Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004466.1 Hibiscus syriacus cultivar Beakdansim tig00009845_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 82508
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:1863 original size:26 final size:24
Alignment explanation
Indices: 1831--1882 Score: 86
Period size: 26 Copynumber: 2.1 Consensus size: 24
1821 TTAAAAATAG
1831 GGTTAGGGATTTTAATTAAAGAGGGA
1 GGTTAGGGATTTTAATT-AAG-GGGA
1857 GGTTAGGGATTTTAATTAAGGGGA
1 GGTTAGGGATTTTAATTAAGGGGA
1881 GG
1 GG
1883 GGTACTGCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 6 0.23
25 3 0.12
26 17 0.65
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (24 bp):
GGTTAGGGATTTTAATTAAGGGGA
Found at i:7487 original size:23 final size:23
Alignment explanation
Indices: 7461--7534 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
7451 ACACTAAAGA
*
7461 GAGGAACGTAGCCTAGGCGCAGT
1 GAGGCACGTAGCCTAGGCGCAGT
*
7484 GAGGCACGTAGCCTAGGCGTAGT
1 GAGGCACGTAGCCTAGGCGCAGT
*
7507 GAGGCACGTAGCCTAGGCGCAGC
1 GAGGCACGTAGCCTAGGCGCAGT
7530 GAGGC
1 GAGGC
7535 GCAGCGAGGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.23, C:0.24, G:0.41, T:0.12
Consensus pattern (23 bp):
GAGGCACGTAGCCTAGGCGCAGT
Found at i:8018 original size:21 final size:21
Alignment explanation
Indices: 7994--8033 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7984 AAAATAATTA
* *
7994 AATTTATTTATTTTGAAATCT
1 AATTTAATTATTCTGAAATCT
8015 AATTTAATTATTCTGAAAT
1 AATTTAATTATTCTGAAAT
8034 TTACATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (21 bp):
AATTTAATTATTCTGAAATCT
Found at i:11147 original size:9 final size:9
Alignment explanation
Indices: 11133--11157 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11123 ACACCTTGTA
11133 GATGAAGAT
1 GATGAAGAT
11142 GATGAAGAT
1 GATGAAGAT
11151 GATGAAG
1 GATGAAG
11158 TTGTTATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.20
Consensus pattern (9 bp):
GATGAAGAT
Found at i:11538 original size:18 final size:18
Alignment explanation
Indices: 11515--11557 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
11505 TCGTGAATTC
11515 CGCGCCTTTCATGCACCT
1 CGCGCCTTTCATGCACCT
*
11533 CGCGCCTTTCATGCGCCT
1 CGCGCCTTTCATGCACCT
11551 CGCGCCT
1 CGCGCCT
11558 CAAGGCTCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.07, C:0.47, G:0.21, T:0.26
Consensus pattern (18 bp):
CGCGCCTTTCATGCACCT
Found at i:18390 original size:20 final size:20
Alignment explanation
Indices: 18365--18406 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
18355 CTCAAATGAC
*
18365 TAGTTTCTTGTGTTAAAGAT
1 TAGTTTCTTATGTTAAAGAT
*
18385 TAGTTTCTTATGTTAATGAT
1 TAGTTTCTTATGTTAAAGAT
18405 TA
1 TA
18407 TAATGATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.17, T:0.52
Consensus pattern (20 bp):
TAGTTTCTTATGTTAAAGAT
Found at i:18573 original size:17 final size:17
Alignment explanation
Indices: 18551--18594 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
18541 GTATAAAAAT
18551 TTATAACTTATTTTT-AA
1 TTATAA-TTATTTTTAAA
*
18568 TTATAATTTTTTTTAAA
1 TTATAATTATTTTTAAA
18585 TTATAATTAT
1 TTATAATTAT
18595 GAGAAAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATAATTATTTTTAAA
Found at i:21576 original size:41 final size:40
Alignment explanation
Indices: 21530--21632 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 40
21520 GTTTGTATCG
* * *
21530 AAAAACGCCGCTATAGGTTCGTCTATAGTGGCGTTTTTATA
1 AAAAACGCCGCAATAGGTTCATCTATAGTGGCGTTTTT-CA
* *
21571 AAAAACGCCGCAAAAGGGTTAATCTATAGTGGCGTTTTTCA
1 AAAAACGCCGCAATA-GGTTCATCTATAGTGGCGTTTTTCA
*
21612 ACAAACGCCGCAATAGGTTCA
1 AAAAACGCCGCAATAGGTTCA
21633 ACCATACATT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 5 0.09
41 27 0.51
42 21 0.40
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (40 bp):
AAAAACGCCGCAATAGGTTCATCTATAGTGGCGTTTTTCA
Found at i:22131 original size:84 final size:85
Alignment explanation
Indices: 22036--22192 Score: 203
Period size: 84 Copynumber: 1.9 Consensus size: 85
22026 AATTGTATAA
* *
22036 TTAGCGGCGTTTAT-ACACAAACGCCGTAAAAGGGT-TAATCTATAGTGGCGTTT-TTTTCAACA
1 TTAGCGGCGTTT-TGACAAAAACGCAGTAAAA-GGTATAATCTATAGTGGCGTTTGTTTTCAACA
22098 AACGCCGCAATAGAGTAGTACT
64 AACGCCGCAATAGAGTAGTACT
* * * * **
22120 TTAGCGGCGTTTTGAGAAAAACGTAGTGATAGGTATAATCTATAGTGGCGTTTGTTTTTTACAAA
1 TTAGCGGCGTTTTGACAAAAACGCAGTAAAAGGTATAATCTATAGTGGCGTTTGTTTTCAACAAA
22185 CGCCGCAA
66 CGCCGCAA
22193 CATAATTGTA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
83 4 0.06
84 41 0.66
85 17 0.27
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (85 bp):
TTAGCGGCGTTTTGACAAAAACGCAGTAAAAGGTATAATCTATAGTGGCGTTTGTTTTCAACAAA
CGCCGCAATAGAGTAGTACT
Found at i:31737 original size:12 final size:13
Alignment explanation
Indices: 31715--31743 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
31705 GAATCGAATG
31715 TTTTAAATTTTAA
1 TTTTAAATTTTAA
31728 TTTT-AATTTTAA
1 TTTTAAATTTTAA
31740 TTTT
1 TTTT
31744 CGCAATTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:36000 original size:249 final size:248
Alignment explanation
Indices: 35562--37260 Score: 1757
Period size: 249 Copynumber: 6.8 Consensus size: 248
35552 TTTAAAACAA
* * ** *
35562 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGAC
1 ATCATTTGCAGCATAACTCAAG-CTAGAAGGGTTATCTG-TGACCAAAAGATCTTCGAGTTCGAC
* *
35626 TACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTTGTCTGCCAAC
64 TACGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTGAAGTCTAGAAGGGTTATCTG-CAAC
* * * *
35690 AAAAGACCTTTGAGTTCGACTACACTCAGCTCAACGACACATCATTTGCAGTATAGCTTAAGTCG
128 CAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCG
35755 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
193 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
*
35811 ATCATTTACAGCATAACTCAATGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACT
1 ATCATTTGCAGCATAACTCAA-GCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACT
* *
35876 ACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTTGTCTGCCAACC
65 ACGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTGAAGTCTAGAAGGGTTATCTG-CAACC
* *
35940 AAAGACCTTTGAGTTCGACTACGCTCATCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGA
129 AAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGA
*
36005 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCAC
194 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * *
36060 ATCATTTACAGCATAACTCAAGGATAGAAGGGTTATCTGTGACCAAAAG-TCCTTTGAGTTCGAC
1 ATCATTTGCAGCATAACTCAA-GCTAGAAGGGTTATCTGTGACCAAAAGAT-CTTCGAGTTCGAC
* * * * * * *
36124 TACACTCAGCT-CAACGGCACATCATTTCCAACATAGCTT-AAGTCGAGAAGGGCTATCTG---C
64 TACGCTCAGCTCCAA-GGCACATCATTTGCAGCACAACTTGAAGTCTAGAAGGGTTATCTGCAAC
*** * * * * * *
36184 CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATACCTGAAGTC
128 CAAAGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTTGCAGCATAGCTTAAGTC
* * ** * * * * *
36249 GAGAAGGGTTGTCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGC-TCCAAGGCAC
192 GAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * * * * ** *
36309 ATCATTTGCAGTATATCTTAAGTCGAGAAGGGCTAT-T-TG-CC-AAAGACCCCCGAGTTCGATT
1 ATCATTTGCAGCATAACTCAAG-CTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACT
* * * * * * * **
36370 ACACTCAGCTTCGAGGGCACATCATTTACAGCATAAC-TCAAGGCTAGAAGGGTTATCTGTGACC
65 ACGCTCAGC-TCCAAGGCACATCATTTGCAGCACAACTTGAAGTCTAGAAGGGTTATCTGCAACC
* * * * * *
36434 AAAAGATCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTGCAACACAACTTGAA-T
129 -AAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGCATAGCTT-AAGT
* * * *** * * * * *
36497 CTAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCATC-TCAACGGCAC
191 CGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * * * * ** *
36558 ATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATC--TG-CC-AAAGACCCCCGAGTTCGATT
1 ATCATTTGCAGCATAACTCAAG-CTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACT
* * * * * * * ** **
36619 ACACTCAACTTCGAGGGCACATCATTTACAGCATAAC-TCAAGGATAGAAGGGTTATCTGTGACC
65 ACGCTCAGC-TCCAAGGCACATCATTTGCAGCACAACTTGAAGTCTAGAAGGGTTATCTGCAACC
* *
36683 AAAAGTCCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTCCAGCATAGCTTAAGTCG
129 -AAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCG
36748 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
193 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
36804 ATCATTTGCAGCATAACTCAATGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACT
1 ATCATTTGCAGCATAACTCAA-GCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACT
* *
36869 ACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTTGTCTGCCAACC
65 ACGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTGAAGTCTAGAAGGGTTATCTG-CAACC
* *
36933 AAAGACCTTTGAGTTCGACTACGCTCATCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGA
129 AAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGA
*
36998 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCAC
194 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * *
37053 ATCATTTACAGCATAACTCAAGGATAGAAGGGTTATCTGTTACCAAAAG-TCCTTTGAGTTCGAC
1 ATCATTTGCAGCATAACTCAA-GCTAGAAGGGTTATCTGTGACCAAAAGAT-CTTCGAGTTCGAC
* * * * *
37117 TACGCTCAGCT-CAACGGCACATCATTTCCAGCATAGCTT-AAGTCGAGAAGGGCTATCTG---C
64 TACGCTCAGCTCCAA-GGCACATCATTTGCAGCACAACTTGAAGTCTAGAAGGGTTATCTGCAAC
*** * * * * * * *
37177 CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTGCAGCATACCTGAAGTC
128 CAAAGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTTGCAGCATAGCTTAAGTC
* *
37242 GAGAAGGGTTGTCTGCCAA
192 GAGAAGGGCTATCTGCCAA
37261 CCAAAGACCT
Statistics
Matches: 1258, Mismatches: 156, Indels: 75
0.84 0.10 0.05
Matches are distributed among these distances:
245 99 0.08
246 164 0.13
247 4 0.00
248 24 0.02
249 884 0.70
250 83 0.07
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (248 bp):
ATCATTTGCAGCATAACTCAAGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACTA
CGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTGAAGTCTAGAAGGGTTATCTGCAACCAA
AGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGA
AGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
Found at i:36480 original size:414 final size:413
Alignment explanation
Indices: 35562--37344 Score: 2519
Period size: 414 Copynumber: 4.3 Consensus size: 413
35552 TTTAAAACAA
* **
35562 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAGCATAACTCAAGTCGAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGACT
*
35627 ACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAATCTAGAAGGGTTGTCTGCCAACAA
65 ACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAATCTAGAAGGGTTGTCTGCCAACCA
*
35692 AAGACCTTTGAGTTCGACTACACTCAGCTCAACGACACATCATTTGCAGTATAGCTTAAGTCGAG
130 AAGACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAG
*
35757 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
195 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAG
* * *
35822 CATAACTCAATGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACTACGCTCAGCTC
260 CATAACTCAAGGATAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT-
* * * * * * * ***
35887 CAA-GGCATATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTTGTCTGCCAACCAAAGACCTTT
324 CAACGGCACATCATTTCCAGCATAGCTT-AAGTCGAGAAGGGCTATCTG----CCAAAGACCCCC
* * * * *
35950 GAGTTCGACTACGCTCATC-TCAACGGCAC
384 GAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * * ** *
35979 ATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCCCCGAGTTCGATTA
1 ATCATTTGCAGCATAACTCAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTA
* * * * * * * * ** * **
36041 CACTCAACTTCGAGGGCACATCATTTACAGCATAAC-TCAAGGATAGAAGGGTTATCTG-TGACC
66 CGCTCAGC-TCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTTGTCTGCCAACC
* * **
36104 AAAAGTCCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTTCCAACATAGCTTAAGTCG
129 -AAAGACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCG
* *
36169 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGC
193 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTAC
* * *** * ** *
36234 AGCATACCTGAAGTCGAGAAGGGTTGTCTGCCAACC-AAAGACCTTCGAGTTTGACTACGCTCAG
258 AGCATAACTCAAGGATAGAAGGGTTATCTG-TGACCAAAAGACCTTCGAGTTCGACTACGCTCAG
* * * *
36298 CTCCAA-GGCACATCATTTGCAGTATATCTTAAGTCGAGAAGGGCTATTTGCCAAAGACCCCCGA
322 CT-CAACGGCACATCATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGA
36362 GTTCGATTACACTCAGCTTCGAGGGCAC
386 GTTCGATTACACTCAGCTTCGAGGGCAC
* * * *
36390 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACT
1 ATCATTTGCAGCATAACTCAAGTCGAGAAGGGTTATCTGTGACC-AAAGACCTTCGAGTTCGACT
*
36455 ACGCTCAGCTCCAAGGCATATCATTTGCAACACAACTTGAATCTAGAAGGGTTGTCTGCCAACCA
65 ACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAATCTAGAAGGGTTGTCTGCCAACCA
* *
36520 AAGACCTTTGAGTTCGACTACGCTCATCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAG
130 AAGACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAG
36585 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAG
195 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAG
* *
36650 CATAACTCAAGGATAGAAGGGTTATCTGTGACCAAAAGTCCTTTGAGTTCGACTACGCTCAGCTC
260 CATAACTCAAGGATAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
36715 AACGGCACATCATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTC
325 AACGGCACATCATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTC
36780 GATTACACTCAGCTTCGAGGGCAC
390 GATTACACTCAGCTTCGAGGGCAC
* *
36804 ATCATTTGCAGCATAACTCAA-TGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGAC
1 ATCATTTGCAGCATAACTCAAGT-CGAGAAGGGTTATCTGTGACC-AAAGACCTTCGAGTTCGAC
36868 TACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAATCTAGAAGGGTTGTCTGCCAACC
64 TACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAATCTAGAAGGGTTGTCTGCCAACC
* *
36933 AAAGACCTTTGAGTTCGACTACGCTCATCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGA
129 AAAGACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGA
36998 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACA
194 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACA
* * *
37063 GCATAACTCAAGGATAGAAGGGTTATCTGTTACCAAAAGTCCTTTGAGTTCGACTACGCTCAGCT
259 GCATAACTCAAGGATAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT
37128 CAACGGCACATCATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTT
324 CAACGGCACATCATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTT
*
37193 CGATTACACTCAGCTTCGAGGGCAT
389 CGATTACACTCAGCTTCGAGGGCAC
* * * ** *
37218 ATCATTTGCAGCATACCTGAAGTCGAGAAGGGTTGTCTGCCAACCAAAGACCTTCGAGTTTGACT
1 ATCATTTGCAGCATAACTCAAGTCGAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGACT
* * * *
37283 ACGCTCAGCTCCAAGGCATATCATTTGTAGCACAACTT-AAGTCGAGAAGGGCTATCTGCCAA
65 ACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTTGTCTGCCAA
37345 AGACCCCCGA
Statistics
Matches: 1229, Mismatches: 119, Indels: 39
0.89 0.09 0.03
Matches are distributed among these distances:
410 25 0.02
411 38 0.03
413 43 0.03
414 1053 0.86
415 36 0.03
417 34 0.03
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (413 bp):
ATCATTTGCAGCATAACTCAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTA
CGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAATCTAGAAGGGTTGTCTGCCAACCAA
AGACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGA
AGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGC
ATAACTCAAGGATAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCA
ACGGCACATCATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCG
ATTACACTCAGCTTCGAGGGCAC
Found at i:36744 original size:579 final size:578
Alignment explanation
Indices: 35562--37389 Score: 2539
Period size: 579 Copynumber: 3.2 Consensus size: 578
35552 TTTAAAACAA
* * ** *
35562 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
1 ATCATTTCCAGCATAACTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATT
* * * * * * *
35627 ACGCTCAGC-TCCAAGGCATATCATTTGCAGCACAACTTGAATCTAGAAGGGTTGTCTGCCAACA
62 ACACTCAGCTTCGAGGGCACATCATTTGCAGCA-TACCTGAATCTAGAAGGGTTGTCTGCCAACC
* * * *
35691 AAAGACCTTTGAGTTCGACTACACTCAGCT-CAACGACACATCATTTGCAGTATAGCTTAAGTCG
126 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGTATAACTTAAGTCG
35755 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
190 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
*
35820 AGCATAACTCAATGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACTACGCTCAGC
255 AGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACTACGCTCAGC
35885 TCCAAGGCATATCATTTGCAGCACAACTTGAATCTAGAAGGGTTGTCTGCCAACCAAAGACCTTT
320 TCCAAGGCATATCATTTGCAGCACAACTTGAATCTAGAAGGGTTGTCTGCCAACCAAAGACCTTT
35950 GAGTTCGACTACGCTCATCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTAT
385 GAGTTCGACTACGCTCATCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTAT
36015 CTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCA
450 CTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCA
*
36080 AGGATAGAAGGGTTATCTGTGACCAAAAGTCCTTTGAGTTCGACTACACTCAGCTCAACGGCAC
515 AGGATAGAAGGGTTATCTGTGACCAAAAGTCCTTTGAGTTCGACTACGCTCAGCTCAACGGCAC
* *
36144 ATCATTTCCAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACAC
1 ATCATTTCCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACAC
*
36209 TCAGCTTCGAGGGCACATCATTTGCAGCATACCTGAAGTCGAGAAGGGTTGTCTGCCAACCAAAG
66 TCAGCTTCGAGGGCACATCATTTGCAGCATACCTGAA-TCTAGAAGGGTTGTCTGCCAACCAAAG
* *
36274 ACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATATCTTAAGTCGAGAAG
130 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCGAGAAG
*
36339 GGCTATTTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCAT
195 GGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCAT
36404 AACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACTACGCTCAGCTCCAA
260 AACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACTACGCTCAGCTCCAA
*
36469 GGCATATCATTTGCAACACAACTTGAATCTAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTT
325 GGCATATCATTTGCAGCACAACTTGAATCTAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTT
36534 CGACTACGCTCATCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCC
390 CGACTACGCTCATCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCC
36599 AAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGAT
455 AAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGAT
36664 AGAAGGGTTATCTGTGACCAAAAGTCCTTTGAGTTCGACTACGCTCAGCTCAACGGCAC
520 AGAAGGGTTATCTGTGACCAAAAGTCCTTTGAGTTCGACTACGCTCAGCTCAACGGCAC
*
36723 ATCATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACAC
1 ATCATTTCCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACAC
* * * **
36788 TCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAATGCTAGAAGGGTTATCTG-TGACCAAAA
66 TCAGCTTCGAGGGCACATCATTTGCAGCATACCTGAAT-CTAGAAGGGTTGTCTGCCAACC-AAA
* * * * *
36852 GATCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGA
129 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTT-AAGTCGAGA
* * *** * * * * * *
36916 AGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCATC-TCAACGGCACATCATTTG
193 AGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
* * * * * * * ** * * *
36980 CAGTATAGCTTAAGTCGAGAAGGGCTATC--TG-CC-AAAGACCCCCGAGTTCGATTACACTCAA
254 CAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACTACGCTCAG
* * * * * * ** * ** *
37041 CTTCGAGGGCACATCATTTACAGCATAAC-TCAAGGATAGAAGGGTTATCTG-TTACCAAAAGTC
319 C-TCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTTGTCTGCCAACC-AAAGAC
* * *
37104 CTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTCCAGCATAGCTTAAGTCGAGAAGGG
381 CTTTGAGTTCGACTACGCTCATCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGG
* * * *
37169 CTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTGCAGCATAC
446 CTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAA
* *** * ** * * *
37234 CTGAAGTCGAGAAGGGTTGTCTGCCAACC-AAAGACCTTCGAGTTTGACTACGCTCAGCTCCAA-
511 CTCAAGGATAGAAGGGTTATCTG-TGACCAAAAGTCCTTTGAGTTCGACTACGCTCAGCT-CAAC
*
37297 GGCAT
574 GGCAC
** *
37302 ATCATTTGTAGCACAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACAC
1 ATCATTTCCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACAC
* * *
37367 TCAACTTCGAGGTCATATCATTT
66 TCAGCTTCGAGGGCACATCATTT
37390 ACAACATAGC
Statistics
Matches: 1131, Mismatches: 100, Indels: 33
0.89 0.08 0.03
Matches are distributed among these distances:
578 66 0.06
579 954 0.84
580 13 0.01
582 73 0.06
583 25 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (578 bp):
ATCATTTCCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACAC
TCAGCTTCGAGGGCACATCATTTGCAGCATACCTGAATCTAGAAGGGTTGTCTGCCAACCAAAGA
CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGG
GCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATA
ACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACTACGCTCAGCTCCAAG
GCATATCATTTGCAGCACAACTTGAATCTAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTC
GACTACGCTCATCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCA
AAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGATA
GAAGGGTTATCTGTGACCAAAAGTCCTTTGAGTTCGACTACGCTCAGCTCAACGGCAC
Found at i:37377 original size:165 final size:164
Alignment explanation
Indices: 35562--37389 Score: 1697
Period size: 165 Copynumber: 11.0 Consensus size: 164
35552 TTTAAAACAA
*
35562 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAGCATAACTGAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACT
* * * * *
35627 ACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTTGTCTGCCAACA
65 ACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTT-AAGTCGAGAAGGGCTATCTG-C--C-
*** * * * *
35691 AAAGACCTTTGAGTTCGACTACACTCAGC-TCAACGACAC
125 AAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * * ** *
35730 ATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGATTA
1 ATCATTTGCAGCATAACTGAAGTCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTA
* * * * * * *
35792 CACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAA-TGCTAGAAGGGTTATCTGTGACCA
66 CGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGT-CGAGAAGGGCTATC--TG-CC-
* ** * * * * *
35856 AAAGATCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCAT
125 AAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * *
35895 ATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGAC
1 ATCATTTGCAGCATAAC-TGAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGAC
* * *
35959 TACGCTCATCT-CAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAA
64 TACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAA
*
36023 GACCCCCGAGTTCGATTACACTCAACTTCGAGGGCAC
128 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * *** ** * *
36060 ATCATTTACAGCATAACTCAAGGATAGAAGGGTTATCTGTGACCAAAAGTCCTTTGAGTTCGACT
1 ATCATTTGCAGCATAACTGAAGTCGAGAAGGGTTATCTGCAACC-AAAGACCTTCGAGTTCGACT
* * * *
36125 ACACTCAGCT-CAACGGCACATCATTTCCAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAG
65 ACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAG
36189 ACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
129 ACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * *
36225 ATCATTTGCAGCATACCTGAAGTCGAGAAGGGTTGTCTGCCAACCAAAGACCTTCGAGTTTGACT
1 ATCATTTGCAGCATAACTGAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACT
* * *
36290 ACGCTCAGCTCCAAGGCACATCATTTGCAGTATATCTTAAGTCGAGAAGGGCTATTTGCCAAAGA
65 ACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGA
36355 CCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
130 CCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * * ** *
36390 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACT
1 ATCATTTGCAGCATAACTGAAGTCGAGAAGGGTTATCTGCAACC-AAAGACCTTCGAGTTCGACT
* * * * * *
36455 ACGCTCAGCTCCAAGGCATATCATTTGCAACACAACTTGAA-TCTAGAAGGGTTGTCTGCCAACC
65 ACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTT-AAGTCGAGAAGGGCTATCTG----CC
*** * * * * *
36519 AAAGACCTTTGAGTTCGACTACGCTCATC-TCAACGGCAC
125 AAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * * ** *
36558 ATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGATTA
1 ATCATTTGCAGCATAACTGAAGTCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTA
* * * * * * *** *
36620 CACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGATAGAAGGGTTATCTGTGACCAA
66 CGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC--TG-CC-A
* *** * * * *
36685 AAGTCCTTTGAGTTCGACTACGCTCAGC-TCAACGGCAC
126 AAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * * ** *
36723 ATCATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGATTA
1 ATCATTTGCAGCATAACTGAAGTCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTA
* * * * * *
36785 CACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAA-TGCTAGAAGGGTTATCTGTGACCA
66 CGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGT-CGAGAAGGGCTATC--TG-CC-
* ** * * * * *
36849 AAAGATCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCAT
125 AAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * *
36888 ATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGAC
1 ATCATTTGCAGCATAAC-TGAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGAC
* * *
36952 TACGCTCATCT-CAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAA
64 TACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAA
*
37016 GACCCCCGAGTTCGATTACACTCAACTTCGAGGGCAC
128 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * *** ** * *
37053 ATCATTTACAGCATAACTCAAGGATAGAAGGGTTATCTGTTACCAAAAGTCCTTTGAGTTCGACT
1 ATCATTTGCAGCATAACTGAAGTCGAGAAGGGTTATCTGCAACC-AAAGACCTTCGAGTTCGACT
* *
37118 ACGCTCAGCT-CAACGGCACATCATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAG
65 ACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAG
*
37182 ACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAT
129 ACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * *
37218 ATCATTTGCAGCATACCTGAAGTCGAGAAGGGTTGTCTGCCAACCAAAGACCTTCGAGTTTGACT
1 ATCATTTGCAGCATAACTGAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACT
* * *
37283 ACGCTCAGCTCCAAGGCATATCATTTGTAGCACAACTTAAGTCGAGAAGGGCTATCTGCCAAAGA
65 ACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGA
* * *
37348 CCCCCGAGTTCGATTACACTCAACTTCGAGGTCAT
130 CCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
37383 ATCATTT
1 ATCATTT
37390 ACAACATAGC
Statistics
Matches: 1409, Mismatches: 211, Indels: 83
0.83 0.12 0.05
Matches are distributed among these distances:
164 119 0.08
165 1035 0.73
166 24 0.02
167 7 0.00
168 147 0.10
169 77 0.05
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (164 bp):
ATCATTTGCAGCATAACTGAAGTCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTA
CGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
CCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
Found at i:39689 original size:12 final size:13
Alignment explanation
Indices: 39667--39695 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
39657 GAATCGAATG
39667 TTTTAAATTTTAA
1 TTTTAAATTTTAA
39680 TTTT-AATTTTAA
1 TTTTAAATTTTAA
39692 TTTT
1 TTTT
39696 CGCAATTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:41504 original size:42 final size:43
Alignment explanation
Indices: 41446--41541 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 43
41436 GTTTTATCCT
* * * * * *
41446 AAAAGCGCCGCTAAATGTCAAAACTTATTGCTGTGTTTG-TAA
1 AAAAACGCCGCGAAATGTCAAAACCTATTGCGGCGGTTGTTAA
*
41488 AAAAACGCCGCGAAATGTCAAAACCTATTGCGGCGGTTGTTGA
1 AAAAACGCCGCGAAATGTCAAAACCTATTGCGGCGGTTGTTAA
41531 AAAAACGCCGC
1 AAAAACGCCGC
41542 TATATATCGT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 33 0.72
43 13 0.28
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCGAAATGTCAAAACCTATTGCGGCGGTTGTTAA
Found at i:47007 original size:15 final size:15
Alignment explanation
Indices: 46973--47007 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
46963 AATTTTAACG
*
46973 AAAATTATTAAATTT
1 AAAATTATTAAATAT
*
46988 TAAATTATTAAATAT
1 AAAATTATTAAATAT
47003 AAAAT
1 AAAAT
47008 ATGTTGGTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAATTATTAAATAT
Found at i:47579 original size:10 final size:10
Alignment explanation
Indices: 47566--47599 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
47556 TCAACACACA
47566 AAATTCTCTC
1 AAATTCTCTC
47576 AAA-TCTTCTC
1 AAATTC-TCTC
47586 AAATTCTCTC
1 AAATTCTCTC
47596 AAAT
1 AAAT
47600 CATGTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 2 0.09
10 18 0.82
11 2 0.09
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (10 bp):
AAATTCTCTC
Found at i:47607 original size:20 final size:20
Alignment explanation
Indices: 47566--47608 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
47556 TCAACACACA
*
47566 AAATTCTCTCAAATCTTCTC
1 AAATTCTCTCAAATCATCTC
*
47586 AAATTCTCTCAAATCATGTC
1 AAATTCTCTCAAATCATCTC
47606 AAA
1 AAA
47609 AACCAAACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (20 bp):
AAATTCTCTCAAATCATCTC
Found at i:60986 original size:16 final size:19
Alignment explanation
Indices: 60950--60987 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
60940 CAAATAATCA
60950 TATATAATTATAAAAATAT
1 TATATAATTATAAAAATAT
60969 TATAT-ATTA-AAAAA-AT
1 TATATAATTATAAAAATAT
60985 TAT
1 TAT
60988 CTTACAACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.26
17 5 0.26
18 4 0.21
19 5 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TATATAATTATAAAAATAT
Found at i:61096 original size:29 final size:30
Alignment explanation
Indices: 61028--61100 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 30
61018 ATCAAAGATA
* *
61028 AGAGGATTGTCGGGTGATATTTACGGGTTG
1 AGAGGATTGTTGTGTGATATTTACGGGTTG
* ** * *
61058 AAAGTTTTGTTGTGTGAT-TTTTCTGGTTG
1 AGAGGATTGTTGTGTGATATTTACGGGTTG
61087 AGAGGATTGTTGTG
1 AGAGGATTGTTGTG
61101 AATGTTTAGG
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
29 20 0.61
30 13 0.39
ACGTcount: A:0.18, C:0.04, G:0.36, T:0.42
Consensus pattern (30 bp):
AGAGGATTGTTGTGTGATATTTACGGGTTG
Found at i:61289 original size:40 final size:40
Alignment explanation
Indices: 61228--61305 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
61218 CAGACGATAG
*
61228 TAAGGCGCGACCCATGCACCGCGCCTTACCCTACGTGGTA
1 TAAGGCGCGACCCATGCACCGCACCTTACCCTACGTGGTA
* * *
61268 TAAGGCGCGACCTATGTACCGCACCTTACCCTGCGTGG
1 TAAGGCGCGACCCATGCACCGCACCTTACCCTACGTGG
61306 CACCACATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.19, C:0.36, G:0.26, T:0.19
Consensus pattern (40 bp):
TAAGGCGCGACCCATGCACCGCACCTTACCCTACGTGGTA
Found at i:61396 original size:51 final size:51
Alignment explanation
Indices: 61286--61396 Score: 125
Period size: 51 Copynumber: 2.2 Consensus size: 51
61276 GACCTATGTA
* ** *
61286 CCGCACCTTACCCTGCGTGGCACCACATCAACGTAAGGCGCGGTGCATGGG
1 CCGCGCCTTACCCCACGTGGCACCACATCAACGTAAGGCGCAGTGCATGGG
* * * * *
61337 TCGTGCCTTACCCCACGTGGCGCCACATCAGCGTAAGGTGCAGTGTC-TGGG
1 CCGCGCCTTACCCCACGTGGCACCACATCAACGTAAGGCGCAGTG-CATGGG
61388 CCGCGCCTT
1 CCGCGCCTT
61397 TCTGCTAAGG
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
51 47 0.98
52 1 0.02
ACGTcount: A:0.16, C:0.35, G:0.30, T:0.19
Consensus pattern (51 bp):
CCGCGCCTTACCCCACGTGGCACCACATCAACGTAAGGCGCAGTGCATGGG
Found at i:61715 original size:36 final size:37
Alignment explanation
Indices: 61668--61744 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 37
61658 CATAGAATAT
* *
61668 AGTGCGACTCTAATATAAA-TTGGGGAAGACACATGA
1 AGTGCAACTCTAATATAAATTTAGGGAAGACACATGA
* *
61704 AGTGCAACTCTAATATAAATTTAGGTAAGACACATGG
1 AGTGCAACTCTAATATAAATTTAGGGAAGACACATGA
61741 AGTG
1 AGTG
61745 TAATGATTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 18 0.50
37 18 0.50
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (37 bp):
AGTGCAACTCTAATATAAATTTAGGGAAGACACATGA
Found at i:61776 original size:6 final size:7
Alignment explanation
Indices: 61758--61782 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
61748 TGATTCTCCC
61758 ATTTTTT
1 ATTTTTT
61765 ATTTTTT
1 ATTTTTT
61772 ATTTTTT
1 ATTTTTT
61779 ATTT
1 ATTT
61783 AAGGTTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
ATTTTTT
Found at i:62270 original size:19 final size:19
Alignment explanation
Indices: 62246--62282 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62236 ATGACCAACA
*
62246 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
*
62265 AAATCGTAACGCGATCTC
1 AAATCGCAACGCGATCTC
62283 CATTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:62374 original size:21 final size:20
Alignment explanation
Indices: 62327--62374 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
62317 GATTTTGACC
*
62327 ATCGCATTGCGATTTTTGAA
1 ATCGCATTGCGATTTTAGAA
62347 ATCCGCATTGCGATTTTAGATA
1 AT-CGCATTGCGATTTTAGA-A
62369 ATCGCA
1 ATCGCA
62375 ATGAGAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 2 0.08
21 20 0.80
22 3 0.12
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATTTTAGAA
Found at i:62420 original size:20 final size:20
Alignment explanation
Indices: 62368--62420 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
62358 GATTTTAGAT
*
62368 AATCGCAATGAGAATATGTA
1 AATCGCAATGCGAATATGTA
*
62388 AATCGTAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
*
62408 AATCGCAACGCGA
1 AATCGCAATGCGA
62421 TAACACTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.23
Consensus pattern (20 bp):
AATCGCAATGCGAATATGTA
Found at i:62458 original size:20 final size:20
Alignment explanation
Indices: 62430--62536 Score: 108
Period size: 20 Copynumber: 5.3 Consensus size: 20
62420 ATAACACTTG
62430 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* * *
62450 ATCGTAACGCAATTCGGACT
1 ATCGCAACGCGATTCTGACT
* **
62470 ATCGCAACACGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
**
62490 GATCGCAACATGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
62511 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
62531 AACGCA
1 ATCGCA
62537 TCACTGAATT
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
19 2 0.03
20 51 0.74
21 14 0.20
22 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:62531 original size:61 final size:61
Alignment explanation
Indices: 62409--62536 Score: 175
Period size: 61 Copynumber: 2.1 Consensus size: 61
62399 GAATATGTAA
* * * *
62409 ATCGCAACGCGATAACACTTGATCGCAACGCGATTCTGACTATCGTAACGCAATTCGGACT
1 ATCGCAACACGATAACACGTGATCGCAACACGATTCTGACTATCGCAACGCAATTCGGACT
* * * *
62470 ATCGCAACACGATAATACGTGATCGCAACATGATTCTGACTATCGCAACGCGATTCTGACT
1 ATCGCAACACGATAACACGTGATCGCAACACGATTCTGACTATCGCAACGCAATTCGGACT
*
62531 AACGCA
1 ATCGCA
62537 TCACTGAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (61 bp):
ATCGCAACACGATAACACGTGATCGCAACACGATTCTGACTATCGCAACGCAATTCGGACT
Found at i:63408 original size:24 final size:24
Alignment explanation
Indices: 63357--63410 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
63347 GTATTCGAAA
*
63357 TTTGATCTTCGTCAATACCCGGAC
1 TTTGATCTTCGTCAATACCCAGAC
* * *
63381 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTCGTCAATACCCAGAC
63405 TTTGAT
1 TTTGAT
63411 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (24 bp):
TTTGATCTTCGTCAATACCCAGAC
Found at i:63622 original size:13 final size:13
Alignment explanation
Indices: 63606--63637 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
63596 AGAAGAATAA
63606 AAAATCCCCGAAG
1 AAAATCCCCGAAG
63619 AAAAGTCCCCGAAG
1 AAAA-TCCCCGAAG
63633 AAAAT
1 AAAAT
63638 ACCACGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.50, C:0.25, G:0.16, T:0.09
Consensus pattern (13 bp):
AAAATCCCCGAAG
Found at i:65661 original size:18 final size:18
Alignment explanation
Indices: 65628--65662 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65618 AGCAAAAGGC
**
65628 AATCAAAATCGTAATCAA
1 AATCAAAATCCCAATCAA
65646 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
65663 CAACCGGCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:65865 original size:20 final size:20
Alignment explanation
Indices: 65840--66080 Score: 222
Period size: 20 Copynumber: 12.7 Consensus size: 20
65830 CACATTCATT
65840 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
65860 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
*
65880 TGACTATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
65897 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
* *
65914 TGACTATCGTAACGCGAATT
1 TGACTATCGCAACGCGAATA
* *
65934 TGACTATCACAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
65951 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
* *
65968 TGAAC-ATTGCAACGCGAAAA
1 TG-ACTATCGCAACGCGAATA
* *
65988 TGACTATCGCAATGCGAATT
1 TGACTATCGCAACGCGAATA
66008 TGACTATCGCAACGCGAA-A
1 TGACTATCGCAACGCGAATA
*
66027 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * *
66047 TGATTATCGCAACGGGAATT
1 TGACTATCGCAACGCGAATA
66067 TGACTATCGCAACG
1 TGACTATCGCAACG
66081 AGAAAATCGC
Statistics
Matches: 181, Mismatches: 26, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
14 15 0.08
15 2 0.01
16 2 0.01
17 7 0.04
18 1 0.01
19 23 0.13
20 131 0.72
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:65911 original size:54 final size:54
Alignment explanation
Indices: 65845--66063 Score: 253
Period size: 54 Copynumber: 4.0 Consensus size: 54
65835 TCATTTGACT
*
65845 ATCGCAACGCGAATATGACTATCGCAACGCGAATATGACTATCGCAACGGGATA
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAATATGACTATCGCAACGGGATA
* * * *
65899 ATCGCAATGCGAAAATGACTATCGTAACGCGAATTTGACTATCACAACGGGATA
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAATATGACTATCGCAACGGGATA
* * * * *
65953 ATCGCAATGCGAAAATGAAC-ATTGCAACGCGAAAATGACTATCGCAATGCGAATTTGA
1 ATCGCAACGCGAAAATG-ACTATCGCAACGCGAATATGACTATCGCAACG-GGA--T-A
* *
66011 CTATCGCAACGCG-AAATGACTATCGCAACGCGAATTTGATTATCGCAACGGGA
1 --ATCGCAACGCGAAAATGACTATCGCAACGCGAATATGACTATCGCAACGGGA
66064 ATTTGACTAT
Statistics
Matches: 138, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
54 89 0.64
55 4 0.03
57 1 0.01
58 5 0.04
59 29 0.21
60 10 0.07
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (54 bp):
ATCGCAACGCGAAAATGACTATCGCAACGCGAATATGACTATCGCAACGGGATA
Found at i:66266 original size:30 final size:30
Alignment explanation
Indices: 66230--66295 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
66220 TTAAACAAGC
66230 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
*
66260 ATAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
66290 ACAAAT
1 ACAAAT
66296 CAACTCTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACATCAATTAA
Found at i:67720 original size:21 final size:21
Alignment explanation
Indices: 67660--67777 Score: 92
Period size: 21 Copynumber: 5.6 Consensus size: 21
67650 GTGAATCGGG
* * *
67660 CTCTAGAATGTTGGGAGGGAC
1 CTCTTGAATGATGGGAGGGGC
* * **
67681 CTCTTCAACGATGATAGGGGC
1 CTCTTGAATGATGGGAGGGGC
* *
67702 CTCTTGAATGGTGGGAGGGGA
1 CTCTTGAATGATGGGAGGGGC
** **
67723 CTCTTGAGGGATGATAGGGGC
1 CTCTTGAATGATGGGAGGGGC
* *
67744 CTCTTGAATGATAGGAGAGGC
1 CTCTTGAATGATGGGAGGGGC
*
67765 CTCTTGAACGATG
1 CTCTTGAATGATG
67778 ACAGGTGAGT
Statistics
Matches: 70, Mismatches: 27, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 70 1.00
ACGTcount: A:0.23, C:0.16, G:0.36, T:0.25
Consensus pattern (21 bp):
CTCTTGAATGATGGGAGGGGC
Found at i:67727 original size:42 final size:42
Alignment explanation
Indices: 67660--67778 Score: 141
Period size: 42 Copynumber: 2.8 Consensus size: 42
67650 GTGAATCGGG
* * *
67660 CTCTAGAATGTTGGGA-GGGACCTCTTCAACGATGATAGGGGC
1 CTCTTGAATGATGGGAGGGGA-CTCTTGAACGATGATAGGGGC
* **
67702 CTCTTGAATGGTGGGAGGGGACTCTTGAGGGATGATAGGGGC
1 CTCTTGAATGATGGGAGGGGACTCTTGAACGATGATAGGGGC
* * *
67744 CTCTTGAATGATAGGAGAGGCCTCTTGAACGATGA
1 CTCTTGAATGATGGGAGGGGACTCTTGAACGATGA
67779 CAGGTGAGTC
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 61 0.94
43 4 0.06
ACGTcount: A:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (42 bp):
CTCTTGAATGATGGGAGGGGACTCTTGAACGATGATAGGGGC
Found at i:68283 original size:20 final size:20
Alignment explanation
Indices: 68258--68302 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
68248 GAATAGTTTC
68258 TGAAACTTAAAATCGCAACA
1 TGAAACTTAAAATCGCAACA
68278 TGAAACTTAAAATCGCAACA
1 TGAAACTTAAAATCGCAACA
*
68298 CGAAA
1 TGAAA
68303 ATGATTATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.51, C:0.20, G:0.11, T:0.18
Consensus pattern (20 bp):
TGAAACTTAAAATCGCAACA
Found at i:68312 original size:20 final size:20
Alignment explanation
Indices: 68289--68383 Score: 111
Period size: 20 Copynumber: 4.8 Consensus size: 20
68279 GAAACTTAAA
* *
68289 ATCGCAACACGAAAATGATT
1 ATCGCAACGCGAAAATGACT
**
68309 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
**
68329 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
68349 ATCGCAACGTG-AAATGACT
1 ATCGCAACGCGAAAATGACT
*
68368 ATCGCAACGAGAAAAT
1 ATCGCAACGCGAAAAT
68384 CGCAACGCGA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
19 16 0.24
20 50 0.76
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:68464 original size:20 final size:20
Alignment explanation
Indices: 68439--68522 Score: 72
Period size: 20 Copynumber: 4.5 Consensus size: 20
68429 GCGATTATCC
68439 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
***
68459 CGTTGCGATAGTCGTTTTCG
1 CGTTGCGATAGTCAAATTCG
* * *
68479 CATTCCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
68493 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
68513 CGTTGCGATA
1 CGTTGCGATA
68523 ATCATTTTCG
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
14 9 0.19
16 1 0.02
18 1 0.02
19 1 0.02
20 36 0.75
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:68488 original size:54 final size:54
Alignment explanation
Indices: 68398--68532 Score: 225
Period size: 54 Copynumber: 2.5 Consensus size: 54
68388 ACGCGAAACT
* * *
68398 AAATTCACGTTGCGATAGTCATTTTCACATTGCGATTATCCCGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTCATTTTCGCATTCCGATTATCCCGTTGCGATAGTC
*
68452 AAATTCGCGTTGCGATAGTCGTTTTCGCATTCCGATTATCCCGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTCATTTTCGCATTCCGATTATCCCGTTGCGATAGTC
*
68506 AAATTCGCGTTGCGATAATCATTTTCG
1 AAATTCGCGTTGCGATAGTCATTTTCG
68533 TGTTGCGACT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (54 bp):
AAATTCGCGTTGCGATAGTCATTTTCGCATTCCGATTATCCCGTTGCGATAGTC
Found at i:68532 original size:20 final size:20
Alignment explanation
Indices: 68493--68540 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
68483 CCGATTATCC
*
68493 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAATCAAATTCG
**
68513 CGTTGCGATAATCATTTTCG
1 CGTTGCGATAATCAAATTCG
*
68533 TGTTGCGA
1 CGTTGCGA
68541 CTATTCTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAATCAAATTCG
Found at i:68924 original size:21 final size:21
Alignment explanation
Indices: 68909--68956 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
68899 ACTACCATCT
68909 CACGTAGAGCCGCTACCTCAC
1 CACGTAGAGCCGCTACCTCAC
68930 CACGTAGAGCCGCTACCTCAC
1 CACGTAGAGCCGCTACCTCAC
68951 CACGTA
1 CACGTA
68957 AAGTAGATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.42, G:0.19, T:0.15
Consensus pattern (21 bp):
CACGTAGAGCCGCTACCTCAC
Found at i:68931 original size:26 final size:23
Alignment explanation
Indices: 68900--68956 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 23
68890 TACAACGATA
68900 CTACCATCTCACGTAGAGCCGCTAC
1 CTACCA-C-CACGTAGAGCCGCTAC
68925 CT--CACCACGTAGAGCCGCTAC
1 CTACCACCACGTAGAGCCGCTAC
68946 CT--CACCACGTA
1 CTACCACCACGTA
68957 AAGTAGATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 27 0.84
22 1 0.03
23 2 0.06
25 2 0.06
ACGTcount: A:0.25, C:0.42, G:0.16, T:0.18
Consensus pattern (23 bp):
CTACCACCACGTAGAGCCGCTAC
Found at i:68967 original size:21 final size:21
Alignment explanation
Indices: 68922--68969 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
68912 GTAGAGCCGC
* * *
68922 TACCTCACCACGTAGAGCCGC
1 TACCTCACCACGTAAAGCAGA
*
68943 TACCTCACCACGTAAAGTAGA
1 TACCTCACCACGTAAAGCAGA
68964 TACCTC
1 TACCTC
68970 CTCACGCCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.38, G:0.15, T:0.19
Consensus pattern (21 bp):
TACCTCACCACGTAAAGCAGA
Found at i:70461 original size:20 final size:20
Alignment explanation
Indices: 70438--70493 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
70428 TCTGAAACTT
*
70438 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
70458 AAAATCGCAACGCGAAAATG
1 AAAATCGCAACGCGAAAATG
**
70478 ATTATCGCAACGCGAA
1 AAAATCGCAACGCGAA
70494 TTTGACTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:70503 original size:20 final size:20
Alignment explanation
Indices: 70441--70506 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
70431 GAAACTTAAA
* **
70441 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
70461 ATCGCAACGCGAAAATGATT
1 ATCGCAACGCGAAAATGACT
**
70481 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
70501 ATCGCA
1 ATCGCA
70507 TCGAGATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:70909 original size:22 final size:22
Alignment explanation
Indices: 70884--70944 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
70874 GAGATAGACG
*
70884 GATTTCGTCGAAGATGGGGATA
1 GATTTCGTCGAAGATGGGGACA
* *
70906 GATTTCGCCGGAA-ATTGGGACA
1 GATTTCGTC-GAAGATGGGGACA
*
70928 GATTTCGTCGGAGATGG
1 GATTTCGTCGAAGATGG
70945 AGACGGATGT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
21 2 0.06
22 26 0.84
23 3 0.10
ACGTcount: A:0.25, C:0.13, G:0.36, T:0.26
Consensus pattern (22 bp):
GATTTCGTCGAAGATGGGGACA
Found at i:71146 original size:20 final size:20
Alignment explanation
Indices: 71121--71217 Score: 124
Period size: 20 Copynumber: 4.8 Consensus size: 20
71111 TTATCGCAAC
*
71121 GCGATAGTCAGAATCTCGTT
1 GCGATAGTCAGAATCGCGTT
71141 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
**
71161 GCGATCACGT-ATTATCGCGTT
1 GCGAT-A-GTCAGAATCGCGTT
*
71182 GCGATAGTCCGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
*
71202 GCGATAGTCAAAATCG
1 GCGATAGTCAGAATCG
71218 TTTCGCGATC
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.03
20 47 0.71
21 15 0.23
22 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (20 bp):
GCGATAGTCAGAATCGCGTT
Found at i:71240 original size:61 final size:61
Alignment explanation
Indices: 71121--71247 Score: 184
Period size: 61 Copynumber: 2.1 Consensus size: 61
71111 TTATCGCAAC
* * *
71121 GCGATAGTCAGAATCTCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGTT
1 GCGATAGTCAGAATCGCGTTGCGATAGTCAAAATCGCGTTGCGATCAAGTATTATCGCGTT
* * *
71182 GCGATAGTCCGAATCGCGTTGCGATAGTCAAAATCG-TTTCGCGATCAAGTGTTATCGCGTT
1 GCGATAGTCAGAATCGCGTTGCGATAGTCAAAATCGCGTT-GCGATCAAGTATTATCGCGTT
71243 GCGAT
1 GCGAT
71248 TTACATATTC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
60 2 0.03
61 57 0.97
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (61 bp):
GCGATAGTCAGAATCGCGTTGCGATAGTCAAAATCGCGTTGCGATCAAGTATTATCGCGTT
Found at i:71264 original size:20 final size:20
Alignment explanation
Indices: 71236--71288 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
71226 TCAAGTGTTA
*
71236 TCGCGTTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
71256 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
* *
71276 TCACATTACGATT
1 TCGCATTGCGATT
71289 ATCTAAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:71479 original size:21 final size:21
Alignment explanation
Indices: 71453--71496 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
71443 AGTTAAAATC
71453 GTATATTATAAGGAATTTTCG
1 GTATATTATAAGGAATTTTCG
71474 GTATATTATAAGGAATTTTCG
1 GTATATTATAAGGAATTTTCG
71495 GT
1 GT
71497 TGTGTTAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (21 bp):
GTATATTATAAGGAATTTTCG
Found at i:76463 original size:24 final size:24
Alignment explanation
Indices: 76430--76486 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
76420 TTTTTTCTCG
*
76430 AGGAATGAGCTATGGAATTTGCAT
1 AGGAAGGAGCTATGGAATTTGCAT
76454 AGGAAGGAGCTATGGAATTTGCAT
1 AGGAAGGAGCTATGGAATTTGCAT
76478 AGGAAGGAG
1 AGGAAGGAG
76487 GAGAGGATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.35, C:0.07, G:0.35, T:0.23
Consensus pattern (24 bp):
AGGAAGGAGCTATGGAATTTGCAT
Done.