Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008753.1 Hibiscus syriacus cultivar Beakdansim tig00111844_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: 32588
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Found at i:6965 original size:45 final size:46
Alignment explanation
Indices: 6868--6991 Score: 119
Period size: 45 Copynumber: 2.7 Consensus size: 46
6858 CTATTCGCAA
* *
6868 CTGTCTCTTTCTTAATCTTCTCAGCTGAGCTATTTACAGTCACGGC
1 CTGTCTCTTTCTTAATCTTCTCAGCTGAACTATTTACAGCCACGGC
* * * * *
6914 CT-TCTCTTTCTTCAT-TTCATCAGCTGAATTATTTGCTGCCATGG-
1 CTGTCTCTTTCTTAATCTTC-TCAGCTGAACTATTTACAGCCACGGC
* ** *
6958 CTGTCTCTTTGTTTTTCTTTTCAGCTGAACTATT
1 CTGTCTCTTTCTTAATCTTCTCAGCTGAACTATT
6992 CAGGCTCTCT
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
44 5 0.08
45 54 0.86
46 4 0.06
ACGTcount: A:0.15, C:0.25, G:0.14, T:0.46
Consensus pattern (46 bp):
CTGTCTCTTTCTTAATCTTCTCAGCTGAACTATTTACAGCCACGGC
Found at i:8059 original size:7 final size:7
Alignment explanation
Indices: 8047--8123 Score: 145
Period size: 7 Copynumber: 11.0 Consensus size: 7
8037 AGTAACCAAC
8047 CACAAAG
1 CACAAAG
8054 CACAAAG
1 CACAAAG
8061 CACAAAG
1 CACAAAG
8068 CACAAAG
1 CACAAAG
8075 CACAAAG
1 CACAAAG
8082 CACAAAG
1 CACAAAG
8089 CACAAAG
1 CACAAAG
8096 CACAAAG
1 CACAAAG
8103 CACAAAG
1 CACAAAG
8110 CACAAAG
1 CACAAAG
*
8117 AACAAAG
1 CACAAAG
8124 TAACACATTA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
7 69 1.00
ACGTcount: A:0.58, C:0.27, G:0.14, T:0.00
Consensus pattern (7 bp):
CACAAAG
Found at i:11550 original size:20 final size:20
Alignment explanation
Indices: 11525--11569 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
11515 TTATCCGGAA
*
11525 AAAAATCCAGTATGGGGTTT
1 AAAAATCCAGTATGAGGTTT
* *
11545 AAAAATCCGGTCTGAGGTTT
1 AAAAATCCAGTATGAGGTTT
11565 AAAAA
1 AAAAA
11570 ATTGGATGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (20 bp):
AAAAATCCAGTATGAGGTTT
Found at i:11627 original size:16 final size:17
Alignment explanation
Indices: 11596--11630 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11586 TTTTACCGGA
*
11596 TTAAAAACTGGTTTTTT
1 TTAAAAACCGGTTTTTT
11613 TTAAAAACCGGTTTTTT
1 TTAAAAACCGGTTTTTT
11630 T
1 T
11631 CAAACCGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (17 bp):
TTAAAAACCGGTTTTTT
Found at i:13460 original size:21 final size:21
Alignment explanation
Indices: 13434--13486 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
13424 ATATGTTAAT
13434 TGGGAGATGCATCATGCGGAA
1 TGGGAGATGCATCATGCGGAA
13455 TGGGAGATGCATCATGCGGAA
1 TGGGAGATGCATCATGCGGAA
*
13476 TGGGTGATGCA
1 TGGGAGATGCA
13487 CTAGATGACG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.26, C:0.13, G:0.40, T:0.21
Consensus pattern (21 bp):
TGGGAGATGCATCATGCGGAA
Found at i:15615 original size:2 final size:2
Alignment explanation
Indices: 15608--15639 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15598 AATTAGGCTA
15608 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
15640 TAATTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19730 original size:15 final size:15
Alignment explanation
Indices: 19710--19741 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19700 TGCATTAATT
19710 CCAAGGACAAGAAGA
1 CCAAGGACAAGAAGA
*
19725 CCAAGGACGAGAAGA
1 CCAAGGACAAGAAGA
19740 CC
1 CC
19742 TTTCGCAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.25, G:0.28, T:0.00
Consensus pattern (15 bp):
CCAAGGACAAGAAGA
Found at i:25314 original size:125 final size:125
Alignment explanation
Indices: 25092--25394 Score: 426
Period size: 125 Copynumber: 2.4 Consensus size: 125
25082 AGGATATATT
* ** *
25092 GGGGCACGACTGAACCCACATTATGTTGAGATGACAACTTTCAGACCAAGGAGGCATGAAGAATG
1 GGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGAAGGCATGAAGAATG
* * *
25157 AGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCATACTAGTATAAGATAATGTG
66 AGCCTTAAAATTTGAGGTGATGGGGCATTTTGAAGGCCCATACCAGTATAAGATAAGGTG
* *
25217 GGGGCATGACTGAACCCACATCATGTTGAGATGATAAGATTCAGACCAAGAAGGCATGAAGAATG
1 GGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGAAGGCATGAAGAATG
*** *
25282 AGCCTTAAAATTTGAGGTGATGGGGCATTTTGAAGGCTTGTACCAGTATAAGATAAGGTT
66 AGCCTTAAAATTTGAGGTGATGGGGCATTTTGAAGGCCCATACCAGTATAAGATAAGGTG
* * * * ** *
25342 GGGGAACGATTAAACCCACATCATGATGAGAAAACAAGATTCAAACCAAGAAG
1 GGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGAAG
25395 TCATTGAGAA
Statistics
Matches: 156, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
125 156 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.22
Consensus pattern (125 bp):
GGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGAAGGCATGAAGAATG
AGCCTTAAAATTTGAGGTGATGGGGCATTTTGAAGGCCCATACCAGTATAAGATAAGGTG
Found at i:26183 original size:36 final size:36
Alignment explanation
Indices: 26137--26363 Score: 232
Period size: 36 Copynumber: 6.3 Consensus size: 36
26127 GGGCAAGTCA
* * *
26137 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAAATA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATC
* * *
26173 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGC-GATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAAT-C
*
26209 AT-TTGAAGCCTTCACCAAAGAGTAGTGAAGC-AATC
1 ATCTT-AAGCCTTCACCGAAGAGTAGTGAAGCAAATC
* * * *
26244 ATCTTAAGACTTCACCAAAGAATGGTGAAGCAAA-C
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATC
* * *
26279 AATCTTAAGCCTTCACAGAAGAGTAGTGAA--ACACC
1 -ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATC
*
26314 ATCTTAAGTCTTCACCGAAGAGTAGTGAAGCAAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAAT-C
26351 ATCTGTAAGCCTT
1 ATCT-TAAGCCTT
26364 TAGAGCAAGA
Statistics
Matches: 161, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
34 29 0.18
35 32 0.20
36 88 0.55
37 5 0.03
38 7 0.04
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.24
Consensus pattern (36 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATC
Found at i:26289 original size:71 final size:71
Alignment explanation
Indices: 26135--26363 Score: 239
Period size: 71 Copynumber: 3.2 Consensus size: 71
26125 TGGGGCAAGT
*** * * * *
26135 CAATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAAATAATCTTAAGCCTTCACTGGAGAGTAGTG
1 CAATCTTAAGCCTTCACCAAAGAGTAGTGAAGC-AATCATCTTAAGACTTCACCGAAGAGTAGTG
* *
26200 AAGCGAT
65 AAGCAAA
* * * *
26207 CCAT-TTGAAGCCTTCACCAAAGAGTAGTGAAGCAATCATCTTAAGACTTCACCAAAGAATGGTG
1 CAATCTT-AAGCCTTCACCAAAGAGTAGTGAAGCAATCATCTTAAGACTTCACCGAAGAGTAGTG
26271 AAGCAAA
65 AAGCAAA
* * *
26278 CAATCTTAAGCCTTCA-CAGAAGAGTAGTGAAAC-ACCATCTTAAGTCTTCACCGAAGAGTAGTG
1 CAATCTTAAGCCTTCACCA-AAGAGTAGTGAAGCAATCATCTTAAGACTTCACCGAAGAGTAGTG
26341 AAGCAAA
65 AAGCAAA
*
26348 TCCATCTGTAAGCCTT
1 -CAATCT-TAAGCCTT
26364 TAGAGCAAGA
Statistics
Matches: 131, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
70 34 0.26
71 61 0.47
72 36 0.27
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.24
Consensus pattern (71 bp):
CAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAATCATCTTAAGACTTCACCGAAGAGTAGTGA
AGCAAA
Found at i:26354 original size:107 final size:108
Alignment explanation
Indices: 26161--26359 Score: 289
Period size: 107 Copynumber: 1.9 Consensus size: 108
26151 CTGGAGAGTA
* * * *
26161 GTGAAGCAAATAATCTTAAGCCTTCACTGGAGAGTAGTGAAGCGATCCATTTGAAGCCTTCACCA
1 GTGAAGCAAACAATCTTAAGCCTTCACAGAAGAGTAGTGAAACGATCCATTTGAAGCCTTCACCA
26226 AAGAGTAGTGAAGCAATCATCT-TAAGACTTCACCAAAGAATG
66 AAGAGTAGTGAAGCAATCATCTGTAAGACTTCACCAAAGAATG
*
26268 GTGAAGCAAACAATCTTAAGCCTTCACAGAAGAGTAGTGAAAC-A-CCATCTT-AAGTCTTCACC
1 GTGAAGCAAACAATCTTAAGCCTTCACAGAAGAGTAGTGAAACGATCCAT-TTGAAGCCTTCACC
*
26330 GAAGAGTAGTGAAGCAAATCCATCTGTAAG
65 AAAGAGTAGTGAAGC-AAT-CATCTGTAAG
26360 CCTTTAGAGC
Statistics
Matches: 82, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
105 28 0.34
106 6 0.07
107 44 0.54
108 4 0.05
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (108 bp):
GTGAAGCAAACAATCTTAAGCCTTCACAGAAGAGTAGTGAAACGATCCATTTGAAGCCTTCACCA
AAGAGTAGTGAAGCAATCATCTGTAAGACTTCACCAAAGAATG
Found at i:26575 original size:41 final size:41
Alignment explanation
Indices: 26525--26689 Score: 145
Period size: 41 Copynumber: 4.0 Consensus size: 41
26515 TCATTCGAGC
* *
26525 CATCAGTAAGTCTTT-CAGCATGATGCTTAAATCCTTCGGGT
1 CATCAGTAAGCCTTTACAGCATGATG-ATAAATCCTTCGGGT
* * * * *
26566 CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGC
1 CATCAGTAAGCCTTTACAGCATGATGATAAATCCTTCGGGT
* * * * *
26607 CATCAATAAGTCTTT-CGAGCATGATGCTTAAATCTTTCAGGT
1 CATCAGTAAGCCTTTAC-AGCATGATG-ATAAATCCTTCGGGT
* * * *
26649 CATCTGTAAGCCTTTAGAGCAGGATGATAAGTCCTTCGGGT
1 CATCAGTAAGCCTTTACAGCATGATGATAAATCCTTCGGGT
26690 AGGGTGTTTT
Statistics
Matches: 94, Mismatches: 26, Indels: 8
0.73 0.20 0.06
Matches are distributed among these distances:
41 56 0.60
42 38 0.40
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (41 bp):
CATCAGTAAGCCTTTACAGCATGATGATAAATCCTTCGGGT
Found at i:26652 original size:83 final size:82
Alignment explanation
Indices: 26510--26688 Score: 295
Period size: 83 Copynumber: 2.2 Consensus size: 82
26500 TTCACAATTT
* * * *
26510 ATAAGTCATTCGAGCCATCAGTAAGTCTTTCAGCATGATGCTTAAATCCTTCGGGTCATCTGTAA
1 ATAAGTCCTTCGGGCCATCAATAAGTCTTTCAGCATGATGCTTAAATCCTTCAGGTCATCTGTAA
26575 GCCTTTAGAGCAAGATG
66 GCCTTTAGAGCAAGATG
*
26592 ATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCTTTCAGGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAATAAGTCTTTC-AGCATGATGCTTAAATCCTTCAGGTCATCTGTA
*
26657 AGCCTTTAGAGCAGGATG
65 AGCCTTTAGAGCAAGATG
26675 ATAAGTCCTTCGGG
1 ATAAGTCCTTCGGG
26689 TAGGGTGTTT
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 28 0.31
83 62 0.69
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.31
Consensus pattern (82 bp):
ATAAGTCCTTCGGGCCATCAATAAGTCTTTCAGCATGATGCTTAAATCCTTCAGGTCATCTGTAA
GCCTTTAGAGCAAGATG
Found at i:27067 original size:215 final size:215
Alignment explanation
Indices: 26681--27290 Score: 837
Period size: 215 Copynumber: 2.8 Consensus size: 215
26671 GATGATAAGT
* *
26681 CCTTCGGGTAGGGTGTTTTCACATGAATTTGAAAATGAAAAAAAATGATGTTTTAAGAAGATGAA
1 CCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATG--AGAAAATGATGTTTTAAGAAGATGAA
*
26746 ATTTTTGAAAAATAAGAATGGGATTTCCAAAATTTCACACTTAGTAAGTCCTTCGGGCCATCAGT
64 ATTTTTGAAAAATAAGAATGCGATTTCCAAAATTTCACACTTAGTAAGTCCTTCGGGCCATCAGT
* * *
26811 AAGTCTTTCGAGCATGATGATTAAATCCTTAAGGTCATCTGTAAACCTTTTGAGCAAGATGATAA
129 AAGTCTTTTGAGCATGATGATTAAATCCTTCAGGTCATCTGTAAGCCTTTTGAGCAAGATGATAA
26876 GTCCTTCAGGCCATCCATAAAA
194 GTCCTTCAGGCCATCCATAAAA
* * * *
26898 CCTTCAGGTAGGATGTTTTCAAAGGAATTTGAAAATGAGAAAATGATGTTTTAAGAAGATGAATT
1 CCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAGAAAATGATGTTTTAAGAAGATGAAAT
* * * *
26963 TTTTTAAAACTATGAATGCGATTTCCAAAATTTCACACTTAGTAAGTCCTTCGGGCCATCAATAA
66 TTTTGAAAAATAAGAATGCGATTTCCAAAATTTCACACTTAGTAAGTCCTTCGGGCCATCAGTAA
* * *
27028 CTCTTTTGAACATGATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTTGAGCAAGATGATAAGT
131 GTCTTTTGAGCATGATGATTAAATCCTTCAGGTCATCTGTAAGCCTTTTGAGCAAGATGATAAGT
* *
27093 CCTTCGGGCCATCCATAAGA
196 CCTTCAGGCCATCCATAAAA
* * * * * * *
27113 CATTCGGGAAAGATGCCTTT-ACATGAATTTGAAAAATGAGAAAGTAATGTTTTAAGAAAATGAA
1 CCTTCGGGTAGGATG-TTTTCACATGAATTTG-AAAATGAGAAAATGATGTTTTAAGAAGATGAA
* * * * * * *
27177 ATTTTTGAGAAGTAAGAAGGCGATTTCCAATACTTCGCACTATA-TAAGTCCTTCGGGCCACCAG
64 ATTTTTGAAAAATAAGAATGCGATTTCCAAAATTTCACACT-TAGTAAGTCCTTCGGGCCATCAG
* * *
27241 TAAGTCTTTTGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTT
128 TAAGTCTTTTGAGCATGATGATTAAATCCTTCAGGTCATCTGTAAGCCTT
27291 CGAAGAGTAG
Statistics
Matches: 344, Mismatches: 46, Indels: 7
0.87 0.12 0.02
Matches are distributed among these distances:
215 183 0.53
216 126 0.37
217 35 0.10
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (215 bp):
CCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAGAAAATGATGTTTTAAGAAGATGAAAT
TTTTGAAAAATAAGAATGCGATTTCCAAAATTTCACACTTAGTAAGTCCTTCGGGCCATCAGTAA
GTCTTTTGAGCATGATGATTAAATCCTTCAGGTCATCTGTAAGCCTTTTGAGCAAGATGATAAGT
CCTTCAGGCCATCCATAAAA
Found at i:27340 original size:77 final size:76
Alignment explanation
Indices: 27251--27404 Score: 188
Period size: 77 Copynumber: 2.0 Consensus size: 76
27241 TAAGTCTTTT
* * *
27251 GAGCATGATGATTAAATCCT-TCGGG-TAATTTGTAAGCCTT-CGAAGAGTAGTGAAGCAAATCT
1 GAGCATGATGATTAAATCCTCT-GGGCT-ATCT-TAAGCCTTCCAAAGAGTAGTGAAGCAAATCA
27313 ATCAATAAGCCTTCC
63 ATC-ATAAGCCTTCC
*
27328 GAGCATGATGATTAAGTCCTCTGGGCTATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCAA
1 GAGCATGATGATTAAATCCTCTGGGCTATCTTAAGCCTT--CCAAAGAGTAGTGAAGCAAATCAA
*
27393 TCTTAAGCCTTC
64 TCATAAGCCTTC
27405 ATCGAAGAGT
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
76 8 0.12
77 25 0.37
78 11 0.16
79 23 0.34
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (76 bp):
GAGCATGATGATTAAATCCTCTGGGCTATCTTAAGCCTTCCAAAGAGTAGTGAAGCAAATCAATC
ATAAGCCTTCC
Found at i:27400 original size:37 final size:37
Alignment explanation
Indices: 27355--27542 Score: 279
Period size: 37 Copynumber: 5.1 Consensus size: 37
27345 CCTCTGGGCT
* *
27355 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCC
* *
27392 ATCTTAAGCCTTCATCGAAGAGTAATGAAGCAAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCC
* *
27429 ATTTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCC
* *
27466 ATTTTAAG-CTTCACCGAAGAGTAGTGAAGAAAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCC
* *
27502 ATCTTAAGCCTTCACCGAAGAGTGGTGAAGCAAATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCC
27539 ATCT
1 ATCT
27543 CGAGTCTGAT
Statistics
Matches: 136, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
36 33 0.24
37 103 0.76
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (37 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCC
Found at i:27514 original size:73 final size:74
Alignment explanation
Indices: 27355--27542 Score: 288
Period size: 73 Copynumber: 2.6 Consensus size: 74
27345 CCTCTGGGCT
* *
27355 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCATCGAAGAGTAATGA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACCGAAGAGTAATGA
*
27420 AGCAAATCC
66 AGAAAATCC
* * * * *
27429 ATTTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCCATTTTAAG-CTTCACCGAAGAGTAGTGA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACCGAAGAGTAATGA
27493 AGAAAATCC
66 AGAAAATCC
*
27502 ATCTTAAGCCTTCACCGAAGAGTGGTGAAGCAAATCAATCT
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAATCT
27543 CGAGTCTGAT
Statistics
Matches: 101, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
73 61 0.60
74 40 0.40
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (74 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACCGAAGAGTAATGA
AGAAAATCC
Found at i:28112 original size:16 final size:17
Alignment explanation
Indices: 28091--28123 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
28081 GAGAACACTC
28091 ACGAACAA-AAAGGGGG
1 ACGAACAACAAAGGGGG
28107 ACGAACAACAAAGGGGG
1 ACGAACAACAAAGGGGG
28124 GCTCTCGCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.48, C:0.15, G:0.36, T:0.00
Consensus pattern (17 bp):
ACGAACAACAAAGGGGG
Done.