Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008199.1 Hibiscus syriacus cultivar Beakdansim tig00110819_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: 2638622
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 11
Found at i:304428 original size:21 final size:21
Alignment explanation
Indices: 304403--304442 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
304393 AAATGGGGAA
*
304403 AATCGGTACCCCTTCATAAAT
1 AATCGATACCCCTTCATAAAT
304424 AATCGATACCCCTTCATAA
1 AATCGATACCCCTTCATAA
304443 TATTCAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.30, G:0.07, T:0.28
Consensus pattern (21 bp):
AATCGATACCCCTTCATAAAT
Found at i:304575 original size:19 final size:19
Alignment explanation
Indices: 304548--304596 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
304538 AGCCTCGGGG
*
304548 TACTGTTCAAACAATGATT
1 TACTGTTCAAACAATAATT
* * *
304567 TACTATTCAAATAGTAATT
1 TACTGTTCAAACAATAATT
304586 TACTGTTCAAA
1 TACTGTTCAAA
304597 TAGTAAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (19 bp):
TACTGTTCAAACAATAATT
Found at i:304597 original size:19 final size:19
Alignment explanation
Indices: 304564--304613 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
304554 TCAAACAATG
304564 ATTTACTATTCAAATAGTA
1 ATTTACTATTCAAATAGTA
*
304583 ATTTACTGTTCAAATAGTA
1 ATTTACTATTCAAATAGTA
*
304602 AATTACTATTCA
1 ATTTACTATTCA
304614 TAAAAACATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (19 bp):
ATTTACTATTCAAATAGTA
Found at i:304710 original size:29 final size:30
Alignment explanation
Indices: 304678--304735 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
304668 AAATTTTGAA
304678 TAAATTCAATT-AAGTCC-AAATACATTTTG
1 TAAATTCAATTCAAGTCCAAAAT-CATTTTG
304707 TAAATTCAATTCAAGTCCAAAATCATTTT
1 TAAATTCAATTCAAGTCCAAAATCATTTT
304736 TCCTTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 12 0.44
31 4 0.15
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (30 bp):
TAAATTCAATTCAAGTCCAAAATCATTTTG
Found at i:314860 original size:163 final size:164
Alignment explanation
Indices: 314653--314974 Score: 502
Period size: 163 Copynumber: 2.0 Consensus size: 164
314643 TTACCTGACA
* * *
314653 AACAACTGTGAAAGGCCCTATGAGGGAAGGAAGGGAATGAGGGAGTACATCGCCATGCATTTTAT
1 AACAACTGTGAAAAGCCCTATGAGGGAAGGAAGGGAACGAGGGAGTACATCACCATGCATTTTAT
* * * * * **
314718 GCTTGTCATACCCCAGCAGTGCCTGCACGAATTAATGGAAGCAAATTACTGGAGAGCCACTTGTC
66 GCTTGTCATACCCCAGCAGTGCCTGCACAAATTAATGGAACCAAATTACAGAAGAACCACAAGTC
*
314783 AAAATAGAAAATAAAGATAATAAATGTTAGAAAC
131 AAAAAAGAAAATAAAGATAATAAATGTTAGAAAC
* *
314817 AACAACTGTGAAAAGCTCTAT-AGGGAAGGAATGGAACGAGGGAGTACATCACCATGCATTTTAT
1 AACAACTGTGAAAAGCCCTATGAGGGAAGGAAGGGAACGAGGGAGTACATCACCATGCATTTTAT
* *
314881 GCTTGTCATACCCCAGCAGTGCCTGCACAAATTAATGGAACCAAATTACAGAATAACCCCAAGTC
66 GCTTGTCATACCCCAGCAGTGCCTGCACAAATTAATGGAACCAAATTACAGAAGAACCACAAGTC
314946 AAAAAAGAAAATAAAGATAATAAATGTTA
131 AAAAAAGAAAATAAAGATAATAAATGTTA
314975 AAGACAATGG
Statistics
Matches: 143, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
163 124 0.87
164 19 0.13
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (164 bp):
AACAACTGTGAAAAGCCCTATGAGGGAAGGAAGGGAACGAGGGAGTACATCACCATGCATTTTAT
GCTTGTCATACCCCAGCAGTGCCTGCACAAATTAATGGAACCAAATTACAGAAGAACCACAAGTC
AAAAAAGAAAATAAAGATAATAAATGTTAGAAAC
Found at i:321779 original size:13 final size:13
Alignment explanation
Indices: 321761--321787 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
321751 ACCCGATAGA
321761 TTTTTTCACAATT
1 TTTTTTCACAATT
321774 TTTTTTCACAATT
1 TTTTTTCACAATT
321787 T
1 T
321788 AAAACGTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTTTCACAATT
Found at i:325960 original size:162 final size:163
Alignment explanation
Indices: 325685--326011 Score: 442
Period size: 162 Copynumber: 2.0 Consensus size: 163
325675 TTACCGGACA
* * * * * * *
325685 AACAACTGTGAAAGGCCCTATGAGGGAAGGAACGGAATGAGGGAGTACAACGCCATGCATTTTAT
1 AACAACTGTGAAAGACCCTATGAGGGAACGAACAGAACGAGGCAGTACAACACAATGCATTTTAT
* ** * * **
325750 GCTTGTCATACCCCATCAGTGCCTGCACAAATTAATGGAAGGAAATTACTGGAGAGCCACTTGTC
66 GCTTGTCATACCCCAGCAGTGCCTGCACAAATTAATGGAACCAAATTACAGGAGAACCACAAGTC
325815 -AAATAG-AAATAAAGATAATAAATGTTAGAAAC
131 AAAATAGAAAATAAAGAT-ATAAATGTTAGAAAC
* * * *
325847 AACAACTGTGAAAGACTCTATGAGGGATCGAACAGAACGAGGCATTACAGCACAATGCATTTTAT
1 AACAACTGTGAAAGACCCTATGAGGGAACGAACAGAACGAGGCAGTACAACACAATGCATTTTAT
* *
325912 GCTTGTCATACTCCAGCAGTGCCTGCACAAATTAATGGAACCAAATTACAGGAGAACCCCAAGTC
66 GCTTGTCATACCCCAGCAGTGCCTGCACAAATTAATGGAACCAAATTACAGGAGAACCACAAGTC
*
325977 AAAATAGAAAATAAAGATATAAATGTTAGAGAC
131 AAAATAGAAAATAAAGATATAAATGTTAGAAAC
326010 AA
1 AA
326012 TGGAGGAAGA
Statistics
Matches: 142, Mismatches: 21, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
162 110 0.77
163 22 0.15
164 10 0.07
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (163 bp):
AACAACTGTGAAAGACCCTATGAGGGAACGAACAGAACGAGGCAGTACAACACAATGCATTTTAT
GCTTGTCATACCCCAGCAGTGCCTGCACAAATTAATGGAACCAAATTACAGGAGAACCACAAGTC
AAAATAGAAAATAAAGATATAAATGTTAGAAAC
Found at i:327557 original size:165 final size:163
Alignment explanation
Indices: 327330--327655 Score: 467
Period size: 165 Copynumber: 2.0 Consensus size: 163
327320 TTACCGGACA
* * * **
327330 AACAACTGTGAAAGGCCCTATGAGGGAATGAATGGAATGAGGGAATACATCGTCATGCATTTTAT
1 AACAACTGTGAAAGGCCCTATGAGGGAATGAACGGAACGAGGGAATACAACACCATGCATTTTAT
* * ***
327395 GCTTGTCATACCCCAGCAATGCCTGCACAAATTAATGGAAGCAAATTACTGAAG-AGCCACTTGT
66 GCTTGTCATACCCCAGCAATGCCTGCACAAATTAATGGAACCAAATTACAGAAGTA-CCACAAAT
327459 CAAAATAGAAAATAAAGATAATAAATGTTAGAAC
130 CAAAATAGAAAATAAAGATAATAAATGTTAGAAC
*
327493 AACAACTGTGAAAGGCTCTCTATGAGGGACA-GAACGGAACGAGGGAGTACAACACCATGCATTT
1 AACAACTGTGAAAGGC-C-CTATGAGGGA-ATGAACGGAACGAGGGAATACAACACCATGCATTT
* * * *
327557 TATGCTTGTCATACCCCAGCAGTGCCTGTACAAATTAATGGAACCAAATTACAGGAGTACCCCAA
63 TATGCTTGTCATACCCCAGCAATGCCTGCACAAATTAATGGAACCAAATTACAGAAGTACCACAA
327622 ATCAAAATAGAAAATAAAGATAATAAATGTTAGA
128 ATCAAAATAGAAAATAAAGATAATAAATGTTAGA
327656 GACATGCAGG
Statistics
Matches: 144, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
163 16 0.11
164 1 0.01
165 125 0.87
166 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (163 bp):
AACAACTGTGAAAGGCCCTATGAGGGAATGAACGGAACGAGGGAATACAACACCATGCATTTTAT
GCTTGTCATACCCCAGCAATGCCTGCACAAATTAATGGAACCAAATTACAGAAGTACCACAAATC
AAAATAGAAAATAAAGATAATAAATGTTAGAAC
Found at i:329174 original size:274 final size:270
Alignment explanation
Indices: 328685--329232 Score: 969
Period size: 274 Copynumber: 2.0 Consensus size: 270
328675 TCAATGCCAA
328685 ACCTTCTCATATAACTTACGGTATGTACAAGACACAATAGTCAAACATAAATGAAGCAGAATTCA
1 ACCTTCTCATATAACTTACGGTATGTACAAGACACAATAGTCAAACATAAATGAAGCAGAATTCA
328750 AAATCCGCCACCTGCATTACAGTCAAAGTGACAGAGTCTTTCTTGTTATTCCAGCCACCGGGTAC
66 AAATCCGCCACCTGCATTACAGTCAAAGTGACA-AGTCTTTCTTGTTATTCCAGCCACCGGGTAC
328815 TTCAAAAACAAGAGCGAAATGGGTACTCTGCAATTTACAACCAAAACATTCAATCTACAACAAGA
130 TTCAAAAACAAGAGCGAAATGGGTACTCTGCAATTTACAACCAAAACATTCAATCTACAACAAGA
*
328880 AGAAATCTTGAAGTTAAAAAAAGTTACATTTTTTATCATATTTCCTTATTTTATTTATATCATAT
195 AGAAATCTTGAAGTT-AAAAAAGTTACATTTTTTATCATATTTCCTTATTTTA-TTATATCAGAT
328945 GAATGGTAAAATGT
258 G-ATGGTAAAATGT
328959 ACCTTCTCATATAACTTACGGTATGTACAAGACACAATAGTATGTCAAACAATAAATGAAGCAGA
1 ACCTTCTCATATAACTTACGGTATGTACAAGACAC-A-A-TA-GTCAAAC-ATAAATGAAGCAGA
329024 ATTCAAAATCCGCCACCTGCATTACAGTCAAAGTGAC-AGTCTTTC-TGTTATTCCAGCCACC-G
61 ATTCAAAATCCGCCACCTGCATTACAGTCAAAGTGACAAGTCTTTCTTGTTATTCCAGCCACCGG
329086 GTACTTC-AAAACAAGAGCGAAATGGGTACTCTGCAATTTACAACCAAAACATTCAATCTACAAC
126 GTACTTCAAAAACAAGAGCGAAATGGGTACTCTGCAATTTACAACCAAAACATTCAATCTACAAC
*
329150 AAGAAGAAATCTTGAAGTTAAAAAAGTTACATTTTTTATCATCTTTCCTTATTTTATTATATCAG
191 AAGAAGAAATCTTGAAGTTAAAAAAGTTACATTTTTTATCATATTTCCTTATTTTATTATATCAG
329215 ATGATGGTAAAATGT
256 ATGATGGTAAAATGT
329230 ACC
1 ACC
329233 AGTGAATCAG
Statistics
Matches: 267, Mismatches: 2, Indels: 13
0.95 0.01 0.05
Matches are distributed among these distances:
271 15 0.06
272 11 0.04
273 36 0.13
274 111 0.42
275 9 0.03
276 17 0.06
277 10 0.04
278 7 0.03
279 51 0.19
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (270 bp):
ACCTTCTCATATAACTTACGGTATGTACAAGACACAATAGTCAAACATAAATGAAGCAGAATTCA
AAATCCGCCACCTGCATTACAGTCAAAGTGACAAGTCTTTCTTGTTATTCCAGCCACCGGGTACT
TCAAAAACAAGAGCGAAATGGGTACTCTGCAATTTACAACCAAAACATTCAATCTACAACAAGAA
GAAATCTTGAAGTTAAAAAAGTTACATTTTTTATCATATTTCCTTATTTTATTATATCAGATGAT
GGTAAAATGT
Found at i:331193 original size:272 final size:271
Alignment explanation
Indices: 330705--331251 Score: 985
Period size: 272 Copynumber: 2.0 Consensus size: 271
330695 TCAATGCCAA
330705 ACCTTCTCATATAACTTACGGTATGTACAAGACACAATAGTATGTCAAACAATAAATGAAGCAGA
1 ACCTTCTCATATAACTTACGGTATGTACAAGACACAATAG-ATGTCAAACAATAAATGAAGCAGA
330770 ATTCAAAATCCGCCACCTGCATTACAGTCAAAGTGACAGAATCTTTCTTGTTATCCAGCCACCGG
65 ATTCAAAATCCGCCACCTGCATTACAGTCAAAGTGACAGAATCTTTCTTGTTATCCAGCCACCGG
330835 GTACTTCAAAACAAGAGCGAAATGGGTACTCTGCAATTTACAACCAAAACATTCAATCTACAACA
130 GTACTTCAAAACAAGAGCGAAATGGGTACTCTGCAATTTACAACCAAAACATTCAATCTACAACA
*
330900 AGAAGAAATCTTGAAGTTAAAAAAGTTACA-TTTTATCATCTTTCCTTATTTTATTTATATCATA
195 AGAAGAAATCTTGAAGTTAAAAAAGTTACATTTTTATCATCTTTCCTTA-TTT-TTTATATCAGA
330964 TGAATGGTAAAATGT
258 TGAAT-GTAAAATGT
330979 ACCTTCTCATATAACTTACGGTATGTACAAGACACAATAG-TGTCAAACAATAAATGAAGCAGAA
1 ACCTTCTCATATAACTTACGGTATGTACAAGACACAATAGATGTCAAACAATAAATGAAGCAGAA
*
331043 TTCAAAATCCGCCACCTGCATTACAGTCAAAGTGACAGAGTCTTTCTTGTTATTCCAGCCA-CGG
66 TTCAAAATCCGCCACCTGCATTACAGTCAAAGTGACAGAATCTTTCTTGTTA-TCCAGCCACCGG
*
331107 GT-TTTCAAAAACAAGAGCGAAATGGGTACTCTGCAATTTACAACCAAAACATTCAATCTACAAC
130 GTACTTC-AAAACAAGAGCGAAATGGGTACTCTGCAATTTACAACCAAAACATTCAATCTACAAC
331171 AAGAAGAAATCTTGAAGTTAAAAAAGTTACATTTTTATCATCTTTCCTTATTTTTTATATCAGAT
194 AAGAAGAAATCTTGAAGTTAAAAAAGTTACATTTTTATCATCTTTCCTTATTTTTTATATCAGAT
331236 GAATGTAAAATGT
259 GAATGTAAAATGT
331249 ACC
1 ACC
331252 AGTGAATCAG
Statistics
Matches: 267, Mismatches: 3, Indels: 10
0.95 0.01 0.04
Matches are distributed among these distances:
270 12 0.04
271 18 0.07
272 171 0.64
273 26 0.10
274 40 0.15
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (271 bp):
ACCTTCTCATATAACTTACGGTATGTACAAGACACAATAGATGTCAAACAATAAATGAAGCAGAA
TTCAAAATCCGCCACCTGCATTACAGTCAAAGTGACAGAATCTTTCTTGTTATCCAGCCACCGGG
TACTTCAAAACAAGAGCGAAATGGGTACTCTGCAATTTACAACCAAAACATTCAATCTACAACAA
GAAGAAATCTTGAAGTTAAAAAAGTTACATTTTTATCATCTTTCCTTATTTTTTATATCAGATGA
ATGTAAAATGT
Found at i:343605 original size:36 final size:36
Alignment explanation
Indices: 343558--343631 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
343548 CTGAAACCTT
*
343558 CATTTGCAGAAGTAACTCATAGCTAACTAAGACTTG
1 CATTTGCAGAAGCAACTCATAGCTAACTAAGACTTG
* *
343594 CATTTGCAGAAGCAACTCATTGCTAACTCAGACTTG
1 CATTTGCAGAAGCAACTCATAGCTAACTAAGACTTG
343630 CA
1 CA
343632 CCAATATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (36 bp):
CATTTGCAGAAGCAACTCATAGCTAACTAAGACTTG
Found at i:344534 original size:27 final size:26
Alignment explanation
Indices: 344473--344534 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
344463 TTTAATTAGA
* * *
344473 AAAAAATTATTTTACTCAATTTATTT
1 AAAAATTTATTTCACTCAATTGATTT
* * *
344499 TAAATTTTATTTCACTTAACTTGATTT
1 AAAAATTTATTTCACTCAA-TTGATTT
344526 AAAAATTTA
1 AAAAATTTA
344535 AATTATGCTA
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (26 bp):
AAAAATTTATTTCACTCAATTGATTT
Found at i:351486 original size:23 final size:24
Alignment explanation
Indices: 351444--351512 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 24
351434 CACCACAGCT
*
351444 CGTATAAATGCACCGAAGTGCCAG
1 CGTAGAAATGCACCGAAGTGCCAG
* *
351468 -GTAGAACTGCACCGTAGTGCC-G
1 CGTAGAAATGCACCGAAGTGCCAG
*
351490 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
351513 TATAATAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
22 1 0.03
23 36 0.97
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (24 bp):
CGTAGAAATGCACCGAAGTGCCAG
Found at i:352954 original size:21 final size:21
Alignment explanation
Indices: 352930--352974 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
352920 TTTTGTTCGT
*
352930 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
352951 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
352972 TTG
1 TTG
352975 CCCAGAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:362702 original size:23 final size:23
Alignment explanation
Indices: 362653--362715 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 23
362643 AATATTGTAT
* * **
362653 TTTAATTAAATTATATTTAGATT
1 TTTAATTAATTTATAATTAGACG
*
362676 TTTAATTAATTTATAATTATACG
1 TTTAATTAATTTATAATTAGACG
* *
362699 TTT-AGTATTTTATAATT
1 TTTAATTAATTTATAATT
362716 TTAATATTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 12 0.36
23 21 0.64
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (23 bp):
TTTAATTAATTTATAATTAGACG
Found at i:362718 original size:16 final size:16
Alignment explanation
Indices: 362699--362729 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
362689 TAATTATACG
*
362699 TTTAGTATTTTATAAT
1 TTTAATATTTTATAAT
362715 TTTAATATTTTATAA
1 TTTAATATTTTATAA
362730 ATTAATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TTTAATATTTTATAAT
Found at i:363556 original size:2 final size:2
Alignment explanation
Indices: 363549--363573 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
363539 TTATGGCATA
363549 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
363574 ATGGCAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:365793 original size:2 final size:2
Alignment explanation
Indices: 365786--365821 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
365776 AAATAAGTAA
365786 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
365822 CAAAGTGGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:369594 original size:82 final size:82
Alignment explanation
Indices: 369503--369656 Score: 179
Period size: 82 Copynumber: 1.9 Consensus size: 82
369493 AGTACTTTAG
* * * *
369503 CGGCATTTATGAAA-AAACATCGCA-ACAATATTGTATATAGTGGCGTTTG-TGATACAAACGAC
1 CGGCATTTATCAAAGAAACACCGCAGA-AAGATTGT-TATAGTGGCGTTTGTTCAT-CAAACGAC
369565 GCTATAGAGTGATAAATTAC
63 GCTATAGAGTGATAAATTAC
* * * * *
369585 CGGCGTTTATCAAAGAAACGCCGCAGAAGGATTGTTATAGTGGCGTTTGTTCATTAAACGCCGCT
1 CGGCATTTATCAAAGAAACACCGCAGAAAGATTGTTATAGTGGCGTTTGTTCATCAAACGACGCT
369650 ATAGAGT
66 ATAGAGT
369657 AGTAATATAG
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
82 42 0.70
83 17 0.28
84 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (82 bp):
CGGCATTTATCAAAGAAACACCGCAGAAAGATTGTTATAGTGGCGTTTGTTCATCAAACGACGCT
ATAGAGTGATAAATTAC
Found at i:375391 original size:45 final size:41
Alignment explanation
Indices: 375301--375468 Score: 128
Period size: 42 Copynumber: 3.9 Consensus size: 41
375291 TATGTACCCT
*
375301 AAAAATGCCGCTAAATACCAGAC-CTATTGCGGCGTTTTCATAAA
1 AAAAATGCCGCTAAATATCA-ACACTATTGCGGCGTTTTC-T--A
* *
375345 AAAAATGCCGCAAAATATCAACACTTATTGCGGCGTTTGT-GA
1 AAAAATGCCGCTAAATATCAACAC-TATTGCGGCGTTT-TCTA
* *
375387 AAAAATGCCGCTAAATATTAACACATATTGTGGCGTTTT-TA
1 AAAAATGCCGCTAAATATCAACAC-TATTGCGGCGTTTTCTA
* * * *
375428 AGACAAACGACGCTATATATCGTTAC-CTATTGCGGCGTTTT
1 A-A-AAATGCCGCTAAATATC--AACACTATTGCGGCGTTTT
375469 TGGTTAACAA
Statistics
Matches: 103, Mismatches: 14, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
41 3 0.03
42 36 0.35
43 28 0.27
44 20 0.19
45 15 0.15
46 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (41 bp):
AAAAATGCCGCTAAATATCAACACTATTGCGGCGTTTTCTA
Found at i:375403 original size:42 final size:43
Alignment explanation
Indices: 375301--375424 Score: 137
Period size: 42 Copynumber: 2.9 Consensus size: 43
375291 TATGTACCCT
*
375301 AAAAATGCCGCTAAATACCAGAC-CTATTGCGGCGTTTTCATAAA
1 AAAAATGCCGCTAAATATCA-ACACTATTGCGGCG-TTTCATAAA
* * *
375345 AAAAATGCCGCAAAATATCAACACTTATTGCGGCGTTT-GT-GA
1 AAAAATGCCGCTAAATATCAACAC-TATTGCGGCGTTTCATAAA
* *
375387 AAAAATGCCGCTAAATATTAACACATATTGTGGCGTTT
1 AAAAATGCCGCTAAATATCAACAC-TATTGCGGCGTTT
375425 TTAAGACAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 35 0.50
43 3 0.04
44 22 0.31
45 10 0.14
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (43 bp):
AAAAATGCCGCTAAATATCAACACTATTGCGGCGTTTCATAAA
Found at i:380585 original size:14 final size:14
Alignment explanation
Indices: 380566--380592 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
380556 TTGATCTCAA
380566 ATATAAGTAACATT
1 ATATAAGTAACATT
380580 ATATAAGTAACAT
1 ATATAAGTAACAT
380593 GCTTTTTTTT
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:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (14 bp):
ATATAAGTAACATT
Found at i:387872 original size:22 final size:22
Alignment explanation
Indices: 387845--387891 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
387835 TCTGATGAAT
*
387845 TTTAACTTAAAATGTTATCATA
1 TTTAACTTAAAATATTATCATA
387867 TTTAACTTAAAATATTATCATA
1 TTTAACTTAAAATATTATCATA
387889 TTT
1 TTT
387892 GTAACATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTAACTTAAAATATTATCATA
Found at i:392061 original size:31 final size:31
Alignment explanation
Indices: 392023--392100 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
392013 AGTTATGTCG
*
392023 GGGACCATATTGTAAACGGACTAAATTTTGA
1 GGGACCATATTGTAAACGGACTAAATGTTGA
* * *
392054 GGGACCATATTGCAAATGGACTAAATGTTGG
1 GGGACCATATTGTAAACGGACTAAATGTTGA
**
392085 GGGATTATATTGTAAA
1 GGGACCATATTGTAAA
392101 TTTTAAAAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (31 bp):
GGGACCATATTGTAAACGGACTAAATGTTGA
Found at i:393009 original size:30 final size:30
Alignment explanation
Indices: 392956--393038 Score: 114
Period size: 30 Copynumber: 2.8 Consensus size: 30
392946 CACTTTTAAA
*
392956 ATTTGCAATATAATCCCCAACATTTAGT-C
1 ATTTGCAATATGATCCCCAACATTTAGTCC
* *
392985 ATTTGTAATATGGTCCCTCAACATTTAGTCC
1 ATTTGCAATATGATCCC-CAACATTTAGTCC
*
393016 GTTTGCAATATGATCCCCAACAT
1 ATTTGCAATATGATCCCCAACAT
393039 AACTGTTGGG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
29 14 0.30
30 17 0.37
31 15 0.33
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (30 bp):
ATTTGCAATATGATCCCCAACATTTAGTCC
Found at i:396660 original size:27 final size:26
Alignment explanation
Indices: 396580--396660 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 26
396570 TTATTATTTC
*
396580 TACCGGTTTTGTTATTATTGGGCGTTT
1 TACCGATTTTGTTATTATTGGGC-TTT
*
396607 TATCGATTTTGTTATT-TT----TTT
1 TACCGATTTTGTTATTATTGGGCTTT
*
396628 CTACCGATTTTGTTATTATTGGGCACTT
1 -TACCGATTTTGTTATTATTGGGC-TTT
396656 TACCG
1 TACCG
396661 GAAATGTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
21 3 0.07
22 15 0.35
23 2 0.05
26 2 0.05
27 19 0.44
28 2 0.05
ACGTcount: A:0.15, C:0.14, G:0.19, T:0.53
Consensus pattern (26 bp):
TACCGATTTTGTTATTATTGGGCTTT
Found at i:396669 original size:49 final size:49
Alignment explanation
Indices: 396576--396669 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 49
396566 AACATTATTA
* ** * **
396576 TTTCTACCGGTTTTGTTATTATTGGGCGTTTTATCGATTTTGTTATTTT
1 TTTCTACCGATTTTGTTATTATTGGGCACTTTACCGATAATGTTATTTT
396625 TTTCTACCGATTTTGTTATTATTGGGCACTTTACCGGA-AATGTTA
1 TTTCTACCGATTTTGTTATTATTGGGCACTTTACC-GATAATGTTA
396670 AAAAAAATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 36 0.95
50 2 0.05
ACGTcount: A:0.17, C:0.13, G:0.18, T:0.52
Consensus pattern (49 bp):
TTTCTACCGATTTTGTTATTATTGGGCACTTTACCGATAATGTTATTTT
Found at i:396695 original size:21 final size:21
Alignment explanation
Indices: 396668--396709 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
396658 CCGGAAATGT
* *
396668 TAAAAAAAATTAATGTTTTAGG
1 TAAAAATAA-TAATGATTTAGG
396690 TAAAAATAATAATGATTTAG
1 TAAAAATAATAATGATTTAG
396710 ATAATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (21 bp):
TAAAAATAATAATGATTTAGG
Found at i:399160 original size:56 final size:56
Alignment explanation
Indices: 399099--399948 Score: 1312
Period size: 56 Copynumber: 15.2 Consensus size: 56
399089 AACAATAATC
*
399099 CCATATCAGGACCCAAACGATAAAAGCAATGCAACAAGTGATATACCACAA-CTATA
1 CCATATCAGGACCCATACGATAAAAGCAATGCAACAAGTGATATACCA-AAGCTATA
* * *
399155 CCATATCAGTACCCAAAC-AGTAAAAGCAATGCATCAAGTGATATACCAAAGCTATA
1 CCATATCAGGACCCATACGA-TAAAAGCAATGCAACAAGTGATATACCAAAGCTATA
* * *
399211 CCATATCAGGACCCATAAGATAAAAGCAATGCAACAAGTGATACACCAATGCTATA
1 CCATATCAGGACCCATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATA
* *
399267 CCATATCAGAACCCATAAGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATA
1 CCATATCAGGACCCATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATA
* *
399323 CCATATCAGGACCCATAAGTTAAAAGCAATGCAACAAGTGATATACCAAAGCTATA
1 CCATATCAGGACCCATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATA
*
399379 CCATATCAGG-CCCATAAGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATA
1 CCATATCAGGACCCATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATA
* * * *
399434 CCATATCAGGACTCATATGATAAAAGCAATGCAACAAGTGATATGCCACAGCTGA-A
1 CCATATCAGGACCCATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCT-ATA
*
399490 CCATATCAGGACCCATACGATAAAAGCAATGCAACAAGTGATATGCCAAAGCTATA
1 CCATATCAGGACCCATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATA
*
399546 CCATATCAGGACCCATACGATAAAAGCAATGCAACTAGTGATATACCAAAGCTATA
1 CCATATCAGGACCCATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATA
* * *
399602 CCATATCAGGACCCATACGATAAAAAAGCAAGGCAACAAATGATATGCCAAAGCTATA
1 CCATATCAGGACCCATACGAT--AAAAGCAATGCAACAAGTGATATACCAAAGCTATA
* * * *
399660 CCATATCAGGATCCATACCATAAAAGCAATGCAACAAGTGATATGCTAAAGCTATA
1 CCATATCAGGACCCATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATA
* * *
399716 CCATATCAAGACCCATACCATAAAAGTAATGCAACAAGTGATATACCAAAGCTATA
1 CCATATCAGGACCCATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATA
* * * *
399772 GCATATCAAGACCCATACGGTAAAAGCAATGCAACAAGTGATATAACAAAGCTATA
1 CCATATCAGGACCCATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATA
*
399828 GCATATCAGGACCCATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATA
1 CCATATCAGGACCCATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATA
* *
399884 GCATATCAGGACCCATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCCATA
1 CCATATCAGGACCCATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATA
399940 CCATATCAG
1 CCATATCAG
399949 CAGGGATGGA
Statistics
Matches: 739, Mismatches: 47, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
55 58 0.08
56 629 0.85
57 2 0.00
58 50 0.07
ACGTcount: A:0.45, C:0.22, G:0.14, T:0.18
Consensus pattern (56 bp):
CCATATCAGGACCCATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATA
Found at i:399910 original size:31 final size:31
Alignment explanation
Indices: 399819--399910 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 31
399809 GTGATATAAC
399819 AAAGCTATAGCATATCAGGACCCATACGATA
1 AAAGCTATAGCATATCAGGACCCATACGATA
* * *
399850 AAAGCAAT-GCA-A-CAAGTGA--TATAC---C
1 AAAGCTATAGCATATC-AG-GACCCATACGATA
399875 AAAGCTATAGCATATCAGGACCCATACGATA
1 AAAGCTATAGCATATCAGGACCCATACGATA
399906 AAAGC
1 AAAGC
399911 AATGCAACAA
Statistics
Matches: 45, Mismatches: 6, Indels: 20
0.63 0.08 0.28
Matches are distributed among these distances:
25 7 0.16
26 5 0.11
27 3 0.07
28 10 0.22
29 3 0.07
30 5 0.11
31 12 0.27
ACGTcount: A:0.45, C:0.22, G:0.16, T:0.17
Consensus pattern (31 bp):
AAAGCTATAGCATATCAGGACCCATACGATA
Found at i:401131 original size:21 final size:21
Alignment explanation
Indices: 401105--401215 Score: 204
Period size: 21 Copynumber: 5.3 Consensus size: 21
401095 AGCTCTTCTT
401105 TGCCTTCGTCGTCAGTTTGGA
1 TGCCTTCGTCGTCAGTTTGGA
401126 TGCCTTCGTCGTCAGTTTGGA
1 TGCCTTCGTCGTCAGTTTGGA
401147 TGCCTTCGTCGTCAGTTTGGA
1 TGCCTTCGTCGTCAGTTTGGA
* *
401168 AGCCTTCGTCGTTAGTTTGGA
1 TGCCTTCGTCGTCAGTTTGGA
401189 TGCCTTCGTCGTCAGTTTGGA
1 TGCCTTCGTCGTCAGTTTGGA
401210 TGCCTT
1 TGCCTT
401216 TGCCTTTGGC
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 86 1.00
ACGTcount: A:0.10, C:0.23, G:0.28, T:0.39
Consensus pattern (21 bp):
TGCCTTCGTCGTCAGTTTGGA
Found at i:411999 original size:17 final size:17
Alignment explanation
Indices: 411977--412010 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
411967 AAGTGTTAAA
411977 GTAAGGGGGAGTAATTT
1 GTAAGGGGGAGTAATTT
411994 GTAAGGGGGAGTAATTT
1 GTAAGGGGGAGTAATTT
412011 CAAAACTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.41, T:0.29
Consensus pattern (17 bp):
GTAAGGGGGAGTAATTT
Found at i:417896 original size:16 final size:17
Alignment explanation
Indices: 417875--417909 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
417865 TTACTATTCA
417875 CGTGAATAGTG-AATTT
1 CGTGAATAGTGAAATTT
417891 CGTGAATAGTGAAATTT
1 CGTGAATAGTGAAATTT
417908 CG
1 CG
417910 GTCGGCGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (17 bp):
CGTGAATAGTGAAATTT
Found at i:418677 original size:15 final size:16
Alignment explanation
Indices: 418659--418691 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
418649 GTGGCAGATC
418659 AAAATCCAGAA-GGGA
1 AAAATCCAGAACGGGA
*
418674 AAAATCTAGAACGGGA
1 AAAATCCAGAACGGGA
418690 AA
1 AA
418692 GCAAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.55, C:0.12, G:0.24, T:0.09
Consensus pattern (16 bp):
AAAATCCAGAACGGGA
Found at i:423920 original size:22 final size:22
Alignment explanation
Indices: 423892--423936 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
423882 TTCCCCTTTA
423892 CATATCTTAAGATATATATAAC
1 CATATCTTAAGATATATATAAC
423914 CATATCTTAAGATATATATAAC
1 CATATCTTAAGATATATATAAC
423936 C
1 C
423937 TGTGCGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.36
Consensus pattern (22 bp):
CATATCTTAAGATATATATAAC
Found at i:433478 original size:20 final size:19
Alignment explanation
Indices: 433455--433501 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
433445 CGATATATCA
433455 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
433475 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
*
433495 CGTAAAA
1 GGTAAAA
433502 CGTTACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.13, G:0.15, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:433589 original size:181 final size:182
Alignment explanation
Indices: 433243--433715 Score: 671
Period size: 181 Copynumber: 2.6 Consensus size: 182
433233 TATCCAAATT
* * * * **
433243 AAAAATGTGTCGATCCAAAACGATATAACATGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * * *
433308 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCCGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* * *
433373 GTAAATTTAAAAGAGAATCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTAAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
*
433425 AAAAATGTATCGATCCAAAACGATATATCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
433490 AAACCCGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCCGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* ** *
433554 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTAAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * * * *
433606 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAATCGATACCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
*
433671 AAA-CCGATAAAACGATACCAGATATATTGAAAGTGTCGATACTTT
66 AAACCCG-TAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
433716 CGTAAGTACG
Statistics
Matches: 261, Mismatches: 29, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
180 3 0.01
181 161 0.62
182 97 0.37
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCCGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTAAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:435822 original size:15 final size:15
Alignment explanation
Indices: 435802--435830 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
435792 GTTGTATCAG
435802 GGGATGACGGTGAGT
1 GGGATGACGGTGAGT
435817 GGGATGACGGTGAG
1 GGGATGACGGTGAG
435831 GGAAAACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.55, T:0.17
Consensus pattern (15 bp):
GGGATGACGGTGAGT
Found at i:436039 original size:33 final size:33
Alignment explanation
Indices: 435992--436057 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
435982 AAATAGATGG
* * *
435992 AGTGGTGAAGGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAAGGGTGA
* *
436025 AGTGGTGAAAGAAGTTGGGGTGTTAAAGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAAGGGTGA
436058 TATTAAGATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAAGGGTGA
Found at i:437871 original size:19 final size:19
Alignment explanation
Indices: 437847--437895 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
437837 AATGTAGGGT
437847 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
437866 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
437885 TAATTTTGTAT
1 TAATTTTGTAT
437896 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:438477 original size:200 final size:200
Alignment explanation
Indices: 438129--439286 Score: 1973
Period size: 200 Copynumber: 5.8 Consensus size: 200
438119 AATTTACAAT
* * *
438129 ATGGCAAACAGGGTACAACCATAAAGTGTCGATCCATATATAAAGAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
438194 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCAGTACAAGTATACCGGTTTT
*
438259 ATGAGAGAATATGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
438324 AATGA
196 AATGA
* *
438329 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAGAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
438394 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCAGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCAGTACAAGTATACCGGTTTT
*
438459 ATGAGAGAATAAGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
438524 AATGA
196 AATGA
*
438529 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
438594 CAAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCAGTACAAGTATACCGGTTTT
* *
438659 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTTTGTCGATATTTTTGGTCAAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
438724 AATGA
196 AATGA
*
438729 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
438794 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCAGTACAAGTATACCGGTTTT
* * * *
438859 ATGAGAGAATTGGTCTAAATAATGTTTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGCCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
438924 AATGA
196 AATGA
* *
438929 ATGG--AA-AGGGGGCAACAATAAAATGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
438991 TGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCAGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCAGTACAAGTATACCGGTTTT
*
439056 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
*
439121 ATTGA
196 AATGA
* *
439126 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
439191 CTAAACCCATAAGTATAATATATTAGGTAATTTTTCAATCTAA-CAGGTACAAGTATACCGGTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCA-GTACAAGTATACCGGTTT
439255 TATGAGAGAATAGGTCTAAATAATGTATCGAC
130 TATGAGAGAATAGGTCTAAATAATGTATCGAC
439287 TCTGTTTAAT
Statistics
Matches: 913, Mismatches: 41, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
197 185 0.20
198 2 0.00
199 4 0.00
200 722 0.79
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCAGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:442364 original size:183 final size:183
Alignment explanation
Indices: 442056--442460 Score: 747
Period size: 183 Copynumber: 2.2 Consensus size: 183
442046 CAAAGTTTTC
*
442056 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATATCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* *
442121 CAAAAAGTGTCGATATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
442186 AACCGGTATAAATATACCGATTTTATGAGTGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
442239 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
442304 CAAAAAGTATCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* *
442369 AACCGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
442422 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
442461 TATAATGTAC
Statistics
Matches: 215, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 215 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:442512 original size:120 final size:120
Alignment explanation
Indices: 442338--442580 Score: 432
Period size: 120 Copynumber: 2.0 Consensus size: 120
442328 CGGAACCCAT
*
442338 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATATCGGTTTTATGAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
442403 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
* * * *
442458 AATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCTGTTTTATTAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
*
442523 AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
442578 AAT
1 AAT
442581 GGAAGAAAAA
Statistics
Matches: 117, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 117 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.39
Consensus pattern (120 bp):
AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
Found at i:442698 original size:303 final size:302
Alignment explanation
Indices: 442151--443048 Score: 1643
Period size: 303 Copynumber: 3.0 Consensus size: 302
442141 ACATCGGAAC
* * * *
442151 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGT
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCG-TTTTATTAGC
*
442216 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
65 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
*
442281 AGAAAAATGTGTCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCATAATTATAA
130 AGAAAAATGTGTCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAA
*
442346 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTAC
195 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
442411 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
260 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
442454 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCTGTTTTATTAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACC-GTTTTATTAGC
442519 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
65 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
442584 AGAAAAATGTGTCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAA
130 AGAAAAATGTGTCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAA
442649 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
195 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
* *
442714 AACTTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
260 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
442757 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACC-GTTTTATTAGC
* *
442822 GAATAGGTCTACAACCTATGTCGATACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGAA
65 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
*
442887 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
130 AGAAAAATGTGTCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAA
* *
442952 TGTAATAGATAATTTTGTAATATAACTGGTATAAATATACCGATTTTATGAGCGAATAGGTCTAC
195 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
443017 AACCTATATCGACACTTTTTAATATTGTGTCG
260 AACCTATATCGACACTTTTTAATATTGTGTCG
443049 CTAATTTTAA
Statistics
Matches: 577, Mismatches: 17, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
303 576 1.00
304 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.35
Consensus pattern (302 bp):
CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGTTTTATTAGCG
AATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAA
GAAAAATGTGTCGATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAAT
GTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACA
ACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:442851 original size:120 final size:120
Alignment explanation
Indices: 442637--442883 Score: 431
Period size: 120 Copynumber: 2.1 Consensus size: 120
442627 ACATCGGAAC
442637 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
* *
442702 GAATAGGTCTACAACTTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * *
442757 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
* *
442822 GAATAGGTCTACAACCTATGTCGATACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
442877 CCAGAAT
1 CCAGAAT
442884 GAAAGAAAAA
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:445722 original size:22 final size:22
Alignment explanation
Indices: 445678--445722 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
445668 ATTACATAAA
*
445678 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
*
445700 TTTATAAAAAGTAT-GAACACTT
1 TTTAAAAAAAGTATCGAAC-CTT
445722 T
1 T
445723 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:445771 original size:23 final size:23
Alignment explanation
Indices: 445740--445812 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
445730 ATAGGTAAAA
*
445740 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
445763 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
445786 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
445809 ATAT
1 ATAT
445813 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:446276 original size:31 final size:31
Alignment explanation
Indices: 446238--446297 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
446228 AAATATGATG
446238 TAATAGGTAGCGCTTATATAATGTAATAGAC
1 TAATAGGTAGCGCTTATATAATGTAATAGAC
*
446269 TAATAGGTAGCGTTTATATAATGTAATAG
1 TAATAGGTAGCGCTTATATAATGTAATAG
446298 GTAGTGCTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (31 bp):
TAATAGGTAGCGCTTATATAATGTAATAGAC
Found at i:446314 original size:21 final size:22
Alignment explanation
Indices: 446269--446315 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
446259 TGTAATAGAC
*
446269 TAATAGGTAGCGTTTATATAATG
1 TAATAGGTAGCGCTTATAT-ATG
*
446292 TAATAGGTAGTGCTTATAT-TG
1 TAATAGGTAGCGCTTATATATG
446313 TAA
1 TAA
446316 AGTATCTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
23 17 0.77
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.40
Consensus pattern (22 bp):
TAATAGGTAGCGCTTATATATG
Found at i:446582 original size:497 final size:490
Alignment explanation
Indices: 445553--446716 Score: 1944
Period size: 497 Copynumber: 2.4 Consensus size: 490
445543 GACCCAAATT
445553 AATATTATTTTATAAAATATCAAAATAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAATAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
*
445618 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAAATTTAA
66 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAA
*
445683 AAAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATG
131 AAAAAGTATCGATACTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATG
445748 TAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATAT
196 TAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATAT
* *
445813 TGTAAAGTATCTATTCTTTTTATAAAAGTGTCTATATTTTTTTCACTGTGGAAAACATTAATTTA
261 TGTAAAGTATCTATTCTTTTTATAAAAGTGTCTATACTTATTTCACTGTGGAAAACATTAATTTA
* * * *
445878 AGGTTATCTTTTAAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTT
326 AAGTTATCTTTTAAGTGAGTTTTAAGATATCAATTTAGTAATTATAGACATCTAATGATTTATTT
* *
445943 TTTACGTTACAGTATATATTATTATTAAATTGAAAACAATAAACATATATATTACATATTTATTA
391 TTTACGTTACAGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATATTTATTA
*
446008 TTATCTTTGGTTAATATTGTTAAATTTAAAATCTA
456 TTATCTTTAGTTAATATTGTTAAATTTAAAATCTA
* *
446043 AATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAATAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
*
446108 ATATTGTAGGTGGAAAGCATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAA
66 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAA
*
446173 AAAAAGTATCGATTCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATG
131 AAAAAGTATCGATACTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATG
446238 TAATAGGTAGCGCTTATATAATGTAATAGACTAATAGGTAGCGTTTATATAATGTAATAGGTAGT
196 TAATAGGTAGCGC-T-TAT-A--TAAT-G--TAATAGGTAGCGTTTATATAATGTAATAGGTAGT
446303 GCTTATATTGTAAAGTATCTA-TCATTTTTATAAAAGTGT-TCATACTTATTTCACTGT-GAAAA
253 GCTTATATTGTAAAGTATCTATTC-TTTTTATAAAAGTGTCT-ATACTTATTTCACTGTGGAAAA
* * *
446365 CATTAATTTAAAGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATATATCTAA
316 CATTAATTTAAAGTTATCTTTTAAGTGAGTTTTAAGATATCAATTTAGTAATTATAGACATCTAA
* *
446430 TGATTTATTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTAC
381 TGATTTATTTTTTACGTTACAGTATATATTATCATTAAATTAAAAACAATAAACATATATATTAC
*
446495 ATATTTATTATTATCTTTAGTTAATATTGTTAAATTTAAATTCTA
446 ATATTTATTATTATCTTTAGTTAATATTGTTAAATTTAAAATCTA
* *
446540 TATATTATTTTATAAAATATCAAAATAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAATAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
**
446605 ATATTGTAGGTGGAAAACATGAAATTCTATT--AAAAAATTGAAACATAAATTACATAACTTTAA
66 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAA
446668 AAAAAGTATCGATACTTTTTATAAAAAAAGTAT-AGACACTTTCAATATA
131 AAAAAGTATCGATACTTTTTAT--AAAAAGTATGA-ACACTTTCAATATA
446717 TTATAATGTA
Statistics
Matches: 633, Mismatches: 28, Indels: 19
0.93 0.04 0.03
Matches are distributed among these distances:
490 203 0.32
491 1 0.00
492 3 0.00
493 1 0.00
495 57 0.09
496 2 0.00
497 282 0.45
498 84 0.13
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.40
Consensus pattern (490 bp):
AATATTATTTTATAAAATATCAAAATAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAA
AAAAAGTATCGATACTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATG
TAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATAT
TGTAAAGTATCTATTCTTTTTATAAAAGTGTCTATACTTATTTCACTGTGGAAAACATTAATTTA
AAGTTATCTTTTAAGTGAGTTTTAAGATATCAATTTAGTAATTATAGACATCTAATGATTTATTT
TTTACGTTACAGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATATTTATTA
TTATCTTTAGTTAATATTGTTAAATTTAAAATCTA
Found at i:446832 original size:23 final size:23
Alignment explanation
Indices: 446786--446833 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
446776 AAACAGGTCA
* *
446786 ATATAAGCGTTACCTATTACATT
1 ATATAAGCGCTACCTAATACATT
* *
446809 ATATAAGCGCTACTTAATATATT
1 ATATAAGCGCTACCTAATACATT
446832 AT
1 AT
446834 TATACTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATACATT
Found at i:461086 original size:13 final size:13
Alignment explanation
Indices: 461068--461093 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
461058 ATATAAGATG
461068 CTTTTTCTTTTTT
1 CTTTTTCTTTTTT
461081 CTTTTTCTTTTTT
1 CTTTTTCTTTTTT
461094 TTGTTGGGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
CTTTTTCTTTTTT
Found at i:464684 original size:31 final size:31
Alignment explanation
Indices: 464646--464769 Score: 124
Period size: 31 Copynumber: 4.0 Consensus size: 31
464636 CCTCGGCAAC
* *
464646 TGTCCATAGGTCCCGAAGAACCTAGGTAAAT
1 TGTCCATATGTCCCGAAGAACATAGGTAAAT
* ** * *
464677 TGTCCATATGTTCCTTAGAACATAGGTATAC
1 TGTCCATATGTCCCGAAGAACATAGGTAAAT
* *
464708 TGTCCATATGTCCC-AAAAGACATAGGTAATT
1 TGTCCATATGTCCCGAAGA-ACATAGGTAAAT
* *
464739 CTGTCCATATGTTCCGTAGAACATAGGTAAA
1 -TGTCCATATGTCCCGAAGAACATAGGTAAA
464770 CCCTCGACTC
Statistics
Matches: 73, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
30 2 0.03
31 46 0.63
32 23 0.32
33 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (31 bp):
TGTCCATATGTCCCGAAGAACATAGGTAAAT
Found at i:464762 original size:63 final size:62
Alignment explanation
Indices: 464644--464767 Score: 178
Period size: 62 Copynumber: 2.0 Consensus size: 62
464634 AACCTCGGCA
* * *
464644 ACTGTCCATAGGTCCCGAAGAACCTAGGTAAATTGTCCATATGTTCCTTAGAACATAGGTAT
1 ACTGTCCATAGGTCCCAAAGAACATAGGTAAATTGTCCATATGTTCCGTAGAACATAGGTAT
* *
464706 ACTGTCCATATGTCCCAAA-AGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 ACTGTCCATAGGTCCCAAAGA-ACATAGGTAAAT-TGTCCATATGTTCCGTAGAACATAGGTA
464768 AACCCTCGAC
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
61 1 0.02
62 27 0.49
63 27 0.49
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (62 bp):
ACTGTCCATAGGTCCCAAAGAACATAGGTAAATTGTCCATATGTTCCGTAGAACATAGGTAT
Found at i:476470 original size:19 final size:19
Alignment explanation
Indices: 476427--476471 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
476417 CAAATAGTTT
*
476427 TAAAATCAAATAAAAATAC
1 TAAAATCAAATAAAAATAA
*
476446 TAAAATCAATTAAAAA-AA
1 TAAAATCAAATAAAAATAA
476464 TATAAATC
1 TA-AAATC
476472 CTAAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (19 bp):
TAAAATCAAATAAAAATAA
Found at i:479902 original size:13 final size:13
Alignment explanation
Indices: 479884--479910 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
479874 CATAGTTGAA
479884 CAGTCTTCATATG
1 CAGTCTTCATATG
479897 CAGTCTTCATATG
1 CAGTCTTCATATG
479910 C
1 C
479911 GCGTCTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:484536 original size:20 final size:20
Alignment explanation
Indices: 484507--484549 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
484497 ATTTCACCAC
*
484507 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
484527 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
484547 ATG
1 ATG
484550 GGCTCTTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:494217 original size:17 final size:20
Alignment explanation
Indices: 494180--494220 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
494170 TACATATTGG
494180 AGTGGGCCTAATAATATAAA
1 AGTGGGCCTAATAATATAAA
494200 AGTGGGCCTAA-AATA-AAA
1 AGTGGGCCTAATAATATAAA
494218 AGT
1 AGT
494221 TCTACGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.29
19 4 0.19
20 11 0.52
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (20 bp):
AGTGGGCCTAATAATATAAA
Found at i:501390 original size:182 final size:180
Alignment explanation
Indices: 501132--501633 Score: 755
Period size: 182 Copynumber: 2.8 Consensus size: 180
501122 CCGCTACCGG
**
501132 ATATTGAAA--GTCGATAAATTA-ATAAGTATCGACACTTTTATAATTTAAAAGAGAAGAAGTTA
1 ATATTGAAAGTGTCGATAAATTATATAAGTATCGACACTTTCGTAATTTAAAAGAGAAGAAGTTA
* *
501194 TAGCGCTTAAAAAGTGTCGATACTTTATACAAATGTATCAATCCATAGCAATATAACAGGTAATA
66 TAGCGC-TAAAAAGTGTCGATACTTTATACAAATGTATCGATCCATAGTAATATAACAGGTAATA
* *
501259 ATATGACAAAACATGTCTCGAAATGATAAAATCAGTAAAAAGATA-CATGAT
130 ATATGACAAAACATGTCTCGAAATGATAAAACCAGTAAAAAGATATC-GGAT
* *
501310 ATATTGAAAGTGTCGATACATTAGTATAAGTATCGACACTTTCGTAATTTAAAAGAGAAGAAGTA
1 ATATTGAAAGTGTCGATAAATTA-TATAAGTATCGACACTTTCGTAATTTAAAAGAGAAGAAGTT
* *
501375 ATAGCGTCTAAAAAGTGTCGATACTTTATACAAATGTATCGATCCATAGTAAAATAACATGTAAT
65 ATAGCG-CTAAAAAGTGTCGATACTTTATACAAATGTATCGATCCATAGTAATATAACAGGTAAT
* *
501440 AATATGACAAAATATGTCTCGAAATGATAAAACCGGTAAAAAGATATCGGAT
129 AATATGACAAAACATGTCTCGAAATGATAAAACCAGTAAAAAGATATCGGAT
*
501492 ATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTCGTAATTTAAAAGAGAAGAAATT
1 ATATTGAAAGTGTCGATAAATT-ATATAAGTATCGACACTTTCGTAATTTAAAAGAGAAGAAGTT
* * *
501557 ATAGCGCCTAAAAAGTGTCGATACTTTATGA-AAACGTATCGATCCATAATAATATAATAGGTAA
65 ATAGCG-CTAAAAAGTGTCGATACTTTAT-ACAAATGTATCGATCCATAGTAATATAACAGGTAA
501621 -AATATGACAAAAC
128 TAATATGACAAAAC
501634 CGGTAAAGTG
Statistics
Matches: 294, Mismatches: 22, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
178 9 0.03
180 11 0.04
181 12 0.04
182 258 0.88
183 4 0.01
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (180 bp):
ATATTGAAAGTGTCGATAAATTATATAAGTATCGACACTTTCGTAATTTAAAAGAGAAGAAGTTA
TAGCGCTAAAAAGTGTCGATACTTTATACAAATGTATCGATCCATAGTAATATAACAGGTAATAA
TATGACAAAACATGTCTCGAAATGATAAAACCAGTAAAAAGATATCGGAT
Found at i:503559 original size:22 final size:22
Alignment explanation
Indices: 503508--503563 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
503498 TGTTTTTTTG
*
503508 TTTTTTTATATAAAATGATGGTA
1 TTTTATTATATAAAATGAT-GTA
*
503531 TAGTTATTATATAAAATGAT-TAA
1 T-TTTATTATATAAAATGATGT-A
503554 TTTTATTATA
1 TTTTATTATA
503564 AATGCAAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 9 0.32
23 3 0.11
24 16 0.57
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (22 bp):
TTTTATTATATAAAATGATGTA
Found at i:504566 original size:17 final size:17
Alignment explanation
Indices: 504544--504579 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
504534 TTTAAATATT
504544 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
504561 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
504578 TC
1 TC
504580 CTAATGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (17 bp):
TCATGAAAAGATATTAA
Found at i:505594 original size:19 final size:18
Alignment explanation
Indices: 505551--505599 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
505541 AAATGTAGGG
505551 TTAATTTTGTATAAGATT
1 TTAATTTTGTATAAGATT
*
505569 TTAATTTTGTATACGATT
1 TTAATTTTGTATAAGATT
505587 TATAATTTTGTAT
1 T-TAATTTTGTAT
505600 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 18 0.62
19 11 0.38
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (18 bp):
TTAATTTTGTATAAGATT
Found at i:506409 original size:195 final size:196
Alignment explanation
Indices: 506038--506631 Score: 875
Period size: 195 Copynumber: 3.1 Consensus size: 196
506028 TAATGTCGAC
*
506038 ATCCAAAAACATCGAGACCTATAATTATAATGTAATAGGTAAATTATCAATCTAACCGGTCTAAT
1 ATCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCGGTCTAAT
* * *
506103 TAAACC-GTTTATGA-AAAACATGTGTACATGAAGTATCGACAGTTTTTGAATTTGTGTCGATAC
66 TACACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTGAATTTGTGTCGATAC
*
506166 -TTGTGTCCAAAATGATATCCTTACCAAGGTCACCATAATGTGTCGATACATTTATAAAAAAGTA
131 TTTGTGTCCAAAATGATATCCTTACCAAGGTCACCATAAGGTGTCGATACATTTAT--AAAAGTA
506230 TCG
194 TCG
*
506233 ATCCAAAAACATCGAGACCCATAATTATAATGTAATA-GTAAATTATCAATCTGACCGGTCTAAT
1 ATCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCGGTCTAAT
506297 TACACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTT-AATTTGTGTCGATAC
66 TACACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTGAATTTGTGTCGATAC
* *
506361 TTTGTGTCCATAATGATTTCCTTACCAAGGTCACCATAAGGT-TCGATACATTTATAAAAGTATC
131 TTTGTGTCCAAAATGATATCCTTACCAAGGTCACCATAAGGTGTCGATACATTTATAAAAGTATC
506425 G
196 G
506426 ATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCGGTCTAA
1 ATCC-AAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCGGTCTAA
* * *
506491 ATACACTGGTTTATGAGAAAACAGGTGTACAT-AAGTATCGACACTTTTTGAATTTGTATCGATA
65 TTACACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTGAATTTGTGTCGATA
* * * ** * * * * *
506555 CTTTTTGTCCAGAATGTAAATGGTCA-AAAAGTGCA-CAAAAAGTGTCGATACATTTAT-AAAGT
130 CTTTGTGTCCAAAATG-ATATCCTTACCAAGGT-CACCATAAGGTGTCGATACATTTATAAAAGT
506617 ATCG
193 ATCG
*
506621 ATCCTAAAACA
1 ATCCAAAAACA
506632 ATGAATTCAT
Statistics
Matches: 366, Mismatches: 24, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
193 14 0.04
194 87 0.24
195 177 0.48
196 88 0.24
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31
Consensus pattern (196 bp):
ATCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCGGTCTAAT
TACACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCGACACTTTTTGAATTTGTGTCGATAC
TTTGTGTCCAAAATGATATCCTTACCAAGGTCACCATAAGGTGTCGATACATTTATAAAAGTATC
G
Found at i:507068 original size:15 final size:14
Alignment explanation
Indices: 507034--507069 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
507024 AGAATCGAGG
507034 CTCTTCTCAACCCA
1 CTCTTCTCAACCCA
507048 -TCTTCTCAACCCA
1 CTCTTCTCAACCCA
507061 CCTCTTCTC
1 -CTCTTCTC
507070 CCAGCTCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 13 0.65
15 7 0.35
ACGTcount: A:0.17, C:0.50, G:0.00, T:0.33
Consensus pattern (14 bp):
CTCTTCTCAACCCA
Found at i:508607 original size:22 final size:22
Alignment explanation
Indices: 508566--508632 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
508556 CTCGTATAAA
508566 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
508589 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
508611 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
508633 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:513465 original size:22 final size:22
Alignment explanation
Indices: 513424--513490 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
513414 CTCGTATAAA
513424 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
513447 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
513469 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
513491 GATGTCTATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:515211 original size:21 final size:21
Alignment explanation
Indices: 515181--515225 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
515171 TCTTGCTCGT
* *
515181 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
515202 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
515223 TTG
1 TTG
515226 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:516252 original size:12 final size:12
Alignment explanation
Indices: 516218--516252 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
516208 CAAGCGGTCA
*
516218 ATGAAGATGACG
1 ATGAAGATGATG
516230 ATGAAGATGATG
1 ATGAAGATGATG
*
516242 ATGATGATGAT
1 ATGAAGATGAT
516253 CCAAACAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.40, C:0.03, G:0.31, T:0.26
Consensus pattern (12 bp):
ATGAAGATGATG
Found at i:517970 original size:198 final size:198
Alignment explanation
Indices: 517510--518085 Score: 685
Period size: 201 Copynumber: 2.9 Consensus size: 198
517500 TATTTTCCAA
* * * *
517510 CCAAAGCAAGTTCAC-AAATAAGTGTCGATACATTTCTATCAAGTGTCGATCCCAAAAGCATCGA
1 CCAAACCAAGTTCACGAAA-AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGA
* * *
517574 AACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTCTG
65 AACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCAGTTAT-T-
* * * *
517639 AGAAAATAGGTCTACA-ATATGTATCGACACTTTATTCATTTGTGTCGATACATGTTGTCCAGAA
128 AGAAAATAGGTCTACATA-ATGTATCAACACTTTATACATTCGTGTCGACACATGTTGTCCAGAA
**
517703 TGTATTT
192 TAAATTT
* * *
517710 CCAAACCAAGTGCACGAACAAAGTGTTGATACATTTATACCAAGTGTCGATCCCAAAAACATCGA
1 CCAAACCAAGTTCACGAA-AAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGA
* * * * * * * *
517775 AACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAAATATACCAGTTATTAA
65 AACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCAGTTATTAG
* * * * * *
517840 AAAAAAGGTATACATAATGTATCAATACTTTATACATTCGTGTTGACAC-TTTATGTCCATAATA
130 AAAATAGGTCTACATAATGTATCAACACTTTATACATTCGTGTCGACACATGT-TGTCCAGAATA
517904 AATTTT
194 AA-TTT
* * *
517910 CCAAA-CAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAGTGTCGATCCTAAAAACATCGAA
1 CCAAACCAAGTTCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAA
* *
517974 ACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACTAGTTTTCTTA
66 ACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCAG--TTATTA
* * *
518039 GAAAATAGGTCTACATAATGTATCGACACATTT-TAAATTTGTGTCGA
129 GAAAATAGGTCTACATAATGTATCAACAC-TTTATACATTCGTGTCGA
518086 TACTTTTTAA
Statistics
Matches: 316, Mismatches: 52, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
198 93 0.29
199 61 0.19
200 63 0.20
201 98 0.31
202 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (198 bp):
CCAAACCAAGTTCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAA
ACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCAGTTATTAGA
AAATAGGTCTACATAATGTATCAACACTTTATACATTCGTGTCGACACATGTTGTCCAGAATAAA
TTT
Found at i:521649 original size:196 final size:195
Alignment explanation
Indices: 521254--521738 Score: 475
Period size: 196 Copynumber: 2.4 Consensus size: 195
521244 ATTAGATTTT
* * * * *
521254 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAATCAAAGAGACCGATAATTATAATGTAAT
1 GTGTCGATACATTT-TAAAAAGTATCGATCCCAAACATC---GAAACCGATAATTAT-ATATAAC
* *
521319 AGGTAAATTTCCAATGTAACCGGTAGAAATATACCGGGGGTTTATGAGAGAATAGGTCAACATAA
61 AGGTAAATTTACAATGTAACCGGTAGAAATATACC--GGGTTAATGAGAGAATAGGTCAACATAA
* * * * * *
521384 AGTATCGAAACTTTTTTAATTTGTATCGATACATTTTTTCAAAATGAATGGCAAACGAGGTGTAC
124 AGTATCGAAACTCTTTAAATTTGTAGCGATACATTTTTTCAAAATGAAAGACAAACGAGGTGCAC
521449 GCATAAA
189 GCATAAA
*
521456 GTGTCGATACATTTGTAAAAAGTATCGATCCTCGAAACATCGAAATCGATAATTAT-TATAACAG
1 GTGTCGATACATTT-TAAAAAGTATCGATCC-C-AAACATCGAAACCGATAATTATATATAACAG
* * * * *
521520 GTAAATTTACAATGTAATCGGTTA-AAATATACC-GGTTAATTAGTA-AATAGGTCTACATTATG
63 GTAAATTTACAATGTAACCGG-TAGAAATATACCGGGTTAATGAG-AGAATAGGTCAACATAAAG
* * *
521582 TATCGACACTCTTTAAATATT-TGGCGATAC-TTTTTTCCAAAAT-AAAGCACAAACGAGTTGCA
126 TATCGAAACTCTTTAAAT-TTGTAGCGATACATTTTTT-CAAAATGAAAG-ACAAACGAGGTGCA
521644 CGCATAAA
188 CGCATAAA
* * * *
521652 GTGTCGATACA-TTTAAAATTGTATCGATCCCAAAAACATCGAAACCGAT-ATACATAATGTAAT
1 GTGTCGATACATTTTAAAA-AGTATCGATCCC--AAACATCGAAACCGATAAT-TAT-ATATAAC
* *
521715 AGGTCAATTTATAATGTAACCGGT
61 AGGTAAATTTACAATGTAACCGGT
521739 TTAAATTTAC
Statistics
Matches: 239, Mismatches: 32, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
194 8 0.03
195 38 0.16
196 81 0.34
197 27 0.11
199 34 0.14
200 2 0.01
201 13 0.05
202 29 0.12
203 1 0.00
204 6 0.03
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (195 bp):
GTGTCGATACATTTTAAAAAGTATCGATCCCAAACATCGAAACCGATAATTATATATAACAGGTA
AATTTACAATGTAACCGGTAGAAATATACCGGGTTAATGAGAGAATAGGTCAACATAAAGTATCG
AAACTCTTTAAATTTGTAGCGATACATTTTTTCAAAATGAAAGACAAACGAGGTGCACGCATAAA
Found at i:521906 original size:23 final size:23
Alignment explanation
Indices: 521856--521900 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
521846 TGCCTATTTT
*
521856 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
521879 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
521901 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:521918 original size:87 final size:87
Alignment explanation
Indices: 521772--521934 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
521762 AAATAGGTCA
*
521772 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATTTGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
521837 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
* *
521859 ATATAAGCGCTACCTATTACATTATATAAGCGTTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
521924 CCGGTTAAATG
66 CCGGTTAAATG
521935 ATATAACATA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:522248 original size:31 final size:31
Alignment explanation
Indices: 522210--522307 Score: 144
Period size: 31 Copynumber: 3.2 Consensus size: 31
522200 CAGTTACGTC
522210 AGGGACCATATTGCAAAT-GAACTAAATGTTG
1 AGGGACCATATTGCAAATAG-ACTAAATGTTG
* *
522241 AGGGACCATATTGTAAATAGACTAAATATTG
1 AGGGACCATATTGCAAATAGACTAAATGTTG
*
522272 AGGGACCATATTACAAATAGACTAAATGTTG
1 AGGGACCATATTGCAAATAGACTAAATGTTG
*
522303 GGGGA
1 AGGGA
522308 TTATATTATA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
31 59 0.98
32 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (31 bp):
AGGGACCATATTGCAAATAGACTAAATGTTG
Found at i:522776 original size:27 final size:27
Alignment explanation
Indices: 522746--522800 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
522736 AAATAAATAT
*
522746 ATAAAAATATTTTTAAAATTCAA-AAGA
1 ATAAAAATAGTTTT-AAATTCAAGAAGA
* *
522773 ATAAAATTGGTTTTAAATTCAAGAAGA
1 ATAAAAATAGTTTTAAATTCAAGAAGA
522800 A
1 A
522801 ACCTCATGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.33
Consensus pattern (27 bp):
ATAAAAATAGTTTTAAATTCAAGAAGA
Found at i:524257 original size:31 final size:31
Alignment explanation
Indices: 524217--524275 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
524207 ACCATATTAT
*
524217 AAACGGACTAAATGTTGAGGGACTATATCAC
1 AAACAGACTAAATGTTGAGGGACTATATCAC
* *
524248 AAACAGACTAAATGTTGGGGGATTATAT
1 AAACAGACTAAATGTTGAGGGACTATAT
524276 TATAAGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (31 bp):
AAACAGACTAAATGTTGAGGGACTATATCAC
Found at i:525466 original size:20 final size:20
Alignment explanation
Indices: 525429--525466 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
525419 AAAAATAAAC
* *
525429 AAAATATTAGATGGTAAAAT
1 AAAATATTAAATGCTAAAAT
525449 AAAATATTAAATGCTAAA
1 AAAATATTAAATGCTAAA
525467 CAAAAAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.29
Consensus pattern (20 bp):
AAAATATTAAATGCTAAAAT
Found at i:525472 original size:20 final size:20
Alignment explanation
Indices: 525424--525472 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
525414 ACTGAAAAAA
* *
525424 TAAAC-AAAATATTAGATGG
1 TAAACAAAAATATTAAATGC
525443 TAAA-ATAAAATATTAAATGC
1 TAAACA-AAAATATTAAATGC
525463 TAAACAAAAA
1 TAAACAAAAA
525473 GAAATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 4 0.16
20 20 0.80
21 1 0.04
ACGTcount: A:0.61, C:0.06, G:0.08, T:0.24
Consensus pattern (20 bp):
TAAACAAAAATATTAAATGC
Found at i:525570 original size:119 final size:119
Alignment explanation
Indices: 525411--525672 Score: 458
Period size: 119 Copynumber: 2.2 Consensus size: 119
525401 GATTGAAATT
* *
525411 ACTACTGAAAAA-ATAAA-CAAAATATTAGATGGTAAAATAAAATATTAAATGCTAAACAAAAAG
1 ACTACTGAAAAATAAAAATAAAAATATTAGATGGTAAAATAAAATATTAAATGCTAAACAAAAAG
525474 AAATAATTTTAAGATGTTAAATTAAAAATAATAATAATAATAAGGTAAAATAAC
66 AAATAATTTTAAGATGTTAAATTAAAAATAATAATAATAATAAGGTAAAATAAC
525528 ACTACTGAAAAATAAAAATAAAAATATTAGATGGTAAAATAAAATATTAAATGCTAAACAAAAAG
1 ACTACTGAAAAATAAAAATAAAAATATTAGATGGTAAAATAAAATATTAAATGCTAAACAAAAAG
525593 AAATAATTTTAAGATGTTAAATTAAAAATAATAATAATAATAAGGTAAAATAAC
66 AAATAATTTTAAGATGTTAAATTAAAAATAATAATAATAATAAGGTAAAATAAC
* *
525647 -GTCACTAAAAAATAAAAATAAAAATA
1 ACT-ACTGAAAAATAAAAATAAAAATA
525673 AAAGTTAAGA
Statistics
Matches: 138, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
117 12 0.09
118 5 0.04
119 121 0.88
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.26
Consensus pattern (119 bp):
ACTACTGAAAAATAAAAATAAAAATATTAGATGGTAAAATAAAATATTAAATGCTAAACAAAAAG
AAATAATTTTAAGATGTTAAATTAAAAATAATAATAATAATAAGGTAAAATAAC
Found at i:525585 original size:20 final size:21
Alignment explanation
Indices: 525542--525585 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
525532 CTGAAAAATA
* *
525542 AAAATAAAAATATTAGATGGT
1 AAAATAAAAATATTAAATGCT
525563 AAAAT-AAAATATTAAATGCT
1 AAAATAAAAATATTAAATGCT
525583 AAA
1 AAA
525586 CAAAAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAATAAAAATATTAAATGCT
Found at i:525591 original size:20 final size:19
Alignment explanation
Indices: 525547--525591 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
525537 AAATAAAAAT
* *
525547 AAAAATATTAGATGGTAAA
1 AAAAATATTAAATGCTAAA
525566 ATAAAATATTAAATGCTAAA
1 A-AAAATATTAAATGCTAAA
525586 CAAAAA
1 -AAAAA
525592 GAAATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 20 0.91
21 1 0.05
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.24
Consensus pattern (19 bp):
AAAAATATTAAATGCTAAA
Found at i:525708 original size:23 final size:24
Alignment explanation
Indices: 525682--525728 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
525672 AAAAGTTAAG
*
525682 AAAATGTTAA-TATAAAAAATAAT
1 AAAATATTAATTATAAAAAATAAT
525705 AAAATATTAATTTATAAAAAATAA
1 AAAATATTAA-TTATAAAAAATAA
525729 ATTTAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
25 12 0.57
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (24 bp):
AAAATATTAATTATAAAAAATAAT
Found at i:525709 original size:38 final size:39
Alignment explanation
Indices: 525606--525710 Score: 90
Period size: 40 Copynumber: 2.7 Consensus size: 39
525596 TAATTTTAAG
*
525606 ATGTTAA-ATTAAAAATAATAATAATAATAAGGTAAAATA
1 ATGTTAATATAAAAAATAATAA-AATAATAAGGTAAAATA
* * * * * *
525645 ACGTCACTAAAAAATAAAAATAAAAATAA-AAGTTAAGAA-A
1 ATGTTAATATAAAA-AATAAT-AAAATAATAAGGTAA-AATA
525685 ATGTTAATATAAAAAATAATAAAATA
1 ATGTTAATATAAAAAATAATAAAATA
525711 TTAATTTATA
Statistics
Matches: 50, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
38 6 0.12
39 9 0.18
40 21 0.42
41 12 0.24
42 2 0.04
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.26
Consensus pattern (39 bp):
ATGTTAATATAAAAAATAATAAAATAATAAGGTAAAATA
Found at i:526591 original size:26 final size:26
Alignment explanation
Indices: 526555--526609 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
526545 ATGTTTTTTC
526555 TTCTTCTCCTTTTGACTTTGGTGATA
1 TTCTTCTCCTTTTGACTTTGGTGATA
526581 TTCTTCTCCTTTTGACTTTGGTGATA
1 TTCTTCTCCTTTTGACTTTGGTGATA
526607 TTC
1 TTC
526610 GGCTGCTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.11, C:0.20, G:0.15, T:0.55
Consensus pattern (26 bp):
TTCTTCTCCTTTTGACTTTGGTGATA
Found at i:527571 original size:2 final size:2
Alignment explanation
Indices: 527566--527594 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
527556 TTTAAAGTGA
527566 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 A
527595 CATGTTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:531311 original size:2 final size:2
Alignment explanation
Indices: 531306--531350 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
531296 GCCAACAAAT
531306 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
531348 TA T
1 TA T
531351 TATGGTAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:532633 original size:22 final size:21
Alignment explanation
Indices: 532601--532659 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
532591 AAATGAAAGG
*
532601 ATTAAGCCTTTTTCATCAAAAT
1 ATTAAGTC-TTTTCATCAAAAT
532623 ATTAAGTCTTTT-AGTCAAAAT
1 ATTAAGTCTTTTCA-TCAAAAT
* *
532644 GTTAAGTCATTTCATC
1 ATTAAGTCTTTTCATC
532660 CAAAGATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 1 0.03
21 23 0.72
22 8 0.25
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (21 bp):
ATTAAGTCTTTTCATCAAAAT
Found at i:534187 original size:22 final size:22
Alignment explanation
Indices: 534159--534202 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
534149 GTTCCAAGAC
534159 GGTGATATGGGTAGTTATGCGG
1 GGTGATATGGGTAGTTATGCGG
534181 GGTGATATGGGTAGTTATGCGG
1 GGTGATATGGGTAGTTATGCGG
534203 TGACGCCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.05, G:0.45, T:0.32
Consensus pattern (22 bp):
GGTGATATGGGTAGTTATGCGG
Found at i:534867 original size:23 final size:23
Alignment explanation
Indices: 534832--534903 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
534822 ATACTTTACA
*
534832 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
534855 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
534878 ATA-AAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
534900 ATAT
1 ATAT
534904 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 20 0.45
23 24 0.55
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:535294 original size:23 final size:23
Alignment explanation
Indices: 535268--535330 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
535258 ATATAACCAC
535268 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
535291 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
535314 TACCTATTACATCATAT
1 TACCTATTACATTATAT
535331 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:535689 original size:430 final size:430
Alignment explanation
Indices: 534669--536819 Score: 3931
Period size: 430 Copynumber: 5.0 Consensus size: 430
534659 ATGTTTATTG
534669 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
534734 AAATTAATATCTTAAAACTCACTC-AAAGATAACCTTAAATTAAT-TTTT-CACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
*
534796 TATGGACACTTTTATAAAAAGGATAAATACTTTACAATATAAGCACTACCTATTACATTATATAA
131 TATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
534861 ACGCTACCTATTACATTATA-AAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
534925 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
534990 TTTTAATAGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTG--CAAAAAAT
326 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAT
535053 TATTTGATTGTTTTGATATTTTAT-AAATAATATTTAGAA
391 TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
535092 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
*
535157 AAATTAATATTTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
* * *
535222 TATAGACACTTTTATAAAATGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
*
535287 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
535352 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
535417 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAT
326 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAT
*
535482 TATTTAATTGTTTTGATATTTTATAAAATAATATTTAGAA
391 TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
* *
535522 TTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAGACGCCTATAATTTCT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
*
535587 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAA
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
*
535652 TATGGACACTTTTATAAAAATGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
131 TATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
535717 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTA-CTATTATATTGAAAG
196 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
535781 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TT
535846 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAA
325 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAA
535911 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
390 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
535952 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
536017 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
* * *
536082 TATAGACACTTTTATAAAAAGGATAGATATTTTACAATATAACCACTACCTATTACATTATATAA
131 TATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
* *
536147 ACGATATCTATTACATTATATAAGCGCTACCTATTACATCATA-TTTTACCTATTATATTGAAAG
196 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
536211 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
536276 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAT
326 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAT
*
536341 TATTTGATTGTTTTAATATTTTATAAAATAATATTTAGAA
391 TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
536381 TTTTTAATTTAATAAT-ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
536445 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
* * *
536510 TATGAACACTTTTATAAAAGGGATAGATACTTTACAATATAAGAACTACCTATTACATTATAT-A
131 TATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
536574 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
* *
536639 TGTCCATACTTTTTA-CAAAA-GATCGATAC-TCTTTTAAAGTTATGTAATTTATGTTTAAATTT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
536701 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAT-ATTTCATTTACACAAAAAAT
326 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAT
*
536765 TATTTGATTGTTTTAATATTTTAT-AAATAATATTTAGAA
391 TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
* *
536804 -TTTAAATTTAACAATA
1 TTTTTAATTTAATAATA
536820 TTAACTAAAG
Statistics
Matches: 1676, Mismatches: 41, Indels: 22
0.96 0.02 0.01
Matches are distributed among these distances:
422 13 0.01
423 103 0.06
424 63 0.04
425 80 0.05
426 103 0.06
427 209 0.12
428 206 0.12
429 236 0.14
430 663 0.40
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (430 bp):
TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
TATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAT
TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
Found at i:535723 original size:23 final size:23
Alignment explanation
Indices: 535688--535760 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
535678 ATACTTTACA
*
535688 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
535711 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
535734 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
535757 ATAT
1 ATAT
535761 TTTTACTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:536144 original size:23 final size:23
Alignment explanation
Indices: 536118--536190 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
536108 ATATTTTACA
536118 ATATAACCACTACCTATTACATT
1 ATATAACCACTACCTATTACATT
* *
536141 ATATAAACGA-TATCTATTACATT
1 ATAT-AACCACTACCTATTACATT
* * *
536164 ATATAAGCGCTACCTATTACATC
1 ATATAACCACTACCTATTACATT
536187 ATAT
1 ATAT
536191 TTTACCTATT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
22 2 0.05
23 35 0.85
24 4 0.10
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAACCACTACCTATTACATT
Found at i:536605 original size:23 final size:23
Alignment explanation
Indices: 536546--536617 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
536536 ATACTTTACA
**
536546 ATATAAGAACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
536569 ATATAA-CGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
536591 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
536614 ATAT
1 ATAT
536618 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
22 20 0.44
23 25 0.56
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:537012 original size:25 final size:24
Alignment explanation
Indices: 536954--537017 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
536944 CACTCAAAAG
*
536954 ATGTATATA-CTAAATATGTAGTT
1 ATGTACATACCTAAATATGTAGTT
536977 ATGTACATACCTAAATATGTAGTT
1 ATGTACATACCTAAATATGTAGTT
537001 ATTGTACATACCTAAAT
1 A-TGTACATACCTAAAT
537018 TTAATGATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
23 8 0.21
24 15 0.39
25 15 0.39
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (24 bp):
ATGTACATACCTAAATATGTAGTT
Found at i:540805 original size:3 final size:3
Alignment explanation
Indices: 540797--540868 Score: 72
Period size: 3 Copynumber: 24.0 Consensus size: 3
540787 ACTTGTTTGG
* * * * *
540797 ATC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GTC AGC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
540845 GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC
540869 GTCAGCTTCA
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.24, C:0.33, G:0.07, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:540851 original size:36 final size:36
Alignment explanation
Indices: 540804--540885 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
540794 TGGATCATCA
*
540804 TCATCATCATCATCGTCATCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
* *
540840 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
*
540876 TCATCTTCAT
1 TCATCATCAT
540886 TGACCGCTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.21, C:0.33, G:0.09, T:0.38
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGTCAGCT
Found at i:540869 original size:12 final size:12
Alignment explanation
Indices: 540798--540885 Score: 95
Period size: 12 Copynumber: 7.3 Consensus size: 12
540788 CTTGTTTGGA
* *
540798 TCATCATCATCA
1 TCATCTTCATCG
* * *
540810 TCATCATCGTCA
1 TCATCTTCATCG
540822 TCATCTTCATCG
1 TCATCTTCATCG
*
540834 TCAGCTTCATCG
1 TCATCTTCATCG
*
540846 TCATCATCATCG
1 TCATCTTCATCG
540858 TCATCTTCATCG
1 TCATCTTCATCG
* *
540870 TCAGCTTCATCT
1 TCATCTTCATCG
540882 TCAT
1 TCAT
540886 TGACCGCTTG
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.22, C:0.33, G:0.08, T:0.38
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:540894 original size:18 final size:18
Alignment explanation
Indices: 540822--540885 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
540812 ATCATCGTCA
*
540822 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGACAGCT
* * *
540840 TCATCGTCATC-ATCATCG
1 TCATCTTCATCGA-CAGCT
*
540858 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGACAGCT
540876 TCATCTTCAT
1 TCATCTTCAT
540886 TGACCGCTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.19, C:0.33, G:0.09, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCGACAGCT
Found at i:543091 original size:401 final size:402
Alignment explanation
Indices: 542348--543324 Score: 1850
Period size: 401 Copynumber: 2.4 Consensus size: 402
542338 TTTAAATTAG
542348 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
542413 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
542478 TCGACAC-TTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAC
131 TCGACACTTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAC
542542 CAAAACTATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
196 CAAAACTATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
*
542607 GGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTTGATGTT
261 GGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTT
*
542672 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCATCCTGTTTTCCATTCATT
326 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATT
*
542737 CTGGACCAAAAC
391 CTGGACCAAAAA
* *
542749 TATCGACACAAACTAAAAACGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
542814 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
542879 TCGACACTTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAC
131 TCGACACTTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAC
* *
542944 CAAAACTATTGACACAAACTAAAAAAGTGTCGACACATTATTTAGATATATTCTCTCATAAAACC
196 CAAAACTATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
543009 -GGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTT
261 GGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTT
543073 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATT
326 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATT
543138 CTGGACCAAAAA
391 CTGGACCAAAAA
*
543150 TATCGACACAAACTAAAAAAGTGTAGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
543215 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTAGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
543280 TCGACACTTTTTTATATATGGTTCGACACTTTATGGTTGCACCCT
131 TCGACACTTTTTTATATATGGATCGACACTTTATGGTTGCACCCT
543325 TAATGTGTAT
Statistics
Matches: 563, Mismatches: 12, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
401 443 0.79
402 120 0.21
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (402 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAC
CAAAACTATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
GGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTT
TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATT
CTGGACCAAAAA
Found at i:543197 original size:200 final size:200
Alignment explanation
Indices: 542348--543324 Score: 1837
Period size: 201 Copynumber: 4.9 Consensus size: 200
542338 TTTAAATTAG
542348 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
542413 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
542478 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
542543 AAAAC
196 AAAAC
542548 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGGTAT
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC-GGTAT
*
542613 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTTGATGTTTTTGGG
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGG
*
542678 ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCATCCTGTTTTCCATTCATTCTGGAC
130 ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAC
542743 CAAAAC
195 CAAAAC
* *
542749 TATCGACACAAACTAAAAACGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
542814 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
542879 TCGACACTTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAC
131 TCGACAC-TTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAC
542944 CAAAAC
195 CAAAAC
* *
542950 TATTGACACAAACTAAAAAAGTGTCGACACATTATTTAGATATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
543015 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
543080 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
*
543145 AAAAA
196 AAAAC
*
543150 TATCGACACAAACTAAAAAAGTGTAGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
543215 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTAGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
543280 TCGACACTTTTTTATATATGGTTCGACACTTTATGGTTGCACCCT
131 TCGACAC-TTTTTATATATGGATCGACACTTTATGGTTGCACCCT
543325 TAATGTGTAT
Statistics
Matches: 758, Mismatches: 16, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
200 331 0.44
201 427 0.56
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (200 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
AAAAC
Found at i:543445 original size:19 final size:19
Alignment explanation
Indices: 543417--543464 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
543407 TTATATTCAC
543417 ATAC-AAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
543435 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
543454 ATACAAAATTA
1 ATACAAAATTA
543465 ACCCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:545368 original size:21 final size:21
Alignment explanation
Indices: 545343--545407 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
545333 CCCCTTATGC
*
545343 CTCTCAAGTTTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
545364 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
* *
545385 CTATCAATTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
545406 CT
1 CT
545408 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.08, T:0.45
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:547669 original size:20 final size:19
Alignment explanation
Indices: 547623--547669 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
547613 TCCGGTATCA
547623 TTTTACCGATTTTATCATT
1 TTTTACCGATTTTATCATT
* *
547642 TTGATACCGGTTTTATCATAT
1 TT-TTACCGATTTTATCAT-T
547663 TTTTACC
1 TTTTACC
547670 TGTTACATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTACCGATTTTATCATT
Found at i:547857 original size:19 final size:19
Alignment explanation
Indices: 547806--547857 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
547796 CGGTAACGTT
* *
547806 TTACCGGTTTTATCATTTTG
1 TTACCGG-TATATCATATTG
*
547826 TTACCGGTTTATCATATT-
1 TTACCGGTATATCATATTG
547844 TTACCTGGTATATC
1 TTACC-GGTATATC
547858 GTACTGGATC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 5 0.17
19 17 0.59
20 7 0.24
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.50
Consensus pattern (19 bp):
TTACCGGTATATCATATTG
Found at i:547917 original size:179 final size:182
Alignment explanation
Indices: 547590--548060 Score: 671
Period size: 179 Copynumber: 2.6 Consensus size: 182
547580 CGTACTTACG
* *
547590 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGATTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGATTTTATCATTTTGATACCGGTTT
* * * * *
547655 TATCATATTTTTACCTGTTACATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATAGTTTTACCTGTTATATCGTTCTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
*
547720 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * *
547771 AAAGTATCGACACGTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGG-TT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGATTTTATCATTTTGATACCGGTTT
* * *
547835 TATCATA-TTTTACCTGGTATATCGTACTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATAGTTTTACCTGTTATATCGTTCTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** * *
547899 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCTTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * *
547951 AAAGTACCGACACTTTAAATGTATCCGGTAACGCTTTACCGATTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGATTTTATCATTT-TGATACCGGTT
* * * *
548015 TTGTCATAGTTTTACATGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATAGTTTTACCTGTTATATCGTTCTGGATCGATACATTTTT
548061 AATTTGGATC
Statistics
Matches: 256, Mismatches: 30, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
179 95 0.37
180 63 0.25
181 66 0.26
182 32 0.12
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGATTTTATCATTTTGATACCGGTTT
TATCATAGTTTTACCTGTTATATCGTTCTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:549931 original size:29 final size:29
Alignment explanation
Indices: 549891--549975 Score: 116
Period size: 29 Copynumber: 2.9 Consensus size: 29
549881 CAAAAATTGT
549891 CCCTTTTTTACTAATGCCATTCGGTGCCC
1 CCCTTTTTTACTAATGCCATTCGGTGCCC
** *
549920 CTTTTTTTTACTAATGCCATTCGATGCCC
1 CCCTTTTTTACTAATGCCATTCGGTGCCC
* **
549949 CCCTTTTTGACTAATGTTATTCGGTGC
1 CCCTTTTTTACTAATGCCATTCGGTGC
549976 ATTAATGCAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.15, C:0.28, G:0.14, T:0.42
Consensus pattern (29 bp):
CCCTTTTTTACTAATGCCATTCGGTGCCC
Found at i:563614 original size:29 final size:28
Alignment explanation
Indices: 563568--563651 Score: 98
Period size: 29 Copynumber: 3.0 Consensus size: 28
563558 CAACAAAAAT
563568 TGCCC-CTTTTTTACTAATGCCATTCGG
1 TGCCCTCTTTTTTACTAATGCCATTCGG
* *
563595 TGCCCTTTTTTTTAACTAATGTCATTCGG
1 TGCCCTCTTTTTT-ACTAATGCCATTCGG
* * *
563624 TGTCCTCCTTTTTGACTAATGCTATTCG
1 TGCCCT-CTTTTTTACTAATGCCATTCG
563652 ATGCATTAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
27 5 0.11
28 6 0.13
29 31 0.66
30 5 0.11
ACGTcount: A:0.15, C:0.25, G:0.14, T:0.45
Consensus pattern (28 bp):
TGCCCTCTTTTTTACTAATGCCATTCGG
Found at i:578692 original size:15 final size:15
Alignment explanation
Indices: 578674--578703 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
578664 TTATAAAAAA
*
578674 TAATTTATATTTATT
1 TAATTGATATTTATT
578689 TAATTGATATTTATT
1 TAATTGATATTTATT
578704 AATATATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
TAATTGATATTTATT
Found at i:579272 original size:7 final size:7
Alignment explanation
Indices: 579260--579310 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
579250 TTTTCATCTA
579260 ATTTTAT
1 ATTTTAT
579267 ATTTTAT
1 ATTTTAT
*
579274 ATTGTAT
1 ATTTTAT
579281 -TTTTAT
1 ATTTTAT
579287 -TTTTA-
1 ATTTTAT
579292 ATTTTAT
1 ATTTTAT
* *
579299 TTTTTTT
1 ATTTTAT
579306 ATTTT
1 ATTTT
579311 TAATAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
6 15 0.41
7 22 0.59
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (7 bp):
ATTTTAT
Found at i:579287 original size:18 final size:18
Alignment explanation
Indices: 579261--579302 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
579251 TTTCATCTAA
579261 TTTTATATTTTATATTGTAT
1 TTTTAT-TTTTA-ATTGTAT
*
579281 TTTTATTTTTAATTTTAT
1 TTTTATTTTTAATTGTAT
579299 TTTT
1 TTTT
579303 TTTATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 5 0.24
20 6 0.29
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTATTTTTAATTGTAT
Found at i:579289 original size:6 final size:6
Alignment explanation
Indices: 579261--579327 Score: 50
Period size: 6 Copynumber: 10.8 Consensus size: 6
579251 TTTCATCTAA
* *
579261 TTTTAT ATTTTAT ATTGTAT TTTTAT TTTTAA TTTTA- -TTT-T TTTTAT
1 TTTTAT -TTTTAT -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
579308 TTTTAAT AATTTTAT TTTTA
1 TTTT-AT --TTTTAT TTTTA
579328 AGACACGTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
4 3 0.06
5 3 0.06
6 25 0.49
7 14 0.27
8 2 0.04
9 4 0.08
ACGTcount: A:0.24, C:0.00, G:0.01, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:583702 original size:2 final size:2
Alignment explanation
Indices: 583695--583725 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
583685 TATTATTGTT
583695 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
583726 TTTAAGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:583990 original size:15 final size:16
Alignment explanation
Indices: 583966--584009 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
583956 TCATTCATTT
*
583966 TTTGCCTTATTT-TGA
1 TTTGCTTTATTTCTGA
*
583981 TTTGCTTTATTTCTTA
1 TTTGCTTTATTTCTGA
*
583997 TTTTCTTTATTTC
1 TTTGCTTTATTTC
584010 ATTTGTCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.11, C:0.14, G:0.07, T:0.68
Consensus pattern (16 bp):
TTTGCTTTATTTCTGA
Found at i:584029 original size:27 final size:27
Alignment explanation
Indices: 583998--584050 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
583988 TATTTCTTAT
*
583998 TTTCTTTAT-TTCATTTGTCTTTTTTAC
1 TTTCTTTATATTCATTT-TCCTTTTTAC
584025 TTTCTTTATCATTCATTTTCCTTTTT
1 TTTCTTTAT-ATTCATTTTCCTTTTT
584051 CTCTAGCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 9 0.39
28 7 0.30
29 7 0.30
ACGTcount: A:0.11, C:0.17, G:0.02, T:0.70
Consensus pattern (27 bp):
TTTCTTTATATTCATTTTCCTTTTTAC
Found at i:587949 original size:95 final size:95
Alignment explanation
Indices: 587785--587966 Score: 265
Period size: 95 Copynumber: 1.9 Consensus size: 95
587775 ATATTAATTA
* * * * *
587785 TATACAATAAAACTTGAGTTGTCCCTTTAGAGCAATTGATTAAACGCCCCGGCTTTATGGATAAT
1 TATACAATAAAACTTGAGCTGTCCCTCTAAAGCAATTGATTAAACGCCCCGACTTTATGGATAAG
**
587850 ATTCAGCTAGTCTGATAAAGGTGAGTATAC
66 ATTCAGCTAACCTGATAAAGGTGAGTATAC
* * * *
587880 TATACAATAAAGCTTTAGCTGTCCCTCTAAAGCAATTGGTTAAATGCCCCGACTTTATGGATAAG
1 TATACAATAAAACTTGAGCTGTCCCTCTAAAGCAATTGATTAAACGCCCCGACTTTATGGATAAG
587945 ATTCAGCTAACCTGATAAAGGT
66 ATTCAGCTAACCTGATAAAGGT
587967 ATTTATATAT
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
95 76 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (95 bp):
TATACAATAAAACTTGAGCTGTCCCTCTAAAGCAATTGATTAAACGCCCCGACTTTATGGATAAG
ATTCAGCTAACCTGATAAAGGTGAGTATAC
Found at i:589969 original size:36 final size:36
Alignment explanation
Indices: 589918--589999 Score: 139
Period size: 36 Copynumber: 2.3 Consensus size: 36
589908 ATTGACCCAA
589918 CTTGAAACAATTTTTGTCTCTCTTGAGA-AGGTTTCC
1 CTTGAAACAATTTTTGTCTCTCTTGAGACA-GTTTCC
*
589954 CTTTAAACAATTTTTGTCTCTCTTGAGACAGTTTCC
1 CTTGAAACAATTTTTGTCTCTCTTGAGACAGTTTCC
589990 CTTGAAACAA
1 CTTGAAACAA
590000 AATTTTTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
36 42 0.98
37 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (36 bp):
CTTGAAACAATTTTTGTCTCTCTTGAGACAGTTTCC
Found at i:590186 original size:66 final size:64
Alignment explanation
Indices: 590100--590261 Score: 252
Period size: 64 Copynumber: 2.5 Consensus size: 64
590090 TCTTAAATTT
590100 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAAATCTTTGAATATATTTCCTTTGAAACAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAAATCTTTGAATATATTTCCTTT-AAACAA
590165 A
64 A
* *
590166 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTTAATATGTTTCCTTTAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATATTTCCTTTAAACAAA
* * * *
590230 TTTCGTCTCTCTCGAGACAATTTCTCTTGAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAA
590262 AATTTTGTCT
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
64 35 0.39
65 22 0.24
66 33 0.37
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (64 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATATTTCCTTTAAACAAA
Found at i:590197 original size:36 final size:36
Alignment explanation
Indices: 590013--590297 Score: 135
Period size: 36 Copynumber: 8.4 Consensus size: 36
590003 TTTTTAATTT
* * *
590013 GTTTTCCTTGAAGCAAATTTTGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
** * * * *
590049 GTTTCTTTTAAAACAAATTATATCTCTTTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* ***
590085 -TATTCTCTT-AAA-TTTTTTTGTCTCTCTTGAGACA
1 GT-TTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
** *
590119 GTTTCCCTTGAAACAAA-----AATCT-TTGA-ATA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
590148 TATTTCCTTTGAAACAAATTTTGTCTCTCTTGAGACA
1 -GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
590185 GTTTCCCTTGAAACAAA----ATCT-T-TT-A-ATA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * *
590213 TGTTT-CCTTTAAACAAATTTCGTCTCTCTCGAGACA
1 -GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * * *
590249 ATTTCTCTTG-AA-AAATTTTGTCTCCCTTGAGACG
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
**
590283 GTTTCTTTTGAAACA
1 GTTTCCCTTGAAACA
590298 CAAAATCTTT
Statistics
Matches: 180, Mismatches: 45, Indels: 48
0.66 0.16 0.18
Matches are distributed among these distances:
28 13 0.07
29 7 0.04
30 21 0.12
31 4 0.02
32 6 0.03
33 1 0.01
34 49 0.27
35 19 0.11
36 58 0.32
37 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:590272 original size:34 final size:34
Alignment explanation
Indices: 590227--590295 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
590217 TCCTTTAAAC
*
590227 AAATTTCGTCTCTCTCGAGACAATTTCTCTTGAA
1 AAATTTCGTCTCCCTCGAGACAATTTCTCTTGAA
* * ** *
590261 AAATTTTGTCTCCCTTGAGACGGTTTCTTTTGAA
1 AAATTTCGTCTCCCTCGAGACAATTTCTCTTGAA
590295 A
1 A
590296 CACAAAATCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (34 bp):
AAATTTCGTCTCCCTCGAGACAATTTCTCTTGAA
Found at i:590882 original size:10 final size:10
Alignment explanation
Indices: 590867--590913 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
590857 TACATATACA
590867 TATATAATAT
1 TATATAATAT
*
590877 TATATAATGT
1 TATATAATAT
590887 TATA-AATAT
1 TATATAATAT
*
590896 AATATATATAT
1 TATATA-ATAT
590907 ATATATA
1 -TATATA
590914 TGGTTTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 7 0.23
10 14 0.47
11 4 0.13
12 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (10 bp):
TATATAATAT
Done.