Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003179.1 Hibiscus syriacus cultivar Beakdansim tig00006692_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: 84358
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:21485 original size:43 final size:44
Alignment explanation
Indices: 21437--21530 Score: 129
Period size: 43 Copynumber: 2.2 Consensus size: 44
21427 AAATTACATT
* * * *
21437 TTTATTTATT-TTTTAAATTTAGTCATTTCACCTCAGTTCACTC
1 TTTATTTATTGTTTTAAATATAATCATTTCACATCAGTCCACTC
*
21480 TTTATTT-TTGTTTTAAATATAATCGTTTCACATCAGTCCACTC
1 TTTATTTATTGTTTTAAATATAATCATTTCACATCAGTCCACTC
21523 TTTATTTA
1 TTTATTTA
21531 ATTAATATTG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
42 2 0.05
43 42 0.95
ACGTcount: A:0.24, C:0.17, G:0.05, T:0.53
Consensus pattern (44 bp):
TTTATTTATTGTTTTAAATATAATCATTTCACATCAGTCCACTC
Found at i:22110 original size:23 final size:23
Alignment explanation
Indices: 22084--22144 Score: 86
Period size: 23 Copynumber: 2.6 Consensus size: 23
22074 ATTGTATATA
*
22084 TATATTAACTTAAAAATATCTTT
1 TATATTAACTTAAAAATATATTT
*
22107 TATATTAACTTATTAAATATATTT
1 TATATTAACTTA-AAAATATATTT
22131 TATTATTAACTTAA
1 TA-TATTAACTTAA
22145 TTTAAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 12 0.36
24 11 0.33
25 10 0.30
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.51
Consensus pattern (23 bp):
TATATTAACTTAAAAATATATTT
Found at i:22143 original size:25 final size:24
Alignment explanation
Indices: 22084--22162 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 24
22074 ATTGTATATA
* *
22084 TATATTAACTTA-AAAATATCTTT
1 TATATTAACTTATTAAATATATTT
22107 TATATTAACTTATTAAATATATTT
1 TATATTAACTTATTAAATATATTT
*
22131 TATTATTAACTTAATTTAAAAATATTT
1 TA-TATTAACTT-A-TTAAATATATTT
22158 T-TATT
1 TATATT
22163 TTCATTTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
23 12 0.24
24 11 0.22
25 13 0.27
26 1 0.02
27 12 0.24
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (24 bp):
TATATTAACTTATTAAATATATTT
Found at i:22156 original size:22 final size:22
Alignment explanation
Indices: 22131--22182 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
22121 AAATATATTT
22131 TATTATTAACTTAATTTAAAAA
1 TATTATTAACTTAATTTAAAAA
* ** *
22153 TATTTTTATTTTCATTTAAAAA
1 TATTATTAACTTAATTTAAAAA
22175 TATATATT
1 TAT-TATT
22183 TTATGTTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (22 bp):
TATTATTAACTTAATTTAAAAA
Found at i:22184 original size:20 final size:20
Alignment explanation
Indices: 22144--22193 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 20
22134 TATTAACTTA
*
22144 ATTTAAAAATATTTTTATTTT
1 ATTTAAAAATA-TTATATTTT
22165 CATTTAAAAATA-TATATTTT
1 -ATTTAAAAATATTATATTTT
22185 ATGTTAAAA
1 AT-TTAAAA
22194 TTTATTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 2 0.08
20 13 0.50
22 11 0.42
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
ATTTAAAAATATTATATTTT
Found at i:31479 original size:50 final size:51
Alignment explanation
Indices: 31404--31531 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 51
31394 CCCTACGTGG
* * ** **
31404 CGTATAGCGCGCTGCAGGGGCCGCGCTATA-CCCACGTGGCGCCAGCTCAC
1 CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTAACGCCAAATCAC
* *
31454 CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACTTAACGCCAAATCAT
1 CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTAACGCCAAATCAC
* *
31505 CGTATAGTGCGGTGCAGGGCGCGCGCT
1 CGTATAGCGCGGTGCAGGGGGCGCGCT
31532 TTACTACTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 28 0.42
51 39 0.58
ACGTcount: A:0.18, C:0.33, G:0.33, T:0.16
Consensus pattern (51 bp):
CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTAACGCCAAATCAC
Found at i:33898 original size:34 final size:33
Alignment explanation
Indices: 33847--33911 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
33837 ATTTTAGTCG
* * * *
33847 TTATTTATTTTTATATGTTTATATATTTAATTA
1 TTATTGATTATTATATGTATATATATATAATTA
33880 TTATTGATTATTATTATGTATATATATATAAT
1 TTATTGATTATTA-TATGTATATATATATAAT
33912 AAATAATATC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 11 0.41
34 16 0.59
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.62
Consensus pattern (33 bp):
TTATTGATTATTATATGTATATATATATAATTA
Found at i:34065 original size:20 final size:19
Alignment explanation
Indices: 34040--34081 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
34030 CTATTTTATA
34040 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
34060 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
34079 AAT
1 AAT
34082 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:34165 original size:113 final size:113
Alignment explanation
Indices: 33954--34166 Score: 263
Period size: 112 Copynumber: 1.9 Consensus size: 113
33944 TCATAAAATA
* *
33954 TATTTATTTTTTTAATATTAAGAAAAAGACTGTCTTAAAACACCTAGAAGTCTGTTTTCTGATAT
1 TATTTATTTTTTTAATATAAAGAAAAAGACTGTCTTAAAACACCTAGAAGTCTCTTTTCTGATAT
* ** * * *
34019 TTTTAAATATCCTATTTTATAAATTATATATTAATTGTTTTAATTATT
66 TTCTAAATATAATAATATATAAATTATAAATTAATTGTTTTAATTATT
**
34067 TATTTA-TTTTTTAATATCAAAG-AAAAGAGCTGTCTTAAGGCACCTAGAAGTC-CTTTTCTGAT
1 TATTTATTTTTTTAATAT-AAAGAAAAAGA-CTGTCTTAAAACACCTAGAAGTCTCTTTTCTGAT
*
34129 ATTTCTAAATA-AATAAATATATTAATGTATAAATTAAT
64 ATTTCTAAATATAAT-AATATATAAAT-TATAAATTAAT
34167 AGATTTTCTT
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
111 1 0.01
112 44 0.52
113 40 0.47
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (113 bp):
TATTTATTTTTTTAATATAAAGAAAAAGACTGTCTTAAAACACCTAGAAGTCTCTTTTCTGATAT
TTCTAAATATAATAATATATAAATTATAAATTAATTGTTTTAATTATT
Found at i:36291 original size:15 final size:14
Alignment explanation
Indices: 36272--36310 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
36262 ATTTTAAATA
36272 ATTTACATTTACATT
1 ATTTACATTTACA-T
* *
36287 TTTTACATTTGCAT
1 ATTTACATTTACAT
36301 ATTTACATTT
1 ATTTACATTT
36311 GGCATCTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.28, C:0.13, G:0.03, T:0.56
Consensus pattern (14 bp):
ATTTACATTTACAT
Found at i:36315 original size:15 final size:15
Alignment explanation
Indices: 36288--36326 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
36278 ATTTACATTT
36288 TTTACATTT-GCATA
1 TTTACATTTGGCATA
*
36302 TTTACATTTGGCATC
1 TTTACATTTGGCATA
*
36317 TTTGCATTTG
1 TTTACATTTG
36327 TATTGCACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (15 bp):
TTTACATTTGGCATA
Found at i:42003 original size:93 final size:93
Alignment explanation
Indices: 41844--42527 Score: 861
Period size: 93 Copynumber: 7.1 Consensus size: 93
41834 ACAAGTGTCG
*
41844 TGTGCTCATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
*
41909 AAACCAATCATTGGATTTGGAAGATGAA
66 AAACCAATCATTGAATTTGGAAGATGAA
*
41937 TGTGCTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
42002 AAACCAATCATTGAATTTGGAAGATGAA
66 AAACCAATCATTGAATTTGGAAGATGAA
* * *
42030 TGTGCTCATAACATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGGTATAAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
42095 AAACCAATCATTGAATTTGGAAGATGAA
66 AAACCAATCATTGAATTTGGAAGATGAA
* *
42123 TGTGCTAATAGCATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
*
42188 AAACCAATCATTGAATTTAGAAGATGAA
66 AAACCAATCATTGAATTTGGAAGATGAA
*
42216 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAA-ACCAC
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCA-
* * *
42280 AGAACCAATCATTGGATTTGAAAGATGAA
65 AAAACCAATCATTGAATTTGGAAGATGAA
* *** ** * * *
42309 TGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTATTTGATTTATCTGA
1 TGTGCTCATAGCA-TCTTCTG--GA---AGT-G-TTCTT-T-G-A--GTTATCTGA---------
* *
42374 TCTGGTTTGGTATGAA-ACCACAGAACCAATCATTGAATTTGGAAGATGAA
44 TCTGGTTTGGTATGAACCCCA-AAAACCAATCATTGAATTTGGAAGATGAA
* *
42424 TGTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGGTATGAA-ACCAC
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCA-
* * *
42488 AGAACCAATCATTGGATTTGAAAGATGAA
65 AAAACCAATCATTGAATTTGGAAGATGAA
42517 TGTGCTCATAG
1 TGTGCTCATAG
42528 TAGAAATAAG
Statistics
Matches: 527, Mismatches: 41, Indels: 46
0.86 0.07 0.07
Matches are distributed among these distances:
92 3 0.01
93 421 0.80
94 2 0.00
96 2 0.00
99 2 0.00
100 1 0.00
101 4 0.01
102 9 0.02
103 1 0.00
104 2 0.00
105 1 0.00
106 9 0.02
107 4 0.01
109 2 0.00
112 2 0.00
114 2 0.00
115 60 0.11
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (93 bp):
TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
AAACCAATCATTGAATTTGGAAGATGAA
Found at i:42407 original size:115 final size:115
Alignment explanation
Indices: 42223--42434 Score: 388
Period size: 115 Copynumber: 1.8 Consensus size: 115
42213 GAATGTGCTC
*
42223 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
1 ATAGCATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
*
42288 TCATTGGATTTGAAAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCA
66 TCATTGAATTTGAAAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCA
*
42338 ATAGCATCTTCTGGAAGTGTTATTTGATTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
1 ATAGCATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
*
42403 TCATTGAATTTGGAAGATGAATGTGCTCATAG
66 TCATTGAATTTGAAAGATGAATGTGCTCATAG
42435 CATCTTCTGG
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 93 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (115 bp):
ATAGCATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
TCATTGAATTTGAAAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCA
Found at i:42487 original size:208 final size:207
Alignment explanation
Indices: 42129--42631 Score: 882
Period size: 208 Copynumber: 2.4 Consensus size: 207
42119 TGAATGTGCT
42129 AATAGCATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAAACCA
1 AATAGCATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGGTTTGGTATGAACCCC-AAAACCA
* *
42194 ATCATTGAATTTAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
65 ATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGA
42259 TCTGGTTTGGTATGAAACCACAGAACCAATCATTGGATTTGAAAGATGAATGTGCTCATAGTAGA
130 TCTGGTTTGGTATGAAACCACAGAACCAATCATTGGATTTGAAAGATGAATGTGCTCATAGTAGA
42324 AATAAGAAGACCC
195 AATAAGAAGACCC
* * *
42337 AATAGCATCTTCTGGAAGTGTTATTTGATTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
1 AATAGCATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGGTTTGGTATG-AACCCCAAAACCA
42402 ATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGA
65 ATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGA
42467 TCTGGTTTGGTATGAAACCACAGAACCAATCATTGGATTTGAAAGATGAATGTGCTCATAGTAGA
130 TCTGGTTTGGTATGAAACCACAGAACCAATCATTGGATTTGAAAGATGAATGTGCTCATAGTAGA
42532 AATAAGAAGACCC
195 AATAAGAAGACCC
* * * *
42545 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTCGGTAGGAACCCCATAACCAA
1 AATAGCATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAA
*
42610 TCATTGGAA-TTGAAAGATGAAT
66 TCATT-GAATTTGGAAGATGAAT
42632 TACATGATCG
Statistics
Matches: 281, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
207 29 0.10
208 247 0.88
209 5 0.02
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (207 bp):
AATAGCATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAA
TCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGAT
CTGGTTTGGTATGAAACCACAGAACCAATCATTGGATTTGAAAGATGAATGTGCTCATAGTAGAA
ATAAGAAGACCC
Found at i:45200 original size:22 final size:22
Alignment explanation
Indices: 45174--45252 Score: 106
Period size: 22 Copynumber: 3.6 Consensus size: 22
45164 ACATCTACAT
45174 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
45196 TCTTCAAAGATGATAGATTC-C
1 TCTTCAAAGATGATAGATTCTC
* * *
45217 CCTTTTAAAGATGACAGATTCTC
1 TC-TTCAAAGATGATAGATTCTC
*
45240 TTTTCAAAGATGA
1 TCTTCAAAGATGA
45253 AAGCTTTATC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.04
22 46 0.94
23 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:45745 original size:24 final size:23
Alignment explanation
Indices: 45702--45748 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
45692 GTTCATAATG
*
45702 AGAAGAACTCATCTGAAGAAGAA
1 AGAAGAACTCATATGAAGAAGAA
45725 AGAAGAAGCTCATAATG-AGAAGAA
1 AGAAGAA-CTCAT-ATGAAGAAGAA
45749 CTTGTTCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
24 12 0.57
25 2 0.10
ACGTcount: A:0.53, C:0.11, G:0.23, T:0.13
Consensus pattern (23 bp):
AGAAGAACTCATATGAAGAAGAA
Found at i:45858 original size:113 final size:113
Alignment explanation
Indices: 45691--46456 Score: 954
Period size: 113 Copynumber: 6.6 Consensus size: 113
45681 TGCCAGGTCG
* *
45691 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGCTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
45756 AACTTTTCGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAA
66 AACTTTTCGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAA
*
45804 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * *
45869 AACTTTTTGCTTAAATTCATCATTCAATGGATCAACTTTTCCAGAGAA
66 AACTTTTCGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAA
45917 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
45982 AACTTTTCGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAA
66 AACTTTTCGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAA
*
46030 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTTTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
46095 AACCTTTT-GCTTGAATTCATCATTCGATGGATCAA-TATTGCCAG-GTAG
66 AA-CTTTTCGCTTGAATTCATCATTCGATGGATCAACT-TTTCCAGAG-AA
* * * * *
46143 AGTTCATAATGAGAAGAACTCATATAAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*** * * * *
46208 AACCTTTTGTTCGACTCTATCCCAGAAGGAGATAAATC-A-GCATCAACATTTCCAGAGAA
66 AA-C--TT-TTCG---CT-T----GAA-TTCATCATTCGATGGATCAACTTTTCCAGAGAA
*
46267 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * *** * *
46331 AACCTTTT-GCTCG-ACTCTATCGCAGAAGGAGATAGATCAGCATCAATTTTTCAGAGAA
66 AA-CTTTTCGCTTGAATTC-AT--C---ATTCGATGGATCA--A-C--TTTTCCAGAGAA
*
46389 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
46454 AAC
66 AAC
46457 CTTTGTTTGA
Statistics
Matches: 575, Mismatches: 46, Indels: 55
0.85 0.07 0.08
Matches are distributed among these distances:
110 3 0.01
111 1 0.00
112 2 0.00
113 379 0.66
114 5 0.01
115 3 0.01
116 5 0.01
117 5 0.01
119 2 0.00
120 5 0.01
121 3 0.01
122 40 0.07
123 72 0.13
124 40 0.07
125 5 0.01
126 5 0.01
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACTTTTCGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAA
Found at i:46321 original size:123 final size:124
Alignment explanation
Indices: 46143--46548 Score: 611
Period size: 123 Copynumber: 3.3 Consensus size: 124
46133 TGCCAGGTAG
* * * * * *
46143 AGTTCATAATGAGAAGAACTCATATAAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
* *
46208 AACCTTTTGTTCGACTCTATCCCAGAAGGAGATAAATCAGCATCAACATTTCCAGAGAA
66 AACCTTTTGTTCGACTCTATCACAGAAGGAGATAGATCAGCATCAACATTTCCAGAGAA
46267 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
* * * *
46331 AACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAGCATCAA-TTTTTCAGAGAA
66 AACCTTTTGTTCGACTCTATCACAGAAGGAGATAGATCAGCATCAACATTTCCAGAGAA
46389 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
* * * * * * *
46454 AACC-TTTGTTTGATTCTATCACAGAATGAGATAGATCAGTATCAGCATTTCCATAAAA
66 AACCTTTTGTTCGACTCTATCACAGAAGGAGATAGATCAGCATCAACATTTCCAGAGAA
*
46512 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
46549 GAATTTGTTC
Statistics
Matches: 257, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
122 73 0.28
123 157 0.61
124 27 0.11
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.25
Consensus pattern (124 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
AACCTTTTGTTCGACTCTATCACAGAAGGAGATAGATCAGCATCAACATTTCCAGAGAA
Found at i:46733 original size:17 final size:17
Alignment explanation
Indices: 46711--46770 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
46701 CAACTTTGCC
46711 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
*
46728 AGAAGAA-CTCATCTGAA-G
1 AGAAGAAGTTCA--T-AATG
*
46746 AAGAAGAAGTTCGTAATG
1 -AGAAGAAGTTCATAATG
46764 AGAAGAA
1 AGAAGAA
46771 CTTATTCAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
16 3 0.09
17 16 0.47
18 4 0.12
19 9 0.26
20 2 0.06
ACGTcount: A:0.48, C:0.08, G:0.25, T:0.18
Consensus pattern (17 bp):
AGAAGAAGTTCATAATG
Found at i:46746 original size:103 final size:101
Alignment explanation
Indices: 46436--46747 Score: 301
Period size: 102 Copynumber: 3.0 Consensus size: 101
46426 AGAAGTTCAT
* * * * * *
46436 AATGAGAAGAGCTTGTTCAACC-TTTGTTTGATTCTATCACAGAATGAGATAGATCAGTATCAGC
1 AATGAGGAGAACTTGTTCAACCTTTTGCTTGATTCTATCACAGAA-G-G-TAAATCA-AATCAAC
*
46500 ATTTCCATAAAAAGTTCATAATAAGAAGAACTCATCTGAAG
62 -TTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAG
* * * * * ***
46541 AAGGAAGAGAATTTGTTCAACTTTTTGCTAGATTAC-ATCACAGAA-G-AAGAT-AAATTGTCAT
1 AATGAGGAGAACTTGTTCAACCTTTTGCTTGATT-CTATCACAGAAGGTAA-ATCAAATCAAC-T
**
46602 CCCCAGCGAAAAAGTTCATAATAAGAAGAACTCATCTGAAG
63 TTCCA--GAAAAAGTTCATAATAAGAAGAACTCATCTGAAG
*
46643 AATGAGGAGAACTTGTTCAACCTTTTGCTTGATTCTATCACATAAGGTAAATCAACATCAACTTT
1 AATGAGGAGAACTTGTTCAACCTTTTGCTTGATTCTATCACAGAAGGTAAATCAA-ATCAACTTT
* *
46708 GCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAG
65 -CCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAG
46746 AA
1 AA
46748 GAAGAAGTTC
Statistics
Matches: 167, Mismatches: 29, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
100 8 0.05
101 3 0.02
102 72 0.43
103 38 0.23
104 5 0.03
105 22 0.13
106 18 0.11
107 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (101 bp):
AATGAGGAGAACTTGTTCAACCTTTTGCTTGATTCTATCACAGAAGGTAAATCAAATCAACTTTC
CAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAG
Found at i:48230 original size:20 final size:19
Alignment explanation
Indices: 48205--48246 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
48195 CTATTTTATA
48205 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
48225 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
48244 AAT
1 AAT
48247 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:48330 original size:113 final size:113
Alignment explanation
Indices: 48119--48331 Score: 254
Period size: 113 Copynumber: 1.9 Consensus size: 113
48109 TCATAAAATA
* *
48119 TATTTAATTTTTTAATATTAAGAAAAAGACTGTCTTAAAACACCTAGAAGTCTGTTTTCTGATAT
1 TATTTAATTTTTTAATATAAAGAAAAAGACTGTCTTAAAACACCTAGAAGTCTCTTTTCTGATAT
* ** * * *
48184 TTTTAAATATCCTATTTTATAAATTATATATTAATTGTTTTAATTATT
66 TTCTAAATATAATAATATATAAATTATAAATTAATTGTTTTAATTATT
**
48232 TATTT-ATTTTTTAATATCAAAGAAAATAG-CTGTCTTAAGGCACCTAGAAGTC-CTTTTCTGAT
1 TATTTAATTTTTTAATAT-AAAGAAAA-AGACTGTCTTAAAACACCTAGAAGTCTCTTTTCTGAT
* *
48294 ATTTCTAAATA-AATAAATATCTTAATGTATAAATTAAT
64 ATTTCTAAATATAAT-AATATATAAAT-TATAAATTAAT
48332 AGATTTTCTT
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
111 1 0.01
112 38 0.45
113 43 0.51
114 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (113 bp):
TATTTAATTTTTTAATATAAAGAAAAAGACTGTCTTAAAACACCTAGAAGTCTCTTTTCTGATAT
TTCTAAATATAATAATATATAAATTATAAATTAATTGTTTTAATTATT
Found at i:50128 original size:14 final size:14
Alignment explanation
Indices: 50108--50204 Score: 54
Period size: 14 Copynumber: 6.9 Consensus size: 14
50098 AAGGGCGTAT
*
50108 GGATTAGGGATTAG
1 GGATTAGGGTTTAG
*
50122 GGTTTAGGGTTTAG
1 GGATTAGGGTTTAG
** *
50136 GG-TTAAGTATTTAT
1 GGATT-AGGGTTTAG
*
50150 GGATTAGGGGTTA-
1 GGATTAGGGTTTAG
**
50163 ATATTTAGGGTTTAG
1 GGA-TTAGGGTTTAG
* * *
50178 AGATTAAGGATTAG
1 GGATTAGGGTTTAG
*
50192 AGATTAGGGTTTA
1 GGATTAGGGTTTA
50205 AGTTTTTTGT
Statistics
Matches: 63, Mismatches: 16, Indels: 8
0.72 0.18 0.09
Matches are distributed among these distances:
13 3 0.05
14 56 0.89
15 4 0.06
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (14 bp):
GGATTAGGGTTTAG
Found at i:50184 original size:21 final size:21
Alignment explanation
Indices: 50124--50177 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
50114 GGGATTAGGG
50124 TTTAGGGTTTAGGGTTAAGTA
1 TTTAGGGTTTAGGGTTAAGTA
* *
50145 TTTATGGATTAGGGGTTAA-TA
1 TTTAGGGTTTA-GGGTTAAGTA
50166 TTTAGGGTTTAG
1 TTTAGGGTTTAG
50178 AGATTAAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.04
21 20 0.71
22 7 0.25
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.44
Consensus pattern (21 bp):
TTTAGGGTTTAGGGTTAAGTA
Found at i:50524 original size:22 final size:21
Alignment explanation
Indices: 50492--50541 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
50482 ACCATTTTCA
50492 ATTTTTC-TATTGTTTGATTGTT
1 ATTTTTCTTATT-TTTGATT-TT
*
50514 -TTTTTCTTATTTTTTATTTT
1 ATTTTTCTTATTTTTGATTTT
50534 ATTTTTCT
1 ATTTTTCT
50542 ACGTTGTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 2 0.08
21 19 0.76
22 4 0.16
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.76
Consensus pattern (21 bp):
ATTTTTCTTATTTTTGATTTT
Found at i:53995 original size:16 final size:16
Alignment explanation
Indices: 53974--54028 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
53964 GGTATTACCC
53974 GACCTGTTTTCAACCT
1 GACCTGTTTTCAACCT
* *
53990 GACCTGTTATGAACCT
1 GACCTGTTTTCAACCT
* * *
54006 AACATGTTTTCAACAT
1 GACCTGTTTTCAACCT
54022 GACCTGT
1 GACCTGT
54029 AAATTATCCG
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (16 bp):
GACCTGTTTTCAACCT
Found at i:54228 original size:30 final size:30
Alignment explanation
Indices: 54181--54241 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
54171 TTAAATGTTA
54181 TAATAAAATATTAATTATGA-TAATTA-AAT
1 TAATAAAATATTAATTAT-ATTAATTATAAT
*
54210 TAATAAATATATTTATTATATTAATTATAAT
1 TAATAAA-ATATTAATTATATTAATTATAAT
54241 T
1 T
54242 CTTATATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 8 0.29
30 16 0.57
31 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (30 bp):
TAATAAAATATTAATTATATTAATTATAAT
Found at i:55915 original size:22 final size:23
Alignment explanation
Indices: 55890--56056 Score: 100
Period size: 22 Copynumber: 7.3 Consensus size: 23
55880 ATATTCATAC
*
55890 ATATAGTATATACT-T-TGAATTT
1 ATATAGTATATACTATAT-AAATT
* *
55912 ATATAATTTATACTATATAAATT
1 ATATAGTATATACTATATAAATT
55935 A-ATAGTATATACTATATGTATGGACATT
1 ATATAGTATATACTATA--TA---A-ATT
* * * *
55963 CTATAGTTTATACTATACAATTT
1 ATATAGTATATACTATATAAATT
* *
55986 ATATAGTTTATA-TATATATA-T
1 ATATAGTATATACTATATAAATT
*
56007 ATATA-TATATA-TATATATATAT
1 ATATAGTATATACTATATAAAT-T
*
56029 ATATA-TATATA-TATATAAACT
1 ATATAGTATATACTATATAAATT
56050 ATATAGT
1 ATATAGT
56057 TCATATATGC
Statistics
Matches: 117, Mismatches: 16, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
20 13 0.11
21 12 0.10
22 50 0.43
23 19 0.16
24 4 0.03
27 2 0.02
28 3 0.03
29 14 0.12
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (23 bp):
ATATAGTATATACTATATAAATT
Found at i:56062 original size:20 final size:20
Alignment explanation
Indices: 56039--56083 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
56029 ATATATATAT
*
56039 ATATATAAACTATATAGTTC
1 ATATATAAACTACATAGTTC
** *
56059 ATATATGCACTACATAGTTT
1 ATATATAAACTACATAGTTC
56079 ATATA
1 ATATA
56084 CAATATATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (20 bp):
ATATATAAACTACATAGTTC
Found at i:56064 original size:2 final size:2
Alignment explanation
Indices: 55994--56045 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
55984 TTATATAGTT
55994 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56036 TA TA TA TA TA
1 TA TA TA TA TA
56046 AACTATATAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:58197 original size:18 final size:18
Alignment explanation
Indices: 58174--58221 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
58164 TCCTTCTGAT
* *
58174 GTCAACATTTCCGGCTAA
1 GTCAACATCTACGGCTAA
58192 GTCAACATCTACGGCTAA
1 GTCAACATCTACGGCTAA
58210 GTCAACATCTAC
1 GTCAACATCTAC
58222 ATAGCCTGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (18 bp):
GTCAACATCTACGGCTAA
Found at i:67194 original size:21 final size:22
Alignment explanation
Indices: 67153--67197 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
67143 TGTAGTAGTA
*
67153 CTGTAGCAGGGGAATCGATTCC
1 CTGTAGCAGGGGAACCGATTCC
*
67175 CTGTAGCA-GGGTACCGATTCC
1 CTGTAGCAGGGGAACCGATTCC
67196 CT
1 CT
67198 ATTTGCATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (22 bp):
CTGTAGCAGGGGAACCGATTCC
Found at i:73748 original size:24 final size:24
Alignment explanation
Indices: 73670--73758 Score: 89
Period size: 23 Copynumber: 3.8 Consensus size: 24
73660 ACATATTATA
*
73670 TGGCACTACGGTGC-AATTCTACG
1 TGGCACTTCGGTGCAAATTCTACG
*
73693 TGGCACTTCGGTGC--ATCTCTACA
1 TGGCACTTCGGTGCAAAT-TCTACG
*
73716 CGGTC-CTTCGG-GACAAATTCTACG
1 TGG-CACTTCGGTG-CAAATTCTACG
73740 TGGCACTTCGGTGCAAATT
1 TGGCACTTCGGTGCAAATT
73759 TATATGAGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
22 3 0.06
23 28 0.52
24 20 0.37
25 3 0.06
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.28
Consensus pattern (24 bp):
TGGCACTTCGGTGCAAATTCTACG
Found at i:74354 original size:21 final size:22
Alignment explanation
Indices: 74314--74354 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
74304 GTAGTAGTAT
*
74314 TGTAGCAGGGGAATCGATTCTC
1 TGTAGCAGGGGAACCGATTCTC
*
74336 TGTAGCA-GGGTACCGATTC
1 TGTAGCAGGGGAACCGATTC
74355 CCTATTTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.27
Consensus pattern (22 bp):
TGTAGCAGGGGAACCGATTCTC
Found at i:74684 original size:14 final size:14
Alignment explanation
Indices: 74643--74685 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
74633 CAAATTATAT
* *
74643 GTTCGTTTATGTTT
1 GTTCATTTATGTTC
74657 GTTCATTTATGTTC
1 GTTCATTTATGTTC
74671 GTTCATTTATGTTC
1 GTTCATTTATGTTC
74685 G
1 G
74686 AATAGAGAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.12, C:0.12, G:0.19, T:0.58
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:74962 original size:22 final size:23
Alignment explanation
Indices: 74935--74977 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
74925 TAAGTTTTTT
*
74935 TTGTGTTTGTGT-TGTTCGTTTA
1 TTGTGTTCGTGTATGTTCGTTTA
*
74957 TTGTGTTCGTTTATGTTCGTT
1 TTGTGTTCGTGTATGTTCGTT
74978 CGTTCGTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.05, C:0.07, G:0.26, T:0.63
Consensus pattern (23 bp):
TTGTGTTCGTGTATGTTCGTTTA
Found at i:74980 original size:14 final size:13
Alignment explanation
Indices: 74939--74981 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
74929 TTTTTTTTGT
*
74939 GTTTGTGTTGTTC
1 GTTTATGTTGTTC
74952 GTTTAT-TGTGTTC
1 GTTTATGT-TGTTC
74965 GTTTATGTTCGTTC
1 GTTTATGTT-GTTC
74979 GTT
1 GTT
74982 CGTGTTCGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 1 0.04
13 17 0.65
14 8 0.31
ACGTcount: A:0.05, C:0.09, G:0.26, T:0.60
Consensus pattern (13 bp):
GTTTATGTTGTTC
Found at i:79368 original size:43 final size:43
Alignment explanation
Indices: 79320--79401 Score: 164
Period size: 43 Copynumber: 1.9 Consensus size: 43
79310 TTTTTTGCAG
79320 TTACATCAAACTACACAATACAAGCAAGATAAAAGCTAAGCAT
1 TTACATCAAACTACACAATACAAGCAAGATAAAAGCTAAGCAT
79363 TTACATCAAACTACACAATACAAGCAAGATAAAAGCTAA
1 TTACATCAAACTACACAATACAAGCAAGATAAAAGCTAA
79402 CTTATTACCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.52, C:0.21, G:0.09, T:0.18
Consensus pattern (43 bp):
TTACATCAAACTACACAATACAAGCAAGATAAAAGCTAAGCAT
Found at i:82166 original size:3 final size:3
Alignment explanation
Indices: 82158--82185 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
82148 TCAGCCAAAG
82158 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
82186 AAAAAAAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:83081 original size:14 final size:14
Alignment explanation
Indices: 83059--83090 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
83049 CGTTGGGCAT
83059 CCGAAGGCATCCGA
1 CCGAAGGCATCCGA
*
83073 CCGAGGGCATCCGA
1 CCGAAGGCATCCGA
83087 CCGA
1 CCGA
83091 TGCCATTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.38, G:0.31, T:0.06
Consensus pattern (14 bp):
CCGAAGGCATCCGA
Found at i:83229 original size:29 final size:29
Alignment explanation
Indices: 83152--83229 Score: 147
Period size: 29 Copynumber: 2.7 Consensus size: 29
83142 GAGGAGCAGG
*
83152 AGGAGTGCATGGCGACCTACAAGGTCGCC
1 AGGAGTGCATGGCGACCTATAAGGTCGCC
83181 AGGAGTGCATGGCGACCTATAAGGTCGCC
1 AGGAGTGCATGGCGACCTATAAGGTCGCC
83210 AGGAGTGCATGGCGACCTAT
1 AGGAGTGCATGGCGACCTAT
83230 GCTGGGAAGC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.24, C:0.24, G:0.35, T:0.17
Consensus pattern (29 bp):
AGGAGTGCATGGCGACCTATAAGGTCGCC
Done.