Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 54 of 345
Found at i:16383422 original size:14 final size:14
Alignment explanation
Indices: 16383405--16383434 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
16383395 TTATATAGTA
16383405 TTATTTATTTATTT
1 TTATTTATTTATTT
16383419 TTATTTATTTATTT
1 TTATTTATTTATTT
16383433 TT
1 TT
16383435 TTCTTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTATTTATTTATTT
Found at i:16395679 original size:44 final size:44
Alignment explanation
Indices: 16395616--16396030 Score: 160
Period size: 44 Copynumber: 9.5 Consensus size: 44
16395606 TTTACAGATA
* * *
16395616 TTAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGAAGGGTC
1 TTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGGGTC
* * *
16395660 TTAAACCCCTAAGCAGTAGGGTAACAGA-CCAA-ATTGCA-GATC
1 TTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGAAGGGTC
* * * *
16395702 TT-ATCTCCTTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGGTC
1 TTAAAC-CCCTAAGCAGTAG-GGTAACAGATCGAAGATGAAGGGTC
* * * *
16395746 TTAAACCCCTAGGCAGTAGGGTAACAGA-CCAA-ATTACA-GATC
1 TTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGATGA-AGGGTC
*** * ***
16395788 TTATGTCCCTAAGCAGTAGTGG-AGCAGATCGAAGATTGACA-AACC
1 TTAAACCCCTAAGCAGTAG-GGTAACAGATCGAAGA-TGA-AGGGTC
* * * * * * *
16395833 TTAACCCCCTAAACAGTAGGGTAACAGGTTGAA-TTCACA-GATC
1 TTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGATGA-AGGGTC
* * * * * *
16395876 TT-AACGCTCTAAGCAGTAGGGAAACAGATCAAAGGTGACA-AGCC
1 TTAAAC-CCCTAAGCAGTAGGGTAACAGATCGAAGATGA-AGGGTC
* * * **
16395920 TTAAACCCCTAAACAGTAGGGTAACAG-GCTGAAGATTGACGAATC
1 TTAAACCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGAAGGGTC
* * * * * * * *
16395965 TTAACCCCCTAAACATTAGGGAAACATAGCAGAAG-TGATGGGCC
1 TTAAACCCCTAAGCAGTAGGGTAACAGATC-GAAGATGAAGGGTC
* *
16396009 TTAAACTCCTAAGCAATAGGGT
1 TTAAACCCCTAAGCAGTAGGGT
16396031 CATAGGCTGG
Statistics
Matches: 274, Mismatches: 76, Indels: 42
0.70 0.19 0.11
Matches are distributed among these distances:
41 2 0.01
42 50 0.18
43 53 0.19
44 101 0.37
45 62 0.23
46 6 0.02
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (44 bp):
TTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGGGTC
Found at i:16395717 original size:42 final size:42
Alignment explanation
Indices: 16395578--16395859 Score: 126
Period size: 44 Copynumber: 6.5 Consensus size: 42
16395568 AGACCTTAAA
* * * * * *
16395578 TCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATATTAAC
1 TCCCTAAGCAGTAGGGTAACAGAC-CAAATTGCAGATCTTATC
* * ** * * *
16395621 CCCCTAAGCAGTAGGGAAACAGATTGAAGA-TGAAGGGTCTTAAAC
1 TCCCTAAGCAGTAGGGTAACAGA-CCAA-ATTGCA-GATCTT-ATC
16395666 -CCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATC
* * * * * * *
16395707 TCCTTAAGCAGTAGTGG-AGCAGATCGAAGA-CGAAGGGTCTTAAAC
1 TCCCTAAGCAGTAG-GGTAACAGA-CCAA-ATTGCA-GATCTT-ATC
* * *
16395752 -CCCTAGGCAGTAGGGTAACAGACCAAATTACAGATCTTATG
1 TCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATC
* * * * *
16395793 TCCCTAAGCAGTAGTGG-AGCAGATCGAAGATTGACAAACCTTAAC
1 TCCCTAAGCAGTAG-GGTAACAGA-CCAA-ATTG-CAGATCTTATC
* *
16395838 CCCCTAAACAGTAGGGTAACAG
1 TCCCTAAGCAGTAGGGTAACAG
16395860 GTTGAATTCA
Statistics
Matches: 177, Mismatches: 43, Indels: 36
0.69 0.17 0.14
Matches are distributed among these distances:
41 3 0.02
42 46 0.26
43 48 0.27
44 52 0.29
45 28 0.16
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (42 bp):
TCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATC
Found at i:16395915 original size:87 final size:86
Alignment explanation
Indices: 16395571--16396048 Score: 378
Period size: 86 Copynumber: 5.5 Consensus size: 86
16395561 ATGCACCAGA
* * *
16395571 CCTTAAATCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATATTAACCCCCTAAGCAGTAG-
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAA-TTACAGATCTTAACGCCCTAAGCAGTAGT
* *
16395635 GGAAACAGATTGAAGATGAAGGG
65 GG-AACAGATCGAAGATGAAGAG
* * ** * * * *
16395658 TCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCTTAAGCAGTAGTG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTAACGCCCTAAGCAGTAGTG
* * *
16395723 GAGCAGATCGAAGACGAAGGG
66 GAACAGATCGAAGATGAAGAG
* * * ** *
16395744 TCTTAAACCCCTAGGCAGTAGGGTAACAGACCAAATTACAGATCTT-ATGTCCCTAAGCAGTAGT
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTAACG-CCCTAAGCAGTAGT
* *
16395808 GGAGCAGATCGAAGATTGACA-AA
65 GGAACAGATCGAAGA-TGA-AGAG
* * * *
16395831 CCTTAACCCCCTAAACAGTAGGGTAACAGGTTGAATTCACAGATCTTAACGCTCTAAGCAGTAG-
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATT-ACAGATCTTAACGCCCTAAGCAGTAGT
* *
16395895 GGAAACAGATCAAAGGTGACA-AG
65 GG-AACAGATCGAAGATGA-AGAG
* * * *
16395918 CCTTAAACCCCTAAACAGTAGGGTAACAGGCTGAAGATTGAC-GAATCTTAACCCCCTAAACATT
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTG-A-ATT-ACAG-ATCTTAACGCCCTAAGCAGT
* * * *
16395982 AG-GGAAACATAGCAGAAG-TGATGGG
62 AGTGG-AACAGATC-GAAGATGAAGAG
* * * *
16396007 CCTTAAACTCCTAAGCAATAGGGTCATAGGCTGGAAATTACA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-G-AATTACA
16396049 AATTTGTTCT
Statistics
Matches: 324, Mismatches: 53, Indels: 26
0.80 0.13 0.06
Matches are distributed among these distances:
86 112 0.35
87 102 0.31
88 36 0.11
89 68 0.21
90 6 0.02
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (86 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTAACGCCCTAAGCAGTAGTG
GAACAGATCGAAGATGAAGAG
Found at i:16395985 original size:45 final size:43
Alignment explanation
Indices: 16395822--16395990 Score: 144
Period size: 43 Copynumber: 3.8 Consensus size: 43
16395812 CAGATCGAAG
* *
16395822 ATTGACAAACCTTAACCCCCTAAACAGTAGGGTAACAGGTTG-A
1 ATTGAC-AACCTTAACCCCCTAAACAGTAGGGAAACAGGATGAA
* * * * * *
16395865 ATTCACAGATCTTAACGCTCTAAGCAGTAGGGAAACA-GATCAA
1 ATTGACA-ACCTTAACCCCCTAAACAGTAGGGAAACAGGATGAA
* * * *
16395908 AGGTGACAAGCCTTAAACCCCTAAACAGTAGGGTAACAGGCTGAA
1 A-TTGACAA-CCTTAACCCCCTAAACAGTAGGGAAACAGGATGAA
* *
16395953 GATTGACGAATCTTAACCCCCTAAACATTAGGGAAACA
1 -ATTGAC-AACCTTAACCCCCTAAACAGTAGGGAAACA
16395991 TAGCAGAAGT
Statistics
Matches: 96, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
42 3 0.03
43 32 0.33
44 26 0.27
45 32 0.33
46 3 0.03
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (43 bp):
ATTGACAACCTTAACCCCCTAAACAGTAGGGAAACAGGATGAA
Found at i:16398139 original size:15 final size:15
Alignment explanation
Indices: 16398112--16398141 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
16398102 CTTTATATAG
16398112 TATTATTTATTTTTT
1 TATTATTTATTTTTT
16398127 TATT-TTTATTTTTT
1 TATTATTTATTTTTT
16398141 T
1 T
16398142 CTTCTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TATTATTTATTTTTT
Found at i:16404467 original size:21 final size:22
Alignment explanation
Indices: 16404443--16404504 Score: 56
Period size: 25 Copynumber: 2.7 Consensus size: 22
16404433 AAAACTTTAT
16404443 ATAAAAAAATTAAATAT-AAAA
1 ATAAAAAAATTAAATATAAAAA
*
16404464 ATAAAATAAGAATATATATATAAAAA
1 AT-AAA-AA-AAT-TAAATATAAAAA
*
16404490 ATAAATAAA-TAAATA
1 ATAAAAAAATTAAATA
16404505 AATGATATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
21 7 0.21
22 3 0.09
23 4 0.12
24 4 0.12
25 9 0.27
26 6 0.18
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.26
Consensus pattern (22 bp):
ATAAAAAAATTAAATATAAAAA
Found at i:16404477 original size:11 final size:12
Alignment explanation
Indices: 16404447--16404520 Score: 55
Period size: 13 Copynumber: 5.9 Consensus size: 12
16404437 CTTTATATAA
16404447 AAAAATTAAATAT
1 AAAAA-TAAATAT
16404460 AAAAATAAA-AT
1 AAAAATAAATAT
*
16404471 AAGAATATATATAT
1 AA-AA-ATAAATAT
16404485 AAAAAATAAATA-
1 -AAAAATAAATAT
16404497 AATAAATAAATGAT
1 AA-AAATAAAT-AT
*
16404511 ATAAA-AAATA
1 AAAAATAAATA
16404521 ACTAACAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
11 7 0.14
12 18 0.35
13 19 0.37
14 5 0.10
15 2 0.04
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (12 bp):
AAAAATAAATAT
Found at i:16404496 original size:19 final size:19
Alignment explanation
Indices: 16404446--16404506 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
16404436 ACTTTATATA
*
16404446 AAAAAATTAAATATAAAAAT
1 AAAAAA-TAAATATATAAAT
* *
16404466 AAAATAA-GAATATATATAT
1 AAAA-AATAAATATATAAAT
*
16404485 AAAAAATAAATAAATAAAT
1 AAAAAATAAATATATAAAT
16404504 AAA
1 AAA
16404507 TGATATAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
18 2 0.06
19 25 0.76
20 4 0.12
21 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAAAATAAATATATAAAT
Found at i:16404786 original size:19 final size:21
Alignment explanation
Indices: 16404759--16404807 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
16404749 AAAATAACCT
16404759 AATGTAAATAA-TTAATAAAA
1 AATGTAAATAATTTAATAAAA
*
16404779 AATG-AAATAATTTAATATAA
1 AATGTAAATAATTTAATAAAA
16404799 AATAGTAAA
1 AAT-GTAAA
16404808 ATAAATAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 6 0.24
20 15 0.60
21 1 0.04
22 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (21 bp):
AATGTAAATAATTTAATAAAA
Found at i:16407592 original size:93 final size:93
Alignment explanation
Indices: 16407482--16407652 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
16407472 GCCCCTAAGT
* * *
16407482 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAAATCAA
16407547 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
16407575 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAAATCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAAATCAA
16407640 CGAGTTCGGATGC
66 CGAGTTCGGATGC
16407653 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAAATCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:16407649 original size:46 final size:46
Alignment explanation
Indices: 16407477--16407649 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
16407467 AACCCGCCCC
* * * *
16407477 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
16407523 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
16407571 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
16407616 TAAGTGAACTCGGACTCAAATCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16407650 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:16414968 original size:47 final size:47
Alignment explanation
Indices: 16414917--16415497 Score: 855
Period size: 47 Copynumber: 12.3 Consensus size: 47
16414907 TACATGATAG
*
16414917 TATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TA
* *
16414966 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TA
* *
16415015 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
16415062 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
16415109 TATATGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
16415156 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTG
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTA
* *
16415203 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTA
* *
16415250 TATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTG
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTA
* *
16415297 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTA
* ** *
16415344 TATATGAGATAAGGCTAAATGACCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
16415391 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
16415438 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
16415485 TAAATGTGATAAG
1 TATATGTGATAAG
16415498 TCCCGAAGGG
Statistics
Matches: 499, Mismatches: 31, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 406 0.81
48 1 0.00
49 91 0.18
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:16415397 original size:25 final size:25
Alignment explanation
Indices: 16415369--16415447 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
16415359 TAAATGACCA
16415369 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * ***
16415394 ATGTGAT-AAGGCCG-AA-TGGCCA-
1 ATGTGATGAATG-TGAAAGTGTATAT
16415416 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
16415441 ATGTGAT
1 ATGTGAT
16415448 AAGGCCGAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 15 0.38
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:16415422 original size:22 final size:22
Alignment explanation
Indices: 16415394--16415469 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
16415384 AAGTGTATAT
16415394 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
16415416 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
16415440 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
16415463 ATGTGAT
1 ATGTGAT
16415470 GGATGTGGAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:16426452 original size:16 final size:16
Alignment explanation
Indices: 16426431--16426462 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16426421 TGTTGTTTTA
16426431 ATATAAATGAATCAAT
1 ATATAAATGAATCAAT
*
16426447 ATATAAATGTATCAAT
1 ATATAAATGAATCAAT
16426463 GCTATGATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (16 bp):
ATATAAATGAATCAAT
Found at i:16429520 original size:27 final size:28
Alignment explanation
Indices: 16429478--16429617 Score: 159
Period size: 27 Copynumber: 5.2 Consensus size: 28
16429468 GTGACGAAGT
16429478 CACCAGATACAG--ATATTGT-GCAGAGC
1 CACCAGA-ACAGATATATTGTGGCAGAGC
*
16429504 CACTAGAACAGATATA-TGTGGCAGAGC
1 CACCAGAACAGATATATTGTGGCAGAGC
* *
16429531 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATATTGTGGCAGAGC
* *
16429558 CACCAGGACAGATATA-TGTGGCAAAGC
1 CACCAGAACAGATATATTGTGGCAGAGC
* *
16429585 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATATTGTGGCAGAGC
16429612 CACCAG
1 CACCAG
16429618 GACGCTTCCT
Statistics
Matches: 98, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
25 4 0.04
26 11 0.11
27 82 0.84
28 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (28 bp):
CACCAGAACAGATATATTGTGGCAGAGC
Found at i:16429572 original size:54 final size:54
Alignment explanation
Indices: 16429460--16429620 Score: 229
Period size: 54 Copynumber: 3.0 Consensus size: 54
16429450 GCGAGGCTAC
* * * * * *
16429460 CAGATAT-TGTGACGAAGTCACCAGATACAGAT-ATTGT-GCAGAGCCACTAGAA
1 CAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
*
16429512 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
16429566 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
16429620 C
1 C
16429621 GCTTCCTCCA
Statistics
Matches: 98, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 12 0.12
53 20 0.20
54 66 0.67
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:16431266 original size:26 final size:26
Alignment explanation
Indices: 16431231--16431338 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
16431221 TGAAATGCCC
*
16431231 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
16431257 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
16431283 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
16431309 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16431335 ATCA
1 ATCA
16431339 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16438284 original size:13 final size:13
Alignment explanation
Indices: 16438266--16438293 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16438256 ATTTAATTAT
16438266 TAAAAGATATTTA
1 TAAAAGATATTTA
16438279 TAAAAGATATTTA
1 TAAAAGATATTTA
16438292 TA
1 TA
16438294 TGATAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (13 bp):
TAAAAGATATTTA
Found at i:16457847 original size:27 final size:27
Alignment explanation
Indices: 16457810--16458010 Score: 251
Period size: 27 Copynumber: 7.4 Consensus size: 27
16457800 TAAATTGTAC
16457810 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
16457837 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
16457864 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16457890 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
16457918 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
16457946 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16457973 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
16458000 AGCACTGAGTG
1 AGCACTAAGTG
16458011 AGCGGACTCA
Statistics
Matches: 152, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:16465968 original size:56 final size:54
Alignment explanation
Indices: 16465832--16466026 Score: 181
Period size: 56 Copynumber: 3.7 Consensus size: 54
16465822 TAAATTGTAC
16465832 AGCACTAA--GTGCGATTTGACTATGT-GCACTAAGTGTG-G-ATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
* ** * * *
16465881 TGCA-TAAGT-TGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGATTTGACTATGTA-GCACTAAGTGTGCGAATTGACTATGT
* * * *
16465933 GGCACTAAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT
1 AGCACT-AAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
* * * *
16465989 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTG
16466027 AGCGGACTCA
Statistics
Matches: 115, Mismatches: 20, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
48 3 0.03
49 15 0.13
50 12 0.10
51 1 0.01
52 12 0.10
53 1 0.01
54 22 0.19
55 15 0.13
56 33 0.29
57 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
Found at i:16466010 original size:27 final size:27
Alignment explanation
Indices: 16465832--16466026 Score: 172
Period size: 27 Copynumber: 7.4 Consensus size: 27
16465822 TAAATTGTAC
*
16465832 AGCACTAA--GTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
16465857 -GCACTAAGTGTG-GA-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* ** *
16465881 TGCA-TAAGT-TGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGACTATGT
* * *
16465905 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAGTTGACTATGT
*
16465933 GGCACTAAAGTGTGCGAGTTTGACTATGT
1 AGCACT-AAGTGTGCGAG-TTGACTATGT
* * *
16465962 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* *
16465989 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
16466016 AGCACTGAGTG
1 AGCACTAAGTG
16466027 AGCGGACTCA
Statistics
Matches: 141, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
23 2 0.01
24 24 0.17
25 15 0.11
26 8 0.06
27 59 0.42
28 20 0.14
29 13 0.09
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:16473857 original size:27 final size:27
Alignment explanation
Indices: 16473819--16474017 Score: 233
Period size: 27 Copynumber: 7.4 Consensus size: 27
16473809 TAAATTGTAC
16473819 AGCACTAA--GTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
16473844 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
16473871 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16473897 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
16473925 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
16473953 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16473980 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
16474007 AGCACTGAGTG
1 AGCACTAAGTG
16474018 AGCGGACTCA
Statistics
Matches: 150, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
25 8 0.05
27 119 0.79
28 23 0.15
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:16478699 original size:82 final size:80
Alignment explanation
Indices: 16478587--16478741 Score: 222
Period size: 82 Copynumber: 1.9 Consensus size: 80
16478577 AAATTGTACA
* *
16478587 GCACTAAGTGTGCGATTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGT
1 GCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGT
16478651 GCGAATTGACCATGCG
65 GCGAATTGACCATGCG
** *
16478667 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA--TTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
16478732 TGCGAGTTGA
64 TGCGAATTGA
16478742 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (80 bp):
GCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTG
CGAATTGACCATGCG
Found at i:16478742 original size:27 final size:27
Alignment explanation
Indices: 16478586--16478758 Score: 188
Period size: 27 Copynumber: 6.4 Consensus size: 27
16478576 TAAATTGTAC
16478586 AGCACTAAGTGTGCG-ATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
16478612 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
16478638 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
16478666 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
16478694 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
16478721 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
16478748 AGCACTGAGTG
1 AGCACTAAGTG
16478759 AGCGGACTCA
Statistics
Matches: 125, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
26 14 0.11
27 88 0.70
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:16486607 original size:27 final size:27
Alignment explanation
Indices: 16486573--16486722 Score: 148
Period size: 27 Copynumber: 5.6 Consensus size: 27
16486563 TAAATTGTAC
*
16486573 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
16486600 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
16486626 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
16486654 GGCACTAA-TGGTGCGAGTTTGA-TATCGT
1 AGCACTAAGT-GTGCGA-ATTGACTAT-GT
*
16486682 AGCACTAAGTGTGCG-ATTGATTA-GT
1 AGCACTAAGTGTGCGAATTGACTATGT
16486707 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
16486723 CGTTGATTAT
Statistics
Matches: 101, Mismatches: 14, Indels: 17
0.77 0.11 0.13
Matches are distributed among these distances:
25 17 0.17
26 5 0.05
27 61 0.60
28 17 0.17
29 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:16486687 original size:28 final size:25
Alignment explanation
Indices: 16486680--16486731 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 25
16486670 GTTTGATATC
16486680 GTAGCACTAAGTGTGCGATTGATTA
1 GTAGCACTAAGTGTGCGATTGATTA
16486705 GTAGCACTAAGTGTGCGACGTTGATTA
1 GTAGCACTAAGTGTGCGA--TTGATTA
16486732 TATAGCTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 18 0.72
27 7 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (25 bp):
GTAGCACTAAGTGTGCGATTGATTA
Found at i:16486690 original size:82 final size:79
Alignment explanation
Indices: 16486574--16486722 Score: 196
Period size: 81 Copynumber: 1.8 Consensus size: 79
16486564 AAATTGTACA
*
16486574 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATA-TGATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCG-AATGAATAGT-A-GCACTAAGTG
16486638 TGCGAATTGACCATGCG
63 TGCGAATTGACCATGCG
* *
16486655 GCACTAA-TGGTGCGAGTTTGA-TATCGTAGCACTAAGTGTGCGATTGATTAGTAGCACTAAGTG
1 GCACTAAGT-GTGCGA-TTTGACTAT-GTAGCACTAAGTGTGCGAATGAATAGTAGCACTAAGTG
16486718 TGCGA
63 TGCGA
16486723 CGTTGATTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
80 16 0.26
81 23 0.38
82 22 0.36
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (79 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATGAATAGTAGCACTAAGTGTGC
GAATTGACCATGCG
Found at i:16491017 original size:27 final size:26
Alignment explanation
Indices: 16490869--16491021 Score: 96
Period size: 27 Copynumber: 5.6 Consensus size: 26
16490859 ATATAATCAC
* *
16490869 TCGCACACTTAGTGCTACCGTAATCAAA
1 TCGCACACTTAGTGC-A-CATAGTCAAA
* *
16490897 TCGCAACACTTAGTGTACATAGTCAAC
1 TCGC-ACACTTAGTGCACATAGTCAAA
* * *
16490924 TCG--CACTTAGTGCCGCATGGTCAAT
1 TCGCACACTTAGTG-CACATAGTCAAA
* **
16490949 TCGGCAACATCGTTAGTGCATCATAATTCATT
1 TC-GC-ACA-C-TTAGTGCA-CAT-AGTCAAA
16490981 TCGC-CACTTAGTGCACATAGTCAAA
1 TCGCACACTTAGTGCACATAGTCAAA
16491006 TCGCACACCTTAGTGC
1 TCGCACA-CTTAGTGC
16491022 TGTACATTAC
Statistics
Matches: 98, Mismatches: 15, Indels: 25
0.71 0.11 0.18
Matches are distributed among these distances:
24 9 0.09
25 18 0.18
26 6 0.06
27 26 0.27
28 6 0.06
29 14 0.14
30 2 0.02
31 11 0.11
32 6 0.06
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (26 bp):
TCGCACACTTAGTGCACATAGTCAAA
Found at i:16498978 original size:27 final size:27
Alignment explanation
Indices: 16498948--16499148 Score: 251
Period size: 27 Copynumber: 7.4 Consensus size: 27
16498938 TGAGTCCGCT
* * * *
16498948 CACTCAGTGCTATATAATCAACTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* *
16498975 CACTTAGTGCTACGTAATCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
16499002 CACTTAGTGCTACATAGTCAAACTCGCA
1 CACTTAGTGCTACATAGTCAAA-TCGCA
** * *
16499030 CACTTAGTGCCGCATGGTCAATTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* **
16499057 CACTTAGTGC-ATCATATTCATTTCGCA
1 CACTTAGTGCTA-CATAGTCAAATCGCA
*
16499084 CACTTAGTGCAACATAGTCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
16499111 CACTTAGTGCTACATAGTCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
16499138 CACTTAGTGCT
1 CACTTAGTGCT
16499149 GTACAATTTA
Statistics
Matches: 153, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 129 0.84
28 24 0.16
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (27 bp):
CACTTAGTGCTACATAGTCAAATCGCA
Found at i:16502768 original size:22 final size:22
Alignment explanation
Indices: 16502735--16502846 Score: 109
Period size: 22 Copynumber: 5.5 Consensus size: 22
16502725 TCACAATACT
16502735 CATATAATCACATAACATTCAAG
1 CATAT-ATCACATAACATTCAAG
16502758 CATATATCAC--AACATTC-A-
1 CATATATCACATAACATTCAAG
*
16502776 TATA-ATCACATAACATTCAAG
1 CATATATCACATAACATTCAAG
* *
16502797 TATATATCAC--AACACTC-A-
1 CATATATCACATAACATTCAAG
*
16502815 TATA-ATCACATAACATTCAAG
1 CATATATCACATAACATTCAAG
16502836 CATATATCACA
1 CATATATCACA
16502847 ATACTCAAAG
Statistics
Matches: 75, Mismatches: 4, Indels: 21
0.75 0.04 0.21
Matches are distributed among these distances:
17 10 0.13
18 7 0.09
19 15 0.20
20 15 0.20
21 7 0.09
22 16 0.21
23 5 0.07
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (22 bp):
CATATATCACATAACATTCAAG
Found at i:16502785 original size:17 final size:17
Alignment explanation
Indices: 16502719--16502824 Score: 79
Period size: 17 Copynumber: 5.7 Consensus size: 17
16502709 AACATTTAAG
* *
16502719 CATAT-ATCACAATACT
1 CATATAATCACAACATT
16502735 CATATAATCACATAACATT
1 CATATAATCAC--AACATT
*
16502754 CAAGCATATATCACAACATT
1 C-A-TATA-ATCACAACATT
16502774 CATATAATCACATAACATT
1 CATATAATCAC--AACATT
*
16502793 CAAGTATATATCACAACACT
1 C-A-TATA-ATCACAACATT
16502813 CATATAATCACA
1 CATATAATCACA
16502825 TAACATTCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 21
0.74 0.05 0.21
Matches are distributed among these distances:
16 5 0.07
17 16 0.22
18 7 0.09
19 14 0.19
20 15 0.20
21 7 0.09
22 10 0.14
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.28
Consensus pattern (17 bp):
CATATAATCACAACATT
Found at i:16502792 original size:19 final size:19
Alignment explanation
Indices: 16502734--16502833 Score: 100
Period size: 19 Copynumber: 5.2 Consensus size: 19
16502724 ATCACAATAC
16502734 TCATATAATCACATAACAT
1 TCATATAATCACATAACAT
*
16502753 TCAAGCATATATCAC--AACAT
1 TC-A-TATA-ATCACATAACAT
16502773 TCATATAATCACATAACAT
1 TCATATAATCACATAACAT
*
16502792 TCAAGTATATATCAC--AACAC
1 TC-A-TATA-ATCACATAACAT
16502812 TCATATAATCACATAACAT
1 TCATATAATCACATAACAT
16502831 TCA
1 TCA
16502834 AGCATATATC
Statistics
Matches: 67, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
17 10 0.15
18 7 0.10
19 18 0.27
20 15 0.22
21 7 0.10
22 10 0.15
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (19 bp):
TCATATAATCACATAACAT
Found at i:16502847 original size:39 final size:39
Alignment explanation
Indices: 16502677--16502853 Score: 250
Period size: 39 Copynumber: 4.5 Consensus size: 39
16502667 ATTCACTTTT
* * * *
16502677 AAGCATATGTCAC-ACTACACATATAA-CTACGTAACATTT
1 AAGCATATATCACAAC-ACTCATATAATC-ACATAACATTC
*
16502716 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAACACTCATATAATCACATAACATTC
*
16502755 AAGCATATATCACAACATTCATATAATCACATAACATTC
1 AAGCATATATCACAACACTCATATAATCACATAACATTC
*
16502794 AAGTATATATCACAACACTCATATAATCACATAACATTC
1 AAGCATATATCACAACACTCATATAATCACATAACATTC
*
16502833 AAGCATATATCACAATACTCA
1 AAGCATATATCACAACACTCA
16502854 AAGTCATGTT
Statistics
Matches: 125, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 123 0.98
40 2 0.02
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAACACTCATATAATCACATAACATTC
Found at i:16503373 original size:167 final size:167
Alignment explanation
Indices: 16503097--16503436 Score: 563
Period size: 167 Copynumber: 2.0 Consensus size: 167
16503087 AAATCATATA
* * *
16503097 ACATATAAGTAAGAACTCACAATCCTATAGCGTGCCAACTATATCCAACAGTTTCAAGAATCACA
1 ACATATAAGTAAGAACTCAAAATCCTATAGCGTACCAACTATATCCAACAGTTTCAAGAATCAAA
*
16503162 AGGCCAAAATATCTGTCATTAAACACACATATATTACTTACCGATTTAGCATTCACTATCACTGC
66 AGGCCAAAATATCTGTCATTAAACACACATATATTACTTACCGATTTACCATTCACTATCACTGC
16503227 ATAATTATCACTGTCACTTGGCATGTTTGACATGCCT
131 ATAATTATCACTGTCACTTGGCATGTTTGACATGCCT
* * * *
16503264 ACATATAAGTGAGGACTCAAAATTCTATAGCGTACCAGCTATATCCAACAGTTTCAAGAATCAAA
1 ACATATAAGTAAGAACTCAAAATCCTATAGCGTACCAACTATATCCAACAGTTTCAAGAATCAAA
* * * * *
16503329 AGGCCAAAATATCTTTCATTAAGCATACATATATTACTTACCGATTTACCGTTCACTATCATTGC
66 AGGCCAAAATATCTGTCATTAAACACACATATATTACTTACCGATTTACCATTCACTATCACTGC
16503394 ATAATTATCACTGTCACTTGGCATGTTTGACATGCCT
131 ATAATTATCACTGTCACTTGGCATGTTTGACATGCCT
16503431 ACATAT
1 ACATAT
16503437 GCACTTTCAC
Statistics
Matches: 160, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
167 160 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (167 bp):
ACATATAAGTAAGAACTCAAAATCCTATAGCGTACCAACTATATCCAACAGTTTCAAGAATCAAA
AGGCCAAAATATCTGTCATTAAACACACATATATTACTTACCGATTTACCATTCACTATCACTGC
ATAATTATCACTGTCACTTGGCATGTTTGACATGCCT
Found at i:16504926 original size:21 final size:21
Alignment explanation
Indices: 16504884--16504937 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
16504874 GAAGACCTAG
16504884 GTATCAATACCT-TGAGGCAT
1 GTATCAATACCTCTGAGGCAT
*
16504904 GTATAAATACCTCT-AGAGCAT
1 GTATCAATACCTCTGAG-GCAT
16504925 GTATCAATACCTC
1 GTATCAATACCTC
16504938 ATGAACAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (21 bp):
GTATCAATACCTCTGAGGCAT
Found at i:16506327 original size:46 final size:46
Alignment explanation
Indices: 16506277--16506452 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
16506267 TGTTTAGGCA
16506277 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
16506323 TCCGAATTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
16506368 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * * *
16506416 CCCTAGCTCGTTCAGTTGACTCCAAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16506453 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 57 0.55
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:16506392 original size:47 final size:49
Alignment explanation
Indices: 16506271--16506413 Score: 165
Period size: 46 Copynumber: 3.0 Consensus size: 49
16506261 CTAGGATGTT
*
16506271 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAA
* * *
16506321 T--G--TCCGAATTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAA
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA
*
16506363 CTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAA
1 -TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAA
16506414 CGCCCTAGCT
Statistics
Matches: 76, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 28 0.37
47 28 0.37
48 3 0.04
50 5 0.07
51 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (49 bp):
TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA
Found at i:16506433 original size:93 final size:93
Alignment explanation
Indices: 16506271--16506445 Score: 269
Period size: 93 Copynumber: 1.9 Consensus size: 93
16506261 CTAGGATGTT
* * * * *
16506271 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAATTCGTTG
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTC
* *
16506336 AGTTGAGTCCGAGTTCGTGAGATGTAAC
66 AGTTGACTCCAAGTTCGTGAGATGTAAC
* *
16506364 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCTAGCTCGTTC
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTC
16506429 AGTTGACTCCAAGTTCG
66 AGTTGACTCCAAGTTCG
16506446 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (93 bp):
TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTC
AGTTGACTCCAAGTTCGTGAGATGTAAC
Found at i:16509943 original size:9 final size:9
Alignment explanation
Indices: 16509918--16509948 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
16509908 AAAGGGTTTC
16509918 TTTTTCTTT
1 TTTTTCTTT
16509927 TCTTTTCTTT
1 T-TTTTCTTT
16509937 TTTTTCTTT
1 TTTTTCTTT
16509946 TTT
1 TTT
16509949 CGGTTCATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:16509947 original size:6 final size:5
Alignment explanation
Indices: 16509914--16509946 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
16509904 ATATAAAGGG
16509914 TTTCTT TTTCT TTTCT TTTCT TTT-T TTTCT TTT
1 TTTC-T TTTCT TTTCT TTTCT TTTCT TTTCT TTT
16509947 TTCGGTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.69
6 4 0.15
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTCT
Found at i:16509949 original size:16 final size:16
Alignment explanation
Indices: 16509914--16509946 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
16509904 ATATAAAGGG
16509914 TTTCTTTTTCTTTTCT
1 TTTCTTTTTCTTTTCT
16509930 TTTC-TTTT-TTTTCT
1 TTTCTTTTTCTTTTCT
16509944 TTT
1 TTT
16509947 TTCGGTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 4 0.24
16 4 0.24
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTCTTTTTCTTTTCT
Found at i:16510440 original size:56 final size:53
Alignment explanation
Indices: 16510362--16510480 Score: 150
Period size: 56 Copynumber: 2.2 Consensus size: 53
16510352 AGCTCAACAA
* *
16510362 TTTTACTTCCCCACAAACCCCCAAACTTTTTTTTTCTTTTAGTTTTTCCCAAAAAC
1 TTTTACTTCCCCACAAACCCCCAAA-ATTTTTTTCCTTTT-GTTTTTCCC-AAAAC
* * *
16510418 TTTTACTTCTCC-CAATCTCCCCAAAATTTTTTTCCTTTTGTTTTTCCCTAAAC
1 TTTTACTTCCCCACAAAC-CCCCAAAATTTTTTTCCTTTTGTTTTTCCCAAAAC
16510471 TTTTACTTCC
1 TTTTACTTCC
16510481 TTCTAAGCCC
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
53 13 0.23
54 9 0.16
55 16 0.29
56 18 0.32
ACGTcount: A:0.21, C:0.30, G:0.02, T:0.47
Consensus pattern (53 bp):
TTTTACTTCCCCACAAACCCCCAAAATTTTTTTCCTTTTGTTTTTCCCAAAAC
Found at i:16510501 original size:53 final size:54
Alignment explanation
Indices: 16510362--16510502 Score: 137
Period size: 56 Copynumber: 2.6 Consensus size: 54
16510352 AGCTCAACAA
*
16510362 TTTTACTTCCCCACAAAC-CCCCAAACTTTTTTTTTCTTTTAGTTTTTCCCAAAAAC
1 TTTTACTTCTCC-C-AACGCCCCAAA-TTTTTTTTTCTTTTAGTTTTTCCCAAAAAC
* * * *
16510418 TTTTACTTCTCCCAATCTCCCCAAAATTTTTTTCCTTTT-GTTTTTCCC-TAAAC
1 TTTTACTTCTCCCAA-CGCCCCAAATTTTTTTTTCTTTTAGTTTTTCCCAAAAAC
* * *
16510471 TTTTACTTCCTTCTAA-GCCCTAAATTTTTTTT
1 TTTTACTT-CTCCCAACGCCCCAAATTTTTTTT
16510503 CCCAAATTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
52 13 0.18
53 12 0.16
54 16 0.22
55 14 0.19
56 18 0.25
ACGTcount: A:0.21, C:0.28, G:0.02, T:0.48
Consensus pattern (54 bp):
TTTTACTTCTCCCAACGCCCCAAATTTTTTTTTCTTTTAGTTTTTCCCAAAAAC
Found at i:16517054 original size:17 final size:15
Alignment explanation
Indices: 16517017--16517064 Score: 71
Period size: 14 Copynumber: 3.1 Consensus size: 15
16517007 TATAAAAACC
16517017 TTCATTTTGTTATA-
1 TTCATTTTGTTATAT
16517031 TTCATTTTGTTATAT
1 TTCATTTTGTTATAT
16517046 GTGTCATTTTGTTATAT
1 -T-TCATTTTGTTATAT
16517063 TT
1 TT
16517065 TATGTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 14 0.45
15 1 0.03
16 2 0.06
17 14 0.45
ACGTcount: A:0.19, C:0.06, G:0.10, T:0.65
Consensus pattern (15 bp):
TTCATTTTGTTATAT
Found at i:16517116 original size:41 final size:41
Alignment explanation
Indices: 16517071--16517152 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
16517061 ATTTTATGTT
*
16517071 AATTTATTTTGTATATGGCTATGAGATATGGCCATTATTAA
1 AATTTATTTTGTATATGGCTATGAGATATGACCATTATTAA
16517112 AATTTATTTTGTATATGGCTATGAGATATGACCATTATTAA
1 AATTTATTTTGTATATGGCTATGAGATATGACCATTATTAA
16517153 TGTGGGTTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (41 bp):
AATTTATTTTGTATATGGCTATGAGATATGACCATTATTAA
Found at i:16518385 original size:22 final size:23
Alignment explanation
Indices: 16518359--16518401 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
16518349 CAAATCAATA
*
16518359 TCAATATTAAAC-GATAAATCTT
1 TCAATATTAAACACATAAATCTT
*
16518381 TCAATTTTAAACACATAAATC
1 TCAATATTAAACACATAAATC
16518402 ATTTACCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (23 bp):
TCAATATTAAACACATAAATCTT
Found at i:16518537 original size:21 final size:21
Alignment explanation
Indices: 16518475--16518581 Score: 72
Period size: 21 Copynumber: 5.1 Consensus size: 21
16518465 CCGAAGGCTA
* * *
16518475 AACAGAAGCACATAAGTGTTA
1 AACAGAAGCCCATAAGAGTTG
* * *
16518496 AACAGAAACCCTTAAGGGTTG
1 AACAGAAGCCCATAAGAGTTG
*
16518517 AACAGAAGCTCATAAGAGTTG
1 AACAGAAGCCCATAAGAGTTG
* * *
16518538 AAC-GGAGACCCATAAGACTTA
1 AACAGAAG-CCCATAAGAGTTG
* ** *
16518559 AACAAAAGCTGAGAAGAGTTG
1 AACAGAAGCCCATAAGAGTTG
16518580 AA
1 AA
16518582 TGGAAACCTA
Statistics
Matches: 64, Mismatches: 20, Indels: 4
0.73 0.23 0.05
Matches are distributed among these distances:
20 3 0.05
21 59 0.92
22 2 0.03
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.17
Consensus pattern (21 bp):
AACAGAAGCCCATAAGAGTTG
Found at i:16521059 original size:52 final size:52
Alignment explanation
Indices: 16520981--16521084 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
16520971 ACTGGGATAA
16520981 AATGTCCCGACTTAGTCAATCTGTCAACAATCACCCAAATCGAATCTTTCTT
1 AATGTCCCGACTTAGTCAATCTGTCAACAATCACCCAAATCGAATCTTTCTT
16521033 AATGTCCCGACTTAGTCAATCTGTCAACAATCACCCAAATCGAATCTTTCTT
1 AATGTCCCGACTTAGTCAATCTGTCAACAATCACCCAAATCGAATCTTTCTT
16521085 TCTCGGAGTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.31
Consensus pattern (52 bp):
AATGTCCCGACTTAGTCAATCTGTCAACAATCACCCAAATCGAATCTTTCTT
Found at i:16525542 original size:22 final size:23
Alignment explanation
Indices: 16525516--16525558 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
16525506 CAAATCAATA
*
16525516 TCAATATTAAAC-GATAAATCTT
1 TCAATATTAAACACATAAATCTT
*
16525538 TCAATTTTAAACACATAAATC
1 TCAATATTAAACACATAAATC
16525559 ATTTACCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (23 bp):
TCAATATTAAACACATAAATCTT
Found at i:16525683 original size:21 final size:21
Alignment explanation
Indices: 16525647--16525753 Score: 65
Period size: 21 Copynumber: 5.1 Consensus size: 21
16525637 ATAAGTGCTA
* *
16525647 AACAGAAACCCGTAAGGGTTG
1 AACAGAAACTCATAAGGGTTG
* *
16525668 AACAGAAGCTCATAAGAGTTG
1 AACAGAAACTCATAAGGGTTG
* * *
16525689 AACGGAAAAC-CATAAGGCTTA
1 AACAG-AAACTCATAAGGGTTG
* * *
16525710 AACA-AAAGCTCAGAATGGCTG
1 AACAGAAA-CTCATAAGGGTTG
** *
16525731 AATGGAAACCCATAAGGGTTG
1 AACAGAAACTCATAAGGGTTG
16525752 AA
1 AA
16525754 TGGGAACTCA
Statistics
Matches: 61, Mismatches: 21, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
19 3 0.05
20 1 0.02
21 51 0.84
22 6 0.10
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (21 bp):
AACAGAAACTCATAAGGGTTG
Found at i:16525705 original size:42 final size:42
Alignment explanation
Indices: 16525659--16525753 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
16525649 CAGAAACCCG
* * *
16525659 TAAGGGTTGAACAGAAGCTCATAA-GAGTTGAACGGAAAACCA
1 TAAGGGTTGAACAAAAGCTCAGAATG-GCTGAACGGAAAACCA
* * * *
16525701 TAAGGCTTAAACAAAAGCTCAGAATGGCTGAATGGAAACCCA
1 TAAGGGTTGAACAAAAGCTCAGAATGGCTGAACGGAAAACCA
16525743 TAAGGGTTGAA
1 TAAGGGTTGAA
16525754 TGGGAACTCA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.18
Consensus pattern (42 bp):
TAAGGGTTGAACAAAAGCTCAGAATGGCTGAACGGAAAACCA
Found at i:16549064 original size:30 final size:29
Alignment explanation
Indices: 16549030--16549093 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
16549020 ATGATTCGGA
16549030 AGCTTTGGCACTAAGTGTGAGATTTAAACT
1 AGCTTTGGCACTAAGTGTGAGATTT-AACT
*
16549060 AGCTTTGGCACTAAGTGTGCGATTTAACT
1 AGCTTTGGCACTAAGTGTGAGATTTAACT
16549089 AGCTT
1 AGCTT
16549094 CAGCTACTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGAGATTTAACT
Found at i:16560695 original size:68 final size:67
Alignment explanation
Indices: 16560494--16560712 Score: 222
Period size: 68 Copynumber: 3.2 Consensus size: 67
16560484 TTATTGCAAC
* * * *
16560494 CTTCAAAACAACTAGCGGACCTATGCTCCCAACTGATACTCTAAGAGATCATAAAGTTAAGCTCA
1 CTTCAACACAACTAGCGGACCTACGCTCCCAACTGATACTCTAAGAGCTCA-CAAGTTAAGCTCA
* *
16560559 CAA
65 TAG
* * * ** * * *
16560562 CTCCAACACAGCTAGCAGACCTACGCTCCCGGCTAATACTCTAAAAGCTCACAGAGTTAAACTCA
1 CTTCAACACAACTAGCGGACCTACGCTCCCAACTGATACTCTAAGAGCTCACA-AGTTAAGCTCA
16560627 TAG
65 TAG
* * * *
16560630 CTTCAACATAACTAGCGGACCTACGCTCTCAACTGATACTCTAAGAGCTCGCGAAGCTAAGCTCA
1 CTTCAACACAACTAGCGGACCTACGCTCCCAACTGATACTCTAAGAGCTCAC-AAGTTAAGCTCA
16560695 TAG
65 TAG
* * *
16560698 ATCCAACACATCTAG
1 CTTCAACACAACTAG
16560713 GTAATTGATT
Statistics
Matches: 119, Mismatches: 30, Indels: 4
0.78 0.20 0.03
Matches are distributed among these distances:
67 1 0.01
68 117 0.98
69 1 0.01
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.21
Consensus pattern (67 bp):
CTTCAACACAACTAGCGGACCTACGCTCCCAACTGATACTCTAAGAGCTCACAAGTTAAGCTCAT
AG
Found at i:16566449 original size:32 final size:32
Alignment explanation
Indices: 16566407--16566478 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
16566397 CCTCTGCTAG
* * *
16566407 GTATCAATCTGGTATCAATACTTTTCATAAAA
1 GTATCGATCTGGTATCAATAATTTCCATAAAA
*
16566439 GTATCGATCTGGTATCGATAATTTCCATAAAA
1 GTATCGATCTGGTATCAATAATTTCCATAAAA
16566471 GTATCGAT
1 GTATCGAT
16566479 AATTCTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (32 bp):
GTATCGATCTGGTATCAATAATTTCCATAAAA
Found at i:16577892 original size:27 final size:27
Alignment explanation
Indices: 16577861--16578037 Score: 203
Period size: 27 Copynumber: 6.6 Consensus size: 27
16577851 TAAATTGTAC
*
16577861 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
16577888 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
16577914 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
16577942 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
16577969 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
16577996 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
16578023 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16578038 GACTATATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:16577922 original size:54 final size:55
Alignment explanation
Indices: 16577861--16578037 Score: 225
Period size: 54 Copynumber: 3.3 Consensus size: 55
16577851 TAAATTGTAC
* **
16577861 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
16577916 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * *
16577969 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
16578023 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16578038 GACTATATAT
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 104 0.99
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:16578001 original size:81 final size:81
Alignment explanation
Indices: 16577862--16578016 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
16577852 AAATTGTACA
* * *
16577862 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
16577927 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
16577943 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGTG
*
16578007 TGCGAGTTGA
65 TGCGAATTGA
16578017 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:16578028 original size:81 final size:81
Alignment explanation
Indices: 16577858--16578037 Score: 227
Period size: 81 Copynumber: 2.2 Consensus size: 81
16577848 GATTAAATTG
* * *
16577858 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
16577923 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
16577939 TGCGGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTA
1 TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTA
* **
16578003 AGTGTGCGAGTTGATTA
65 AGTGTGCGAATTGACCA
* *
16578020 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
16578038 GACTATATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.01
81 82 0.99
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:16586964 original size:22 final size:22
Alignment explanation
Indices: 16586936--16586982 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
16586926 AAATAAATTA
16586936 AACTTAATTAAATTCTTTTCTC
1 AACTTAATTAAATTCTTTTCTC
16586958 AACTTAATTAAATTCTTTTCTC
1 AACTTAATTAAATTCTTTTCTC
16586980 AAC
1 AAC
16586983 CTATTTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (22 bp):
AACTTAATTAAATTCTTTTCTC
Found at i:16588084 original size:31 final size:31
Alignment explanation
Indices: 16588049--16588109 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
16588039 TCAACAACCG
*
16588049 AGTGACTTAAATAAAAACTTTTGAATAGTTA
1 AGTGACTTAAATAAAAACTTTCGAATAGTTA
* * *
16588080 AGTGATTTAAATGAGAACTTTCGAATAGTT
1 AGTGACTTAAATAAAAACTTTCGAATAGTT
16588110 TGGTGACCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTCGAATAGTTA
Found at i:16589668 original size:28 final size:28
Alignment explanation
Indices: 16589637--16589698 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
16589627 AGATATAGGC
16589637 TGGG-CCTAGGCCCATTTCAGATTCAATT
1 TGGGTCCTA-GCCCATTTCAGATTCAATT
*
16589665 TGGGTCTTAGCCCATTTCAGATTCAATT
1 TGGGTCCTAGCCCATTTCAGATTCAATT
16589693 TGGGTC
1 TGGGTC
16589699 TACAATATGC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 29 0.91
29 3 0.09
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (28 bp):
TGGGTCCTAGCCCATTTCAGATTCAATT
Found at i:16589699 original size:28 final size:28
Alignment explanation
Indices: 16589646--16589699 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
16589636 CTGGGCCTAG
16589646 GCCCATTTCAGATTCAATTTGGGTCTTA
1 GCCCATTTCAGATTCAATTTGGGTCTTA
16589674 GCCCATTTCAGATTCAATTTGGGTCT
1 GCCCATTTCAGATTCAATTTGGGTCT
16589700 ACAATATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (28 bp):
GCCCATTTCAGATTCAATTTGGGTCTTA
Found at i:16591728 original size:40 final size:34
Alignment explanation
Indices: 16591666--16591762 Score: 185
Period size: 34 Copynumber: 2.9 Consensus size: 34
16591656 AAATATGGAG
16591666 TAGGGCCTTAGCCCATCACAGTATCAGTATGCAT
1 TAGGGCCTTAGCCCATCACAGTATCAGTATGCAT
16591700 TAGGGCCTTAGCCCATCACAGTATCAGTATGCAT
1 TAGGGCCTTAGCCCATCACAGTATCAGTATGCAT
*
16591734 TAGGGCCTTAGCCCATCATAGTATCAGTA
1 TAGGGCCTTAGCCCATCACAGTATCAGTA
16591763 GCAATCATGC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 62 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (34 bp):
TAGGGCCTTAGCCCATCACAGTATCAGTATGCAT
Found at i:16592246 original size:18 final size:17
Alignment explanation
Indices: 16592223--16592289 Score: 61
Period size: 18 Copynumber: 4.1 Consensus size: 17
16592213 CATGTGGCCT
16592223 GCCCGTATGGGCCCACAC
1 GCCCGTAT-GGCCCACAC
* *
16592241 GCCCGTGTGG--C-C-T
1 GCCCGTATGGCCCACAC
16592254 GCCCGTATGGGCCCACAC
1 GCCCGTAT-GGCCCACAC
*
16592272 GCCCGTGTGGCCCACAC
1 GCCCGTATGGCCCACAC
16592289 G
1 G
16592290 GCCTAAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
13 7 0.18
14 3 0.08
15 1 0.03
16 1 0.03
17 13 0.33
18 14 0.36
ACGTcount: A:0.12, C:0.43, G:0.31, T:0.13
Consensus pattern (17 bp):
GCCCGTATGGCCCACAC
Found at i:16592250 original size:31 final size:31
Alignment explanation
Indices: 16592210--16592283 Score: 139
Period size: 31 Copynumber: 2.4 Consensus size: 31
16592200 GGGCTTACAT
*
16592210 GCCCATGTGGCCTGCCCGTATGGGCCCACAC
1 GCCCGTGTGGCCTGCCCGTATGGGCCCACAC
16592241 GCCCGTGTGGCCTGCCCGTATGGGCCCACAC
1 GCCCGTGTGGCCTGCCCGTATGGGCCCACAC
16592272 GCCCGTGTGGCC
1 GCCCGTGTGGCC
16592284 CACACGGCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.09, C:0.42, G:0.32, T:0.16
Consensus pattern (31 bp):
GCCCGTGTGGCCTGCCCGTATGGGCCCACAC
Found at i:16592285 original size:17 final size:17
Alignment explanation
Indices: 16592232--16592289 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
16592222 TGCCCGTATG
16592232 GGCCCACACGCCCGTGT
1 GGCCCACACGCCCGTGT
* *
16592249 GG--C-C-TGCCCGTAT
1 GGCCCACACGCCCGTGT
16592262 GGGCCCACACGCCCGTGT
1 -GGCCCACACGCCCGTGT
16592280 GGCCCACACG
1 GGCCCACACG
16592290 GCCTAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
13 7 0.22
14 3 0.09
15 1 0.03
16 1 0.03
17 13 0.41
18 7 0.22
ACGTcount: A:0.12, C:0.45, G:0.31, T:0.12
Consensus pattern (17 bp):
GGCCCACACGCCCGTGT
Found at i:16601717 original size:34 final size:34
Alignment explanation
Indices: 16601626--16601719 Score: 120
Period size: 34 Copynumber: 2.8 Consensus size: 34
16601616 AAATATGTAG
* *
16601626 TAGGGCCTTAGCCCATTATAGTAAT-AGTATGCAT
1 TAGGGCCTTAGCCCATCATAGT-ATCAGTACGCAT
*
16601660 TAGGG-CTTCAGCCCATCACAGTATCAGTACGCAT
1 TAGGGCCTT-AGCCCATCATAGTATCAGTACGCAT
*
16601694 TAGGGCCTTAGACCATCATAGTATCA
1 TAGGGCCTTAGCCCATCATAGTATCA
16601720 ATAGCAGTCA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
33 5 0.10
34 44 0.85
35 3 0.06
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (34 bp):
TAGGGCCTTAGCCCATCATAGTATCAGTACGCAT
Found at i:16628183 original size:35 final size:31
Alignment explanation
Indices: 16628133--16628223 Score: 83
Period size: 35 Copynumber: 2.7 Consensus size: 31
16628123 TAGGCTTGAA
*
16628133 TAAAAAAATGGGATTAAAGGGTTTCGATCATGGTT
1 TAAAAAAA--GGATTAAAGGGTTT-GATCA-GGGT
* * *
16628168 TGAAAAAAAGAGATTAGAGGGCTTTGTTTAGGGT
1 T-AAAAAAAG-GATTAAAGGG-TTTGATCAGGGT
16628202 TAAAAAAAGGATTAAAGGGTTT
1 TAAAAAAAGGATTAAAGGGTTT
16628224 TGTTTGGGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
31 3 0.06
32 9 0.19
33 8 0.17
34 5 0.10
35 13 0.27
36 10 0.21
ACGTcount: A:0.40, C:0.03, G:0.27, T:0.30
Consensus pattern (31 bp):
TAAAAAAAGGATTAAAGGGTTTGATCAGGGT
Found at i:16628242 original size:33 final size:33
Alignment explanation
Indices: 16628170--16628234 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
16628160 TCATGGTTTG
*
16628170 AAAAAAAGAGATTAGAGGGCTTTGTTTAGGGTT
1 AAAAAAAGAGATTAAAGGGCTTTGTTTAGGGTT
* *
16628203 AAAAAAAG-GATTAAAGGGTTTTGTTTGGGGTT
1 AAAAAAAGAGATTAAAGGGCTTTGTTTAGGGTT
16628235 TTAAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 21 0.72
33 8 0.28
ACGTcount: A:0.35, C:0.02, G:0.31, T:0.32
Consensus pattern (33 bp):
AAAAAAAGAGATTAAAGGGCTTTGTTTAGGGTT
Found at i:16628260 original size:35 final size:37
Alignment explanation
Indices: 16628190--16628292 Score: 96
Period size: 38 Copynumber: 2.9 Consensus size: 37
16628180 ATTAGAGGGC
*
16628190 TTTGTTTAGGG--TTA-AAAAAAGGAT-TAAAG-GG-T
1 TTTGTTTAGGGTCTTACAAAAAA-GATCAAAAGAGGAT
* * *
16628222 TTTGTTTGGGGT-TT-TAAAAAATATCAAAAGAGGAT
1 TTTGTTTAGGGTCTTACAAAAAAGATCAAAAGAGGAT
16628257 TTTGTTTAGGGTCTTAACAAAAAAGATCAAAAGAGG
1 TTTGTTTAGGGTCTT-ACAAAAAAGATCAAAAGAGG
16628293 TAATTTTTAG
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
32 12 0.21
33 12 0.21
34 2 0.04
35 12 0.21
36 2 0.04
38 17 0.30
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (37 bp):
TTTGTTTAGGGTCTTACAAAAAAGATCAAAAGAGGAT
Found at i:16628778 original size:14 final size:13
Alignment explanation
Indices: 16628756--16628805 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
16628746 AACTATTTAG
*
16628756 TATTTTTGTAATGA
1 TATTATTGTAAT-A
*
16628770 TATTATTGTACTA
1 TATTATTGTAATA
16628783 TATTTATTGTAATA
1 TA-TTATTGTAATA
16628797 T-TTATTGTA
1 TATTATTGTA
16628806 TTACATTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 8 0.25
13 3 0.09
14 21 0.66
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (13 bp):
TATTATTGTAATA
Found at i:16628799 original size:12 final size:12
Alignment explanation
Indices: 16628756--16628805 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
16628746 AACTATTTAG
16628756 TATTT-TTGTAA
1 TATTTATTGTAA
16628767 TGATATTATTGTACTA
1 T-AT-TTATTGTA--A
16628783 TATTTATTGTAA
1 TATTTATTGTAA
16628795 TATTTATTGTA
1 TATTTATTGTA
16628806 TTACATTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.03
12 14 0.41
13 2 0.06
14 13 0.38
15 2 0.06
16 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (12 bp):
TATTTATTGTAA
Found at i:16628804 original size:26 final size:28
Alignment explanation
Indices: 16628756--16628814 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
16628746 AACTATTTAG
16628756 TATTT-TTGTAATGATATTATTGTACTA
1 TATTTATTGTAATGATATTATTGTACTA
*
16628783 TATTTATTGTAAT-AT-TTATTGTATTA
1 TATTTATTGTAATGATATTATTGTACTA
*
16628809 CATTTA
1 TATTTA
16628815 GGTGATTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 15 0.52
27 7 0.24
28 7 0.24
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (28 bp):
TATTTATTGTAATGATATTATTGTACTA
Found at i:16630471 original size:46 final size:48
Alignment explanation
Indices: 16630292--16630550 Score: 227
Period size: 46 Copynumber: 5.5 Consensus size: 48
16630282 TTTGTGTGCT
* * **
16630292 AGTGTAAGA-CATGTCTGGAACATGCATCGGCCACATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTACAAGATGTAGAGCC
* * *
16630338 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTAAGACG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTA-CAAGATGTAGAGCC
* * * *
16630386 AGTGTAAGA-TATGTCTAGGACATGCATCGACCT-CGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCG-GCTACAAGATGTAGAGCC
* *
16630432 AGTGTAACA-CATGTCTGGGACATGCATCGGCTACAAGATGT---GTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTACAAGATGTAGAGCC
* * *
16630476 AGTGTAAGACCATGTCTGGGACATGGCATCGG-TACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTAC-AAGATGT-AGAGCC
*
16630526 AGTGTAAAACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
16630551 GCGTCGGCCT
Statistics
Matches: 174, Mismatches: 25, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
44 10 0.06
45 19 0.11
46 67 0.39
47 28 0.16
48 25 0.14
49 1 0.01
50 24 0.14
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTACAAGATGTAGAGCC
Found at i:16630596 original size:49 final size:50
Alignment explanation
Indices: 16630292--16630604 Score: 176
Period size: 46 Copynumber: 6.6 Consensus size: 50
16630282 TTTGTGTGCT
* * * *
16630292 AGTGTAAGA-CATGTCTGGAACAT-GCATCGGCCAC--AT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-TACGGATATGTGAGAGTC
* *
16630338 AGTGTAAGACCATGTCTGGGACATGGCATCGG--C--ATTAAGACGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGTACGGA-TATG-TGAGAGTC
* * * * *
16630385 TAGTGTAAGA-TATGTCTAGGACAT-GCATC-G-ACCTCGAGATGT-A-AGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGTA-C-GGATATGTGAGAGTC
* * *
16630432 AGTGTAACA-CATGTCTGGGACAT-GCATCGGCTAC-AAGATGT----GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-TACGGATATGTGAGAGTC
16630476 AGTGTAAGACCATGTCTGGGACATGGCATCGGTACGGATATGTGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGTACGGATATGTGAGAGTC
* * * *
16630525 TAGTGTAAAACCATGTCTGGGACATGGCGTCGGCCT-C-GAT-TTTGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGG--TACGGATATGTGAGAGTC
*
16630575 AGTGTAAGACCATGTCAGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
16630605 AGTATTATAC
Statistics
Matches: 217, Mismatches: 24, Indels: 49
0.75 0.08 0.17
Matches are distributed among these distances:
44 10 0.05
45 20 0.09
46 60 0.28
47 30 0.14
48 22 0.10
49 37 0.17
50 36 0.17
51 1 0.00
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGTACGGATATGTGAGAGTC
Found at i:16632936 original size:35 final size:35
Alignment explanation
Indices: 16632896--16632966 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
16632886 GAGAGAGCAT
* *
16632896 GTAAGGCCGAGGAATTGGCCAAAGAGAAGAGAAAA
1 GTAAGGCCGAAGAATTAGCCAAAGAGAAGAGAAAA
16632931 GTAAGGCCGAAGAATTAGCCAAAGAGAAGAGAAAA
1 GTAAGGCCGAAGAATTAGCCAAAGAGAAGAGAAAA
16632966 G
1 G
16632967 CTAAAATTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.48, C:0.11, G:0.32, T:0.08
Consensus pattern (35 bp):
GTAAGGCCGAAGAATTAGCCAAAGAGAAGAGAAAA
Found at i:16635698 original size:50 final size:51
Alignment explanation
Indices: 16635579--16635711 Score: 153
Period size: 52 Copynumber: 2.6 Consensus size: 51
16635569 GTTGTGAGAA
* **
16635579 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAATGG-TTTAGGT
* * *
16635631 CACGTGTGTAGTACTAAGTGCAGGCTACTACT-TGTACCAGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTA-TGTGTACAAAATGGTTTAGGT
* * *
16635681 CGCATGTGTAGTACTAAGTACAGACTACTAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTAT
16635712 ACGTACCCGA
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
49 1 0.01
50 32 0.46
52 36 0.51
53 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAATGGTTTAGGT
Found at i:16635810 original size:51 final size:51
Alignment explanation
Indices: 16635740--16635861 Score: 133
Period size: 51 Copynumber: 2.4 Consensus size: 51
16635730 ATCACATGTC
* * * *
16635740 TGGTACTAAGTGCAAGCCACTATGTGTAA-AAGATAGCCTTGGTC-ACAAGTG
1 TGGTACTATGTGCAGGCCACTATGTG-AAGAAGATAG-CTTGGACTACAAGGG
* * *
16635791 TGGTACTATGTG-AGGGCCACTTTGTGAAGAAGGTAGCTTTGACTACAAGGG
1 TGGTACTATGTGCA-GGCCACTATGTGAAGAAGATAGCTTGGACTACAAGGG
16635842 TGGTACTATGTGCAGGCCAC
1 TGGTACTATGTGCAGGCCAC
16635862 CGGGCATCCG
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
50 8 0.13
51 51 0.85
52 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (51 bp):
TGGTACTATGTGCAGGCCACTATGTGAAGAAGATAGCTTGGACTACAAGGG
Found at i:16643484 original size:33 final size:33
Alignment explanation
Indices: 16643442--16643509 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
16643432 TCAGCCACTC
16643442 TTTACCTTCACAAGTAAGTGATTTTGATAGTTT
1 TTTACCTTCACAAGTAAGTGATTTTGATAGTTT
16643475 TTTACCTTCACAAGTAAGTGATTTTGATAGTTT
1 TTTACCTTCACAAGTAAGTGATTTTGATAGTTT
16643508 TT
1 TT
16643510 CTTGATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (33 bp):
TTTACCTTCACAAGTAAGTGATTTTGATAGTTT
Found at i:16644375 original size:46 final size:46
Alignment explanation
Indices: 16644231--16644589 Score: 216
Period size: 47 Copynumber: 7.6 Consensus size: 46
16644221 TTTGTGTGCT
* * * *
16644231 AGTGTAAGACATGTCTGGGACATGCCTCAGCC-ACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTATA-GATGAGAGCC
* * *
16644277 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TAAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTAT-AGATGAGAGCC
16644325 AGTGTAAGACATGTCTGGGACATGCATCGGCCTATAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTATAGATG-AGAGCC
* * * *
16644371 AGTGTAAGACATGTTTGGGACATGCATCGG-CTACA-A-GATGTG-T
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTATAGATGA-GAGCC
* * *
16644414 AGTGTAAGACCATGTCTGGGACATGGCATTGGCACAAATATG-TGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-C-TATA-GATGAGAGCC
* * * * ** ** * *
16644464 AGTGTAAGACCATGCCTGGGACAAGGCGTCAGCCTCGATTTCGATAGTC
1 AGTGTAAGA-CATGTCTGGGAC-ATGCATCGGCCTATAGAT-GAGAGCC
* * *
16644513 AGTGTAAGATCATGTCTAGGACATGGCATCGACTTAATAGAT--GAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCT-ATAGATGAGAGCC
* *
16644560 GGTGTAATACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
16644590 AGCATTATAC
Statistics
Matches: 242, Mismatches: 49, Indels: 43
0.72 0.15 0.13
Matches are distributed among these distances:
42 1 0.00
43 10 0.04
44 15 0.06
45 10 0.04
46 54 0.22
47 60 0.25
48 27 0.11
49 33 0.14
50 31 0.13
51 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTATAGATGAGAGCC
Found at i:16645784 original size:20 final size:21
Alignment explanation
Indices: 16645745--16645784 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16645735 GTGATAATGG
*
16645745 CCACACGGGTGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
16645766 CCACATGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
16645785 GTTTTAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.35, G:0.30, T:0.25
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:16647801 original size:33 final size:33
Alignment explanation
Indices: 16647759--16647824 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
16647749 TACCTTCAGC
16647759 CCCATTACCACTGCAGTACTCCACTCCTCTCGG
1 CCCATTACCACTGCAGTACTCCACTCCTCTCGG
*
16647792 CCCATTACCACTGTAGTACTCCACTCCTCTCGG
1 CCCATTACCACTGCAGTACTCCACTCCTCTCGG
16647825 GCAAACGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.18, C:0.44, G:0.12, T:0.26
Consensus pattern (33 bp):
CCCATTACCACTGCAGTACTCCACTCCTCTCGG
Found at i:16651941 original size:46 final size:46
Alignment explanation
Indices: 16651874--16652043 Score: 213
Period size: 46 Copynumber: 3.7 Consensus size: 46
16651864 TGTAACCCGC
*
16651874 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGAGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCAT
* *
16651920 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GA-GCGT--TTGCAT
* * *
16651970 CTC-T---CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCAT
16652013 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
16652044 TTCGGATGCC
Statistics
Matches: 106, Mismatches: 9, Indels: 18
0.80 0.07 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.06
45 3 0.03
46 57 0.54
47 28 0.26
48 3 0.03
50 7 0.07
51 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTTGCAT
Found at i:16651990 original size:93 final size:93
Alignment explanation
Indices: 16651882--16652053 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
16651872 GCCCATAAGT
*
16651882 GAACTCAGACTCAACTCAACGAGCTCGAGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16651947 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
16651975 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
16652040 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
16652054 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:16652068 original size:46 final size:46
Alignment explanation
Indices: 16651879--16652068 Score: 149
Period size: 46 Copynumber: 4.1 Consensus size: 46
16651869 CCCGCCCATA
* * ***
16651879 AGTGAACTCAGACTCAACTCAACGAGCTC-GA-GCGTTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAAACATCC-T
*
16651924 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTA--AACATC-CT
* * ***
16651974 --CGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAAACATCC-T
* * *
16652017 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAAACATCCT
16652064 AGTGA
1 AGTGA
16652069 CATGTCACTT
Statistics
Matches: 116, Mismatches: 17, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
43 5 0.04
45 3 0.03
46 60 0.52
47 31 0.27
48 9 0.08
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAAACATCCT
Found at i:16653383 original size:136 final size:135
Alignment explanation
Indices: 16653204--16653476 Score: 429
Period size: 136 Copynumber: 2.0 Consensus size: 135
16653194 TTATGCATAA
* * *
16653204 AATTTCTTCACGAAATTTTCACACAATCATGCAATCATATCATAGACCTCAAAATAATCATAAAA
1 AATTTCATCACGAAATTTTCACACAATCATGCAATCATATCATAAACATCAAAATAATCATAAAA
* *
16653269 TAATTATTTCTATCTCGGATTTTGTGGTCACAAAACCGCTATTCCAACTAGGCCCAAAATCAGGA
66 TAATTATTTCTATCTCGGA-TTTGTGGTCACAAAACCACTATTCCAACTAGGCCCAAAATCAAGA
16653334 TATTAC
130 TATTAC
*
16653340 AATTTCATCACGAAATTTTCACACAATCATGCAATCATATCATAAACATCAAAATAATTATAAAA
1 AATTTCATCACGAAATTTTCACACAATCATGCAATCATATCATAAACATCAAAATAATCATAAAA
* * * * * *
16653405 TAATTATTTCTATCTTGGATTTGTGGTCACGAAACCACTATTCCGATTAGGCCCTAATTCAAGAT
66 TAATTATTTCTATCTCGGATTTGTGGTCACAAAACCACTATTCCAACTAGGCCCAAAATCAAGAT
16653470 ATTAC
131 ATTAC
16653475 AA
1 AA
16653477 CCACAACAAT
Statistics
Matches: 125, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
135 46 0.37
136 79 0.63
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (135 bp):
AATTTCATCACGAAATTTTCACACAATCATGCAATCATATCATAAACATCAAAATAATCATAAAA
TAATTATTTCTATCTCGGATTTGTGGTCACAAAACCACTATTCCAACTAGGCCCAAAATCAAGAT
ATTAC
Found at i:16653764 original size:33 final size:34
Alignment explanation
Indices: 16653727--16653798 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
16653717 AAAAATAATG
16653727 AACTTTG-AAATTTAAATGAGATGTATTGGAACA
1 AACTTTGTAAATTTAAATGAGATGTATTGGAACA
* *
16653760 AACTTTGTAATTTTAAATGAGATGTGTTGGAACA
1 AACTTTGTAAATTTAAATGAGATGTATTGGAACA
16653794 AACTT
1 AACTT
16653799 GGAACAAACT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 7 0.19
34 29 0.81
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (34 bp):
AACTTTGTAAATTTAAATGAGATGTATTGGAACA
Found at i:16653816 original size:45 final size:45
Alignment explanation
Indices: 16653752--16653860 Score: 164
Period size: 45 Copynumber: 2.4 Consensus size: 45
16653742 ATGAGATGTA
*
16653752 TTGGAACAAACTTTGTAATTTTAAATGAGATGTGTTGGAACAAAC
1 TTGGAACAAACTTTGTAATTTTAAATGAGATATGTTGGAACAAAC
* *
16653797 TTGGAACAAACTTTTTAATTTTAAATGAGATATGTTGGAACAAAA
1 TTGGAACAAACTTTGTAATTTTAAATGAGATATGTTGGAACAAAC
** *
16653842 TTTAAACAAACTATGTAAT
1 TTGGAACAAACTTTGTAAT
16653861 ATATATATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (45 bp):
TTGGAACAAACTTTGTAATTTTAAATGAGATATGTTGGAACAAAC
Found at i:16657928 original size:20 final size:20
Alignment explanation
Indices: 16657905--16657951 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
16657895 CAGAAACATT
*
16657905 AAAAAAT-TATTAAATATCC
1 AAAAAATATTTTAAATATCC
16657924 AAAAAATATTTTAAATATCC
1 AAAAAATATTTTAAATATCC
*
16657944 CAAAAATA
1 AAAAAATA
16657952 GTAAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAATATTTTAAATATCC
Found at i:16657959 original size:20 final size:20
Alignment explanation
Indices: 16657916--16657959 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
16657906 AAAAATTATT
* **
16657916 AAATATCCAAAAAATATTTT
1 AAATATCCAAAAAATAGTAA
*
16657936 AAATATCCCAAAAATAGTAA
1 AAATATCCAAAAAATAGTAA
16657956 AAAT
1 AAAT
16657960 TAGAAAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.27
Consensus pattern (20 bp):
AAATATCCAAAAAATAGTAA
Found at i:16664602 original size:32 final size:32
Alignment explanation
Indices: 16664564--16664627 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
16664554 AAATTATTCT
*
16664564 TTATGCAAGAAAATAAAATATACTTAAAACAA
1 TTATGCAAGAAAATAAAACATACTTAAAACAA
16664596 TTATGCAAGAAAATAAAACATACTTAAAACAA
1 TTATGCAAGAAAATAAAACATACTTAAAACAA
16664628 CATAAAAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.59, C:0.11, G:0.06, T:0.23
Consensus pattern (32 bp):
TTATGCAAGAAAATAAAACATACTTAAAACAA
Found at i:16668841 original size:140 final size:139
Alignment explanation
Indices: 16668535--16668854 Score: 444
Period size: 139 Copynumber: 2.3 Consensus size: 139
16668525 TCAAGGAGTG
* * * *** * *
16668535 AAAGGTTTACACGAGTATTTTTTCCATATAATGCCAAAATTGGGAGTGAAGTCGAGAAAGAAGTT
1 AAAGATTTACACGAGTATTTGTTCCATATAACGCCAAAATCAAGAGCGAAGTCAAGAAAGAAGTT
* * * * * * * *
16668600 AGTGTAAGATAATAACCCTTCTTCTTCATCCACCACTGTTGAACCTAGTGGGGTTGGTTTGAGAC
66 AGAGTAAAACAATAACCCTTCTTCTTCATCCACCACTGTTGAACCCAGCGAGGTTGGTTTGAAAA
16668665 AAACAAGCA
131 AAACAAGCA
**
16668674 AAAGATTTACACGAGTATTTGTTCCATATAACGCCGGAATCAAGAGCGAAGTCAAGAAAGAAGTT
1 AAAGATTTACACGAGTATTTGTTCCATATAACGCCAAAATCAAGAGCGAAGTCAAGAAAGAAGTT
*
16668739 AGCAG-AAAACAATAACCCTTCTTCTTCATCCACCACTTGTTGAACCCAGCGAGGTTGTTTTGAA
66 AG-AGTAAAACAATAACCCTTCTTCTTCATCCACCAC-TGTTGAACCCAGCGAGGTTGGTTTGAA
16668803 AAAAACAAGCA
129 AAAAACAAGCA
16668814 AAAGATTTACACGAGTATTTGTTCCATATAACGCCAAAATC
1 AAAGATTTACACGAGTATTTGTTCCATATAACGCCAAAATC
16668855 GAGGGGTGAA
Statistics
Matches: 158, Mismatches: 21, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
139 86 0.54
140 72 0.46
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (139 bp):
AAAGATTTACACGAGTATTTGTTCCATATAACGCCAAAATCAAGAGCGAAGTCAAGAAAGAAGTT
AGAGTAAAACAATAACCCTTCTTCTTCATCCACCACTGTTGAACCCAGCGAGGTTGGTTTGAAAA
AAACAAGCA
Found at i:16669530 original size:45 final size:44
Alignment explanation
Indices: 16669470--16669559 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 44
16669460 AATAATTTGG
16669470 AAACAATCTAAGATCAAATCGAAATAAATTAGAAAATTCTAGAA
1 AAACAATCTAAGATCAAATCGAAATAAATTAGAAAATTCTAGAA
* *
16669514 AAACAAATCTAGGATCAAATCGAAATAAATTAGAAAATTTTAGAA
1 AAAC-AATCTAAGATCAAATCGAAATAAATTAGAAAATTCTAGAA
16669559 A
1 A
16669560 TTTGGAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
44 4 0.09
45 39 0.91
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (44 bp):
AAACAATCTAAGATCAAATCGAAATAAATTAGAAAATTCTAGAA
Found at i:16670610 original size:20 final size:20
Alignment explanation
Indices: 16670587--16670634 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
16670577 AGACATAAAT
16670587 GTGCAATCAAAGGAACCAAA
1 GTGCAATCAAAGGAACCAAA
* * * *
16670607 GTGCAAACAGAGGCACCGAA
1 GTGCAATCAAAGGAACCAAA
16670627 GTGCAATC
1 GTGCAATC
16670635 CCGTACTAGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.10
Consensus pattern (20 bp):
GTGCAATCAAAGGAACCAAA
Found at i:16672343 original size:15 final size:14
Alignment explanation
Indices: 16672325--16672369 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
16672315 GTATGATAAA
16672325 TAATTGACTTGTTCT
1 TAATT-ACTTGTTCT
16672340 TAATTA-TGTGTTCT
1 TAATTACT-TGTTCT
16672354 TAATT-CTTGTT-T
1 TAATTACTTGTTCT
16672366 TAAT
1 TAAT
16672370 ATTCCAGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.18
13 5 0.18
14 13 0.46
15 5 0.18
ACGTcount: A:0.22, C:0.09, G:0.11, T:0.58
Consensus pattern (14 bp):
TAATTACTTGTTCT
Found at i:16692074 original size:16 final size:17
Alignment explanation
Indices: 16692049--16692081 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16692039 TTCATCACAC
*
16692049 TTAGGTTAA-TTTGCAT
1 TTAGGATAATTTTGCAT
16692065 TTAGGATAATTTTGCAT
1 TTAGGATAATTTTGCAT
16692082 CTAGTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (17 bp):
TTAGGATAATTTTGCAT
Found at i:16695482 original size:26 final size:26
Alignment explanation
Indices: 16695451--16695558 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
16695441 TGAAATTCCC
*
16695451 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
16695477 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
16695503 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
16695529 CTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16695555 ATCA
1 ATCA
16695559 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16696862 original size:19 final size:19
Alignment explanation
Indices: 16696838--16696875 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16696828 GAAGAGGGGG
16696838 ATTCTATATAAGAACCCAT
1 ATTCTATATAAGAACCCAT
*
16696857 ATTCTATATAAGAATCCAT
1 ATTCTATATAAGAACCCAT
16696876 TATATCATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.34
Consensus pattern (19 bp):
ATTCTATATAAGAACCCAT
Found at i:16698592 original size:10 final size:10
Alignment explanation
Indices: 16698577--16698603 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
16698567 ATATGTGACA
16698577 AGATGATGGC
1 AGATGATGGC
16698587 AGATGATGGC
1 AGATGATGGC
16698597 AGATGAT
1 AGATGAT
16698604 ATATTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.37, T:0.22
Consensus pattern (10 bp):
AGATGATGGC
Found at i:16702091 original size:42 final size:42
Alignment explanation
Indices: 16701966--16702091 Score: 135
Period size: 42 Copynumber: 3.0 Consensus size: 42
16701956 ACGCAAAATT
* * ** *
16701966 ATACCAATGCCATAGCCCAGATATGGTCTTACATGGGATCTC
1 ATACCGATGCCATAGCCCAGATATGGTCTTACACGAAATCTA
* * *
16702008 ATATCGATGCCAATAGCCCAGCTATGGTCTTACACAAAATCTA
1 ATACCGATGCC-ATAGCCCAGATATGGTCTTACACGAAATCTA
* * * *
16702051 ATACCGATTCCATATCCCAGTTATGGTCTTACACGTAATCT
1 ATACCGATGCCATAGCCCAGATATGGTCTTACACGAAATCT
16702092 CAACTAACCC
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
42 35 0.51
43 34 0.49
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (42 bp):
ATACCGATGCCATAGCCCAGATATGGTCTTACACGAAATCTA
Found at i:16717515 original size:40 final size:40
Alignment explanation
Indices: 16717272--16717516 Score: 258
Period size: 40 Copynumber: 6.1 Consensus size: 40
16717262 TAATTAATGT
* *
16717272 CTGAATGCACATTCATGCCCCTGTTTGTACTTTGGTACCC
1 CTGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCC
* * * * * *
16717312 TTAAATGCATATTTGTGCCCCTGTTTGTACTTTGGTACCG
1 CTGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCC
* * * *
16717352 TTGAATGCACATTCATGCCCCTGTTTGTAATTCAGTACCC
1 CTGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCC
* * * *
16717392 CTAAATGCACATTCGTGCCCATCTTTGTACTACGGTACCC
1 CTGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCC
* * * *
16717432 CTAAATGCACATTCGTTCCCTTGTTTGTACTTTGGGT-CCC
1 CTGAATGCACATTCGTGCCCCTGTTTGTAC-TTCGGTACCC
* * * *
16717472 CTGAATGCACATTCGTGTCCTTGTTAGTACTTCGGTACTC
1 CTGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCC
16717512 CTGAA
1 CTGAA
16717517 GGCATATACA
Statistics
Matches: 170, Mismatches: 33, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 5 0.03
40 161 0.95
41 4 0.02
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (40 bp):
CTGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCC
Found at i:16728032 original size:3 final size:3
Alignment explanation
Indices: 16728024--16728053 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
16728014 TTGATACTTT
*
16728024 TGA TGA TGA TGA TGA TGA TAA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
16728054 ATGGAGACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:16731662 original size:21 final size:21
Alignment explanation
Indices: 16731636--16731676 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
16731626 ATGATGATTC
16731636 GTTGTTCTCCATATATAATTA
1 GTTGTTCTCCATATATAATTA
16731657 GTTGTTCTCCATATATAATT
1 GTTGTTCTCCATATATAATT
16731677 CGAATGATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.49
Consensus pattern (21 bp):
GTTGTTCTCCATATATAATTA
Found at i:16740575 original size:68 final size:67
Alignment explanation
Indices: 16740502--16740673 Score: 176
Period size: 67 Copynumber: 2.6 Consensus size: 67
16740492 TATCATGTGT
* * * * *
16740502 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTTACATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGA-A-TAT-ATGTAGCTAGGTCACATGCGTGATACCAGTGAAGGACACCA
16740565 TGTAG
63 TGTAG
* * *
16740570 ACAAGAGAGCTAC-AGAATATATGTAGCTAGGTCATATGCGTGGTTCCAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCACATGCGTGATACCA-GTGAAGGACACCATG
16740634 TAG
65 TAG
*
16740637 ACAAGAGAGCTACGAG-ATAAACTG--GCTAGGTCACATG
1 ACAAGAGAGCTACGAGAATATA-TGTAGCTAGGTCACATG
16740674 GGTGGTACTA
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
64 22 0.25
65 3 0.03
66 15 0.17
67 32 0.36
68 17 0.19
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCACATGCGTGATACCAGTGAAGGACACCATGT
AG
Found at i:16748376 original size:13 final size:14
Alignment explanation
Indices: 16748353--16748382 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
16748343 ATAAAGCATA
16748353 AAATAAAATAAAAG
1 AAATAAAATAAAAG
16748367 AAAT-AAATAAAAG
1 AAATAAAATAAAAG
16748380 AAA
1 AAA
16748383 ATAGAACAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (14 bp):
AAATAAAATAAAAG
Found at i:16748384 original size:14 final size:14
Alignment explanation
Indices: 16748352--16748385 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
16748342 AATAAAGCAT
16748352 AAAATAAAATAAAAG
1 AAAAT-AAATAAAAG
16748367 -AAATAAATAAAAG
1 AAAATAAATAAAAG
16748380 AAAATA
1 AAAATA
16748386 GAACAGAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (14 bp):
AAAATAAATAAAAG
Found at i:16755815 original size:14 final size:14
Alignment explanation
Indices: 16755791--16755826 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
16755781 GAATGAAAAT
16755791 GAAATAGGAAAGAAA
1 GAAA-AGGAAAGAAA
16755806 GAAAAGGAAAGAAA
1 GAAAAGGAAAGAAA
*
16755820 AAAAAGG
1 GAAAAGG
16755827 GGAAATTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (14 bp):
GAAAAGGAAAGAAA
Found at i:16756619 original size:6 final size:6
Alignment explanation
Indices: 16756599--16756642 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
16756589 ATGAGGTACT
* * *
16756599 CTGTGTA CTGCTA CTGTTA CTATTA CTGTTA CTATTA CTGTTA C
1 CTGT-TA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA C
16756643 AGTGTATTCC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
6 28 0.90
7 3 0.10
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (6 bp):
CTGTTA
Found at i:16756625 original size:12 final size:12
Alignment explanation
Indices: 16756610--16756642 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
16756600 TGTGTACTGC
16756610 TACTGTTACTAT
1 TACTGTTACTAT
16756622 TACTGTTACTAT
1 TACTGTTACTAT
16756634 TACTGTTAC
1 TACTGTTAC
16756643 AGTGTATTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.48
Consensus pattern (12 bp):
TACTGTTACTAT
Found at i:16759523 original size:26 final size:26
Alignment explanation
Indices: 16759494--16759545 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
16759484 TGATAAAAAT
*
16759494 TGATAATTGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16759520 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16759546 CGATGGGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16762714 original size:12 final size:12
Alignment explanation
Indices: 16762697--16762727 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
16762687 ACTCGGGGAA
*
16762697 GAGGCCGTGTTC
1 GAGGCCGTGGTC
16762709 GAGGCCGTGGTC
1 GAGGCCGTGGTC
16762721 GAGGCCG
1 GAGGCCG
16762728 AGGTAGTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.26, G:0.48, T:0.16
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:16767632 original size:26 final size:26
Alignment explanation
Indices: 16767598--16767653 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
16767588 TTGATAAAAT
16767598 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16767624 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16767650 TGAT
1 TGAT
16767654 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16769187 original size:25 final size:25
Alignment explanation
Indices: 16769139--16769187 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
16769129 ACAGTTTTAC
16769139 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
*
16769164 CCCTAGG-GATAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
16769188 GCATGTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.22
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:16776785 original size:15 final size:15
Alignment explanation
Indices: 16776741--16776785 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
16776731 GTATCGTATC
* *
16776741 TTGGGTTTCTTTATC
1 TTGGATTTCTTTATT
* *
16776756 CTGGATCTCTTTATT
1 TTGGATTTCTTTATT
16776771 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
16776786 CGGTTTTCTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.11, C:0.13, G:0.16, T:0.60
Consensus pattern (15 bp):
TTGGATTTCTTTATT
Found at i:16779241 original size:46 final size:45
Alignment explanation
Indices: 16779191--16779459 Score: 258
Period size: 46 Copynumber: 5.8 Consensus size: 45
16779181 TGTTTGGGCA
16779191 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
16779237 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
16779284 TCCGAGCTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
16779330 TCCGAACTCGTTGAGTTGAGTCCAAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
16779377 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
16779423 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16779460 GCGGGTTACA
Statistics
Matches: 180, Mismatches: 29, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
43 2 0.01
44 5 0.03
45 2 0.01
46 100 0.56
47 62 0.34
48 2 0.01
49 5 0.03
50 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:16779306 original size:47 final size:47
Alignment explanation
Indices: 16779187--16779405 Score: 204
Period size: 47 Copynumber: 4.7 Consensus size: 47
16779177 AGGATGTTTG
*** *
16779187 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
*
16779230 GCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
1 G-GCA--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
16779280 GGCATCCGAGCTCGTTGAGTTGAGTCCCAGTTC-ACTTATGGATGCAA--A
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGA--GA--GATGTAACTA
* *
16779328 TG--TCCGAACTCGTTGAGTTGAGTCCAAGTTCGAGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
*
16779373 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
16779406 ACTTATGGAT
Statistics
Matches: 142, Mismatches: 18, Indels: 28
0.76 0.10 0.15
Matches are distributed among these distances:
43 7 0.05
44 2 0.01
45 3 0.02
46 57 0.40
47 59 0.42
48 4 0.03
49 3 0.02
50 7 0.05
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:16779346 original size:93 final size:93
Alignment explanation
Indices: 16779187--16779451 Score: 467
Period size: 93 Copynumber: 2.8 Consensus size: 93
16779177 AGGATGTTTG
*
16779187 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
16779252 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
16779280 GGCATCCGAGCTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
16779345 TTGAGTCCAAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
16779373 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
16779438 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
16779452 ACTTATGGGC
Statistics
Matches: 162, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 162 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:16787012 original size:43 final size:43
Alignment explanation
Indices: 16786946--16787065 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
16786936 TCGAAATGTG
* *
16786946 ATATACGGGCTTCGGGCCTAGCAGGCTATAATGCCAATGAGATA
1 ATAT-CGGGCCTCGGGCCTAGCAGGCTATAATGCCAATGAAATA
* ** *
16786990 ATATCGGGCCTCGGGTCTAGCAGGCTATAATGCCGGTGAAATG
1 ATATCGGGCCTCGGGCCTAGCAGGCTATAATGCCAATGAAATA
* ** *
16787033 ATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCC
1 ATATCGGGCCTCGGGCCTAGCAGGCTATAATGCC
16787066 GGTGAATGAA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 6 0.09
43 55 0.85
44 4 0.06
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.22
Consensus pattern (43 bp):
ATATCGGGCCTCGGGCCTAGCAGGCTATAATGCCAATGAAATA
Done.