Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007754.1 Hibiscus syriacus cultivar Beakdansim tig00110020_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: 3698414
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 15
Found at i:420378 original size:40 final size:42
Alignment explanation
Indices: 420240--420378 Score: 117
Period size: 43 Copynumber: 3.4 Consensus size: 42
420230 ATAGGTTATA
* * **
420240 ATGTTTAGCGGCGTTTTAT-T-A-AAACGCCGCAGTAGGTGTTG
1 ATGTTTTGCGGCGTTTT-TCTCACAAACGTCG-AGTAGGCATTG
* **
420281 ATGTTTTGCGGCATTTTTCTCACAAACGTCGTAGTAGGTTTTG
1 ATGTTTTGCGGCGTTTTTCTCACAAACGTCG-AGTAGGCATTG
** * *
420324 ATGTTTTGTTGCGTTTTTCTCATAAACG-C-CGTAGGCATTG
1 ATGTTTTGCGGCGTTTTTCTCACAAACGTCGAGTAGGCATTG
420364 ATGTTTTGCGGCGTT
1 ATGTTTTGCGGCGTT
420379 GTTGCTAAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
40 22 0.27
41 16 0.20
42 2 0.02
43 41 0.51
ACGTcount: A:0.18, C:0.16, G:0.26, T:0.40
Consensus pattern (42 bp):
ATGTTTTGCGGCGTTTTTCTCACAAACGTCGAGTAGGCATTG
Found at i:427328 original size:2 final size:2
Alignment explanation
Indices: 427321--427347 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
427311 CTGAATTCAA
427321 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
427348 GCCACACCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:430917 original size:42 final size:42
Alignment explanation
Indices: 430808--431000 Score: 134
Period size: 41 Copynumber: 4.7 Consensus size: 42
430798 TACAATTATG
* * * * *
430808 TTGCGGCGTTTGTTG-AAACACGCCATTAAAG-ATTATATCTA
1 TTGCGGCGTTTTTTGAAAAAATGCCACTAAAGTACTAT-TCTA
* * *
430849 TTGCGGTGTTTTTCT--ATAAACGCCACTAAAGTACTATTCTA
1 TTGCGGCGTTTTT-TGAAAAAATGCCACTAAAGTACTATTCTA
* *
430890 TTGCGACGTTTTTTGAAAAAATGCCACTATAG-A-TGAATTCTA
1 TTGCGGCGTTTTTTGAAAAAATGCCACTAAAGTACT--ATTCTA
* * * * *
430932 TTACGGC-ATTTGT-ATAAAAATGCCGCTAAAGTACTACTCTA
1 TTGCGGCGTTTTTTGA-AAAAATGCCACTAAAGTACTATTCTA
*
430973 TTGCGGCGTTTGTTG-AAAAATGCCACTA
1 TTGCGGCGTTTTTTGAAAAAATGCCACTA
431001 TAGATGAACC
Statistics
Matches: 118, Mismatches: 23, Indels: 22
0.72 0.14 0.13
Matches are distributed among these distances:
40 3 0.03
41 81 0.69
42 33 0.28
43 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (42 bp):
TTGCGGCGTTTTTTGAAAAAATGCCACTAAAGTACTATTCTA
Found at i:430973 original size:41 final size:40
Alignment explanation
Indices: 430906--431137 Score: 152
Period size: 41 Copynumber: 5.7 Consensus size: 40
430896 CGTTTTTTGA
* * *
430906 AAAAATGCCACTATAGATGAATTCTATTACGGCATTTGTAT
1 AAAAATGCCACTAAAGAT-AACTCTATTACGGCGTTTGTAT
* *
430947 AAAAATGCCGCTAAAG-TACTACTCTATTGCGGCGTTTGT-T
1 AAAAATGCCACTAAAGATA--ACTCTATTACGGCGTTTGTAT
* *
430987 GAAAAATGCCACTATAGATGAACCCTATTACGGCGTTTGTAT
1 -AAAAATGCCACTAAAGAT-AACTCTATTACGGCGTTTGTAT
* * *
431029 AAAAA--ACACTGCAAATGACT-ACTTTATTATGGCGTTTGT-T
1 AAAAATGCCACT--AAA-GA-TAACTCTATTACGGCGTTTGTAT
* * * * *
431069 GAAAAACGCCACTATAGATGAACTCTATTACGACGTTTATTT
1 -AAAAATGCCACTAAAGAT-AACTCTATTACGGCGTTTGTAT
* * *
431111 AAAAACGCCGCTAAAGTATTACTCTAT
1 AAAAATGCCACTAAAG-ATAACTCTAT
431138 CCGCCTCATT
Statistics
Matches: 151, Mismatches: 23, Indels: 34
0.73 0.11 0.16
Matches are distributed among these distances:
39 6 0.04
40 5 0.03
41 127 0.84
42 7 0.05
43 6 0.04
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (40 bp):
AAAAATGCCACTAAAGATAACTCTATTACGGCGTTTGTAT
Found at i:431026 original size:82 final size:81
Alignment explanation
Indices: 430808--431137 Score: 333
Period size: 82 Copynumber: 4.0 Consensus size: 81
430798 TACAATTATG
* * * * * * * * * *
430808 TTGCGGCGTTTGTTGAAACACGCCATTAAAGATTATA-TCTATTGCGGTGTTTTTCTATAAACGC
1 TTGCGGCGTTTGTTGAAAAATGCCACTATAGATGA-ACTCTATTACGGCGTTTGTATA-AAAAGC
* *
430872 CACTAAAGTACTATTCTA
64 CGCTAAAGTACTACTCTA
* * * *
430890 TTGCGACGTTTTTTGAAAAAATGCCACTATAGATGAATTCTATTACGGCATTTGTATAAAAATGC
1 TTGCGGCGTTTGTTG-AAAAATGCCACTATAGATGAACTCTATTACGGCGTTTGTATAAAAA-GC
430955 CGCTAAAGTACTACTCTA
64 CGCTAAAGTACTACTCTA
* *
430973 TTGCGGCGTTTGTTGAAAAATGCCACTATAGATGAACCCTATTACGGCGTTTGTATAAAAAACAC
1 TTGCGGCGTTTGTTGAAAAATGCCACTATAGATGAACTCTATTACGGCGTTTGTATAAAAAGC-C
*
431038 TGC-AAA-TGACTACTTTA
65 -GCTAAAGT-ACTACTCTA
** * * * *
431055 TTATGGCGTTTGTTGAAAAACGCCACTATAGATGAACTCTATTACGACGTTTATTTAAAAACGCC
1 TTGCGGCGTTTGTTGAAAAATGCCACTATAGATGAACTCTATTACGGCGTTTGTATAAAAA-GCC
*
431120 GCTAAAGTATTACTCTA
65 GCTAAAGTACTACTCTA
431137 T
1 T
431138 CCGCCTCATT
Statistics
Matches: 207, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
81 4 0.02
82 138 0.67
83 65 0.31
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (81 bp):
TTGCGGCGTTTGTTGAAAAATGCCACTATAGATGAACTCTATTACGGCGTTTGTATAAAAAGCCG
CTAAAGTACTACTCTA
Found at i:431431 original size:42 final size:42
Alignment explanation
Indices: 431360--431730 Score: 396
Period size: 42 Copynumber: 8.9 Consensus size: 42
431350 TTGTAAATAC
* * *
431360 AAACTCCACTAAAGCACAAGTC-ATTAGCGGCGTTTGTATTCA
1 AAACGCCACTAAAGTACGAGTCTA-TAGCGGCGTTTGTATTCA
* * *
431402 AAATGCCACAAAAGTACGAGTCTATAGCGGCGTTTGCATTCA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTCA
* *
431444 AAACGCCACTAAAGTATGAGTCTATAGCGGCGTTTGTA-TAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTCA
* * *
431485 AAACGCCACTAAAGTACTAGTCTATAGC-G-GTTTTTATATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTAT-TCA
* * *
431526 AAACGCTACTAAAGTACGAGTCTTTAGCGGCGTTTGCATTCA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTCA
* *
431568 AAACGCCACTAAAGTACGAGTTTATAGCGGCGTTTGGATTCA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTCA
* * * * * *
431610 AAACGTCACGAAAGTATGAGTATATAGTGGTGTTTGTA-T-A
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTCA
** * *
431650 GAAACGCCACTAAAGTATTAGTATATAGCGGCGTTTGTA-TAA
1 -AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTCA
* * * *
431692 AAACGCCACTAAAGTATGATTCTATAGTGACGTTTGTAT
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTAT
431731 ATTACTCTTT
Statistics
Matches: 280, Mismatches: 41, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
39 6 0.02
40 2 0.01
41 124 0.44
42 141 0.50
43 7 0.03
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (42 bp):
AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTCA
Found at i:431500 original size:41 final size:41
Alignment explanation
Indices: 431384--431731 Score: 383
Period size: 41 Copynumber: 8.4 Consensus size: 41
431374 CACAAGTCAT
* * * *
431384 TAGCGGCGTTTGTATTCAAAATGCCACAAAAGTACGAGTCTA
1 TAGCGGCGTTTGTA-TAAAAACGCCACTAAAGTATGAGTCTA
* *
431426 TAGCGGCGTTTGCATTCAAAACGCCACTAAAGTATGAGTCTA
1 TAGCGGCGTTTGTA-TAAAAACGCCACTAAAGTATGAGTCTA
431468 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTACT-AGTCTA
1 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTA-TGAGTCTA
** * * * *
431509 TAGCGGTTTTTATATAAAAACGCTACTAAAGTACGAGTCTT
1 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTA
* * * *
431550 TAGCGGCGTTTGCATTCAAAACGCCACTAAAGTACGAGTTTA
1 TAGCGGCGTTTGTA-TAAAAACGCCACTAAAGTATGAGTCTA
* * * * *
431592 TAGCGGCGTTTGGATTCAAAACGTCACGAAAGTATGAGTATA
1 TAGCGGCGTTTGTA-TAAAAACGCCACTAAAGTATGAGTCTA
* * * * *
431634 TAGTGGTGTTTGTATAGAAACGCCACTAAAGTATTAGTATA
1 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTA
*
431675 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTATGATTCTA
1 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTA
* *
431716 TAGTGACGTTTGTATA
1 TAGCGGCGTTTGTATA
431732 TTACTCTTTA
Statistics
Matches: 262, Mismatches: 41, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
41 139 0.53
42 123 0.47
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (41 bp):
TAGCGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTA
Found at i:431647 original size:166 final size:166
Alignment explanation
Indices: 431360--431707 Score: 507
Period size: 166 Copynumber: 2.1 Consensus size: 166
431350 TTGTAAATAC
* * * *
431360 AAACTCCACTAAAGCACAAGTCATTAGCGGCGTTTGTATTCAAAATGCCACAAAAGTACGAGTCT
1 AAACGCCACTAAAGTACAAGTCATTAGCGGCGTTTGCATTCAAAACGCCACAAAAGTACGAGTCT
* *
431425 ATAGCGGCGTTTGCATTCAAAACGCCACTAAAGTATGAGTCTATAGCGGCGTTTGTATAAAAACG
66 ATAGCGGCGTTTGCATTCAAAACGCCACGAAAGTATGAGTATATAGCGGCGTTTGTATAAAAACG
* **
431490 CCACTAAAGTACTAGTCTATAGCGGTTTTTATATAA
131 CCACTAAAGTACTAGTATATAGCGGCGTTTATATAA
* * * * *
431526 AAACGCTACTAAAGTACGAGTCTTTAGCGGCGTTTGCATTCAAAACGCCACTAAAGTACGAGTTT
1 AAACGCCACTAAAGTACAAGTCATTAGCGGCGTTTGCATTCAAAACGCCACAAAAGTACGAGTCT
* * * * *
431591 ATAGCGGCGTTTGGATTCAAAACGTCACGAAAGTATGAGTATATAGTGGTGTTTGTATAGAAACG
66 ATAGCGGCGTTTGCATTCAAAACGCCACGAAAGTATGAGTATATAGCGGCGTTTGTATAAAAACG
* *
431656 CCACTAAAGTATTAGTATATAGCGGCGTTTGTATAA
131 CCACTAAAGTACTAGTATATAGCGGCGTTTATATAA
431692 AAACGCCACTAAAGTA
1 AAACGCCACTAAAGTA
431708 TGATTCTATA
Statistics
Matches: 160, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
166 160 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (166 bp):
AAACGCCACTAAAGTACAAGTCATTAGCGGCGTTTGCATTCAAAACGCCACAAAAGTACGAGTCT
ATAGCGGCGTTTGCATTCAAAACGCCACGAAAGTATGAGTATATAGCGGCGTTTGTATAAAAACG
CCACTAAAGTACTAGTATATAGCGGCGTTTATATAA
Found at i:433134 original size:41 final size:41
Alignment explanation
Indices: 433065--433143 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
433055 TTATACAAAA
*
433065 AAAAACGCCACTATTGATTAAAATTATTGCGGCGTTTTTCT
1 AAAAACGCCACTATTGATTAAAACTATTGCGGCGTTTTTCT
* ** *
433106 AAAAACGCCACTATTTATTATCACTATTGCGGTGTTTT
1 AAAAACGCCACTATTGATTAAAACTATTGCGGCGTTTT
433144 AAGAATAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (41 bp):
AAAAACGCCACTATTGATTAAAACTATTGCGGCGTTTTTCT
Found at i:433194 original size:42 final size:42
Alignment explanation
Indices: 433148--433289 Score: 139
Period size: 41 Copynumber: 3.4 Consensus size: 42
433138 TGTTTTAAGA
*
433148 ATAAATGCCACTATATGTATAATCTATTGCGGCATTTGTGGT
1 ATAAACGCCACTATATGTATAATCTATTGCGGCATTTGTGGT
* * ** *
433190 ATAAACGCCGCTA-ATTTACCGATCTATTGTGGCATTT-TGGCT
1 ATAAACGCCACTATATGTA-TAATCTATTGCGGCATTTGTGG-T
* **
433232 A-AAACACCACTATATGT-TAATCTATTGCGGTGTTTGTGGT
1 ATAAACGCCACTATATGTATAATCTATTGCGGCATTTGTGGT
**
433272 ATAAACGCCGTTATATGT
1 ATAAACGCCACTATATGT
433290 CAACTCTATT
Statistics
Matches: 78, Mismatches: 17, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
40 15 0.19
41 32 0.41
42 31 0.40
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (42 bp):
ATAAACGCCACTATATGTATAATCTATTGCGGCATTTGTGGT
Found at i:434579 original size:12 final size:12
Alignment explanation
Indices: 434564--434589 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
434554 TATGTTTTAG
434564 TATTTATTTTTT
1 TATTTATTTTTT
434576 TATTTATTTTTT
1 TATTTATTTTTT
434588 TA
1 TA
434590 AACTATTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (12 bp):
TATTTATTTTTT
Found at i:441189 original size:3 final size:3
Alignment explanation
Indices: 441181--441207 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
441171 ATACTAACAA
441181 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
441208 TGACCCCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:441724 original size:98 final size:98
Alignment explanation
Indices: 441551--441758 Score: 310
Period size: 98 Copynumber: 2.1 Consensus size: 98
441541 TTCATAAATA
* *
441551 GTTCGTTTATGTACGTTTATTAAACTAATAAAATGAGCATGGATGAATTTTTTTATGTTCATTTA
1 GTTCGTTTATGTACGCTTATTAAACTAATAAAATGAGCATGGACGAATTTTTTTATGTTCATTTA
* * *
441616 ATAAATGAACGAACACGAATATAAGTATGTTTG
66 ATAAACGAACGAACACGAACATAAGTATGTTCG
* * * *
441649 GTTCGTTTATGTATGCTTATTAAGCTAATTAAATGAGCATGGGCGAA-TTTTTTATGTTCATTTA
1 GTTCGTTTATGTACGCTTATTAAACTAATAAAATGAGCATGGACGAATTTTTTTATGTTCATTTA
*
441713 ATAAAACGAACGAACACGAACATAAGTGTGTTCG
66 AT-AAACGAACGAACACGAACATAAGTATGTTCG
441747 GTTCGTTTATGT
1 GTTCGTTTATGT
441759 TCACAGACAA
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
97 19 0.19
98 80 0.81
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (98 bp):
GTTCGTTTATGTACGCTTATTAAACTAATAAAATGAGCATGGACGAATTTTTTTATGTTCATTTA
ATAAACGAACGAACACGAACATAAGTATGTTCG
Found at i:448116 original size:21 final size:20
Alignment explanation
Indices: 448078--448116 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
448068 TTAGATTATA
*
448078 ATTGATTTTTAAATCATTTT
1 ATTGATTTTTAAAGCATTTT
448098 ATTGATTTTTAACAGCATT
1 ATTGATTTTTAA-AGCATT
448117 GCGAAGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (20 bp):
ATTGATTTTTAAAGCATTTT
Found at i:457475 original size:25 final size:25
Alignment explanation
Indices: 457432--457483 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 25
457422 GTATAAAACT
457432 TTAAAATTTATATATTTTTTAATTA
1 TTAAAATTTATATATTTTTTAATTA
457457 TTAAAATTTTATATATTTTTTAATTA
1 TTAAAA-TTTATATATTTTTTAATTA
457483 T
1 T
457484 CATATGAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TTAAAATTTATATATTTTTTAATTA
Found at i:461905 original size:59 final size:60
Alignment explanation
Indices: 461836--461990 Score: 192
Period size: 59 Copynumber: 2.6 Consensus size: 60
461826 GTCAAATACC
* * * * *
461836 ATTTTGTAACTTTTAATAGTTAGGAGACTCAAC-AAATAGTGTCTTATAGTTAGTGGATT
1 ATTTTATAACTTTTAATAGTTAGGAGACTCAACAAAATAGTATCCTATAGTTAATGGACT
* *
461895 ATTTTATAACTTTTAATAGTCA-GATGACTTAACAAAATAGTATCCTATAGTTAATGGACT
1 ATTTTATAACTTTTAATAGTTAGGA-GACTCAACAAAATAGTATCCTATAGTTAATGGACT
*
461955 ATTTTATAA-TTTTAATAGTTTAGG-GACTCAATAAAA
1 ATTTTATAACTTTTAATAG-TTAGGAGACTCAACAAAA
461991 AACACATATA
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
58 2 0.02
59 46 0.56
60 33 0.40
61 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (60 bp):
ATTTTATAACTTTTAATAGTTAGGAGACTCAACAAAATAGTATCCTATAGTTAATGGACT
Found at i:462207 original size:13 final size:14
Alignment explanation
Indices: 462181--462213 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
462171 GATTATTTTG
*
462181 TTTTAATTTCATAT
1 TTTTAATATCATAT
462195 TTTTAATAT-ATAT
1 TTTTAATATCATAT
462208 TTTTAA
1 TTTTAA
462214 ATTAACACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTAATATCATAT
Found at i:463934 original size:20 final size:20
Alignment explanation
Indices: 463909--463946 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
463899 TTAAGATCAC
463909 ATCTTAATTAAAACAAAATG
1 ATCTTAATTAAAACAAAATG
*
463929 ATCTTAATTAAAATAAAA
1 ATCTTAATTAAAACAAAA
463947 CGAAAGTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.32
Consensus pattern (20 bp):
ATCTTAATTAAAACAAAATG
Found at i:464777 original size:28 final size:28
Alignment explanation
Indices: 464746--464804 Score: 66
Period size: 31 Copynumber: 2.0 Consensus size: 28
464736 CCTAAACCCC
*
464746 AACT-CGACCGAATATCACACTTAAAAAA
1 AACTACGACCCAATATC-CACTTAAAAAA
464774 AACTAACCCGACCCAATATCCACTTAAAAAA
1 AACT-A--CGACCCAATATCCACTTAAAAAA
464805 CCTGAAACTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
28 4 0.15
31 11 0.42
32 11 0.42
ACGTcount: A:0.49, C:0.29, G:0.05, T:0.17
Consensus pattern (28 bp):
AACTACGACCCAATATCCACTTAAAAAA
Found at i:464906 original size:32 final size:32
Alignment explanation
Indices: 464870--464930 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
464860 AAAACCCGAC
*
464870 CCGACTCGAACCC-AATTTTTTTAAAAAAAAAA
1 CCGACCCGAACCCGAA-TTTTTTAAAAAAAAAA
*
464902 CCGACCCGATCCCGAATTTTTTAAAAAAA
1 CCGACCCGAACCCGAATTTTTTAAAAAAA
464931 TCCAACCCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 24 0.92
33 2 0.08
ACGTcount: A:0.43, C:0.25, G:0.08, T:0.25
Consensus pattern (32 bp):
CCGACCCGAACCCGAATTTTTTAAAAAAAAAA
Found at i:465030 original size:87 final size:90
Alignment explanation
Indices: 464883--465065 Score: 318
Period size: 87 Copynumber: 2.1 Consensus size: 90
464873 ACTCGAACCC
*
464883 AATTTTTTTAAAAAAAAAACCGACCCGATCCCGAATTTTTTAAAAAAATCCAACCCGAATACC-A
1 AATTTCTTTAAAAAAAAAACCGACCCGATCCCGAATTTTTTAAAAAAATCCAACCCGAATACCAA
464947 AA-ATTGATGAGGGTAGTATGGTCA
66 AATATTGATGAGGGTAGTATGGTCA
* *
464971 AATTTCTTT-AAAAAAAATCCGACCCGATCCCGAATTTTTTTAAAAAATCCAACCCGAATACCAA
1 AATTTCTTTAAAAAAAAAACCGACCCGATCCCGAATTTTTTAAAAAAATCCAACCCGAATACCAA
465035 AATATTGATGAGGGTAGTATGGTCA
66 AATATTGATGAGGGTAGTATGGTCA
465060 AATTTC
1 AATTTC
465066 ACATTCTCTT
Statistics
Matches: 90, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
87 51 0.57
88 11 0.12
89 28 0.31
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (90 bp):
AATTTCTTTAAAAAAAAAACCGACCCGATCCCGAATTTTTTAAAAAAATCCAACCCGAATACCAA
AATATTGATGAGGGTAGTATGGTCA
Found at i:472964 original size:2 final size:2
Alignment explanation
Indices: 472957--473022 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
472947 AATATGCATG
472957 TA TA TA TA TA TA TA TA TA TA TA TA TA T- 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
472998 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 T
473023 GCTTTTTGTT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:473413 original size:2 final size:2
Alignment explanation
Indices: 473406--473440 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
473396 GTAAATAATT
473406 TA TA TA TA TA TA -A 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
473441 GAAATAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:473977 original size:35 final size:35
Alignment explanation
Indices: 473935--474047 Score: 217
Period size: 35 Copynumber: 3.2 Consensus size: 35
473925 CATACGGGAA
473935 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
1 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
*
473970 CCTACGAGCCAATGGTTCTCCCCATGCATACGAGC
1 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
474005 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
1 CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
474040 CATACGAG
1 CATACGAG
474048 TGCGAGCCAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 76 1.00
ACGTcount: A:0.26, C:0.35, G:0.20, T:0.19
Consensus pattern (35 bp):
CATACGAGCCAATGGTTCTCCCCATGCATACGAGC
Found at i:474205 original size:35 final size:35
Alignment explanation
Indices: 474154--474234 Score: 153
Period size: 35 Copynumber: 2.3 Consensus size: 35
474144 GAGGTGGCCA
*
474154 AGCCCTACGAGCCAATGGTTCTCCCCATGCATACG
1 AGCCATACGAGCCAATGGTTCTCCCCATGCATACG
474189 AGCCATACGAGCCAATGGTTCTCCCCATGCATACG
1 AGCCATACGAGCCAATGGTTCTCCCCATGCATACG
474224 AGCCATACGAG
1 AGCCATACGAG
474235 TGCGAGCCAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.26, C:0.35, G:0.21, T:0.19
Consensus pattern (35 bp):
AGCCATACGAGCCAATGGTTCTCCCCATGCATACG
Found at i:474290 original size:71 final size:68
Alignment explanation
Indices: 474206--474345 Score: 244
Period size: 71 Copynumber: 2.0 Consensus size: 68
474196 CGAGCCAATG
474206 GTTCTCCCCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATAGA
1 GTTCTCCCCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCAT---GTGGAATAGA
474271 GAGGTC
63 GAGGTC
*
474277 GTTCTCCCCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATTTGGAATAGAGAG
1 GTTCTCCCCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGTGGAATAGAGAG
474342 GTC
66 GTC
474345 G
1 G
474346 CCATGCAGCC
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
68 16 0.24
71 52 0.76
ACGTcount: A:0.24, C:0.25, G:0.32, T:0.19
Consensus pattern (68 bp):
GTTCTCCCCATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGTGGAATAGAGAG
GTC
Found at i:474390 original size:29 final size:29
Alignment explanation
Indices: 474340--474448 Score: 166
Period size: 29 Copynumber: 3.8 Consensus size: 29
474330 TGGAATAGAG
* *
474340 AGGTCGCCATGCAG-CCTAGGCGACCTTGT
1 AGGTCGCCATGTAGTCC-CGGCGACCTTGT
474369 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
* *
474398 AGGTCGCCATGTACTCCCGGCGACCTTAT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
474427 AGGTCGCCATGTAGTCCCGGCG
1 AGGTCGCCATGTAGTCCCGGCG
474449 CCATTCCCAT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
29 72 0.97
30 2 0.03
ACGTcount: A:0.16, C:0.32, G:0.30, T:0.22
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:474484 original size:23 final size:23
Alignment explanation
Indices: 474454--474500 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
474444 CGGCGCCATT
474454 CCCATCATCCATTCACATGCAGC
1 CCCATCATCCATTCACATGCAGC
474477 CCCATCATCCATTCACATGCAGC
1 CCCATCATCCATTCACATGCAGC
474500 C
1 C
474501 ATATAGATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.45, G:0.09, T:0.21
Consensus pattern (23 bp):
CCCATCATCCATTCACATGCAGC
Found at i:474649 original size:25 final size:25
Alignment explanation
Indices: 474621--474672 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
474611 TGTACAATTA
*
474621 TTGGTGAAATAATTAAGGCAGTCGG
1 TTGGTGAAATAATTAAGGCAGCCGG
*
474646 TTGGTGAAATAATTGAGGCAGCCGG
1 TTGGTGAAATAATTAAGGCAGCCGG
474671 TT
1 TT
474673 ATAAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.10, G:0.33, T:0.29
Consensus pattern (25 bp):
TTGGTGAAATAATTAAGGCAGCCGG
Found at i:474738 original size:17 final size:16
Alignment explanation
Indices: 474710--474741 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
474700 GATTGCAGCC
474710 GAGAAAGAAAGAAAGG
1 GAGAAAGAAAGAAAGG
474726 GAGAAAGGAAAGAAAG
1 GAGAAA-GAAAGAAAG
474742 AAAGAAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (16 bp):
GAGAAAGAAAGAAAGG
Found at i:474760 original size:27 final size:25
Alignment explanation
Indices: 474711--474783 Score: 101
Period size: 27 Copynumber: 2.8 Consensus size: 25
474701 ATTGCAGCCG
474711 AGAAAGAAAGAAAGGGAGAAAGGAA
1 AGAAAGAAAGAAAGGGAGAAAGGAA
474736 AGAAAGAAAGAAGAAGGGAGAAAGGAA
1 AGAAAGAAAG-A-AAGGGAGAAAGGAA
*
474763 AGTAAAGAATCGAAAGGGAGA
1 AG-AAAGAA-AGAAAGGGAGA
474784 TAGGTAAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
25 10 0.23
26 1 0.02
27 24 0.56
28 7 0.16
29 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.36, T:0.03
Consensus pattern (25 bp):
AGAAAGAAAGAAAGGGAGAAAGGAA
Found at i:475042 original size:38 final size:38
Alignment explanation
Indices: 474969--475042 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 38
474959 TATATAGTTA
474969 AAAAATAATTAATTAGTTTGTATTGTTAATTAGTTATAT
1 AAAAATAATTAATTAGTTTGTATTGTTAA-TAGTTATAT
* *
475008 AAAAA-AATTATTTAAGTTTGTGTTAGTTAA-AGTTA
1 AAAAATAATTAATT-AGTTTGTATT-GTTAATAGTTA
475043 AGTTATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
38 12 0.39
39 14 0.45
40 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (38 bp):
AAAAATAATTAATTAGTTTGTATTGTTAATAGTTATAT
Found at i:476812 original size:26 final size:24
Alignment explanation
Indices: 476754--476812 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
476744 CTAATAAACC
*
476754 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
476778 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
476806 TAATAAT
1 TAATAAT
476813 AATATTTTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:477116 original size:16 final size:16
Alignment explanation
Indices: 477083--477112 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
477073 ATTTTAAAAC
477083 AACACTAATATTTTTA
1 AACACTAATATTTTTA
477099 AACAC-AATATTTTT
1 AACACTAATATTTTT
477113 TAAAACGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (16 bp):
AACACTAATATTTTTA
Found at i:477268 original size:19 final size:20
Alignment explanation
Indices: 477241--477278 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
477231 TCTTTATGCC
*
477241 TTCTTCCTT-TACTTTCTTT
1 TTCTGCCTTGTACTTTCTTT
*
477260 TTCTGCCTTGTTCTTTCTT
1 TTCTGCCTTGTACTTTCTT
477279 CGAATCAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.03, C:0.26, G:0.05, T:0.66
Consensus pattern (20 bp):
TTCTGCCTTGTACTTTCTTT
Found at i:477600 original size:46 final size:43
Alignment explanation
Indices: 477526--477617 Score: 116
Period size: 46 Copynumber: 2.1 Consensus size: 43
477516 AGACACTAAC
*
477526 AATTAATTAATATTTTTATATTTAATAACTT-AACTAAGAAACT
1 AATTAACTAATATTTTTATATTTAATAACTTAAACTAA-AAACT
477569 AATTAACTAAT-TTTTTATATAATATATATAACTTAAACTAAAAACT
1 AATTAACTAATATTTTTATAT--T-TA-ATAACTTAAACTAAAAACT
477615 AAT
1 AAT
477618 ATATATACTT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
42 9 0.21
43 10 0.23
44 1 0.02
45 2 0.05
46 15 0.35
47 6 0.14
ACGTcount: A:0.49, C:0.08, G:0.01, T:0.42
Consensus pattern (43 bp):
AATTAACTAATATTTTTATATTTAATAACTTAAACTAAAAACT
Found at i:477618 original size:26 final size:26
Alignment explanation
Indices: 477588--477653 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
477578 ATTTTTTATA
477588 TAATATATATAACTTAAAC-TAAAAAC
1 TAATATATAT-ACTTAAACTTAAAAAC
*
477614 TAATATATATACTTAAACTTACAAAC
1 TAATATATATACTTAAACTTAAAAAC
*
477640 TAATAATTTATACT
1 TAAT-ATATATACT
477654 AACAAACTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 8 0.22
26 20 0.56
27 8 0.22
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (26 bp):
TAATATATATACTTAAACTTAAAAAC
Found at i:478007 original size:32 final size:32
Alignment explanation
Indices: 477971--478034 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
477961 GGAATCTCTG
477971 AGCTATGAGCTATGATGCAACGCATGCATGCA
1 AGCTATGAGCTATGATGCAACGCATGCATGCA
478003 AGCTATGAGCTATGATGCAACGCATGCATGCA
1 AGCTATGAGCTATGATGCAACGCATGCATGCA
478035 GCAGGACCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (32 bp):
AGCTATGAGCTATGATGCAACGCATGCATGCA
Found at i:478153 original size:14 final size:14
Alignment explanation
Indices: 478134--478162 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
478124 ATCCCCCTCC
478134 CCCATGCATTCCCA
1 CCCATGCATTCCCA
478148 CCCATGCATTCCCA
1 CCCATGCATTCCCA
478162 C
1 C
478163 GTCCAATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.52, G:0.07, T:0.21
Consensus pattern (14 bp):
CCCATGCATTCCCA
Found at i:478186 original size:50 final size:50
Alignment explanation
Indices: 478105--478245 Score: 209
Period size: 50 Copynumber: 2.9 Consensus size: 50
478095 CCATGCACAG
478105 TTCCCACGTCCAATGCACCATCCCCCTCCCCCATGCATTCCCACCCATGCA
1 TTCCCACGTCCAATGCACCAT-CCCCTCCCCCATGCATTCCCACCCATGCA
478156 TTCCCACGTCCAATGCACCATCCCCTCCCCCATGCATT-CCACCCCATGCA
1 TTCCCACGTCCAATGCACCATCCCCTCCCCCATGCATTCCCA-CCCATGCA
* * *
478206 TTCCAACGTCCCATG---CATCCCCTCCCCCATACATTCCCAC
1 TTCCCACGTCCAATGCACCATCCCCTCCCCCATGCATTCCCAC
478246 ATCCCATGTT
Statistics
Matches: 85, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
47 20 0.24
48 3 0.04
49 3 0.04
50 38 0.45
51 21 0.25
ACGTcount: A:0.20, C:0.52, G:0.07, T:0.21
Consensus pattern (50 bp):
TTCCCACGTCCAATGCACCATCCCCTCCCCCATGCATTCCCACCCATGCA
Found at i:478223 original size:17 final size:14
Alignment explanation
Indices: 478183--478210 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
478173 CCATCCCCTC
478183 CCCCATGCATTCCA
1 CCCCATGCATTCCA
478197 CCCCATGCATTCCA
1 CCCCATGCATTCCA
478211 ACGTCCCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.50, G:0.07, T:0.21
Consensus pattern (14 bp):
CCCCATGCATTCCA
Found at i:478234 original size:33 final size:32
Alignment explanation
Indices: 478184--478313 Score: 130
Period size: 33 Copynumber: 4.2 Consensus size: 32
478174 CATCCCCTCC
* * *
478184 CCCATGCATTCC-ACCCCATGCATTCCAACGT
1 CCCATGCATCCCTCCCCCATGCATTCCCACGT
* *
478215 CCCATGCATCCCCTCCCCCATACATTCCCACAT
1 CCCATGCAT-CCCTCCCCCATGCATTCCCACGT
*
478248 CCCATGTTGATCCCTCCCCCATGCATT-CCA---
1 CCCATG--CATCCCTCCCCCATGCATTCCCACGT
478278 -CCATGCATCCCT-CCCCATGCATTCCCACGT
1 CCCATGCATCCCTCCCCCATGCATTCCCACGT
478308 CCCATG
1 CCCATG
478314 TTGATTGCAT
Statistics
Matches: 82, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
26 11 0.13
27 9 0.11
29 5 0.06
31 14 0.17
32 2 0.02
33 24 0.29
34 15 0.18
35 2 0.02
ACGTcount: A:0.19, C:0.49, G:0.08, T:0.23
Consensus pattern (32 bp):
CCCATGCATCCCTCCCCCATGCATTCCCACGT
Found at i:478354 original size:42 final size:41
Alignment explanation
Indices: 478279--478366 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 41
478269 TGCATTCCAC
478279 CATGCATCCCTCCCCATGCATTCCCACGTCCCATGTTGATTG
1 CATGCATCCCTCCCCATGCATTCCCACG-CCCATGTTGATTG
478321 CATGCATCCCCTCCCCAATGCATTCCCAC-CCCATGTTGATTG
1 CATGCAT-CCCTCCCC-ATGCATTCCCACGCCCATGTTGATTG
478363 CATG
1 CATG
478367 TCCCATGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
42 24 0.55
43 8 0.18
44 12 0.27
ACGTcount: A:0.18, C:0.41, G:0.14, T:0.27
Consensus pattern (41 bp):
CATGCATCCCTCCCCATGCATTCCCACGCCCATGTTGATTG
Found at i:478373 original size:18 final size:18
Alignment explanation
Indices: 478350--478384 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
478340 GCATTCCCAC
478350 CCCATGTTGATTGCATGT
1 CCCATGTTGATTGCATGT
478368 CCCATGTTGATTGCATG
1 CCCATGTTGATTGCATG
478385 GCCCTATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (18 bp):
CCCATGTTGATTGCATGT
Found at i:478445 original size:29 final size:29
Alignment explanation
Indices: 478403--478491 Score: 178
Period size: 29 Copynumber: 3.1 Consensus size: 29
478393 CTGTACACAC
478403 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
478432 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
478461 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
478490 AG
1 AG
478492 ACCACTGTAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.13
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:490992 original size:179 final size:176
Alignment explanation
Indices: 490687--491042 Score: 597
Period size: 179 Copynumber: 2.0 Consensus size: 176
490677 CTGGGATCGA
**
490687 CTCTTACTTCTCTTTACAACGTTAAATTTCCTTTATTATTAATTAGAATGAAATATTTGATGAAA
1 CTCTTACTTCTCTTTACAACGTTAAATTTCCTTTATTATTAAGAAGAATGAAATATTTGATGAAA
* *
490752 CGACGCGTGTCACTTTAGATAATGATGTCTGGCAATGAAGCCCTCAAAACTTGCGATGGGTGGTG
66 CGACGCGTGTCACTTTAGATAATGATGTCTGGCAATGAAGCCCTCAAAACTTACAATGGGTGGTG
490817 TTGTCTGGTAGTGAAGCTCTCAAACCTTGTGAATCAGTAGATTCGG
131 TTGTCTGGTAGTGAAGCTCTCAAACCTTGTGAATCAGTAGATTCGG
* *
490863 CTCTTACTTCTCTTTTACAACGTTAAATTTCCTTTATTATTGAGAAGAATG-AATTTTTGATGCA
1 CTCTTACTTCTC-TTTACAACGTTAAATTTCCTTTATTATTAAGAAGAATGAAATATTTGATG--
490927 AAAACGACGCGTGTCACTTTAGATAATGATGTCTGGCAATGAAGCCCTCAAAACTTACAATGGGT
63 -AAACGACGCGTGTCACTTTAGATAATGATGTCTGGCAATGAAGCCCTCAAAACTTACAATGGGT
* *
490992 GGTGTTGTCTGGTAGTGAAGCTCTCAAACCTTGTGAATCCGTATATTCGG
127 GGTGTTGTCTGGTAGTGAAGCTCTCAAACCTTGTGAATCAGTAGATTCGG
491042 C
1 C
491043 GAAGAGAAAG
Statistics
Matches: 168, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
176 22 0.13
177 35 0.21
179 111 0.66
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (176 bp):
CTCTTACTTCTCTTTACAACGTTAAATTTCCTTTATTATTAAGAAGAATGAAATATTTGATGAAA
CGACGCGTGTCACTTTAGATAATGATGTCTGGCAATGAAGCCCTCAAAACTTACAATGGGTGGTG
TTGTCTGGTAGTGAAGCTCTCAAACCTTGTGAATCAGTAGATTCGG
Found at i:491383 original size:42 final size:42
Alignment explanation
Indices: 491337--491435 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 42
491327 CTTTAGTGAC
*
491337 GTTTGTTCAAAAAACA-CCACTAAAATATGAGTCTATAGCAGT
1 GTTTGTT-AAAAAACAGCCACAAAAATATGAGTCTATAGCAGT
* * * *
491379 GTTTGTTTAAAAAA-ATGCTACAAAAATATGAGTTTTTAGCGGT
1 GTTTG-TTAAAAAACA-GCCACAAAAATATGAGTCTATAGCAGT
*
491422 ATTTGTTAAAAAAC
1 GTTTGTTAAAAAAC
491436 GACGTTCATG
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.02
42 19 0.40
43 27 0.57
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.33
Consensus pattern (42 bp):
GTTTGTTAAAAAACAGCCACAAAAATATGAGTCTATAGCAGT
Found at i:493388 original size:16 final size:17
Alignment explanation
Indices: 493350--493381 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
493340 TTTTGAAAAT
493350 AAAGTAAAAGCTAAGGG
1 AAAGTAAAAGCTAAGGG
493367 AAAGTAAAAG-TAAGG
1 AAAGTAAAAGCTAAGG
493382 TTAAGTAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.56, C:0.03, G:0.28, T:0.12
Consensus pattern (17 bp):
AAAGTAAAAGCTAAGGG
Found at i:498676 original size:15 final size:16
Alignment explanation
Indices: 498656--498689 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
498646 ATTATTATAT
*
498656 TTTTATTATA-TTTCA
1 TTTTATCATATTTTCA
498671 TTTTATCATATTTTCA
1 TTTTATCATATTTTCA
498687 TTT
1 TTT
498690 ATACAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATCATATTTTCA
Found at i:499642 original size:29 final size:29
Alignment explanation
Indices: 499594--499678 Score: 86
Period size: 29 Copynumber: 2.9 Consensus size: 29
499584 ATAAAAACAT
* *
499594 AAAAGATAGAATAAGAAAAA-ATAATATAAC
1 AAAAGAAAGAAAAAGAAAAAGA-AA-ATAAC
499624 -AAAGAAAAGAAAAAGAAAAAGAAAATAAC
1 AAAAG-AAAGAAAAAGAAAAAGAAAATAAC
*
499653 AAAAGAAAGTAAAAGAAATAA-AAAAT
1 AAAAGAAAGAAAAAGAAA-AAGAAAAT
499679 TAGAAAAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
29 26 0.54
30 21 0.44
31 1 0.02
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.11
Consensus pattern (29 bp):
AAAAGAAAGAAAAAGAAAAAGAAAATAAC
Found at i:499666 original size:23 final size:21
Alignment explanation
Indices: 499635--499677 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
499625 AAGAAAAGAA
499635 AAAGAAAAAGAAAATAACAAAAG
1 AAAGAAAAAG-AAATAA-AAAAG
*
499658 AAAGTAAAAGAAATAAAAAA
1 AAAGAAAAAGAAATAAAAAA
499678 TTAGAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.07
Consensus pattern (21 bp):
AAAGAAAAAGAAATAAAAAAG
Found at i:500678 original size:2 final size:2
Alignment explanation
Indices: 500671--500706 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
500661 TTGTATTTTA
500671 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
500707 GTTAATATTA
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:501364 original size:2 final size:2
Alignment explanation
Indices: 501357--501406 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
501347 CGACTATGCC
501357 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
501399 AT AT AT AT
1 AT AT AT AT
501407 GGGTGGATCG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:506866 original size:28 final size:29
Alignment explanation
Indices: 506835--506897 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
506825 AAAAGAATAT
506835 AAAAAACATAAATATATGA-T-AAATATAA
1 AAAAAACATAAATA-ATGAGTAAAATATAA
* * *
506863 AAAATAGATAAATAATGAGTAAAATATAT
1 AAAAAACATAAATAATGAGTAAAATATAA
506892 AAAAAA
1 AAAAAA
506898 GTAAAAGCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 4 0.14
28 13 0.45
29 12 0.41
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (29 bp):
AAAAAACATAAATAATGAGTAAAATATAA
Found at i:506902 original size:17 final size:17
Alignment explanation
Indices: 506808--506903 Score: 52
Period size: 19 Copynumber: 5.2 Consensus size: 17
506798 TAATGCAAAT
*
506808 AAATAAATAAAACAAGTA
1 AAATATATAAAA-AAGTA
* *
506826 AAAGAATATAAAAAACATA
1 AAA-TATATAAAAAA-GTA
506845 AATATATGATAAATATAA--A
1 AA-ATAT-ATAAA-A-AAGTA
*
506864 AAATAGATAAATAATGAGTA
1 AAATATATAAA-AA--AGTA
506884 AAATATATAAAAAAGTA
1 AAATATATAAAAAAGTA
506901 AAA
1 AAA
506904 GCATATATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 21
0.70 0.07 0.24
Matches are distributed among these distances:
16 1 0.02
17 14 0.23
18 9 0.15
19 18 0.29
20 17 0.27
21 1 0.02
22 2 0.03
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (17 bp):
AAATATATAAAAAAGTA
Found at i:506991 original size:8 final size:8
Alignment explanation
Indices: 506978--507038 Score: 51
Period size: 8 Copynumber: 8.2 Consensus size: 8
506968 GTAAAATAGG
506978 AAATATAT
1 AAATATAT
506986 AAATATAT
1 AAATATAT
*
506994 ATATATAT
1 AAATATAT
*
507002 ATATA-AT
1 AAATATAT
*
507009 AACTA-AT
1 AAATATAT
507016 AAA-A-A-
1 AAATATAT
507021 AAATATAT
1 AAATATAT
*
507029 ACATATAT
1 AAATATAT
507037 AA
1 AA
507039 TAAAATTAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
5 3 0.07
6 3 0.07
7 10 0.23
8 28 0.64
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (8 bp):
AAATATAT
Found at i:507851 original size:16 final size:18
Alignment explanation
Indices: 507819--507853 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
507809 ATATAAAAAC
507819 ATAAAATATAGGATAAAT
1 ATAAAATATAGGATAAAT
507837 ATAAAA-ATA-GATAAAT
1 ATAAAATATAGGATAAAT
507853 A
1 A
507854 AATGAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
ATAAAATATAGGATAAAT
Found at i:508473 original size:37 final size:36
Alignment explanation
Indices: 508395--508529 Score: 170
Period size: 37 Copynumber: 3.8 Consensus size: 36
508385 GTGCTTGTGG
* * * * *
508395 ATCCTATCTTTAGGAATTT-AATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAG-AAAATTCT
508431 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATGT-T
1 ATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT-TCT
508468 ATCCTATTTTTAGGAGTTTGAATCCT--AAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGAAAATTCT
508502 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
508530 TAGGACGAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
33 1 0.01
34 32 0.36
36 17 0.19
37 37 0.42
38 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (36 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGAAAATTCT
Found at i:508505 original size:34 final size:35
Alignment explanation
Indices: 508428--508528 Score: 161
Period size: 34 Copynumber: 2.9 Consensus size: 35
508418 TTAGTAGAAC
508428 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATG
1 TCTATCCTATTTTTAGGAGTTTGAATCCT---AAAATG
508466 T-TATCCTATTTTTAGGAGTTTGAATCCTAAAAT-
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
508499 TCTATCCTATTTTTAGGAGTTTGAATCCTA
1 TCTATCCTATTTTTAGGAGTTTGAATCCTA
508529 GTAGGACGAA
Statistics
Matches: 62, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
33 1 0.02
34 33 0.53
37 27 0.44
38 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.44
Consensus pattern (35 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
Found at i:509376 original size:105 final size:105
Alignment explanation
Indices: 509069--510138 Score: 1507
Period size: 105 Copynumber: 10.3 Consensus size: 105
509059 CATTGTTCCA
* * * ** *
509069 AGTCTAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTATTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAATT-GTTGTTGACAA
* * * * *
509133 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
64 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* **
509175 ATTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
509235 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
509275 AGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAAGTTGTTGTCGACAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
* *
509340 AACGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
509380 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
*
509440 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
509480 AGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAGATT-GGAAAGTTGTTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAA-TTGTTGTTGACAAG
*
509544 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
509585 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
509645 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
509685 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATT-GGAAAGTTGTTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAA-TTGTTGTTGACAAG
*
509749 CAGCGGTCCCTTCGTCGTGAAGTTG-ACTTGCATTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
509789 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
509854 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
509894 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAATTATTTATTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGG-AAATT-GTTGTTGACAA
*
509959 -CAGCAGTCCCTTCGTCGTGAAG-TGAACTTGCGTTGTCTGG
64 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
509999 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTG-TTGTTGACAAG
* * * *
510064 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGAGTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
510105 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
510139 CGCGGATGGC
Statistics
Matches: 879, Mismatches: 59, Indels: 49
0.89 0.06 0.05
Matches are distributed among these distances:
100 257 0.29
101 10 0.01
102 13 0.01
103 10 0.01
104 120 0.14
105 358 0.41
106 77 0.09
107 12 0.01
109 22 0.03
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:509440 original size:205 final size:205
Alignment explanation
Indices: 509069--510138 Score: 1554
Period size: 205 Copynumber: 5.2 Consensus size: 205
509059 CATTGTTCCA
* * * ** * *
509069 AGTCTAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTATTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTT-GTTGTTGACAA
* * * ** * *
509133 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGATTCCAATATCCTTCGTTGTGAA
64 ACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAA
**
509198 GTTGAAATTGAATCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
129 GTTGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
509263 TGCGTTGTCTGG
194 TGCGTTGTCTGG
* * *
509275 AGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAAGTTGTTGTCGACAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAAC
* *
509340 AACGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
509405 TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
131 TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
*
509470 CGTTGTCTGA
196 CGTTGTCTGG
* * *
509480 AGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAAC
*
509545 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
509610 TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
131 TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
509675 CGTTGTCTGG
196 CGTTGTCTGG
* *
509685 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAAC
509750 AGCGGTCCCTTCGTCGTGAAGTTG-ACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
* *
509814 TGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
131 TGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
509879 ACTTGCGTTGTCTGG
191 ACTTGCGTTGTCTGG
* * * *
509894 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAATTATTTATTGAC-A
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGG-AAGTT-GTTGTTGACAA
* *
509958 ACAGCAGTCCCTTCGTCGTGAAG-TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
64 ACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* * *
510022 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGT
129 GTTGAAATTGGCTCTG-AA-TGA-AA--T-TTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGT
* *
510087 TGAACTTGAGTTGTCTCG
188 TGAACTTGCGTTGTCTGG
* * *
510105 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
510139 CGCGGATGGC
Statistics
Matches: 798, Mismatches: 49, Indels: 26
0.91 0.06 0.03
Matches are distributed among these distances:
204 54 0.07
205 425 0.53
206 44 0.06
207 1 0.00
208 7 0.01
209 99 0.12
210 82 0.10
211 60 0.08
212 4 0.01
214 22 0.03
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (205 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAAC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
CGTTGTCTGG
Found at i:511045 original size:67 final size:67
Alignment explanation
Indices: 510965--511123 Score: 214
Period size: 67 Copynumber: 2.4 Consensus size: 67
510955 GAAACGAAAT
* *
510965 TTTGTTTTAAGGGAGATA-AAT-TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCATGGGAGAC
1 TTTGTTTCAAGGGA-A-ACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGAC
511028 AAAA
64 AAAA
* * * *
511032 TTTGTTTCGAGGGAAACAATCTCAAAGGTTTTGTGTTTCAAGAGAAGCTGTCTTAAGGGAGACAA
1 TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
511097 AA
66 AA
**
511099 TTTGTTTCAAGGGAAATTATCTCAA
1 TTTGTTTCAAGGGAAACAATCTCAA
511124 GAGAGACGAA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
65 1 0.01
66 4 0.05
67 76 0.94
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (67 bp):
TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
AA
Found at i:511130 original size:36 final size:36
Alignment explanation
Indices: 510998--511270 Score: 146
Period size: 36 Copynumber: 7.9 Consensus size: 36
510988 AAAGATTTTG
* * * *
510998 TGTTTCAAGAGAAACTGTCTCATGGGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
* * **
511034 TGTTTCGAGGGAAACAATCTCAA-AG-G----TTTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
* * * * *
511064 GTGTTTCAAGAGAAGCTGTCTTAAGGGAGACAAAATT
1 -TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
* *
511101 TGTTTCAAGGGAAATTATCTCAAGAGAGACGAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
** * * * * *
511137 CATTTCTAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGGGAAACT-ATCTCAAGAGAGACAAAATT
*
511165 ATGTTTC-AGGAGAAACTATCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGG-GAAACTATCTCAAGAGAGACAAAA-TT
* * *
511203 TGTTTCAAGGGAAACTGTCTCAACAGAGACAAAGTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
*
511239 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAA
511271 TGGTGAGCAC
Statistics
Matches: 173, Mismatches: 43, Indels: 42
0.67 0.17 0.16
Matches are distributed among these distances:
28 5 0.03
29 11 0.06
30 4 0.02
31 17 0.10
32 2 0.01
33 2 0.01
34 2 0.01
35 3 0.02
36 94 0.54
37 28 0.16
38 5 0.03
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
Found at i:511217 original size:37 final size:37
Alignment explanation
Indices: 511166--511270 Score: 151
Period size: 36 Copynumber: 2.9 Consensus size: 37
511156 TCAATGTTTA
* * *
511166 TGTTTC-AGGAGAAACTATCTCAAGGGAGACAAAATTT
1 TGTTTCAAGG-GAAACTGTCTCAAGAGAGACAAAAGTT
*
511203 TGTTTCAAGGGAAACTGTCTCAACAGAGAC-AAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAGTT
511239 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
511271 TGGTGAGCAC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
36 34 0.56
37 24 0.39
38 3 0.05
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAGTT
Found at i:511250 original size:102 final size:102
Alignment explanation
Indices: 510998--511253 Score: 282
Period size: 102 Copynumber: 2.5 Consensus size: 102
510988 AAAGATTTTG
* * * *
510998 TGTTTCAAGAGAAACTGTCTCATGGGAGACAAAATTTGTTTCGAGGGAAACAATCTCAAAGGTTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAATTTGTTTCAAGGGAAACAATCTCAAAGGTTT
* * * *
511063 TGTGTTTCAAGAGAAGCTGTCTTAAGGGAGACAAAATT
65 TATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATT
* * ** * *** * *
511101 TGTTTCAAGGGAAATTATCTCAAGAGAGACGAAATTCATTTCTAGGGAAATGTTTTC-AATG-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAATTTGTTTCAAGGGAAACAATCTCAAAGGTTT
*
511164 TATGTTTCAGGAGAAACTATCTCAAGGGAGACAAAATTT
65 TATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAA-TT
*
511203 TGTTTCAAGGGAAACTGTCTCAACAGAGACAAAGTTTGTTTCAAGGGAAAC
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA-TTTGTTTCAAGGGAAAC
511254 TGTCTCAAGA
Statistics
Matches: 125, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
101 36 0.29
102 45 0.36
103 44 0.35
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTT
ATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATT
Found at i:512149 original size:22 final size:22
Alignment explanation
Indices: 512123--512197 Score: 132
Period size: 22 Copynumber: 3.4 Consensus size: 22
512113 ATGTTTGGTT
512123 AAAGGTTTGGCATTTGATGCTC
1 AAAGGTTTGGCATTTGATGCTC
512145 AAAGGTTTGGCATTTGATGCTC
1 AAAGGTTTGGCATTTGATGCTC
*
512167 ATAGGTTTGGCATTTGATGCTC
1 AAAGGTTTGGCATTTGATGCTC
*
512189 AACGGTTTG
1 AAAGGTTTG
512198 ATGGGGTAGC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.21, C:0.13, G:0.28, T:0.37
Consensus pattern (22 bp):
AAAGGTTTGGCATTTGATGCTC
Found at i:512826 original size:14 final size:13
Alignment explanation
Indices: 512803--512838 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
512793 TTTGTTCCCT
512803 TTTTTATTTTGTTC
1 TTTTT-TTTTGTTC
512817 TTTCTTTTTTGTTC
1 TTT-TTTTTTGTTC
512831 TTTTTTTT
1 TTTTTTTT
512839 CCTTTTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 14 0.67
15 2 0.10
ACGTcount: A:0.03, C:0.08, G:0.06, T:0.83
Consensus pattern (13 bp):
TTTTTTTTTGTTC
Found at i:512845 original size:21 final size:21
Alignment explanation
Indices: 512821--512870 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
512811 TTGTTCTTTC
512821 TTTTTTG-TTCTTTT-TTTTCCT
1 TTTTTTGCTTCTTTTCTTTT--T
512842 TTTTTTGCTTCTTTTCTTTTT
1 TTTTTTGCTTCTTTTCTTTTT
512863 TTTTTTGC
1 TTTTTTGC
512871 CCTTTTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 16 0.59
22 7 0.26
23 4 0.15
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (21 bp):
TTTTTTGCTTCTTTTCTTTTT
Found at i:512846 original size:22 final size:20
Alignment explanation
Indices: 512814--512867 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
512804 TTTTATTTTG
*
512814 TTCTTTCTTTTTTG-TTCTT
1 TTCTTTTTTTTTTGCTTCTT
*
512833 TTTTTTCCTTTTTTTGCTTCTT
1 TTCTTT--TTTTTTTGCTTCTT
512855 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
512868 TGCCCTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 5 0.17
20 7 0.24
21 7 0.24
22 10 0.34
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (20 bp):
TTCTTTTTTTTTTGCTTCTT
Found at i:512865 original size:9 final size:9
Alignment explanation
Indices: 512817--512865 Score: 55
Period size: 10 Copynumber: 5.3 Consensus size: 9
512807 TATTTTGTTC
512817 TTTCTTTTT
1 TTTCTTTTT
512826 TGTTCTTTTT
1 T-TTCTTTTT
512836 TTTCCTTTTT
1 TTT-CTTTTT
* *
512846 TTGC-TTCT
1 TTTCTTTTT
512854 TTTCTTTTT
1 TTTCTTTTT
512863 TTT
1 TTT
512866 TTTGCCCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 6 0.18
9 10 0.30
10 17 0.52
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:512865 original size:18 final size:18
Alignment explanation
Indices: 512804--512865 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
512794 TTGTTCCCTT
512804 TTTTATTTTG-TTC-TTTC
1 TTTT-TTTTGCTTCTTTTC
*
512821 TTTTTTGTT-CTTTTTTTTC
1 TTTTTT-TTGC-TTCTTTTC
*
512840 CTTTTTTTGCTTCTTTTC
1 TTTTTTTTGCTTCTTTTC
512858 TTTTTTTT
1 TTTTTTTT
512866 TTTGCCCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
16 2 0.06
17 6 0.17
18 18 0.50
19 10 0.28
ACGTcount: A:0.02, C:0.13, G:0.05, T:0.81
Consensus pattern (18 bp):
TTTTTTTTGCTTCTTTTC
Found at i:516048 original size:16 final size:17
Alignment explanation
Indices: 516017--516050 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
516007 AATATAAAAC
*
516017 ATAAAATTAGGATAAAT
1 ATAAAAATAGGATAAAT
516034 ATAAAAATA-GATAAAT
1 ATAAAAATAGGATAAAT
516050 A
1 A
516051 AATGAGTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (17 bp):
ATAAAAATAGGATAAAT
Found at i:516216 original size:32 final size:30
Alignment explanation
Indices: 516114--516250 Score: 98
Period size: 32 Copynumber: 4.4 Consensus size: 30
516104 AAAAAAATCA
** *
516114 AAAATAATAAAGTATATATACATGTA-AAT
1 AAAATAATAAAAAATATATACATATATAAT
* *
516143 AGGAAAT-ATATAAATATATATATATATATAAT
1 A--AAATAATA-AAAAATATATACATATATAAT
*
516175 AACACTAATAAAAACATATATACATATATAAT
1 AA-AATAATAAAAA-ATATATACATATATAAT
* * * *
516207 AAAATTAATAGAAAGTAATATGCATATATAAC
1 AAAA-TAATAAAAAAT-ATATACATATATAAT
516239 AAGAATAATAAA
1 AA-AATAATAAA
516251 GTAGGAAAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
29 1 0.01
30 4 0.05
31 25 0.29
32 54 0.63
33 2 0.02
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (30 bp):
AAAATAATAAAAAATATATACATATATAAT
Found at i:517161 original size:39 final size:39
Alignment explanation
Indices: 517084--517169 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
517074 AAAAAATCAA
* * **
517084 AAATA-ATATAAGTATATATACAGTAAAATAGGAAATAT
1 AAATATATATAAGTATATATACACTAAAAAAACAAATAT
*
517122 AAATATATATATA-TATATATACACTAAAAAAACATATAT
1 AAATATATATA-AGTATATATACACTAAAAAAACAAATAT
*
517161 ACATATATA
1 AAATATATA
517170 ATAAAATTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 5 0.12
39 34 0.85
40 1 0.03
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.31
Consensus pattern (39 bp):
AAATATATATAAGTATATATACACTAAAAAAACAAATAT
Found at i:517410 original size:962 final size:960
Alignment explanation
Indices: 515497--517420 Score: 3488
Period size: 962 Copynumber: 2.0 Consensus size: 960
515487 AGTCGCCAAG
515497 CTGTCGCAACCGTCTTTCGGTTGGGCCCCGGAATTGGGCTTCGACTTGAAAAATGTGGATTGGAG
1 CTGTCGCAACCGTCTTTCGGTTGGGCCCCGGAATTGGGCTTCGACTTGAAAAATGTGGATTGGAG
*
515562 TCGCCACCGATCATTTATTTAAAGATAAATGGGTTGATCGGATACCCTATTTCTTACCTGATCTG
66 TCGCCACCGATCATTTATTTAAAGATAAATGCGTTGATCGGATACCCTATTTCTTACCTGATCTG
*
515627 CGTCTTACCAAAATATGTCGGGCTCGGGAGTCGGTTACGGTCAAGGAAGGATTAGCACCCTTGAA
131 CGTCTTACCAAAATATGTCGGGCTAGGGAGTCGGTTACGGTCAAGGAAGGATTAGCACCCTTGAA
515692 CCGCCCTTTCGGTACTACGTAATTTCCAGTTGTCTTAATTAAGAAAAATAACAAGTTAAATTAAA
196 CCGCCCTTTCGGTACTACGTAATTTCCAGTTGTCTTAATTAAGAAAAATAACAAGTTAAATTAAA
515757 AGATAAAATAATGATCCAAAATTACTTACCTTTGACGGATTTACAAATATACCCTTTAAAAGTCA
261 AGATAAAATAATGATCCAAAATTACTTACCTTTGACGGATTTACAAATATACCCTTTAAAAGTCA
515822 AAATATGGTTAGAAGAGATGAATAAATGATAAATAAAGTAAACAAATAAATAAGGAGATTAAGAA
326 AAATATGGTTAGAAGAGATGAATAAATGATAAATAAAGTAAACAAATAAATAAGGAGATTAAGAA
*
515887 AGAAATAAGTAAATATAAAATGAATAGAATATAAAATAAAAAACAACACTAATATATGCATAGCA
391 AGAAATAAGTAAATATAAAATGAATAGAATATAAAAAAAAAAACAACACTAATATATGCATAGCA
515952 AACAACTAAATAAAAATAAAATGATAATGCAAATAAATAAATAAACAAGTAAAAGAATATAAAAC
456 AACAACTAAATAAAAATAAAATGATAATGCAAATAAATAAATAAACAAGTAAAAGAATATAAAAC
516017 ATAAAATTAGGATAAATATAAAAATAGATAAATAAATGAGTAAAATATAAAAAGTAAAAGCATAT
521 ATAAAATTAGGATAAATATAAAAATAGATAAATAAATGAGTAAAATATAAAAAGTAAAAGCATAT
516082 ATATATATATAAAATAATAATAAAAAAAATCAAAAATAATAAAGTATATATACATGTAAATAGGA
586 ATATATATATAAAATAATAATAAAAAAAATCAAAAATAATAAAGTATATATACATGTAAATAGGA
516147 AATATATAAATATATATATATATATAATAACACTAATAAAAACATATATACATATATAATAAAAT
651 AATATATAAATATATATATATATATAATAACACTAATAAAAACATATATACATATATAATAAAAT
516212 TAATAGAAAGTAATATGCATATATAACAAGAATAATAAAGTAGGAAAAAAATGATTTAGGGGGGA
716 TAATAGAAAGTAATATGCATATATAACAAGAATAATAAAGTAGG-AAAAAATGATTTAGGGGGGA
516277 GAATTAAATATTTTAAAAAAATGAACACGCCTCGGGGGTGGATCTAGGTTCGAAACTTCGAAATC
780 GAATTAAATATTTTAAAAAAATGAACACGCCTCGGGGGTGGATCTAGGTTCGAAACTTCGAAATC
*
516342 CCATCCCTTTTTAGTCATCGGTGCAACCCACGTTTTGGGTTATTCGAACCAAATCTCAAGAAAAA
845 CCATCCCTTTTTAGTCATCGGCGCAACCCACGTTTTGGGTTATTCGAACCAAATCTCAAGAAAAA
516407 TAACGTGCACATGCGAGAAATGAACGAACCAATGTAAAAAAAAGATGCTAC
910 TAACGTGCACATGCGAGAAATGAACGAACCAATGTAAAAAAAAGATGCTAC
516458 CTGTCGCAACCGTCTTTCGGTTGGGCCCCGGAATTGGGCTTCGACTTGAAAAATGTGGATTGGAG
1 CTGTCGCAACCGTCTTTCGGTTGGGCCCCGGAATTGGGCTTCGACTTGAAAAATGTGGATTGGAG
516523 TCGCCACCGATCATTTATTTAAAGATAAATGCGTTGATCGGATACCCTATTTCTTACCTGATCTG
66 TCGCCACCGATCATTTATTTAAAGATAAATGCGTTGATCGGATACCCTATTTCTTACCTGATCTG
516588 CGTCTTACCAGAAATATGTCGGGCTAGGGAGTCGGTTACGGTCAAGGAAGGATTAGCACCCTTGA
131 CGTCTTACCA-AAATATGTCGGGCTAGGGAGTCGGTTACGGTCAAGGAAGGATTAGCACCCTTGA
516653 ACCGCCCTTTCGGTACTACGTAATTTCCAGTTGTCTTAATTAAGAAAAATAACAAGTTAAATTAA
195 ACCGCCCTTTCGGTACTACGTAATTTCCAGTTGTCTTAATTAAGAAAAATAACAAGTTAAATTAA
516718 AAGATAAAATAATGATCCAAAATTACTTACCTTTGACGGATTTACAAATATACCCTTTAAAAGTC
260 AAGATAAAATAATGATCCAAAATTACTTACCTTTGACGGATTTACAAATATACCCTTTAAAAGTC
516783 AAAATATGGGTTAGAAGAGATGAATAAATGATAAATAAAGTAAAACAAATAAAATAAGGAGATTA
325 AAAATAT-GGTTAGAAGAGATGAATAAATGATAAATAAAGT-AAACAAAT-AAATAAGGAGATTA
516848 AGAAAGAAATAAAGT-AATAT-AAATGAATAGAATATAAAAAAAAAAACAATAACACTAATATAT
387 AGAAAGAAAT-AAGTAAATATAAAATGAATAGAATATAAAAAAAAAAAC---AACACTAATATAT
516911 GCATAGCAAACAACT-AATAAAAATAAAATGATAATGC-AA-AAATAAATAAACAAGTAAAAGAA
448 GCATAGCAAACAACTAAATAAAAATAAAATGATAATGCAAATAAATAAATAAACAAGTAAAAGAA
516973 TATAAAAACATAAAATATAGGATAAATAT-AAAATAGATAAAT-AATGAGTAAAATATATAAAAA
513 TAT-AAAACATAAAAT-TAGGATAAATATAAAAATAGATAAATAAATGAGT-AAA-ATAT-AAAA
*
517036 AGTAAAAGCATATATATATATATAACTAA-AATAAATTAAAAAAATCAAAAATAATATAAGTATA
573 AGTAAAAGCATATATATATATATAA--AATAAT-AATAAAAAAAATCAAAAATAATA-AAGTATA
517100 TATACA-GTAAAATAGG-AA-ATATAAATATATATATATATAT-AT-ACACTAA-AAAAACATAT
634 TATACATGT-AAATAGGAAATATATAAATATATATATATATATAATAACACTAATAAAAACATAT
517159 ATACATATATAATAAAATTAATAGAAAGTAATATGCATATAT-ACAAGAATAATAAAGTAGG-AA
698 ATACATATATAATAAAATTAATAGAAAGTAATATGCATATATAACAAGAATAATAAAGTAGGAAA
517222 AAATGATTTTAGGGGGGAGAATTAAATATTTTAAAAAAATGAACACGCCTC-GGGGTGGATCTAG
763 AAATGA-TTTAGGGGGGAGAATTAAATATTTTAAAAAAATGAACACGCCTCGGGGGTGGATCTAG
517286 GTTCGAAACTTCGAAATCCCATCCCTTTTTAGTCATCGGCGCAACCCACGTTTT-GGTTATTCGA
827 GTTCGAAACTTCGAAATCCCATCCCTTTTTAGTCATCGGCGCAACCCACGTTTTGGGTTATTCGA
*
517350 ACCAAATCTCAAGAAAAATAACGTGCACATGCGAGAAATGAACGAACCCATGTAAAAAAAAGATG
892 ACCAAATCTCAAGAAAAATAACGTGCACATGCGAGAAATGAACGAACCAATGTAAAAAAAAGATG
517415 CTAC
957 CTAC
517419 CT
1 CT
517421 TTTATTTCCT
Statistics
Matches: 938, Mismatches: 6, Indels: 38
0.96 0.01 0.04
Matches are distributed among these distances:
961 219 0.23
962 264 0.28
963 77 0.08
964 86 0.09
965 111 0.12
966 49 0.05
967 59 0.06
968 25 0.03
969 28 0.03
970 20 0.02
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (960 bp):
CTGTCGCAACCGTCTTTCGGTTGGGCCCCGGAATTGGGCTTCGACTTGAAAAATGTGGATTGGAG
TCGCCACCGATCATTTATTTAAAGATAAATGCGTTGATCGGATACCCTATTTCTTACCTGATCTG
CGTCTTACCAAAATATGTCGGGCTAGGGAGTCGGTTACGGTCAAGGAAGGATTAGCACCCTTGAA
CCGCCCTTTCGGTACTACGTAATTTCCAGTTGTCTTAATTAAGAAAAATAACAAGTTAAATTAAA
AGATAAAATAATGATCCAAAATTACTTACCTTTGACGGATTTACAAATATACCCTTTAAAAGTCA
AAATATGGTTAGAAGAGATGAATAAATGATAAATAAAGTAAACAAATAAATAAGGAGATTAAGAA
AGAAATAAGTAAATATAAAATGAATAGAATATAAAAAAAAAAACAACACTAATATATGCATAGCA
AACAACTAAATAAAAATAAAATGATAATGCAAATAAATAAATAAACAAGTAAAAGAATATAAAAC
ATAAAATTAGGATAAATATAAAAATAGATAAATAAATGAGTAAAATATAAAAAGTAAAAGCATAT
ATATATATATAAAATAATAATAAAAAAAATCAAAAATAATAAAGTATATATACATGTAAATAGGA
AATATATAAATATATATATATATATAATAACACTAATAAAAACATATATACATATATAATAAAAT
TAATAGAAAGTAATATGCATATATAACAAGAATAATAAAGTAGGAAAAAATGATTTAGGGGGGAG
AATTAAATATTTTAAAAAAATGAACACGCCTCGGGGGTGGATCTAGGTTCGAAACTTCGAAATCC
CATCCCTTTTTAGTCATCGGCGCAACCCACGTTTTGGGTTATTCGAACCAAATCTCAAGAAAAAT
AACGTGCACATGCGAGAAATGAACGAACCAATGTAAAAAAAAGATGCTAC
Found at i:517628 original size:37 final size:36
Alignment explanation
Indices: 517546--517681 Score: 161
Period size: 37 Copynumber: 3.8 Consensus size: 36
517536 GTGCTTGTGG
* * * * * *
517546 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAG-AAAATTCT
*
517583 ATCATATTTTTAGGAGTTTGAATCCTAGCAAAATGT-T
1 ATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT-TCT
517620 ATCCTATTTTTAGGAGTTTGAATCCT--AAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGAAAATTCT
517654 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
517682 TAGGACGAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
33 1 0.01
34 32 0.37
37 52 0.60
38 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (36 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGAAAATTCT
Found at i:517657 original size:34 final size:35
Alignment explanation
Indices: 517580--517680 Score: 152
Period size: 34 Copynumber: 2.9 Consensus size: 35
517570 TTAGTAGAAC
*
517580 TCTATCATATTTTTAGGAGTTTGAATCCTAGCAAAATG
1 TCTATCCTATTTTTAGGAGTTTGAATCCT---AAAATG
517618 T-TATCCTATTTTTAGGAGTTTGAATCCTAAAAT-
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
517651 TCTATCCTATTTTTAGGAGTTTGAATCCTA
1 TCTATCCTATTTTTAGGAGTTTGAATCCTA
517681 GTAGGACGAA
Statistics
Matches: 61, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
33 1 0.02
34 33 0.54
37 26 0.43
38 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.44
Consensus pattern (35 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
Found at i:521051 original size:13 final size:16
Alignment explanation
Indices: 521018--521048 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
521008 CATAAATATT
521018 ATTAATAAAATAAATA
1 ATTAATAAAATAAATA
*
521034 ATTAATAAAAAAAAT
1 ATTAATAAAATAAAT
521049 TAAATTTCAG
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATTAATAAAATAAATA
Found at i:522285 original size:2 final size:2
Alignment explanation
Indices: 522278--522330 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
522268 TTACATATGA
522278 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
522319 AT AT AT AT AT AT
1 AT AT AT AT AT AT
522331 TTTAAAAACC
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:525628 original size:17 final size:17
Alignment explanation
Indices: 525606--525638 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
525596 ATTAATTTAT
*
525606 AAAAATAAAATTAATAA
1 AAAAATAAAATAAATAA
525623 AAAAATAAAATAAATA
1 AAAAATAAAATAAATA
525639 TTTTTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAATAAAATAAATAA
Found at i:525647 original size:21 final size:21
Alignment explanation
Indices: 525623--525674 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
525613 AAATTAATAA
525623 AAAAATAAAATAAATATTTTT
1 AAAAATAAAATAAATATTTTT
525644 AAAAATAAAATAAATATTTTT
1 AAAAATAAAATAAATATTTTT
525665 AAAAATAAAA
1 AAAAATAAAA
525675 AATATGGACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAATAAAATAAATATTTTT
Found at i:525675 original size:22 final size:22
Alignment explanation
Indices: 525604--525675 Score: 94
Period size: 21 Copynumber: 3.3 Consensus size: 22
525594 TTATTAATTT
**
525604 ATAAAAATAAA-ATTAATAAAA
1 ATAAAAATAAATATTTTTAAAA
*
525625 AAATAAAATAAATATTTTTAAAA
1 ATA-AAAATAAATATTTTTAAAA
525648 AT-AAAATAAATATTTTTAAAA
1 ATAAAAATAAATATTTTTAAAA
525669 ATAAAAA
1 ATAAAAA
525676 ATATGGACAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
21 23 0.52
22 12 0.27
23 9 0.20
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
ATAAAAATAAATATTTTTAAAA
Found at i:533360 original size:18 final size:18
Alignment explanation
Indices: 533337--533374 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
533327 GTTTTAATCT
*
533337 ACCCGACCTGACCCGAGA
1 ACCCGACCCGACCCGAGA
533355 ACCCGACCCGACCCGAGA
1 ACCCGACCCGACCCGAGA
533373 AC
1 AC
533375 AAGGAATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.47, G:0.21, T:0.03
Consensus pattern (18 bp):
ACCCGACCCGACCCGAGA
Found at i:534808 original size:18 final size:18
Alignment explanation
Indices: 534785--534821 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
534775 TAATAATAAC
534785 TTTA-TTATCAAACTTTAT
1 TTTATTTAT-AAACTTTAT
534803 TTTATTTATAAACTTTAT
1 TTTATTTATAAACTTTAT
534821 T
1 T
534822 ATCACATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTATTTATAAACTTTAT
Found at i:543106 original size:2 final size:2
Alignment explanation
Indices: 543099--543137 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
543089 CCCAGGTATG
543099 TA TA TA TA 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 TA TA TA TA T
543138 TCAAATCTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:551168 original size:71 final size:71
Alignment explanation
Indices: 551066--551207 Score: 194
Period size: 71 Copynumber: 2.0 Consensus size: 71
551056 GTCAAAGGGG
* * * *
551066 GGCATCATTTCTCCCCCAATGGGCCCCAAATATGATAATCAATGTGCATAGAACGTTACAATAAG
1 GGCATCATTTCTCCCCCAATGGACCCCAAATAAGATAATCAATGTGCATAGAACATAACAATAAG
551131 TCAAGC
66 TCAAGC
* * * * * *
551137 GGCATTATTTCTTCCCCAATTGATCCCAAATAAGATAATCAATGTGCATAGCACATAACAATATG
1 GGCATCATTTCTCCCCCAATGGACCCCAAATAAGATAATCAATGTGCATAGAACATAACAATAAG
551202 TCAAGC
66 TCAAGC
551208 AACATTATAG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (71 bp):
GGCATCATTTCTCCCCCAATGGACCCCAAATAAGATAATCAATGTGCATAGAACATAACAATAAG
TCAAGC
Found at i:552390 original size:34 final size:34
Alignment explanation
Indices: 552343--552419 Score: 129
Period size: 34 Copynumber: 2.3 Consensus size: 34
552333 TATAATCTGA
552343 TCCTCCATATTGATTTAAATTCAAATACAC-CAAT
1 TCCTCCATATTGATTTAAATTCAAATACACTC-AT
*
552377 TCCTCCATGTTGATTTAAATTCAAATACACTCAT
1 TCCTCCATATTGATTTAAATTCAAATACACTCAT
552411 TCCTCCATA
1 TCCTCCATA
552420 CACATTACAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
34 39 0.98
35 1 0.03
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (34 bp):
TCCTCCATATTGATTTAAATTCAAATACACTCAT
Found at i:553100 original size:160 final size:156
Alignment explanation
Indices: 552814--553119 Score: 470
Period size: 160 Copynumber: 1.9 Consensus size: 156
552804 GAGAGAAACT
*
552814 AATTTCCTATTGTAGACAAGAAAATTCCAAAACAATTTTTGGCATTATTATAAGCATATCAATAC
1 AATTTCCTATTGTAAACAAGAAAATTCCAAAACAATTTTTGGCATTATTATAAGCATATCAATAC
* * * *
552879 AGAAAATGAGCTGGCCATCAATATAGACTAGCCATCCAACCGATTATAGAAAATTATTCAACCAA
66 AGAAAATGAGCTGACCACCAATACAGACTAGCCATCCAACCGATTATAGAAAATAATTCAACCAA
552944 CATGCCCCAA-TACACAGTTACCAACC
131 CATG-CCCAAGTACACAGTTACCAACC
* * *
552970 AATTTCCTATTGTAAATAAGAAAATTCCCAAAGAATTTTTGGCATTATTATAAGCATTCAAGTCA
1 AATTTCCTATTGTAAACAAGAAAATTCCAAAACAATTTTTGGCATTATTATAAGCA-T--A-TCA
* *
553035 ATGCAGAAAATGAGCTGACCACCAGTACAGACTAGCCATCCAACCGATTATAGAAAATAATTCAA
62 ATACAGAAAATGAGCTGACCACCAATACAGACTAGCCATCCAACCGATTATAGAAAATAATTCAA
553100 CCAACATGCCCAAGTACACA
127 CCAACATGCCCAAGTACACA
553120 CGGTCAGCAA
Statistics
Matches: 135, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
156 52 0.39
157 1 0.01
159 6 0.04
160 76 0.56
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (156 bp):
AATTTCCTATTGTAAACAAGAAAATTCCAAAACAATTTTTGGCATTATTATAAGCATATCAATAC
AGAAAATGAGCTGACCACCAATACAGACTAGCCATCCAACCGATTATAGAAAATAATTCAACCAA
CATGCCCAAGTACACAGTTACCAACC
Found at i:555498 original size:107 final size:107
Alignment explanation
Indices: 555374--555653 Score: 391
Period size: 107 Copynumber: 2.6 Consensus size: 107
555364 CGTCTATTTA
* *
555374 AAGTTGATGGGACCTTAGAAATTTGACGATAACAAAATAGGTTAATTATTTAATTTGTTATTAAT
1 AAGTTGATGGG-CCTTAGAAATTCGACGATAACAAAATAGGTTAATTATTTATTTTGTTATTAAT
*
555439 ATTATCAATATATTAGGTAGAGCATAAAATATTATCAAAGATT
65 ATTATCAATATATTAGGTAGAGCATAAAATATTACCAAAGATT
* * * *
555482 AAGTTGATGGGTCTTAGAAATCCGACGATAACAAAATAGATTAATTACTTATTTTGTTATTAATA
1 AAGTTGATGGGCCTTAGAAATTCGACGATAACAAAATAGGTTAATTATTTATTTTGTTATTAATA
* * * *
555547 TTATCAATATATTAGGTAGCGCCTAAAATGTTACCAAAGTTT
66 TTATCAATATATTAGGTAGAGCATAAAATATTACCAAAGATT
* * * * *
555589 AAGCTGATGGACCTTCGAAATTCGACGACAACAAAATAGGTTAATT-TCTTATTTTGTTATAAAT
1 AAGTTGATGGGCCTTAGAAATTCGACGATAACAAAATAGGTTAATTAT-TTATTTTGTTATTAAT
555653 A
65 A
555654 AATATTAACA
Statistics
Matches: 151, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
107 140 0.93
108 11 0.07
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (107 bp):
AAGTTGATGGGCCTTAGAAATTCGACGATAACAAAATAGGTTAATTATTTATTTTGTTATTAATA
TTATCAATATATTAGGTAGAGCATAAAATATTACCAAAGATT
Found at i:556295 original size:23 final size:23
Alignment explanation
Indices: 556269--556326 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
556259 CGGTAGCTAG
* *
556269 TTTAATGTAATAGGTACCGCTTA
1 TTTAACGTAATAGGTACAGCTTA
*
556292 TTTAACGTAATAGGTAGAGCTTA
1 TTTAACGTAATAGGTACAGCTTA
*
556315 TTTAACATAATA
1 TTTAACGTAATA
556327 AGTAGCGTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (23 bp):
TTTAACGTAATAGGTACAGCTTA
Found at i:556340 original size:23 final size:23
Alignment explanation
Indices: 556287--556331 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
556277 AATAGGTACC
* *
556287 GCTTATTTAACGTAATAGGTAGA
1 GCTTATTTAACATAATAAGTAGA
556310 GCTTATTTAACATAATAAGTAG
1 GCTTATTTAACATAATAAGTAG
556332 CGTCTATTTT
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:0.09, G:0.18, T:0.36
Consensus pattern (23 bp):
GCTTATTTAACATAATAAGTAGA
Found at i:556416 original size:23 final size:23
Alignment explanation
Indices: 556390--556439 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
556380 TGGTAACTAG
*
556390 TTTAACGTAATAGATAACGCTTA
1 TTTAACGTAATAGATAACGCCTA
*
556413 TTTAACGTAATAGATATCGCCTA
1 TTTAACGTAATAGATAACGCCTA
556436 TTTA
1 TTTA
556440 TCATAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (23 bp):
TTTAACGTAATAGATAACGCCTA
Found at i:556438 original size:121 final size:121
Alignment explanation
Indices: 556220--556521 Score: 453
Period size: 121 Copynumber: 2.5 Consensus size: 121
556210 AAGTTGTATA
* * * *
556220 TATTTTACCGTTTACATTATTATTAACCTTTAAACAAACCGGTAGCTAGTTTAATGTAATAGGTA
1 TATTTTACCGTTTACATTATTATTAACATTTAAACAAACTGGTAGCTAGTTTAACGTAATAGATA
* * * *
556285 CCGCTTATTTAACGTAATAGGTAGAGCTTATTTAACATAATA-AGTAGCGTCTATTT
66 ACGCTTATTTAACGTAATAGATAGAGCCTATTTAACATAATATA-TAGCATCTATTT
* * * *
556341 TATTTTATCGTTTACATTATTATTAACTTTTAAACAATCTGGTAACTAGTTTAACGTAATAGATA
1 TATTTTACCGTTTACATTATTATTAACATTTAAACAAACTGGTAGCTAGTTTAACGTAATAGATA
** *
556406 ACGCTTATTTAACGTAATAGATATCGCCTATTTATCATAATATATAGCATCTATTT
66 ACGCTTATTTAACGTAATAGATAGAGCCTATTTAACATAATATATAGCATCTATTT
556462 TATTTTACCGTTTACATTATTATTAACATTTAAACAAACTGGTAGCTAGTTTAACGTAAT
1 TATTTTACCGTTTACATTATTATTAACATTTAAACAAACTGGTAGCTAGTTTAACGTAAT
556522 TGGTAGCACC
Statistics
Matches: 162, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
121 161 0.99
122 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (121 bp):
TATTTTACCGTTTACATTATTATTAACATTTAAACAAACTGGTAGCTAGTTTAACGTAATAGATA
ACGCTTATTTAACGTAATAGATAGAGCCTATTTAACATAATATATAGCATCTATTT
Found at i:556446 original size:23 final size:23
Alignment explanation
Indices: 556390--556447 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
556380 TGGTAACTAG
* *
556390 TTTAACGTAATAGATAACGCTTA
1 TTTAACATAATAGATAACGCCTA
* *
556413 TTTAACGTAATAGATATCGCCTA
1 TTTAACATAATAGATAACGCCTA
*
556436 TTTATCATAATA
1 TTTAACATAATA
556448 TATAGCATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (23 bp):
TTTAACATAATAGATAACGCCTA
Found at i:556543 original size:75 final size:75
Alignment explanation
Indices: 556450--556769 Score: 310
Period size: 75 Copynumber: 4.3 Consensus size: 75
556440 TCATAATATA
* *
556450 TAGCATCTATTTTATTTTACCGTTTACATTATTATTAACATTTAAACAAACT-GGTA-GCTAGTT
1 TAGCACCTATTTTATTTTACCGTTTACATTATTAGTAAC-TTTAAACAAACTAGGTATG-TAGTT
*
556513 TAACGTAATTGG
64 TAACGTAATAGG
* * *
556525 TAGCACCTAATTTATTTTATCGTTTACATTATTAGTAACCTTTAAACAAAC-CGGTATGTAGTTT
1 TAGCACCTATTTTATTTTACCGTTTACATTATTAGTAA-CTTTAAACAAACTAGGTATGTAGTTT
** *
556589 AATATAATAAG
65 AACGTAATAGG
*** * ** *
556600 TAATGCCTATTTTATTTTACCGTTTACATTATTAGAAACTTTTAAACAAACATATATAGGTA-TT
1 TAGCACCTATTTTATTTTACCGTTTACATTATTAGTAAC-TTTAAACAAAC-TAGGTATGTAGTT
556664 TCAACGTAATAGG
64 T-AACGTAATAGG
** * * * *
556677 TAGCGTCTATTTTATTTTA-CGGTTACATTATTAGTAACCTTAAAAAAAATCA-GTATGTAGTTT
1 TAGCACCTATTTTATTTTACCGTTTACATTATTAGTAACTTTAAACAAACT-AGGTATGTAGTTT
556740 AACGTAATAGG
65 AACGTAATAGG
** *
556751 TAGCGTCTGTTTTATTTTA
1 TAGCACCTATTTTATTTTA
556770 ACCGGTTAAG
Statistics
Matches: 204, Mismatches: 32, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
74 36 0.18
75 117 0.57
76 22 0.11
77 29 0.14
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (75 bp):
TAGCACCTATTTTATTTTACCGTTTACATTATTAGTAACTTTAAACAAACTAGGTATGTAGTTTA
ACGTAATAGG
Found at i:556720 original size:150 final size:151
Alignment explanation
Indices: 556456--556741 Score: 391
Period size: 150 Copynumber: 1.9 Consensus size: 151
556446 TATATAGCAT
** *
556456 CTATTTTATTTTACCGTTTACATTATTATTAACATTTAAACAAACTGGTAGCTAGTTTAACGTAA
1 CTATTTTATTTTACCGTTTACATTATTAGAAACATTTAAACAAACTGATAGCTAGTTTAACGTAA
* * * *
556521 TTGGTAGCACCTAATTTATTTTATCGTTTACATTATTAGTAACCTTT-AAACAAACCGGTATGTA
66 TAGGTAGCACCTAATTTATTTTATCGGTTACATTATTAGTAACCTTTAAAAAAAACCAGTATGTA
556585 GTTTAATATAATAAGTAATGC
131 GTTTAATATAATAAGTAATGC
* * *
556606 CTATTTTATTTTACCGTTTACATTATTAGAAACTTTTAAACAAACATATATAGGTA-TTTCAACG
1 CTATTTTATTTTACCGTTTACATTATTAGAAACATTTAAACAAAC-T-GATAGCTAGTTT-AACG
** * *
556670 TAATAGGTAGCGTCTATTTTATTTTA-CGGTTACATTATTAGTAACC-TTAAAAAAAATCAGTAT
63 TAATAGGTAGCACCTAATTTATTTTATCGGTTACATTATTAGTAACCTTTAAAAAAAACCAGTAT
556733 GTAGTTTAA
128 GTAGTTTAA
556742 CGTAATAGGT
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
150 44 0.37
151 43 0.36
152 31 0.26
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (151 bp):
CTATTTTATTTTACCGTTTACATTATTAGAAACATTTAAACAAACTGATAGCTAGTTTAACGTAA
TAGGTAGCACCTAATTTATTTTATCGGTTACATTATTAGTAACCTTTAAAAAAAACCAGTATGTA
GTTTAATATAATAAGTAATGC
Found at i:556766 original size:151 final size:150
Alignment explanation
Indices: 556436--556769 Score: 395
Period size: 151 Copynumber: 2.2 Consensus size: 150
556426 ATATCGCCTA
* * **
556436 TTTATCATAATATA-TAGCATCTATTTTATTTTACCGTTTACATTATTATTAACATTTAAACAAA
1 TTTAACATAATA-AGTAGCGTCTATTTTATTTTACCGTTTACATTATTAGAAACATTTAAACAAA
* * *
556500 CTGGTAGCTAGTTTAACGTAATTGGTAGCACCTAATTTATTTTATCGTTTACATTATTAGTAACC
65 CTGATAGCTAGTTTAACGTAATAGGTAGCACCTAATTTATTTTATCGGTTACATTATTAGTAACC
* * *
556565 TTTAAACAAACCGGTATGTAG
130 TTAAAAAAAACCAGTATGTAG
* ** * *
556586 TTTAATATAATAAGTAATGCCTATTTTATTTTACCGTTTACATTATTAGAAACTTTTAAACAAAC
1 TTTAACATAATAAGTAGCGTCTATTTTATTTTACCGTTTACATTATTAGAAACATTTAAACAAAC
* * ** *
556651 ATATATAGGTA-TTTCAACGTAATAGGTAGCGTCTATTTTATTTTA-CGGTTACATTATTAGTAA
66 -T-GATAGCTAGTTT-AACGTAATAGGTAGCACCTAATTTATTTTATCGGTTACATTATTAGTAA
*
556714 CCTTAAAAAAAATCAGTATGTAG
128 CCTTAAAAAAAACCAGTATGTAG
* * *
556737 TTTAACGTAATAGGTAGCGTCTGTTTTATTTTA
1 TTTAACATAATAAGTAGCGTCTATTTTATTTTA
556770 ACCGGTTAAG
Statistics
Matches: 152, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
149 1 0.01
150 54 0.36
151 66 0.43
152 31 0.20
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (150 bp):
TTTAACATAATAAGTAGCGTCTATTTTATTTTACCGTTTACATTATTAGAAACATTTAAACAAAC
TGATAGCTAGTTTAACGTAATAGGTAGCACCTAATTTATTTTATCGGTTACATTATTAGTAACCT
TAAAAAAAACCAGTATGTAG
Found at i:562397 original size:60 final size:60
Alignment explanation
Indices: 562272--562403 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 60
562262 AAAAAGTGTG
* * * * *
562272 GGGACCAATTTAGAATGATTTCCATAGTTTAGGGATGCAATTGAAATGTTCAAATTTTCA
1 GGGACTAATTTAGAATGATTTCCATAGTTTAGGAATGAAATTAAAATGTTCAAAATTTCA
* * * * *
562332 AGGACTAATTTAGAATGATATT-CGTAGTTTATGAATGAAATTAAAATATTTTAAAATTT-A
1 GGGACTAATTTAGAATGAT-TTCCATAGTTTAGGAATGAAATTAAAAT-GTTCAAAATTTCA
562392 GGGACTAATTTA
1 GGGACTAATTTA
562404 AAATTACTGT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
60 49 0.83
61 10 0.17
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (60 bp):
GGGACTAATTTAGAATGATTTCCATAGTTTAGGAATGAAATTAAAATGTTCAAAATTTCA
Found at i:563285 original size:13 final size:13
Alignment explanation
Indices: 563267--563298 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
563257 ACTCATTTAA
563267 CATCAAGTTCTAC
1 CATCAAGTTCTAC
563280 CATCAAGTTCTAC
1 CATCAAGTTCTAC
*
563293 GATCAA
1 CATCAA
563299 ACATAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.28, G:0.09, T:0.28
Consensus pattern (13 bp):
CATCAAGTTCTAC
Found at i:573897 original size:6 final size:6
Alignment explanation
Indices: 573886--573959 Score: 76
Period size: 6 Copynumber: 11.8 Consensus size: 6
573876 AAGGTCTTCA
* * *
573886 TCATCT TCATCT TCAACT TCATACT CATCATCA TAATCT TCATCT TCATCT
1 TCATCT TCATCT TCATCT TCAT-CT --TCATCT TCATCT TCATCT TCATCT
* *
573937 CCATCT TCAACT TCATCT TCATC
1 TCATCT TCATCT TCATCT TCATC
573960 ATCTCCACCT
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
6 48 0.87
7 2 0.04
8 1 0.02
9 4 0.07
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.42
Consensus pattern (6 bp):
TCATCT
Found at i:577076 original size:20 final size:17
Alignment explanation
Indices: 577034--577079 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 17
577024 CACTTTTAAT
*
577034 GTTACAAATAATCAATT
1 GTTACAAATAATCAATG
577051 GTTACAAATAATTTCAAATG
1 GTTACAAATAA--TC-AATG
577071 GTTACAAAT
1 GTTACAAAT
577080 GAGTCAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 11 0.44
19 2 0.08
20 12 0.48
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.35
Consensus pattern (17 bp):
GTTACAAATAATCAATG
Found at i:584611 original size:31 final size:29
Alignment explanation
Indices: 584544--584611 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 29
584534 GCTCCAAAGG
*
584544 AATAAAATATAATTAATTATAGAAAATAA
1 AATAAAATATAATTAATCATAGAAAATAA
*
584573 AGGATAAAATATAATTAATCATAATAAAATCAA
1 A--ATAAAATATAATTAATCAT-AGAAAAT-AA
584606 AATAAA
1 AATAAA
584612 CTAAAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 1 0.03
31 23 0.70
32 6 0.18
33 3 0.09
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (29 bp):
AATAAAATATAATTAATCATAGAAAATAA
Found at i:586190 original size:21 final size:21
Alignment explanation
Indices: 586164--586203 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
586154 AATTTTGATC
586164 TTCTTGACCTTGTAAGACCTT
1 TTCTTGACCTTGTAAGACCTT
586185 TTCTTGACCTTGTAAGACC
1 TTCTTGACCTTGTAAGACC
586204 CAGTCCAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (21 bp):
TTCTTGACCTTGTAAGACCTT
Found at i:591432 original size:21 final size:21
Alignment explanation
Indices: 591382--591432 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
591372 GGTTGAATTT
* *
591382 GATGACATCAAGATTTAGCAA
1 GATGACATTAAGATTTAACAA
591403 GATGACATTAAGATTTAACAA
1 GATGACATTAAGATTTAACAA
591424 GATGACATT
1 GATGACATT
591433 TATTTGTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (21 bp):
GATGACATTAAGATTTAACAA
Found at i:592114 original size:25 final size:25
Alignment explanation
Indices: 592064--592116 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
592054 TGATGAGATT
* *
592064 TTAATTTATAATAGTATTATATAAC
1 TTAATTTATAATAGAAATATATAAC
*
592089 TTAATTTAT-ATAGAAATATGTAAAC
1 TTAATTTATAATAGAAATATAT-AAC
592114 TTA
1 TTA
592117 CTATTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (25 bp):
TTAATTTATAATAGAAATATATAAC
Found at i:607157 original size:2 final size:2
Alignment explanation
Indices: 607150--607217 Score: 129
Period size: 2 Copynumber: 34.5 Consensus size: 2
607140 TTTATATGGT
607150 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
607192 TA TA TA TA TA TA TA TA TA TA -A TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
607218 GTTTGGATAG
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 64 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:609628 original size:12 final size:12
Alignment explanation
Indices: 609613--609649 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
609603 ACTTTTAAAT
609613 TTTTAATAAAAA
1 TTTTAATAAAAA
609625 TTTTAATAAAAA
1 TTTTAATAAAAA
**
609637 AATTAATAAAAA
1 TTTTAATAAAAA
609649 T
1 T
609650 GATTAAACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TTTTAATAAAAA
Found at i:609654 original size:13 final size:12
Alignment explanation
Indices: 609615--609655 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
609605 TTTTAAATTT
*
609615 TTAATAAAAATT
1 TTAATAAAAATA
*
609627 TTAATAAAAAAA
1 TTAATAAAAATA
609639 TTAATAAAAATGA
1 TTAATAAAAAT-A
609652 TTAA
1 TTAA
609656 ACTAAGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 20 0.80
13 5 0.20
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
TTAATAAAAATA
Found at i:611329 original size:20 final size:19
Alignment explanation
Indices: 611285--611335 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
611275 TAAAAATAAA
611285 TTAAATATTAAAATACTAT
1 TTAAATATTAAAATACTAT
* *
611304 TAAAATATGTATAATA-TCAT
1 TTAAATAT-TAAAATACT-AT
611324 TTAAATATTAAA
1 TTAAATATTAAA
611336 TAATGTGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (19 bp):
TTAAATATTAAAATACTAT
Found at i:618375 original size:60 final size:60
Alignment explanation
Indices: 618276--618416 Score: 183
Period size: 60 Copynumber: 2.3 Consensus size: 60
618266 AATTTGGGAA
* * * * *
618276 GAAATTGAAATGTTCAAAAAGTTTGAGGACTAATTTAGAAAAAATATCATAGTTTAAGGAT
1 GAAACTGAAATATT-AAAAAGTTTAAGGAATAATCTAGAAAAAATATCATAGTTTAAGGAT
** * *
618337 GAAACTGAAATATTAAAAAGTTTAAGGAATAATCTAGAATGATTGTCATAGTTTAAGGAT
1 GAAACTGAAATATTAAAAAGTTTAAGGAATAATCTAGAAAAAATATCATAGTTTAAGGAT
618397 GAAACTGAAATATTTAAAAA
1 GAAACTGAAATA-TTAAAAA
618417 TATAAGAAGC
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
60 51 0.73
61 19 0.27
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.30
Consensus pattern (60 bp):
GAAACTGAAATATTAAAAAGTTTAAGGAATAATCTAGAAAAAATATCATAGTTTAAGGAT
Found at i:618455 original size:60 final size:60
Alignment explanation
Indices: 618322--618455 Score: 130
Period size: 60 Copynumber: 2.2 Consensus size: 60
618312 AGAAAAAATA
* * * * * **
618322 TCATAGTTTAAGGATGAAACTGAAATATTAAAAAGTTTAAGGAATAATCTAGAATGATTG
1 TCATAATTCAAGGATGAAACTGAAATATTAAAAAGTATAAGGAACAATCTAGAATAACGG
* *
618382 TCATAGTTTAAGGATGAAACTGAAATATTTAAAAA-TATAA-GAAGCAA-CTTAGAATAACGG
1 TCATAATTCAAGGATGAAACTGAAATA-TTAAAAAGTATAAGGAA-CAATC-TAGAATAACGG
*
618442 TTATAATTCAAGGA
1 TCATAATTCAAGGA
618456 CGTGTGATGC
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
59 4 0.06
60 52 0.83
61 7 0.11
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.30
Consensus pattern (60 bp):
TCATAATTCAAGGATGAAACTGAAATATTAAAAAGTATAAGGAACAATCTAGAATAACGG
Found at i:619039 original size:18 final size:19
Alignment explanation
Indices: 619008--619060 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
618998 TTTGATAAAC
619008 TATT-GAAAATTTTTATTT
1 TATTAGAAAATTTTTATTT
619026 TATTAGAAAATTTTTATTT
1 TATTAGAAAATTTTTATTT
619045 TATTAGAAAATTTTTA
1 TATTAGAAAATTTTTA
619061 AAATTTGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 4 0.12
19 30 0.88
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (19 bp):
TATTAGAAAATTTTTATTT
Found at i:619071 original size:14 final size:14
Alignment explanation
Indices: 619054--619080 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
619044 TTATTAGAAA
619054 ATTTTTAAAATTTG
1 ATTTTTAAAATTTG
619068 ATTTTTAAAATTT
1 ATTTTTAAAATTT
619081 ATGTTTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
ATTTTTAAAATTTG
Found at i:629660 original size:2 final size:2
Alignment explanation
Indices: 629653--629680 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
629643 CTGTTTGCAC
629653 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
629681 GGGTTAGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:636126 original size:24 final size:24
Alignment explanation
Indices: 636035--636128 Score: 109
Period size: 24 Copynumber: 4.0 Consensus size: 24
636025 TCAAATTTGA
* * *
636035 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATATGATACTTGACTTGG
* *
636059 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACTTGACTTGG
* * *
636082 ATTTTGATCTGATACATGACTTGG
1 ATTCTGATATGATACTTGACTTGG
636106 ATTCTGATATGATACTTGACTTG
1 ATTCTGATATGATACTTGACTTG
636129 AATTATGTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 20 0.34
24 39 0.66
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.40
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACTTGG
Found at i:636142 original size:24 final size:24
Alignment explanation
Indices: 636031--636135 Score: 68
Period size: 24 Copynumber: 4.4 Consensus size: 24
636021 GATTTCAAAT
* * *
636031 TTGAATTCTGTTATGATACCTGAC
1 TTGAATTATGATATGATACATGAC
* * * * *
636055 CTGGATTCTGATCTGATA-TTGAC
1 TTGAATTATGATATGATACATGAC
* * * *
636078 ATGGATTTTGATCTGATACATGAC
1 TTGAATTATGATATGATACATGAC
* * *
636102 TTGGATTCTGATATGATACTTGAC
1 TTGAATTATGATATGATACATGAC
636126 TTGAATTATG
1 TTGAATTATG
636136 TTTTGATTTT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
23 20 0.30
24 46 0.70
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (24 bp):
TTGAATTATGATATGATACATGAC
Found at i:638184 original size:117 final size:117
Alignment explanation
Indices: 637978--638274 Score: 522
Period size: 117 Copynumber: 2.5 Consensus size: 117
637968 TATATTTTCC
637978 AGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGCG
1 AGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGCG
638043 GTAATAACTTTCCCATCCAATCACTCCAATCACCAAAATATGTAGGTTCCCA
66 GTAATAACTTTCCCATCCAATCACTCCAATCACCAAAATATGTAGGTTCCCA
* *
638095 AGAACCATACACCCACCTACACACCAGTAAGGACTTACTCTGAGCACAAAGCCGAGGAGCCTGCG
1 AGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGCG
* * * *
638160 GTAATAACTTTCTCATCCAATCACTTCAATCACCAAAATGTGTAGGTTCCCC
66 GTAATAACTTTCCCATCCAATCACTCCAATCACCAAAATATGTAGGTTCCCA
* *
638212 AGAACCATACACCCACCTGCACACCAGTAAGGGCTTACCCTGAGCACAAAGCCGATGAGCCTG
1 AGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTG
638275 AAATACTTCC
Statistics
Matches: 170, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 170 1.00
ACGTcount: A:0.33, C:0.33, G:0.16, T:0.18
Consensus pattern (117 bp):
AGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTGCG
GTAATAACTTTCCCATCCAATCACTCCAATCACCAAAATATGTAGGTTCCCA
Found at i:645527 original size:117 final size:116
Alignment explanation
Indices: 645321--645616 Score: 448
Period size: 117 Copynumber: 2.5 Consensus size: 116
645311 TATATTTTCC
* * * *
645321 AGAACCATATATCCACCTGCACACCAGTAAGGACTTACCCTGAGCATAAAGCTGAGGAGCCTGCG
1 AGAACCATACACCCACCTGCACACCAGTAAGGACTTA-CCTGAGCATAAAGCCGAGGAGCCTACG
* * * * *
645386 TTAATAACTTTCCTATCTAATCACTCCAATCACCAAAATGTGTAGGTTCTCA
65 ATAATAACTTTCCCATCCAATCACTCCAATCACCAAAATGTATAGGTTCCCA
*
645438 AGAACCATACACCCACCTGCACACCAGTAAGGACTTACTCTGAGCACAAAGCCGAGGAGCCTACG
1 AGAACCATACACCCACCTGCACACCAGTAAGGACTTAC-CTGAGCATAAAGCCGAGGAGCCTACG
** *
645503 ATAATAACTTTCCCATCCAATCACTTTAATCACCAAAATGTATAGGTTCCCC
65 ATAATAACTTTCCCATCCAATCACTCCAATCACCAAAATGTATAGGTTCCCA
645555 AGAACCATACACCCACCTGCACACCAGTAAGGACTTACCATGAGCATAAAGCCGAGGAGCCT
1 AGAACCATACACCCACCTGCACACCAGTAAGGACTTACC-TGAGCATAAAGCCGAGGAGCCT
645617 GAAATACTTC
Statistics
Matches: 163, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
116 2 0.01
117 161 0.99
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.21
Consensus pattern (116 bp):
AGAACCATACACCCACCTGCACACCAGTAAGGACTTACCTGAGCATAAAGCCGAGGAGCCTACGA
TAATAACTTTCCCATCCAATCACTCCAATCACCAAAATGTATAGGTTCCCA
Found at i:648839 original size:28 final size:28
Alignment explanation
Indices: 648802--648866 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
648792 GAAAAAGGGT
648802 GGTT-GGGAGTTTATTGAGAGAGGCTAG
1 GGTTAGGGAGTTTATTGAGAGAGGCTAG
648829 GGTTAGGGAGTTTATTGAGAGAGGCTAG
1 GGTTAGGGAGTTTATTGAGAGAGGCTAG
*
648857 GGTTATGGAG
1 GGTTAGGGAG
648867 GCAATGGCGT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 4 0.11
28 32 0.89
ACGTcount: A:0.23, C:0.03, G:0.45, T:0.29
Consensus pattern (28 bp):
GGTTAGGGAGTTTATTGAGAGAGGCTAG
Found at i:654610 original size:2 final size:2
Alignment explanation
Indices: 654570--654629 Score: 57
Period size: 2 Copynumber: 29.0 Consensus size: 2
654560 TGTCTCTGCG
* * * * *
654570 TA TA CTA TA TA TCA TA TA CA TA CA CA TA CA TA CA TA TA TA TA TA
1 TA TA -TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
654614 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
654630 GCTAACCATG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
2 44 0.92
3 4 0.08
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (2 bp):
TA
Done.