Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001126.1 Hibiscus syriacus cultivar Beakdansim tig00002226_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: 132545
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:625 original size:126 final size:126
Alignment explanation
Indices: 1--706 Score: 1276
Period size: 123 Copynumber: 5.7 Consensus size: 126
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTA-TTCGTCAGAGAATATTATCATTGCCCTAT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTAT
65 TATGTCACTCATGT-CCTCGGGGAC-CTAGATATATCAGTACCTATTATTTCACTATTCAC
66 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
124 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAAT-TTATCATTGCCCTAT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTAT
*
188 TATGTCATTC-TGTCCCTCGGGGACACTAGATATATCAGTACCTATT-TTTCACTATTCAC
66 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
247 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTAT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTAT
312 TATGTCACTCATGTCCCTCGGGGACACTA-ATATATCAGTACCTATTATTTCACTATTCAC
66 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
*
372 GTGAAGGCGCGTTCTCGGGGGCGCGCCTTCCATTATTTCGTC--AGAATATTA-CATTGCCC--T
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTAT
*
432 TATGTCATTCATGTCCCTC-GGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
66 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
492 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTAT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTAT
*
557 TATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
66 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
*
618 GTGAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTAT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTAT
683 TATGTCACTCATGTCCCTCGGGGA
66 TATGTCACTCATGTCCCTCGGGGA
707 ATAACTTAAA
Statistics
Matches: 563, Mismatches: 7, Indels: 23
0.95 0.01 0.04
Matches are distributed among these distances:
119 9 0.02
120 91 0.16
122 20 0.04
123 148 0.26
124 75 0.13
125 92 0.16
126 128 0.23
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (126 bp):
GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTAT
TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
Found at i:654 original size:246 final size:247
Alignment explanation
Indices: 1--704 Score: 1237
Period size: 245 Copynumber: 2.9 Consensus size: 247
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTA-TTCGTCAGAGAATATTATCATTGCCCTAT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTAT
65 TATGTCACTCATGT-CCTCGGGGAC-CTAGATATATCAGTACCTATTATTTCACTATTCACGTGA
66 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACGTGA
*
128 AGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGA-ATTTATCATTGCCCTATTATG
131 AGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTCGTCAGA-ATA-TTATCATTGCCC-ATTATG
192 TCATTC-TGTCCCTCGGGGACACTAGATATATCAGTACCTATTTTTCACTATTCAC
193 TCATTCATGTCCCTC-GGGACACTAGATATATCAGTACCTATTTTTCACTATTCAC
247 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTAT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTAT
312 TATGTCACTCATGTCCCTCGGGGACACTA-ATATATCAGTACCTATTATTTCACTATTCACGTGA
66 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACGTGA
376 AGGCGCGTT-CTCGGGGGCGCGCCTTCCATTATTTCGTCAGAATATTA-CATTGCCC-TTATGTC
131 AGGCGCGTTCCT-GGGGGCGCGCCTTCCATTATTTCGTCAGAATATTATCATTGCCCATTATGTC
438 ATTCATGTCCCTCGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
195 ATTCATGTCCCTCGGGACACTAGATATATCAGTACCTATT-TTTCACTATTCAC
492 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTAT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTAT
*
557 TATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACGTGA
66 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACGTGA
622 AGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATG
131 AGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTCGTC--AGAATATTATCATTGCCC-ATTATG
*
687 TCACTCATGTCCCTCGGG
193 TCATTCATGTCCCTCGGG
705 GAATAACTTA
Statistics
Matches: 441, Mismatches: 3, Indels: 23
0.94 0.01 0.05
Matches are distributed among these distances:
244 38 0.09
245 114 0.26
246 113 0.26
247 50 0.11
248 93 0.21
249 11 0.02
251 22 0.05
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.32
Consensus pattern (247 bp):
GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTAT
TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACGTGA
AGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTCGTCAGAATATTATCATTGCCCATTATGTCA
TTCATGTCCCTCGGGACACTAGATATATCAGTACCTATTTTTCACTATTCAC
Found at i:684 original size:371 final size:369
Alignment explanation
Indices: 1--706 Score: 1285
Period size: 371 Copynumber: 1.9 Consensus size: 369
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTCGTCAGAGAATATTATCATTGCCCTATT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTCGTCA-AGAATATTATCATTGCCC-ATT
66 ATGTCACTCATGTCCTCGGGGACCTAGATATATCAGTACCTATTATTTCACTATTCACGTGAAGG
64 ATGTCACTCATGTCCTCGGGGACCTAGATATATCAGTACCTATTATTTCACTATTCACGTGAAGG
131 CGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATTTATCATTGCCCTATTATGTCAT
129 CGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATTTATCATTGCCCTATTATGTCAT
196 TCTGTCCCTCGGGGACACTAGATATATCAGTACCTATTTTTCACTATTCACGTGAAGGCGCGTTC
194 TCTGTCCCTCGGGGACACTAGATATATCAGTACCTATTTTTCACTATTCACGTGAAGGCGCGTTC
261 CCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGTCACTCATGT
259 CCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGTCACTCATGT
326 CCCTCGGGGACACTAATATATCAGTACCTATTATTTCACTATTCAC
324 CCCTCGGGGACACTAATATATCAGTACCTATTATTTCACTATTCAC
*
372 GTGAAGGCGCGTTCTCGGGGGCGCGCCTTCCATTATTTCGTC-AGAATATTA-CATTGCCC-TTA
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTA-TTCGTCAAGAATATTATCATTGCCCATTA
*
434 TGTCATTCATGTCCCTC-GGGACACTAGATATATCAGTACCTATTATTTCACTATTCACGTGAAG
65 TGTCACTCATGT-CCTCGGGGAC-CTAGATATATCAGTACCTATTATTTCACTATTCACGTGAAG
498 GCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGTC
128 GCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAAT-TTATCATTGCCCTATTATGTC
563 ATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACGTGAAGGCGC
192 ATTC-TGTCCCTCGGGGACACTAGATATATCAGTACCTATT-TTTCACTATTCACGTGAAGGCGC
*
628 GTTCCTGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGTCACTC
255 GTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGTCACTC
693 ATGTCCCTCGGGGA
320 ATGTCCCTCGGGGA
707 ATAACTTAAA
Statistics
Matches: 326, Mismatches: 3, Indels: 12
0.96 0.01 0.04
Matches are distributed among these distances:
367 19 0.06
368 88 0.27
369 33 0.10
370 45 0.14
371 135 0.41
372 6 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (369 bp):
GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTCGTCAAGAATATTATCATTGCCCATTAT
GTCACTCATGTCCTCGGGGACCTAGATATATCAGTACCTATTATTTCACTATTCACGTGAAGGCG
CGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATTTATCATTGCCCTATTATGTCATTC
TGTCCCTCGGGGACACTAGATATATCAGTACCTATTTTTCACTATTCACGTGAAGGCGCGTTCCC
GGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGTCACTCATGTCC
CTCGGGGACACTAATATATCAGTACCTATTATTTCACTATTCAC
Found at i:1148 original size:33 final size:33
Alignment explanation
Indices: 1078--1179 Score: 125
Period size: 33 Copynumber: 3.0 Consensus size: 33
1068 TAAGTTGAAA
* *
1078 TTTAATGTTAAATTTCGAATACTATAATTTATATT
1 TTTAAT-TTAAATTTCGAATAATATTATTT-TATT
*
1113 TTAAATTTAAATTT-GAATAATATTATTTTATT
1 TTTAATTTAAATTTCGAATAATATTATTTTATT
* *
1145 TTTATTTTAAATTTCGAATAATATAATTTGTATT
1 TTTAATTTAAATTTCGAATAATATTATTT-TATT
1179 T
1 T
1180 AAAAACATTT
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
32 16 0.27
33 25 0.42
34 13 0.22
35 5 0.08
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (33 bp):
TTTAATTTAAATTTCGAATAATATTATTTTATT
Found at i:1783 original size:21 final size:21
Alignment explanation
Indices: 1696--1788 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
1686 ATATGGTATA
*
1696 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
1717 -A-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
1737 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
1758 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
1779 AACCCTGCGG
1 AACCCTGCGG
1789 AGATGGCATA
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
19 3 0.04
20 16 0.24
21 45 0.67
22 3 0.04
ACGTcount: A:0.19, C:0.27, G:0.35, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:3397 original size:16 final size:16
Alignment explanation
Indices: 3372--3419 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
3362 TATAATTCAT
*
3372 AATAACTTTAAAATAA
1 AATAAATTTAAAATAA
3388 AATAAATTTAAATATAA
1 AATAAATTTAAA-ATAA
*
3405 ACATTAATTATAAAA
1 A-ATAAATT-TAAAA
3420 AATTACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 11 0.41
17 5 0.19
18 7 0.26
19 4 0.15
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAATTTAAAATAA
Found at i:3590 original size:34 final size:31
Alignment explanation
Indices: 3534--3612 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 31
3524 TTAATAATTC
* *
3534 TAAATAAAT-ATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTACATAAATA-TA--TTAA
*
3567 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTACATAAATATATTAA
3598 TATAAAAAATAATAA
1 TA-AAAAAATAATAA
3613 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 6 0.15
32 11 0.28
33 10 0.25
34 13 0.32
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAAAAATAATAATTACATAAATATATTAA
Found at i:10188 original size:21 final size:21
Alignment explanation
Indices: 10162--10219 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
10152 CATTAGTGCA
*
10162 GATGCATGGATGCACTGTAGG
1 GATGCATGGATGCACTGCAGG
*
10183 GATGCATGGATGCATTGCAGG
1 GATGCATGGATGCACTGCAGG
10204 GATGCATGGATGCACT
1 GATGCATGGATGCACT
10220 TTGACACCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (21 bp):
GATGCATGGATGCACTGCAGG
Found at i:10358 original size:30 final size:30
Alignment explanation
Indices: 10301--10358 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
10291 AACTTTGAAT
10301 AAATTCAATTCAAATCCAAAAACATTTTTC
1 AAATTCAATTCAAATCCAAAAACATTTTTC
*
10331 AAATTCAATTCAAGTCCAAAAACATTTT
1 AAATTCAATTCAAATCCAAAAACATTTT
10359 GCCTTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.33
Consensus pattern (30 bp):
AAATTCAATTCAAATCCAAAAACATTTTTC
Found at i:11673 original size:19 final size:20
Alignment explanation
Indices: 11630--11677 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
11620 TCTAAATCCT
*
11630 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
11650 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
11669 TTTTCAAAA
1 TTTTCAAAA
11678 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:12518 original size:34 final size:33
Alignment explanation
Indices: 12457--12527 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 33
12447 ACCTTACAAC
* *
12457 TCCCTAGTTTTTCACGGGTTAAACTAGAACCTT
1 TCCCTAGTTTTACACGGGCTAAACTAGAACCTT
*
12490 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTACACGGGCTAAACTAGAACCTT
12524 TCCC
1 TCCC
12528 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 7 0.21
34 27 0.79
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (33 bp):
TCCCTAGTTTTACACGGGCTAAACTAGAACCTT
Found at i:13014 original size:21 final size:21
Alignment explanation
Indices: 12988--13044 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
12978 ATTAGTGCAA
*
12988 ATGCATGGATGCACTGCATGG
1 ATGCATGGATGCACTGCAGGG
*
13009 ATGCATGGATGCATTGCAGGG
1 ATGCATGGATGCACTGCAGGG
13030 ATGCATGGATGCACT
1 ATGCATGGATGCACT
13045 TTGACACCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.25
Consensus pattern (21 bp):
ATGCATGGATGCACTGCAGGG
Found at i:13026 original size:13 final size:13
Alignment explanation
Indices: 12989--13013 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12979 TTAGTGCAAA
12989 TGCATGGATGCAC
1 TGCATGGATGCAC
13002 TGCATGGATGCA
1 TGCATGGATGCA
13014 TGGATGCATT
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:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (13 bp):
TGCATGGATGCAC
Found at i:13034 original size:42 final size:40
Alignment explanation
Indices: 12943--13044 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 40
12933 ATTCGATGTT
* *
12943 TGGATGCATGGATGCATTGCCTGATGCATCGATGCATTAG
1 TGGATGCATGGATGCACTGCATGATGCATCGATGCATTAG
* *
12983 TGCAAATGCATGGATGCACTGCATGGATGCATGGATGCATTGCAG
1 TG--GATGCATGGATGCACTGCAT-GATGCATCGATGCATT--AG
13028 -GGATGCATGGATGCACT
1 TGGATGCATGGATGCACT
13045 TTGACACCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
40 2 0.04
42 32 0.62
43 15 0.29
44 1 0.02
45 2 0.04
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (40 bp):
TGGATGCATGGATGCACTGCATGATGCATCGATGCATTAG
Found at i:13183 original size:30 final size:30
Alignment explanation
Indices: 13126--13183 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
13116 AACTTTGAAT
13126 AAATTCAATTCAAATCCAAAAACATTTTTC
1 AAATTCAATTCAAATCCAAAAACATTTTTC
*
13156 AAATTCAATTCAAGTCCAAAAACATTTT
1 AAATTCAATTCAAATCCAAAAACATTTT
13184 GCCTTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.33
Consensus pattern (30 bp):
AAATTCAATTCAAATCCAAAAACATTTTTC
Found at i:14203 original size:21 final size:21
Alignment explanation
Indices: 14177--14232 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
14167 GTTGAGGGTT
14177 TCATAGGTCCTTCGAGACA-A
1 TCATAGGTCCTTCGAGACATA
* *
14197 CTCATAGGTCATTCGGGACATA
1 -TCATAGGTCCTTCGAGACATA
*
14219 TCACAGGTCCTTCG
1 TCATAGGTCCTTCG
14233 GAACAAATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (21 bp):
TCATAGGTCCTTCGAGACATA
Found at i:14233 original size:21 final size:21
Alignment explanation
Indices: 14181--14238 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
14171 AGGGTTTCAT
* *
14181 AGGTCCTTCGAGACAACTCAT
1 AGGTCCTTCGGGACAACTCAC
*
14202 AGGTCATTCGGGACATA-TCAC
1 AGGTCCTTCGGGACA-ACTCAC
*
14223 AGGTCCTTCGGAACAA
1 AGGTCCTTCGGGACAA
14239 ATCTCATATG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (21 bp):
AGGTCCTTCGGGACAACTCAC
Found at i:16470 original size:11 final size:11
Alignment explanation
Indices: 16423--16470 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
16413 ATTAAACGTA
16423 TAATTATAAAT
1 TAATTATAAAT
*
16434 TAGTTATAAAT
1 TAATTATAAAT
* *
16445 TAAATATAATT
1 TAATTATAAAT
16456 TAATTA-AAAT
1 TAATTATAAAT
16466 ATAAT
1 -TAAT
16471 ATTTATAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 3 0.10
11 27 0.90
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (11 bp):
TAATTATAAAT
Found at i:16969 original size:2 final size:2
Alignment explanation
Indices: 16919--16951 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
16909 TATTTTGTTA
16919 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16952 GTTAATTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25045 original size:18 final size:17
Alignment explanation
Indices: 25008--25050 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
24998 GTTAATGAAT
**
25008 TTAATATTTAATTTTTTA
1 TTAAT-TTTAATTTGATA
25026 TTATATTTTAATTTGATA
1 TTA-ATTTTAATTTGATA
25044 TTAATTT
1 TTAATTT
25051 AAAAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 4 0.18
18 16 0.73
19 2 0.09
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TTAATTTTAATTTGATA
Found at i:27812 original size:21 final size:22
Alignment explanation
Indices: 27776--27817 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
27766 CTGGAAGATG
27776 CCAGCTCAGCACAGTT-GTTAT
1 CCAGCTCAGCACAGTTAGTTAT
**
27797 CCAGCTCAGCGTAGTTAGTTA
1 CCAGCTCAGCACAGTTAGTTA
27818 GGAGACTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (22 bp):
CCAGCTCAGCACAGTTAGTTAT
Found at i:28955 original size:20 final size:20
Alignment explanation
Indices: 28927--28990 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
28917 TATGTAGAAG
*
28927 TTAGGTGAATCAATGAAATA
1 TTAGTTGAATCAATGAAATA
* * *
28947 TTAGTTGAAACTATGTTAAA-G
1 TTAGTTGAATCAATG--AAATA
28968 TTAGTTGAAT-ATATGAAATA
1 TTAGTTGAATCA-ATGAAATA
28988 TTA
1 TTA
28991 CTGTCCGAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
19 3 0.09
20 15 0.45
21 12 0.36
22 3 0.09
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (20 bp):
TTAGTTGAATCAATGAAATA
Found at i:32294 original size:19 final size:19
Alignment explanation
Indices: 32270--32306 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
32260 ATGACCAACA
*
32270 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
32289 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
32307 CATTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:32445 original size:20 final size:20
Alignment explanation
Indices: 32393--32445 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
32383 ATTTTTTGAT
32393 AATCGCAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
*
32413 AATCGAAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
*
32433 AATCGCAACGCGA
1 AATCGCAATGCGA
32446 TAACACGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (20 bp):
AATCGCAATGCGAATATGTA
Found at i:32480 original size:20 final size:20
Alignment explanation
Indices: 32455--32561 Score: 135
Period size: 20 Copynumber: 5.3 Consensus size: 20
32445 ATAACACGTG
* *
32455 ATCGCAATGCGATTCGGACT
1 ATCGCAACGCGATTCTGACT
32475 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
32495 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
32515 ATCGCAACGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
32535 GATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
*
32556 AACGCA
1 ATCGCA
32562 TCACTGAATT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
19 2 0.03
20 56 0.75
21 15 0.20
22 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:32515 original size:40 final size:41
Alignment explanation
Indices: 32434--32561 Score: 170
Period size: 41 Copynumber: 3.1 Consensus size: 41
32424 GAATATGTAA
* * *
32434 ATCGCAACGCGATAACACGTGATCGCAATGCGATTCGGACT
1 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACT
** *
32475 ATCGCAACGCGATTCTGAC-T-ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATAAT-ACGTGATCGCAACGCGATTCTGACT
32515 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACT
*
32556 AACGCA
1 ATCGCA
32562 TCACTGAATT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.03
40 32 0.43
41 38 0.51
42 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACT
Found at i:33415 original size:24 final size:24
Alignment explanation
Indices: 33383--33460 Score: 138
Period size: 24 Copynumber: 3.2 Consensus size: 24
33373 GTATTCGAAA
33383 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
33407 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
33431 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
33455 TTTGAT
1 TTTGAT
33461 GATGTTTCAG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:33679 original size:14 final size:14
Alignment explanation
Indices: 33650--33686 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
33640 AGAAAAAGAA
33650 GAAGAATAAATCCCC
1 GAAGAA-AAATCCCC
*
33665 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
33679 GAAGAAAA
1 GAAGAAAA
33687 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.19, T:0.08
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:35746 original size:18 final size:18
Alignment explanation
Indices: 35723--35757 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35713 AGCAAAAGGC
*
35723 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
35741 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
35758 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:35960 original size:20 final size:20
Alignment explanation
Indices: 35935--36229 Score: 205
Period size: 20 Copynumber: 15.7 Consensus size: 20
35925 CACATTCATT
*
35935 TGACTATCGCAACGCGGATA
1 TGACTATCGCAACGCGAATA
* *
35955 TGACTATCGTAACACGAATA
1 TGACTATCGCAACGCGAATA
* *
35975 TGACTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAATA
* *
35995 TGAATATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* * *
36012 T-A--ATCGCAATGCAAAAA
1 TGACTATCGCAACGCGAATA
* *
36029 TGACTATCACAACGCGAATT
1 TGACTATCGCAACGCGAATA
*
36049 TGACTATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
36066 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
* *
36083 TGATTATCGCAACGCGAAAA
1 TGACTATCGCAACGCGAATA
*
36103 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* *
36123 TAACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* *
36143 TGACTATCACAA--CG-AGA
1 TGACTATCGCAACGCGAATA
36160 T-A--ATCGCAACGCGAA-A
1 TGACTATCGCAACGCGAATA
* *
36176 TGACTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAATA
* * * *
36196 TGATTATCGTAACGGGAATT
1 TGACTATCGCAACGCGAATA
36216 TGACTATCGCAACG
1 TGACTATCGCAACG
36230 AGAAAATCGC
Statistics
Matches: 216, Mismatches: 40, Indels: 38
0.73 0.14 0.13
Matches are distributed among these distances:
14 22 0.10
15 1 0.00
16 7 0.03
17 10 0.05
18 4 0.02
19 14 0.06
20 158 0.73
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:36042 original size:54 final size:54
Alignment explanation
Indices: 35974--36116 Score: 223
Period size: 54 Copynumber: 2.6 Consensus size: 54
35964 TAACACGAAT
* *
35974 ATGACTATCGCAACGTGAATTTGAATATCGCAACGGGATAATCGCAATGCAAAA
1 ATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCAAAA
* *
36028 ATGACTATCACAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCGAAA
1 ATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCAAAA
* **
36082 ATGATTATCGCAACGCGAAAATGACTATCGCAACG
1 ATGACTATCGCAACGCGAATTTGACTATCGCAACG
36117 CGAATTTAAC
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (54 bp):
ATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCAAAA
Found at i:36061 original size:74 final size:73
Alignment explanation
Indices: 35940--36241 Score: 313
Period size: 74 Copynumber: 4.1 Consensus size: 73
35930 TCATTTGACT
* * * * * *
35940 ATCGCAACGCGGATATGACTATCGTAACACGAATATGACTATCGCAACGTGAATTTGAATATCGC
1 ATCGCAACGC-AAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGAATTTGAATATCGC
*
36005 AACGGGATA
65 AACGAGATA
* * * * *
36014 ATCGCAATGCAAAAATGACTATCACAACGCGAATTTGACTATCGCAACGGGATAATCGCA-AT-G
1 ATCGCAACGC-AAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGA-ATTTGAATATCG
* *
36077 CGAA-AATGATT
64 C-AACGA-GATA
* * * *
36088 ATCGCAACGCGAAAATGACTATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGACTATCAC
1 ATCGCAACGC-AAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGAATTTGAATATCGC
36153 AACGAGATA
65 AACGAGATA
* * * * *
36162 ATCGCAACGCGAAATGACTATCGCAACGTGAATTTGATTATCGTAACGGGAATTTGACTATCGCA
1 ATCGCAACGCAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGAATTTGAATATCGCA
*
36227 ACGAGAAA
66 ACGAGATA
36235 ATCGCAA
1 ATCGCAA
36242 AGTGTATTAG
Statistics
Matches: 187, Mismatches: 35, Indels: 13
0.80 0.15 0.06
Matches are distributed among these distances:
73 67 0.36
74 114 0.61
75 6 0.03
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (73 bp):
ATCGCAACGCAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGAATTTGAATATCGCA
ACGAGATA
Found at i:36391 original size:54 final size:55
Alignment explanation
Indices: 36308--36411 Score: 192
Period size: 54 Copynumber: 1.9 Consensus size: 55
36298 TTTACATTTC
36308 AATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAA-TAATCAACTTTT
1 AATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTAATCAACTTTT
*
36362 AATCAATTAAACAAGCACAAATAATAATTATTTACACATCAATTAATCAA
1 AATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTAATCAA
36412 ATAAGAATTA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 41 0.85
55 7 0.15
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.29
Consensus pattern (55 bp):
AATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTAATCAACTTTT
Found at i:36414 original size:30 final size:30
Alignment explanation
Indices: 36378--36443 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
36368 TTAAACAAGC
*
36378 ACAAATAATAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
*
36408 TCAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
36438 ACAAAT
1 ACAAAT
36444 CAACTCTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.32
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACATCAATTAA
Found at i:37861 original size:21 final size:21
Alignment explanation
Indices: 37812--37918 Score: 106
Period size: 21 Copynumber: 5.1 Consensus size: 21
37802 TCTAGAATGT
* *
37812 TGGGAGGGACCTCTTCAACGA
1 TGGGAGGGGCCTCTTGAACGA
** *
37833 TGACAGGGGCCTCTTGAACGG
1 TGGGAGGGGCCTCTTGAACGA
* **
37854 TGGGAGGGGACTCTTGAGGGA
1 TGGGAGGGGCCTCTTGAACGA
**
37875 TGATAGGGGCCTCTTGAACGA
1 TGGGAGGGGCCTCTTGAACGA
* *
37896 TAGGAGAGGCCTCTTGAACGA
1 TGGGAGGGGCCTCTTGAACGA
37917 TG
1 TG
37919 ACAGGTGAGT
Statistics
Matches: 65, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.22, C:0.19, G:0.38, T:0.21
Consensus pattern (21 bp):
TGGGAGGGGCCTCTTGAACGA
Found at i:37877 original size:42 final size:42
Alignment explanation
Indices: 37814--37923 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 42
37804 TAGAATGTTG
* * *
37814 GGAG-GGACCTCTTCAACGATGACAGGGGCCTCTTGAACGGTG
1 GGAGAGGA-CTCTTGAACGATGACAGGGGCCTCTTGAACGATA
* ** *
37856 GGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGATA
1 GGAGAGGACTCTTGAACGATGACAGGGGCCTCTTGAACGATA
*
37898 GGAGAGGCCTCTTGAACGATGACAGG
1 GGAGAGGACTCTTGAACGATGACAGG
37924 TGAGTCGGGA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 53 0.95
43 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.38, T:0.19
Consensus pattern (42 bp):
GGAGAGGACTCTTGAACGATGACAGGGGCCTCTTGAACGATA
Found at i:38425 original size:20 final size:20
Alignment explanation
Indices: 38400--38443 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
38390 AATAGTTTCT
*
38400 GAAACTTAAAATTGCAACAC
1 GAAACTTAAAATCGCAACAC
38420 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
38440 GAAA
1 GAAA
38444 ATGATTATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.52, C:0.20, G:0.11, T:0.16
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:38453 original size:20 final size:20
Alignment explanation
Indices: 38430--38497 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
38420 GAAACTTAAA
** *
38430 ATCGCAACACGAAAATGATT
1 ATCGCAACACGAATTTGACT
*
38450 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAATTTGACT
38470 ATCGCAACACGAATTTGACT
1 ATCGCAACACGAATTTGACT
38490 ATCGCAAC
1 ATCGCAAC
38498 GAGATAATCG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (20 bp):
ATCGCAACACGAATTTGACT
Found at i:38525 original size:33 final size:33
Alignment explanation
Indices: 38470--38550 Score: 126
Period size: 33 Copynumber: 2.4 Consensus size: 33
38460 GAATTTGACT
* * *
38470 ATCGCAACACGAATTTGACTATCGCAACGAGATA
1 ATCGCAACGCGAA-ATGACTATCGCAACGAGAAA
38504 ATCGCAACGCGAAATGACTATCGCAACGAGAAA
1 ATCGCAACGCGAAATGACTATCGCAACGAGAAA
38537 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
38551 CTAAATTCGC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.41, C:0.25, G:0.20, T:0.15
Consensus pattern (33 bp):
ATCGCAACGCGAAATGACTATCGCAACGAGAAA
Found at i:38550 original size:14 final size:14
Alignment explanation
Indices: 38490--38550 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 14
38480 GAATTTGACT
*
38490 ATCGCAACGAGATA
1 ATCGCAACGAGAAA
*
38504 ATCGCAACGCGAAATGA
1 ATCGCAACGAG-AA--A
38521 CTATCGCAACGAGAAA
1 --ATCGCAACGAGAAA
*
38537 ATCGCAACGCGAAA
1 ATCGCAACGAGAAA
38551 CTAAATTCGC
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 2 0.05
19 10 0.26
ACGTcount: A:0.43, C:0.25, G:0.21, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:38561 original size:33 final size:33
Alignment explanation
Indices: 38489--38561 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
38479 CGAATTTGAC
* * *
38489 TATCGCAACGAGATAATCGCAACGCGAAATGAC
1 TATCGCAACGAGAAAATCGCAACGCGAAATAAA
38522 TATCGCAACGAGAAAATCGCAACGCGAAACTAAA
1 TATCGCAACGAGAAAATCGCAACGCGAAA-TAAA
38556 T-TCGCA
1 TATCGCA
38562 TTGCGATAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 33 0.92
34 3 0.08
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.15
Consensus pattern (33 bp):
TATCGCAACGAGAAAATCGCAACGCGAAATAAA
Found at i:38707 original size:20 final size:20
Alignment explanation
Indices: 38556--38715 Score: 119
Period size: 20 Copynumber: 8.6 Consensus size: 20
38546 CGAAACTAAA
*
38556 TTCGCATTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
*
38576 TTCGCATTGCGAT--T-A--
1 TTCGCGTTGCGATAGTCATT
* **
38591 -TCCCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCATT
38610 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
* *
38630 TCCGCATTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
*
38650 TTCGCATTGCGAT--T-A--
1 TTCGCGTTGCGATAGTCATT
* **
38665 -TCCCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCATT
*
38684 TTCGCGTTGCGATAATCATT
1 TTCGCGTTGCGATAGTCATT
*
38704 TTCGTGTTGCGA
1 TTCGCGTTGCGA
38716 CTATTATTCT
Statistics
Matches: 113, Mismatches: 15, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
14 20 0.18
16 2 0.02
17 4 0.04
18 2 0.02
20 85 0.75
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCATT
Found at i:38715 original size:74 final size:74
Alignment explanation
Indices: 38558--38704 Score: 285
Period size: 74 Copynumber: 2.0 Consensus size: 74
38548 AAACTAAATT
38558 CGCATTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGAT
1 CGCATTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGAT
*
38623 AGTCATTTC
66 AATCATTTC
38632 CGCATTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGAT
1 CGCATTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGAT
38697 AATCATTT
66 AATCATTT
38705 TCGTGTTGCG
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.35
Consensus pattern (74 bp):
CGCATTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGAT
AATCATTTC
Found at i:40771 original size:20 final size:20
Alignment explanation
Indices: 40719--40810 Score: 96
Period size: 20 Copynumber: 4.7 Consensus size: 20
40709 GAAACTTAAA
* **
40719 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
* *
40739 ATCGCAACACGAAAATGATT
1 ATCGCAACGCGAAAATGACT
* **
40759 ATTGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
40779 ATCGCAACGCG-AAATGGCT
1 ATCGCAACGCGAAAATGACT
40798 ATCGCAACGCGAA
1 ATCGCAACGCGAA
40811 TTTTGTCGTT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
19 16 0.27
20 44 0.73
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:41181 original size:22 final size:22
Alignment explanation
Indices: 41153--41230 Score: 104
Period size: 22 Copynumber: 3.5 Consensus size: 22
41143 GATGGAGATA
*
41153 GACGGATTTTGCTGGAGATGGG
1 GACGGATTTCGCTGGAGATGGG
* *
41175 GACGGATTTCGCCGGAAATGGG
1 GACGGATTTCGCTGGAGATGGG
41197 GACGGATTTCG-TAGGAGATGGG
1 GACGGATTTCGCT-GGAGATGGG
*
41219 GACGGATGTCGC
1 GACGGATTTCGC
41231 CGTAGAGAGT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.21, C:0.14, G:0.44, T:0.22
Consensus pattern (22 bp):
GACGGATTTCGCTGGAGATGGG
Found at i:41420 original size:20 final size:20
Alignment explanation
Indices: 41395--41459 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
41385 TTATCGCAAC
* *
41395 GCGATAGTTAGAATCTCGTT
1 GCGATAGTAAGAATCGCGTT
*
41415 GCGATAGTCAGAATCGCGTT
1 GCGATAGTAAGAATCGCGTT
41435 GCGATAGTAAGAATCGCGTT
1 GCGATAGTAAGAATCGCGTT
41455 GCGAT
1 GCGAT
41460 CACGTGTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (20 bp):
GCGATAGTAAGAATCGCGTT
Found at i:41497 original size:20 final size:20
Alignment explanation
Indices: 41469--41521 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
41459 TCACGTGTTA
*
41469 TCGCGTTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
41489 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
41509 TCACATTGCGATT
1 TCGCATTGCGATT
41522 ATCTAAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:41619 original size:20 final size:19
Alignment explanation
Indices: 41595--41641 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
41585 TGGAAACTGA
*
41595 ATTGCGATAATGGAGATCGC
1 ATTGCGAT-ATAGAGATCGC
* *
41615 GTTGCGATTTAGAGATCGC
1 ATTGCGATATAGAGATCGC
41634 ATTGCGAT
1 ATTGCGAT
41642 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (19 bp):
ATTGCGATATAGAGATCGC
Found at i:41631 original size:19 final size:19
Alignment explanation
Indices: 41607--41643 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
41597 TGCGATAATG
*
41607 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
41626 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
41644 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:42576 original size:12 final size:13
Alignment explanation
Indices: 42550--42582 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
42540 AATTTTAATA
42550 TTAAAATCTTTTT
1 TTAAAATCTTTTT
42563 TTAAAATCTTTTT
1 TTAAAATCTTTTT
42576 TTAAAAT
1 TTAAAAT
42583 TTATATGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (13 bp):
TTAAAATCTTTTT
Found at i:46303 original size:63 final size:63
Alignment explanation
Indices: 46186--46308 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 63
46176 TAATAATATC
* * * * **
46186 TTTTAATTTGCAATATTCAAAAGATTTAAACTCTTTTTACTATTTAAATTTAAATAGATATTA
1 TTTTAATTTGAAATATTCAAAAGATATAAACTCTTTTAACTATTCAAAGCTAAATAGATATTA
*
46249 TTTTAATTTGAAATATTC-AAAGTATATAATCATCTTTTAAC-ATTCAAAGCTAAATAGATA
1 TTTTAATTTGAAATATTCAAAAG-ATATAAAC-TCTTTTAACTATTCAAAGCTAAATAGATA
46309 ATAAATATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
62 4 0.08
63 39 0.76
64 8 0.16
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (63 bp):
TTTTAATTTGAAATATTCAAAAGATATAAACTCTTTTAACTATTCAAAGCTAAATAGATATTA
Found at i:48928 original size:29 final size:29
Alignment explanation
Indices: 48848--48929 Score: 76
Period size: 30 Copynumber: 2.8 Consensus size: 29
48838 GCTAGTGACT
** *
48848 AAAATGTAAGTTTTGAAATTTTAAGGGCTA
1 AAAATGTAA-TTTTGAAAAGTTAAGGGATA
* * *
48878 AAGTAT-AAACTTTGTAAAAGTTAAGGGATA
1 AA-AATGTAATTTTG-AAAAGTTAAGGGATA
48908 AAAATGTAATTTTGAAAAGTTA
1 AAAATGTAATTTTGAAAAGTTA
48930 TAGATTTTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
29 14 0.35
30 24 0.60
31 2 0.05
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.34
Consensus pattern (29 bp):
AAAATGTAATTTTGAAAAGTTAAGGGATA
Found at i:51714 original size:18 final size:18
Alignment explanation
Indices: 51659--51751 Score: 91
Period size: 18 Copynumber: 5.2 Consensus size: 18
51649 ATTCTAAATG
*
51659 TTTACAGTTATCAGA-CA
1 TTTACAGTTATCAGATGA
* *
51676 TTTCACAATTATCATAT-A
1 TTT-ACAGTTATCAGATGA
*
51694 TTTACAGTTATCCGATGA
1 TTTACAGTTATCAGATGA
*
51712 TTTTCAGTTATCAGATGA
1 TTTACAGTTATCAGATGA
** *
51730 TTTTTAGTTATCAGATGT
1 TTTACAGTTATCAGATGA
51748 TTTA
1 TTTA
51752 TAATTATCAA
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
17 13 0.21
18 50 0.79
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (18 bp):
TTTACAGTTATCAGATGA
Found at i:51723 original size:35 final size:35
Alignment explanation
Indices: 51659--51750 Score: 87
Period size: 35 Copynumber: 2.6 Consensus size: 35
51649 ATTCTAAATG
** * * *
51659 TTTACAGTTATCAGACATTTCACAATTATCATAT-A
1 TTTACAGTTATCAGATGTTT-TCAGTTATCAGATGA
*
51694 TTTACAGTTATCCGATGATTTTCAGTTATCAGATGA
1 TTTACAGTTATCAGATG-TTTTCAGTTATCAGATGA
**
51730 TTTTTAGTTATCAGATGTTTT
1 TTTACAGTTATCAGATGTTTT
51751 ATAATTATCA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
35 28 0.61
36 18 0.39
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTACAGTTATCAGATGTTTTCAGTTATCAGATGA
Found at i:51758 original size:18 final size:18
Alignment explanation
Indices: 51701--51760 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
51691 ATATTTACAG
* * *
51701 TTATCCGATGATTTTCAG
1 TTATCAGATGATTTTTAA
*
51719 TTATCAGATGATTTTTAG
1 TTATCAGATGATTTTTAA
51737 TTATCAGATG-TTTTATAA
1 TTATCAGATGATTTT-TAA
51755 TTATCA
1 TTATCA
51761 AACGTATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
17 4 0.11
18 34 0.89
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.48
Consensus pattern (18 bp):
TTATCAGATGATTTTTAA
Found at i:57944 original size:45 final size:45
Alignment explanation
Indices: 57891--58106 Score: 369
Period size: 45 Copynumber: 4.8 Consensus size: 45
57881 AATAAATTCT
* *
57891 TGCGAACTAGATATCATGCGGTTATGTTTATTTTTTGAACAAGCA
1 TGCGAACTAGATATCATGCGGTTAGGTTTATTTTTCGAACAAGCA
57936 TGCGAACTAGATATCATGCGGTTAGGTTTATTTTTCGAACAAGCA
1 TGCGAACTAGATATCATGCGGTTAGGTTTATTTTTCGAACAAGCA
57981 TGCGAACTAGATATCATGCGGTTAGGTTTATTTTTCGAACAAGCA
1 TGCGAACTAGATATCATGCGGTTAGGTTTATTTTTCGAACAAGCA
* *
58026 TGCGAATTAGATATCATGAGGTTAGGTTTATTTTTCGAACAAGCA
1 TGCGAACTAGATATCATGCGGTTAGGTTTATTTTTCGAACAAGCA
* *
58071 TGCGAATTAGATATCATGCGGTTAGGATTTCTTTTT
1 TGCGAACTAGATATCATGCGGTTAGG-TTTATTTTT
58107 GTGAATAACA
Statistics
Matches: 164, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
45 156 0.95
46 8 0.05
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (45 bp):
TGCGAACTAGATATCATGCGGTTAGGTTTATTTTTCGAACAAGCA
Found at i:63052 original size:19 final size:20
Alignment explanation
Indices: 63028--63078 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
63018 CGGCCAATAG
* *
63028 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
63047 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
63067 CATGTATTTTCA
1 CATGTATTTTCA
63079 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:63518 original size:19 final size:20
Alignment explanation
Indices: 63502--63551 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
63492 CTTTATTTCA
63502 TTTCATT-CTTATTATTTAT
1 TTTCATTACTTATTATTTAT
63521 TTTCATTACTTA-TA-TTAT
1 TTTCATTACTTATTATTTAT
*
63539 TATTCATTTCTTA
1 T-TTCATTACTTA
63552 AACCCATCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 5 0.18
19 19 0.68
20 4 0.14
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTCATTACTTATTATTTAT
Found at i:63832 original size:8 final size:8
Alignment explanation
Indices: 63821--63845 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
63811 GAGAAAAATC
63821 AGAAAAGA
1 AGAAAAGA
63829 AGAAAAGA
1 AGAAAAGA
63837 AGAAAAGA
1 AGAAAAGA
63845 A
1 A
63846 AAGAAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (8 bp):
AGAAAAGA
Found at i:63855 original size:16 final size:16
Alignment explanation
Indices: 63804--63855 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
63794 TTGGAGTGCA
63804 AAAAGAAGAGAAAAATCAG
1 AAAAGAAGA-AAAAA--AG
*
63823 AAAAGAAGAAAAGAAG
1 AAAAGAAGAAAAAAAG
63839 AAAAGAA-AAGAAAAAG
1 AAAAGAAGAA-AAAAAG
63855 A
1 A
63856 GAAGTTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 2 0.07
16 15 0.50
18 4 0.13
19 9 0.30
ACGTcount: A:0.75, C:0.02, G:0.21, T:0.02
Consensus pattern (16 bp):
AAAAGAAGAAAAAAAG
Found at i:67237 original size:19 final size:20
Alignment explanation
Indices: 67213--67263 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
67203 CGGCCAATAG
* *
67213 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
67232 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
67252 CATGTATTTTCA
1 CATGTATTTTCA
67264 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:67703 original size:19 final size:20
Alignment explanation
Indices: 67687--67736 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
67677 CTTTATTTCA
67687 TTTCATT-CTTATTATTTAT
1 TTTCATTACTTATTATTTAT
67706 TTTCATTACTTA-TA-TTAT
1 TTTCATTACTTATTATTTAT
*
67724 TATTCATTTCTTA
1 T-TTCATTACTTA
67737 AACCCATCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 5 0.18
19 19 0.68
20 4 0.14
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTCATTACTTATTATTTAT
Found at i:70646 original size:11 final size:10
Alignment explanation
Indices: 70630--70735 Score: 103
Period size: 10 Copynumber: 10.4 Consensus size: 10
70620 TGGAAAAATT
70630 AAAAAATGAAGA
1 AAAAAATG-A-A
*
70642 AAAAAATGAG
1 AAAAAATGAA
70652 AAAAAA-GAA
1 AAAAAATGAA
70661 AAGAAAA--AA
1 AA-AAAATGAA
70670 GAAAAAATGAA
1 -AAAAAATGAA
*
70681 AAAATGATGAAA
1 AAAA-AATG-AA
70693 AAAAAATGAA
1 AAAAAATGAA
70703 AAAAAATG-A
1 AAAAAATGAA
70712 AAAAAATGAA
1 AAAAAATGAA
*
70722 AAAAAAAGAA
1 AAAAAATGAA
70732 AAAA
1 AAAA
70736 TGAAAAATGA
Statistics
Matches: 82, Mismatches: 5, Indels: 16
0.80 0.05 0.16
Matches are distributed among these distances:
9 19 0.23
10 40 0.49
11 9 0.11
12 14 0.17
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:70726 original size:51 final size:49
Alignment explanation
Indices: 70623--70770 Score: 169
Period size: 51 Copynumber: 3.0 Consensus size: 49
70613 GAAGAAATGG
* * *
70623 AAAAATTAAAAAATGAAGAAAAAAATGAGAAAAAAGAAAAGAAAAAAGA
1 AAAAATGAAAAAATGAAAAAAAAAATGAAAAAAAAGAAAAGAAAAAAGA
70672 AAAAATGAAAAAATGATGAAAAAAAAATGAAAAAAAATGAAAA-AAATGAAA-A
1 AAAAATGAAAAAATGA--AAAAAAAAATGAAAAAAAA-GAAAAGAAA--AAAGA
*
70724 AAAAA-GAAAAAATGAAAAATGAAAAATGAAAAGAAA-AAAAGAAAAAA
1 AAAAATGAAAAAATGAAAAA--AAAAATGAAAAAAAAGAAAAGAAAAAA
70771 ATAGAAATGG
Statistics
Matches: 87, Mismatches: 4, Indels: 17
0.81 0.04 0.16
Matches are distributed among these distances:
48 3 0.03
49 23 0.26
50 3 0.03
51 44 0.51
52 11 0.13
53 3 0.03
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (49 bp):
AAAAATGAAAAAATGAAAAAAAAAATGAAAAAAAAGAAAAGAAAAAAGA
Found at i:70769 original size:27 final size:27
Alignment explanation
Indices: 70694--70769 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
70684 ATGATGAAAA
*
70694 AAAAATGAAAA-AAAATGAA-AAAAATG
1 AAAAATGAAAAGAAAA-AAAGAAAAATG
*
70720 AAAAA--AAAAGAAAAAATGAAAAATG
1 AAAAATGAAAAGAAAAAAAGAAAAATG
70745 AAAAATGAAAAGAAAAAAAGAAAAA
1 AAAAATGAAAAGAAAAAAAGAAAAA
70770 AATAGAAATG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
24 5 0.12
25 16 0.37
26 5 0.12
27 17 0.40
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (27 bp):
AAAAATGAAAAGAAAAAAAGAAAAATG
Found at i:70795 original size:66 final size:66
Alignment explanation
Indices: 70650--70804 Score: 187
Period size: 66 Copynumber: 2.3 Consensus size: 66
70640 GAAAAAAATG
*
70650 AGAAAAAAGAAAAGAAAAAA-GAAAAAATGAAAAAATGATGAAAAAAAAATGAAAAAAAATGAAA
1 AGAAAAAAGAAAAGAAAAAATG-AAAAATGAAAAAATGA-GAAAAAAAAAAGAAAAAAAATGAAA
70714 AAA
64 AAA
70717 ATG-AAAAA-AAAAGAAAAAATGAAAAATG-AAAAATGA-AAAGAAAAAAAG-AAAAAAATAGAA
1 A-GAAAAAAGAAAAGAAAAAATGAAAAATGAAAAAATGAGAAA-AAAAAAAGAAAAAAAAT-GAA
**
70777 ATGGA
63 A-AAA
70782 AGAAAAAAGAAAAGAAAAAATGA
1 AGAAAAAAGAAAAGAAAAAATGA
70805 TGAAAAAAAT
Statistics
Matches: 78, Mismatches: 3, Indels: 15
0.81 0.03 0.16
Matches are distributed among these distances:
63 11 0.14
64 12 0.15
65 15 0.19
66 32 0.41
67 7 0.09
68 1 0.01
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (66 bp):
AGAAAAAAGAAAAGAAAAAATGAAAAATGAAAAAATGAGAAAAAAAAAAGAAAAAAAATGAAAAA
A
Found at i:70801 original size:7 final size:7
Alignment explanation
Indices: 70650--70770 Score: 76
Period size: 7 Copynumber: 17.1 Consensus size: 7
70640 GAAAAAAATG
70650 AGAAAAA
1 AGAAAAA
70657 AG--AAA
1 AGAAAAA
70662 AGAAAAA
1 AGAAAAA
70669 AGAAAAA
1 AGAAAAA
70676 ATGAAAAA
1 A-GAAAAA
70684 ATGATGAAAA
1 A-GA--AAAA
70694 A-AAAATGA
1 AGAAAA--A
70702 A-AAAAA
1 AGAAAAA
70708 ATGAAAAA
1 A-GAAAAA
**
70716 A-ATGAA
1 AGAAAAA
70722 A-AAAAA
1 AGAAAAA
70728 AGAAAAA
1 AGAAAAA
70735 ATGAAAAA
1 A-GAAAAA
*
70743 TGAAAAA
1 AGAAAAA
* *
70750 TGAAAAG
1 AGAAAAA
70757 A-AAAAA
1 AGAAAAA
70763 AGAAAAA
1 AGAAAAA
70770 A
1 A
70771 ATAGAAATGG
Statistics
Matches: 94, Mismatches: 8, Indels: 24
0.75 0.06 0.19
Matches are distributed among these distances:
5 5 0.05
6 18 0.19
7 37 0.39
8 29 0.31
10 5 0.05
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.07
Consensus pattern (7 bp):
AGAAAAA
Found at i:70911 original size:45 final size:44
Alignment explanation
Indices: 70827--70911 Score: 116
Period size: 45 Copynumber: 1.9 Consensus size: 44
70817 AGAGAAATAA
* * *
70827 AAAGGGGGTTCAAGATGAAAATCCGCAAAGGGCGTCTTGAAACC
1 AAAGGAGGTTCAAGATGAAAACCCGCAAAGGGCGACTTGAAACC
* *
70871 AAAGGAGGTCTCAAGTTGAAAACCCGCAAAGGGTGACTTGA
1 AAAGGAGGT-TCAAGATGAAAACCCGCAAAGGGCGACTTGA
70912 GTTTTGTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 8 0.23
45 27 0.77
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.16
Consensus pattern (44 bp):
AAAGGAGGTTCAAGATGAAAACCCGCAAAGGGCGACTTGAAACC
Found at i:72173 original size:37 final size:37
Alignment explanation
Indices: 72109--72181 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
72099 TCGAAATAGG
*
72109 TCAATCTTAAGCCATCACGAAAGAGTAGTGAAGCAAT
1 TCAAACTTAAGCCATCACGAAAGAGTAGTGAAGCAAT
* * *
72146 TCAAACTTATGCCTTCACGGAAGAGTAGTGAAGCAA
1 TCAAACTTAAGCCATCACGAAAGAGTAGTGAAGCAA
72182 ACTCGTTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (37 bp):
TCAAACTTAAGCCATCACGAAAGAGTAGTGAAGCAAT
Found at i:72357 original size:110 final size:110
Alignment explanation
Indices: 72200--72397 Score: 274
Period size: 110 Copynumber: 1.8 Consensus size: 110
72190 GTTGAAGATT
*
72200 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGAACAAGTTTGTTGAAGATTGTTCAAGTCCCATA
1 GAGTCCTATACTCTCTGAAGGAATAGAGAGCGAACAAGTTTGTTGAAGATTGTTCAAGTCCCATA
* *
72265 CTGTCTGAAGAAATAGGGAGCGGACATATTTGTTGAGGATTGTTC
66 CTCTCTGAAGAAATAGAGAGCGGACATATTTGTTGAGGATTGTTC
* * * * * * *
72310 GAGTTCTATACTCTCTGAATGAATAGAGAGCAGACCCA-TTT-TATGAAGATTGTTCGAGTTCTA
1 GAGTCCTATACTCTCTGAAGGAATAGAGAGC-GAACAAGTTTGT-TGAAGATTGTTCAAGTCCCA
72373 TACTCTCTGAAGAAATAGAGAGCGG
64 TACTCTCTGAAGAAATAGAGAGCGG
72398 GCCCATTTTA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
109 1 0.01
110 71 0.93
111 4 0.05
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (110 bp):
GAGTCCTATACTCTCTGAAGGAATAGAGAGCGAACAAGTTTGTTGAAGATTGTTCAAGTCCCATA
CTCTCTGAAGAAATAGAGAGCGGACATATTTGTTGAGGATTGTTC
Found at i:72410 original size:55 final size:55
Alignment explanation
Indices: 72200--72405 Score: 229
Period size: 55 Copynumber: 3.7 Consensus size: 55
72190 GTTGAAGATT
* * * *
72200 GAGTCCTATACTCTCTGAAGGAATAGGGAGC-GAACAAGTTTGTTGAAGATTGTTC
1 GAGTCCTATACTCTCTGAAGAAATAGAGAGCGGACCCA-TTTGTTGAAGATTGTTC
* * * * ** *
72255 AAGTCCCATACTGTCTGAAGAAATAGGGAGCGGACATATTTGTTGAGGATTGTTC
1 GAGTCCTATACTCTCTGAAGAAATAGAGAGCGGACCCATTTGTTGAAGATTGTTC
* *
72310 GAGTTCTATACTCTCTGAATG-AATAGAGAGCAGACCCATTT-TATGAAGATTGTTC
1 GAGTCCTATACTCTCTGAA-GAAATAGAGAGCGGACCCATTTGT-TGAAGATTGTTC
* *
72365 GAGTTCTATACTCTCTGAAGAAATAGAGAGCGGGCCCATTT
1 GAGTCCTATACTCTCTGAAGAAATAGAGAGCGGACCCATTT
72406 TATGATTGTT
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
54 2 0.02
55 122 0.95
56 4 0.03
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (55 bp):
GAGTCCTATACTCTCTGAAGAAATAGAGAGCGGACCCATTTGTTGAAGATTGTTC
Found at i:73787 original size:32 final size:32
Alignment explanation
Indices: 73744--73806 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
73734 AGTTATACAA
* *
73744 TAAAATTTTTGGTTAAATTAGGATTTAGTCAT
1 TAAAATATTTGGGTAAATTAGGATTTAGTCAT
*
73776 TAAAATATTTGGGTAAATTAGGGTTTAGTCA
1 TAAAATATTTGGGTAAATTAGGATTTAGTCA
73807 CCATGACTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.03, G:0.19, T:0.43
Consensus pattern (32 bp):
TAAAATATTTGGGTAAATTAGGATTTAGTCAT
Found at i:76975 original size:100 final size:100
Alignment explanation
Indices: 76841--77051 Score: 359
Period size: 100 Copynumber: 2.1 Consensus size: 100
76831 ATCATGTGTG
*
76841 TGTGTGTGTGTACTACTTGCTTCAGTTGCTTGTATGTGCGCTTATTGTATACTTCTCTGTTTTAT
1 TGTGTGTGTGTACTACTTGCTTCAGTTGCTTGTATGCGCGCTTATTGTATACTTCTCTGTTTTAT
*
76906 AGAAATACTATCAAATTGGAGAAGGAATATATATA
66 AGAAATACTATCAAACTGGAGAAGGAATATATATA
* *
76941 TGTGTGTGTGTATTACTTGCTTCAGTTGCTTGTATGCGCGCTTATTGTCTACTTCTCTGTTTTAT
1 TGTGTGTGTGTACTACTTGCTTCAGTTGCTTGTATGCGCGCTTATTGTATACTTCTCTGTTTTAT
* * *
77006 AGAAATACTATCAAACTGGAGAAGGAATATGTGTG
66 AGAAATACTATCAAACTGGAGAAGGAATATATATA
77041 TGTGTGTGTGT
1 TGTGTGTGTGT
77052 GTGTGTGTGT
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 104 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (100 bp):
TGTGTGTGTGTACTACTTGCTTCAGTTGCTTGTATGCGCGCTTATTGTATACTTCTCTGTTTTAT
AGAAATACTATCAAACTGGAGAAGGAATATATATA
Found at i:77042 original size:2 final size:2
Alignment explanation
Indices: 77035--77061 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
77025 AGAAGGAATA
77035 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
77062 TTGTATTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:78338 original size:142 final size:142
Alignment explanation
Indices: 78082--78370 Score: 533
Period size: 142 Copynumber: 2.0 Consensus size: 142
78072 CTGTGAAATA
*
78082 AACCCAATAATCCATGAAGTATGCCAGACTACTTTGTTGGTATATCTTTTCTGTCTTAAGCACGT
1 AACCCAATAATCCATGAAGTATGCCAGACTACTTTGTTGGTATATCTTTTCTGTCCTAAGCACGT
*
78147 TTTCAAAATGCATCTTTAAACATAGATGGCAATTGGCAAAAATTCATGCTTCTAACGTGTATTAG
66 TTTCAAAATGCATCTTCAAACATAGATGGCAATTGGCAAAAATTCATGCTTCTAACGTGTATTAG
78212 GGGATTAAAAAC
131 GGGATTAAAAAC
* *
78224 AACCCAATAATCCGTGAAGTATGCCGGACTACTTTGTTGGTATATCTTTTCTGTCCTAAGCACGT
1 AACCCAATAATCCATGAAGTATGCCAGACTACTTTGTTGGTATATCTTTTCTGTCCTAAGCACGT
*
78289 TTTCAAAATGCATCTTCAAACATAGATGGCAATTGGCAAAAATTCATGCTTCTAACTTGTATTAG
66 TTTCAAAATGCATCTTCAAACATAGATGGCAATTGGCAAAAATTCATGCTTCTAACGTGTATTAG
78354 GGGATTAAAAAC
131 GGGATTAAAAAC
78366 AACCC
1 AACCC
78371 TTCCACCCTT
Statistics
Matches: 142, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 142 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (142 bp):
AACCCAATAATCCATGAAGTATGCCAGACTACTTTGTTGGTATATCTTTTCTGTCCTAAGCACGT
TTTCAAAATGCATCTTCAAACATAGATGGCAATTGGCAAAAATTCATGCTTCTAACGTGTATTAG
GGGATTAAAAAC
Found at i:92726 original size:35 final size:35
Alignment explanation
Indices: 92685--92754 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
92675 TGCAACTATA
*
92685 CTAATTAAACTTTGATTTTAATTCGATTATATCAT
1 CTAATTAAACTTTGATTTTAATTCAATTATATCAT
92720 CTAATTAAACTTTGATTTTAATTCAATTATATCAT
1 CTAATTAAACTTTGATTTTAATTCAATTATATCAT
92755 GTGCATACGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.04, T:0.49
Consensus pattern (35 bp):
CTAATTAAACTTTGATTTTAATTCAATTATATCAT
Found at i:94203 original size:21 final size:21
Alignment explanation
Indices: 94178--94221 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
94168 TTAATAAAAA
*
94178 TTATTTAAAATATTATTATTT
1 TTATTTAAAATATTAATATTT
94199 TTATTTAAAATATTAATATTT
1 TTATTTAAAATATTAATATTT
94220 TT
1 TT
94222 TAATATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATTTAAAATATTAATATTT
Found at i:94229 original size:31 final size:33
Alignment explanation
Indices: 94153--94231 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 33
94143 GGTTTGTTAT
94153 TATTTTTTAATATTTTTAATAAAAATTATTTAA
1 TATTTTTTAATATTTTTAATAAAAATTATTTAA
* * * * *
94186 -A-ATATTATTATTTTTATTTAAAA-TA-TTAA
1 TATTTTTTAATATTTTTAATAAAAATTATTTAA
94215 TATTTTTTAATATTTTT
1 TATTTTTTAATATTTTT
94232 GGTAAAATGT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
29 4 0.11
30 3 0.08
31 28 0.78
32 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (33 bp):
TATTTTTTAATATTTTTAATAAAAATTATTTAA
Found at i:98038 original size:19 final size:19
Alignment explanation
Indices: 98014--98058 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
98004 ATTGAAGTTC
98014 TACTTTTCTTTCATCT-TTT
1 TACTTTTCTTTCAT-TATTT
98033 TACTTTTCTTTCATTATTT
1 TACTTTTCTTTCATTATTT
98052 T-CTTTTC
1 TACTTTTC
98059 ATAATGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.69
Consensus pattern (19 bp):
TACTTTTCTTTCATTATTT
Found at i:102700 original size:355 final size:355
Alignment explanation
Indices: 102049--102765 Score: 1389
Period size: 355 Copynumber: 2.0 Consensus size: 355
102039 ATCGAGAACC
*
102049 ATGTAATTAATGAACCAAACCGAGAGGGTATGAGACCAGAGTCTACGAAGTGAGGTCCGGGTTTG
1 ATGTAATTAATGAACCAAACCGAGAGGGTATGAGACCAGAGTATACGAAGTGAGGTCCGGGTTTG
*
102114 ACATCGAAGACTTGGATGAGACCAGTGAGATCAGAAGCGACTTAGAGCAGGCCGTCGGAACGGAA
66 ACATCGAAGACTTGGATGAGACCAGTGAGATCAGAAGCGACTTAGAGCAGGCCGTCAGAACGGAA
102179 GGACAAAGAAGAAACGACGTCGGAGAAGGAGGTGATGGTGGATGAAGGTGAAACGTCGCCGTCTG
131 GGACAAAGAAGAAACGACGTCGGAGAAGGAGGTGATGGTGGATGAAGGTGAAACGTCGCCGTCTG
102244 AGAGAGAGACTGGGGAGAAGAGGGAAACGGAGGCGGAGTAGGCGACGACGAAAGGGTGGGCGACG
196 AGAGAGAGACTGGGGAGAAGAGGGAAACGGAGGCGGAGTAGGCGACGACGAAAGGGTGGGCGACG
102309 AAGGGGAAAAGGAAAGGGAAGAGATGGAGGAGATGAGGTTAGGGATACGAGTGGATTTGAAAGAA
261 AAGGGGAAAAGGAAAGGGAAGAGATGGAGGAGATGAGGTTAGGGATACGAGTGGATTTGAAAGAA
102374 GAAAAAAAAATGGCTGACCCTTGTTCCCAT
326 GAAAAAAAAATGGCTGACCCTTGTTCCCAT
*
102404 ATGTAATTAATGAACCAAACCGAGAGGGTATGAGACCAGAGTATACGAAGTGAGGTTCGGGTTTG
1 ATGTAATTAATGAACCAAACCGAGAGGGTATGAGACCAGAGTATACGAAGTGAGGTCCGGGTTTG
102469 ACATCGAAGACTTGGATGAGACCAGTGAGATCAGAAGCGACTTAGAGCAGGCCGTCAGAACGGAA
66 ACATCGAAGACTTGGATGAGACCAGTGAGATCAGAAGCGACTTAGAGCAGGCCGTCAGAACGGAA
102534 GGACAAAGAAGAAACGACGTCGGAGAAGGAGGTGATGGTGGATGAAGGTGAAACGTCGCCGTCTG
131 GGACAAAGAAGAAACGACGTCGGAGAAGGAGGTGATGGTGGATGAAGGTGAAACGTCGCCGTCTG
102599 AGAGAGAGACTGGGGAGAAGAGGGAAACGGAGGCGGAGTAGGCGACGACGAAAGGGTGGGCGACG
196 AGAGAGAGACTGGGGAGAAGAGGGAAACGGAGGCGGAGTAGGCGACGACGAAAGGGTGGGCGACG
102664 AAGGGGAAAAGGAAAGGGAAGAGATGGAGGAGATGAGGTTAGGGATACGAGTGGATTTGAAAGAA
261 AAGGGGAAAAGGAAAGGGAAGAGATGGAGGAGATGAGGTTAGGGATACGAGTGGATTTGAAAGAA
* *
102729 GAAGAAATAATGGCTGACCCTTGTTCCCAT
326 GAAAAAAAAATGGCTGACCCTTGTTCCCAT
102759 ATGTAAT
1 ATGTAAT
102766 GGAGTAAGGA
Statistics
Matches: 357, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
355 357 1.00
ACGTcount: A:0.35, C:0.13, G:0.37, T:0.15
Consensus pattern (355 bp):
ATGTAATTAATGAACCAAACCGAGAGGGTATGAGACCAGAGTATACGAAGTGAGGTCCGGGTTTG
ACATCGAAGACTTGGATGAGACCAGTGAGATCAGAAGCGACTTAGAGCAGGCCGTCAGAACGGAA
GGACAAAGAAGAAACGACGTCGGAGAAGGAGGTGATGGTGGATGAAGGTGAAACGTCGCCGTCTG
AGAGAGAGACTGGGGAGAAGAGGGAAACGGAGGCGGAGTAGGCGACGACGAAAGGGTGGGCGACG
AAGGGGAAAAGGAAAGGGAAGAGATGGAGGAGATGAGGTTAGGGATACGAGTGGATTTGAAAGAA
GAAAAAAAAATGGCTGACCCTTGTTCCCAT
Found at i:106655 original size:23 final size:23
Alignment explanation
Indices: 106629--106676 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
106619 ATAAAGTACA
*
106629 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
106652 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
106675 AT
1 AT
106677 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:107425 original size:18 final size:18
Alignment explanation
Indices: 107402--107438 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
107392 CGAAATATAT
107402 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
107420 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
107438 A
1 A
107439 CTCCAATTAC
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:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:107668 original size:23 final size:23
Alignment explanation
Indices: 107642--107706 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
107632 ATGCGAGATA
107642 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
107665 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
107688 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
107707 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:108088 original size:21 final size:20
Alignment explanation
Indices: 108058--108111 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
108048 GATAGACACT
*
108058 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
108079 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
108102 TTACATTATA
1 TTACATTATA
108112 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:108099 original size:23 final size:23
Alignment explanation
Indices: 108073--108135 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
108063 ATATAACCAT
108073 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
108096 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
108119 TACCTATTACATCATAT
1 TACCTATTACATTATAT
108136 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:108512 original size:21 final size:20
Alignment explanation
Indices: 108487--108540 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
108477 GGATAGACAC
108487 TTACAATATAACCATTACCTA
1 TTACAATATAACCA-TACCTA
*
108508 TTACATTATATAAACGATACCTA
1 TTACA--ATAT-AACCATACCTA
*
108531 TTACATTATA
1 TTACAATATA
108541 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
23 15 0.54
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACAATATAACCATACCTA
Found at i:108528 original size:23 final size:23
Alignment explanation
Indices: 108502--108564 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
108492 ATATAACCAT
108502 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
108525 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
108548 TACCTATTACATCATAT
1 TACCTATTACATTATAT
108565 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:108621 original size:428 final size:429
Alignment explanation
Indices: 107644--108662 Score: 1974
Period size: 429 Copynumber: 2.4 Consensus size: 429
107634 GCGAGATAGA
107644 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
107709 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
107774 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
107839 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTA
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTA
107904 AATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
261 AATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
107969 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
326 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
108034 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
108073 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
108138 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
108203 TGTAATTTATGTTTCAA-TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
*
108267 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTA
108332 AATTTAATAATAATATATACCGTAACGTAAAAAAATAAATCATTAGACGCCTATAATTACTAAAT
261 AATTTAATAAT-A-ATATACCGTAACGT-AAAAAATAAATCATTAGACGCCTATAATTACTAAAT
108397 TAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATG
323 TAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATG
108461 GACACTTTTATAAAAAGGATAGACAC-TTACAATATAACCAT
388 GACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
108502 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
108567 TTACCTATTATATTGAAAGTGTCCATACTTTTTAT-AAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
108631 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
108663 ACTGCGAATT
Statistics
Matches: 585, Mismatches: 1, Indels: 8
0.98 0.00 0.01
Matches are distributed among these distances:
428 168 0.29
429 277 0.47
430 50 0.09
431 90 0.15
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (429 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTA
AATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
ACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
Found at i:111724 original size:183 final size:184
Alignment explanation
Indices: 111119--111972 Score: 1633
Period size: 183 Copynumber: 4.7 Consensus size: 184
111109 TTTTAAATGG
*
111119 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
111184 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
111249 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
111303 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
111368 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
111433 GATGTGTAAAATGTCGACACTTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACAC-TTTTTTAAATTGTATCGACACATTTTTCTTCCAA
111488 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGG-T-TAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
111551 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
111616 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
111670 TATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
111734 TAAGACCGATATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
111799 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
111853 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
**
111918 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
111973 ATGTTGAAAG
Statistics
Matches: 660, Mismatches: 6, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
181 17 0.03
182 63 0.10
183 262 0.40
184 238 0.36
185 80 0.12
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
Found at i:111908 original size:367 final size:369
Alignment explanation
Indices: 111119--111972 Score: 1635
Period size: 367 Copynumber: 2.3 Consensus size: 369
111109 TTTTAAATGG
*
111119 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
111184 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
111249 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAATATGGACATAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAATATGGACATAA
*
111314 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTA
196 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGATA
111379 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
261 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
*
111444 TGTCGACACTTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
326 TGTCGACACTTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
111488 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGG-T-TAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
111551 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
111616 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAATATGGACATAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAATATGGACATAA
111681 AGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGATA
196 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGATA
111745 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
261 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
111810 TGTCGACAC-TTTTTTAAATCGTATCGACACATTTTTCTTCCAA
326 TGTCGACACTTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
111853 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
**
111918 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
111973 ATGTTGAAAG
Statistics
Matches: 478, Mismatches: 5, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
365 79 0.17
366 121 0.25
367 232 0.49
368 1 0.00
369 45 0.09
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (369 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAATATGGACATAA
AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGATA
TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
TGTCGACACTTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:113338 original size:3 final size:3
Alignment explanation
Indices: 113330--113374 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
113320 ACTTGTTTGG
* * *
113330 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
113375 GCCAGCTTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.27, C:0.33, G:0.02, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:113347 original size:12 final size:12
Alignment explanation
Indices: 113334--113410 Score: 73
Period size: 12 Copynumber: 6.4 Consensus size: 12
113324 GTTTGGATCA
* *
113334 TCATCTTCATCA
1 TCATCGTCATCT
* *
113346 TCATCATCATCA
1 TCATCGTCATCT
* *
113358 TCGTCATCATCT
1 TCATCGTCATCT
* *
113370 TCATCGCCAGCT
1 TCATCGTCATCT
113382 TCATCGTCATCT
1 TCATCGTCATCT
*
113394 TCATCGTCAGCT
1 TCATCGTCATCT
113406 TCATC
1 TCATC
113411 TTCTGCGACC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 55 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:113391 original size:24 final size:24
Alignment explanation
Indices: 113364--113410 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
113354 ATCATCGTCA
113364 TCATCTTCATCGCCAGCTTCATCG
1 TCATCTTCATCGCCAGCTTCATCG
*
113388 TCATCTTCATCGTCAGCTTCATC
1 TCATCTTCATCGCCAGCTTCATC
113411 TTCTGCGACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.36, G:0.11, T:0.36
Consensus pattern (24 bp):
TCATCTTCATCGCCAGCTTCATCG
Found at i:113397 original size:6 final size:6
Alignment explanation
Indices: 113334--113413 Score: 61
Period size: 6 Copynumber: 13.3 Consensus size: 6
113324 GTTTGGATCA
* * * * * * * *
113334 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * *
113382 TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TC
113414 TGCGACCGAT
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.20, C:0.35, G:0.07, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:115241 original size:196 final size:197
Alignment explanation
Indices: 114872--116456 Score: 2771
Period size: 196 Copynumber: 8.1 Consensus size: 197
114862 TTTAAATTAG
* * *
114872 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
114937 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTTGGG-
66 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGAT-TTTGGGA
* * *
115001 -CGACACGTTTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTTAATTCATTCTGGGAA
129 TCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT-GG-A
115064 AAAAAA
192 AAAAAA
*
115070 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCA-AAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
115134 ATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 ATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
* *
115199 GACACTTTTTATATATGGATCGACAC-TTATGGGTGCACCTTGTTTTT-ATTCATTCTGGGAAAA
131 GACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT-GGAAAA
115262 AAA
195 AAA
*
115265 TATCGACACAAACTATATTAGTGTCGACACATTA-TTAGACTTATTCTCTTATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
115329 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
115394 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
130 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGG-AAA
115459 AAAA
194 AAAA
115463 TATCGACACAAACTATA-TAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
115527 ATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 ATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
* *
115592 GACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
131 GACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT-GGAAA
115657 AAAA
194 AAAA
115661 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTC--AAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
115724 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
115788 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
130 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
115853 AAA
195 AAA
115856 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
115921 ATTGTACCGGTTAGATTAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGATC
66 ATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
*
115985 GACACTTTTTTATATATGGATCGACACTTTA-TGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
131 GACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT-GGAAA
116049 AAAA
194 AAAA
116053 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGAC-TATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
116117 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
116182 CGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTG-TTTTAATTCATTCTGGAAAA
130 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
116245 AAA
195 AAA
116248 TATCGACACAAACTATATTAGTGTCGACACA-TATTTAGACTTA-TCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
116311 ATTGTACCGGTTAGATTAAAAATTAC--A-TACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 ATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
116373 GACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
131 GACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGG-AAAA
116438 AAA
195 AAA
116441 TATCGACACAAACTAT
1 TATCGACACAAACTAT
116457 TAGTATCGAC
Statistics
Matches: 1346, Mismatches: 16, Indels: 55
0.95 0.01 0.04
Matches are distributed among these distances:
190 40 0.03
191 38 0.03
192 16 0.01
193 32 0.02
194 61 0.05
195 192 0.14
196 331 0.25
197 329 0.24
198 272 0.20
199 35 0.03
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (197 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
AA
Found at i:115597 original size:393 final size:396
Alignment explanation
Indices: 114872--116456 Score: 2852
Period size: 393 Copynumber: 4.0 Consensus size: 396
114862 TTTAAATTAG
* * *
114872 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
114937 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTTGGG-
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT-TTTGGGA
* * *
115001 -CGACACGTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTAATTCATTCTGGGAAA
130 TCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTAATTCATTCT-GG-AA
*
115065 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCA-AAAACCG
193 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
*
115129 GTATAATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
258 GTATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
115194 GGATCGACAC-TTTTTATATATGGATCGACAC-TTATGGGTGCACCTTGTTTTT-ATTCATTCTG
323 GGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
115256 GGAAAAAAA
388 GGAAAAAAA
*
115265 TATCGACACAAACTATATTAGTGTCGACACATTA-TTAGACTTATTCTCTTATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
115329 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
115394 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TTTTAATTCATTCTGG-AAA
115459 AAAATATCGACACAAACTATA-TAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
194 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
115523 TATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
259 TATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
115588 GATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
324 GATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
115653 GAAAAAAA
389 GAAAAAAA
115661 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTC--AAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
115724 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
115788 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TTTTAATTCATTCTGGAAAA
115853 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
195 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
115918 ATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGG
260 ATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
115982 ATCGACACTTTTTTATATATGGATCGACACTTTAT-GGTGCACCTTGTTTTTAATTCATTCTGGG
325 ATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGG
116046 AAAAAAA
390 AAAAAAA
116053 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGAC-TATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
116117 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
116182 CGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTAATTCATTCTGGAAAAA
116246 AATATCGACACAAACTATATTAGTGTCGACACA-TATTTAGACTTA-TCTCTCATAAAACCGGTA
196 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
116309 TAATTGTACCGGTTAGATTAAAAATTAC--A-TACATTATACTTTTGGGTTCGATGATTTTGGGA
261 TAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
* * *
116371 TCGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAA
326 TCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGA
116435 AAAAAA
391 AAAAAA
116441 TATCGACACAAACTAT
1 TATCGACACAAACTAT
116457 TAGTATCGAC
Statistics
Matches: 1164, Mismatches: 14, Indels: 33
0.96 0.01 0.03
Matches are distributed among these distances:
387 36 0.03
388 80 0.07
390 46 0.04
391 27 0.02
392 247 0.21
393 367 0.32
394 205 0.18
395 88 0.08
396 53 0.05
397 15 0.01
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (396 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTAATTCATTCTGGAAAAA
AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
TCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGA
AAAAAA
Found at i:116576 original size:19 final size:19
Alignment explanation
Indices: 116549--116593 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
116539 ATTCACATAA
*
116549 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
116568 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
116587 AAAATTA
1 AAAATTA
116594 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:118411 original size:33 final size:33
Alignment explanation
Indices: 118374--118439 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
118364 CATCTTAATA
*
118374 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
118407 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
118440 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:124217 original size:22 final size:22
Alignment explanation
Indices: 124199--124256 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
124189 ATTGAAAAAT
124199 AATAAATAAATATAAGAAACAA
1 AATAAATAAATATAAGAAACAA
* *
124221 AATAAAATAATAAATCA-AAAC-A
1 AAT-AAATAA-ATATAAGAAACAA
124243 AATAAATAAA-ATAA
1 AATAAATAAATATAA
124257 ATAATAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 3 0.10
20 1 0.03
21 6 0.19
22 7 0.23
23 10 0.32
24 4 0.13
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (22 bp):
AATAAATAAATATAAGAAACAA
Found at i:124225 original size:18 final size:19
Alignment explanation
Indices: 124202--124246 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
124192 GAAAAATAAT
124202 AAATAAATATAAGAAA-CA
1 AAATAAATATAAGAAATCA
*
124220 AAATAAA-ATAATAAATCA
1 AAATAAATATAAGAAATCA
*
124238 AAACAAATA
1 AAATAAATA
124247 AATAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.30
18 15 0.65
19 1 0.04
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (19 bp):
AAATAAATATAAGAAATCA
Found at i:124241 original size:23 final size:23
Alignment explanation
Indices: 124215--124258 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
124205 TAAATATAAG
*
124215 AAACAAAATAAA-ATAATAAATCA
1 AAAC-AAATAAATAAAATAAATCA
124238 AAACAAATAAATAAAATAAAT
1 AAACAAATAAATAAAATAAAT
124259 AATAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (23 bp):
AAACAAATAAATAAAATAAATCA
Found at i:124268 original size:13 final size:12
Alignment explanation
Indices: 124195--124274 Score: 53
Period size: 13 Copynumber: 6.5 Consensus size: 12
124185 TTAGATTGAA
124195 AAATAAT-AAAT
1 AAATAATAAAAT
124206 AAAT-ATAAGAA-
1 AAATAATAA-AAT
124217 ACAA-AATAAAAT
1 A-AATAATAAAAT
*
124229 -AATAAATCAAAAC
1 AAAT-AAT-AAAAT
124242 AAATAAATAAAAT
1 AAAT-AATAAAAT
124255 AAATAATAATAAT
1 AAATAATAA-AAT
124268 AACATAA
1 AA-ATAA
124275 AATCAGAGAG
Statistics
Matches: 56, Mismatches: 2, Indels: 19
0.73 0.03 0.25
Matches are distributed among these distances:
10 4 0.07
11 8 0.14
12 16 0.29
13 17 0.30
14 11 0.20
ACGTcount: A:0.72, C:0.05, G:0.01, T:0.21
Consensus pattern (12 bp):
AAATAATAAAAT
Found at i:125200 original size:28 final size:28
Alignment explanation
Indices: 125163--125221 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
125153 CCGTGGCTTA
* *
125163 TGTGTGTTCTGTTGGCTCTCCGTTATTC
1 TGTGTGTTCTATTGGCACTCCGTTATTC
*
125191 TGTGTGTTCTATTGGCACTCCGTTGTTC
1 TGTGTGTTCTATTGGCACTCCGTTATTC
125219 TGT
1 TGT
125222 ATCCCTATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.05, C:0.20, G:0.25, T:0.49
Consensus pattern (28 bp):
TGTGTGTTCTATTGGCACTCCGTTATTC
Found at i:125686 original size:16 final size:17
Alignment explanation
Indices: 125639--125691 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
125629 TTGAAACGAG
125639 AAAAACAAAGAAATAAT
1 AAAAACAAAGAAATAAT
*
125656 AAATAATAAATGAAATAA-
1 AAA-AACAAA-GAAATAAT
*
125674 ATAAACAAAGAAA-AAT
1 AAAAACAAAGAAATAAT
125690 AA
1 AA
125692 TTTTCAAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 2 0.07
16 5 0.17
17 8 0.28
18 7 0.24
19 7 0.24
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAAACAAAGAAATAAT
Found at i:125759 original size:38 final size:37
Alignment explanation
Indices: 125684--125789 Score: 171
Period size: 36 Copynumber: 2.9 Consensus size: 37
125674 ATAAACAAAG
*
125684 AAAAATAATTTTCAAAACCATATAATATATA-TTTTA
1 AAAAATAATTTTCAAAACTATATAATATATATTTTTA
125720 AAAAATAATTTTCAAAACTATATAATATATAATTTTTA
1 AAAAATAATTTTCAAAACTATATAATATAT-ATTTTTA
*
125758 AAAACTAATTTTCAAAACTATAT-ATATATATT
1 AAAAATAATTTTCAAAACTATATAATATATATT
125790 ATATATATAT
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
36 32 0.48
37 7 0.11
38 27 0.41
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.41
Consensus pattern (37 bp):
AAAAATAATTTTCAAAACTATATAATATATATTTTTA
Found at i:125792 original size:13 final size:13
Alignment explanation
Indices: 125776--125801 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
125766 TTTTCAAAAC
125776 TATATATATATAT
1 TATATATATATAT
125789 TATATATATATAT
1 TATATATATATAT
125802 ATTAAAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATATATAT
Found at i:125796 original size:15 final size:15
Alignment explanation
Indices: 125776--125805 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
125766 TTTTCAAAAC
125776 TATATATATATATTA
1 TATATATATATATTA
125791 TATATATATATATTA
1 TATATATATATATTA
125806 AAAACTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATATATATATTA
Found at i:125828 original size:86 final size:88
Alignment explanation
Indices: 125703--125875 Score: 262
Period size: 86 Copynumber: 2.0 Consensus size: 88
125693 TTTCAAAACC
* * * *
125703 ATATAATATATATTTTAAAAAATAATTTTCAAAACTATATAATATATA-ATTTTTAAAAACTAAT
1 ATATAATATATATATTAAAAAATAACTTTAAAAAATATATAATATATATA-TTTTAAAAACTAAT
125767 TTTCAAAACTATAT-ATATATATT
65 TTTCAAAACTATATAATATATATT
* *
125790 ATAT-ATATATATATTAAAAACTAACTTTAAAAAATATATAATATATGTATTTTAAAAACTAATT
1 ATATAATATATATATTAAAAAATAACTTTAAAAAATATATAATATATATATTTTAAAAACTAATT
125854 TTCAAAACTATATAATATATAT
66 TTCAAAACTATATAATATATAT
125876 ATTTTTAAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
86 65 0.83
87 13 0.17
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (88 bp):
ATATAATATATATATTAAAAAATAACTTTAAAAAATATATAATATATATATTTTAAAAACTAATT
TTCAAAACTATATAATATATATT
Found at i:125845 original size:38 final size:38
Alignment explanation
Indices: 125792--126029 Score: 225
Period size: 39 Copynumber: 6.3 Consensus size: 38
125782 TATATATTAT
* * *
125792 ATATATATATATTAAAAACTAACTTTAAAAAATATATA
1 ATATATATATTTTAAAAACTAATTTTAAAAACTATATA
* *
125830 ATATATGTATTTTAAAAACTAATTTTCAAAACTATATA
1 ATATATATATTTTAAAAACTAATTTTAAAAACTATATA
*
125868 ATATATATATTTTTAAAAACTAATTTTCAAAACTATATA
1 ATATATATA-TTTTAAAAACTAATTTTAAAAACTATATA
* ** *
125907 ATATATATATTTCAAAAA-TTGTTTTAAAATCTATATA
1 ATATATATATTTTAAAAACTAATTTTAAAAACTATATA
* * * *
125944 ATATATGT-TTTCAAAAA-TATTTTTTAAAGACTATATA
1 ATATATATATTTTAAAAACTA-ATTTTAAAAACTATATA
* * * **
125981 TTATATACGTATTTTCAAACACT--GTTTGCAAACTATATA
1 ATATATA--TATTTT-AAAAACTAATTTTAAAAACTATATA
126020 ATATATATAT
1 ATATATATAT
126030 ATATATATAT
Statistics
Matches: 168, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
36 10 0.06
37 44 0.26
38 49 0.29
39 57 0.34
40 3 0.02
41 4 0.02
42 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.43
Consensus pattern (38 bp):
ATATATATATTTTAAAAACTAATTTTAAAAACTATATA
Found at i:125860 original size:13 final size:13
Alignment explanation
Indices: 125838--125902 Score: 51
Period size: 13 Copynumber: 5.0 Consensus size: 13
125828 TAATATATGT
125838 ATTTTAAAAACTA
1 ATTTTAAAAACTA
*
125851 ATTTTCAAAACTA
1 ATTTTAAAAACTA
** * *
125864 TATAATATATA-TA
1 -ATTTTAAAAACTA
*
125877 TTTTTAAAAACTA
1 ATTTTAAAAACTA
*
125890 ATTTTCAAAACTA
1 ATTTTAAAAACTA
125903 TATAATATAT
Statistics
Matches: 37, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
12 5 0.14
13 27 0.73
14 5 0.14
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTTTAAAAACTA
Found at i:125893 original size:39 final size:39
Alignment explanation
Indices: 125792--126029 Score: 235
Period size: 38 Copynumber: 6.3 Consensus size: 39
125782 TATATATTAT
* * * *
125792 ATATATATATATT-AAAAACTAACTTTAAAAAATATATA
1 ATATATATATTTTCAAAAACTAATTTTCAAAACTATATA
*
125830 ATATATGTATTTT-AAAAACTAATTTTCAAAACTATATA
1 ATATATATATTTTCAAAAACTAATTTTCAAAACTATATA
*
125868 ATATATATATTTTTAAAAACTAATTTTCAAAACTATATA
1 ATATATATATTTTCAAAAACTAATTTTCAAAACTATATA
**
125907 ATATATATA-TTTCAAAAA-TTGTTTT-AAAATCTATAT-
1 ATATATATATTTTCAAAAACTAATTTTCAAAA-CTATATA
* * *
125943 A-ATATATGTTTTCAAAAA-TATTTTTTAAAGACTATATA
1 ATATATATATTTTCAAAAACTAATTTTCAAA-ACTATATA
* * * *
125981 TTATATACGTATTTTCAAACACT-GTTTGC-AAACTATATA
1 ATATATA--TATTTTCAAAAACTAATTTTCAAAACTATATA
126020 ATATATATAT
1 ATATATATAT
126030 ATATATATAT
Statistics
Matches: 171, Mismatches: 19, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
35 6 0.04
36 19 0.11
37 23 0.13
38 54 0.32
39 53 0.31
40 2 0.01
41 13 0.08
42 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.43
Consensus pattern (39 bp):
ATATATATATTTTCAAAAACTAATTTTCAAAACTATATA
Found at i:126025 original size:2 final size:2
Alignment explanation
Indices: 126014--126044 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
126004 GTTTGCAAAC
126014 TA TA TA -A 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
126045 ATAAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:128079 original size:35 final size:36
Alignment explanation
Indices: 128037--128110 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 36
128027 ATTTTCGGGA
*
128037 TTTGCTATTTTTGGCAAAATTCGAAT-AATACGATT
1 TTTGCTATTTTTGGCAAAATTCGAATAAAGACGATT
128072 TTTGCTATTTTTGGCAAAATTCGAATAAAGACGATT
1 TTTGCTATTTTTGGCAAAATTCGAATAAAGACGATT
128108 TTT
1 TTT
128111 TAGCTATAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 26 0.70
36 11 0.30
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (36 bp):
TTTGCTATTTTTGGCAAAATTCGAATAAAGACGATT
Found at i:128546 original size:15 final size:15
Alignment explanation
Indices: 128526--128555 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
128516 TATCACAATC
128526 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
128541 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
128556 AGCACCGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.47, T:0.13
Consensus pattern (15 bp):
GCGCAGGATTCCGGG
Done.