Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002588.1 Hibiscus syriacus cultivar Beakdansim tig00005239_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: 93969
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Found at i:1993 original size:21 final size:22
Alignment explanation
Indices: 1967--2009 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1957 GAGTCGAGGG
*
1967 TCTACG-CGTCTTTCGGGACAT
1 TCTACGTCGTCCTTCGGGACAT
*
1988 TCTACGTGGTCCTTCGGGACAT
1 TCTACGTCGTCCTTCGGGACAT
2010 ATATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.14, C:0.28, G:0.26, T:0.33
Consensus pattern (22 bp):
TCTACGTCGTCCTTCGGGACAT
Found at i:6521 original size:21 final size:22
Alignment explanation
Indices: 6473--6522 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
6463 TATTTTATAT
6473 ATTTTATATTTTTTTATTGAAA
1 ATTTTATATTTTTTTATTGAAA
*
6495 A-ATTAT-TTTTTTCTATT-AAA
1 ATTTTATATTTTTT-TATTGAAA
6515 ATTTTATA
1 ATTTTATA
6523 AGTTCAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
20 10 0.43
21 12 0.52
22 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (22 bp):
ATTTTATATTTTTTTATTGAAA
Found at i:7880 original size:5 final size:5
Alignment explanation
Indices: 7870--7894 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7860 GATTGTAAGA
7870 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
7895 GATTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:13507 original size:23 final size:23
Alignment explanation
Indices: 13477--13522 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
13467 ATCGCAGAAG
13477 AAGTCTTCAGTTAAGGCGTGGGC
1 AAGTCTTCAGTTAAGGCGTGGGC
13500 AAGTCTTCAGTTAAGGCGTGGGC
1 AAGTCTTCAGTTAAGGCGTGGGC
13523 GCGCCTTGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (23 bp):
AAGTCTTCAGTTAAGGCGTGGGC
Found at i:15567 original size:18 final size:19
Alignment explanation
Indices: 15527--15567 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
15517 TGGCATCATC
15527 TAAAATATTTAAAAATAGA
1 TAAAATATTTAAAAATAGA
* *
15546 -AAAATA-TTAGAAATGGA
1 TAAAATATTTAAAAATAGA
15563 TAAAA
1 TAAAA
15568 AAAATTAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (19 bp):
TAAAATATTTAAAAATAGA
Found at i:17418 original size:18 final size:18
Alignment explanation
Indices: 17395--17479 Score: 143
Period size: 18 Copynumber: 4.7 Consensus size: 18
17385 GTTTACCTAT
*
17395 GTCCTTCGGGACATAGTG
1 GTCCTTCGGGACACAGTG
17413 GTCCTTCGGGACACAGTG
1 GTCCTTCGGGACACAGTG
17431 GTCCTTCGGGACACAGTG
1 GTCCTTCGGGACACAGTG
*
17449 GTCCTTTGGGACACAGTG
1 GTCCTTCGGGACACAGTG
*
17467 GTCCTTCAGGACA
1 GTCCTTCGGGACA
17480 AATTCTACGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.25
Consensus pattern (18 bp):
GTCCTTCGGGACACAGTG
Found at i:20820 original size:32 final size:31
Alignment explanation
Indices: 20737--20825 Score: 135
Period size: 31 Copynumber: 2.8 Consensus size: 31
20727 GAGCCGAGGG
20737 TTTACCTATGTCCTTCGGGACATATGGACAA
1 TTTACCTATGTCCTTCGGGACATATGGACAA
20768 TTTACCTATGTCCTTCGGGACATATGGAC-A
1 TTTACCTATGTCCTTCGGGACATATGGACAA
* *
20798 TGATTACATATGTCCTTTGGGACATATG
1 T--TTACCTATGTCCTTCGGGACATATG
20826 AATAGTGGTC
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
30 2 0.04
31 29 0.54
32 23 0.43
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (31 bp):
TTTACCTATGTCCTTCGGGACATATGGACAA
Found at i:20850 original size:18 final size:18
Alignment explanation
Indices: 20827--20863 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
20817 GGACATATGA
20827 ATAGTGGTCCTTCGGGAC
1 ATAGTGGTCCTTCGGGAC
* *
20845 ATAGTGGTCTTTCGTGAC
1 ATAGTGGTCCTTCGGGAC
20863 A
1 A
20864 AATTTTTCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.32
Consensus pattern (18 bp):
ATAGTGGTCCTTCGGGAC
Found at i:22439 original size:20 final size:20
Alignment explanation
Indices: 22416--22459 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
22406 TACATCGCGT
22416 CATCATGATGTCCATCGATG
1 CATCATGATGTCCATCGATG
* * *
22436 CATCCTGTTGTGCATCGATG
1 CATCATGATGTCCATCGATG
22456 CATC
1 CATC
22460 CTGCTGTGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.32
Consensus pattern (20 bp):
CATCATGATGTCCATCGATG
Found at i:22460 original size:20 final size:20
Alignment explanation
Indices: 22428--22477 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
22418 TCATGATGTC
*
22428 CATCGATGCATCCTGTTGTG
1 CATCGATGCATCCTGCTGTG
22448 CATCGATGCATCCTGCTGTG
1 CATCGATGCATCCTGCTGTG
*
22468 CATCCATGCA
1 CATCGATGCA
22478 CGAAGGCTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.18, C:0.30, G:0.22, T:0.30
Consensus pattern (20 bp):
CATCGATGCATCCTGCTGTG
Found at i:29868 original size:20 final size:19
Alignment explanation
Indices: 29843--29972 Score: 78
Period size: 20 Copynumber: 6.9 Consensus size: 19
29833 AACATGCCAC
29843 TAGTGCATCGATGCACCATG
1 TAGTGCATCGATGCACC-TG
* * *
29863 TAGTGCATCCATG-AACTC
1 TAGTGCATCGATGCACCTG
* *
29881 TA-T--TTCGAATGCA-AT-
1 TAGTGCATCG-ATGCACCTG
29896 TAGTGCATCGATGCATCCTG
1 TAGTGCATCGATGCA-CCTG
29916 CTA-TGCATCGATGCATCCTG
1 -TAGTGCATCGATGCA-CCTG
*
29936 TTGTGCATCGATGCATCCTG
1 TAGTGCATCGATGCA-CCTG
*
29956 -ATGTGCATCCATGCACC
1 TA-GTGCATCGATGCACC
29973 AAGGCTGTAA
Statistics
Matches: 88, Mismatches: 11, Indels: 23
0.72 0.09 0.19
Matches are distributed among these distances:
15 4 0.05
16 5 0.06
17 7 0.08
18 6 0.07
19 6 0.07
20 58 0.66
21 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (19 bp):
TAGTGCATCGATGCACCTG
Found at i:30880 original size:23 final size:23
Alignment explanation
Indices: 30836--30880 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
30826 TTTTATATAT
* * *
30836 TTTAAAATATAGTTAATATAAAA
1 TTTAAAATAAAATAAATATAAAA
*
30859 TTTAAAATAAAATAAATTTAAA
1 TTTAAAATAAAATAAATATAAA
30881 CAATTATTAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
TTTAAAATAAAATAAATATAAAA
Found at i:31216 original size:26 final size:26
Alignment explanation
Indices: 31186--31237 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
31176 AACACAAAGT
31186 AGACTTTAAAGTTCAAACTATGAAGC
1 AGACTTTAAAGTTCAAACTATGAAGC
31212 AGACTTTAAAGTTCAAACTATGAAGC
1 AGACTTTAAAGTTCAAACTATGAAGC
31238 TTAAGGAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (26 bp):
AGACTTTAAAGTTCAAACTATGAAGC
Found at i:31455 original size:40 final size:39
Alignment explanation
Indices: 31411--31528 Score: 96
Period size: 40 Copynumber: 2.9 Consensus size: 39
31401 TTTAGTTGTA
31411 TTTTTATACAAACGCCACAATAGGTCCATCTATAGTGGTG
1 TTTTTATACAAACGCCACAATAGGT-CATCTATAGTGGTG
* * * * * *
31451 TTTTTCA-ATAAACGCCGCAACAGATTAGTACTATAGCGGTG
1 TTTTT-ATACAAACGCCACAATAGGTCA-T-CTATAGTGGTG
* *
31492 -TTTTATACAAACGCCATAATAGGGTTCACCTATAGTG
1 TTTTTATACAAACGCCACAATA-GG-TCATCTATAGTG
31529 TTATTTTTTT
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
39 2 0.03
40 42 0.72
41 12 0.21
42 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (39 bp):
TTTTTATACAAACGCCACAATAGGTCATCTATAGTGGTG
Found at i:31605 original size:84 final size:83
Alignment explanation
Indices: 31412--31612 Score: 248
Period size: 84 Copynumber: 2.4 Consensus size: 83
31402 TTAGTTGTAT
* * * * *
31412 TTTTATACAAACGCCACAATA-GGTCCATCTATAGTG--GTGTTTTTCAATAAACGCCGCAACAG
1 TTTTATACAAACGCCATAATAGGGTTCACCTATAGTGTTATTTTTTTCAATAAACGCCGCAACAG
*
31474 ATTAGTACTATAGCGGTG
66 ATTAGAACTATAGCGGTG
* * *
31492 TTTTATACAAACGCCATAATAGGGTTCACCTATAGTGTTATTTTTTTCAATAAATGTCGTAACAG
1 TTTTATACAAACGCCATAATAGGGTTCACCTATAGTGTTATTTTTTTCAATAAACGCCGCAACAG
*
31557 ATTAGAACTTTAGCTGCGT-
66 ATTAGAACTATAGC-G-GTG
* *
31576 TTTTATACAAATGTCATAATAGGGTTCACCTATAGTG
1 TTTTATACAAACGCCATAATAGGGTTCACCTATAGTG
31613 GTTTTTTCTC
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
80 20 0.19
81 13 0.12
83 33 0.32
84 36 0.35
85 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (83 bp):
TTTTATACAAACGCCATAATAGGGTTCACCTATAGTGTTATTTTTTTCAATAAACGCCGCAACAG
ATTAGAACTATAGCGGTG
Found at i:33817 original size:23 final size:22
Alignment explanation
Indices: 33774--33818 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
33764 ATGCCAGAGG
*
33774 GGAACCGATACCCCCACAGGAA
1 GGAACCGATACCCCCAAAGGAA
* *
33796 GGAATCGATTCCCCCTAAAGGAA
1 GGAACCGATACCCCC-AAAGGAA
33819 AATGTTAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.36, C:0.31, G:0.22, T:0.11
Consensus pattern (22 bp):
GGAACCGATACCCCCAAAGGAA
Found at i:34976 original size:32 final size:32
Alignment explanation
Indices: 34935--35030 Score: 126
Period size: 32 Copynumber: 3.0 Consensus size: 32
34925 GAGTCGAGGG
34935 TTTACCTATGTTCTACGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
*
34967 TTTACCTATG-TCTTTC-GAGACATATGGACAG-
1 TTTACCTATGTTC-TACGGA-ACATATGGACAGT
* *
34998 TATACCTATGTTCTAAGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
35030 T
1 T
35031 ACCGAGGATC
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
31 26 0.47
32 29 0.53
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (32 bp):
TTTACCTATGTTCTACGGAACATATGGACAGT
Found at i:35117 original size:29 final size:30
Alignment explanation
Indices: 35022--35114 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
35012 AAGGAACATA
35022 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
35052 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * * *
35082 TGGATAGTTACCG-GGGTCTGTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
35111 TGGA
1 TGGA
35115 TAGGTCCTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 17 0.29
30 42 0.71
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:35397 original size:2 final size:2
Alignment explanation
Indices: 35387--35432 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
35377 GTATGTGTGG
* *
35387 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35429 AT AT
1 AT AT
35433 GAAAGGTGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38411 original size:23 final size:22
Alignment explanation
Indices: 38367--38411 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
38357 AATGCCAGAG
*
38367 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
* *
38389 GGGAATCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
38412 AAATGTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.31, C:0.31, G:0.27, T:0.11
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:39577 original size:32 final size:32
Alignment explanation
Indices: 39536--39631 Score: 126
Period size: 32 Copynumber: 3.0 Consensus size: 32
39526 GAGTCGAGGG
39536 TTTACCTATGTTCTACGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
*
39568 TTTACCTATG-TCTTTC-GAGACATATGGACAG-
1 TTTACCTATGTTC-TACGGA-ACATATGGACAGT
* *
39599 TATACCTATGTTCTAAGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
39631 T
1 T
39632 ACCGAGGATC
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
31 26 0.47
32 29 0.53
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (32 bp):
TTTACCTATGTTCTACGGAACATATGGACAGT
Found at i:39718 original size:29 final size:30
Alignment explanation
Indices: 39623--39715 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
39613 AAGGAACATA
39623 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
39653 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * * *
39683 TGGATAGTTACCG-GGGTCTGTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
39712 TGGA
1 TGGA
39716 TAGGTCCTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 17 0.29
30 42 0.71
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:39995 original size:2 final size:2
Alignment explanation
Indices: 39985--40060 Score: 134
Period size: 2 Copynumber: 38.0 Consensus size: 2
39975 GTATGTGTGG
*
39985 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
40027 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
40061 GAAAGGTGCA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41285 original size:272 final size:272
Alignment explanation
Indices: 40799--41343 Score: 1018
Period size: 272 Copynumber: 2.0 Consensus size: 272
40789 AAGGACCTGA
*
40799 TAGTAAAAAGTGTAATAGAGAAGCAGAATTTCTTCAAATAATTTTTTAAGAACCGTGACTTGGAG
1 TAGTAAAAAGTGTAATAGAGAAGCAGAATTTCTTCAAAGAATTTTTTAAGAACCGTGACTTGGAG
40864 GGGGAAGGGATCAATTGACCTTACTATTGGTGTGAGGTAAATGTTGCAATTAGATTTATTTAGAG
66 GGGGAAGGGATCAATTGACCTTACTATTGGTGTGAGGTAAATGTTGCAATTAGATTTATTTAGAG
*
40929 CTTGGTGGTAAATTTATAAATTTGGTATTGATGAAGGGGTTGGTTGCTAATGAAGAGTGTTGCTT
131 CTTGGTGGTAAATTTATAAATTTGGTATTGATGAAGGGGTTGGTTGCTAATGAAGAGTGTCGCTT
40994 CAGTTTGTTATGAATTCGTGAGAGGGTGTAATATTCTGTTGGTTGGTTTAGTTTATTTGTTGTCT
196 CAGTTTGTTATGAATTCGTGAGAGGGTGTAATATTCTGTTGGTTGGTTTAGTTTATTTGTTGTCT
41059 TATTTTGCATTG
261 TATTTTGCATTG
* *
41071 TAGTAAAAAGTGTAATAGAGAAGCATAATTTCTTCAAAGATTTTTTTAAGAACCGTGACTTGGAG
1 TAGTAAAAAGTGTAATAGAGAAGCAGAATTTCTTCAAAGAATTTTTTAAGAACCGTGACTTGGAG
*
41136 GGGGAAGGGATCAATTGACCTTACTGTTGGTGTGAGGTAAATGTTGCAATTAGATTTATTTAGAG
66 GGGGAAGGGATCAATTGACCTTACTATTGGTGTGAGGTAAATGTTGCAATTAGATTTATTTAGAG
* *
41201 CTTGGTGGTAAATTTATAAATTTGGTGTTGATGAAGGGGTTGGTTGCTAATGAAGAGTGTCGTTT
131 CTTGGTGGTAAATTTATAAATTTGGTATTGATGAAGGGGTTGGTTGCTAATGAAGAGTGTCGCTT
41266 CAGTTTGTTATGAATTCGTGAGAGGGTGTAATATTCTGTTGGTTGGTTTAGTTTATTTGTTGTCT
196 CAGTTTGTTATGAATTCGTGAGAGGGTGTAATATTCTGTTGGTTGGTTTAGTTTATTTGTTGTCT
*
41331 TATTTTGTATTG
261 TATTTTGCATTG
41343 T
1 T
41344 TGGTTTTTTA
Statistics
Matches: 265, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
272 265 1.00
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.40
Consensus pattern (272 bp):
TAGTAAAAAGTGTAATAGAGAAGCAGAATTTCTTCAAAGAATTTTTTAAGAACCGTGACTTGGAG
GGGGAAGGGATCAATTGACCTTACTATTGGTGTGAGGTAAATGTTGCAATTAGATTTATTTAGAG
CTTGGTGGTAAATTTATAAATTTGGTATTGATGAAGGGGTTGGTTGCTAATGAAGAGTGTCGCTT
CAGTTTGTTATGAATTCGTGAGAGGGTGTAATATTCTGTTGGTTGGTTTAGTTTATTTGTTGTCT
TATTTTGCATTG
Found at i:44716 original size:47 final size:47
Alignment explanation
Indices: 44647--44742 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
44637 TAACTCTATT
*
44647 GTTTGGTTCTGAATAAAATCATTCAGTGTTGAATGTTAAACCGTTTA
1 GTTTGGTTCTGAATAAAATCATTCAGTGTTGAATATTAAACCGTTTA
44694 GTTTGGTTCTGAATAAAATCATTCAGTGTTGAATATTAAACCGTTTA
1 GTTTGGTTCTGAATAAAATCATTCAGTGTTGAATATTAAACCGTTTA
44741 GT
1 GT
44743 GTTGATTGAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (47 bp):
GTTTGGTTCTGAATAAAATCATTCAGTGTTGAATATTAAACCGTTTA
Found at i:50300 original size:20 final size:20
Alignment explanation
Indices: 50277--50317 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
50267 TTGAAAATCG
*
50277 CATTGCGATAATACTGTTTA
1 CATTGCGATAATACTATTTA
*
50297 CATTGCGATAGTACTATTTA
1 CATTGCGATAATACTATTTA
50317 C
1 C
50318 TTATATCGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (20 bp):
CATTGCGATAATACTATTTA
Found at i:50349 original size:77 final size:77
Alignment explanation
Indices: 50222--50382 Score: 259
Period size: 77 Copynumber: 2.1 Consensus size: 77
50212 GAAATTCGCG
** * *
50222 TTGCGATAGTTGTGTTTACCTATATCGATAATTAGCGTTGCGAATTTGAAAATCGCATTGCGATA
1 TTGCGATAGTACTATTTACCTATATCGATAATTAACGTTGCGAATTTGAAAATCGCATTGCGATA
50287 ATACTGTTTACA
66 ATACTGTTTACA
* *
50299 TTGCGATAGTACTATTTACTTATATCGGTAATTAACGTTGCGAATTTGAAAATCGCATTGCGATA
1 TTGCGATAGTACTATTTACCTATATCGATAATTAACGTTGCGAATTTGAAAATCGCATTGCGATA
*
50364 GTACTGTTTACA
66 ATACTGTTTACA
50376 TTGCGAT
1 TTGCGAT
50383 TTTCAAATTC
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (77 bp):
TTGCGATAGTACTATTTACCTATATCGATAATTAACGTTGCGAATTTGAAAATCGCATTGCGATA
ATACTGTTTACA
Found at i:56897 original size:2 final size:2
Alignment explanation
Indices: 56892--56925 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
56882 TAAAAAATTA
56892 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56926 CTTATTTAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57632 original size:13 final size:13
Alignment explanation
Indices: 57614--57646 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
57604 TATAGTTAAA
57614 TTTTAAAC-TGCAC
1 TTTTAAACAT-CAC
57627 TTTTAAACATCAC
1 TTTTAAACATCAC
57640 TTTTAAA
1 TTTTAAA
57647 AGTTCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 18 0.95
14 1 0.05
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.42
Consensus pattern (13 bp):
TTTTAAACATCAC
Found at i:58409 original size:20 final size:20
Alignment explanation
Indices: 58384--58422 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
58374 CGACATTTGC
*
58384 TATAACATCGGGCGAACTCA
1 TATAACATCGGGCAAACTCA
58404 TATAACATCGGGCAAACTC
1 TATAACATCGGGCAAACTC
58423 GTCACCCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.21
Consensus pattern (20 bp):
TATAACATCGGGCAAACTCA
Found at i:61494 original size:15 final size:17
Alignment explanation
Indices: 61468--61499 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
61458 TTTTTTAAAA
61468 ATTTTAAACTTT-ATAT
1 ATTTTAAACTTTGATAT
61484 ATTTT-AACTTTGATAT
1 ATTTTAAACTTTGATAT
61500 TTAATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTTAAACTTTGATAT
Found at i:65438 original size:23 final size:23
Alignment explanation
Indices: 65383--65427 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
65373 TTACTGTTTG
* * *
65383 CAAATACGTTTGTTTAACGTTCA
1 CAAATATGTTCGTTTAACATTCA
65406 CAAATATGTTCGTTTAACATTC
1 CAAATATGTTCGTTTAACATTC
65428 GCTAAAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (23 bp):
CAAATATGTTCGTTTAACATTCA
Found at i:66902 original size:31 final size:31
Alignment explanation
Indices: 66806--66902 Score: 80
Period size: 31 Copynumber: 3.2 Consensus size: 31
66796 ATTAAATCCT
*
66806 TAAACTATGACTCTCATTCTAAATTAG-TCC
1 TAAACTATGAATCTCATTCTAAATTAGTTCC
* *
66836 TTAAACTTTTGAA---CATTCTAATTTCA-TCTCC
1 -TAAAC-TATGAATCTCATTCTAAATT-AGT-TCC
*
66867 -AAACTATGAATCTCATTCTAAATTGGTTCC
1 TAAACTATGAATCTCATTCTAAATTAGTTCC
66897 TAAACT
1 TAAACT
66903 TTTAGATCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
28 5 0.10
29 14 0.27
30 4 0.08
31 24 0.47
32 4 0.08
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (31 bp):
TAAACTATGAATCTCATTCTAAATTAGTTCC
Found at i:66919 original size:60 final size:60
Alignment explanation
Indices: 66747--66929 Score: 203
Period size: 60 Copynumber: 3.0 Consensus size: 60
66737 ATATATCTCT
* * ** **
66747 AAACTATG-ATCCTCATT-TCAAATTAGGCCTTAAACTTTTTAACATTCCAATTAAATCCTT
1 AAACTATGAAT-CTCATTCT-AAATTAGTCCTTAAACTTTTGAACATTCCAATTTCATCCCC
* * *
66807 AAACTATGACTCTCATTCTAAATTAGTCCTTAAACTTTTGAACATTCTAATTTCATCTCC
1 AAACTATGAATCTCATTCTAAATTAGTCCTTAAACTTTTGAACATTCCAATTTCATCCCC
* *
66867 AAACTATGAATCTCATTCTAAATTGGTTCC-TAAACTTTTAGATC-TTCCAATTTCATCCCC
1 AAACTATGAATCTCATTCTAAATTAG-TCCTTAAACTTTT-GAACATTCCAATTTCATCCCC
66927 AAA
1 AAA
66930 TCCATCCAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
60 97 0.92
61 8 0.08
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.38
Consensus pattern (60 bp):
AAACTATGAATCTCATTCTAAATTAGTCCTTAAACTTTTGAACATTCCAATTTCATCCCC
Found at i:67231 original size:59 final size:59
Alignment explanation
Indices: 67121--67233 Score: 136
Period size: 59 Copynumber: 1.9 Consensus size: 59
67111 ACAATTTGGG
* * *
67121 GATGAAAATGAAAGGTTCAAAAGTTTGAGGACTAATCTAAAATAATAGTCATATTTTAT
1 GATGAAAATGAAAGGTTCAAAAGTTTAAGGACCAATCTAAAATAAGAGTCATATTTTAT
* * * * * * *
67180 GATGAAATTGAAATGTTTAAAAGTTTAAGGACCAATTTGAAATGAGGGTCATAT
1 GATGAAAATGAAAGGTTCAAAAGTTTAAGGACCAATCTAAAATAAGAGTCATAT
67234 ATTTGGGATG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
59 44 1.00
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.32
Consensus pattern (59 bp):
GATGAAAATGAAAGGTTCAAAAGTTTAAGGACCAATCTAAAATAAGAGTCATATTTTAT
Found at i:75313 original size:41 final size:43
Alignment explanation
Indices: 75223--75317 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 43
75213 AATTGATACT
* * * *
75223 TTAGCGGCGTTTTTAGTAAAAACGCTGCAATATAATTGACATA
1 TTAGCGGCGTTTTTACTAAAAACGCCGCAATATAAGTGACAAA
** *
75266 TT-GCGGCGTTTTT-CTAAAAACGCCGCAATA-GGGTGATAAA
1 TTAGCGGCGTTTTTACTAAAAACGCCGCAATATAAGTGACAAA
75306 TTAGCGGCGTTT
1 TTAGCGGCGTTT
75318 ATATCACAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
40 7 0.16
41 24 0.55
42 11 0.25
43 2 0.05
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
TTAGCGGCGTTTTTACTAAAAACGCCGCAATATAAGTGACAAA
Found at i:75355 original size:83 final size:83
Alignment explanation
Indices: 75266--75463 Score: 209
Period size: 83 Copynumber: 2.4 Consensus size: 83
75256 AATTGACATA
** * * * * *
75266 TTGCGGCGTTTTTCTAAAAACGCCGCAATAGGGTGATAAATTAGCGGCGTTTATATCACAAACAC
1 TTGCGGCGTTTAACTCAAAACGCCGCAATAGAGTGATAAACTAGCAGCGTTTATACCACAAACAC
** *
75331 TTCAATAGATTATAAATT
66 CACAATAGAGTATAAATT
* * * * * *
75349 TTGCGGCGATTTAGC-CAAAACGCCGCAATATAGTGGTAAACTGGCAGCGTTTTTACCACAAACG
1 TTGCGGCG-TTTAACTCAAAACGCCGCAATAGAGTGATAAACTAGCAGCGTTTATACCACAAACA
75413 CCACAATAGAGTATAAATT
65 CCACAATAGAGTATAAATT
* * *
75432 TTGCGGCGATTGAGTCAAAACGCCGCAATAGA
1 TTGCGGCGTTTAACTCAAAACGCCGCAATAGA
75464 TCGGTAAATT
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
82 2 0.02
83 87 0.94
84 4 0.04
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (83 bp):
TTGCGGCGTTTAACTCAAAACGCCGCAATAGAGTGATAAACTAGCAGCGTTTATACCACAAACAC
CACAATAGAGTATAAATT
Found at i:75378 original size:41 final size:41
Alignment explanation
Indices: 75333--75464 Score: 124
Period size: 41 Copynumber: 3.2 Consensus size: 41
75323 ACAAACACTT
75333 CAATAGATTATAAATTTTGCGGCGATTTAGCCAAAACGCCG
1 CAATAGATTATAAATTTTGCGGCGATTTAGCCAAAACGCCG
* ** * * * * *
75374 CAATATAGTGGTAAA-CTGGCAGCGTTTTTA-CCACAAACGCCA
1 CAATAGA-TTATAAATTTTGCGGCG-ATTTAGCCA-AAACGCCG
* * *
75416 CAATAGAGTATAAATTTTGCGGCGATTGAGTCAAAACGCCG
1 CAATAGATTATAAATTTTGCGGCGATTTAGCCAAAACGCCG
75457 CAATAGAT
1 CAATAGAT
75465 CGGTAAATTG
Statistics
Matches: 66, Mismatches: 20, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
41 36 0.55
42 30 0.45
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (41 bp):
CAATAGATTATAAATTTTGCGGCGATTTAGCCAAAACGCCG
Found at i:75470 original size:83 final size:83
Alignment explanation
Indices: 75333--75503 Score: 236
Period size: 83 Copynumber: 2.1 Consensus size: 83
75323 ACAAACACTT
* * *
75333 CAATAGATTATAAATTTTGCGGCGATTTAGCCAAAACGCCGCAATATAGTGGTAAACTGGCAGCG
1 CAATAGAGTATAAATTTTGCGGCGATTGAGCCAAAACGCCGCAATAGAGTGGTAAACTGGCAGCG
* * *
75398 TTTTTACCACAAACGCCA
66 TTTTGACAAAAAACGCCA
* * *
75416 CAATAGAGTATAAATTTTGCGGCGATTGAGTCAAAACGCCGCAATAGA-TCGGTAAATTGGCGGC
1 CAATAGAGTATAAATTTTGCGGCGATTGAGCCAAAACGCCGCAATAGAGT-GGTAAACTGGCAGC
*
75480 GTTTTGACAAAAAACGCCG
65 GTTTTGACAAAAAACGCCA
75499 CAATA
1 CAATA
75504 TATTACAAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
82 1 0.01
83 76 0.99
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (83 bp):
CAATAGAGTATAAATTTTGCGGCGATTGAGCCAAAACGCCGCAATAGAGTGGTAAACTGGCAGCG
TTTTGACAAAAAACGCCA
Found at i:82452 original size:21 final size:21
Alignment explanation
Indices: 82434--82497 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
82424 ATGAAGCAAG
*
82434 GGAAACAGAGAGAGCAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
**
82455 GGAAGCAGCTAGAGCAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
*
82476 GGAAGCAGAGAGAGAAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
82497 G
1 G
82498 CAGCACAGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.39, C:0.19, G:0.41, T:0.02
Consensus pattern (21 bp):
GGAAGCAGAGAGAGCAGCAGC
Found at i:82934 original size:43 final size:43
Alignment explanation
Indices: 82883--83050 Score: 136
Period size: 43 Copynumber: 3.9 Consensus size: 43
82873 GTTTTTGATA
*
82883 AAAACGCCGC-AAATCTCAATACATATTCTGCGGCGTTTGTAAG
1 AAAACGCCGCTAAATATCAATACATATT-TGCGGCGTTTGTAAG
* * * * *
82926 AAAACGCCGGTAAAAAT-AA-AAATCTACTGCGGCGTTTTTGT-AG
1 AAAACGCCGCTAAATATCAATACATAT-TTGCGGCG--TTTGTAAG
* *
82969 AAAACGCCGCTAAACATCAACGAC-TA-TTGCGGCGTTT-TAATG
1 AAAACGCCGCTAAATATCAA-TACATATTTGCGGCGTTTGTAA-G
*
83011 ATAAACGCCGCTAAATATCAATACCT-TTTGCGGCGTTTGT
1 A-AAACGCCGCTAAATATCAATACATATTTGCGGCGTTTGT
83051 TGAACAATCG
Statistics
Matches: 99, Mismatches: 13, Indels: 25
0.72 0.09 0.18
Matches are distributed among these distances:
40 1 0.01
41 4 0.04
42 15 0.15
43 65 0.66
44 12 0.12
45 1 0.01
46 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (43 bp):
AAAACGCCGCTAAATATCAATACATATTTGCGGCGTTTGTAAG
Found at i:83017 original size:86 final size:86
Alignment explanation
Indices: 82868--83025 Score: 202
Period size: 86 Copynumber: 1.8 Consensus size: 86
82858 CATACAGTTA
*
82868 GCGGCGTTTTTGATAAAAACGCCGCAAATCTCAATACATATTCTGCGGCGTTTGTAAGAAAACGC
1 GCGGCGTTTTTGATAAAAACGCCGCAAATCTCAAGACATATTCTGCGGCGTTTGTAAGAAAACGC
*
82933 CGGTAAAAATAAAAATCTACT
66 CGCTAAAAATAAAAATCTACT
82954 GCGGCGTTTTTG-TAGAAAACGCCGCTAAA-CATCAACGAC-TA-T-TGCGGCGTTT-TAATGAT
1 GCGGCGTTTTTGATA-AAAACGCCGC-AAATC-TCAA-GACATATTCTGCGGCGTTTGTAA-GA-
83013 AAACGCCGCTAAA
60 AAACGCCGCTAAA
83026 TATCAATACC
Statistics
Matches: 64, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
84 3 0.05
85 14 0.22
86 36 0.56
87 9 0.14
88 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (86 bp):
GCGGCGTTTTTGATAAAAACGCCGCAAATCTCAAGACATATTCTGCGGCGTTTGTAAGAAAACGC
CGCTAAAAATAAAAATCTACT
Found at i:83043 original size:86 final size:86
Alignment explanation
Indices: 82868--83053 Score: 195
Period size: 86 Copynumber: 2.2 Consensus size: 86
82858 CATACAGTTA
*
82868 GCGGCGTTTTTGATAAAAACGCCGCAAATCTCAATACATATTCTGCGGCGTTTGTAAGAAAACGC
1 GCGGCGTTTTTGATAAAAACGCCGCAAATCTCAAGACATATTCTGCGGCGTTTGTAAGAAAACGC
* *
82933 CGGTAAAAATAAAAATCTACT
66 CGCTAAAAATAAAAACCTACT
82954 GCGGCGTTTTTG-TAGAAAACGCCGCTAAA-CATCAACGAC-TA-T-TGCGGCGTTT-TAATGAT
1 GCGGCGTTTTTGATA-AAAACGCCGC-AAATC-TCAA-GACATATTCTGCGGCGTTTGTAA-GA-
* * * **
83013 AAACGCCGCTAAATATCAATACCTTTT
60 AAACGCCGCTAAAAATAAAAACCTACT
83040 GCGGCGTTTGTTGA
1 GCGGCGTTT-TTGA
83054 ACAATCGTCG
Statistics
Matches: 84, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
84 3 0.04
85 14 0.17
86 53 0.63
87 12 0.14
88 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (86 bp):
GCGGCGTTTTTGATAAAAACGCCGCAAATCTCAAGACATATTCTGCGGCGTTTGTAAGAAAACGC
CGCTAAAAATAAAAACCTACT
Found at i:83145 original size:15 final size:15
Alignment explanation
Indices: 83114--83173 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
83104 CGCCGCAAAC
* *
83114 TTTAGCGGCGCTATT
1 TTTAGCGGCGTTTTT
83129 TTTAGCGGCGTTTTT
1 TTTAGCGGCGTTTTT
*
83144 TTTA-CGCCGTATGTGTT
1 TTTAGCGGCGT-T-T-TT
83161 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
83174 AAAAACGCCG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
14 5 0.14
15 18 0.49
16 2 0.05
17 7 0.19
18 5 0.14
ACGTcount: A:0.10, C:0.17, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTAGCGGCGTTTTT
Found at i:86276 original size:89 final size:89
Alignment explanation
Indices: 86077--86439 Score: 355
Period size: 89 Copynumber: 4.0 Consensus size: 89
86067 GGTAAGACCT
* * ** * *
86077 TACGGA-CTTAAGGATATCCTTGGGTAGGCATATTGGCCCCAATTCATATTTTTAGGTTGGTTCT
1 TACGGATC-TAAGGATACCCTTAGGTAGGCATATT-GCCCCAAGGCATATCTTTAGGTTGGTTCC
86141 CTTTT-TTACTGTGTGCTTAAGGTAACCC
64 CTTTTGTTA---TGTGCTTAAGGTAACCC
86169 TACGGATCTAAGGATACCCTTAGGTAGGCATATTCGCCCCAAGGCATATCTTTA-GTTGGTTCCC
1 TACGGATCTAAGGATACCCTTAGGTAGGCATATT-GCCCCAAGGCATATCTTTAGGTTGGTTCCC
86233 TTTTGTTATGTGCTTAAGGTAACCC
65 TTTTGTTATGTGCTTAAGGTAACCC
* * *
86258 TACAGATCTAAGGATACCCTTTGGTAGGC-TATATGCCCCAAGGCATATCCTTAGGTTGGTTCCC
1 TACGGATCTAAGGATACCCTTAGGTAGGCATAT-TGCCCCAAGGCATATCTTTAGGTTGGTTCCC
* * * *
86322 -TTCGCTGTGTGCTGAAGGTAACCC
65 TTTTGTTATGTGCTTAAGGTAACCC
** * * ** *
86346 TACGGATCTAAGGATATACTTGGGTAGGCCCATA-GGCCCCAAGATATATCCTTAGGTTGGCTT-
1 TACGGATCTAAGGATACCCTTAGGTAGG--CATATTGCCCCAAGGCATATCTTTAGGTTGG-TTC
* * *
86409 TCTTTTATTGTGTGC-TAAGGGTAAGCCC
63 CCTTTTGTTATGTGCTTAA-GGTAA-CCC
86437 TAC
1 TAC
86440 AGATGTAGTT
Statistics
Matches: 234, Mismatches: 26, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
88 65 0.28
89 81 0.35
90 17 0.07
91 21 0.09
92 49 0.21
93 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (89 bp):
TACGGATCTAAGGATACCCTTAGGTAGGCATATTGCCCCAAGGCATATCTTTAGGTTGGTTCCCT
TTTGTTATGTGCTTAAGGTAACCC
Found at i:92776 original size:36 final size:39
Alignment explanation
Indices: 92736--92810 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
92726 TTAGTTGTTG
92736 TATGGT-AAAAAAAAGTG-T-TAGGCAACTTGCAGGATT
1 TATGGTAAAAAAAAAGTGTTATAGGCAACTTGCAGGATT
92772 TATGGTAAAAAAAAAGTGTTAGTAGGCAACTTGCAGGAT
1 TATGGTAAAAAAAAAGTGTTA-TAGGCAACTTGCAGGAT
92811 GCGTAGGGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
36 6 0.17
37 11 0.31
38 1 0.03
40 17 0.49
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (39 bp):
TATGGTAAAAAAAAAGTGTTATAGGCAACTTGCAGGATT
Found at i:93815 original size:7 final size:7
Alignment explanation
Indices: 93803--93830 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
93793 TGCTCCTGCT
93803 CGTCTCA
1 CGTCTCA
93810 CGTCTCA
1 CGTCTCA
93817 CGTCTCA
1 CGTCTCA
93824 CGTCTCA
1 CGTCTCA
93831 TCAAATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.43, G:0.14, T:0.29
Consensus pattern (7 bp):
CGTCTCA
Done.