10
0.86 0.05 0.10
Matches are distributed among these distances:
33 1 0.01
34 29 0.32
35 3 0.03
37 55 0.61
38 2 0.02
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:422750 original size:18 final size:17
Alignment explanation
Indices: 422711--422753 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
422701 ATTATATGAA
422711 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
422727 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
422745 TATTATTAT
1 TATTATTAT
422754 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:423366 original size:9 final size:9
Alignment explanation
Indices: 423354--423386 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
423344 CTTATCTTAC
423354 TTATTTATT
1 TTATTTATT
423363 TTATTTATT
1 TTATTTATT
423372 TTATTTATT
1 TTATTTATT
423381 TTATTT
1 TTATTT
423387 TTCCCTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTATTTATT
Found at i:427274 original size:21 final size:21
Alignment explanation
Indices: 427245--427307 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
427235 TCGGTAGAAC
* * *
427245 GTTACCTAAAATGTTAATTTT
1 GTTATCTAATATGTTAATCTT
427266 GTTATCTAATATGTTAATCTT
1 GTTATCTAATATGTTAATCTT
427287 GTTATCTAATATGTTAATCTT
1 GTTATCTAATATGTTAATCTT
427308 TTAACTTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.51
Consensus pattern (21 bp):
GTTATCTAATATGTTAATCTT
Found at i:428638 original size:18 final size:19
Alignment explanation
Indices: 428606--428641 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
428596 GTAACTTTTG
428606 AAATTTTACTTTAAATATA
1 AAATTTTACTTTAAATATA
428625 AAATTTTA-TTTAAATAT
1 AAATTTTACTTTAAATAT
428642 TTTTTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATTTTACTTTAAATATA
Found at i:431042 original size:2 final size:2
Alignment explanation
Indices: 431035--431088 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
431025 TTCATTTCAA
431035 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
431077 AT AT AT AT AT AT
1 AT AT AT AT AT AT
431089 TTATTTATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:431093 original size:4 final size:4
Alignment explanation
Indices: 431086--431117 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
431076 TATATATATA
431086 TATT TATT TATT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT
431118 CTTCTAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:436508 original size:2 final size:2
Alignment explanation
Indices: 436501--436535 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
436491 TTTGCATGGG
436501 AT AT AT AT 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 AT AT AT AT A
436536 ACTAGATACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:437145 original size:37 final size:37
Alignment explanation
Indices: 437095--437171 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
437085 GGCAAAGAAC
437095 ATCGTTCCGGTGCAAGACATTGGTTACGGAGAAGCCA
1 ATCGTTCCGGTGCAAGACATTGGTTACGGAGAAGCCA
437132 ATCGTTCCGGTGCAAGACATTGGTTACGGAGAAGCCA
1 ATCGTTCCGGTGCAAGACATTGGTTACGGAGAAGCCA
437169 ATC
1 ATC
437172 CGCCATTGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (37 bp):
ATCGTTCCGGTGCAAGACATTGGTTACGGAGAAGCCA
Found at i:452699 original size:31 final size:31
Alignment explanation
Indices: 452663--452721 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
452653 TAATATCAAT
*
452663 TGATCAATTTAATACAAATCGATAATATTAG
1 TGATCAATTTAATACAAATCAATAATATTAG
** *
452694 TGATCAATTTGTTATAAATCAATAATAT
1 TGATCAATTTAATACAAATCAATAATAT
452722 CATTAATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (31 bp):
TGATCAATTTAATACAAATCAATAATATTAG
Found at i:457532 original size:2 final size:2
Alignment explanation
Indices: 457525--457557 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
457515 TTTGTCCTCT
457525 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
457558 GCTGTATAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:462408 original size:26 final size:29
Alignment explanation
Indices: 462364--462418 Score: 89
Period size: 26 Copynumber: 2.0 Consensus size: 29
462354 ATATATAAAT
462364 AATTATTTAACTATCTTAAATTAAAATAA
1 AATTATTTAACTATCTTAAATTAAAATAA
462393 AATTATTTAA-T-T-TTAAATTAAAATAA
1 AATTATTTAACTATCTTAAATTAAAATAA
462419 GTTAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 14 0.54
27 1 0.04
28 1 0.04
29 10 0.38
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (29 bp):
AATTATTTAACTATCTTAAATTAAAATAA
Found at i:462423 original size:21 final size:21
Alignment explanation
Indices: 462384--462423 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
462374 CTATCTTAAA
* *
462384 TTAAAATAAAATTATTTAATT
1 TTAAAATAAAATAAGTTAATT
*
462405 TTAAATTAAAATAAGTTAA
1 TTAAAATAAAATAAGTTAA
462424 ATAATAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
TTAAAATAAAATAAGTTAATT
Found at i:463441 original size:14 final size:14
Alignment explanation
Indices: 463422--463449 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
463412 CCGAGAGCAT
463422 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
463436 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
463450 ACGAACTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.43, G:0.29, T:0.07
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:463449 original size:10 final size:10
Alignment explanation
Indices: 463388--463435 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
463378 AACACGCTGG
463388 GCATCCGAGA
1 GCATCCGAGA
* * *
463398 CCATCCAAAA
1 GCATCCGAGA
463408 GCATCCGAGA
1 GCATCCGAGA
463418 GCATCCGAG-
1 GCATCCGAGA
463427 GCCATCCGA
1 G-CATCCGA
463436 CCGAGGCCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
9 1 0.03
10 30 0.97
ACGTcount: A:0.31, C:0.35, G:0.23, T:0.10
Consensus pattern (10 bp):
GCATCCGAGA
Found at i:463472 original size:23 final size:23
Alignment explanation
Indices: 463437--463488 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
463427 GCCATCCGAC
* *
463437 CGAGGCCATCCGAACGAACTATG
1 CGAGGGCAACCGAACGAACTATG
* *
463460 CGAGGGCAACCGAGCGAGCTATG
1 CGAGGGCAACCGAACGAACTATG
463483 CGAGGG
1 CGAGGG
463489 AATCCGAGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.27, G:0.37, T:0.10
Consensus pattern (23 bp):
CGAGGGCAACCGAACGAACTATG
Found at i:463495 original size:23 final size:24
Alignment explanation
Indices: 463444--463496 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
463434 GACCGAGGCC
*
463444 ATCCGAACGAACTATGCGAGGGCA
1 ATCCGAGCGAACTATGCGAGGGCA
*
463468 A-CCGAGCGAGCTATGCGAGGG-A
1 ATCCGAGCGAACTATGCGAGGGCA
463490 ATCCGAG
1 ATCCGAG
463497 GGCAACCGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 2 0.08
23 23 0.88
24 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.34, T:0.11
Consensus pattern (24 bp):
ATCCGAGCGAACTATGCGAGGGCA
Found at i:463591 original size:23 final size:23
Alignment explanation
Indices: 463557--463616 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
463547 CTCGGTTACC
463557 CTCGGATT-CCCTCGCATAGCTCG
1 CTCGG-TTGCCCTCGCATAGCTCG
463580 CTCGGTTGCCCTCGCATAGCTCG
1 CTCGGTTGCCCTCGCATAGCTCG
* * *
463603 TTCGGATGGCCTCG
1 CTCGGTTGCCCTCG
463617 GTCGGATGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 2 0.06
23 31 0.94
ACGTcount: A:0.10, C:0.37, G:0.27, T:0.27
Consensus pattern (23 bp):
CTCGGTTGCCCTCGCATAGCTCG
Found at i:463621 original size:14 final size:14
Alignment explanation
Indices: 463599--463631 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
463589 CCTCGCATAG
*
463599 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
463613 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
463627 CTCGG
1 CTCGG
463632 ATGCTCTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.30, G:0.39, T:0.24
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:463631 original size:10 final size:10
Alignment explanation
Indices: 463618--463674 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
463608 ATGGCCTCGG
463618 TCGGATGGCC
1 TCGGATGGCC
463628 TCGGAT-GCTC
1 TCGGATGGC-C
463638 TCGGATGGCC
1 TCGGATGGCC
* *
463648 TTGGAT-GCTT
1 TCGGATGGC-C
463658 TCGGATGGCC
1 TCGGATGGCC
463668 TCGGATG
1 TCGGATG
463675 CCCAGCGTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 4 0.10
10 31 0.79
11 4 0.10
ACGTcount: A:0.11, C:0.25, G:0.37, T:0.28
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:463643 original size:20 final size:20
Alignment explanation
Indices: 463618--463675 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
463608 ATGGCCTCGG
463618 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
* *
463638 TCGGATGGCCTTGGATGCTT
1 TCGGATGGCCTCGGATGCTC
463658 TCGGATGGCCTCGGATGC
1 TCGGATGGCCTCGGATGC
463676 CCAGCGTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.10, C:0.26, G:0.36, T:0.28
Consensus pattern (20 bp):
TCGGATGGCCTCGGATGCTC
Found at i:463747 original size:29 final size:29
Alignment explanation
Indices: 463714--463771 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
463704 GCAATCTCTT
463714 GTAGGTCG-CCGGGAAGACATGGCGACCTA
1 GTAGGTCGTCC-GGAAGACATGGCGACCTA
*
463743 GTAGGTCGTCCGGAAGGCATGGCGACCTA
1 GTAGGTCGTCCGGAAGACATGGCGACCTA
463772 CGGCCACTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.22, C:0.24, G:0.38, T:0.16
Consensus pattern (29 bp):
GTAGGTCGTCCGGAAGACATGGCGACCTA
Found at i:472647 original size:99 final size:99
Alignment explanation
Indices: 472427--472614 Score: 315
Period size: 99 Copynumber: 1.9 Consensus size: 99
472417 AAAAGAAAAG
* * *
472427 AAAAAA-CAAAACATTAAGTTATTGATTAATAATATTATCGATTTAATTTCTTAATAGCATTATA
1 AAAAAATCAAAACATTAAATTATT--TTAATAATATTATCAATTTAACTTCTTAATAGCATTATA
*
472491 AGAGGAAAGAGACCAAATCATGTCACATAATAAATA
64 AGAGGAAAGAGACCAAATCACGTCACATAATAAATA
472527 AAAAAATCAAAACATTAAATTATTTTAATAATATTATCAATTTAACTTCTTAATAGCATTATAAG
1 AAAAAATCAAAACATTAAATTATTTTAATAATATTATCAATTTAACTTCTTAATAGCATTATAAG
472592 AGGAAAGAGACCAAATCACGTCA
66 AGGAAAGAGACCAAATCACGTCA
472615 AATTAAAGTT
Statistics
Matches: 83, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
99 61 0.73
100 6 0.07
101 16 0.19
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (99 bp):
AAAAAATCAAAACATTAAATTATTTTAATAATATTATCAATTTAACTTCTTAATAGCATTATAAG
AGGAAAGAGACCAAATCACGTCACATAATAAATA
Found at i:482724 original size:150 final size:151
Alignment explanation
Indices: 482453--482754 Score: 597
Period size: 150 Copynumber: 2.0 Consensus size: 151
482443 ATGAATCTTT
482453 ATTGTACGAGTTCTTGAGATGTTCATTGTTTTTATATATCGATAATCCTATAAATTAGCTTGTTT
1 ATTGTACGAGTTCTTGAGATGTTCATTGTTTTTATATATCGATAATCCTATAAATTAGCTTGTTT
482518 AGGTTATCCTGATCTTATTCCAATCCTCAGTACGCTTGTGATTTGTTGTTGCCCCTACTGCTCCT
66 AGGTTATCCTGATCTTATTCCAATCCTCAGTACGCTTGTGATTTGTTGTTGCCCCTACTGCTCCT
482583 ATTC-TTTAGTCGATTAATCG
131 ATTCTTTTAGTCGATTAATCG
482603 ATTGTACGAGTTCTTGAGATGTTCATTGTTTTTATATATCGATAATCCTATAAATTAGCTTGTTT
1 ATTGTACGAGTTCTTGAGATGTTCATTGTTTTTATATATCGATAATCCTATAAATTAGCTTGTTT
482668 AGGTTATCCTGATCTTATTCCAATCCTCAGTACGCTTGTGATTTGTTGTTGCCCCTACTGCTCCT
66 AGGTTATCCTGATCTTATTCCAATCCTCAGTACGCTTGTGATTTGTTGTTGCCCCTACTGCTCCT
482733 ATTCTTTTAGTCGATTAATCG
131 ATTCTTTTAGTCGATTAATCG
482754 A
1 A
482755 ATAAAATTTT
Statistics
Matches: 151, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
150 134 0.89
151 17 0.11
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.44
Consensus pattern (151 bp):
ATTGTACGAGTTCTTGAGATGTTCATTGTTTTTATATATCGATAATCCTATAAATTAGCTTGTTT
AGGTTATCCTGATCTTATTCCAATCCTCAGTACGCTTGTGATTTGTTGTTGCCCCTACTGCTCCT
ATTCTTTTAGTCGATTAATCG
Found at i:484422 original size:16 final size:16
Alignment explanation
Indices: 484401--484449 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
484391 TAATAAATAA
484401 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
484417 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
*
484433 ACGAATATAAACGAAC
1 ACGAACATAAACGAAC
484449 A
1 A
484450 TAAACGTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.57, C:0.20, G:0.12, T:0.10
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:485512 original size:34 final size:34
Alignment explanation
Indices: 485474--485558 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 34
485464 TATTGGGTTA
*
485474 AACATAAATGAATGAACATAAACGAACATAAACG
1 AACATAAATGAACGAACATAAACGAACATAAACG
** * * **
485508 AACATAACCGAACGAACATAACCGAACGTTCACG
1 AACATAAATGAACGAACATAAACGAACATAAACG
485542 AACATAAATGAACGAAC
1 AACATAAATGAACGAAC
485559 GAGACCTATG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.53, C:0.21, G:0.13, T:0.13
Consensus pattern (34 bp):
AACATAAATGAACGAACATAAACGAACATAAACG
Found at i:485523 original size:14 final size:14
Alignment explanation
Indices: 485504--485535 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
485494 AACGAACATA
485504 AACGAACATAACCG
1 AACGAACATAACCG
485518 AACGAACATAACCG
1 AACGAACATAACCG
485532 AACG
1 AACG
485536 TTCACGAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.28, G:0.16, T:0.06
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:485534 original size:10 final size:10
Alignment explanation
Indices: 485487--485520 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
485477 ATAAATGAAT
485487 GAACATAAAC
1 GAACATAAAC
485497 GAACATAAAC
1 GAACATAAAC
*
485507 GAACATAACC
1 GAACATAAAC
485517 GAAC
1 GAAC
485521 GAACATAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.56, C:0.24, G:0.12, T:0.09
Consensus pattern (10 bp):
GAACATAAAC
Found at i:489330 original size:15 final size:15
Alignment explanation
Indices: 489310--489339 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
489300 ACAGTCAGAC
489310 TTATTAAAAATTATA
1 TTATTAAAAATTATA
489325 TTATTAAAAATTATA
1 TTATTAAAAATTATA
489340 AAACAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATTAAAAATTATA
Found at i:489385 original size:21 final size:21
Alignment explanation
Indices: 489346--489386 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
489336 TATAAAACAA
*
489346 AAGAAAATAAAGATGCAATAT
1 AAGAAAATAAAGAAGCAATAT
489367 AAGAAAATAAA-AAGACAATA
1 AAGAAAATAAAGAAG-CAATA
489387 AATAATACCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.68, C:0.05, G:0.12, T:0.15
Consensus pattern (21 bp):
AAGAAAATAAAGAAGCAATAT
Found at i:504451 original size:16 final size:17
Alignment explanation
Indices: 504419--504452 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
504409 ATTACTTTGG
*
504419 TATCCGAAATTTTCGGA
1 TATCCGAAATATTCGGA
504436 TATCCGAAA-ATTCGGA
1 TATCCGAAATATTCGGA
504452 T
1 T
504453 CGGATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (17 bp):
TATCCGAAATATTCGGA
Found at i:516706 original size:21 final size:20
Alignment explanation
Indices: 516676--516721 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
516666 TACATTTTTA
516676 ATATTATATAT-TCATGTTAT
1 ATATTATATATAT-ATGTTAT
*
516696 ATATATATATATATATGTTCT
1 ATAT-TATATATATATGTTAT
516717 ATATT
1 ATATT
516722 TTCACATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 5 0.22
21 17 0.74
22 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (20 bp):
ATATTATATATATATGTTAT
Found at i:521653 original size:17 final size:17
Alignment explanation
Indices: 521611--521653 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
521601 ATTTGCTTGT
521611 TTATTTTAGTTATATAA
1 TTATTTTAGTTATATAA
*
521628 TTATATTTA-TTATTTAA
1 TTAT-TTTAGTTATATAA
521645 TATATTTTA
1 T-TATTTTA
521654 CACTTTTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TTATTTTAGTTATATAA
Found at i:521779 original size:27 final size:27
Alignment explanation
Indices: 521741--521796 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
521731 ATGAAGACCT
*
521741 TGATGCTGTGGACA-TTCAAGTTCAAAG
1 TGATGCTATGGA-ATTTCAAGTTCAAAG
*
521768 TGATGCTATGGAATTTTAAGTTCAAAG
1 TGATGCTATGGAATTTCAAGTTCAAAG
521795 TG
1 TG
521797 GTGATGACGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (27 bp):
TGATGCTATGGAATTTCAAGTTCAAAG
Found at i:523701 original size:59 final size:60
Alignment explanation
Indices: 523631--523785 Score: 163
Period size: 60 Copynumber: 2.6 Consensus size: 60
523621 TTCTAAATTG
* ** ** *
523631 TGACTCTAATTCTAAATTGGTTCCCAAACTTTT-AGCATTTTAATTTCATCCCCAAACTA
1 TGACCCTAATTCTAAATTGGTTCCCAAACTTTTGAAAATTCAAATTTCACCCCCAAACTA
* *
523690 TGCATCC-AATTCTAAATTGG-TCCTTAAACTTTTGAAAATTCAAATTTCACCCCCAAACTA
1 TG-ACCCTAATTCTAAATTGGTTCC-CAAACTTTTGAAAATTCAAATTTCACCCCCAAACTA
* ** *
523750 TGACCCTCATTCTAAATTAATGCCCAAACTTTTGAA
1 TGACCCTAATTCTAAATTGGTTCCCAAACTTTTGAA
523786 CATTTCAATT
Statistics
Matches: 77, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
58 3 0.04
59 26 0.34
60 46 0.60
61 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (60 bp):
TGACCCTAATTCTAAATTGGTTCCCAAACTTTTGAAAATTCAAATTTCACCCCCAAACTA
Found at i:529909 original size:20 final size:20
Alignment explanation
Indices: 529884--529924 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
529874 CAGGGGCACA
*
529884 CAAGTTAATTGGAAAAGATG
1 CAAGTTAATAGGAAAAGATG
*
529904 CAAGTTAATAGGAAAATATG
1 CAAGTTAATAGGAAAAGATG
529924 C
1 C
529925 CCATCAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.24
Consensus pattern (20 bp):
CAAGTTAATAGGAAAAGATG
Found at i:541620 original size:23 final size:24
Alignment explanation
Indices: 541590--541634 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
541580 TTAAAGAAAA
* *
541590 ATTATTTATGATAATTT-TAAAGC
1 ATTATTTAGGACAATTTATAAAGC
541613 ATTATTTAGGACAATTTATAAA
1 ATTATTTAGGACAATTTATAAA
541635 AGTAAAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (24 bp):
ATTATTTAGGACAATTTATAAAGC
Found at i:545005 original size:16 final size:16
Alignment explanation
Indices: 544984--545050 Score: 102
Period size: 16 Copynumber: 4.3 Consensus size: 16
544974 GTCTCCAACG
544984 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
545000 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
*
545016 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
545032 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
545046 TTTAT
1 TTTAT
545051 TAAATGAACG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
14 5 0.10
15 2 0.04
16 42 0.86
ACGTcount: A:0.10, C:0.10, G:0.19, T:0.60
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:545023 original size:32 final size:32
Alignment explanation
Indices: 544982--545042 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
544972 GGGTCTCCAA
544982 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
1 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
*
545014 CGTTTATGTTCGTGTTCGTTTATGTTCGT
1 CGTTTATGTTCGTGTTCATTTATGTTCGT
545043 TTATTTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.08, C:0.13, G:0.23, T:0.56
Consensus pattern (32 bp):
CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
Found at i:545133 original size:16 final size:16
Alignment explanation
Indices: 545112--545144 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
545102 AAAAAAAATT
545112 TGTTCGTTTATGTTCA
1 TGTTCGTTTATGTTCA
545128 TGTTCGTTTATGTTCA
1 TGTTCGTTTATGTTCA
545144 T
1 T
545145 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCA
Found at i:548245 original size:64 final size:64
Alignment explanation
Indices: 548177--548298 Score: 183
Period size: 64 Copynumber: 1.9 Consensus size: 64
548167 ACATAAATCC
* * *
548177 TATTCGATGTTTGTA-TTTAAGGGGGGTGCATCGATGCACTACTTGTGCATCGATACACTGATGG
1 TATTCGATGTTTGTATTTTAA-AGGAGTGCATCGATGCACTACATGTGCATCGATACACTGATGG
* *
548241 TATTCGATGTTTTTATTTTAAAGGAGTGCATCGATGCACTTCATGTGCATCGATACAC
1 TATTCGATGTTTGTATTTTAAAGGAGTGCATCGATGCACTACATGTGCATCGATACAC
548299 CTTGAAAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
64 47 0.90
65 5 0.10
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (64 bp):
TATTCGATGTTTGTATTTTAAAGGAGTGCATCGATGCACTACATGTGCATCGATACACTGATGG
Found at i:551079 original size:31 final size:32
Alignment explanation
Indices: 551041--551108 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
551031 TATAAAGTAG
*
551041 TCATTAAA-TTTATTGAATTATTACATAATGA
1 TCATTAAATTTTATTGAATTATTACAAAATGA
* * *
551072 TCATTAAATTTTATTGATTTGTTATAAAATGA
1 TCATTAAATTTTATTGAATTATTACAAAATGA
551104 TCATT
1 TCATT
551109 TTGATCGAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 8 0.25
32 24 0.75
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.49
Consensus pattern (32 bp):
TCATTAAATTTTATTGAATTATTACAAAATGA
Found at i:552914 original size:25 final size:23
Alignment explanation
Indices: 552886--552936 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
552876 ATAATAATAG
*
552886 TAATTAAATATGATGTGTTTTAATT
1 TAATTAAATAAGAT-TGTTTT-ATT
**
552911 TAATTTTATAAGATTGTTTTATT
1 TAATTAAATAAGATTGTTTTATT
552934 TAA
1 TAA
552937 AACATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 6 0.26
24 6 0.26
25 11 0.48
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (23 bp):
TAATTAAATAAGATTGTTTTATT
Found at i:555994 original size:16 final size:16
Alignment explanation
Indices: 555981--556015 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
555971 AAAACAACAT
555981 GAAACAAAATCAACTC
1 GAAACAAAATCAACTC
* *
555997 GAACCAAAATCAACCC
1 GAAACAAAATCAACTC
556013 GAA
1 GAA
556016 CCGAAAGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.29, G:0.09, T:0.09
Consensus pattern (16 bp):
GAAACAAAATCAACTC
Found at i:556016 original size:16 final size:16
Alignment explanation
Indices: 555985--556028 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
555975 CAACATGAAA
*
555985 CAAAATCAACTCGAAC
1 CAAAATCAACCCGAAC
556001 CAAAATCAACCCGAAC
1 CAAAATCAACCCGAAC
* *
556017 CGAAAGCAACCC
1 CAAAATCAACCC
556029 AAATAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.48, C:0.36, G:0.09, T:0.07
Consensus pattern (16 bp):
CAAAATCAACCCGAAC
Found at i:556780 original size:31 final size:32
Alignment explanation
Indices: 556745--556818 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
556735 GACTTTTCAA
*
556745 TCCGATATTGA-TCGACCCGAAAACTAACCAG
1 TCCGATATTGATTCGACCCGAAAACCAACCAG
* ** **
556776 TCCGATATTAATTCGACTTGAAAACCAACTGG
1 TCCGATATTGATTCGACCCGAAAACCAACCAG
556808 TCCGATATTGA
1 TCCGATATTGA
556819 CCCGACCCAC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
31 10 0.29
32 25 0.71
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (32 bp):
TCCGATATTGATTCGACCCGAAAACCAACCAG
Found at i:560848 original size:19 final size:18
Alignment explanation
Indices: 560811--560850 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
560801 AAATTCAACG
560811 ATTAAATTTATTAATATA
1 ATTAAATTTATTAATATA
* *
560829 ATTATATTTTTTATATATA
1 ATTAAATTTATTA-ATATA
560848 ATT
1 ATT
560851 TTTTGAACCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTAAATTTATTAATATA
Found at i:561222 original size:20 final size:21
Alignment explanation
Indices: 561197--561241 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
561187 TCAGTAAGTG
561197 TTATAA-AATTTAATATA-TTT
1 TTATAATAATTTAA-ATACTTT
*
561217 TTATAATATTTTAAATACTTT
1 TTATAATAATTTAAATACTTT
561238 TTAT
1 TTAT
561242 TCACAGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTATAATAATTTAAATACTTT
Found at i:562198 original size:134 final size:134
Alignment explanation
Indices: 562008--562260 Score: 316
Period size: 134 Copynumber: 1.9 Consensus size: 134
561998 CCATAAAGAT
* * * *
562008 CTAAGCTTGTTCTTAAAGATTACTCATTATTTACTTAATGCTGTTATTTGCAAAATAGAAACCTC
1 CTAAACTTGTTCATAAAGATTACTCATCATTTACTAAATGCTGTTATTTGCAAAATAGAAA--TC
* * *
562073 G-GCGTTTCTTT-TGGTTTGGCCATTCTTTGAATATAT-GAATGAATTTTGGAATTTCAAAGCTA
64 GAGCGTTTCTTTAAGG-TTGACCATTCTTTGAATATATAGAATGAATCTTGGAATTTCAAAGCTA
562135 TTATTTG
128 TTATTTG
* * * *
562142 CTAAACTTGTTCATAAATATTAGTCATCATTTAGTAAACT-CTGTTATTTGCAAAATAGAAATTG
1 CTAAACTTGTTCATAAAGATTACTCATCATTTACTAAA-TGCTGTTATTTGCAAAATAGAAATCG
* *
562206 ATGCGTTTCTTTAAGGTTGACCTTTCTTTGAATATATATAATGAATCTTGGAATT
65 A-GCGTTTCTTTAAGGTTGACCATTCTTTGAATATATAGAATGAATCTTGGAATT
562261 ACAGTAAATA
Statistics
Matches: 101, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
132 2 0.02
134 81 0.80
135 18 0.18
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (134 bp):
CTAAACTTGTTCATAAAGATTACTCATCATTTACTAAATGCTGTTATTTGCAAAATAGAAATCGA
GCGTTTCTTTAAGGTTGACCATTCTTTGAATATATAGAATGAATCTTGGAATTTCAAAGCTATTA
TTTG
Found at i:583585 original size:14 final size:14
Alignment explanation
Indices: 583566--583602 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
583556 ATACCCGATG
583566 AAGATGACAAATGA
1 AAGATGACAAATGA
583580 AAGATGACAAATGA
1 AAGATGACAAATGA
583594 AAGATGACA
1 AAGATGACA
583603 GTAGGAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.57, C:0.08, G:0.22, T:0.14
Consensus pattern (14 bp):
AAGATGACAAATGA
Found at i:590468 original size:43 final size:42
Alignment explanation
Indices: 590352--590469 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 42
590342 TCCGATCCAA
*
590352 ATTA-AATATATTAATATTTTAAAATAATTAAAATAATATATTT
1 ATTATAATATATT-ATATTTT-AAACAATTAAAATAATATATTT
* * * **
590395 ATAATTATTTATTATATTTTAAACTGTTAAAATAATATAATTT
1 ATTATAATATATTATATTTTAAACAATTAAAATAATAT-ATTT
*
590438 ATTATAATATATTATATTTTTAACAATTAAAA
1 ATTATAATATATTATATTTTAAACAATTAAAA
590470 ACCTATTTTA
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 15 0.25
43 40 0.66
44 6 0.10
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (42 bp):
ATTATAATATATTATATTTTAAACAATTAAAATAATATATTT
Found at i:595452 original size:15 final size:17
Alignment explanation
Indices: 595419--595452 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
595409 CGTATCCAAT
595419 AGTTCCAGATTATTAGA
1 AGTTCCAGATTATTAGA
595436 AGTTCCA-ATTA-TAGA
1 AGTTCCAGATTATTAGA
595451 AG
1 AG
595453 CTTCTTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 4 0.24
17 7 0.41
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (17 bp):
AGTTCCAGATTATTAGA
Found at i:607885 original size:18 final size:18
Alignment explanation
Indices: 607853--607899 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
607843 GCCGCCGGAG
* *
607853 CAGCCTCTTTGGGTTTCT
1 CAGCTTCTTTCGGTTTCT
*
607871 CCGCTTCTTTCGGTTTCT
1 CAGCTTCTTTCGGTTTCT
*
607889 CAGCTTTTTTC
1 CAGCTTCTTTC
607900 TCCCCACCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.04, C:0.30, G:0.17, T:0.49
Consensus pattern (18 bp):
CAGCTTCTTTCGGTTTCT
Found at i:607930 original size:18 final size:18
Alignment explanation
Indices: 607909--607945 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
607899 CTCCCCACCA
607909 TCTTTAGGCTTCTCAGCC
1 TCTTTAGGCTTCTCAGCC
* *
607927 TCTTTTGGTTTCTCAGCC
1 TCTTTAGGCTTCTCAGCC
607945 T
1 T
607946 TCTCCTCAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.30, G:0.16, T:0.46
Consensus pattern (18 bp):
TCTTTAGGCTTCTCAGCC
Found at i:607968 original size:48 final size:48
Alignment explanation
Indices: 607909--608020 Score: 125
Period size: 48 Copynumber: 2.3 Consensus size: 48
607899 CTCCCCACCA
* * *
607909 TCTTTAGGCTTCTCAGCCTCTTTTGGTTTCTCAGCCTTCTCCTCAGAT
1 TCTTTAGGCTTCTCAGCCTCTTTCGGCTTCTCAGCCTTCTCCTCAGAC
** * ** * *
607957 TCTTTAGGCTTCTTGGCCTCTTTCGGCTTCTCCGGTTTCTTCTCAGCC
1 TCTTTAGGCTTCTCAGCCTCTTTCGGCTTCTCAGCCTTCTCCTCAGAC
*
608005 TCTTTCGGCTTCTCAG
1 TCTTTAGGCTTCTCAG
608021 GTTTCTTCTG
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.07, C:0.32, G:0.17, T:0.44
Consensus pattern (48 bp):
TCTTTAGGCTTCTCAGCCTCTTTCGGCTTCTCAGCCTTCTCCTCAGAC
Found at i:607999 original size:30 final size:30
Alignment explanation
Indices: 607965--608102 Score: 186
Period size: 30 Copynumber: 4.6 Consensus size: 30
607955 ATTCTTTAGG
* *
607965 CTTCTTGGCCTCTTTCGGCTTCTCCGGTTT
1 CTTCTCGGCCTCTTTCGGCTTCTCGGGTTT
* *
607995 CTTCTCAGCCTCTTTCGGCTTCTCAGGTTT
1 CTTCTCGGCCTCTTTCGGCTTCTCGGGTTT
* * *
608025 CTTCTGGGCCTCCTTAGGCTTCTCGGGTTT
1 CTTCTCGGCCTCTTTCGGCTTCTCGGGTTT
* *
608055 CTTCTGGGCCTCTTTAGGCTTCTCGGGTTT
1 CTTCTCGGCCTCTTTCGGCTTCTCGGGTTT
*
608085 CTTCTCAGCCTCTTTCGG
1 CTTCTCGGCCTCTTTCGG
608103 TTTGTACGGT
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 96 1.00
ACGTcount: A:0.04, C:0.32, G:0.22, T:0.43
Consensus pattern (30 bp):
CTTCTCGGCCTCTTTCGGCTTCTCGGGTTT
Found at i:610177 original size:18 final size:17
Alignment explanation
Indices: 610156--610189 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
610146 TAGTTAGTTC
610156 TTATAAAATATATTTTTA
1 TTAT-AAATATATTTTTA
*
610174 TTATAATTATATTTTT
1 TTATAAATATATTTTT
610190 TATATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATAAATATATTTTTA
Found at i:614524 original size:12 final size:12
Alignment explanation
Indices: 614509--614538 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
614499 TTAAAATATT
614509 ATTTAAATTTTA
1 ATTTAAATTTTA
614521 ATTTAAATTTTA
1 ATTTAAATTTTA
614533 ATTTAA
1 ATTTAA
614539 TATTCATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTTAAATTTTA
Found at i:616920 original size:3 final size:3
Alignment explanation
Indices: 616912--616957 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
616902 CTTTTTTGTA
**
616912 TAT TAT TAT CGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
616958 TAATTTACAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:621019 original size:27 final size:27
Alignment explanation
Indices: 620989--621041 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
620979 ATTTTACATG
620989 TACTAACTTATTT-TTCTCTTTTGTTTA
1 TACTAACTTATTTCTTCTC-TTTGTTTA
621016 TACTAACTTATTTCTTCTCTTTGTTT
1 TACTAACTTATTTCTTCTCTTTGTTT
621042 GTGTCATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.17, C:0.17, G:0.04, T:0.62
Consensus pattern (27 bp):
TACTAACTTATTTCTTCTCTTTGTTTA
Done.