Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168409.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_624, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21362
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Found at i:189 original size:26 final size:26
Alignment explanation
Indices: 153--205 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
143 CCTGTCTGAT
153 CTTACACTGGGAATGAACTCCGTATG
1 CTTACACTGGGAATGAACTCCGTATG
*
179 CTTAGACTGGGAATGAACTCCGTATG
1 CTTACACTGGGAATGAACTCCGTATG
205 C
1 C
206 CTAAGTCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTACACTGGGAATGAACTCCGTATG
Found at i:2310 original size:895 final size:895
Alignment explanation
Indices: 1--4703 Score: 5819
Period size: 889 Copynumber: 5.3 Consensus size: 895
* * ** * * * * * *
1 ACCCCTCCGCCCCCCCAATCGCCGAAAACTTAATGCCGTCGATTAGGTTATTCAGTGATGCTCCG
1 ACCCC-CCG-CCCCCCAATCGCCGGAACCCCAATGCCGTCGGTCAGGTTCTCCGGTGATGCTTCG
** * *
66 TGGATGGAGCCCCGGGTGAAAAAAAATGTGGCACCAGCACATGCCCGAGCCCAGCATGTGCACCC
64 ACGATGGTGCCCCGAGTGAAAAAAAATGTGGCACCAGCACATGCCCGAGCCCAGCATGTGCACCC
131 GCAACCCTCGGTCCTG-TCTGATCTTACACTGGGAATGAACTCCGTATGCTTAGACTGGGAATGA
129 GCAACCCTCGGT-CTGATCTGATCTTACACTGGGAATGAACTCCGTATGCTTAGACTGGGAATGA
* * * *
195 ACTCCGTATGCCTAAGTCAACCCATGAAATGAGCGTGCGGGCGCTCAGCTGGCCAGAGGGGTAGG
193 ACTCCGTATGCCTAAGTCAACCCACGAAATGAGCGTGCGGGCGCTCAGCCGACCAGAGGGGCAGG
* * * * * * *
260 ATGCAG-AAGCC-GGG---GATC----CCCCGCTGCATGCTGTTGATCTTGCT-GTAGCAACCCT
258 ATGC-GCAAGCCGGGGATCGATCGGGTCCCCCCTGCGTGCTATCGATCCTGCTACTTGCAACCCT
* * * * *
315 CGATCTGGTCCGATCTTAGACTAGGAATGCACTCCATATGCCTAAGCCAACCGACGAAATGAGCG
322 CGATCCGGTCCGATCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCGACGAAACGAGCG
* * ** *
380 GGTGGGCGGGCACTACATCGGCCAGAGAGACGGGATATGCAAGCTGTGGATCGAT-GTGGTGGTA
387 GGCGGGCGGGCACTACACCGGCCAGAGAGACGGGATGCGCAAGCCGTGGATCGATAG-GGTGGTA
* *
444 GGTGGCTTTAGGCACATCTTCATATTTCTACCATGCCAATGCCATTTTTATGGCTTGTAAATTCA
451 GGTGGGTTTAGGCACATCTTCATATTTCTGCCATGCCAATGCCATTTTTATGGCTTGTAAATTCA
* ** * * * *
509 TAAAATGACCCCTTAAGCCTTCATGTGAAGTTTCATGGGAAGACGACTCATTTTCCATTTTTCAA
516 TACAATGGTCCCTTAAGCCTTCATGTGAAGTTTCATGGCAAGACGACTCGTTTTCTATTTTTCAC
* * * *
574 GATTTTCAAAATTTTTTACGGTTTGGGATTTTTTTAAAATTTTTTCAGAAGGTGTTTTGGCCCCA
581 GATTTTTAAAACTTTTTACGGTTCGGGATTTTTTTAAAATTTTTTCAGAAGGAGTTTTGGCCCCA
* * * *
639 AACTTGGTAGACATGATCTTTGTATTTTT-TCTGGCATGCACAAAAGAATTCAGCTAAAAAATTG
646 CACTTGGTAGACATGATCCTTGTATTTTTGT-TGGCATGCACAAAA-AATTCAGCTAAAAACTCG
*
703 AAGTGTACAGGATTTTGTGACCATTTGAAAAAAGTGTCTCCATTTCAGACACTTTAATGGCTACT
709 AAGTGTACAGGATTTTGTGACCATTTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCTACT
768 GGCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTGTGAGTTCTCGAGGTTTGATGAGG
774 GGCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTGTGAGTTCTCGAGGTTTGATGAGG
*
833 GATATGGGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATCATGTGCGCAC
839 GATAGGGGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATCATGTGCGCAC
* * * * * * *
890 ACCCCGCTGCCCCCCAATCGTCGGAACCCCAATGCCGCCGGTCAAGTTCT-AGGCGATGCTCCGA
1 ACCCC-CCGCCCCCCAATCGCCGGAACCCCAATGCCGTCGGTCAGGTTCTCCGGTGATGCTTCGA
* * *
954 CGATGGTGCCCGGCGGGTGAAAAAAAATGTGGCACCAGCACTTGCCCGAGCCCAGCATTTGCACC
65 CGATGGTGCCC--CGAGTGAAAAAAAATGTGGCACCAGCACATGCCCGAGCCCAGCATGTGCACC
* * *
1019 AGCAACCCTCGGTCTGGT-TCGATCTTACACTGGGAATGAACTCCGTATGCTTAGATTGGGAATG
128 CGCAACCCTCGGTCTGATCT-GATCTTACACTGGGAATGAACTCCGTATGCTTAGACTGGGAATG
* * * *
1083 AACTCCGTATGCCTAAGTCAACCCACGAAATGAGAGTGCAGGGCACTTAGCCGCCCAGAGGGGCA
192 AACTCCGTATGCCTAAGTCAACCCACGAAATGAGCGTGC-GGGCGCTCAGCCGACCAGAGGGGCA
* * * * * * * * *
1148 GGATGCGCGAGCCAGGGATCAACCGGGTCCACCCCTGTGTGCTACCGATCCTACCA-TCGCAACC
256 GGATGCGCAAGCCGGGGATCGATCGGGTCC-CCCCTGCGTGCTATCGATCCTGCTACTTGCAACC
* * * * * *
1212 CTCGATCCAGTCTGATCTTTGGCTGGGAATGAACTCCGTATGCCTAAGCCAACCGACAAAATGAG
320 CTCGATCCGGTCCGATCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCGACGAAACGAG
* * ** *
1277 CGGGCGGGCAGGCACTACACCGGCCAGAGAGGCGGGATGCGCAAGCCGTGGATTAATAGGTTGGT
385 CGGGCGGGCGGGCACTACACCGGCCAGAGAGACGGGATGCGCAAGCCGTGGATCGATAGGGTGGT
* * *
1342 AGGTGGGTTTAGGCACATCCTCATATTTCCGCCGTGCCAATGCCA-TTTTATGGCTTGTAAATTC
450 AGGTGGGTTTAGGCACATCTTCATATTTCTGCCATGCCAATGCCATTTTTATGGCTTGTAAATTC
*
1406 ATACAATGGTCCCTTAAGCCTTCATGTGAAGTTTCATGGCAAGACAACTCGTTTTCTATTTTTCA
515 ATACAATGGTCCCTTAAGCCTTCATGTGAAGTTTCATGGCAAGACGACTCGTTTTCTATTTTTCA
* * *
1471 TGATTTTCAAAACTTTTTACGGTTCGGGATTTTTTTAAAATTTTTTCAGAAGGATTTTTGGCCCC
580 CGATTTTTAAAACTTTTTACGGTTCGGGATTTTTTTAAAATTTTTTCAGAAGGAGTTTTGGCCCC
* * * *
1536 ACACTTGGCAGACGTGATCCTTGTATTTTTGTTGGCATGCATAAAAAAGTGCAGCTAAAAACTCG
645 ACACTTGGTAGACATGATCCTTGTATTTTTGTTGGCATGCACAAAAAA-TTCAGCTAAAAACTCG
* *
1601 -AGTGTACAGGATTTTGTGACCATTTAAAAAAAATGTCCCCATTTCAGACACTTTAATGGCTACT
709 AAGTGTACAGGATTTTGTGACCATTTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCTACT
* * *
1665 GGCAGCAAAGCTGTAAAATCTCAAGTGCTCTTTAAGGGGGTGTGAGTTCTCAAGGTTTGATGAGG
774 GGCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTGTGAGTTCTCGAGGTTTGATGAGG
* * *
1730 GATAGGGAGCCAATATAAGGGCCAAGTACCAGCACCCATTGCACATCATTTGCGCAC
839 GATAGGGGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATCATGTGCGCAC
* * * *
1787 ACCCCCCGCCCCCCAATTGCCAGAACCGCAATGCCGTCGGTCAGGTTCTCCGGTGATGCTTCGAA
1 ACCCCCCGCCCCCCAATCGCCGGAACCCCAATGCCGTCGGTCAGGTTCTCCGGTGATGCTTCGAC
* * * *
1852 GATGGTGCCCCGGGTGAAAGAAAATGTGGCACCAGCAAATGCTCGAGCCCAGCATGTGCACCCGC
66 GATGGTGCCCCGAGTGAAAAAAAATGTGGCACCAGCACATGCCCGAGCCCAGCATGTGCACCCGC
* * *
1917 AACCTTTGGTCTGAT-TCGATCTTACACTAGGGAATGAACTCCATATGCTTAGACTGGGAATGAA
131 AACCCTCGGTCTGATCT-GATCTTACACT-GGGAATGAACTCCGTATGCTTAGACTGGGAATGAA
* * * * * * *
1981 CTTCGTATGCCTAAGTCAAACCA-AAAACGAGCGTGCGGGCGATCAGTCGA-CTGAAGGGGCAGG
194 CTCCGTATGCCTAAGTCAACCCACGAAATGAGCGTGCGGGCGCTCAGCCGACCAG-AGGGGCAGG
* * * * * *
2044 ATGCACAAGCCGGGGATCGGTCGGGTCCACCCCTACGTGTTGTCAATCCTGCTACTTGCAACCCT
258 ATGCGCAAGCCGGGGATCGATCGGGTCC-CCCCTGCGTGCTATCGATCCTGCTACTTGCAACCCT
* * * * *
2109 C-AGTCTGGTCTGATCTTAGACTGAGAATGAACTCCGTATACCTAAGCCAACCGATGAAACGAGC
322 CGA-TCCGGTCCGATCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCGACGAAACGAGC
** ** * * *
2173 GGGCGTACAAGCACTACACCGACCAGAGAGACGGGATGCGTAAGCCATGGATCGATAGGGTGGTA
386 GGGCGGGCGGGCACTACACCGGCCAGAGAGACGGGATGCGCAAGCCGTGGATCGATAGGGTGGTA
** * * * * *
2238 GGTGGGTTTATTCACATCTTCGTATTT-TTCCATGCCAAAGCCGTTGTTATGGCTTGTAAATTCA
451 GGTGGGTTTAGGCACATCTTCATATTTCTGCCATGCCAATGCCATTTTTATGGCTTGTAAATTCA
** *
2302 TACAATGGTCCGATAAGCCTTCATGTGAAGTTTCATGGCAAGACGACTCATTTTCTACTTTTTCA
516 TACAATGGTCCCTTAAGCCTTCATGTGAAGTTTCATGGCAAGACGACTCGTTTTCTA-TTTTTCA
* ** * * ** *
2367 CGATTTTTGAAAC-TTTTACACTTTGGGATTTTTTTAACATTTTTTCAGAAGGAGTTTTGAACCG
580 CGATTTTTAAAACTTTTTACGGTTCGGGATTTTTTTAAAATTTTTTCAGAAGGAGTTTTGGCCCC
* * *
2431 AAACTTGGTAGACATGATCCTTGTATTTTTGTTGGCATGCATAAAAAATTCAGCTAAAAACGCGA
645 ACACTTGGTAGACATGATCCTTGTATTTTTGTTGGCATGCACAAAAAATTCAGCTAAAAACTCGA
* * * *
2496 AGCGTACAGGACTTTGTGACCATTTGAAAAAAGTGTCCCCATTTTAGACACTTTAAAGGCTACTG
710 AGTGTACAGGATTTTGTGACCATTTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCTACTG
* *
2561 GAAGCAAACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTGTGAGTTCTTGAGGTTTGATGAGGG
775 GCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTGTGAGTTCTCGAGGTTTGATGAGGG
* *
2626 ATAGGGGGCCAATATAAGGGCCAAGTACCAGCACCCATCACACATCAAGTGCG--C
840 ATAGGGGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATCATGTGCGCAC
* * * *
2680 ACCCCCCGCCCCCCCAATCGCCAGAACCCCAATGCC-ACTAGTCAGGTTCTCCGATGATGC-TCT
1 ACCCCCCG-CCCCCCAATCGCCGGAACCCCAATGCCGTC-GGTCAGGTTCTCCGGTGATGCTTC-
* * ** * *
2743 GGCGATGGTGACCCGAGTGAAAAAAAATGCAGCACCAGCACATGCCCAAACCCAGCATGT-----
63 GACGATGGTGCCCCGAGTGAAAAAAAATGTGGCACCAGCACATGCCCGAGCCCAGCATGTGCACC
*
2803 C-C-A--C-C---C-G--C--A----AC-C----------CTCAGTATGCTTAGACTGGGAATGA
128 CGCAACCCTCGGTCTGATCTGATCTTACACTGGGAATGAACTCCGTATGCTTAGACTGGGAATGA
** *
2840 ACTCCGTATGCCTAAGTCAACCCACGAAACAAGCGTGCGGGCGCTCAGCCGGCCAGAGGGGCAGG
193 ACTCCGTATGCCTAAGTCAACCCACGAAATGAGCGTGCGGGCGCTCAGCCGACCAGAGGGGCAGG
* * * * *
2905 ATGCGCAAGCCGGGGATCGACCGGGTCCCCCCTGCATGCTATCGATCCTGCTGC-T-AAAACCTC
258 ATGCGCAAGCCGGGGATCGATCGGGTCCCCCCTGCGTGCTATCGATCCTGCTACTTGCAACCCTC
** *
2968 -AGTCAAGTCCAATCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCGACGAAACGAGCG
323 GA-TCCGGTCCGATCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCGACGAAACGAGCG
* * * * * *
3032 GGC-GGCGGGCACTACGCCGGCCAGAGAGACGGGATGCGCAAGTCATGGATTGAAAGGGTGGAAG
387 GGCGGGCGGGCACTACACCGGCCAGAGAGACGGGATGCGCAAGCCGTGGATCGATAGGGTGGTAG
* ** **
3096 GTGGGTTTAGGTACATCTTCATATTTCCACTGTGCCAATGCCATTTTTATGGCTTGTAAATTCAT
452 GTGGGTTTAGGCACATCTTCATATTTCTGCCATGCCAATGCCATTTTTATGGCTTGTAAATTCAT
*
3161 ACAATGGTCCCTTAAGCCTTCATGTGAAGTTTCATGGCAAGACGACTCGTTTTCTATTTTTCATG
517 ACAATGGTCCCTTAAGCCTTCATGTGAAGTTTCATGGCAAGACGACTCGTTTTCTATTTTTCACG
* * * *
3226 ATTTTTAAAACTTTTTATGGTTCGAGATTTTTTAAAAATTTTTTCAGCAGGAGTTTTGGCCCCAC
582 ATTTTTAAAACTTTTTACGGTTCGGGATTTTTTTAAAATTTTTTCAGAAGGAGTTTTGGCCCCAC
* * * *
3291 ACTTGGTAGACATGATCCTTGTATCCTTT-TCGGCATGTACAAAACAATTCAGCTAAAAACTTGA
647 ACTTGGTAGACATGATCCTTGTAT-TTTTGTTGGCATGCACAAAA-AATTCAGCTAAAAACTCGA
*
3355 AGTGTACAGGATTTTGTGACCATTTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCTATTG
710 AGTGTACAGGATTTTGTGACCATTTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCTACTG
*
3420 GCAGCAAACCTGTAAAATCTCAAATGCTTTTTAAGGGGGTGTGAGTTCTCGAGGTTTGATGAGGG
775 GCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTGTGAGTTCTCGAGGTTTGATGAGGG
* * ** *
3485 ATTGGGGGCTAATATAAGGGCCAAGTAGAAGCACCCATTGCACATCATGTGCAG-AC
840 ATAGGGGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATCATGTGC-GCAC
* * * * * *
3541 ACCCTCCTGCCCCCTAATCACCGGAACCCCAATGCCG-CAGGTTAGGTTCTCTGGTGATGC-TCC
1 ACCC-CCCGCCCCCCAATCGCCGGAACCCCAATGCCGTC-GGTCAGGTTCTCCGGTGATGCTTCG
* *
3604 AGCGATGGTGCCCCGAGCGAAAAAAAAATGTGGCACCAGCACATGCCCGAGCCAAGCATGTGCAC
64 A-CGATGGTGCCCCGAGTG-AAAAAAAATGTGGCACCAGCACATGCCCGAGCCCAGCATGTGCAC
* *
3669 CCGCAACCCTCAGTCT-AGTCTGATCTTACAC------T---CTCCGTATGCTTAGATTGGGAAT
127 CCGCAACCCTCGGTCTGA-TCTGATCTTACACTGGGAATGAACTCCGTATGCTTAGACTGGGAAT
** * ** * *
3724 GAACTCTTTATGCCGAAGTCAACCCATAAAATGAACGTGCGGGTGCTCAGCCGACCAGAGGGGCA
191 GAACTCCGTATGCCTAAGTCAACCCACGAAATGAGCGTGCGGGCGCTCAGCCGACCAGAGGGGCA
* * * * * * *
3789 GGATGCGCAAGTCGGGGATCGGTCGGGTCCCCCACTACGTGCTACCGATCTTGTTGC-TGCAACC
256 GGATGCGCAAGCCGGGGATCGATCGGGTCCCCC-CTGCGTGCTATCGATCCTGCTACTTGCAACC
* * * * *
3853 CTCGATCCGATCCAATCTTCA-ACAGGGAATGAACTCCGTATGCCTAAGCCGACCAACGAAACGA
320 CTCGATCCGGTCCGATCTT-AGACTGGGAATGAACTCCGTATGCCTAAGCCAACCGACGAAACGA
* * *
3917 GCGGGTGGGCGGGCACTACGCCGGCCAGAGAGACGGGATGCGCAAGCCGTGGATCGATATGGTGG
384 GCGGGCGGGCGGGCACTACACCGGCCAGAGAGACGGGATGCGCAAGCCGTGGATCGATAGGGTGG
*
3982 TAGGTGGGTTTAGGCACATCTTCATATTTCTGCCATGCCAGTGCCATTTTTATGGCTTGTAAATT
449 TAGGTGGGTTTAGGCACATCTTCATATTTCTGCCATGCCAATGCCATTTTTATGGCTTGTAAATT
* *
4047 CATACAATGGTCTCTTAAGCCTTCATGTGAAGTTTCATGGCAAGATGACTCGTTTTCTATTTTTC
514 CATACAATGGTCCCTTAAGCCTTCATGTGAAGTTTCATGGCAAGACGACTCGTTTTCTATTTTTC
* *
4112 ACGATTTTTGAAACTTTTTACGGTTCGGGATTTGTTTAAAATTTTTTCAGAAGGAGTTTTGGCCC
579 ACGATTTTTAAAACTTTTTACGGTTCGGGATTTTTTTAAAATTTTTTCAGAAGGAGTTTTGGCCC
4177 CACACTTGGTAGACATGATCCTTGTATTTTTGTTGGCATGCACAAAAAAATTCAGCTAAAAACTC
644 CACACTTGGTAGACATGATCCTTGTATTTTTGTTGGCATGCAC-AAAAAATTCAGCTAAAAACTC
* *
4242 AAAGTGTACAGGATTTTGTGACCATTTGAAAAAAGAGTCCCCATTTCAGACACTTTAATGGCTAC
708 GAAGTGTACAGGATTTTGTGACCATTTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCTAC
* * *
4307 TGGCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAAGGGGTGTGAGTTCTCAAGGTTTGATAAG
773 TGGCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTGTGAGTTCTCGAGGTTTGATGAG
* * *
4372 GGATAGGGGGCCAATATAAGGGCCAAGTACCAGCACCAATCACACATCATGTGTGCAC
838 GGATAGGGGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATCATGTGCGCAC
* * * * *
4430 ACCGCCCCCGCCCCCCCAATCGTCGGAGCCTCAATGCCGTTGGTCAGGTTCTCCGGCGATGCTT-
1 A-C-CCCCCG-CCCCCCAATCGCCGGAACCCCAATGCCGTCGGTCAGGTTCTCCGGTGATGCTTC
* ** * * * *
4494 TAGCGATGGTGCCCCGAGCAAAAAAAAATGCGGCACCAGCACATGTCCAAGCCCATCATGTGCAC
63 GA-CGATGGTGCCCCGAGTGAAAAAAAATGTGGCACCAGCACATGCCCGAGCCCAGCATGTGCAC
* * * **
4559 CCACAACCCTCGGT-TCAGTCTGATCTTACACTGGGAATGAACACTATATGCTTAGACTGGGAAT
127 CCGCAACCCTCGGTCTGA-TCTGATCTTACACTGGGAATGAACTCCGTATGCTTAGACTGGGAAT
* * * * * * *
4623 GAACTCCGTATGCCTATGTCTACCCACGAAACGAGCATGTGGGTGCTCAGCCGGCCAGAGGGGCA
191 GAACTCCGTATGCCTAAGTCAACCCACGAAATGAGCGTGCGGGCGCTCAGCCGACCAGAGGGGCA
*
4688 GGATGTGCAAGCCGGG
256 GGATGCGCAAGCCGGG
4704 TGTCATGAGC
Statistics
Matches: 3284, Mismatches: 439, Indels: 172
0.84 0.11 0.04
Matches are distributed among these distances:
857 90 0.03
858 227 0.07
859 188 0.06
860 66 0.02
861 120 0.04
862 41 0.01
867 1 0.00
868 1 0.00
869 1 0.00
871 2 0.00
872 3 0.00
875 1 0.00
876 1 0.00
878 1 0.00
880 2 0.00
881 1 0.00
884 2 0.00
885 1 0.00
886 106 0.03
887 39 0.01
888 102 0.03
889 611 0.19
890 105 0.03
891 64 0.02
892 1 0.00
893 14 0.00
894 179 0.05
895 551 0.17
896 109 0.03
897 204 0.06
898 191 0.06
899 258 0.08
900 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (895 bp):
ACCCCCCGCCCCCCAATCGCCGGAACCCCAATGCCGTCGGTCAGGTTCTCCGGTGATGCTTCGAC
GATGGTGCCCCGAGTGAAAAAAAATGTGGCACCAGCACATGCCCGAGCCCAGCATGTGCACCCGC
AACCCTCGGTCTGATCTGATCTTACACTGGGAATGAACTCCGTATGCTTAGACTGGGAATGAACT
CCGTATGCCTAAGTCAACCCACGAAATGAGCGTGCGGGCGCTCAGCCGACCAGAGGGGCAGGATG
CGCAAGCCGGGGATCGATCGGGTCCCCCCTGCGTGCTATCGATCCTGCTACTTGCAACCCTCGAT
CCGGTCCGATCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCGACGAAACGAGCGGGCG
GGCGGGCACTACACCGGCCAGAGAGACGGGATGCGCAAGCCGTGGATCGATAGGGTGGTAGGTGG
GTTTAGGCACATCTTCATATTTCTGCCATGCCAATGCCATTTTTATGGCTTGTAAATTCATACAA
TGGTCCCTTAAGCCTTCATGTGAAGTTTCATGGCAAGACGACTCGTTTTCTATTTTTCACGATTT
TTAAAACTTTTTACGGTTCGGGATTTTTTTAAAATTTTTTCAGAAGGAGTTTTGGCCCCACACTT
GGTAGACATGATCCTTGTATTTTTGTTGGCATGCACAAAAAATTCAGCTAAAAACTCGAAGTGTA
CAGGATTTTGTGACCATTTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCTACTGGCAGCA
AACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTGTGAGTTCTCGAGGTTTGATGAGGGATAGGG
GGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATCATGTGCGCAC
Found at i:4634 original size:26 final size:26
Alignment explanation
Indices: 4583--4635 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
4573 TCAGTCTGAT
*
4583 CTTACACTGGGAATGAACACTATATG
1 CTTACACTGGGAATGAACACCATATG
* * *
4609 CTTAGACTGGGAATGAACTCCGTATG
1 CTTACACTGGGAATGAACACCATATG
4635 C
1 C
4636 CTATGTCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (26 bp):
CTTACACTGGGAATGAACACCATATG
Found at i:14022 original size:898 final size:887
Alignment explanation
Indices: 11251--16234 Score: 6057
Period size: 898 Copynumber: 5.6 Consensus size: 887
11241 GTGCATGCCA
* * *
11251 TGGATCGATAGGGTGGTATGTGGGTTTAGGCACATCTTCATATTTCTACCGTGCCAATTCCATTT
1 TGGATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCATATTTCTACCATGCCAATGCCATTT
* * *
11316 GTATGGCTTGTAAATTCATACAACGGTCCTTTAAGCCTTCATGTGAAGTTTCATGGCAAGACGAC
66 TTATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTCATGTGAAGTTTCATGGCAAGACGAC
* * * ***
11381 TCGTTTTCTCTTTTTCACGATTTT-GAAACTTTTTACGGTTCAAGATTTTTTTTTTAATTTTTTC
131 TCGTTTTCTATTTTTCACGATTTTCAAAACTTTTTACGGTTCGAGA-TTTTTTAAAAATTTTTT-
* *
11445 AGAAGGAGTTTTGGCCCCAAACTTCGTAGACGTGATCCTTGTATTTTTGTTGGCATGCATAAAAA
194 AGAAGGAGTTTTGGCCCCAAACTTGGTAGACGTGATCCTTGTATTTTTGTTGGCATGCACAAAAA
* *
11510 AATTCAGCTAAAAACTCGAAGTGTACAAGATTTTATG-CCATTTGAAAAAAGTGTCCCCATTTCA
259 AATTCAGCTAAAAACTCGAAGTGTACAGGATTTTGTGACCATTTGAAAAAAGTGTCCCCATTTCA
* * * *
11574 GACACTTTAATTGCTACTGCCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAGAGGGAGTGAGT
324 GACACTTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTGTGAGT
*
11639 TCTTGAGGTTTGATGAGGGATAAGAGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATC
389 TCTTGAGGTTTGATGAGGGAT-AGGGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATC
* * *
11704 ATGT--GCATA-----CACCCCCCCAATCGTCGGAACCCCAATGCCGTCGGTCAGGTTCT--C--
453 ATGTGCGCACACCCCCCGCCCCCCCAATCGCCGGAACCCCAATGCCGTCGGTCAGGTTCTCGCGA
* * * **
11758 T--TACGATGGTGCCACGGGCGAAAAAAAAATGTGGCACCAGCATATGCCCGAGCCCAATATGTG
518 TGCTCCGATGGTGCCCCGGGC-AAAAAAAAATGTGGCACCAGCACATGCCCGAGCCCAGCATGTG
* * * * * * * *
11821 CACCCACAACCCTCGGTCCTGTTCGATCTTACACTGGGCATGAATTTTATATGCTTAGACCGGGA
582 CACCCGCAACCCTCGGTCCAGTCCGATCTTACACTGGGAATGAACTCTGTATGCTTAGACTGGGA
* * * * * * *
11886 ATGAAC-CCATTATGCCCAAGTCAACCCACGAAATGAGCGTGCGAGTGCTCAGCCGGCCAAAGGG
647 ATGAACTCC-GTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAGTCGGCCAGAGGG
** * ** *
11950 GCAGGATGCGCAA-CTCGGGGATCGGCTAGCTCCCCCCCTGCGTGCTGCCGATCCTGCTACCACA
711 GCAGGATGCGCAAGC-CGGGGATCGGCCGGGT-CCCCCCTGCGTGCTGCCGATCCTGCTGTCGCA
* * ** *
12014 ATCCTCAATCCAGTCTC-ATCTTAGACTGGGAATGAACTTCGTATGCCTAAGCCAACCGACGAAA
774 ACCCTCAGTCTGGTC-CGATCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCGACGAAA
* *
12078 CGAGTGGGCGGACGGGCACTACGTCGGCCAGAGAGGCAGGATGCGCAAGCCG
838 CGAG-CGGCGGGCGGGCACTACGTCGGCCAGAGAGGC-GGATGCGCAAGCCG
* * **
12130 TGGATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCGTATTTTTACTGTGCCAATGCCATTT
1 TGGATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCATATTTCTACCATGCCAATGCCATTT
*
12195 TTATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTCATGTGAGGTTTCATGGCAAGACGAC
66 TTATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTCATGTGAAGTTTCATGGCAAGACGAC
* ** *
12260 TCGTTTTCTATTTTTCATGATTTTTGAAACTTTTTACGGTTCGAGATTTTTGTAAAATTTTTTTA
131 TCGTTTTCTATTTTTCACGATTTTCAAAACTTTTTACGGTTCGAGATTTTT-TAAAAATTTTTTA
* *
12325 GAAGGAGTTTTGGCCCCAAACTTGGCAGACGTGATCCTTGTATTTTTGTTGGCATGCA-TAAAAA
195 GAAGGAGTTTTGGCCCCAAACTTGGTAGACGTGATCCTTGTATTTTTGTTGGCATGCACAAAAAA
* *
12389 ATTCAGCTAAAAACTCGAAGTGTACAGGATTTTGTGACCATTTGAAAAATGTGTCCCCATTTCGG
260 ATTCAGCTAAAAACTCGAAGTGTACAGGATTTTGTGACCATTTGAAAAAAGTGTCCCCATTTCAG
* * * * *
12454 GCACTTTAATGGCTATTGGCAGCAACCCTATAAAATCTCAAATGCTCTTTAAGGGGGTGTGGGTT
325 ACACTTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTGTGAGTT
* * * *
12519 CTTGAGTTTTGATAACGGATAGGGGCCAATATAAGGGCCAAGTACCAGCTCCCATCGCACATCAT
390 CTTGAGGTTTGATGAGGGATAGGGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATCAT
* * * * * *
12584 GTGCGCACAACCCCCC-ACCCCCCAATCGTCAGAACCCCAATGTCGCCGGTCAGGTTTTTCGACG
455 GTGCGCAC-ACCCCCCGCCCCCCCAATCGCCGGAACCCCAATGCCGTCGGTCAGG-TTCTCG-CG
* * * ** * *
12648 ATGCTCCCGCGATGGTGCCCCGGGCGAAAAACAATGTGGCACCAGCAAATGATCAAGCCTAGCAT
517 ATGCT--C-CGATGGTGCCCCGGGCAAAAAAAAATGTGGCACCAGCACATGCCCGAGCCCAGCAT
* * * * *
12713 GTGCACCCGTAACCCTCGGTCCGGTCCGATCTTACACTAGGAATGAACTCTGTATGATTAGATTG
579 GTGCACCCGCAACCCTCGGTCCAGTCCGATCTTACACTGGGAATGAACTCTGTATGCTTAGACTG
*
12778 GGAATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTACGGGCGCTCAGTCGGCCAGAG
644 GGAATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAGTCGGCCAGAG
* * * * * * * * *
12843 GGACAGGATGCACAAGCTGGGGATCGACCGAGTCCCCCCTGCATGCTGTCGATCCTACTGTGGCA
709 GGGCAGGATGCGCAAGCCGGGGATCGGCCGGGTCCCCCCTGCGTGCTGCCGATCCTGCTGTCGCA
* * * * *
12908 ACCCTCAGTCTGATCTGATCTTAGACTGGGAATGAACTCCGTATGCCTAAACCAACTGACCAAAC
774 ACCCTCAGTCTGGTCCGATCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCGACGAAAC
* * * *
12973 GAGCGGGCGGGCGGGCACTACGCCGACCAGAGAGGCGGGATGCGTAAGCCA
839 GAGC-GGCGGGCGGGCACTACGTCGGCCAGAGAGGC-GGATGCGCAAGCCG
*
13024 TGGATC-ATTAGGGTGGTAGGTGGGTTTAGGCACATCTTCATATTTATACCATGCCAATGCCATT
1 TGGATCGA-TAGGGTGGTAGGTGGGTTTAGGCACATCTTCATATTTCTACCATGCCAATGCCATT
** * * *
13088 TTTATGGCTTGTAAATTCATACAATCATCCCTTAAGCCTTCATGTGAAGTTTCATGGGAAGGCAA
65 TTTATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTCATGTGAAGTTTCATGGCAAGACGA
* * *
13153 CTCGTTTTCTATTTTTCTCGACTTTCAAAACTTTTTACGGTTCGAGATTTTTTAAAAATTTTTCA
130 CTCGTTTTCTATTTTTCACGATTTTCAAAACTTTTTACGGTTCGAGATTTTTTAAAAATTTTTTA
* * * *
13218 GAAGGA-TTTTTGCCGTCAAACTTGGTAGATGTGATCCTTGTATTTTTTTTTGGCATGCACAAAA
195 GAAGGAGTTTTGGCC-CCAAACTTGGTAGACGTGATCCTTGTA-TTTTTGTTGGCATGCACAAAA
*
13282 AAATTCAGCTAAGAACTCGAAGTGTACAGGATTTTGTGACCATTTGAAAAAAGTGTCCCCATTTC
258 AAATTCAGCTAAAAACTCGAAGTGTACAGGATTTTGTGACCATTTGAAAAAAGTGTCCCCATTTC
* * *
13347 AGACACTTTAATGGCTACTGGCAGCAAACCTGCAAAATCACAAATGCTCTTTAAGGTGGTGTGAG
323 AGACACTTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTGTGAG
* * *
13412 TTCTTAAGGTTTGATGAGGGATAGTGGGCAAATATAAAGGCCAAGTACCAGCACCCATCGCACAT
388 TTCTTGAGGTTTGATGAGGGATAG-GGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACAT
* * *
13477 CATGTTCGCACACCCCCCGCCCCCCCAATCACCGGAACTCCAATGCCGTCGGTCAGGTTCTCCGG
452 CATGTGCGCACACCCCCCGCCCCCCCAATCGCCGGAACCCCAATGCCGTCGGTCAGGTTCT-C-G
* *
13542 TGATGCTCCGGTAATGGTGCCCCGAGCAAAAAAAAAATGTGGCACCAGCACATGCCCGAGCCCAG
515 CGATGCTCC-G--ATGGTGCCCCGGGC-AAAAAAAAATGTGGCACCAGCACATGCCCGAGCCCAG
*
13607 CATGTGCGCCCGCAACCCTCGGTCCAGTCCGATCTTACACTGGGAATGAACTCTGTATGCTTAGA
576 CATGTGCACCCGCAACCCTCGGTCCAGTCCGATCTTACACTGGGAATGAACTCTGTATGCTTAGA
* *
13672 CTGGGAATGAACTCCGTCTGCCTAAGTCAACCCACGAAACGAGCGTGTGGGCGCTCAG-CAGGCC
641 CTGGGAATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAGTC-GGCC
* * *
13736 TGAGGGGCAGGATGCGCAAGCCGGGGATTGGCCGGGTCCCCCCCTACGTGCTGCCGATCCTGCTG
705 AGAGGGGCAGGATGCGCAAGCCGGGGATCGGCCGGGT-CCCCCCTGCGTGCTGCCGATCCTGCTG
* * * *
13801 TCGCAACCCTCAATCTGGTCCGATCTTAGATTGGGAATGAACTCCGTATGCATAAGCCAACCGAT
769 TCGCAACCCTCAGTCTGGTCCGATCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCGAC
* * * * *
13866 GAAACAAGCGGACGGGCGGGAACTACGTCGGCCTGAGAGACGGTATGCGCAGGCCG
834 GAAACGAGCGG-CGGGCGGGCACTACGTCGGCCAGAGAGGCGG-ATGCGCAAGCCG
* * *
13922 TGGATCGATAGGGTGGTAGGTGGGTTTCA-GCACATCTTCACATTTCTACCATGTCAATACCATT
1 TGGATCGATAGGGTGGTAGGTGGGTTT-AGGCACATCTTCATATTTCTACCATGCCAATGCCATT
* *
13986 TTTATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTCATGTCAAGTTTCATGGCAAGATGA
65 TTTATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTCATGTGAAGTTTCATGGCAAGACGA
** **
14051 CTCGTTTTCTATTTTTCACGATTTTTGAAACTTTTTAAAGTTC-AGAATTTTTTAAAAATTTTTT
130 CTCGTTTTCTATTTTTCACGATTTTCAAAACTTTTTACGGTTCGAG-ATTTTTTAAAAA-TTTTT
* * * * *
14115 TAGAAGGAGTTTTGACCCCAAACTTGGAACATGTGATCCTTGTATTTTTTTTGGCATGCACAAAA
193 TAGAAGGAGTTTTGGCCCCAAACTTGGTAGACGTGATCCTTGTATTTTTGTTGGCATGCACAAAA
* * * *
14180 AAATTCAGCTAAAAACTTGAAGTGTATAGGATTTTGTGACCATTTGAAAAAATTGTCCCTATTTC
258 AAATTCAGCTAAAAACTCGAAGTGTACAGGATTTTGTGACCATTTGAAAAAAGTGTCCCCATTTC
* *
14245 AGACACCTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCAAATTCTCTTTAAGGGGGTGTGAG
323 AGACACTTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTGTGAG
* * *
14310 TTCTTGAGATTTGATGAGGGATAGGGGGCCAATATAAGGGCCAAGTACTAGCATCCATCGCACAT
388 TTCTTGAGGTTTGATGAGGGATA-GGGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACAT
*
14375 CATGTGCGCACACTACCCCAATCGCACATCATGTTCACACACCCCCCCACCCCCATAATCGTCGG
452 CATGTGCG--CAC-A--CC---C-C-C--C--G-------------CC-CCCCC--AATCGCCGG
* * * *
14440 AACCCCAATGCCGTCTGTCAGGTTCTTG-GA---T--GATGGTGCCCCGGGCGAAAAAAAATATG
487 AACCCCAATGCCGTCGGTCAGGTTCTCGCGATGCTCCGATGGTGCCCCGGGCAAAAAAAAATGTG
* * * ** * *
14499 GCA-CAGCACATGCTCGAGCCCAACATTTTTACCCGCAACCTTCGGTCCAATCCGATCTTACACT
552 GCACCAGCACATGCCCGAGCCCAGCATGTGCACCCGCAACCCTCGGTCCAGTCCGATCTTACACT
* * *
14563 GGGAATGAACTCTGTATGCTTAGACTGGGAATGAACTCTGTATGCCTAAGTCAACCCATGAAATG
617 GGGAATGAACTCTGTATGCTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCACGAAACG
* * * * * *
14628 AGCGTGAGGGCGCTCAGTCGACCAAAGGGGCAGGATGCGCAAGCCAGGGATCAGCTGGGTCCCCC
682 AGCGTGCGGGCGCTCAGTCGGCCAGAGGGGCAGGATGCGCAAGCCGGGGATCGGCCGGGTCCCCC
* * * * ** * * * *
14693 TTACGTGCTGTCGATCCTGGTG-CTGCAACCCTTGGTCCGATTCGATCTTAGATTGGGAATGAAC
747 CTGCGTGCTGCCGATCCTGCTGTC-GCAACCCTCAGTCTGGTCCGATCTTAGACTGGGAATGAAC
* * * * *
14757 TCCGTATTCCTAAGCCAACCAACGAAATGAGCGCGCGGGCGGGCACTATGCCGGCCAGAGAGGCG
811 TCCGTATGCCTAAGCCAACCGACGAAACGAGCG-GCGGGCGGGCACTACGTCGGCCAGAGAGGCG
*
14822 AGATGCGCAAGTCG
875 -GATGCGCAAGCCG
* *
14836 TGGATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCTTATTTCT-GCATGCCAATGCCATTT
1 TGGATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCATATTTCTACCATGCCAATGCCATTT
* *
14900 TTATGGCTTCTAAATTCATACGATGGTCCCTTAAGCCTTCATGTGAAGTTTCATGGCAAGACGAC
66 TTATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTCATGTGAAGTTTCATGGCAAGACGAC
* * * * *
14965 TCGTTCTCTATTTTTCATGATTTTCAAAACTTTTTACAGTTTGGGATTTTTTAAAAATTTTTTGA
131 TCGTTTTCTATTTTTCACGATTTTCAAAACTTTTTACGGTTCGAGATTTTTTAAAAATTTTTT-A
* * * *
15030 AAAGGAGTTTTGGCCCCAAACTTGATAGACGTGATCCTTGTA-TTTTATTGGCATGCACCAAAAA
195 GAAGGAGTTTTGGCCCCAAACTTGGTAGACGTGATCCTTGTATTTTTGTTGGCATGCACAAAAAA
* *
15094 ATTCAGCTAAAAACTCAAAGTGTACAGGATTTTGTGACAATTTGAAAAAAGTGTCCCCATTTCAG
260 ATTCAGCTAAAAACTCGAAGTGTACAGGATTTTGTGACCATTTGAAAAAAGTGTCCCCATTTCAG
* * *
15159 ACAGTTTAATGGCTACAGGCAGCAAACCTGTAAAATCTCAGATGCTCTTTAAGGGGGTGTGAGTT
325 ACACTTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTGTGAGTT
* * * *
15224 CTCGAGGCTTGATGAGGGATAGAGGGCCAATATAAGGGCCAAGTACCAGCATCCATCACACATCA
390 CTTGAGGTTTGATGAGGGATAG-GGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATCA
* * *
15289 TGTGCGCACACCACCCCG--------ATTGCCGAAACCCCAATGCCGCCGGTCAGGTTCTCCGAC
454 TGTGCGCACACC-CCCCGCCCCCCCAATCGCCGGAACCCCAATGCCGTCGGTCAGGTTCT-CG-C
* * * * * * * * *
15346 AATTCTCCGAAAATGGTGCCCCGGGTGAAAAAAAAATGCGACAGCAGCACCTGCCTGAGCCTAGC
516 GATGCTCCG---ATGGTGCCCCGGG-CAAAAAAAAATGTGGCACCAGCACATGCCCGAGCCCAGC
* ** * * *
15411 ATGTGCACCCAG-AACCCCCAATCC-GATCTGATCTTACACTAGGAATGAACTCCGTATGCTTAG
577 ATGTGCACCC-GCAACCCTCGGTCCAG-TCCGATCTTACACTGGGAATGAACTCTGTATGCTTAG
* * * *
15474 ACTGGGAATGAACTCTGTATGCCTAAGTCAACCCATGAAACGAGTGTGTGGGCGCTCAGTCGGCC
640 ACTGGGAATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAGTCGGCC
* * * * * * * * * * *
15539 AGAGGGGTAGCATGCGTAAACCGAGGATCGACCGGGTCCCCCCTGCATGCTACCAATCCTACTAT
705 AGAGGGGCAGGATGCGCAAGCCGGGGATCGGCCGGGTCCCCCCTGCGTGCTGCCGATCCTGCTGT
* * ** *
15604 TGTAACCCTTGGTCTGGTCTGA-CATTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCGAC
770 CGCAACCCTCAGTCTGGTCCGATC-TTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCGAC
* * * * * * *
15668 GAAATGAGCGGCCGGTGGGCATTACGTCGGTCAGAGAGACGGGATGCACAAGCCG
834 GAAACGAGCGGCGGGCGGGCACTACGTCGGCCAGAGAGGC-GGATGCGCAAGCCG
* * **
15723 TGGATCGATAGGGTGGTAGGTGGCTTTAGGCACATCTTCATATTTCTGCTGTGCCAATGCCATTT
1 TGGATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCATATTTCTACCATGCCAATGCCATTT
15788 TTATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTCATGTGAAGTTTCATGGCAAGACGAC
66 TTATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTCATGTGAAGTTTCATGGCAAGACGAC
* * *
15853 TCGTTTTCTATTTTTCACGATTTTCAAAACTTTTTACGGTTTGGGATTTTTTTAAAATTTTTTTA
131 TCGTTTTCTATTTTTCACGATTTTCAAAACTTTTTACGGTTCGAGA-TTTTTTAAAAATTTTTTA
** * *
15918 GAAGGAGTTTTTTCCCCACACTTGGTAGACATGATCCTTGTATTTTTGTTGGCATGCACAAAAAA
195 GAAGGAGTTTTGGCCCCAAACTTGGTAGACGTGATCCTTGTATTTTTGTTGGCATGCACAAAAAA
* * * *
15983 ATTCAGCTAAAAACTTGAAGTGTATAGGATTTTGTGACCATTTGAAAAAAAGTATCCTCATTTC-
260 ATTCAGCTAAAAACTCGAAGTGTACAGGATTTTGTGACCATTTG-AAAAAAGTGTCCCCATTTCA
** * *
16047 GAACACTTTAATGGCTACTCACAGCAAACCTGTAAAATCTCAAATGCTCTTTAAAGGGGAGTGAG
324 G-ACACTTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTGTGAG
** * * *
16112 TTCTCAAAGTTTGATGAGGGATAGGAGGCCAATATAAAGGCCAAGTACCAGCACCCATCGTACAT
388 TTCTTGAGGTTTGATGAGGGATAGG-GGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACAT
* *
16177 CATGTGCGCACACCCCCCGGCCCCCCTCAATCGTCGGAACCCCAATGCCATCGGTCAG
452 CATGTGCGCACACCCCCC-GCCCCCC-CAATCGCCGGAACCCCAATGCCGTCGGTCAG
16235 AACGCTCGCT
Statistics
Matches: 3537, Mismatches: 448, Indels: 220
0.84 0.11 0.05
Matches are distributed among these distances:
875 29 0.01
876 1 0.00
878 85 0.02
879 304 0.09
880 31 0.01
881 2 0.00
883 1 0.00
885 34 0.01
886 17 0.00
887 92 0.03
888 392 0.11
889 84 0.02
890 144 0.04
891 1 0.00
892 7 0.00
893 44 0.01
894 303 0.09
895 313 0.09
896 117 0.03
897 185 0.05
898 487 0.14
899 64 0.02
900 9 0.00
901 2 0.00
903 3 0.00
904 1 0.00
905 1 0.00
906 1 0.00
907 3 0.00
908 1 0.00
909 1 0.00
910 4 0.00
911 1 0.00
912 210 0.06
913 162 0.05
914 164 0.05
915 166 0.05
916 15 0.00
917 13 0.00
919 1 0.00
922 1 0.00
925 4 0.00
926 6 0.00
928 31 0.01
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (887 bp):
TGGATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCATATTTCTACCATGCCAATGCCATTT
TTATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTCATGTGAAGTTTCATGGCAAGACGAC
TCGTTTTCTATTTTTCACGATTTTCAAAACTTTTTACGGTTCGAGATTTTTTAAAAATTTTTTAG
AAGGAGTTTTGGCCCCAAACTTGGTAGACGTGATCCTTGTATTTTTGTTGGCATGCACAAAAAAA
TTCAGCTAAAAACTCGAAGTGTACAGGATTTTGTGACCATTTGAAAAAAGTGTCCCCATTTCAGA
CACTTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAGGGGGTGTGAGTTC
TTGAGGTTTGATGAGGGATAGGGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATCATG
TGCGCACACCCCCCGCCCCCCCAATCGCCGGAACCCCAATGCCGTCGGTCAGGTTCTCGCGATGC
TCCGATGGTGCCCCGGGCAAAAAAAAATGTGGCACCAGCACATGCCCGAGCCCAGCATGTGCACC
CGCAACCCTCGGTCCAGTCCGATCTTACACTGGGAATGAACTCTGTATGCTTAGACTGGGAATGA
ACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAGTCGGCCAGAGGGGCAGG
ATGCGCAAGCCGGGGATCGGCCGGGTCCCCCCTGCGTGCTGCCGATCCTGCTGTCGCAACCCTCA
GTCTGGTCCGATCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCGACGAAACGAGCGGC
GGGCGGGCACTACGTCGGCCAGAGAGGCGGATGCGCAAGCCG
Found at i:14422 original size:29 final size:29
Alignment explanation
Indices: 14366--14423 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
14356 ACTAGCATCC
* *
14366 ATCGCACATCATGTGCGCACACTACCCCA
1 ATCGCACATCATGTGCACACACCACCCCA
* *
14395 ATCGCACATCATGTTCACACACCCCCCCA
1 ATCGCACATCATGTGCACACACCACCCCA
14424 CCCCCATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.28, C:0.45, G:0.10, T:0.17
Consensus pattern (29 bp):
ATCGCACATCATGTGCACACACCACCCCA
Found at i:14584 original size:26 final size:26
Alignment explanation
Indices: 14555--14607 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
14545 CCAATCCGAT
14555 CTTACACTGGGAATGAACTCTGTATG
1 CTTACACTGGGAATGAACTCTGTATG
*
14581 CTTAGACTGGGAATGAACTCTGTATG
1 CTTACACTGGGAATGAACTCTGTATG
14607 C
1 C
14608 CTAAGTCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (26 bp):
CTTACACTGGGAATGAACTCTGTATG
Found at i:15472 original size:26 final size:26
Alignment explanation
Indices: 15443--15495 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
15433 CCGATCTGAT
15443 CTTACACTAGGAATGAACTCCGTATG
1 CTTACACTAGGAATGAACTCCGTATG
* * *
15469 CTTAGACTGGGAATGAACTCTGTATG
1 CTTACACTAGGAATGAACTCCGTATG
15495 C
1 C
15496 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTACACTAGGAATGAACTCCGTATG
Found at i:20306 original size:26 final size:26
Alignment explanation
Indices: 20255--20307 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
20245 CTGATTTGAT
*
20255 CTTACACTGGGAATGAACTCTGTATG
1 CTTACACTGGGAATGAACTCTATATG
*
20281 CTTAGACTGGGAATGAACTGC-ATATG
1 CTTACACTGGGAATGAACT-CTATATG
20307 C
1 C
20308 CTAAGTGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTACACTGGGAATGAACTCTATATG
Done.