Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004392.1 Hibiscus syriacus cultivar Beakdansim tig00009636_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: 122961
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Found at i:3984 original size:35 final size:36
Alignment explanation
Indices: 3938--4059 Score: 149
Period size: 35 Copynumber: 3.4 Consensus size: 36
3928 TAGTAACAAA
3938 CTTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGATTTTCAAAGTTTGGTAAATGTTT
* * *
3975 CTTTG-AAAATGGTTTTCGAAGTTTTGTAAATGTTT
1 CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
* * *
4010 CTTTGAAAAATAGTTTTTCAAATTTTGGTAGATGTTT
1 CTTTGAAAAAT-GATTTTCAAAGTTTGGTAAATGTTT
*
4047 -GTTGAAAAATGAT
1 CTTTGAAAAATGAT
4060 AATGAGATAA
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
35 34 0.47
36 14 0.19
37 25 0.34
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (36 bp):
CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
Found at i:4036 original size:36 final size:36
Alignment explanation
Indices: 3938--4056 Score: 120
Period size: 36 Copynumber: 3.3 Consensus size: 36
3928 TAGTAACAAA
*
3938 CTTTGAAAAA-ATGATTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATA-GATTTTCAAA-TTTTGTAAATGTTT
* *
3975 CTTTG-AAAAT-GGTTTTCGAAGTTTTGTAAATGTTT
1 CTTTGAAAAATAGATTTTC-AAATTTTGTAAATGTTT
* *
4010 CTTTGAAAAATAGTTTTTCAAATTTTGGTAGATGTTT
1 CTTTGAAAAATAGATTTTCAAATTTT-GTAAATGTTT
*
4047 -GTTGAAAAAT
1 CTTTGAAAAAT
4057 GATAATGAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
35 24 0.34
36 26 0.37
37 20 0.29
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (36 bp):
CTTTGAAAAATAGATTTTCAAATTTTGTAAATGTTT
Found at i:6347 original size:15 final size:15
Alignment explanation
Indices: 6327--6358 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6317 TGAGACATTA
*
6327 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
6342 CCCGCCCCACATCCG
1 CCCGCCCCACATCCG
6357 CC
1 CC
6359 TACCCAGCTA
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:0.09, C:0.69, G:0.16, T:0.06
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:9153 original size:111 final size:111
Alignment explanation
Indices: 8939--9266 Score: 567
Period size: 111 Copynumber: 3.0 Consensus size: 111
8929 TGGAAATCAT
*
8939 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAA--ATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
9002 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
* **
9048 ATATCTCGACATTTTGCTGATACAATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
9113 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
9159 ATATCTCGACACTTTGTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
9224 TAATTAGTTGATTTA-TT--TGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
9267 TTTTTGTAAT
Statistics
Matches: 208, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
108 26 0.12
109 51 0.25
110 2 0.01
111 129 0.62
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:10813 original size:27 final size:27
Alignment explanation
Indices: 10783--10841 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
10773 GCCATATATA
* *
10783 ATGCCGCCATCGCCTTTCCATTACCAG
1 ATGCCGCAATCGCCTTTCAATTACCAG
10810 ATGCCGCAATCGCCTTTCAATTACCAG
1 ATGCCGCAATCGCCTTTCAATTACCAG
10837 ATGCC
1 ATGCC
10842 ACCGCCGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.22, C:0.37, G:0.15, T:0.25
Consensus pattern (27 bp):
ATGCCGCAATCGCCTTTCAATTACCAG
Found at i:11192 original size:21 final size:21
Alignment explanation
Indices: 11168--11211 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
11158 CGACGTTGAC
11168 GATGGTGACAACGACGACGAT
1 GATGGTGACAACGACGACGAT
** *
11189 GATGGTGATGACGACGATGAT
1 GATGGTGACAACGACGACGAT
11210 GA
1 GA
11212 CAGCGAGGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.14, G:0.36, T:0.18
Consensus pattern (21 bp):
GATGGTGACAACGACGACGAT
Found at i:11396 original size:26 final size:25
Alignment explanation
Indices: 11319--11396 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 25
11309 TTTTTATTAT
* *
11319 ATTTGTATTTACTTTATTTTGTTTA
1 ATTTATATTTACTTTATTTTGTTCA
11344 ATTGTA-ATTT--TTTATTATT-TCTC-
1 ATT-TATATTTACTTTATT-TTGT-TCA
11367 ATTTAATATTTACTTTATTTTGTTCA
1 ATTT-ATATTTACTTTATTTTGTTCA
11393 ATTT
1 ATTT
11397 GTTGGATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 17
0.69 0.03 0.28
Matches are distributed among these distances:
22 1 0.02
23 11 0.26
24 7 0.17
25 11 0.26
26 12 0.29
ACGTcount: A:0.23, C:0.06, G:0.05, T:0.65
Consensus pattern (25 bp):
ATTTATATTTACTTTATTTTGTTCA
Found at i:16053 original size:199 final size:198
Alignment explanation
Indices: 15645--16341 Score: 833
Period size: 198 Copynumber: 3.5 Consensus size: 198
15635 TTTTATAAGT
** **
15645 AAACCGGTATATTTATACCGGTAACATTACAAATTTTA-CTATTACATTATAATTATCGGTTTCG
1 AAACCGGTATATTTATATTGGT-ACATTGTAAA-TTTACCTATTACATTATAATTATCGGTTTCG
* * * * *
15709 ATATTTTTTGGATCGATACAATTT--GAAATGTATCAACACTTTATGTGTGCACCTCGTTGGGCA
64 ATATTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCA
* * * * * * *
15772 TTCATTCTGGAAAAAAGTATCAATACAAACTTAAAAAGTATCGATACATTATTTAT-ACATATTT
128 TTCATTCTGGACAAAAGTATCGACACAAATTTAACAAGTGTCGATACATTA-TGATGACATATTT
15836 TCTCATA
192 TCTCATA
* * *
15843 AAACCGGTATATTTTTATTGGGTACATTGTAAATTTACCTATCACATTGTAATTATCGGTTTCGA
1 AAACCGGTATATTTATATT-GGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
15908 TATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACC-CGTTTGGCATT
65 TATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCATT
* *
15972 CATTATGGACAAAATGTATCGACACAAATTTAACAAGTGTCGATACTTTATGATGACATATTTTC
130 CATTCTGGACAAAA-GTATCGACACAAATTTAACAAGTGTCGATACATTATGATGACATATTTTC
16037 TCATA
194 TCATA
** *
16042 AAATTGGTATATTTATA-T--TACATTGTAAATTTACATATTACATTATAATTATCGGTTTCGAT
1 AAACCGGTATATTTATATTGGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGAT
*
16104 -TTTATTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGGGAT
66 ATTT-TTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTT-GGCAT
* ** * ** *
16168 TCATTCTGGACAATAAATATCGACACAAATTCCACAAGTGTCGATACATTATGTTGATTTGTTTT
129 TCATTCTGGACAA-AAGTATCGACACAAATTTAACAAGTGTCGATACATTATGATGACATATTTT
*
16233 CTAAT-
193 CTCATA
* * * * *
16238 TAACCGGTATATTTATATCGGTTACATTGTTAATTTACCTATTATATTATAATTATTGGTTTCGA
1 AAACCGGTATATTTATATTGG-TACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * *
16303 TGTTTTTTGGG-TTGATACTTTTAGA-AAATATATCGACAC
65 T-ATTTTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
16342 ATATTTAGGT
Statistics
Matches: 434, Mismatches: 48, Indels: 32
0.84 0.09 0.06
Matches are distributed among these distances:
194 3 0.01
195 89 0.21
196 19 0.04
197 68 0.16
198 94 0.22
199 88 0.20
200 64 0.15
201 6 0.01
202 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (198 bp):
AAACCGGTATATTTATATTGGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGAT
ATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCATTC
ATTCTGGACAAAAGTATCGACACAAATTTAACAAGTGTCGATACATTATGATGACATATTTTCTC
ATA
Found at i:16135 original size:195 final size:196
Alignment explanation
Indices: 15645--16341 Score: 802
Period size: 195 Copynumber: 3.5 Consensus size: 196
15635 TTTTATAAGT
* **
15645 AAACCGGTATATTTATACCGGTAACATTACAAATTTTA-CTATTACATTATAATTATCGGTTTCG
1 AAACCGGTATATTTATA---GTTACATTGTAAA-TTTACCTATTACATTATAATTATCGGTTTCG
* * * * *
15709 ATATTTTTTGGATCGATACAATTT--GAAATGTATCAACACTTTATGTGTGCACCTCGTTGGGCA
62 ATATTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCA
* * * * * * *
15772 TTCATTCTGGAAAAAAGTATCAATACAAACTTAAAAAGTATCGATACATTATTTAT-ACATATTT
126 TTCATTCTGGACAAAAGTATCGACACAAATTTAACAAGTGTCGATACATTA-TGATGACATATTT
15836 TCTCATA
190 TCTCATA
* * * *
15843 AAACCGGTATATTTTTATTGGGTACATTGTAAATTTACCTATCACATTGTAATTATCGGTTTCGA
1 AAACCGGTATA--TTTA-TAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
15908 TATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACC-CGTTTGGCATT
63 TATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCATT
* *
15972 CATTATGGACAAAATGTATCGACACAAATTTAACAAGTGTCGATACTTTATGATGACATATTTTC
128 CATTCTGGACAAAA-GTATCGACACAAATTTAACAAGTGTCGATACATTATGATGACATATTTTC
16037 TCATA
192 TCATA
** *
16042 AAATTGGTATATTTATA-TTACATTGTAAATTTACATATTACATTATAATTATCGGTTTCGAT-T
1 AAACCGGTATATTTATAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATAT
*
16105 TTATTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGGGATTC
66 TT-TTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTT-GGCATTC
* ** * ** *
16170 ATTCTGGACAATAAATATCGACACAAATTCCACAAGTGTCGATACATTATGTTGATTTGTTTTCT
129 ATTCTGGACAA-AAGTATCGACACAAATTTAACAAGTGTCGATACATTATGATGACATATTTTCT
*
16235 AAT-
193 CATA
* * * *
16238 TAACCGGTATATTTATATCGGTTACATTGTTAATTTACCTATTATATTATAATTATTGGTTTCGA
1 AAACCGGTATATTTATA---GTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * *
16303 TGTTTTTTGGG-TTGATACTTTTAGA-AAATATATCGACAC
63 T-ATTTTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
16342 ATATTTAGGT
Statistics
Matches: 432, Mismatches: 48, Indels: 36
0.84 0.09 0.07
Matches are distributed among these distances:
194 3 0.01
195 89 0.21
196 20 0.05
197 72 0.17
198 89 0.21
199 80 0.19
200 69 0.16
201 7 0.02
202 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (196 bp):
AAACCGGTATATTTATAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATAT
TTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCATTCAT
TCTGGACAAAAGTATCGACACAAATTTAACAAGTGTCGATACATTATGATGACATATTTTCTCAT
A
Found at i:20373 original size:200 final size:199
Alignment explanation
Indices: 19914--20677 Score: 1068
Period size: 200 Copynumber: 3.8 Consensus size: 199
19904 CGTGTTATTT
* *
19914 AAAAAGTATCGACACAAATTTAAAAGTGTCGATACATTATGTTGACCTATTCTCTCATAAAACCG
1 AAAAAGTATCGACACAAATTCAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCG
* * * * *
19979 GTATACTT-TAACCAGTTACATTGTAAATTTACCTATTACGTTATAATTATCGGTTTCAATGTTT
66 GTATAGTTAT-ACCGGTTACATTGTAAATTTACATATTACATTATAATTATCGGTTTCGATGTTT
* * * * *
20043 TTGGGATCGATACAATTT-CAAATGTATCGACACTTTGTGCCTGCACCCCGTTTGGCATTCATTC
130 TTGGGATCGATACATTTTAAAAATGTATCGACACTTTATGCGTGCACCCCGTTTGGCATTCATTT
20107 TGGAC
195 TGGAC
** *
20112 AAAATA-TATCGACACAAATAT-AAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAA
1 AAAA-AGTATCGACACAAAT-TCAAAA-GTGTCGATACATTATGTAGACCTATTCTCTCATAAAA
* * *
20175 TCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
63 CCGGTATAGTTATACCGGTTACATTGTAAATTTACATATTACATTATAATTATCGGTTTCGATGT
* *
20240 TTTTGTGATCGATACATTTTAAAAATATATCGACACTTTATGCGTGCACCCCGTTTGGCATTCAT
128 TTTTGGGATCGATACATTTTAAAAATGTATCGACACTTTATGCGTGCACCCCGTTTGGCATTCAT
20305 TTTGGAC
193 TTTGGAC
* * * *
20312 AAAAAGTATCGACAAAAATTCCACAAGTGTCGATACAATATGTAGACCTATGCTCTCATAAAACC
1 AAAAAGTATCGACACAAATT-CAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
*
20377 GGTATAGTTATACCGGTTACATTGTAAATTTACATATTACATTATAATTATGGGTTTCGATGTTT
65 GGTATAGTTATACCGGTTACATTGTAAATTTACATATTACATTATAATTATCGGTTTCGATGTTT
* * * * *
20442 TTGGGATCGATACTTTTTATAAATGTATTGACACTTTATGTGTGCACCCCGTTTGGCATTCGTTT
130 TTGGGATCGATACATTTTAAAAATGTATCGACACTTTATGCGTGCACCCCGTTTGGCATTCATTT
20507 TGGAC
195 TGGAC
* ** * * * * *
20512 AAAAAGTATTGACACAAATTCCTCAAGTGTCGATACATTATGTATATCTATTTTCTAAAAAAAAC
1 AAAAAGTATCGACACAAATT-CAAAAGTGTCGATACATTATGTAGACCTATTCTCT-CATAAAAC
* *
20577 CGGTATAGTTATACCGGTTACATTGTAAATTTACATATTACATTATAATTTTTGGTTTCGATGTT
64 CGGTATAGTTATACCGGTTACATTGTAAATTTACATATTACATTATAATTATCGGTTTCGATGTT
*
20642 TTTGGGATCGATACTTTTTAAAAATGTATCGACACT
129 TTTGGGATCGATACATTTTAAAAATGTATCGACACT
20678 CTATAGGAAA
Statistics
Matches: 511, Mismatches: 46, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
198 21 0.04
199 115 0.23
200 269 0.53
201 106 0.21
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (199 bp):
AAAAAGTATCGACACAAATTCAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCG
GTATAGTTATACCGGTTACATTGTAAATTTACATATTACATTATAATTATCGGTTTCGATGTTTT
TGGGATCGATACATTTTAAAAATGTATCGACACTTTATGCGTGCACCCCGTTTGGCATTCATTTT
GGAC
Found at i:20941 original size:24 final size:24
Alignment explanation
Indices: 20914--20976 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
20904 AGTGGAGCCG
20914 AAATTTATATTGAAATTCAAACTC
1 AAATTTATATTGAAATTCAAACTC
* *
20938 AAATTGAAATTGAAATTCAAACTC
1 AAATTTATATTGAAATTCAAACTC
* *
20962 CAATATATA-TGAAAT
1 AAATTTATATTGAAAT
20977 GAATATGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 6 0.18
24 27 0.82
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATTTATATTGAAATTCAAACTC
Found at i:20945 original size:18 final size:18
Alignment explanation
Indices: 20922--20958 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
20912 CGAAATTTAT
20922 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
20940 ATTGAAATTGAAATTCAA
1 ATTGAAATTCAAACTCAA
20958 A
1 A
20959 CTCCAATATA
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:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:22254 original size:3 final size:3
Alignment explanation
Indices: 22246--22284 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
22236 ACTTGTTTGG
* * *
22246 ATC ATC ATC ATC ATC ATC ATC TTC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
22285 TTTATTGACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.26, C:0.33, G:0.03, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:22263 original size:12 final size:12
Alignment explanation
Indices: 22246--22284 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
22236 ACTTGTTTGG
*
22246 ATCATCATCATC
1 ATCATCATCTTC
22258 ATCATCATCTTC
1 ATCATCATCTTC
*
22270 ATCGTCATCTTC
1 ATCATCATCTTC
22282 ATC
1 ATC
22285 TTTATTGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.26, C:0.33, G:0.03, T:0.38
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:24117 original size:200 final size:198
Alignment explanation
Indices: 23774--24718 Score: 1170
Period size: 200 Copynumber: 4.8 Consensus size: 198
23764 ATTTAAAATG
* * * * *
23774 GTATCGACACAAATTTAATAATTGTCGATAC-TTTATGATGACATATTTTCTCATAAAACCGGTA
1 GTATCGACACAAATTTAACAAGTGTCGATACATTTGT-A-GACCTATTCTCTCATAAAACCGGTA
* * * * * *
23838 TATTTATACCAGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTTGAAGTTTTTAG
64 TATTTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGG
*
23903 GATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCGTTTGGGCATTCCTTCTGGA
129 GATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCCTTCTGGA
23968 CCAAAA
194 -CAAAA
* *
23974 GTATCGACACAAATTTCACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGTAT
1 GTATCGACACAAATTTAACAAGTGTCGATACAT-TTGTAGACCTATTCTCTCATAAAACCGGTAT
* *
24039 ATTTATATCAGTTATATT-AAAACATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGG
65 ATTTATACCAGTTACATTGAAAA-ATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGG
24103 GATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTGGGCATTCCTTCTGG
129 GATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCC-TTTTGGGCATTCCTTCTGG
*
24168 ATAAAA
193 ACAAAA
* * * * *
24174 GTATCAACACAAAATAAACAAGTGTCGATATATTTTCTAGACCTATTCTCTCATAAAACCGGTAT
1 GTATCGACACAAATTTAACAAGTGTCGATACA-TTTGTAGACCTATTCTCTCATAAAACCGGTAT
* *
24239 ATTTATACCGGTTACATTGAAAAATGACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGG
65 ATTTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGG
* *
24304 ATCGATACTTTTTATAAATGTATCGACAC--T-T---T--A------TGGGCATTCCATCTGGAC
130 ATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCCTTCTGGAC
24355 AAACA
195 AAA-A
* * * *
24360 GTATCGACACAAATTTCAGAAATGTCGATACATTATGTAGACATATTCTCTCATAAAACCGGTAT
1 GTATCGACACAAATTTAACAAGTGTCGATACATT-TGTAGACCTATTCTCTCATAAAACCGGTAT
* * * * * * *
24425 AGTTATACTAGTTACATTGTAAATTTACCTATTACATTATATTTATAGGTTTCGATGTTTCTGGG
65 ATTTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGG
* * * * * *
24490 ATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCAGCATTTTGGGCATTCATTCTGGAC
130 ATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCCTTCTGGAC
24555 AAAAA
195 -AAAA
* * * * **
24560 GTATCGATACAAAATTAAAAAGTGTTGATACATTATGTAGACCTATTCTCAT-ATAAAATTGGTA
1 GTATCGACACAAATTTAACAAGTGTCGATACATT-TGTAGACCTATTCTC-TCATAAAACCGGTA
* *
24624 TATTTATACCGGTTATATT-ACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
64 TATTTATACCAGTTACATTGA-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
* *
24688 GGATCGATACTTTTTTAAAATGTATTGACAC
128 GGATCGATACTTTTTAAAAATGTATCGACAC
24719 ATATGCTTAC
Statistics
Matches: 648, Mismatches: 72, Indels: 50
0.84 0.09 0.06
Matches are distributed among these distances:
185 21 0.03
186 139 0.21
188 1 0.00
189 1 0.00
192 2 0.00
194 2 0.00
197 1 0.00
198 1 0.00
199 3 0.00
200 444 0.69
201 30 0.05
202 3 0.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (198 bp):
GTATCGACACAAATTTAACAAGTGTCGATACATTTGTAGACCTATTCTCTCATAAAACCGGTATA
TTTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGA
TCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCCTTCTGGACA
AAA
Found at i:24494 original size:186 final size:184
Alignment explanation
Indices: 24147--24718 Score: 684
Period size: 186 Copynumber: 3.0 Consensus size: 184
24137 TGGGTGCACC
* * * * * * *
24147 CTTTTTGGGCATTCCTTCTGGATAAAAGTATCAACACAAAA-TAAACAAGTGTCGATATATTTTC
1 CTTTATGGGCATTCCATCTGGACAAAAGTATCGACACAAAATTAAA-AA-TGTCGATACATTATG
*
24211 TAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGAAAAATGACCTATTACAT
64 TAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACAT
24276 TATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACA
129 TATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACA
* *
24332 CTTTATGGGCATTCCATCTGGACAAACAGTATCGACACAAATTTCAGAAATGTCGATACATTATG
1 CTTTATGGGCATTCCATCTGGACAAA-AGTATCGACACAAAATT-AAAAATGTCGATACATTATG
* * ** * *
24397 TAGACATATTCTCTCATAAAACCGGTATAGTTATACTAGTTACATTGTAAATTTACCTATTACAT
64 TAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACAT
* * *
24462 TATATTTATAGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGTATCGACA
129 TATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACA
*
24518 CTTTATGCGTTCAGCATTTTGGGCATTCATTCTGGACAAAAAGTATCGATACAAAATTAAAAAGT
1 CTTTATG-G----GCA--TT---C---CA-TCTGGAC-AAAAGTATCGACACAAAATTAAAAA-T
* ** *
24583 GTTGATACATTATGTAGACCTATTCTCAT-ATAAAATTGGTATATTTATACCGGTTATATT-ACA
50 GTCGATACATTATGTAGACCTATTCTC-TCATAAAACCGGTATATTTATACCGGTTACATTGA-A
24646 AAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTT-TAAAATG
113 AAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTAT-AAATG
*
24710 TATTGACA
177 TATCGACA
24718 C
1 C
24719 ATATGCTTAC
Statistics
Matches: 329, Mismatches: 36, Indels: 29
0.84 0.09 0.07
Matches are distributed among these distances:
185 23 0.07
186 143 0.43
187 4 0.01
188 2 0.01
191 3 0.01
193 2 0.01
196 1 0.00
199 7 0.02
200 140 0.43
201 4 0.01
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (184 bp):
CTTTATGGGCATTCCATCTGGACAAAAGTATCGACACAAAATTAAAAATGTCGATACATTATGTA
GACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTA
TAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACA
Found at i:24511 original size:386 final size:386
Alignment explanation
Indices: 23774--24718 Score: 1156
Period size: 386 Copynumber: 2.4 Consensus size: 386
23764 ATTTAAAATG
* * * * * * * *
23774 GTATCGACACAAATTTAATAATTGTCGATACTTTAT-GATGACATATTTTC-TCATAAAACCGGT
1 GTATCAACACAAAATTAAAAAGTGTCGATACATTATCTA-GACCTATTCTCAT-ATAAAACCGGT
* ** * * * * * *
23837 ATATTTATACCAGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTTGAAGTTTTTA
64 ATATTTATACCGGTTACATTACAAAATGACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
* *
23902 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCGTTTGGGCATTCCTTCTGG
129 GGATCGATACTTTTTTAAAATGTATCGACAC--T-T---T--A------TGGGCATTCCATCTGG
* *
23967 ACCAAAAGTATCGACACAAATTTCACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAA
180 ACCAAAAGTATCGACACAAATTTCACAAATGTCGATACATGTTGTAGACATATTCTCTCATAAAA
* * * *
24032 TCGGTATATTTATATCAGTTATATTAAAACATTACCTATTACATTATAATTATGGGTTTCGATGT
245 CCGGTATAGTTATATCAGTTACATTAAAACATTACCTATTACATTATAATTATAGGTTTCGATGT
* * * *
24097 TTTTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTGGGCATTCC
310 TTCTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCA-CCATTTTGGGCATTCA
*
24162 TTCTGGA-TAAAA
374 TTCTGGACAAAAA
* *
24174 GTATCAACACAAAA-TAAACAAGTGTCGATATATTTTCTAGACCTATTCTC-TCATAAAACCGGT
1 GTATCAACACAAAATTAAA-AAGTGTCGATACATTATCTAGACCTATTCTCAT-ATAAAACCGGT
24237 ATATTTATACCGGTTACATTGA-AAAATGACCTATTACATTATAATTATGGGTTTCGATGTTTTT
64 ATATTTATACCGGTTACATT-ACAAAATGACCTATTACATTATAATTATGGGTTTCGATGTTTTT
24301 GGGATCGATAC-TTTTTATAAATGTATCGACACTTTATGGGCATTCCATCTGGA-CAAACAGTAT
128 GGGATCGATACTTTTTTA-AAATGTATCGACACTTTATGGGCATTCCATCTGGACCAAA-AGTAT
*
24364 CGACACAAATTTCAGAAATGTCGATACAT-TATGTAGACATATTCTCTCATAAAACCGGTATAGT
191 CGACACAAATTTCACAAATGTCGATACATGT-TGTAGACATATTCTCTCATAAAACCGGTATAGT
* * *
24428 TATA-CTAGTTACATTGTAAA-TTTACCTATTACATTATATTTATAGGTTTCGATGTTTCTGGGA
255 TATATC-AGTTACATT-AAAACATTACCTATTACATTATAATTATAGGTTTCGATGTTTCTGGGA
* * *
24491 TCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCAGCATTTTGGGCATTCATTCTGGACA
318 TCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGACA
24556 AAAA
383 AAAA
* * * * **
24560 GTATCGATACAAAATTAAAAAGTGTTGATACATTATGTAGACCTATTCTCATATAAAATTGGTAT
1 GTATCAACACAAAATTAAAAAGTGTCGATACATTATCTAGACCTATTCTCATATAAAACCGGTAT
* *
24625 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGG
66 ATTTATACCGGTTACATTACAAAATGACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGG
*
24690 ATCGATACTTTTTTAAAATGTATTGACAC
131 ATCGATACTTTTTTAAAATGTATCGACAC
24719 ATATGCTTAC
Statistics
Matches: 483, Mismatches: 49, Indels: 40
0.84 0.09 0.07
Matches are distributed among these distances:
385 27 0.06
386 302 0.63
387 14 0.03
392 1 0.00
394 1 0.00
397 1 0.00
398 1 0.00
399 8 0.02
400 127 0.26
401 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (386 bp):
GTATCAACACAAAATTAAAAAGTGTCGATACATTATCTAGACCTATTCTCATATAAAACCGGTAT
ATTTATACCGGTTACATTACAAAATGACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGG
ATCGATACTTTTTTAAAATGTATCGACACTTTATGGGCATTCCATCTGGACCAAAAGTATCGACA
CAAATTTCACAAATGTCGATACATGTTGTAGACATATTCTCTCATAAAACCGGTATAGTTATATC
AGTTACATTAAAACATTACCTATTACATTATAATTATAGGTTTCGATGTTTCTGGGATCGATACT
TTTTAAAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGACAAAAA
Found at i:26467 original size:18 final size:18
Alignment explanation
Indices: 26444--26482 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
26434 TCCTCCTCAT
*
26444 TTCCTCCATCTTTTCTTC
1 TTCCTCCATATTTTCTTC
26462 TTCCTCCATATTTTCTTC
1 TTCCTCCATATTTTCTTC
26480 TTC
1 TTC
26483 ATATTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.08, C:0.36, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCTCCATATTTTCTTC
Found at i:26714 original size:33 final size:33
Alignment explanation
Indices: 26674--26773 Score: 182
Period size: 33 Copynumber: 3.0 Consensus size: 33
26664 ATATCTTAAG
26674 TTCACCCCTCAACACCTCAAATTCTTTCACCAC
1 TTCACCCCTCAACACCTCAAATTCTTTCACCAC
26707 TTCACCCCTCAACACCTCAAATTCTTTCACCAC
1 TTCACCCCTCAACACCTCAAATTCTTTCACCAC
* *
26740 TTCACCCATCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAAATTCTTTCACCAC
26773 T
1 T
26774 CCATTTATTT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.27, C:0.45, G:0.00, T:0.28
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAAATTCTTTCACCAC
Found at i:26831 original size:21 final size:21
Alignment explanation
Indices: 26806--26850 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
26796 CCCCCTTATG
26806 TCTCTCAAGTGTCTCTTCGAC
1 TCTCTCAAGTGTCTCTTCGAC
* *
26827 TCTCTTAAGTTTCTCTTCGAC
1 TCTCTCAAGTGTCTCTTCGAC
26848 TCT
1 TCT
26851 TGATTGTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.13, C:0.31, G:0.11, T:0.44
Consensus pattern (21 bp):
TCTCTCAAGTGTCTCTTCGAC
Found at i:26952 original size:15 final size:15
Alignment explanation
Indices: 26932--26964 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
26922 ACTCTGCTTT
26932 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
*
26947 CCCTCATCGTCATCC
1 CCCTCACCGTCATCC
26962 CCC
1 CCC
26965 AATACAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.61, G:0.06, T:0.21
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:29560 original size:182 final size:183
Alignment explanation
Indices: 29253--29927 Score: 923
Period size: 182 Copynumber: 3.7 Consensus size: 183
29243 TACGCGTACT
* * * * * *
29253 TATTAAAGTATCGACACTTTCAATATATACAGTAGCGT-TTTACTGGTTTT-ATCATTTCGAGAC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGC-TCTATACCGGTTTTGTTCATTTAGAGAC
* * * * * *
29316 CGATTTTGTCATATTTTTACCTATTATATCGTTATAGATCGATACATTTTTATATAGTATCGACA
65 CGATTTTGTCATATTTTTACCTGTTATATCGATGTGGATCGATACATTGTTATAAAGTATCGACA
29381 CTTTATAGGCACTAAAACTGCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
130 CTTTATAGGCACTAAAACTGCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
*
29435 TATTAAAGTATCGACACTTTCAATATATCCGGTCGCTCTATACCGGTTTTGTTC-TTTAGAGACC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATACCGGTTTTGTTCATTTAGAGACC
* *
29499 GATTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAACGTATCGACAC
66 GATTTTGTCATATTTTTACCTGTTATATCGATGTGGATCGATACATTGTTATAAAGTATCGACAC
* * *
29564 TTTATAGACACTAAAAATGCTTCTCATTTAAATTCACAAAA-TGTCGATACTTA
131 TTTATAGGCACTAAAACTGCTTCTCTTTTAAATTCA-AAAAGTGTCGATACTTA
* * * * *
29617 TATTAAAGTATCGACACTTTCAATATATTCGGTTGCTCTATACCGATTTT-ATCCTTTAGAGACC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATACCGGTTTTGTTCATTTAGAGACC
* **
29681 GGTTTTGTCATATTTTTAGTTGTTATATCGATGTGGATCGATACATTGTTATAAAGTATCGACAC
66 GATTTTGTCATATTTTTACCTGTTATATCGATGTGGATCGATACATTGTTATAAAGTATCGACAC
* * *
29746 TTTATAGGCGCTAAAACTGCTTATCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTTATAGGCACTAAAACTGCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
* * * *
29799 TATTAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCCGGTTTTG-TCTTTTCA-AGA
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATA-CCGGTTTTGTTCATTT-AGAGA
* * * * *
29862 CCGGTTTTGTCATAATTTTACATGTTATATTGATGTGGATCGATACATTTTTATAAAGTATCGAC
64 CCGATTTTGTCATATTTTTACCTGTTATATCGATGTGGATCGATACATTGTTATAAAGTATCGAC
29927 A
129 A
29928 TAAACCGACA
Statistics
Matches: 442, Mismatches: 43, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
181 6 0.01
182 353 0.80
183 82 0.19
184 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.40
Consensus pattern (183 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATACCGGTTTTGTTCATTTAGAGACC
GATTTTGTCATATTTTTACCTGTTATATCGATGTGGATCGATACATTGTTATAAAGTATCGACAC
TTTATAGGCACTAAAACTGCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
Found at i:34412 original size:75 final size:75
Alignment explanation
Indices: 34332--34475 Score: 261
Period size: 75 Copynumber: 1.9 Consensus size: 75
34322 TTTGGTAACA
* *
34332 AAGGGAGCTTTTTAACAGCAGTTATACCTTCTCCTCCAATTGTTGATATCCATTTGGAGAAGACT
1 AAGGGAGCTGTTTAACAGCAGTTAGACCTTCTCCTCCAATTGTTGATATCCATTTGGAGAAGACT
34397 GCGACCTCAG
66 GCGACCTCAG
*
34407 AAGGGAGCTGTTTAACAGCAGTTAGACCTTCTCCTCCAATTGTTGATATCCATTTGTAGAAGACT
1 AAGGGAGCTGTTTAACAGCAGTTAGACCTTCTCCTCCAATTGTTGATATCCATTTGGAGAAGACT
34472 GCGA
66 GCGA
34476 ACCGCAGCGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (75 bp):
AAGGGAGCTGTTTAACAGCAGTTAGACCTTCTCCTCCAATTGTTGATATCCATTTGGAGAAGACT
GCGACCTCAG
Found at i:38178 original size:24 final size:24
Alignment explanation
Indices: 38149--38222 Score: 148
Period size: 24 Copynumber: 3.1 Consensus size: 24
38139 ATTAAAAGCT
38149 AAAAGAAGCTTAGAGATAGAAGGG
1 AAAAGAAGCTTAGAGATAGAAGGG
38173 AAAAGAAGCTTAGAGATAGAAGGG
1 AAAAGAAGCTTAGAGATAGAAGGG
38197 AAAAGAAGCTTAGAGATAGAAGGG
1 AAAAGAAGCTTAGAGATAGAAGGG
38221 AA
1 AA
38223 TCAACATTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.51, C:0.04, G:0.32, T:0.12
Consensus pattern (24 bp):
AAAAGAAGCTTAGAGATAGAAGGG
Found at i:39067 original size:23 final size:23
Alignment explanation
Indices: 39041--39085 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
39031 AGGCATAGAA
39041 AAATGTGCCACAAAGACAGAGAT
1 AAATGTGCCACAAAGACAGAGAT
** *
39064 AAATGTGTTATAAAGACAGAGA
1 AAATGTGCCACAAAGACAGAGA
39086 ATATGTCACA
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:0.49, C:0.11, G:0.22, T:0.18
Consensus pattern (23 bp):
AAATGTGCCACAAAGACAGAGAT
Found at i:40328 original size:26 final size:27
Alignment explanation
Indices: 40299--40350 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
40289 TTTAAGTATA
*
40299 TTTTCTTTTTAC-ACAT-TAATTATTAG
1 TTTTCTTTATACTAC-TGTAATTATTAG
40325 TTTTCTTTATACTACTGTAATTATTA
1 TTTTCTTTATACTACTGTAATTATTA
40351 TTGTAAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.27, C:0.12, G:0.04, T:0.58
Consensus pattern (27 bp):
TTTTCTTTATACTACTGTAATTATTAG
Found at i:40713 original size:37 final size:39
Alignment explanation
Indices: 40669--40757 Score: 105
Period size: 37 Copynumber: 2.4 Consensus size: 39
40659 TAATATAATG
*
40669 TAGTTTTTTAAAATA-GTTTTTGGAAA-CCTATAATATA
1 TAGTTTTTTAAAATACGTTTTTGGAAAGCATATAATATA
* *
40706 TAG-TTTTTAGAAA-ACGTTTTTTGAAAGCATATTATATA
1 TAGTTTTTTA-AAATACGTTTTTGGAAAGCATATAATATA
*
40744 TAGTTTTTAAAAAT
1 TAGTTTTTTAAAAT
40758 TTAATTTTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
36 7 0.16
37 16 0.37
38 15 0.35
39 5 0.12
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.46
Consensus pattern (39 bp):
TAGTTTTTTAAAATACGTTTTTGGAAAGCATATAATATA
Found at i:40742 original size:36 final size:35
Alignment explanation
Indices: 40673--40939 Score: 134
Period size: 36 Copynumber: 7.3 Consensus size: 35
40663 ATAATGTAGT
* * *
40673 TTTTTAAAATA-GTTTTTGGAAACCTATAATATATAG
1 TTTTTAAAA-ACGTTTTTTGAAAAC-ATATTATATAG
*
40709 TTTTTAGAAAACGTTTTTTGAAAGCATATTATATATAG
1 TTTTTA-AAAACGTTTTTTGAAAACATA-T-TATATAG
** * *
40747 TTTTTAAAAATTTAATTTTTGAAAATATATAATA-AG
1 TTTTTAAAAACGT--TTTTTGAAAACATATTATATAG
* * *
40783 GTTTT-GAAACTATTTTTTGACAATACATATTATATAG
1 TTTTTAAAAAC-GTTTTTTGA-AA-ACATATTATATAG
* * * *
40820 TTTTGAAAACACATTTTTT-AAAATGTATAATATACATAG
1 TTTTTAAAA-ACGTTTTTTGAAAA--CAT-AT-TATATAG
* * *
40859 -TTTTAAAAATGATTTTTGAAAACGTATATAATATAG
1 TTTTTAAAAACGTTTTTTGAAAAC--ATATTATATAG
* * *
40895 -TTTTCAAAACGTATTTTAAAAACATA-TATATAG
1 TTTTTAAAAACGTTTTTTGAAAACATATTATATAG
*
40928 TTTTTTAAAACG
1 TTTTTAAAAACG
40940 GTTCTTTTTT
Statistics
Matches: 178, Mismatches: 33, Indels: 42
0.70 0.13 0.17
Matches are distributed among these distances:
33 6 0.03
34 20 0.11
35 6 0.03
36 50 0.28
37 38 0.21
38 38 0.21
39 20 0.11
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (35 bp):
TTTTTAAAAACGTTTTTTGAAAACATATTATATAG
Found at i:40743 original size:38 final size:36
Alignment explanation
Indices: 40673--40756 Score: 107
Period size: 38 Copynumber: 2.3 Consensus size: 36
40663 ATAATGTAGT
*
40673 TTTTTAAAATA-GTTTTTGGAAACCTATAATATATAG
1 TTTTTAAAA-ACGTTTTTGGAAACATATAATATATAG
* *
40709 TTTTTAGAAAACGTTTTTTGAAAGCATATTATATATAG
1 TTTTTA-AAAACGTTTTTGGAAA-CATATAATATATAG
40747 TTTTTAAAAA
1 TTTTTAAAAA
40757 TTTAATTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 7 0.17
37 17 0.40
38 18 0.43
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (36 bp):
TTTTTAAAAACGTTTTTGGAAACATATAATATATAG
Found at i:40874 original size:38 final size:36
Alignment explanation
Indices: 40832--40903 Score: 90
Period size: 38 Copynumber: 1.9 Consensus size: 36
40822 TTGAAAACAC
* *
40832 ATTTTTTAAAATGTATAATATACATAGTTTTAAAAATG
1 ATTTTTGAAAACGTAT-ATA-ACATAGTTTTAAAAATG
* *
40870 ATTTTTGAAAACGTATATAATATAGTTTTCAAAA
1 ATTTTTGAAAACGTATATAACATAGTTTTAAAAA
40904 CGTATTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 13 0.43
37 3 0.10
38 14 0.47
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.43
Consensus pattern (36 bp):
ATTTTTGAAAACGTATATAACATAGTTTTAAAAATG
Found at i:41022 original size:34 final size:37
Alignment explanation
Indices: 40984--41067 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 37
40974 TTTGAAAACA
40984 TATTATT-T-TTTAAAATATAGTATTATATAGTT-TT
1 TATTATTATATTTAAAATATAGTATTATATAGTTATT
** * * *
41018 TATTATTATATTTATTATATATTATTATTTATTTATT
1 TATTATTATATTTAAAATATAGTATTATATAGTTATT
41055 TATTA-TATATTTA
1 TATTATTATATTTA
41068 TTGTATTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
34 7 0.17
35 1 0.02
36 27 0.64
37 7 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (37 bp):
TATTATTATATTTAAAATATAGTATTATATAGTTATT
Found at i:41024 original size:17 final size:16
Alignment explanation
Indices: 41004--41066 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
40994 TAAAATATAG
41004 TATTATATAGTTTTTAT
1 TATTATATA-TTTTTAT
*
41021 TATTATAT-TTATTAT
1 TATTATATATTTTTAT
41036 ATATTAT-TATTTATTTATT
1 -TATTATATA-TT-TTTA-T
41055 TATTATATATTT
1 TATTATATATTT
41067 ATTGTATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
15 7 0.18
16 6 0.16
17 11 0.29
18 11 0.29
19 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TATTATATATTTTTAT
Found at i:41027 original size:25 final size:26
Alignment explanation
Indices: 41004--41065 Score: 92
Period size: 25 Copynumber: 2.4 Consensus size: 26
40994 TAAAATATAG
*
41004 TATTATATAGTTTTTA-TTATTATATT
1 TATTATATA-TTATTATTTATTATATT
41030 TATTATATATTATTATTTATT-TATT
1 TATTATATATTATTATTTATTATATT
41055 TATTATATATT
1 TATTATATATT
41066 TATTGTATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 20 0.59
26 14 0.41
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (26 bp):
TATTATATATTATTATTTATTATATT
Found at i:41038 original size:11 final size:11
Alignment explanation
Indices: 41016--41069 Score: 63
Period size: 11 Copynumber: 4.5 Consensus size: 11
41006 TTATATAGTT
41016 TTTATTATTATA
1 TTTATTA-TATA
41028 TTTATTATATA
1 TTTATTATATA
*
41039 TTATTATTTATTTA
1 -T-TTA-TTATATA
41053 TTTATTATATA
1 TTTATTATATA
41064 TTTATT
1 TTTATT
41070 GTATTTATCT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
11 16 0.43
12 11 0.30
13 4 0.11
14 6 0.16
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTATTATATA
Found at i:41044 original size:36 final size:36
Alignment explanation
Indices: 40998--41077 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
40988 ATTTTTTAAA
*
40998 ATATAGTATTATATAGTT-TTTATTATTATATTTATT
1 ATATATTATTATATAGTTATTTATTA-TATATTTATT
* *
41034 ATATATTATTATTTATTTATTTATTATATATTTATT
1 ATATATTATTATATAGTTATTTATTATATATTTATT
*
41070 GTAT-TTAT
1 ATATATTAT
41078 CTATTTAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
35 4 0.10
36 28 0.72
37 7 0.18
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (36 bp):
ATATATTATTATATAGTTATTTATTATATATTTATT
Found at i:41049 original size:4 final size:4
Alignment explanation
Indices: 41016--41084 Score: 63
Period size: 4 Copynumber: 17.0 Consensus size: 4
41006 TTATATAGTT
*
41016 TTTA -TTA TTATA TTTA TTATA TATTA -TTA TTTA TTTA TTTA -TTA TATA
1 TTTA TTTA TT-TA TTTA TT-TA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA
*
41064 TTTA TTGTA TTTA TCTA TTTA
1 TTTA TT-TA TTTA TTTA TTTA
41085 ACCATTTCAG
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
3 9 0.17
4 31 0.57
5 13 0.24
6 1 0.02
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:41535 original size:17 final size:17
Alignment explanation
Indices: 41509--41555 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
41499 ACATCAATGA
* *
41509 CAACAGAGCAATCAAGC
1 CAACAAAGCAAACAAGC
*
41526 CAACAAAGCAAACAAGG
1 CAACAAAGCAAACAAGC
41543 CAAGCAAAGCAAA
1 CAA-CAAAGCAAA
41556 GCATTCTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.55, C:0.26, G:0.17, T:0.02
Consensus pattern (17 bp):
CAACAAAGCAAACAAGC
Found at i:46923 original size:26 final size:26
Alignment explanation
Indices: 46893--46955 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
46883 GGTGAAATTC
*
46893 TTGGTCATTTGCATACTAGAGGTATT
1 TTGGTCATTTCCATACTAGAGGTATT
*
46919 TTGGTCATTTCCATACTAGGGGTATT
1 TTGGTCATTTCCATACTAGAGGTATT
46945 TTGGTCATTTC
1 TTGGTCATTTC
46956 ACAGATCCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.19, C:0.14, G:0.22, T:0.44
Consensus pattern (26 bp):
TTGGTCATTTCCATACTAGAGGTATT
Found at i:52073 original size:26 final size:26
Alignment explanation
Indices: 52043--52105 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
52033 GGTGAAATTC
*
52043 TTGGTCATTTGCATACTAGAGGTATT
1 TTGGTCATTTCCATACTAGAGGTATT
*
52069 TTGGTCATTTCCATACTAGGGGTATT
1 TTGGTCATTTCCATACTAGAGGTATT
52095 TTGGTCATTTC
1 TTGGTCATTTC
52106 ACAGATCCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.19, C:0.14, G:0.22, T:0.44
Consensus pattern (26 bp):
TTGGTCATTTCCATACTAGAGGTATT
Found at i:55551 original size:27 final size:27
Alignment explanation
Indices: 55513--55575 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
55503 CATTTTGATC
*
55513 CGAACTAAAATTAATCC-GATCCAAGCG
1 CGAACTGAAATTAA-CCTGATCCAAGCG
* *
55540 CGAACTGAAATTAACCTGATCTAAGCT
1 CGAACTGAAATTAACCTGATCCAAGCG
55567 CGAACTGAA
1 CGAACTGAA
55576 TCTGATGTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 2 0.06
27 30 0.94
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.21
Consensus pattern (27 bp):
CGAACTGAAATTAACCTGATCCAAGCG
Found at i:65041 original size:7 final size:7
Alignment explanation
Indices: 65005--65040 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
64995 ATAAACTAAA
65005 AATATTT
1 AATATTT
65012 AATATTT
1 AATATTT
*
65019 AATATAT
1 AATATTT
65026 AATATTT
1 AATATTT
*
65033 ATTATTT
1 AATATTT
65040 A
1 A
65041 TAAATTTTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATATTT
Found at i:65578 original size:13 final size:13
Alignment explanation
Indices: 65549--65577 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
65539 TTTTTAAAAT
65549 AAAATATTATTTA
1 AAAATATTATTTA
65562 AAAATATT-TTTA
1 AAAATATTATTTA
65574 AAAA
1 AAAA
65578 ACTTAATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAATATTATTTA
Found at i:66488 original size:20 final size:20
Alignment explanation
Indices: 66465--66506 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
66455 TATAAAAATG
*
66465 CAACAAGATATATAGAAAGA
1 CAACAAAATATATAGAAAGA
66485 CAACAAAATATATAGAAAGA
1 CAACAAAATATATAGAAAGA
66505 CA
1 CA
66507 CTTATGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.14
Consensus pattern (20 bp):
CAACAAAATATATAGAAAGA
Found at i:71108 original size:13 final size:13
Alignment explanation
Indices: 71092--71116 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71082 TAATTATAAA
71092 ATTTTAAAATATT
1 ATTTTAAAATATT
71105 ATTTTAAAATAT
1 ATTTTAAAATAT
71117 AACACAAGAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTAAAATATT
Found at i:71590 original size:21 final size:21
Alignment explanation
Indices: 71566--71608 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
71556 TTAAGTAAAC
*
71566 TTATATAAAAT-TTATAAAATT
1 TTATAGAAAATATTA-AAAATT
*
71587 TTATAGAAAGTATTAAAAATT
1 TTATAGAAAATATTAAAAATT
71608 T
1 T
71609 GTTAGATTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (21 bp):
TTATAGAAAATATTAAAAATT
Found at i:73445 original size:38 final size:40
Alignment explanation
Indices: 73403--73481 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 40
73393 AAATAACCTC
73403 AGTGACCAAAATCCC-AT-ATATACGATTTTAACCAATTT
1 AGTGACCAAAATCCCAATAATATACGATTTTAACCAATTT
73441 AGTGACCAAAATCCCATATAATATACGATTTTAACCAATTT
1 AGTGACCAAAATCCCA-ATAATATACGATTTTAACCAATTT
73482 TTCCGGATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
38 15 0.39
40 2 0.05
41 21 0.55
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (40 bp):
AGTGACCAAAATCCCAATAATATACGATTTTAACCAATTT
Found at i:73659 original size:20 final size:20
Alignment explanation
Indices: 73634--73684 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
73624 TTTTCCCAAT
*
73634 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
* **
73654 TCGCAACGCGAATGGGAAAA
1 TCGCAATGCGAATAAGAAAA
73674 TCGCAATGCGA
1 TCGCAATGCGA
73685 TACTTACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:73696 original size:20 final size:20
Alignment explanation
Indices: 73673--73766 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
73663 GAATGGGAAA
*
73673 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * * **
73693 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-TACT
*
73714 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
73734 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
73754 TTCGCAACGCGAT
1 ATCGCAACGCGAT
73767 TTACATAGCG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:73728 original size:41 final size:41
Alignment explanation
Indices: 73670--73747 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
73660 CGCGAATGGG
* * *
73670 AAAATCGCAATGCGATACTTACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAA
*
73711 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATA
73748 CTGACTTTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAA
Found at i:74320 original size:19 final size:19
Alignment explanation
Indices: 74276--74348 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
74266 GATAGTTTCG
*
74276 GAAATGAAAATCGCAACGC
1 GAAATAAAAATCGCAACGC
**
74295 GGAAATAACTATCGCAACGC
1 -GAAATAAAAATCGCAACGC
*
74315 GAAATAAAAAGCGCAACGC
1 GAAATAAAAATCGCAACGC
**
74334 GAAACCAAAATCGCA
1 GAAATAAAAATCGCA
74349 TTGCGATTTC
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 28 0.64
20 16 0.36
ACGTcount: A:0.48, C:0.23, G:0.19, T:0.10
Consensus pattern (19 bp):
GAAATAAAAATCGCAACGC
Found at i:74379 original size:19 final size:19
Alignment explanation
Indices: 74344--74507 Score: 161
Period size: 19 Copynumber: 9.1 Consensus size: 19
74334 GAAACCAAAA
*
74344 TCGCATTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
74362 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
74381 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
74400 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
74420 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
74436 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
74453 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
74467 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
74486 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
74506 TC
1 TC
74508 AACCAAAAGA
Statistics
Matches: 121, Mismatches: 12, Indels: 25
0.77 0.08 0.16
Matches are distributed among these distances:
14 20 0.17
15 1 0.01
16 3 0.02
17 3 0.02
18 11 0.09
19 48 0.40
20 35 0.29
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:74413 original size:39 final size:38
Alignment explanation
Indices: 74344--74507 Score: 161
Period size: 33 Copynumber: 4.6 Consensus size: 38
74334 GAAACCAAAA
*
74344 TCGCATTGCGA-TTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
74381 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
* * **
74420 TCGCGTTGCGATTGTC---T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
74453 TCGCGTTGCGA--TTC---TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
74486 TCCGCGTTGCGATTTTCATTTC
1 T-CGCGTTGCGATTTTCATTTC
74508 AACCAAAAGA
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
31 3 0.03
33 36 0.34
34 10 0.10
35 1 0.01
36 4 0.04
37 10 0.10
38 10 0.10
39 31 0.30
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:74473 original size:14 final size:14
Alignment explanation
Indices: 74456--74482 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
74446 AGTCATTTCG
74456 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
74470 CGTTGCGATTCTC
1 CGTTGCGATTCTC
74483 ATTTCCGCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.30, G:0.22, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:74495 original size:20 final size:20
Alignment explanation
Indices: 74470--74507 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
74460 GCGATTCTCT
74470 CGTTGCGATTCTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
74490 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
74508 AACCAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.11, C:0.26, G:0.18, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:76482 original size:42 final size:42
Alignment explanation
Indices: 76422--76514 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
76412 GCCCGACTCG
* * *
76422 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
76464 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* *
76506 ACTGTCATC
1 CCTATCATC
76515 GTTGAAGAGG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.22, C:0.39, G:0.16, T:0.24
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:76544 original size:22 final size:23
Alignment explanation
Indices: 76511--76556 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
76501 AGGCCACTGT
76511 CATCGTTGAAGAGGTCCCTCCCA
1 CATCGTTGAAGAGGTCCCTCCCA
76534 CATCG-TGAAGAGGTCCCTCCCA
1 CATCGTTGAAGAGGTCCCTCCCA
76556 C
1 C
76557 CATTCAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.22, C:0.37, G:0.22, T:0.20
Consensus pattern (23 bp):
CATCGTTGAAGAGGTCCCTCCCA
Found at i:77927 original size:13 final size:14
Alignment explanation
Indices: 77911--77945 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
77901 ATTGTTTAAT
77911 TGATTTGT-AAAGG
1 TGATTTGTAAAAGG
*
77924 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
77938 TGATTTGT
1 TGATTTGT
77946 TTAATTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.46
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:78097 original size:19 final size:19
Alignment explanation
Indices: 78073--78131 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
78063 GAAATTAGCG
78073 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
78092 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
78106 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
78125 TTGCGAT
1 TTGCGAT
78132 AGTAATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 6 0.18
16 7 0.21
17 7 0.21
19 13 0.39
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:78097 original size:33 final size:34
Alignment explanation
Indices: 78054--78130 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 34
78044 AAACGTACTA
*
78054 TCGCAATGCGAAAT-TAGCGTTGCGATTTTCATT
1 TCGCATTGCGAAATCTAGCGTTGCGATTTTCATT
* **
78087 TCGCATTGCG-ATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATCTAGCGTTGCGATTTTCATT
78120 TCGCATTGCGA
1 TCGCATTGCGA
78131 TAGTAATTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 2 0.05
33 36 0.95
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.39
Consensus pattern (34 bp):
TCGCATTGCGAAATCTAGCGTTGCGATTTTCATT
Found at i:80414 original size:12 final size:12
Alignment explanation
Indices: 80397--80421 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
80387 TCTTCGGGGA
80397 CTTTTTCTTCTT
1 CTTTTTCTTCTT
80409 CTTTTTCTTCTT
1 CTTTTTCTTCTT
80421 C
1 C
80422 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:80630 original size:24 final size:24
Alignment explanation
Indices: 80596--80649 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
80586 CTGAAACATC
* *
80596 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
80620 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
80644 ATCAAA
1 ATCAAA
80650 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:81733 original size:20 final size:20
Alignment explanation
Indices: 81708--81765 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
81698 ATTCATTTGA
81708 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
81728 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
81748 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
81766 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:81825 original size:19 final size:19
Alignment explanation
Indices: 81784--81975 Score: 269
Period size: 19 Copynumber: 10.6 Consensus size: 19
81774 GAAATGAAAA
81784 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
81800 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
81817 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
81836 TCGCATTGTGATTTTCATT
1 TCGCATTGCGATTTTCATT
81855 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
81874 TCGCATTGCGATTTGC---
1 TCGCATTGCGATTTTCATT
81890 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
81907 TCGTATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
81926 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
81945 TCGCATTGCGATTTCCATT
1 TCGCATTGCGATTTTCATT
*
81964 TCGCGTTGCGAT
1 TCGCATTGCGAT
81976 AGTCTGTTTT
Statistics
Matches: 159, Mismatches: 7, Indels: 17
0.87 0.04 0.09
Matches are distributed among these distances:
14 21 0.13
16 6 0.04
17 6 0.04
19 126 0.79
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:81897 original size:71 final size:71
Alignment explanation
Indices: 81822--81958 Score: 256
Period size: 71 Copynumber: 1.9 Consensus size: 71
81812 TCATTTCGCA
*
81822 TTGCGATTTTCATTTCGCATTGTGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
81887 TGCTCG
66 TGCTCG
*
81893 TTGCGATTTTCATTTCGTATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
81958 T
66 T
81959 CCATTTCGCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.15, C:0.19, G:0.18, T:0.49
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
TGCTCG
Found at i:81918 original size:90 final size:90
Alignment explanation
Indices: 81784--81975 Score: 339
Period size: 90 Copynumber: 2.1 Consensus size: 90
81774 GAAATGAAAA
* *
81784 TCGCATTGCGATTTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGTGATT
1 TCGCATTGCGATTTGCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
*
81849 TTCATTTCGCATTGCGATTTTCATT
66 TTCATTTCGCATTGCGATTTCCATT
*
81874 TCGCATTGCGATTTGCTCGTTGCGATTTTCATTTCGTATTGCGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTGCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
81939 TTCATTTCGCATTGCGATTTCCATT
66 TTCATTTCGCATTGCGATTTCCATT
*
81964 TCGCGTTGCGAT
1 TCGCATTGCGAT
81976 AGTCTGTTTT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 97 1.00
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (90 bp):
TCGCATTGCGATTTGCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
TTCATTTCGCATTGCGATTTCCATT
Found at i:83969 original size:19 final size:20
Alignment explanation
Indices: 83945--84030 Score: 95
Period size: 20 Copynumber: 4.4 Consensus size: 20
83935 TAGTTTACTT
*
83945 TCGCAACAC-GAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
83964 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* *
83984 TCGCAATGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
84004 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
84023 TCGCAACG
1 TCGCAACG
84031 ACAAAATCGC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
19 22 0.37
20 37 0.63
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:84038 original size:14 final size:14
Alignment explanation
Indices: 84019--84076 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
84009 ATGCGAAATG
84019 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
84033 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
84049 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
84065 AAAATCGCAACG
1 AAAATCGCAACG
84077 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:84061 original size:32 final size:33
Alignment explanation
Indices: 84003--84093 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
83993 GGAAATGGCT
*
84003 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
84036 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
84068 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
84094 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:84087 original size:19 final size:19
Alignment explanation
Indices: 83945--84098 Score: 87
Period size: 20 Copynumber: 8.6 Consensus size: 19
83935 TAGTTTACTT
* **
83945 TCGCAACACGAAATGACTA
1 TCGCAACGCGAAATGAAAA
***
83964 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
* ***
83984 TCGCAATGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
84004 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
84023 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
84037 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
84055 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
84069 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
84088 TCGCAATGCGA
1 TCGCAACGCGA
84099 TTTGTGTTTC
Statistics
Matches: 112, Mismatches: 11, Indels: 24
0.76 0.07 0.16
Matches are distributed among these distances:
14 20 0.18
15 1 0.01
16 6 0.05
17 2 0.02
18 11 0.10
19 35 0.31
20 37 0.33
ACGTcount: A:0.41, C:0.23, G:0.22, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:84129 original size:14 final size:14
Alignment explanation
Indices: 84110--84167 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
84100 TTGTGTTTCG
84110 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
84124 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
84140 CGCGTTTCGATTTTGT
1 --CGTTGCGATTTTGT
84156 CGTTGCGATTTT
1 CGTTGCGATTTT
84168 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.61
16 4 0.11
18 10 0.28
ACGTcount: A:0.09, C:0.17, G:0.24, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:84144 original size:32 final size:33
Alignment explanation
Indices: 84105--84183 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
84095 GCGATTTGTG
84105 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
84137 TTTCGCGTTTCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
84170 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
84184 AGCCATTTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 26 0.60
33 17 0.40
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:84182 original size:19 final size:19
Alignment explanation
Indices: 84156--84222 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
84146 TCGATTTTGT
**
84156 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
84175 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
84195 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
84214 CGTTGCGAT
1 CGTTGCGAT
84223 TTTAAGTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:84202 original size:20 final size:19
Alignment explanation
Indices: 84168--84222 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
84158 TTGCGATTTT
*
84168 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
84187 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
84207 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
84223 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:84740 original size:18 final size:18
Alignment explanation
Indices: 84714--84758 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
84704 GTCGATCATA
* *
84714 TGATGGCTCTGGGTGGGG
1 TGATGGCTCTGGGCGAGG
*
84732 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
84750 TGATGGCTC
1 TGATGGCTC
84759 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.47, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:86102 original size:20 final size:20
Alignment explanation
Indices: 86077--86114 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
86067 AATAGTTTCT
86077 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
86097 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
86115 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:86403 original size:22 final size:22
Alignment explanation
Indices: 86378--86421 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
86368 GATTTAGATA
*
86378 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
*
86400 GACGGATTTCGTCAGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
86422 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATGGG
Found at i:86680 original size:41 final size:41
Alignment explanation
Indices: 86628--86705 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
86618 CGAAAGTCAG
* * *
86628 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTGTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTGTAT
*
86669 TATCGCATTGCGATAGTAAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
86706 CCCAATTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTGTAT
Found at i:86702 original size:20 final size:20
Alignment explanation
Indices: 86589--86702 Score: 90
Period size: 20 Copynumber: 5.7 Consensus size: 20
86579 CGCTTTGAAA
86589 ATCGCATTGCGATTATGTAA--
1 ATCGCATTGCGA-TA-GTAAGT
* * *
86609 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTAAGT
* *
86629 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTAAGT
* * * *
86649 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTAAGT
86670 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTAAGT
86690 ATCGCATTGCGAT
1 ATCGCATTGCGAT
86703 TTTCCCAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
18 3 0.04
19 4 0.05
20 56 0.73
21 12 0.16
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTAAGT
Found at i:86721 original size:41 final size:41
Alignment explanation
Indices: 86676--86783 Score: 128
Period size: 41 Copynumber: 2.6 Consensus size: 41
86666 TATTATCGCA
*
86676 TTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAATTCATG
1 TTGCGAT-GTAAGTATTCGCATTGCGATTTTCCCAATTCACG
* ** *
86717 TTGCGATTTACTTATTCGCATTGCGATTTTCCCAATTCGCG
1 TTGCGATGTAAGTATTCGCATTGCGATTTTCCCAATTCACG
* **
86758 TTGCGATTTACTTATTCGCATTGCGA
1 TTGCGATGTAAGTATTCGCATTGCGA
86784 ATTGGGAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 4 0.07
41 57 0.93
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.40
Consensus pattern (41 bp):
TTGCGATGTAAGTATTCGCATTGCGATTTTCCCAATTCACG
Found at i:86722 original size:21 final size:21
Alignment explanation
Indices: 86691--86766 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 21
86681 ATAGTAAGTA
*
86691 TCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
** * **
86712 TCATGTTGCGA-TTTACTTAT
1 TCGCGTTGCGATTTTCCCAAT
*
86732 TCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
86753 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
86767 ACTTATTCGC
Statistics
Matches: 41, Mismatches: 13, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
20 14 0.34
21 27 0.66
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.42
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCCAAT
Found at i:86740 original size:20 final size:20
Alignment explanation
Indices: 86717--86783 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
86707 CCAATTCATG
86717 TTGCGATTTACTTATTCGCA
1 TTGCGATTTACTTATTCGCA
* ** *
86737 TTGCGATTTTCCCAATTCGCG
1 TTGCGA-TTTACTTATTCGCA
86758 TTGCGATTTACTTATTCGCA
1 TTGCGATTTACTTATTCGCA
86778 TTGCGA
1 TTGCGA
86784 ATTGGGAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (20 bp):
TTGCGATTTACTTATTCGCA
Found at i:97179 original size:42 final size:42
Alignment explanation
Indices: 97128--97209 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
97118 CTAGAAAACA
* ** * *
97128 TTTTCCGGAAAATGTTTTCCGATGTTTGATAGTTGTAATTTG
1 TTTTACGGAAAACATTTTCCAATGTTTGACAGTTGTAATTTG
97170 TTTTACGGAAAACATTTTCCAATGTTTGACAGTTGTAATT
1 TTTTACGGAAAACATTTTCCAATGTTTGACAGTTGTAATT
97210 GATTTGTCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.45
Consensus pattern (42 bp):
TTTTACGGAAAACATTTTCCAATGTTTGACAGTTGTAATTTG
Found at i:97441 original size:19 final size:19
Alignment explanation
Indices: 97398--97443 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
97388 TATTTAATAT
*
97398 TATTATAATATAGTTTTAA
1 TATTATATTATAGTTTTAA
*
97417 TA--ATATTATATTTTTAA
1 TATTATATTATAGTTTTAA
97434 TATTATATTA
1 TATTATATTA
97444 ATATGTACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 15 0.65
19 8 0.35
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TATTATATTATAGTTTTAA
Found at i:98510 original size:12 final size:12
Alignment explanation
Indices: 98495--98520 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
98485 ATATGATGCT
98495 ATATGTTATAAA
1 ATATGTTATAAA
98507 ATATGTTATAAA
1 ATATGTTATAAA
98519 AT
1 AT
98521 GATACGTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (12 bp):
ATATGTTATAAA
Found at i:100353 original size:23 final size:22
Alignment explanation
Indices: 100333--100381 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 22
100323 AACGCGATTT
100333 TGAAAAATGTGTTGCTGCGATAG
1 TGAAAAA-GTGTTGCTGCGATAG
100356 TGAAAAAGTG-T--TGCGATAG
1 TGAAAAAGTGTTGCTGCGATAG
100375 TGAAAAA
1 TGAAAAA
100382 TCCAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 15 0.58
21 1 0.04
22 3 0.12
23 7 0.27
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.27
Consensus pattern (22 bp):
TGAAAAAGTGTTGCTGCGATAG
Found at i:100694 original size:6 final size:6
Alignment explanation
Indices: 100683--100709 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
100673 TTCCGTCTCG
100683 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
100710 AATACGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:100959 original size:21 final size:21
Alignment explanation
Indices: 100922--100966 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
100912 GCGATTTTCT
** *
100922 AAAATCGCGTTGTGAATTTGG
1 AAAATCGCGTTACGAATCTGG
100943 AAAATCGCGTTACGAATCTGG
1 AAAATCGCGTTACGAATCTGG
100964 AAA
1 AAA
100967 CTGATTTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (21 bp):
AAAATCGCGTTACGAATCTGG
Found at i:109654 original size:52 final size:51
Alignment explanation
Indices: 109505--109659 Score: 168
Period size: 52 Copynumber: 3.0 Consensus size: 51
109495 TTTATATTGC
* * *
109505 AAAAAAATGTAACACTTAATACATACTTACACTGATATAAGTGAATAAAAAT
1 AAAAAAATGTAACACTTAACACATACTTACAC-GATGTAAGTAAATAAAAAT
* * * * * * *
109557 AAACAAGTGTATCGCTTAACACATACTTACACTAGCGTAACTAAATAAAACA-
1 AAAAAAATGTAACACTTAACACATACTTACACGA-TGTAAGTAAATAAAA-AT
*
109609 AAAAAAATATAACACTTAACACATACTTACAACGATGTAAGTAAATAAAAA
1 AAAAAAATGTAACACTTAACACATACTTAC-ACGATGTAAGTAAATAAAAA
109660 AATGTAGTAC
Statistics
Matches: 82, Mismatches: 18, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
51 2 0.02
52 76 0.93
53 4 0.05
ACGTcount: A:0.53, C:0.15, G:0.08, T:0.24
Consensus pattern (51 bp):
AAAAAAATGTAACACTTAACACATACTTACACGATGTAAGTAAATAAAAAT
Found at i:119566 original size:14 final size:14
Alignment explanation
Indices: 119547--119662 Score: 78
Period size: 14 Copynumber: 8.4 Consensus size: 14
119537 TGTTCGATAA
119547 TATGTTCGTTCATT
1 TATGTTCGTTCATT
*
119561 TATGTTGGTTCATT
1 TATGTTCGTTCATT
*
119575 TATGTTCATTCATT
1 TATGTTCGTTCATT
* *
119589 TATATTCGTT-ATGG
1 TATGTTCGTTCAT-T
* * *
119603 T-CGTTCGTTTATG
1 TATGTTCGTTCATT
* * *
119616 T-TGTTTGTTCGTG
1 TATGTTCGTTCATT
*
119629 TACT-TTCGTTCGTT
1 TA-TGTTCGTTCATT
*
119643 TATGTTCGTTTATT
1 TATGTTCGTTCATT
119657 TATGTT
1 TATGTT
119663 TAGCCCAATC
Statistics
Matches: 81, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
13 20 0.25
14 60 0.74
15 1 0.01
ACGTcount: A:0.13, C:0.11, G:0.18, T:0.58
Consensus pattern (14 bp):
TATGTTCGTTCATT
Found at i:120466 original size:260 final size:260
Alignment explanation
Indices: 120005--120534 Score: 1033
Period size: 260 Copynumber: 2.0 Consensus size: 260
119995 AACGAATATG
120005 AACTAGAAATTTTTTGTTCATTAATGTTCGCGTTTGTTCATTTCTTCGATTAAAGTTAAACGAAC
1 AACTAGAAATTTTTTGTTCATTAATGTTCGCGTTTGTTCATTTCTTCGATTAAAGTTAAACGAAC
* *
120070 GAACATGAACATATCCTCATTCGTGTTCGTTTAGTTCGTTTACATGCTTATATTTCTAGTTAGTG
66 GAACATGAACATATCCTCATTCGTGTTCGTTTAGTTCGTTTACATGCTTATATTTCTAGGTAGTA
120135 TAAGTGTATAACCACCAAAGCCGAGATTGAAGAAAACAAATTAAGGTTGAATAGAATTAACTGTG
131 TAAGTGTATAACCACCAAAGCCGAGATTGAAGAAAACAAATTAAGGTTGAATAGAATTAACTGTG
120200 AAATCATTGAAAAAGTGTTATTTATGAACATGCATGAAAAATGGGGAATTTAAGTCAATATAGAA
196 AAATCATTGAAAAAGTGTTATTTATGAACATGCATGAAAAATGGGGAATTTAAGTCAATATAGAA
120265 AACTAGAAATTTTTTGTTCATTAATGTTCGCGTTTGTTCATTTCTTCGATTAAAGTTAAACGAAC
1 AACTAGAAATTTTTTGTTCATTAATGTTCGCGTTTGTTCATTTCTTCGATTAAAGTTAAACGAAC
120330 GAACATGAACATATCCTCATTCGTGTTCGTTTAGTTCGTTTACATGCTTATATTTCTAGGTAGTA
66 GAACATGAACATATCCTCATTCGTGTTCGTTTAGTTCGTTTACATGCTTATATTTCTAGGTAGTA
120395 TAAGTGTATAACCACCAAAGCCGAGATTGAAGAAAACAAATTAAGGTTGAATAGAATTAACTGTG
131 TAAGTGTATAACCACCAAAGCCGAGATTGAAGAAAACAAATTAAGGTTGAATAGAATTAACTGTG
120460 AAATCATTGAAAAAGTGTTATTTATGAACATGCATGAAAAATGGGGAATTTAAGTCAATATAGAA
196 AAATCATTGAAAAAGTGTTATTTATGAACATGCATGAAAAATGGGGAATTTAAGTCAATATAGAA
*
120525 AACTGGAAAT
1 AACTAGAAAT
120535 ATTTACAAGA
Statistics
Matches: 267, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
260 267 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (260 bp):
AACTAGAAATTTTTTGTTCATTAATGTTCGCGTTTGTTCATTTCTTCGATTAAAGTTAAACGAAC
GAACATGAACATATCCTCATTCGTGTTCGTTTAGTTCGTTTACATGCTTATATTTCTAGGTAGTA
TAAGTGTATAACCACCAAAGCCGAGATTGAAGAAAACAAATTAAGGTTGAATAGAATTAACTGTG
AAATCATTGAAAAAGTGTTATTTATGAACATGCATGAAAAATGGGGAATTTAAGTCAATATAGAA
Done.