Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold918
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: 28275
ACGTcount: A:0.23, C:0.31, G:0.28, T:0.18
Found at i:1059 original size:418 final size:410
Alignment explanation
Indices: 263--1065 Score: 1088
Period size: 418 Copynumber: 2.0 Consensus size: 410
253 CACTCAGCCC
* **
263 GGGCGCGATCCATGCCAGGCGCATGGAGCGCAATCCCCGAC-GGCCAACCGGCAGGACGAACCCA
1 GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGG-CAACCGGCAGGACGTGCCCA
* * * *
327 GCGTTGCCGATGCAAGGGCCGCGAGACTGCCCCTGCTCGAGGGGCAACGGCCAGGCCAAGCCCGC
65 CCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGAGGGGC-ATGGCCAGGCCAAGCCCTC
* * * * *
392 ACCTGCAGCATCTGC-CTGCACCACAACCGGGACCATCCACTCGA--A-T-TC--GAGAAC-TTG
129 ACCTGCAGCTTCTGCGC-GCGCCACAACCGGGACCCTCTACTCGATTATTGTCTGGAG-TCGTTG
** * * * * * *
449 GCAGCATCACCGCAGGAGCAAGCCTAACCTTCCGGCACGACCACGCCCCGT-TACCCACACACGC
192 GCAGCATCGGCGCAGGTGCGAGCTTAACCTTCCGGCAGGACCACGCCCCATCTCCCCACACACGC
* * * * * *
513 GTGCCAAGCGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGC
257 GGGCCAACCGATCGAGCACGTGGTGACCGGGGACCTCACCACGGATCACTTGGACCGCGTAGGGC
* *
578 CTTCATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGA
322 CTCCATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCACGACCTGGA
*
643 TTTTAATCGAGAGGGACACTGCCG
387 TTTCAATCGAGAGGGACACTGCCG
667 GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCAC
1 GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCAC
*
732 CGTTGCCGATGCAAGGGCCACGAGACTGCCCTTGCTCGAGGGGCATGGCCAGGCCAAGCCCTCAC
66 CGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGAGGGGCATGGCCAGGCCAAGCCCTCAC
797 CTGCAGCTTCTGCGCGCGCCACAACCGGGACCCTCTACTCGATTAGGGGGCTTGGTCCTGGAGTC
131 CTGCAGCTTCTGCGCGCGCCACAACCGGGACCCTCTACTCGATTA------TT-GT-CTGGAGTC
* *
862 GTTGGCGGCATCGGCGCAGGTGCGAGCTTAACCTTCCGGCAGGACCACGCCTCATCTCCCCACAC
188 GTTGGCAGCATCGGCGCAGGTGCGAGCTTAACCTTCCGGCAGGACCACGCCCCATCTCCCCACAC
* * *
927 ACGCGGGCCAACCGATCGAGCACATGGTGACCGGGGACCTCGCCACGGATCACTTGGACCGCGAA
253 ACGCGGGCCAACCGATCGAGCACGTGGTGACCGGGGACCTCACCACGGATCACTTGGACCGCGTA
*
992 GGGCCTCCATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCAT-GCATGAC
318 GGGCCTCCATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGC-TCGCACGAC
1056 CTGGATTTCA
382 CTGGATTTCA
1066 CACGAGGCAA
Statistics
Matches: 344, Mismatches: 36, Indels: 24
0.85 0.09 0.06
Matches are distributed among these distances:
403 55 0.16
404 101 0.29
405 3 0.01
412 1 0.00
414 1 0.00
415 1 0.00
416 1 0.00
417 48 0.14
418 132 0.38
419 1 0.00
ACGTcount: A:0.21, C:0.36, G:0.30, T:0.13
Consensus pattern (410 bp):
GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCAC
CGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGAGGGGCATGGCCAGGCCAAGCCCTCAC
CTGCAGCTTCTGCGCGCGCCACAACCGGGACCCTCTACTCGATTATTGTCTGGAGTCGTTGGCAG
CATCGGCGCAGGTGCGAGCTTAACCTTCCGGCAGGACCACGCCCCATCTCCCCACACACGCGGGC
CAACCGATCGAGCACGTGGTGACCGGGGACCTCACCACGGATCACTTGGACCGCGTAGGGCCTCC
ATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCACGACCTGGATTTC
AATCGAGAGGGACACTGCCG
Found at i:2284 original size:418 final size:403
Alignment explanation
Indices: 263--5054 Score: 2342
Period size: 403 Copynumber: 11.5 Consensus size: 403
253 CACTCAGCCC
* **
263 GGGCGCGATCCATGCCAGGCGCATGGAGCGCAATCCCCGAC-GGCCAACCGGCAGGACGAACCCA
1 GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGG-CAACCGGCAGGACGTGCCCA
* * * * *
327 GCGTTGCCGATGCAAGGGCCGCGAGACTGCCCCTGCTCGAGGGGCAACGGCCAGGCCAAGCCCGC
65 CCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGC-ATGGCCAGGCCAAGCCCTC
* * * * *
392 ACCTGCAGCATCTGC-CTGCACCACAACCGGGACCATCC-ACTCGAATTCGAGAACTTGGCAGCA
129 ACCTGCAGCTTCTGCGC-GCGCCACAACCGGGA-CAACCTACTCGAATTCGGGAACTTGGCAGAA
* * * * *
455 TCACCGCAGGAGCAAGCCTAACCTTCCGGCACGACCACGCCCCGTTACCCACACACGCGTGCCAA
192 TCACCGCAGGTGCGAGCCTTACCTTCCGGCACGACCACGCCCCATTACCCACACACGCGGGCCAA
* * * *
520 GCGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGCCTTCATC
257 ACGATCGAGCACGTAGCGACCGGGGACCTCACCACGGATCACTTGGACCGCGTAGGGCCTCCATC
* *
585 ACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAAT
322 ACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCACGACCTGGATTTCAAT
650 CGAGAGGGACACTGCCG
387 CGAGAGGGACACTGCCG
667 GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCAC
1 GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCAC
* *
732 CGTTGCCGATGCAAGGGCCACGAGACTGCCCTTGCTCGAGGGGCATGGCCAGGCCAAGCCCTCAC
66 CGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGCCAGGCCAAGCCCTCAC
* * *
797 CTGCAGCTTCTGCGCGCGCCACAACCGGGAC-CCTCTACTCGATTAGGGGGCTTGGTCCTGGAGT
131 CTGCAGCTTCTGCGCGCGCCACAACCGGGACAAC-CTACTCGA--A-------T--T-CGGGA-A
* * ** * * *
861 CGTTGGCGGCATCGGCGCAGGTGCGAG-CTTAACCTTCCGGCAGGACCACGCCTCATCTCCCCAC
182 C-TTGGCAGAATCACCGCAGGTGCGAGCCTT-ACCTTCCGGCACGACCACGCCCCAT-TACCCAC
* * * * *
925 ACACGCGGGCCAACCGATCGAGCACATGGTGACCGGGGACCTCGCCACGGATCACTTGGACCGCG
244 ACACGCGGGCCAAACGATCGAGCACGTAGCGACCGGGGACCTCACCACGGATCACTTGGACCGCG
* *
990 AAGGGCCTCCATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCAT-GCATG
309 TAGGGCCTCCATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGC-TCGCACG
** **
1054 ACCTGGATTTCACA-CGAG-GCAACTGTGGCCG
373 ACCTGGATTTCA-ATCGAGAGGGACACT-GCCG
* * * * ** * *
1085 GGGCTC-ACACCAAGCCAGGCACATGGTGCAAGACCCTCCCC-AC---C-CCTCGG-AGGGAAGG
1 GGGCGCGA-ACCATGCCAGGCGCATGGAGC--G-CAATCCCCGACAGGCAAC-CGGCA-GG-A-C
** * * * * * * * *
1143 GTGGGCAGGGCG-CGCACCATG-AAGAGCACACG-G-C-G-CGC-GCCCTGATGGGTA-GG--GG
58 GTGCCCA--CCGTTGC-CGATGCAAGGGC-CACGAGACTGCCCCTGCCC-GAGGGGCATGGCCAG
*** * ** * * * * ***** * *
1198 GCCAA-AAAT-A--TGGAATTGTCTGAAAGTGGGACAC-TTTTTGACAAGTACC-ATTAGAATAT
118 GCCAAGCCCTCACCTGCAGCT-TCTG--CGCGCGCCACAACCGGGAC-A--ACCTACTCG-A-AT
**** * * * * * **
1257 ATATATATATATATGTGTA-AATCCAAGGGGCCACAATCGATGGGAGGACC--ACGC--AAGGCA
175 -TCGGGA-A-CT-TG-GCAGAAT-C-A----CCGC-A--GGTGCGA-G-CCTTAC-CTTCCGGCA
**** * * * * ** *
1317 CCGGGTGCGCGCCC--TGCCCACACCCGGATGGGTGCGGACG--CG-GCACGCAGAATCCCAGGC
223 -CGACCACGC-CCCATTACCCACACAC-G-CGGG-CCAAACGATCGAGCACGTAG-----C--G-
* * * * *
1377 ACCGGGTGCGCGACCTGCCCTTCGCGGAATAAGCCATGAGGGCC-CG-AGGGCCTCGC--CA-CG
275 ACC--G-G-G-GACCT-CAC--CACGG-ATCA--C-T-TGGACCGCGTAGGGCCTC-CATCACCG
* * * *** * * *
1437 GATCGCTTGG-A-CC-G---CGGAGGGTCCCCGTCACCGC-A-GCTGGGCACGACCTGGATTTCA
326 CA--GCTGGGCATCCGGTCACCGA-AAACCACG--ATCGCAAGGCT-CGCACGACCTGGATTTCA
1494 ATCGAGAGGGACACTCTGCCG
385 ATCGAGAGGGACA--CTGCCG
* * * * * * *
1515 GGGCGCGACCCGTGCGAGGAACAGGAACATCGAGCACAATCCCCGACAGGCAACCGGCAAGACGA
1 GGGCGCGAACCATGCCAGG--C--G--CATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGT
* * *
1580 GCCCACCGTTGCCGATGCAAGGGCCGCGAGACTGCCCCTGCTCGAGGGGCAATGGCCAGGCCACG
60 GCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGC-ATGGCCAGGCCAAG
*
1645 CCCTCACCTGCAGCATCTGC-CAGCGCCACAACCGGGACAACCTACTCGAATTCGGGAACTTGGC
124 CCCTCACCTGCAGCTTCTGCGC-GCGCCACAACCGGGACAACCTACTCGAATTCGGGAACTTGGC
* * *
1709 AGAATCACCGCAGGTGCGAGCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCACACACGCGTG
188 AGAATCACCGCAGGTGCGAGCCTTACCTTCCGGCACGACCACGCCCCATTACCCACACACGCGGG
* * *
1774 CCAAACGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTC
253 CCAAACGATCGAGCACGTAGCGACCGGGGACCTCACCACGGATCACTTGGACCGCGTAGGGCCTC
*
1839 CATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTT
318 CATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCACGACCTGGATTT
*
1904 TAATCGAGAGGGACACTGCCG
383 CAATCGAGAGGGACACTGCCG
1925 GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCAC
1 GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCAC
* *
1990 CGTTGCCGATGCAAGGGCCACGAGACTGCCCTTGCTCGAGGGGCATGGCCAGGCCAAGCCCTCAC
66 CGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGCCAGGCCAAGCCCTCAC
* * *
2055 CTGCAGCTTCTGCGCGCGCCACAACCGGGAC-CCTCTACTCGATTAGGGGGCTTGGTCCTGGAGT
131 CTGCAGCTTCTGCGCGCGCCACAACCGGGACAAC-CTACTCGA--A-------T--T-CGGGA-A
* * ** * * *
2119 CGTTGGCGGCATCGGCGCAGGTGCGAG-CTTAACCTTCCGGCAGGACCACGCCTCATCTCCCCAC
182 C-TTGGCAGAATCACCGCAGGTGCGAGCCTT-ACCTTCCGGCACGACCACGCCCCAT-TACCCAC
* * * * *
2183 ACACGCGGGCCAACCGATCGAGCACATGGTGACCGGGGACCTCGCCACGGATCACTTGGACCGCG
244 ACACGCGGGCCAAACGATCGAGCACGTAGCGACCGGGGACCTCACCACGGATCACTTGGACCGCG
* *
2248 AAGGGCCTCCATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCAT-GCATG
309 TAGGGCCTCCATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGC-TCGCACG
** **
2312 ACCTGGATTTCACA-CGAG-GCAACTGTGGCCG
373 ACCTGGATTTCA-ATCGAGAGGGACACT-GCCG
* * * * ** * *
2343 GGGCTC-ACACCAAGCCAGGCACATGGTGCAAGACCCTCCCC-AC---C-CCTCGG-AGGGAAGG
1 GGGCGCGA-ACCATGCCAGGCGCATGGAGC--G-CAATCCCCGACAGGCAAC-CGGCA-GG-A-C
** * * * * * * * *
2401 GTGGGCAGGGCG-CGCACCATG-AAGAGCACACG-G-C-G-CGC-GCCCTGATGGGTA-GG--GG
58 GTGCCCA--CCGTTGC-CGATGCAAGGGC-CACGAGACTGCCCCTGCCC-GAGGGGCATGGCCAG
*** * ** * * * * ***** * *
2456 GCCAA-AAAT-A--TGGAATTGTCTGAAAGTGGGACAC-TTTTTGACAAGTACC-ATTAGAATAT
118 GCCAAGCCCTCACCTGCAGCT-TCTG--CGCGCGCCACAACCGGGAC-A--ACCTACTCG-A-AT
**** * * * * * **
2515 ATATATATATATATGTGTA-AATCCAAGGGGCCACAATCGATGGGAGGACC--ACGC--AAGGCA
175 -TCGGGA-A-CT-TG-GCAGAAT-C-A----CCGC-A--GGTGCGA-G-CCTTAC-CTTCCGGCA
**** * * * * ** *
2575 CCGGGTGCGCGCCC--TGCCCACACCCGGATGGGTGCGGACG--CG-GCACGCAGAATCCCAGGC
223 -CGACCACGC-CCCATTACCCACACAC-G-CGGG-CCAAACGATCGAGCACGTAG-----C--G-
* * * * *
2635 ACCGGGTGCGCGACCTGCCCTTCGCGGAATAAGCCATGAGGGCC-CG-AGGGCCTCGC--CA-CG
275 ACC--G-G-G-GACCT-CAC--CACGG-ATCA--C-T-TGGACCGCGTAGGGCCTC-CATCACCG
* * * *** * * *
2695 GATCGCTTGG-A-CC-G---CGGAGGGTCCCCGTCACCGC-A-GCTGGGCACGACCTGGATTTCA
326 CA--GCTGGGCATCCGGTCACCGA-AAACCACG--ATCGCAAGGCT-CGCACGACCTGGATTTCA
2752 ATCGAGAGGGACACTCTGCCG
385 ATCGAGAGGGACA--CTGCCG
* * * * * * *
2773 GGGCGCGACCCGTGCGAGGAACAGGAACATCGAGCACAATCCCCGACAGGCAACCGGCAAGACGA
1 GGGCGCGAACCATGCCAGG--C--G--CATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGT
* * *
2838 GCCCACCGTTGCCGATGCAAGGGCCGCGAGACTGCCCCTGCTCGAGGGGCAATGGCCAGGCCACG
60 GCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGC-ATGGCCAGGCCAAG
*
2903 CCCTCACCTGCAGCATCTGC-CAGCGCCACAACCGGGACAACCTACTCGAATTCGGGAACTTGGC
124 CCCTCACCTGCAGCTTCTGCGC-GCGCCACAACCGGGACAACCTACTCGAATTCGGGAACTTGGC
* * *
2967 AGAATCACCGCAGGTGCGAGCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCACACACGCGTG
188 AGAATCACCGCAGGTGCGAGCCTTACCTTCCGGCACGACCACGCCCCATTACCCACACACGCGGG
* * *
3032 CCAAACGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTC
253 CCAAACGATCGAGCACGTAGCGACCGGGGACCTCACCACGGATCACTTGGACCGCGTAGGGCCTC
*
3097 CATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTT
318 CATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCACGACCTGGATTT
*
3162 TAATCGAGAGGGACACTGCCG
383 CAATCGAGAGGGACACTGCCG
*
3183 GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCAGACAGGCAACCGGCAGGACGTGCCCAC
1 GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCAC
3248 CGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGCCAGGCCAAGCCCTCAC
66 CGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGCCAGGCCAAGCCCTCAC
* *
3313 CTGCAGCTTCTGCCCACGCCACAACCGGGACAACCTACTCGAATTCGGGAACTTGGCAGAATCAC
131 CTGCAGCTTCTGCGCGCGCCACAACCGGGACAACCTACTCGAATTCGGGAACTTGGCAGAATCAC
* * *
3378 CGCAGGTGCGAGCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCACACACGCGTGCCAAACGA
196 CGCAGGTGCGAGCCTTACCTTCCGGCACGACCACGCCCCATTACCCACACACGCGGGCCAAACGA
* * *
3443 TCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCACCG
261 TCGAGCACGTAGCGACCGGGGACCTCACCACGGATCACTTGGACCGCGTAGGGCCTCCATCACCG
* *
3508 CAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATCGAG
326 CAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCACGACCTGGATTTCAATCGAG
3573 AGGGACACTGCCG
391 AGGGACACTGCCG
3586 GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCAC
1 GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCAC
3651 CGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGCCAGGCCAAGCCCTCAC
66 CGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGCCAGGCCAAGCCCTCAC
* * *
3716 CTGCAGCTTCTGCGCGCGCCACAACCGGGAC-CCTCTACTCGATTAGGGGGCTTGGTCCTGGAGT
131 CTGCAGCTTCTGCGCGCGCCACAACCGGGACAAC-CTACTCGA--A-------T--T-CGGGA-A
* * ** * * *
3780 CGTTGGCGGCATCGGCGCAGGTGCGAG-CTTAACCTTCCGGCAGGACCACGCCTCATCTCCCCAC
182 C-TTGGCAGAATCACCGCAGGTGCGAGCCTT-ACCTTCCGGCACGACCACGCCCCAT-TACCCAC
* * * * *
3844 ACACGCGGGCCAACCGATCGAGCACATGGTGACCGGGGACCTCGCCACGGATCACTTGGACCGCG
244 ACACGCGGGCCAAACGATCGAGCACGTAGCGACCGGGGACCTCACCACGGATCACTTGGACCGCG
* *
3909 AAGGGCCTCCATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCAT-GCATG
309 TAGGGCCTCCATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGC-TCGCACG
** **
3973 ACCTGGATTTCACA-CGAG-GCAACTGTGGCCG
373 ACCTGGATTTCA-ATCGAGAGGGACACT-GCCG
* * * * ** * *
4004 GGGCTC-ACACCAAGCCAGGCACATGGTGCAAGACCCTCCCC-AC---C-CCTCGG-AGGGAAGG
1 GGGCGCGA-ACCATGCCAGGCGCATGGAGC--G-CAATCCCCGACAGGCAAC-CGGCA-GG-A-C
** * * * * * * * *
4062 GTGGGCAGGGCG-CGCACCATG-AAGAGCACACG-G-C-G-CGC-GCCCTGATGGGTA-GG--GG
58 GTGCCCA--CCGTTGC-CGATGCAAGGGC-CACGAGACTGCCCCTGCCC-GAGGGGCATGGCCAG
*** * ** * * * * ***** * *
4117 GCCAA-AAAT-A--TGGAATTGTCTGAAAGTGGGACAC-TTTTTGACAAGTACC-ATTAGAATAT
118 GCCAAGCCCTCACCTGCAGCT-TCTG--CGCGCGCCACAACCGGGAC-A--ACCTACTCG-A-AT
**** * * * * * **
4176 ATATATATATATATGTGTA-AATCCAAGGGGCCACAATCGATGGGAGGACC--ACGC--AAGGCA
175 -TCGGGA-A-CT-TG-GCAGAAT-C-A----CCGC-A--GGTGCGA-G-CCTTAC-CTTCCGGCA
**** * * * * ** *
4236 CCGGGTGCGCGCCC--TGCCCACACCCGGATGGGTGCGGACG--CG-GCACGCAGAATCCCAGGC
223 -CGACCACGC-CCCATTACCCACACAC-G-CGGG-CCAAACGATCGAGCACGTAG-----C--G-
* * * * *
4296 ACCGGGTGCGCGACCTGCCCTTCGCGGAATAAGCCATGAGGGCC-CG-AGGGCCTCGC--CA-CG
275 ACC--G-G-G-GACCT-CAC--CACGG-ATCA--C-T-TGGACCGCGTAGGGCCTC-CATCACCG
* * * *** * * *
4356 GATCGCTTGG-A-CC-G---CGGAGGGTCCCCGTCACCGC-A-GCTGGGCACGACCTGGATTTCA
326 CA--GCTGGGCATCCGGTCACCGA-AAACCACG--ATCGCAAGGCT-CGCACGACCTGGATTTCA
4413 ATCGAGAGGGACACTCTGCCG
385 ATCGAGAGGGACA--CTGCCG
* * * * * * *
4434 GGGCGCGACCCGTGCGAGGAACAGGAACATCGAGCACAATCCCCGACAGGCAACCGGCAAGACGA
1 GGGCGCGAACCATGCCAGG--C--G--CATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGT
* * *
4499 GCCCACCGTTGCCGATGCAAGGGCCGCGAGACTGCCCCTGCTCGAGGGGCAATGGCCAGGCCACG
60 GCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGC-ATGGCCAGGCCAAG
*
4564 CCCTCACCTGCAGCATCTGC-CAGCGCCACAACCGGGACAACCTACTCGAATTCGGGAACTTGGC
124 CCCTCACCTGCAGCTTCTGCGC-GCGCCACAACCGGGACAACCTACTCGAATTCGGGAACTTGGC
* * *
4628 AGAATCACCGCAGGTGCGAGCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCACACACGCGTG
188 AGAATCACCGCAGGTGCGAGCCTTACCTTCCGGCACGACCACGCCCCATTACCCACACACGCGGG
* * *
4693 CCAAACGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTC
253 CCAAACGATCGAGCACGTAGCGACCGGGGACCTCACCACGGATCACTTGGACCGCGTAGGGCCTC
*
4758 CATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTT
318 CATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCACGACCTGGATTT
*
4823 TAATCGAGAGGGACACTGCCG
383 CAATCGAGAGGGACACTGCCG
4844 GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCAC
1 GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCAC
4909 CGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGCCAGGCCAAGCCCTCAC
66 CGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGCCAGGCCAAGCCCTCAC
* *
4974 CTGCAGCTTCTGCCCACGCCACAACCGGGACAACCTACTCGAATTCGGGAACTTGGCAGAATCAC
131 CTGCAGCTTCTGCGCGCGCCACAACCGGGACAACCTACTCGAATTCGGGAACTTGGCAGAATCAC
5039 CGCAGGTGCGAGCCTT
196 CGCAGGTGCGAGCCTT
5055 GCGATCGCGC
Statistics
Matches: 3265, Mismatches: 670, Indels: 907
0.67 0.14 0.19
Matches are distributed among these distances:
401 1 0.00
402 4 0.00
403 659 0.20
404 349 0.11
405 14 0.00
406 30 0.01
407 21 0.01
408 42 0.01
409 9 0.00
410 102 0.03
411 39 0.01
412 108 0.03
413 93 0.03
414 78 0.02
415 62 0.02
416 60 0.02
417 184 0.06
418 498 0.15
419 33 0.01
420 39 0.01
421 57 0.02
422 3 0.00
423 3 0.00
424 21 0.01
425 24 0.01
426 69 0.02
427 87 0.03
428 66 0.02
429 45 0.01
430 72 0.02
431 15 0.00
432 45 0.01
433 60 0.02
434 51 0.02
435 30 0.01
436 27 0.01
437 39 0.01
438 24 0.01
439 12 0.00
440 12 0.00
441 24 0.01
442 21 0.01
443 12 0.00
444 12 0.00
445 9 0.00
ACGTcount: A:0.22, C:0.34, G:0.30, T:0.13
Consensus pattern (403 bp):
GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCAC
CGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGCCAGGCCAAGCCCTCAC
CTGCAGCTTCTGCGCGCGCCACAACCGGGACAACCTACTCGAATTCGGGAACTTGGCAGAATCAC
CGCAGGTGCGAGCCTTACCTTCCGGCACGACCACGCCCCATTACCCACACACGCGGGCCAAACGA
TCGAGCACGTAGCGACCGGGGACCTCACCACGGATCACTTGGACCGCGTAGGGCCTCCATCACCG
CAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCACGACCTGGATTTCAATCGAG
AGGGACACTGCCG
Found at i:5355 original size:358 final size:358
Alignment explanation
Indices: 4698--5414 Score: 1434
Period size: 358 Copynumber: 2.0 Consensus size: 358
4688 GCGTGCCAAA
4698 CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
1 CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
4763 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
66 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
4828 GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
131 GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
4893 GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGC
196 GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGC
4958 CAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACAACCTACTCGAATTCGGG
261 CAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACAACCTACTCGAATTCGGG
5023 AACTTGGCAGAATCACCGCAGGTGCGAGCCTTG
326 AACTTGGCAGAATCACCGCAGGTGCGAGCCTTG
5056 CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
1 CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
5121 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
66 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
5186 GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
131 GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
5251 GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGC
196 GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGC
5316 CAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACAACCTACTCGAATTCGGG
261 CAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACAACCTACTCGAATTCGGG
5381 AACTTGGCAGAATCACCGCAGGTGCGAGCCTTG
326 AACTTGGCAGAATCACCGCAGGTGCGAGCCTTG
5414 C
1 C
5415 CTTCCGGCAG
Statistics
Matches: 359, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
358 359 1.00
ACGTcount: A:0.21, C:0.35, G:0.30, T:0.13
Consensus pattern (358 bp):
CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGC
CAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACAACCTACTCGAATTCGGG
AACTTGGCAGAATCACCGCAGGTGCGAGCCTTG
Found at i:6189 original size:403 final size:403
Alignment explanation
Indices: 5056--6336 Score: 2054
Period size: 402 Copynumber: 3.2 Consensus size: 403
5046 GCGAGCCTTG
5056 CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
1 CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
5121 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
66 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
5186 GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
131 GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
*
5251 GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGC
196 GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGAGGGGCATGGC
* *
5316 CAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACAACCTACTCGAATTCGGG
261 CAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACTACCAACTCGAATTCGGG
5381 AACTTGGCAGAATCACCGCAGGTGCGAGCCTTGCCTTCCGGCA-GACCACGCCCCGTTACCCGCA
326 AACTTGGCAGAATCACCGCAGGTGCGAGCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCGCA
5445 CACGCGTGCCAAA
391 CACGCGTGCCAAA
5458 CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
1 CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
5523 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
66 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
5588 GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
131 GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
5653 GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGAGGGGCATGGC
196 GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGAGGGGCATGGC
* *
5718 CAGGCCAAGCCCTCACCTGCAGCCTCTGCCCACGCCACAACCGGGACTACCGACTCGAATTCGGG
261 CAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACTACCAACTCGAATTCGGG
*
5783 AACTTGGCAGCATCACCGCAGGTGCGAGCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCGCA
326 AACTTGGCAGAATCACCGCAGGTGCGAGCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCGCA
*
5848 CACGCGTGCCAAC
391 CACGCGTGCCAAA
* * ** * *
5861 CGATCGCGCACGCAGAGACCGACGGCCTCACCACGGATCACTTGGACCGCGAAGGGTC-CCGTCA
1 CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
* * * *
5925 CCGCAGCTGGGCATCCGGCCACCGAAAACCACGATCGCAAGGCACGCGCGACCTGGATCTTAACC
66 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
* * * * *
5990 GAGAGGGACACTCTGCCGGGGCGCGATCAATGCCAGGCGCATCGAGCACAATCCCCGACAGACAA
131 GAGAGGGACA--CTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAA
* * * *
6055 CCGGCGGGACGAGCCCACCGTTGCCGAAGCAAGGGCCGCGAGACTGCCCCTGCTC-ACGGGGCAT
194 CCGGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGA-GGGGCAT
6119 GGCCAGGCCAAGCCC-CACCTGCAGCTTCTGCCCACGCCACAACCGGGACTACCAACTCGAATTC
258 GGCCAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACTACCAACTCGAATTC
* * * * *
6183 GGGAACTTGGCAGAATCAGCGCAGGTG-GAAG-CTTAACCCTACGGCACGACCACGCCCCTTGTG
323 GGGAACTTGGCAGAATCACCGCAGGTGCG-AGCCTT-GCCTTCCGGCACGACCACGCCCC--GTT
* * **
6246 CCCCACACACGCGTGCCATG
384 ACCCGCACACGCGTGCCAAA
* * ** * *
6266 CGATCG-GCAGCATACGGCGACCGGGGACCTTGCCACGGATCACCTGGACCGCGCAGGGTCTCCA
1 CGATCGCGCA-CGTA--GCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCA
6330 TCACCGC
63 TCACCGC
6337 GACAAGGTTT
Statistics
Matches: 819, Mismatches: 48, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
402 443 0.54
403 181 0.22
404 124 0.15
405 26 0.03
407 36 0.04
408 9 0.01
ACGTcount: A:0.21, C:0.37, G:0.29, T:0.12
Consensus pattern (403 bp):
CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGAGGGGCATGGC
CAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACTACCAACTCGAATTCGGG
AACTTGGCAGAATCACCGCAGGTGCGAGCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCGCA
CACGCGTGCCAAA
Found at i:7498 original size:103 final size:101
Alignment explanation
Indices: 7346--7534 Score: 297
Period size: 103 Copynumber: 1.9 Consensus size: 101
7336 CGGCCCGGGG
*
7346 GCGCCCTTCCCGCCCCCGTGGTGGGGGCGGCCGGGGCGCACACCACGCGGAGCGCCGGTGCGCGC
1 GCGCCCTTCCCGCCCCCGGGGTGGGGGCGGCCGGGGCGCACACCACGCGGAGCGCCGGTGCGCGC
7411 CTCGCCCACCCTCGGGTGCGGCCAGGAGCACGGTGC
66 CTCGCCCACCCTCGGGTGCGGCCAGGAGCACGGTGC
* * * *
7447 GCGCCCTTCCCGCCCCCTGGGGTGGGGGGCGGTCGGGGCGCCCACCTCGCGGGGCGCCGGTGCGC
1 GCGCCCTTCCCGCCCCC-GGGGT-GGGGGCGGCCGGGGCGCACACCACGCGGAGCGCCGGTGCGC
* *
7512 GCCTCGCCCGCCCTCTGGTGCGG
64 GCCTCGCCCACCCTCGGGTGCGG
7535 GCGGCCGCGG
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 17 0.22
102 4 0.05
103 58 0.73
ACGTcount: A:0.05, C:0.43, G:0.42, T:0.11
Consensus pattern (101 bp):
GCGCCCTTCCCGCCCCCGGGGTGGGGGCGGCCGGGGCGCACACCACGCGGAGCGCCGGTGCGCGC
CTCGCCCACCCTCGGGTGCGGCCAGGAGCACGGTGC
Found at i:7774 original size:64 final size:64
Alignment explanation
Indices: 7695--7816 Score: 199
Period size: 64 Copynumber: 1.9 Consensus size: 64
7685 CGTTTGGTTG
*
7695 GGGGGGAGGGACGGATGCTGGGGAGGGACTCGTTGCGCACGCTTGGCCCTCCGCATGTTAGAGA
1 GGGGGGAGGGACGGATGCTGGGGAGGGACTCGTTGCCCACGCTTGGCCCTCCGCATGTTAGAGA
* * * *
7759 GGGGGGAGGGCCGGATGGTTGGGAGGGACTCGTTGCCCACGCTTGGGCCTCCGCATGT
1 GGGGGGAGGGACGGATGCTGGGGAGGGACTCGTTGCCCACGCTTGGCCCTCCGCATGT
7817 GCTATCGGTG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.18
Consensus pattern (64 bp):
GGGGGGAGGGACGGATGCTGGGGAGGGACTCGTTGCCCACGCTTGGCCCTCCGCATGTTAGAGA
Found at i:8324 original size:102 final size:102
Alignment explanation
Indices: 8155--8341 Score: 315
Period size: 102 Copynumber: 1.8 Consensus size: 102
8145 GGCCAGGTGC
* *
8155 ACGGTGCGCGCCCTGCCCGCCCCCTGGTGTGGGGGCGGTCGGGGCGCACACCATGCGGAGCACCG
1 ACGGTGCGCGCCCTGCCCGCCCCCTGGGGTGGGGGCGGGCGGGGCGCACACCATGCGGAGCACCG
8220 GTGCGCGCCTCGCCCACCCTCGGCTGCGGGCGGGAGA
66 GTGCGCGCCTCGCCCACCCTCGGCTGCGGGCGGGAGA
*
8257 ACGGTGCGCGCCCAT-CCCGCCCCCTGGGGTCGGGGGCGGGCGGGGCGCACGCCATGCGGAGCA-
1 ACGGTGCGCGCCC-TGCCCGCCCCCTGGGGT-GGGGGCGGGCGGGGCGCACACCATGCGGAGCAC
8320 CGGTGCGCGCCTCGCCCACCCT
64 CGGTGCGCGCCTCGCCCACCCT
8342 GGGGGGTGCG
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
102 49 0.61
103 31 0.39
ACGTcount: A:0.09, C:0.41, G:0.41, T:0.10
Consensus pattern (102 bp):
ACGGTGCGCGCCCTGCCCGCCCCCTGGGGTGGGGGCGGGCGGGGCGCACACCATGCGGAGCACCG
GTGCGCGCCTCGCCCACCCTCGGCTGCGGGCGGGAGA
Found at i:8412 original size:64 final size:62
Alignment explanation
Indices: 8252--8427 Score: 168
Period size: 64 Copynumber: 2.8 Consensus size: 62
8242 GCTGCGGGCG
* ** *
8252 GGAGAACGGTGCGCGCCCATCCCGCCCCCTGGGGT-CGGGGGCGG-GCGGGGCGCACGCCATGC
1 GGAGCACGGTGCGCGCCC-TCCCGCCCCCTGGGGTGC-GGGGCGGCGCGGCACGCACGCCAGGC
*
8314 GGAGCACGGTGCGCG-CCTCGCC-CACCCTGGGGGGTGCGGGGCGGCCGCGGCACGCAC-CC-GG
1 GGAGCACGGTGCGCGCCCTC-CCGCCCCCT--GGGGTGCGGGGCGG-CGCGGCACGCACGCCAGG
8375 CC
62 -C
8377 AGGAGCACGGTGCGCGCCCTTCCCGCCCCCTGGGGTG-GGGGCGGTCGCGGC
1 -GGAGCACGGTGCGCGCCC-TCCCGCCCCCTGGGGTGCGGGGCGG-CGCGGC
8428 GCACACCGTG
Statistics
Matches: 96, Mismatches: 7, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
60 7 0.07
61 4 0.04
62 27 0.28
63 17 0.18
64 30 0.31
65 4 0.04
66 7 0.07
ACGTcount: A:0.08, C:0.39, G:0.45, T:0.09
Consensus pattern (62 bp):
GGAGCACGGTGCGCGCCCTCCCGCCCCCTGGGGTGCGGGGCGGCGCGGCACGCACGCCAGGC
Found at i:8505 original size:819 final size:811
Alignment explanation
Indices: 6684--8591 Score: 2339
Period size: 819 Copynumber: 2.3 Consensus size: 811
6674 GCGCGCGCAA
* * *** * *
6684 CGCCCGCCCTCGGGTGCGGACGGCCGCGGCACCCGCA-AAAGCCACGAGCATGGTGCGCGCCCTT
1 CGCCCACCCTCGGGTGCGGGCGGCCGCGGCA--CGCACCCGGCCAGGAGCACGGTGCGCGCCCTT
* * * * ** *
6748 CCCGCCCCC-AGGGTGGGAGCGGTCGGGGCGCGCACCATGCGGCGCAATGGGTGCGCACCCTTGC
64 CCCGCCCCCTGGGGTGGGGGCGGTCGGGGCGCACACC-TG-GGGGCACCGGGTGCGCACCGTTGC
* * *
6812 CGGGGTACCCAACCGACCGATGCAACGGTAAGGGACGAACACGTTTGGAGAGGGGAGGGACAGAT
127 CGGGGTACCCAACCGACCGACGCAACGCTAAGGGACGAACACGTTTGGAGAGGGGAGGGACGGAT
* * *
6877 GCCGGGGAGGGACTCGTTGCACACGCTCGGCCCTACGCATGCTTGGAGGGGGGAGGGACGGATGC
192 GCCGGGGAGGGACTCGTTGCGCACGCTTGGCCCTCCGCATGCTTGGAGGGGGGAGGGACGGATGC
*
6942 TTGGGGAGGGACTCGTTGCACACGCGTGGGCCTCCGCATGTGCTATCGGTGCCGAATTCGGGGTC
257 TTGGGGAGGGACTCGTTGCACACGCGTGGGCCTCCGCATGTGCTATCGGTGCCGAATTCGCGGTC
*
7007 GTCGGCACCGTCGCCGGAGCACCGCCGGAGAACCTGACCGGCGGTGGGGGGGAGCCCCGGCGAAT
322 CTCGGCACCGT----------CCGCCGGAGAACCTGACCGGCGGTGGGGGGGAGCCCCGGCGAA-
* *
7072 GGGGGAGGGGTGTGGGCGACGGCACGCGATGGGTGCAGGGTGGCAGCCCCGCAGGGCACCCCACT
376 -GGGGAGCGGTGT----G--GGCACGCGACGGGTGCAGGGTGGCAGCCCCGCAGGGCACCCCACT
* * * **
7137 GCCCCCCCCCTTGGTTGCTCAAGTATCACACCCCCTATAGAGCTTAAGATGGATTTCTTTGTTGT
434 G-CCCCCCCCTAGGTTGCTCAAGTATCACACCCCCTATAGAGCTTAAGAGGGATTTCTATGCCGT
* * * *
7202 CACCAGTGGAGGTGCCCACGTTCGAAACAGGGACAGTTTTTCTCCCGCACCGAGGGTGGGCCGAG
498 CACCAGCGGAAGTGACCACGTTCGAAACAGGGACAGTTTTTCTCCCGCACCGAGGGTGGGCCAAG
* * * *
7267 ACCCCACCACCTCGGGCACCCGGTGCGCGCCACGCCCACCCTCGGGTGCGCGGGGCCGAGGCTCG
563 ACCCCACCACCTCGGGCACCCGGCGCGCGCCACGCCCACCCTCGGGCGCGCGGGGCCGAGGCACA
* *
7332 CACCCGGCCCGGGGGCGCCCTTCCCGCCCCCGTGGTGGGGGCGGCCGGGGCGCACACCACGCGGA
628 CACCCGGCCCGGGCGCGCCCTGCCCGCCCCCGTGGTGGGGGCGGCCGGGGCGCACACCACGCGGA
* * * *
7397 GCGCCGGTGCGCGCCTCGCCCACCCTCGGGTGCGGCCAGGAGCACGGTGCGCGCCCTTCCCGCCC
693 GCACCGGTGCGCGCCTCGCCCACCCTCGGCTGCGGCCAGGAGAACGGTGCGCGCCCATCCCGCCC
* * * * *
7462 CCTGGGGTGGGGGGCGGTCGGGGCGCCCACCTCGCGGGGCGCCGGTGCGCGCCT
758 CCTGGGGTCGGGGGCGGGCGGGGCGCACACCTCGCGGAGCGACGGTGCGCGCCT
* * * * * *
7516 CGCCCGCCCTCTGGTGCGGGCGGCCGCGGCACGGACCCGGGCGGGAGCACGGGGCGCGCCCTTCC
1 CGCCCACCCTCGGGTGCGGGCGGCCGCGGCACGCACCCGGCCAGGAGCACGGTGCGCGCCCTTCC
*
7581 CGCCCCCTGGGGTGGGGGCGGTCGGGGCGCACACCTCGCGGGGCACCGGGTGCGCACCGTTGTCG
66 CGCCCCCTGGGGTGGGGGCGGTCGGGGCGCACACCT-G-GGGGCACCGGGTGCGCACCGTTGCCG
* *
7646 GGGTACCCAACCGACCGACGCAACGCTAAGGGACGAACACGTTTGGTTGGGGGGGAGGGACGGAT
129 GGGTACCCAACCGACCGACGCAACGCTAAGGGACGAACACGTTTGG--AGAGGGGAGGGACGGAT
* *
7711 GCTGGGGAGGGACTCGTTGCGCACGCTTGGCCCTCCGCATG-TTAGAGAGGGGGGAGGGCCGGAT
192 GCCGGGGAGGGACTCGTTGCGCACGCTTGGCCCTCCGCATGCTT-G-GAGGGGGGAGGGACGGAT
* * *
7775 GGTT-GGGAGGGACTCGTTGCCCACGCTTGGGCCTCCGCATGTGCTATCGGTGCCGAATTCGCGG
255 GCTTGGGGAGGGACTCGTTGCACACGCGTGGGCCTCCGCATGTGCTATCGGTGCCGAATTCGCGG
*
7839 TCCTCGGCACCGT-CGCCGGAGAACCTGACCGGCGGT-GGGGGGAGCCCCGGCG-A-GTG-GCGG
320 TCCTCGGCACCGTCCGCCGGAGAACCTGACCGGCGGTGGGGGGGAGCCCCGGCGAAGGGGAGCGG
* * *
7899 -GT-GGCACGCGACGGGTGCTGGGTGGCAGCCCCGCGGGGCACCCCCAGTG-CCCCCCCTAGGTT
385 TGTGGGCACGCGACGGGTGCAGGGTGGCAGCCCCGCAGGGCA-CCCCACTGCCCCCCCCTAGGTT
*
7961 GCTCAAGTATCACACCCCCTATAGAGCTTAAG-GGGCATTTCATAT-CCGTTACCAGCGGACAG-
449 GCTCAAGTATCACACCCCCTATAGAGCTTAAGAGGG-ATTTC-TATGCCGTCACCAGCGGA-AGT
* * * *
8023 GACCACGTTCGAAACAGGGTCGGTTTTTCTGCCGCACCTAGGGT-GGCGCAAG-CCCGCACCACC
511 GACCACGTTCGAAACAGGGACAGTTTTTCTCCCGCACCGAGGGTGGGC-CAAGACCC-CACCACC
* * *
8086 TCGGGCAGCCGGCGCGCGCCTCGCCCACCCTCGGGCGCG-GGCGGCCGAGGCACACCCCCGGCCA
574 TCGGGCACCCGGCGCGCGCCACGCCCACCCTCGGGCGCGCGG-GGCCGAGGCACACACCCGG-C-
* *
8150 GGTGCACGGTGCGCGCCCTGCCCGCCCCC-TGGTGTGGGGGCGGTCGGGGCGCACACCATGCGGA
636 ----C-CGG-GCGCGCCCTGCCCGCCCCCGT-G-GTGGGGGCGGCCGGGGCGCACACCACGCGGA
* *
8214 GCACCGGTGCGCGCCTCGCCCACCCTCGGCTGCGGGCGGGAGAACGGTGCGCGCCCATCCCGCCC
693 GCACCGGTGCGCGCCTCGCCCACCCTCGGCTGCGGCCAGGAGAACGGTGCGCGCCCATCCCGCCC
*
8279 CCTGGGGTCGGGGGCGGGCGGGGCGCACGCCAT-GCGGAGC-ACGGTGCGCGCCT
758 CCTGGGGTCGGGGGCGGGCGGGGCGCACACC-TCGCGGAGCGACGGTGCGCGCCT
*
8332 CGCCCACCCTGGGGGGTGCGGGGCGGCCGCGGCACGCACCCGGCCAGGAGCACGGTGCGCGCCCT
1 CGCCCACCCT--CGGGTGC-GGGCGGCCGCGGCACGCACCCGGCCAGGAGCACGGTGCGCGCCCT
* *
8397 TCCCGCCCCCTGGGGTGGGGGCGGTCGCGGCGCACACCGTGGGGAGCACCGGGTGCGCACAGTTG
63 TCCCGCCCCCTGGGGTGGGGGCGGTCGGGGCGCACACC-TGGGG-GCACCGGGTGCGCACCGTTG
* * * *
8462 CCGGGGTACCCAACCGACCGGCGCAACGCTAAGGGAAGAACACGTTCGGAGCGGGGAGGGACGGA
126 CCGGGGTACCCAACCGACCGACGCAACGCTAAGGGACGAACACGTTTGGAGAGGGGAGGGACGGA
* ** * * *
8527 TGGCCGGGGGAGGGACTCGTTGCGCATGCGTTGG-CCTCCGCCCGTTTGGTGTGGGGAGGGACGG
191 T-GCC-GGGGAGGGACTCGTTGCGCACGC-TTGGCCCTCCGCATGCTTGGAGGGGGGAGGGACGG
8591 A
253 A
8592 CGGCCTATGT
Statistics
Matches: 943, Mismatches: 99, Indels: 82
0.84 0.09 0.07
Matches are distributed among these distances:
807 10 0.01
808 159 0.17
809 39 0.04
810 7 0.01
814 1 0.00
815 4 0.00
816 41 0.04
817 139 0.15
818 27 0.03
819 174 0.18
820 7 0.01
821 1 0.00
822 16 0.02
823 23 0.02
830 3 0.00
831 29 0.03
832 120 0.13
833 2 0.00
834 121 0.13
835 20 0.02
ACGTcount: A:0.13, C:0.34, G:0.40, T:0.13
Consensus pattern (811 bp):
CGCCCACCCTCGGGTGCGGGCGGCCGCGGCACGCACCCGGCCAGGAGCACGGTGCGCGCCCTTCC
CGCCCCCTGGGGTGGGGGCGGTCGGGGCGCACACCTGGGGGCACCGGGTGCGCACCGTTGCCGGG
GTACCCAACCGACCGACGCAACGCTAAGGGACGAACACGTTTGGAGAGGGGAGGGACGGATGCCG
GGGAGGGACTCGTTGCGCACGCTTGGCCCTCCGCATGCTTGGAGGGGGGAGGGACGGATGCTTGG
GGAGGGACTCGTTGCACACGCGTGGGCCTCCGCATGTGCTATCGGTGCCGAATTCGCGGTCCTCG
GCACCGTCCGCCGGAGAACCTGACCGGCGGTGGGGGGGAGCCCCGGCGAAGGGGAGCGGTGTGGG
CACGCGACGGGTGCAGGGTGGCAGCCCCGCAGGGCACCCCACTGCCCCCCCCTAGGTTGCTCAAG
TATCACACCCCCTATAGAGCTTAAGAGGGATTTCTATGCCGTCACCAGCGGAAGTGACCACGTTC
GAAACAGGGACAGTTTTTCTCCCGCACCGAGGGTGGGCCAAGACCCCACCACCTCGGGCACCCGG
CGCGCGCCACGCCCACCCTCGGGCGCGCGGGGCCGAGGCACACACCCGGCCCGGGCGCGCCCTGC
CCGCCCCCGTGGTGGGGGCGGCCGGGGCGCACACCACGCGGAGCACCGGTGCGCGCCTCGCCCAC
CCTCGGCTGCGGCCAGGAGAACGGTGCGCGCCCATCCCGCCCCCTGGGGTCGGGGGCGGGCGGGG
CGCACACCTCGCGGAGCGACGGTGCGCGCCT
Found at i:16969 original size:418 final size:409
Alignment explanation
Indices: 16173--16975 Score: 1070
Period size: 418 Copynumber: 2.0 Consensus size: 409
16163 CACTCAGCCC
* **
16173 GGGCGCGATCCATGCCAGGCGCATGGAGCGCAATCCCCGAC-GGCCAACCGGCAGGACGAACCCA
1 GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGG-CAACCGGCAGGACGTGCCCA
* * * *
16237 GCGTTGCCGATGCAAGGGCCGCGAGACTGCCCCTGCTCGAGGGGCAACGGCCAGGCCAAGCCCGC
65 CCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGAGGGGC-ATGGCCAGGCCAAGCCCTC
* * * * * *
16302 ACCTGCAGCATCTGC-CTGCACCACAACCGGGACCATCCACTCGA--AT-TC--GAGAAC-TTGG
129 ACCTGCAGCTTCTGCGCAGCGCCACAACCGGGACCCTCTACTCGATTATGTCTGGAG-TCGTTGG
* * * * * * *
16360 CAGCATCACCGCAGGAGCAAGCCTAACCTTCCGGCACGACCACGCCCCGT-TACCCACACACGCG
193 CAGCATCAGCGCAGGTGCGAGCTTAACCTTCCGGCAGGACCACG-CCCATCTCCCCACACACGCG
* * * * * * * *
16424 TGCCAAGCGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGCC
257 GGCCAACCGATCGAGCACATGGTGACCGGGGACCTCACCACGGATCACTTGGACCGCGAAGGGCC
* *
16489 TTCATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGAT
322 TCCATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCACGACCTGGAT
*
16554 TTTAATCGAGAGGGACACTGCCG
387 TTCAATCGAGAGGGACACTGCCG
16577 GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCAC
1 GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCAC
*
16642 CGTTGCCGATGCAAGGGCCACGAGACTGCCCTTGCTCGAGGGGCATGGCCAGGCCAAGCCCTCAC
66 CGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGAGGGGCATGGCCAGGCCAAGCCCTCAC
16707 CTGCAGCTTCTGCGC-GCGCCACAACCGGGACCCTCTACTCGATTAGGGGGCTTGGTCCTGGAGT
131 CTGCAGCTTCTGCGCAGCGCCACAACCGGGACCCTCTACTCGATTA-------T-GT-CTGGAGT
* *
16771 CGTTGGCGGCATCGGCGCAGGTGCGAGCTTAACCTTCCGGCAGGACCACGCCTCATCTCCCCACA
187 CGTTGGCAGCATCAGCGCAGGTGCGAGCTTAACCTTCCGGCAGGACCACGCC-CATCTCCCCACA
*
16836 CACGCGGGCCAACCGATCGAGCACATGGTGACCGGGGACCTCGCCACGGATCACTTGGACCGCGA
251 CACGCGGGCCAACCGATCGAGCACATGGTGACCGGGGACCTCACCACGGATCACTTGGACCGCGA
*
16901 AGGGCCTCCATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCAT-GCATGA
316 AGGGCCTCCATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGC-TCGCACGA
16965 CCTGGATTTCA
380 CCTGGATTTCA
16976 CACGAGGCAA
Statistics
Matches: 344, Mismatches: 35, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
403 55 0.16
404 101 0.29
405 3 0.01
412 1 0.00
414 1 0.00
415 1 0.00
416 3 0.01
417 46 0.13
418 132 0.38
419 1 0.00
ACGTcount: A:0.21, C:0.36, G:0.30, T:0.13
Consensus pattern (409 bp):
GGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCAC
CGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGAGGGGCATGGCCAGGCCAAGCCCTCAC
CTGCAGCTTCTGCGCAGCGCCACAACCGGGACCCTCTACTCGATTATGTCTGGAGTCGTTGGCAG
CATCAGCGCAGGTGCGAGCTTAACCTTCCGGCAGGACCACGCCCATCTCCCCACACACGCGGGCC
AACCGATCGAGCACATGGTGACCGGGGACCTCACCACGGATCACTTGGACCGCGAAGGGCCTCCA
TCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCACGACCTGGATTTCA
ATCGAGAGGGACACTGCCG
Found at i:18251 original size:414 final size:404
Alignment explanation
Indices: 16186--19299 Score: 1308
Period size: 404 Copynumber: 7.5 Consensus size: 404
16176 CGCGATCCAT
* ** *
16186 GCCAGGCGCATGGAGCGCAATCCCCGAC-GGCCAACCGGCAGGACGAACCCAGCGTTGCCGATGC
1 GCCAGGCACATGGAGCGCAATCCCCGACAGG-CAACCGGCAGGACGTGCCCACCGTTGCCGATGC
* * * *
16250 AAGGGCCGCGAGACTGCCCCTGCTCGAGGGGCAACGGCCAGGCCAAGCCCGCACCTGCAGCATCT
65 AAGGGCCACGAGACTGCCCCTGCCCGAGGGGCAATGGCCAGGCCAAGCCCTCACCTGCAGCATCT
* * * * * * *
16315 GCCTGCACCACAACCGGGACCATCC-ACTCGAATTCGAGAACTTGGCAGCATCACCGCAGGAGCA
130 GCCAGCGCCACAACCGGGA-CAACCTACTCGAATTCGGGAACTTGGCAGAATCACCGCAGGTGCG
* * * * * *
16379 AGCCTAACCTTCCGGCACGACCACGCCCCGTTACCCACACACGCGTGCCAAGCGATCGCGCACGT
194 AGCCTTACCTTCCGGCACGACCACGCCCCATTACCCACACACGCGGGCCAAACGATCGAGCACAT
* * *
16444 AGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGCCTTCATCACCGCAGCTGGGCA
259 AGCGACCGGGGACCTCACCACGGATCACTTGGACCGCGAAGGGCCTCCATCACCGCAGCTGGGCA
* * **
16509 TCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATCGAGAGGGACACTG
324 TCCGGTCACCGAAAACCACGATCGCAAGGCTCGCACGACCTGGATTTCAATCGAGAGCAACACTG
*
16574 CCGGGGCGCGA-ACCAT
389 CCGGGGCGC-ACACCAA
*
16590 GCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTTGCCGATGCA
1 GCCAGGCACATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTTGCCGATGCA
* * *
16655 AGGGCCACGAGACTGCCCTTGCTCGAGGGGC-ATGGCCAGGCCAAGCCCTCACCTGCAGCTTCTG
66 AGGGCCACGAGACTGCCCCTGCCCGAGGGGCAATGGCCAGGCCAAGCCCTCACCTGCAGCATCTG
* * * * *
16719 CGC-GCGCCACAACCGGGAC-CCTCTACTCGATTAGGGGGCTTGGTCCTGGAGTCGTTGGCGGCA
131 C-CAGCGCCACAACCGGGACAAC-CTACTCGA--A-------T--T-CGGGA-AC-TTGGCAGAA
** * * *
16782 TCGGCGCAGGTGCGAG-CTTAACCTTCCGGCAGGACCACGCCTCATCTCCCCACACACGCGGGCC
180 TCACCGCAGGTGCGAGCCTT-ACCTTCCGGCACGACCACGCCCCAT-TACCCACACACGCGGGCC
* * * *
16846 AACCGATCGAGCACATGGTGACCGGGGACCTCGCCACGGATCACTTGGACCGCGAAGGGCCTCCA
243 AAACGATCGAGCACATAGCGACCGGGGACCTCACCACGGATCACTTGGACCGCGAAGGGCCTCCA
*
16911 TCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCAT-GCATGACCTGGATTTC
308 TCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGC-TCGCACGACCTGGATTTC
** *
16975 ACA-CGAG-GCAACTGTGGCCGGGGCTCACACCAA
372 A-ATCGAGAGCAACACT-GCCGGGGCGCACACCAA
* ** * * ** * *
17008 GCCAGGCACATGGTGCAAGACCCTCCCC-AC---C-CCTCGG-AGGGAAGGGTGGGCAGGGCG-C
1 GCCAGGCACATGGAGC--G-CAATCCCCGACAGGCAAC-CGGCA-GG-A-CGTGCCCA--CCGTT
* * * * * * ***
17066 GCACCATG-AAGAGCACACG-G-C-G-CGC-GCCCTGATGGG-TA-GG--GGGCCAA-AAAT-A-
57 GC-CGATGCAAGGGC-CACGAGACTGCCCCTGCCC-GAGGGGCAATGGCCAGGCCAAGCCCTCAC
* *** ** * ** *** * * **** *
17118 -TGGAATTGTCTGAAAGTGGGAC-ACTTTTTGACAAGTACC-ATTAGAATATATATATATATATA
119 CT-GCAGCATCTGCCAGCGCCACAAC--CGGGAC-A--ACCTACTCG-A-AT-TCGGGA-A-CT-
* * * * ** ****
17180 TGTGTA-AATCCAAGGGGCCACAATCGATGGGAGGACC--ACGC--AAGGCACCGGGTGCGCGCC
172 TG-GCAGAAT-C-A----CCGC-A--GGTGCGA-G-CCTTAC-CTTCCGGCA-CGACCACGC-CC
* * * * ** *
17240 C--TGCCCACACCCGGATGGGTGCGGACG--CGGCACGCAGAATCCCAG-GCACCGGGTGCGCGA
222 CATTACCCACACAC-G-CGGG-CCAAACGATC-G-A-GCA-CAT---AGCG-ACC--G-G-G-GA
* * * * * * *
17300 CCTGCCCTTCGCGGAATAAGCCATGAGGGCC-CG-AGGGCCTCGC--CA-CGGATCGCTTGG-A-
271 CCT-CAC--CACGG-ATCA--C-T-TGGACCGCGAAGGGCCTC-CATCACCGCA--GCTGGGCAT
* *** * * * *
17358 CC-G---CGGAGGGTCCCCGTCACCGC-A-GCTGGGCACGACCTGGATTTCAATCGAGAGGGACA
325 CCGGTCACCGA-AAACCACG--ATCGCAAGGCT-CGCACGACCTGGATTTCAATCGAGA-GCA-A
* * *
17417 CTCTGCCGGGGCGCGACCCGTGCGAG
384 CACTGCCGGGGCGC-ACAC---C-AA
* * * * * *
17443 GAACAGGAACATCGAGCACAATCCCCGACAGGCAACCGGCAAGACGAGCCCACCGTTGCCGATGC
1 G-CCAGGCACATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTTGCCGATGC
* * *
17508 AAGGGCCGCGAGACTGCCCCTGCTCGAGGGGCAATGGCCAGGCCACGCCCTCACCTGCAGCATCT
65 AAGGGCCACGAGACTGCCCCTGCCCGAGGGGCAATGGCCAGGCCAAGCCCTCACCTGCAGCATCT
17573 GCCAGCGCCACAACCGGGACAACCTACTCGAATTCGGGAACTTGGCAGAATCACCGCAGGTGCGA
130 GCCAGCGCCACAACCGGGACAACCTACTCGAATTCGGGAACTTGGCAGAATCACCGCAGGTGCGA
* * * * *
17638 GCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCACACACGCGTGCCAAACGATCGCGCACGTA
195 GCCTTACCTTCCGGCACGACCACGCCCCATTACCCACACACGCGGGCCAAACGATCGAGCACATA
* * *
17703 GCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCACCGCAGCTGGGCAT
260 GCGACCGGGGACCTCACCACGGATCACTTGGACCGCGAAGGGCCTCCATCACCGCAGCTGGGCAT
* * **
17768 CCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATCGAGAGGGACACTGC
325 CCGGTCACCGAAAACCACGATCGCAAGGCTCGCACGACCTGGATTTCAATCGAGAGCAACACTGC
*
17833 CGGGGCGCGA-ACCAT
390 CGGGGCGC-ACACCAA
*
17848 GCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTTGCCGATGCA
1 GCCAGGCACATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTTGCCGATGCA
*
17913 AGGGCCACGAGACTGCCCCTGCCCGAGGGGC-ATGGCCAGGCCAAGCCCTCACCTGCAGCTTCTG
66 AGGGCCACGAGACTGCCCCTGCCCGAGGGGCAATGGCCAGGCCAAGCCCTCACCTGCAGCATCTG
* * *
17977 CGCAGCGCCACAACCGGGAC-ACTCTACTCGATTAGGGGCTGGTCCTGGAGTCGTTGGCAGCATC
131 C-CAGCGCCACAACCGGGACAAC-CTACTCGA--A-----T--T-CGGGA-AC-TTGGCAGAATC
* * * *
18041 -GCGCAGGTGCGAG-CTTACCTTCCGGCAGGACCACG-CCCATCTCCCCACACACGCGGGCCAAC
182 ACCGCAGGTGCGAGCCTTACCTTCCGGCACGACCACGCCCCAT-TACCCACACACGCGGGCCAAA
* * *
18103 CGATCGAGCACATGGTGACCGGGGACCTCGCCACGGATCACTTGGACCGCGAAGGGCCTCCATCA
246 CGATCGAGCACATAGCGACCGGGGACCTCACCACGGATCACTTGGACCGCGAAGGGCCTCCATCA
*
18168 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCAT-GCATGACCTGGATTTCACA
311 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGC-TCGCACGACCTGGATTTCA-A
** *
18232 -CGAG-GCAACTGTGGCCGGGGCTCACACCAA
374 TCGAGAGCAACACT-GCCGGGGCGCACACCAA
* ** * * ** * *
18262 GCCAGGCACATGGTGCAAGACCCTCCCC-AC---C-CCTCGG-AGGGAAGGGTGGGCAGGGCG-C
1 GCCAGGCACATGGAGC--G-CAATCCCCGACAGGCAAC-CGGCA-GG-A-CGTGCCCA--CCGTT
* * * * * * ***
18320 GCACCATG-AAGAGCACACG-G-C-G-CGC-GCCCTGATGGG-TA-GG--GGGCCAA-AAAT-A-
57 GC-CGATGCAAGGGC-CACGAGACTGCCCCTGCCC-GAGGGGCAATGGCCAGGCCAAGCCCTCAC
* *** ** * ** *** * * **** *
18372 -TGGAATTGTCTGAAAGTGGGAC-ACTTTTTGACAAGTACC-ATTAGAATATATATATATATATA
119 CT-GCAGCATCTGCCAGCGCCACAAC--CGGGAC-A--ACCTACTCG-A-AT-TCGGGA-A-CT-
* * * * ** ****
18434 TGTGTA-AATCCAAGGGGCCACAATCGATGGGAGGACC--ACGC--AAGGCACCGGGTGCGCGCC
172 TG-GCAGAAT-C-A----CCGC-A--GGTGCGA-G-CCTTAC-CTTCCGGCA-CGACCACGC-CC
* * * * ** *
18494 C--TGCCCACACCCGGATGGGTGCGGACG--CGGCACGCAGAATCCCAG-GCACCGGGTGCGCGA
222 CATTACCCACACAC-G-CGGG-CCAAACGATC-G-A-GCA-CAT---AGCG-ACC--G-G-G-GA
* * * * * * *
18554 CCTGCCCTTCGCGGAATAAGCCATGAGGGCC-CG-AGGGCCTCGC--CA-CGGATCGCTTGG-A-
271 CCT-CAC--CACGG-ATCA--C-T-TGGACCGCGAAGGGCCTC-CATCACCGCA--GCTGGGCAT
* *** * * * *
18612 CC-G---CGGAGGGTCCCCGTCACCGC-A-GCTGGGCACGACCTGGATTTCAATCGAGAGGGACA
325 CCGGTCACCGA-AAACCACG--ATCGCAAGGCT-CGCACGACCTGGATTTCAATCGAGA-GCA-A
* * *
18671 CTCTGCCGGGGCGCGACCCGTGCGAG
384 CACTGCCGGGGCGC-ACAC---C-AA
* * * * * *
18697 GAACAGGAACATCGAGCACAATCCCCGACAGGCAACCGGCAAGACGAGCCCACCGTTGCCGATGC
1 G-CCAGGCACATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTTGCCGATGC
* * *
18762 AAGGGCCGCGAGACTGCCCCTGCTCGAGGGGCAATGGCCAGGCCACGCCCTCACCTGCAGCATCT
65 AAGGGCCACGAGACTGCCCCTGCCCGAGGGGCAATGGCCAGGCCAAGCCCTCACCTGCAGCATCT
18827 GCCAGCGCCACAACCGGGACAACCTACTCGAATTCGGGAACTTGGCAGAATCACCGCAGGTGCGA
130 GCCAGCGCCACAACCGGGACAACCTACTCGAATTCGGGAACTTGGCAGAATCACCGCAGGTGCGA
* * * * *
18892 GCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCACACACGCGTGCCAAACGATCGCGCACGTA
195 GCCTTACCTTCCGGCACGACCACGCCCCATTACCCACACACGCGGGCCAAACGATCGAGCACATA
* * *
18957 GCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCACCGCAGCTGGGCAT
260 GCGACCGGGGACCTCACCACGGATCACTTGGACCGCGAAGGGCCTCCATCACCGCAGCTGGGCAT
* * **
19022 CCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATCGAGAGGGACACTGC
325 CCGGTCACCGAAAACCACGATCGCAAGGCTCGCACGACCTGGATTTCAATCGAGAGCAACACTGC
*
19087 CGGGGCGCGA-ACCAT
390 CGGGGCGC-ACACCAA
*
19102 GCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTTGCCGATGCA
1 GCCAGGCACATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTTGCCGATGCA
*
19167 AGGGCCACGAGACTGCCCCTGCCCGAGGGGC-ATGGCCAGGCCAAGCCCTCACCTGCAGCTTCTG
66 AGGGCCACGAGACTGCCCCTGCCCGAGGGGCAATGGCCAGGCCAAGCCCTCACCTGCAGCATCTG
19231 CCCA-CGCCACAACCGGGACAACCTACTCGAATTCGGGAACTTGGCAGAATCACCGCAGGTGCGA
131 -CCAGCGCCACAACCGGGACAACCTACTCGAATTCGGGAACTTGGCAGAATCACCGCAGGTGCGA
19295 GCCTT
195 GCCTT
19300 GCGATCGCGC
Statistics
Matches: 1974, Mismatches: 435, Indels: 603
0.66 0.14 0.20
Matches are distributed among these distances:
401 1 0.00
402 5 0.00
403 186 0.09
404 294 0.15
405 12 0.01
406 22 0.01
407 20 0.01
408 27 0.01
409 14 0.01
410 61 0.03
411 36 0.02
412 61 0.03
413 71 0.04
414 229 0.12
415 48 0.02
416 50 0.03
417 84 0.04
418 170 0.09
419 18 0.01
420 15 0.01
421 24 0.01
422 2 0.00
423 8 0.00
424 14 0.01
425 18 0.01
426 44 0.02
427 44 0.02
428 44 0.02
429 24 0.01
430 38 0.02
431 20 0.01
432 28 0.01
433 40 0.02
434 36 0.02
435 24 0.01
436 28 0.01
437 26 0.01
438 16 0.01
439 8 0.00
440 8 0.00
441 16 0.01
442 4 0.00
443 8 0.00
444 22 0.01
445 6 0.00
ACGTcount: A:0.22, C:0.34, G:0.30, T:0.13
Consensus pattern (404 bp):
GCCAGGCACATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTTGCCGATGCA
AGGGCCACGAGACTGCCCCTGCCCGAGGGGCAATGGCCAGGCCAAGCCCTCACCTGCAGCATCTG
CCAGCGCCACAACCGGGACAACCTACTCGAATTCGGGAACTTGGCAGAATCACCGCAGGTGCGAG
CCTTACCTTCCGGCACGACCACGCCCCATTACCCACACACGCGGGCCAAACGATCGAGCACATAG
CGACCGGGGACCTCACCACGGATCACTTGGACCGCGAAGGGCCTCCATCACCGCAGCTGGGCATC
CGGTCACCGAAAACCACGATCGCAAGGCTCGCACGACCTGGATTTCAATCGAGAGCAACACTGCC
GGGGCGCACACCAA
Found at i:19600 original size:358 final size:358
Alignment explanation
Indices: 18943--19659 Score: 1434
Period size: 358 Copynumber: 2.0 Consensus size: 358
18933 GCGTGCCAAA
18943 CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
1 CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
19008 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
66 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
19073 GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
131 GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
19138 GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGC
196 GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGC
19203 CAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACAACCTACTCGAATTCGGG
261 CAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACAACCTACTCGAATTCGGG
19268 AACTTGGCAGAATCACCGCAGGTGCGAGCCTTG
326 AACTTGGCAGAATCACCGCAGGTGCGAGCCTTG
19301 CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
1 CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
19366 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
66 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
19431 GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
131 GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
19496 GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGC
196 GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGC
19561 CAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACAACCTACTCGAATTCGGG
261 CAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACAACCTACTCGAATTCGGG
19626 AACTTGGCAGAATCACCGCAGGTGCGAGCCTTG
326 AACTTGGCAGAATCACCGCAGGTGCGAGCCTTG
19659 C
1 C
19660 CTTCCGGCAG
Statistics
Matches: 359, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
358 359 1.00
ACGTcount: A:0.21, C:0.35, G:0.30, T:0.13
Consensus pattern (358 bp):
CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGC
CAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACAACCTACTCGAATTCGGG
AACTTGGCAGAATCACCGCAGGTGCGAGCCTTG
Found at i:20434 original size:403 final size:403
Alignment explanation
Indices: 19301--20581 Score: 2054
Period size: 402 Copynumber: 3.2 Consensus size: 403
19291 GCGAGCCTTG
19301 CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
1 CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
19366 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
66 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
19431 GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
131 GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
*
19496 GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGC
196 GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGAGGGGCATGGC
* *
19561 CAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACAACCTACTCGAATTCGGG
261 CAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACTACCAACTCGAATTCGGG
19626 AACTTGGCAGAATCACCGCAGGTGCGAGCCTTGCCTTCCGGCA-GACCACGCCCCGTTACCCGCA
326 AACTTGGCAGAATCACCGCAGGTGCGAGCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCGCA
19690 CACGCGTGCCAAA
391 CACGCGTGCCAAA
19703 CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
1 CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
19768 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
66 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
19833 GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
131 GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
19898 GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGAGGGGCATGGC
196 GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGAGGGGCATGGC
* *
19963 CAGGCCAAGCCCTCACCTGCAGCCTCTGCCCACGCCACAACCGGGACTACCGACTCGAATTCGGG
261 CAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACTACCAACTCGAATTCGGG
*
20028 AACTTGGCAGCATCACCGCAGGTGCGAGCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCGCA
326 AACTTGGCAGAATCACCGCAGGTGCGAGCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCGCA
*
20093 CACGCGTGCCAAC
391 CACGCGTGCCAAA
* * ** * *
20106 CGATCGCGCACGCAGAGACCGACGGCCTCACCACGGATCACTTGGACCGCGAAGGGTC-CCGTCA
1 CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
* * * *
20170 CCGCAGCTGGGCATCCGGCCACCGAAAACCACGATCGCAAGGCACGCGCGACCTGGATCTTAACC
66 CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
* * * * *
20235 GAGAGGGACACTCTGCCGGGGCGCGATCAATGCCAGGCGCATCGAGCACAATCCCCGACAGACAA
131 GAGAGGGACA--CTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAA
* * * *
20300 CCGGCGGGACGAGCCCACCGTTGCCGAAGCAAGGGCCGCGAGACTGCCCCTGCTC-ACGGGGCAT
194 CCGGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGA-GGGGCAT
20364 GGCCAGGCCAAGCCC-CACCTGCAGCTTCTGCCCACGCCACAACCGGGACTACCAACTCGAATTC
258 GGCCAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACTACCAACTCGAATTC
* * * * *
20428 GGGAACTTGGCAGAATCAGCGCAGGTG-GAAG-CTTAACCCTACGGCACGACCACGCCCCTTGTG
323 GGGAACTTGGCAGAATCACCGCAGGTGCG-AGCCTT-GCCTTCCGGCACGACCACGCCCC--GTT
* * **
20491 CCCCACACACGCGTGCCATG
384 ACCCGCACACGCGTGCCAAA
* * ** * *
20511 CGATCG-GCAGCATACGGCGACCGGGGACCTTGCCACGGATCACCTGGACCGCGCAGGGTCTCCA
1 CGATCGCGCA-CGTA--GCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCA
20575 TCACCGC
63 TCACCGC
20582 GACAAGGTTT
Statistics
Matches: 819, Mismatches: 48, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
402 443 0.54
403 181 0.22
404 124 0.15
405 26 0.03
407 36 0.04
408 9 0.01
ACGTcount: A:0.21, C:0.37, G:0.29, T:0.12
Consensus pattern (403 bp):
CGATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCA
CCGCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATC
GAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACC
GGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGAGGGGCATGGC
CAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACTACCAACTCGAATTCGGG
AACTTGGCAGAATCACCGCAGGTGCGAGCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCGCA
CACGCGTGCCAAA
Found at i:25732 original size:9 final size:9
Alignment explanation
Indices: 25718--25768 Score: 66
Period size: 9 Copynumber: 5.6 Consensus size: 9
25708 TTCTCTTCAA
25718 AAAAAAAAC
1 AAAAAAAAC
*
25727 AAAAAACAAA
1 AAAAAA-AAC
25737 AAAAAAAAC
1 AAAAAAAAC
25746 AAAAAAAAC
1 AAAAAAAAC
* *
25755 AAAACAAAG
1 AAAAAAAAC
25764 AAAAA
1 AAAAA
25769 GAGAGAAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
9 28 0.78
10 8 0.22
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:25737 original size:12 final size:11
Alignment explanation
Indices: 25715--25768 Score: 58
Period size: 11 Copynumber: 4.8 Consensus size: 11
25705 ACCTTCTCTT
25715 CAAAAAAAAAA
1 CAAAAAAAAAA
25726 CAAAAAACAAAA
1 CAAAAAA-AAAA
25738 -AAAAAAACAAA
1 CAAAAAAA-AAA
*
25749 -AAAAACAAAA
1 CAAAAAAAAAA
25759 CAAAGAAAAA
1 CAAA-AAAAA
25769 GAGAGAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
10 4 0.11
11 25 0.68
12 8 0.22
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:25768 original size:19 final size:17
Alignment explanation
Indices: 25716--25768 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
25706 CCTTCTCTTC
25716 AAAAAAAAAACAAAAAA
1 AAAAAAAAAACAAAAAA
* *
25733 CAAAAAAAAA-AACAAA
1 AAAAAAAAAACAAAAAA
*
25749 AAAAACAAAACAAAGAAA
1 AAAAAAAAAACAAA-AAA
25767 AA
1 AA
25769 GAGAGAAAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 13 0.45
17 11 0.38
18 5 0.17
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAACAAAAAA
Found at i:25784 original size:1 final size:1
Alignment explanation
Indices: 25716--25768 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
25706 CCTTCTCTTC
* * * * * *
25716 AAAAAAAAAACAAAAAACAAAAAAAAAAACAAAAAAAACAAAACAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
25769 GAGAGAAAAG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:26835 original size:55 final size:55
Alignment explanation
Indices: 26750--27537 Score: 1229
Period size: 55 Copynumber: 14.3 Consensus size: 55
26740 TCCGCTTTTT
*
26750 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
26805 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
26860 AGTCCTCAACGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
26915 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
26970 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA--TTGTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-T-C
27025 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
27080 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
27135 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
27190 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
27245 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
27300 AGTCCTCAAAGAACAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
27355 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
27410 ATTCCCCAAAGAGCAGGACACTTTTCAAAGCCCACACAAGTGGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
27465 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
27520 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
27538 TACAATTTAT
Statistics
Matches: 688, Mismatches: 28, Indels: 34
0.92 0.04 0.05
Matches are distributed among these distances:
53 2 0.00
54 17 0.02
55 652 0.95
56 15 0.02
57 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:27087 original size:29 final size:29
Alignment explanation
Indices: 27055--27197 Score: 81
Period size: 29 Copynumber: 5.1 Consensus size: 29
27045 CCTCTTAAAG
27055 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
** * *
27084 CCCA-A-AGAG-CAG-GACACCTCTTAAAG--
1 CCCACACA-AGTTGGTGGCACCT-TT-CAGTC
27110 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
* ** * ***
27139 CTCA-A-AGAG-CAG-GACACCTTTCAAAG
1 CCCACACA-AGTTGGTGGCACCTTTCAGTC
27165 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
27194 CCCA
1 CCCA
27198 AAGAGCAGGA
Statistics
Matches: 78, Mismatches: 22, Indels: 28
0.61 0.17 0.22
Matches are distributed among these distances:
26 23 0.29
27 14 0.18
28 14 0.18
29 27 0.35
ACGTcount: A:0.27, C:0.34, G:0.20, T:0.20
Consensus pattern (29 bp):
CCCACACAAGTTGGTGGCACCTTTCAGTC
Found at i:28192 original size:21 final size:21
Alignment explanation
Indices: 28168--28224 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
28158 CATCTGTAGG
28168 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
28189 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
*
28210 AGGTATCGATACATT
1 ATGTATCGATACATT
28225 TAATTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Done.