Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003980.1 Hibiscus syriacus cultivar Beakdansim tig00008651_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: 144122
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:359 original size:28 final size:27
Alignment explanation
Indices: 301--365 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
291 TACTTTTTTA
* *
301 TTTTATTCATTTTATTTTCTTTATTATT
1 TTTTATT-ATTTTATTTTCTTTATAACT
* *
329 TTTTATTATTTTCTTTTTTTTACTAACT
1 TTTTATTATTTTATTTTCTTTA-TAACT
*
357 TTTAATTAT
1 TTTTATTAT
366 ATCTGCTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 13 0.42
28 18 0.58
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (27 bp):
TTTTATTATTTTATTTTCTTTATAACT
Found at i:858 original size:27 final size:27
Alignment explanation
Indices: 820--871 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
810 TAAATATTTA
*
820 TAATAGGGTAAATTATGGGTTTAGTAC
1 TAATAGGATAAATTATGGGTTTAGTAC
*
847 TAATAGGATAAATTATGTGTTTAGT
1 TAATAGGATAAATTATGGGTTTAGT
872 TCTTATACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.40
Consensus pattern (27 bp):
TAATAGGATAAATTATGGGTTTAGTAC
Found at i:7710 original size:183 final size:184
Alignment explanation
Indices: 7390--7774 Score: 627
Period size: 183 Copynumber: 2.1 Consensus size: 184
7380 TTTTCTAATT
*
7390 TATATAAAAT-TA-AATA-TTTTTTAATTCAAAAAAATTTATAATTAATTTAAATAATAAATAAT
1 TATATAATATATATAATATTTTTTTAATTCAAAAAAATTTATAATTAATTTAAATAATAAATAAT
*
7452 TATAAAATAAAAATTTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
66 TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
* *
7517 AGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGTTTAGCCCATATGTTA
131 AGATCTTAAATTATTAATTGAGTTTTAAATGATTTGGGTTGAGCCCATATGTTA
* *
7571 TATATAATATATATAATATTTTTTTAATT-AAAAACAGTTTATAATTAATTTAAATAATATATAA
1 TATATAATATATATAATATTTTTTTAATTCAAAAA-AATTTATAATTAATTTAAATAATAAATAA
*
7635 TTATAAAATAAAAAATTTATAT-AATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
65 TTATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
* * *
7699 TGGATCTTAAATTATTAATTGGGTTTTTAATGATTTGGGTTGAGCCCATATGTTA
130 TAGATCTTAAATTATTAATTGAGTTTTAAATGATTTGGGTTGAGCCCATATGTTA
*
7754 TATATAATATATTTAATATTT
1 TATATAATATATATAATATTT
7775 AAAATTTAAT
Statistics
Matches: 189, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
181 9 0.05
182 2 0.01
183 121 0.64
184 57 0.30
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.47
Consensus pattern (184 bp):
TATATAATATATATAATATTTTTTTAATTCAAAAAAATTTATAATTAATTTAAATAATAAATAAT
TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
AGATCTTAAATTATTAATTGAGTTTTAAATGATTTGGGTTGAGCCCATATGTTA
Found at i:13196 original size:60 final size:60
Alignment explanation
Indices: 13083--13196 Score: 133
Period size: 60 Copynumber: 1.9 Consensus size: 60
13073 AGTTGGAAGT
* * *
13083 CCATTTTATAATTTATAATAGTAGAGGGAGTCAACAAAGTAACATCTTGTAGTCAAGAGA
1 CCATTTTATAATTTATAATAGTAGAGGGACTCAACAAAATAACATCTTATAGTCAAGAGA
* * * *
13143 CCATTTTGTAACTTT-TAATAGTCGAGGGACTCAATAAAATATCAT-TCTATAGTC
1 CCATTTTATAA-TTTATAATAGTAGAGGGACTCAACAAAATAACATCT-TATAGTC
13197 GGGGATCATT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
59 1 0.02
60 41 0.91
61 3 0.07
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (60 bp):
CCATTTTATAATTTATAATAGTAGAGGGACTCAACAAAATAACATCTTATAGTCAAGAGA
Found at i:16086 original size:2 final size:2
Alignment explanation
Indices: 16079--16136 Score: 98
Period size: 2 Copynumber: 28.5 Consensus size: 2
16069 CATATACGTC
*
16079 AT AT AT AT CT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16122 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
16137 GATTTGATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 52 0.98
3 1 0.02
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18839 original size:117 final size:116
Alignment explanation
Indices: 18625--18853 Score: 271
Period size: 117 Copynumber: 2.0 Consensus size: 116
18615 AAAAACATGA
* * * *
18625 TTAAATTTAATTCAAAATTAAATGAATAAATAAGAGAAATAAGAAAAGATGGTGAAAAACTAGAC
1 TTAAATTTAATTCAAAATCAAATGAATAAATAAGAGAAATAAGAAAAGATAGTCAAAAACTAAAC
* * * * *** *
18690 ATTTTTTGAAATTATAAAAATTAGGGTTCTAATTATAAATATAAAAAATAG
66 AATTTATGAAATTATAAAAATAAAGACCCTAATTATAAATACAAAAAATAG
* * * * *
18741 TTAAATTTAATTCAAAAATCGAATGAATTAATAAGAGAAATGAAG-AAGGATATTCAAAAATTAA
1 TTAAATTTAATTC-AAAATCAAATGAATAAATAAGAGAAAT-AAGAAAAGATAGTCAAAAACTAA
*
18805 AGAATTTATGAAATTATAAAAATAAAGACCCTAATTATAAATACAAAAA
64 ACAATTTATGAAATTATAAAAATAAAGACCCTAATTATAAATACAAAAA
18854 TAAAATTGCT
Statistics
Matches: 93, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
116 13 0.14
117 77 0.83
118 3 0.03
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.29
Consensus pattern (116 bp):
TTAAATTTAATTCAAAATCAAATGAATAAATAAGAGAAATAAGAAAAGATAGTCAAAAACTAAAC
AATTTATGAAATTATAAAAATAAAGACCCTAATTATAAATACAAAAAATAG
Found at i:35045 original size:21 final size:21
Alignment explanation
Indices: 35021--35062 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
35011 AGTTTATTTT
35021 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
*
35042 TAAACTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
35063 AACTTGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:35110 original size:33 final size:33
Alignment explanation
Indices: 35057--35155 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
35047 TTTGTTTCAA
35057 TTATCGAACTT-GAAGTTTTTAAGTATTTAAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTAAAT
*
35089 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTAAAT
* * *
35122 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTAAAT
35155 T
1 T
35156 ATGTTGAGTT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 11 0.18
33 51 0.82
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTAAAT
Found at i:36298 original size:17 final size:18
Alignment explanation
Indices: 36278--36311 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36268 GTTTTTTTAT
36278 AACCG-GTTTTTTAAAAA
1 AACCGAGTTTTTTAAAAA
*
36295 AACCGATTTTTTTAAAA
1 AACCGAGTTTTTTAAAA
36312 CCGAAACCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (18 bp):
AACCGAGTTTTTTAAAAA
Found at i:36311 original size:15 final size:15
Alignment explanation
Indices: 36259--36315 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
36249 TTTAATAATA
* *
36259 TTAAAATCGGTTTTT
1 TTAAAACCGATTTTT
* *
36274 TTATAACCGGTTTTT
1 TTAAAACCGATTTTT
*
36289 TAAAAAAACCGATTTTT
1 T--TAAAACCGATTTTT
36306 TTAAAACCGA
1 TTAAAACCGA
36316 AACCGGTTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 22 0.65
17 12 0.35
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (15 bp):
TTAAAACCGATTTTT
Found at i:36430 original size:15 final size:17
Alignment explanation
Indices: 36404--36435 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
36394 TTCTATAGGA
36404 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
36420 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
36436 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:40198 original size:24 final size:23
Alignment explanation
Indices: 40171--40216 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
40161 AACTTTTAGC
40171 TTATACATACATATACT-TATACAA
1 TTATACAT--ATATACTATATACAA
40195 TTATACATATATACTATATACA
1 TTATACATATATACTATATACA
40217 GTGAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.33
23 6 0.29
24 8 0.38
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (23 bp):
TTATACATATATACTATATACAA
Found at i:41326 original size:2 final size:2
Alignment explanation
Indices: 41314--41363 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
41304 TTTGATAAAA
* * *
41314 AT AT TT AT AT AT AT AT -T A- AT -T AC AA AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
41353 AT AT AT AT AT A
1 AT AT AT AT AT A
41364 AATAATTTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
1 3 0.08
2 37 0.93
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47646 original size:16 final size:16
Alignment explanation
Indices: 47607--47638 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47597 TTGATCAAAT
47607 TAATAATTTAAATTTA
1 TAATAATTTAAATTTA
*
47623 TAATAATTTTAATTTA
1 TAATAATTTAAATTTA
47639 ATATAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATAATTTAAATTTA
Found at i:48650 original size:23 final size:23
Alignment explanation
Indices: 48619--48677 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
48609 TTTGAATTTT
* *
48619 ATTCGAACTCGATTTCAGTTCTA
1 ATTCAAACTCGAGTTCAGTTCTA
*
48642 ATTCAAACTCTAGTTCAGTTCTA
1 ATTCAAACTCGAGTTCAGTTCTA
*
48665 ATTCAAATTCGAG
1 ATTCAAACTCGAG
48678 CTCAAATCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (23 bp):
ATTCAAACTCGAGTTCAGTTCTA
Found at i:48687 original size:23 final size:23
Alignment explanation
Indices: 48638--48688 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
48628 CGATTTCAGT
* * **
48638 TCTAATTCAAACTCTAGTTCAGT
1 TCTAATTCAAACTCGAGCTCAAA
*
48661 TCTAATTCAAATTCGAGCTCAAA
1 TCTAATTCAAACTCGAGCTCAAA
48684 TCTAA
1 TCTAA
48689 AACTTAAGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (23 bp):
TCTAATTCAAACTCGAGCTCAAA
Found at i:50194 original size:24 final size:24
Alignment explanation
Indices: 50143--50195 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
50133 AAGGTAATTT
* * * **
50143 TATAAAATTTTATAAAGGAGAATT
1 TATAAAATTTTAAAAAGAAAAAAA
50167 TATAAAATTTTAAAAAGAAAAAAA
1 TATAAAATTTTAAAAAGAAAAAAA
50191 TATAA
1 TATAA
50196 TATCAATTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (24 bp):
TATAAAATTTTAAAAAGAAAAAAA
Found at i:50223 original size:20 final size:20
Alignment explanation
Indices: 50185--50228 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
50175 TTTAAAAAGA
*
50185 AAAAAATATAATATCAA-TT
1 AAAAAATATAATAACAATTT
*
50204 AAAAAATATATATAAGAATTT
1 AAAAAATATA-ATAACAATTT
50225 AAAA
1 AAAA
50229 CTTAGAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 5 0.24
21 6 0.29
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAAAATATAATAACAATTT
Found at i:52254 original size:7 final size:7
Alignment explanation
Indices: 52195--52239 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
52185 ACCTAACTTA
52195 AAACCCT
1 AAACCCT
52202 AAACCCT
1 AAACCCT
52209 AAACCACT
1 AAACC-CT
**
52217 AAATTCT
1 AAACCCT
*
52224 AAACCAT
1 AAACCCT
52231 AAACCCT
1 AAACCCT
52238 AA
1 AA
52240 CTTAAAACTC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
7 26 0.84
8 5 0.16
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:53766 original size:84 final size:86
Alignment explanation
Indices: 53580--53784 Score: 254
Period size: 84 Copynumber: 2.4 Consensus size: 86
53570 TCGATGTTAG
* * * * *
53580 AGCTTGGGATTTCAGCACCTGACGAGGAACTTTCAATGTTTAAGATTGGGATTTCTTCAGCAGAC
1 AGCTTGGGATTTCAGCACCCGGCGAGGAACTTTCAATGTTTAAGATTGGAAATTCATCAGCA-AC
53645 GGCAAGGAACGTTCAATGTTTA
65 GGCAAGGAACGTTCAATGTTTA
* *
53667 AGCTTGAGATTTCAGCACCCGGCGAGGAACTTTCAATGTTTACA-CTTGGAAATTCATCA-C-AC
1 AGCTTGGGATTTCAGCACCCGGCGAGGAACTTTCAATGTTTA-AGATTGGAAATTCATCAGCAAC
* * *
53729 GGCAGGGGACTTTCAATGTTTA
65 GGCAAGGAACGTTCAATGTTTA
* * *
53751 AGCTTGGGATTTCAGCACACAGCAAGGAACTTTC
1 AGCTTGGGATTTCAGCACCCGGCGAGGAACTTTC
53785 GTCTTCACCG
Statistics
Matches: 103, Mismatches: 14, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
84 51 0.50
86 1 0.01
87 50 0.49
88 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (86 bp):
AGCTTGGGATTTCAGCACCCGGCGAGGAACTTTCAATGTTTAAGATTGGAAATTCATCAGCAACG
GCAAGGAACGTTCAATGTTTA
Found at i:53770 original size:42 final size:42
Alignment explanation
Indices: 53580--53784 Score: 202
Period size: 42 Copynumber: 4.8 Consensus size: 42
53570 TCGATGTTAG
*
53580 AGCTTGGGATTTCAGCAC-CTG-ACGAGGAACTTTCAATGTTTA
1 AGCTTGGGATTTCAGCACACGGCA-G-GGAACTTTCAATGTTTA
* * * *
53622 AGATTGGGATTTCTTCAGCAGACGGCAAGGAACGTTCAATGTTTA
1 AGCTTGGGA--T-TTCAGCACACGGCAGGGAACTTTCAATGTTTA
* *
53667 AGCTTGAGATTTCAGCACCCGGC-GAGGAACTTTCAATGTTTA
1 AGCTTGGGATTTCAGCACACGGCAG-GGAACTTTCAATGTTTA
* * * *
53709 CA-CTTGGAAATTCATCACACGGCAGGGGACTTTCAATGTTTA
1 -AGCTTGGGATTTCAGCACACGGCAGGGAACTTTCAATGTTTA
* *
53751 AGCTTGGGATTTCAGCACACAGCAAGGAACTTTC
1 AGCTTGGGATTTCAGCACACGGCAGGGAACTTTC
53785 GTCTTCACCG
Statistics
Matches: 131, Mismatches: 23, Indels: 18
0.76 0.13 0.10
Matches are distributed among these distances:
41 1 0.01
42 93 0.71
43 3 0.02
44 1 0.01
45 30 0.23
46 2 0.02
47 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (42 bp):
AGCTTGGGATTTCAGCACACGGCAGGGAACTTTCAATGTTTA
Found at i:57460 original size:261 final size:259
Alignment explanation
Indices: 56981--57477 Score: 696
Period size: 261 Copynumber: 1.9 Consensus size: 259
56971 ATTGCATTTT
* * *
56981 AACATATAAAAAAAACCATCCTATAAATCAAGAACTCATATTTTGATCCCATGGTCATTAACATT
1 AACATAT-AAAAAAACCATCCTATAAATCAAGAACTCATA-TTAGATCCCATGATCATGAACATT
* * * *
57046 AACCATAAATGCATACACATTGATTTTTAACTTATAAACAATCAACAAAACTGGGAATTTAACCT
64 AACCATAAAAGCATACACATTGATTTGTAACTTACAAACAATCAACAAAACTGGAAATTTAACCT
* * * * *
57111 AGCAACCAAACTTTCCAACCAGATTCTGAAAACCAGAAAACGGCATCAATGCCTCATCTTTAGAT
129 AGCAACCAAACTTTCCAACAAAAATCTGAAAACCAGAAAACGACATCAATGCCTCATCTCTAGAT
* * * *
57176 CCTATTAGGATTATCAAAACAAAATTATCTCATTAAACCATACCCATAAATTGCATTAAAAGTTA
194 CCTATTAGCATAATCAAAACAAAAATATCTCATGAAACCATACCCATAAATTGCATTAAAAGTTA
57241 A
259 A
*
57242 AACATAT-AAAAAACCATCCCTATAAATCAATAACTCATA-TAGATCCCATGATCATGAACATTA
1 AACATATAAAAAAACCAT-CCTATAAATCAAGAACTCATATTAGATCCCATGATCATGAACATTA
*
57305 ACCATAAACCAGCCTACACATTGATTTGTAACTTACAAACAATCAACAAAAACTGGAAATTTAAC
65 ACCATAAA--AGCATACACATTGATTTGTAACTTACAAACAATCAAC-AAAACTGGAAATTTAAC
* *
57370 CTAG-AAGCCGAACTTTCCAACAAAAATCTGAAGACCAGAAAACGACATCAATGCCTCATCTCTA
127 CTAGCAA-CCAAACTTTCCAACAAAAATCTGAAAACCAGAAAACGACATCAATGCCTCATCTCTA
**
57434 GATCCTATTAGCATCAAT-GTAACAAAAATATCTCATGAAACCAT
191 GATCCTATTAGCAT-AATCAAAACAAAAATATCTCATGAAACCAT
57478 CCCTGTAAAT
Statistics
Matches: 208, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
258 29 0.14
259 10 0.05
260 55 0.26
261 112 0.54
262 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (259 bp):
AACATATAAAAAAACCATCCTATAAATCAAGAACTCATATTAGATCCCATGATCATGAACATTAA
CCATAAAAGCATACACATTGATTTGTAACTTACAAACAATCAACAAAACTGGAAATTTAACCTAG
CAACCAAACTTTCCAACAAAAATCTGAAAACCAGAAAACGACATCAATGCCTCATCTCTAGATCC
TATTAGCATAATCAAAACAAAAATATCTCATGAAACCATACCCATAAATTGCATTAAAAGTTAA
Found at i:57872 original size:227 final size:226
Alignment explanation
Indices: 57252--58216 Score: 1256
Period size: 221 Copynumber: 4.3 Consensus size: 226
57242 AACATATAAA
*
57252 AAACCATCCCTATAAATCAATAACTCATA--TAGATCCCATGATCATG-----AACATTAACCAT
1 AAACCATCCCTATAAATCAAGAACTCATATTTAGATCCCATGATCATGAAATTAACATTAACCAT
*
57310 AAACCAGCCTACACATTGATTTGTAACTTACAAACAATCAACAAAAACTGGAAATTTAACCTAGA
66 AAACCAGCCTACACATTGATTTGTAACTTACAAACAATCAACAAAAACTGGGAATTTAACCTAGA
* * *
57375 AGCCGAACTTTCCAACAAAAATCTGAAGACCAGAAAACGACATCAATGCCTCATCTCTAGATCCT
131 AGCCAAACTTTCCAACAAAAATCTGAAGACCAGAAAACAACATCAATGCCTCATCTTTAGATCCT
*
57440 ATTAGCATCAATG-TAACAAAAATATCTCATG
196 ATTAGCATCAA-GATAACAAAAATCTCTCATG
* *
57471 AAACCATCCCTGTAAATCAAGAACTCATATTTAGATCCCATGATCATG-----AACATTAACTAT
1 AAACCATCCCTATAAATCAAGAACTCATATTTAGATCCCATGATCATGAAATTAACATTAACCAT
*
57531 AAACCAGCTTACACATTGATTTGTAACTTACAAACAATCAACAAAAACTGGGAATTTAACCTAGA
66 AAACCAGCCTACACATTGATTTGTAACTTACAAACAATCAACAAAAACTGGGAATTTAACCTAGA
** * * *
57596 AGCCGGACTATCCAACAAAAAACTGAAGACCAGAAAATGAA-ATCAATGCCTCATCTTTAGATCC
131 AGCCAAACTTTCCAACAAAAATCTGAAGACCAGAAAA-CAACATCAATGCCTCATCTTTAGATCC
57660 TATTAGCATCAAGATAACAAAAATCTCTCATG
195 TATTAGCATCAAGATAACAAAAATCTCTCATG
* **
57692 AAGCCATCCCTGCAAATCAAGAACTCATATTTAGATCCCATGATCATGAAAATTAACATTAACCA
1 AAACCATCCCTATAAATCAAGAACTCATATTTAGATCCCATGATCATG-AAATTAACATTAACCA
* *
57757 TAAACCAGCCTACACATTGATTTGTAACTTGCAAACAATCAACAAAAACTGGGAATTCAACCTAG
65 TAAACCAGCCTACACATTGATTTGTAACTTACAAACAATCAACAAAAACTGGGAATTTAACCTAG
* * * *
57822 AAGCCAAACTTTCCAACCAGAATCTGAGGACCAGAAAACAACATCAATGCCTCATTTTTAGATCC
130 AAGCCAAACTTTCCAACAAAAATCTGAAGACCAGAAAACAACATCAATGCCTCATCTTTAGATCC
*
57887 TATTAGCATCAAGACAACAAAAATCTCTCATG
195 TATTAGCATCAAGATAACAAAAATCTCTCATG
*
57919 AAGCCATCCCTATAAATCAAGAACTCATATTTAGATCCCATGATCATGATCATGATCATGAACAT
1 AAACCATCCCTATAAATCAAGAACTCATATTTAGATCCCATGATCATG---A--A--AT-----T
* * * * * ** *
57984 GAACATTAACCATAAACCATCCTACACATTGATTTTTAAGTTATATACGGTCAACAAAAATTGGG
54 -AACATTAACCATAAACCAGCCTACACATTGATTTGTAACTTACAAACAATCAACAAAAACTGGG
* ** * * *
58049 ATTTTAACCTAGCTGCCAAACTTTCCAACCAGAATCTGAAAACCAGAAAACAACATCAATGCCTC
118 AATTTAACCTAGAAGCCAAACTTTCCAACAAAAATCTGAAGACCAGAAAACAACATCAATGCCTC
* * **
58114 ATCTTTAGATCCTACTAGCATCAAGATGACAAATCTCTCTCATG
183 ATCTTTAGATCCTATTAGCATCAAGATAACAAAAATCTCTCATG
* * * *
58158 AAACCATCCCTATAAATCAAGAACTCGTATTGAGATCACATAATCATGAACATTAACAT
1 AAACCATCCCTATAAATCAAGAACTCATATTTAGATCCCATGATCATGAA-ATTAACAT
58217 GAACAAACAA
Statistics
Matches: 666, Mismatches: 57, Indels: 38
0.88 0.07 0.05
Matches are distributed among these distances:
219 27 0.04
220 1 0.00
221 222 0.33
222 1 0.00
226 2 0.00
227 207 0.31
228 1 0.00
229 1 0.00
231 1 0.00
233 5 0.01
234 1 0.00
236 1 0.00
238 1 0.00
239 195 0.29
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (226 bp):
AAACCATCCCTATAAATCAAGAACTCATATTTAGATCCCATGATCATGAAATTAACATTAACCAT
AAACCAGCCTACACATTGATTTGTAACTTACAAACAATCAACAAAAACTGGGAATTTAACCTAGA
AGCCAAACTTTCCAACAAAAATCTGAAGACCAGAAAACAACATCAATGCCTCATCTTTAGATCCT
ATTAGCATCAAGATAACAAAAATCTCTCATG
Found at i:58155 original size:239 final size:239
Alignment explanation
Indices: 57730--58221 Score: 705
Period size: 239 Copynumber: 2.1 Consensus size: 239
57720 ATTTAGATCC
* * *
57730 CATGATCATGAAAATTAACATTAACCATAAACCAGCCTACACATTGATTTGTAACTTGCAAACAA
1 CATGATCATGAACATGAACATTAACCATAAACCAGCCTACACATTGATTTGTAACTTACAAACAA
**
57795 TCAACAAAAACTGGGAATTCAACCTAGAAGCCAAACTTTCCAACCAGAATCTGAGGACCAGAAAA
66 TCAACAAAAACTGGGAATTCAACCTAGAAGCCAAACTTTCCAACCAGAATCTGAAAACCAGAAAA
* * *
57860 CAACATCAATGCCTCATTTTTAGATCCTATTAGCATCAAGACAACAAAAATCTCTCATGAAGCCA
131 CAACATCAATGCCTCATCTTTAGATCCTACTAGCATCAAGACAACAAAAATCTCTCATGAAACCA
* * * *
57925 TCCCTATAAATCAAGAACTCATATTTAGATCCCATGATCATGAT
196 TCCCTATAAATCAAGAACTCATATTGAGATCACATAATCATGAA
* * * * * **
57969 CATGATCATGAACATGAACATTAACCATAAACCATCCTACACATTGATTTTTAAGTTATATACGG
1 CATGATCATGAACATGAACATTAACCATAAACCAGCCTACACATTGATTTGTAACTTACAAACAA
* * * **
58034 TCAACAAAAATTGGGATTTTAACCTAGCTGCCAAACTTTCCAACCAGAATCTGAAAACCAGAAAA
66 TCAACAAAAACTGGGAATTCAACCTAGAAGCCAAACTTTCCAACCAGAATCTGAAAACCAGAAAA
** **
58099 CAACATCAATGCCTCATCTTTAGATCCTACTAGCATCAAGATGACAAATCTCTCTCATGAAACCA
131 CAACATCAATGCCTCATCTTTAGATCCTACTAGCATCAAGACAACAAAAATCTCTCATGAAACCA
*
58164 TCCCTATAAATCAAGAACTCGTATTGAGATCACATAATCATGAA
196 TCCCTATAAATCAAGAACTCATATTGAGATCACATAATCATGAA
* *
58208 CATTAACATGAACA
1 CATGATCATGAACA
58222 AACAATCCAT
Statistics
Matches: 222, Mismatches: 31, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
239 222 1.00
ACGTcount: A:0.40, C:0.24, G:0.11, T:0.25
Consensus pattern (239 bp):
CATGATCATGAACATGAACATTAACCATAAACCAGCCTACACATTGATTTGTAACTTACAAACAA
TCAACAAAAACTGGGAATTCAACCTAGAAGCCAAACTTTCCAACCAGAATCTGAAAACCAGAAAA
CAACATCAATGCCTCATCTTTAGATCCTACTAGCATCAAGACAACAAAAATCTCTCATGAAACCA
TCCCTATAAATCAAGAACTCATATTGAGATCACATAATCATGAA
Found at i:59471 original size:20 final size:19
Alignment explanation
Indices: 59448--59494 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
59438 TAATTATCTC
59448 TATTTAAATATTATTTTAAT
1 TATTTAAAT-TTATTTTAAT
*
59468 TATTT--ATTTATTTTACT
1 TATTTAAATTTATTTTAAT
59485 TATTATAAAT
1 TATT-TAAAT
59495 GGAAACTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 13 0.57
18 3 0.13
20 7 0.30
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTAAATTTATTTTAAT
Found at i:61078 original size:20 final size:19
Alignment explanation
Indices: 61035--61077 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
61025 GTTTCAGTAT
61035 GTTTTGGGCAAAAATGATC
1 GTTTTGGGCAAAAATGATC
61054 GTTTTGGGCAAAAATGATC
1 GTTTTGGGCAAAAATGATC
61073 GTTTT
1 GTTTT
61078 TAAGGGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.37
Consensus pattern (19 bp):
GTTTTGGGCAAAAATGATC
Found at i:62143 original size:20 final size:20
Alignment explanation
Indices: 62118--62157 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
62108 CTTAACTTAT
62118 GCTTTAGTTAGATGCTTAAA
1 GCTTTAGTTAGATGCTTAAA
62138 GCTTTAGTTAGATGCTTAAA
1 GCTTTAGTTAGATGCTTAAA
62158 CTTGTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (20 bp):
GCTTTAGTTAGATGCTTAAA
Found at i:62720 original size:4 final size:4
Alignment explanation
Indices: 62711--62739 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
62701 ATGCAACTAC
62711 ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
62740 TATATCAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:63042 original size:2 final size:2
Alignment explanation
Indices: 63035--63082 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
63025 AAATTGATTT
* * *
63035 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG CA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
63077 TA TA TA
1 TA TA TA
63083 GAGAGAGATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:65343 original size:41 final size:41
Alignment explanation
Indices: 65286--65367 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
65276 TGCTATGGCA
65286 AACTTTCATCTAGCATTAGCAGATGAAGTATTGTCAAGCAT
1 AACTTTCATCTAGCATTAGCAGATGAAGTATTGTCAAGCAT
65327 AACTTTCATCTAGCATTAGCAGATGAAGTATTGTCAAGCAT
1 AACTTTCATCTAGCATTAGCAGATGAAGTATTGTCAAGCAT
65368 CGAGGAGAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (41 bp):
AACTTTCATCTAGCATTAGCAGATGAAGTATTGTCAAGCAT
Found at i:72054 original size:60 final size:59
Alignment explanation
Indices: 71874--72062 Score: 177
Period size: 60 Copynumber: 3.2 Consensus size: 59
71864 GTATCATATG
* * * * * *
71874 TCCCTAAACTATGATCTTCATTTTCAATTGGTCCTTAAACTTTTGAATATTCTAATTTCA
1 TCCCTAAATTATGACCCTCATTCT-AATTAGTCCTCAAACTTTTGAATATTCTAATTTCA
* * * *
71934 T-CCTCAAATTATGACTCTCATTCTAGTTAGTCCTTAAACTTTTGAACATTCTAATTTCA
1 TCCCT-AAATTATGACCCTCATTCTAATTAGTCCTCAAACTTTTGAATATTCTAATTTCA
* * * *
71993 TCCCTAAATTATGACCCT-TTTCCTAAATTGATTCC-CAAACTTTTGAATATTATAACTTCA
1 TCCCTAAATTATGACCCTCATT-CT-AATT-AGTCCTCAAACTTTTGAATATTCTAATTTCA
*
72053 TCCCCAAATT
1 TCCCTAAATT
72063 CATCCAAATA
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
58 2 0.02
59 50 0.47
60 51 0.48
61 4 0.04
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.42
Consensus pattern (59 bp):
TCCCTAAATTATGACCCTCATTCTAATTAGTCCTCAAACTTTTGAATATTCTAATTTCA
Found at i:74283 original size:23 final size:23
Alignment explanation
Indices: 74257--74309 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
74247 TCTCGAAAGA
* * *
74257 CCACATAGGTTTGCATCGAAGTG
1 CCACATAGATTTACACCGAAGTG
74280 CCACATAGATTTACACCGAAGTG
1 CCACATAGATTTACACCGAAGTG
74303 CCACATA
1 CCACATA
74310 TTTGTCGCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (23 bp):
CCACATAGATTTACACCGAAGTG
Found at i:74320 original size:21 final size:21
Alignment explanation
Indices: 74295--74351 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
74285 TAGATTTACA
74295 CCGAAGTG-CCACATATTTGTC
1 CCGAA-TGACCACATATTTGTC
*
74316 GCGAATGACCACATATTTGTC
1 CCGAATGACCACATATTTGTC
*
74337 CCGAAAGACCACATA
1 CCGAATGACCACATA
74352 AACCCTCGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 2 0.06
21 30 0.94
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (21 bp):
CCGAATGACCACATATTTGTC
Found at i:74458 original size:16 final size:16
Alignment explanation
Indices: 74437--74470 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
74427 TGTTTAATCA
74437 TTATTCACA-ATGTTTC
1 TTATTCACATA-GTTTC
74453 TTATTCACATAGTTTC
1 TTATTCACATAGTTTC
74469 TT
1 TT
74471 TCTCATAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.53
Consensus pattern (16 bp):
TTATTCACATAGTTTC
Found at i:74972 original size:54 final size:54
Alignment explanation
Indices: 74908--75052 Score: 188
Period size: 54 Copynumber: 2.6 Consensus size: 54
74898 GATACTCCCC
* *
74908 TTCAAGGGTATCGATACCTCCTCATGGTACCGATACCGATA-TATCATTCGATG-T
1 TTCAAGGGTATCGATACCTCCTCA-GGTACCGATACC-AAACTAGCATTCGATGAT
*
74962 TTCAAGGGTATTGATACCTCCTCAAGGTACCGATACCAAACTAGCATTCGATGAT
1 TTCAAGGGTATCGATACCTCCTC-AGGTACCGATACCAAACTAGCATTCGATGAT
*
75017 TT-AAGGGTATCGATACCATCCTTCAGGTATCGATAC
1 TTCAAGGGTATCGATACC-TCC-TCAGGTACCGATAC
75053 TACCCTTACA
Statistics
Matches: 81, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
53 2 0.02
54 59 0.73
55 18 0.22
56 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (54 bp):
TTCAAGGGTATCGATACCTCCTCAGGTACCGATACCAAACTAGCATTCGATGAT
Found at i:75047 original size:20 final size:20
Alignment explanation
Indices: 75022--75104 Score: 89
Period size: 20 Copynumber: 4.0 Consensus size: 20
75012 ATGATTTAAG
75022 GGTATCGATACCATCCTT-CA
1 GGTATCGATACCA-CCTTACA
*
75042 GGTATCGATACTACCCTTACA
1 GGTATCGATACCA-CCTTACA
75063 -GTATCGATACCACTCTTAACA
1 GGTATCGATACCAC-CTT-ACA
*
75084 GGTATCGATACAACCCTTACA
1 GGTATCGATACCA-CCTTACA
75105 AAATACTCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
19 1 0.02
20 30 0.56
21 8 0.15
22 14 0.26
23 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (20 bp):
GGTATCGATACCACCTTACA
Found at i:75093 original size:42 final size:40
Alignment explanation
Indices: 75023--75104 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 40
75013 TGATTTAAGG
*
75023 GTATCGATACCATCCTTCAGGTATCGATACTACCCTTACA
1 GTATCGATACCATCCTTCAGGTATCGATACAACCCTTACA
75063 GTATCGATACCA-CTCTTAACAGGTATCGATACAACCCTTACA
1 GTATCGATACCATC-CTT--CAGGTATCGATACAACCCTTACA
75105 AAATACTCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
39 1 0.03
40 15 0.39
42 22 0.58
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.28
Consensus pattern (40 bp):
GTATCGATACCATCCTTCAGGTATCGATACAACCCTTACA
Found at i:86870 original size:82 final size:82
Alignment explanation
Indices: 86733--86899 Score: 334
Period size: 82 Copynumber: 2.0 Consensus size: 82
86723 ATCCACCTCA
86733 TTCCCTATCCAATCATACTAAATCGATCAAGTCCACCATCAATCCTCCAAGGTGAAGGTATGCTT
1 TTCCCTATCCAATCATACTAAATCGATCAAGTCCACCATCAATCCTCCAAGGTGAAGGTATGCTT
86798 TTCTAGTGTGGTTTAAC
66 TTCTAGTGTGGTTTAAC
86815 TTCCCTATCCAATCATACTAAATCGATCAAGTCCACCATCAATCCTCCAAGGTGAAGGTATGCTT
1 TTCCCTATCCAATCATACTAAATCGATCAAGTCCACCATCAATCCTCCAAGGTGAAGGTATGCTT
86880 TTCTAGTGTGGTTTAAC
66 TTCTAGTGTGGTTTAAC
86897 TTC
1 TTC
86900 ATCATTGGAG
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 85 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (82 bp):
TTCCCTATCCAATCATACTAAATCGATCAAGTCCACCATCAATCCTCCAAGGTGAAGGTATGCTT
TTCTAGTGTGGTTTAAC
Found at i:89389 original size:28 final size:28
Alignment explanation
Indices: 89322--89379 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
89312 AAGTGACCAA
89322 TAACCTGATTGGTTAATTGAAACTGCAC
1 TAACCTGATTGGTTAATTGAAACTGCAC
89350 TAACCTGATTGGTTAATTGAAACTGCAC
1 TAACCTGATTGGTTAATTGAAACTGCAC
89378 TA
1 TA
89380 TCTGTTTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (28 bp):
TAACCTGATTGGTTAATTGAAACTGCAC
Found at i:94404 original size:18 final size:19
Alignment explanation
Indices: 94354--94404 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
94344 ATGGTACCAA
94354 AATTAATTAAT-ATATAAT
1 AATTAATTAATAATATAAT
*
94372 AATTTTATTATATAATAT-AT
1 AA-TTAATTA-ATAATATAAT
*
94392 CATTAATTAATAA
1 AATTAATTAATAA
94405 AAAATATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 6 0.22
19 12 0.44
20 5 0.19
21 4 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTAATTAATAATATAAT
Found at i:94827 original size:21 final size:21
Alignment explanation
Indices: 94803--94849 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
94793 ATTCTGACTA
94803 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
94824 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
94845 TCGCA
1 TCGCA
94850 ATGTGAATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:94870 original size:20 final size:20
Alignment explanation
Indices: 94845--94918 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
94835 TTTTCCTAAT
*
94845 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
94865 TCGCAAAGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* *
94886 TCTCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
94906 TCGCAATGCGAAT
1 TCGCAATGCGAAT
94919 CTGACTATCG
Statistics
Matches: 40, Mismatches: 13, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
20 26 0.65
21 14 0.35
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:95530 original size:20 final size:20
Alignment explanation
Indices: 95505--95553 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
95495 CAATGAGTGA
95505 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
95525 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
95545 ATCGCAACG
1 ATCGCAACG
95554 AGAGAATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:95640 original size:20 final size:20
Alignment explanation
Indices: 95597--95664 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
95587 TGATTCTTGC
** **
95597 GTTGCGATAGTCAAATTCCC
1 GTTGCGATAGTCATTTTCGT
95617 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
95637 GTTGCGATTTTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
95657 GTTGCGAT
1 GTTGCGAT
95665 TTAAAGTTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:95674 original size:20 final size:20
Alignment explanation
Indices: 95631--95674 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
95621 CGATAGTCAT
** *
95631 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
95651 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
95671 TTTC
1 TTTC
95675 AGAAACTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:97546 original size:20 final size:20
Alignment explanation
Indices: 97521--97738 Score: 255
Period size: 20 Copynumber: 11.5 Consensus size: 20
97511 AGAATAGTTT
*
97521 ACTATCGCAATGCGAAAATA
1 ACTATCGCAATGCGAAAATG
*
97541 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
97561 ACTATCACAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
97577 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
97595 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
97615 ACTATTGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
97635 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
97655 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
*
97675 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
97691 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
97709 ACTATCGCAATGC-AAATTTG
1 ACTATCGCAATGCGAAA-ATG
97729 ACTATCGCAA
1 ACTATCGCAA
97739 CGAGAGAATC
Statistics
Matches: 171, Mismatches: 14, Indels: 26
0.81 0.07 0.12
Matches are distributed among these distances:
14 13 0.08
16 8 0.05
17 7 0.04
18 8 0.05
19 3 0.02
20 132 0.77
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:97610 original size:54 final size:54
Alignment explanation
Indices: 97524--97776 Score: 330
Period size: 54 Copynumber: 4.6 Consensus size: 54
97514 ATAGTTTACT
* * *
97524 ATCGCAATGCGAAAATAACTATCGCAACGCGAAAATGACTATCACAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAGAGA
* *
97578 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATTGCAATGCGAAAATGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAA--CG-AGA-GA
**
97636 CTATCGCAATGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCAACGAGAGA
1 --ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAGAGA
*
97692 ATCGCAATGCGAAAATGACTATCGCAATGC-AAATTTGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAAA-ATGACTATCGCAACGAGAGA
** *
97746 ATCGCAATGCG-AAATGAAAATCGCATTGCGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGA
97777 TTCTCTCGTT
Statistics
Matches: 178, Mismatches: 13, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
53 17 0.10
54 105 0.59
56 4 0.02
57 4 0.02
58 4 0.02
60 44 0.25
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.19
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAGAGA
Found at i:97721 original size:114 final size:114
Alignment explanation
Indices: 97521--97738 Score: 357
Period size: 114 Copynumber: 1.9 Consensus size: 114
97511 AGAATAGTTT
97521 ACTATCGCAATGCGAAAATAACTATCGCAACGCGAAAATGACTATCACAACGAGAGAATCGCAAT
1 ACTATCGCAATGCGAAAATAACTATCGCAACGCGAAAATGACTATCACAACGAGAGAATCGCAAT
*
97586 GCGAAAATGACTATCGCAATGCGAAA-ATGACTATTGCAATGCGAAAATG
66 GCGAAAATGACTATCGCAATGC-AAATATGACTATCGCAATGCGAAAATG
* * ** *
97635 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCAACGAGAGAATCGCAAT
1 ACTATCGCAATGCGAAAATAACTATCGCAACGCGAAAATGACTATCACAACGAGAGAATCGCAAT
*
97700 GCGAAAATGACTATCGCAATGCAAATTTGACTATCGCAA
66 GCGAAAATGACTATCGCAATGCAAATATGACTATCGCAA
97739 CGAGAGAATC
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
113 3 0.03
114 93 0.97
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (114 bp):
ACTATCGCAATGCGAAAATAACTATCGCAACGCGAAAATGACTATCACAACGAGAGAATCGCAAT
GCGAAAATGACTATCGCAATGCAAATATGACTATCGCAATGCGAAAATG
Found at i:97828 original size:20 final size:20
Alignment explanation
Indices: 97783--97831 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
97773 GCGATTCTCT
97783 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* * **
97803 CATTGCGATAGTTATTTTCG
1 CGTTGCGATAGTCAAATTCG
97823 CGTTGCGAT
1 CGTTGCGAT
97832 TTTGTTGTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:98423 original size:18 final size:19
Alignment explanation
Indices: 98384--98425 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
98374 CTCACCTGTC
98384 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
98405 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
98423 ATC
1 ATC
98426 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:98455 original size:21 final size:21
Alignment explanation
Indices: 98431--98500 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
98421 CTATCATCCC
*
98431 TCAAGAGTCCACTCCCACCGT
1 TCAAGAGTCCACTCCCAACGT
* ** *
98452 TCAAGAGGCCACTGTCATCGT
1 TCAAGAGTCCACTCCCAACGT
*
98473 TGAAGAGGTCC-CTCCCAACGT
1 TCAAGA-GTCCACTCCCAACGT
*
98494 TCTAGAG
1 TCAAGAG
98501 CCCGATTCAC
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
20 1 0.03
21 33 0.89
22 3 0.08
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.21
Consensus pattern (21 bp):
TCAAGAGTCCACTCCCAACGT
Found at i:98479 original size:42 final size:41
Alignment explanation
Indices: 98379--98500 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 41
98369 CCCGACTCAC
* * *
98379 CTGTCATCGTTCAAGAG-GCCTCCCCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCCCT-CCC-AACGTTCAAGAGGCCA
* ** *
98421 CTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCC-CTCCCAACGTTCAAGAGGCCA
* *
98463 CTGTCATCGTTGAAGAGGTCCCTCCCAACGTTCTAGAG
1 CTGTCATCGTTCAAGA-GTCCCTCCCAACGTTCAAGAG
98501 CCCGATTCAC
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 55 0.85
43 8 0.12
44 2 0.03
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.23
Consensus pattern (41 bp):
CTGTCATCGTTCAAGAGTCCCTCCCAACGTTCAAGAGGCCA
Found at i:99862 original size:14 final size:14
Alignment explanation
Indices: 99843--99878 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
99833 ATTGTTTAAT
99843 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
99857 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
99871 TGATTTGT
1 TGATTTGT
99879 TTAATTGATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:100068 original size:34 final size:33
Alignment explanation
Indices: 99980--100075 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
99970 AAAACAGACT
* **
99980 ATCGCAACGCAGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
100014 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
100047 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
100076 CGAAACTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 31 0.54
34 26 0.46
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:100071 original size:20 final size:19
Alignment explanation
Indices: 100013--100080 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
100003 GCAACGAGAG
100013 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
100032 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
100046 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
100066 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
100081 CTAATTTCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.20
16 5 0.12
17 2 0.05
18 3 0.08
19 11 0.28
20 11 0.28
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:100106 original size:19 final size:19
Alignment explanation
Indices: 100084--100137 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
100074 CGCGAAACTA
*
100084 ATTTCGCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
*
100103 ATTTCGCATTACGATTTTC
1 ATTTCGCATTGCGATTTTC
100122 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
100138 CTCTCGTTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:100167 original size:20 final size:20
Alignment explanation
Indices: 100142--100235 Score: 136
Period size: 20 Copynumber: 4.7 Consensus size: 20
100132 GCGATTCTCT
100142 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
100162 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
* *
100182 CATTGCAATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
100202 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
100222 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
100236 AATGAATGTC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
20 63 0.97
21 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:102442 original size:14 final size:14
Alignment explanation
Indices: 102423--102449 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
102413 TCTCGTGGCA
102423 TTTTCTTTGGGGAC
1 TTTTCTTTGGGGAC
102437 TTTTCTTTGGGGA
1 TTTTCTTTGGGGA
102450 TTTATTATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.11, G:0.30, T:0.52
Consensus pattern (14 bp):
TTTTCTTTGGGGAC
Found at i:102701 original size:24 final size:24
Alignment explanation
Indices: 102649--102702 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
102639 CTGAAAAATC
102649 ATCAAAATCCGAGTATTGACCATG
1 ATCAAAATCCGAGTATTGACCATG
* * *
102673 TTCAAAGTCCGGGTATTGACCAAT-
1 ATCAAAATCCGAGTATTGACC-ATG
102697 ATCAAA
1 ATCAAA
102703 TTTCGAATAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCATG
Found at i:103482 original size:20 final size:20
Alignment explanation
Indices: 103457--103506 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
103447 ATTAAAACAT
103457 GTTGCGAATTCAGAAATCGA
1 GTTGCGAATTCAGAAATCGA
103477 GTTGCGAATTCAGAAATCGA
1 GTTGCGAATTCAGAAATCGA
103497 GTTGCGAATT
1 GTTGCGAATT
103507 TGAAATTCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (20 bp):
GTTGCGAATTCAGAAATCGA
Found at i:103552 original size:20 final size:20
Alignment explanation
Indices: 103529--103609 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 20
103519 TTGCGATAGT
* *
103529 CAGAATCTCGTTGCGATTTA
1 CAGAATCACATTGCGATTTA
*
103549 CAGATTCACATTGCGATTTA
1 CAGAATCACATTGCGATTTA
* *
103569 C-GTAATCGCATTGTGATTTA
1 CAG-AATCACATTGCGATTTA
* *
103589 C-GTATTCGCATTGCGATTTA
1 CAG-AATCACATTGCGATTTA
103609 C
1 C
103610 GTATTCGTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
19 1 0.02
20 51 0.98
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
CAGAATCACATTGCGATTTA
Found at i:103610 original size:20 final size:20
Alignment explanation
Indices: 103539--103665 Score: 148
Period size: 20 Copynumber: 6.3 Consensus size: 20
103529 CAGAATCTCG
*
103539 TTGCGATTTACAG-ATTCACA
1 TTGCGATTTAC-GTATTCGCA
*
103559 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
*
103579 TTGTGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
103599 TTGCGATTTACGTATTCGTA
1 TTGCGATTTACGTATTCGCA
* * ** *
103619 TTACGATTTTCCAAATTCGCG
1 TTGCGA-TTTACGTATTCGCA
103640 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
103660 TTGCGA
1 TTGCGA
103666 ATTAGGAAAA
Statistics
Matches: 88, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
19 1 0.01
20 73 0.83
21 14 0.16
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:103686 original size:21 final size:21
Alignment explanation
Indices: 103662--103707 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
103652 TATTCGCATT
103662 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
103683 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
103704 GCGA
1 GCGA
103708 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:110505 original size:166 final size:167
Alignment explanation
Indices: 110176--110509 Score: 652
Period size: 166 Copynumber: 2.0 Consensus size: 167
110166 TTTAAAAACT
110176 TTCATGTCATAAATTATATTAATCAATTAACGTTCATGATTTGATTGATCAATTTTCTTAATGTT
1 TTCATGTCATAAATTATATTAATCAATTAACGTTCATGATTTGATTGATCAATTTTCTTAATGTT
110241 AGTGACTTAATTGAAAAAAAAATTAGTTTAGTGACCAAAATAAACATACTAATAGTTAGATGACC
66 AGTGACTTAATTGAAAAAAAAATTAGTTTAGTGACCAAAATAAACATACTAATAGTTAGATGACC
110306 AACATGTTTGTTTACCCTTTTATTTTATTTTATAAAA
131 AACATGTTTGTTTACCCTTTTATTTTATTTTATAAAA
*
110343 TTCATGTCATAAATTCTATTAATCAATTAACGTTCATGATTTGATTGATCAATTTTCTTAATGTT
1 TTCATGTCATAAATTATATTAATCAATTAACGTTCATGATTTGATTGATCAATTTTCTTAATGTT
110408 AGTGACTTAATTG-AAAAAAAATTAGTTTAGTGACCAAAATAAACATACTAATAGTTAGATGACC
66 AGTGACTTAATTGAAAAAAAAATTAGTTTAGTGACCAAAATAAACATACTAATAGTTAGATGACC
110472 AACATGTTTGTTTACCCTTTTATTTTATTTTATAAAA
131 AACATGTTTGTTTACCCTTTTATTTTATTTTATAAAA
110509 T
1 T
110510 GTGTTATCCT
Statistics
Matches: 166, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
166 89 0.54
167 77 0.46
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (167 bp):
TTCATGTCATAAATTATATTAATCAATTAACGTTCATGATTTGATTGATCAATTTTCTTAATGTT
AGTGACTTAATTGAAAAAAAAATTAGTTTAGTGACCAAAATAAACATACTAATAGTTAGATGACC
AACATGTTTGTTTACCCTTTTATTTTATTTTATAAAA
Found at i:120207 original size:2 final size:2
Alignment explanation
Indices: 120200--120229 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
120190 ATAGAATTGC
120200 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120230 TATTAAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120504 original size:83 final size:83
Alignment explanation
Indices: 120351--120669 Score: 404
Period size: 83 Copynumber: 3.8 Consensus size: 83
120341 AATTTTTTCA
* * *
120351 ATCCCATCCAAAATGAAAGACACGTTCTAGGGGAAGCATTTTCCATTAGTATTCAGAGAATATCT
1 ATCCCATCCAAAATGAAAGACACGTTCCAGGGGAAGCATTTTCCATTATTATTCAGAGAATCTCT
* * *
120416 GCCATGTCATAGTGTTCC
66 ACCATGTTATAGTGTTAC
** **** *
120434 ATCTTATCCAAAATGAAAGGTGTGTTCTAGGGGAAGCATTTTCCATTATTATTCAGAGAATCTCT
1 ATCCCATCCAAAATGAAAGACACGTTCCAGGGGAAGCATTTTCCATTATTATTCAGAGAATCTCT
120499 ACCATGTTATAGTGTTAC
66 ACCATGTTATAGTGTTAC
* ** * **
120517 ATCCCATCCAAAATGAAAGGCACGTTCCAGATGAAGCGTTTTCCATTATTAGACAGAGAATCTCT
1 ATCCCATCCAAAATGAAAGACACGTTCCAGGGGAAGCATTTTCCATTATTATTCAGAGAATCTCT
* * *
120582 ATCATGTTTTAGTGTTTC
66 ACCATGTTATAGTGTTAC
* * **
120600 ATCCCATCCGAAATGAAAGACGCGTTCCAGGGGAAGTGTTTTCCATTATTATTCAGAGAATCTCT
1 ATCCCATCCAAAATGAAAGACACGTTCCAGGGGAAGCATTTTCCATTATTATTCAGAGAATCTCT
120665 ACCAT
66 ACCAT
120670 TTCACATAAT
Statistics
Matches: 202, Mismatches: 34, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
83 202 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (83 bp):
ATCCCATCCAAAATGAAAGACACGTTCCAGGGGAAGCATTTTCCATTATTATTCAGAGAATCTCT
ACCATGTTATAGTGTTAC
Found at i:120761 original size:8 final size:8
Alignment explanation
Indices: 120750--120788 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
120740 CTTTGAAATC
*
120750 TCAAACTG
1 TCAAACTT
120758 TCAAACTT
1 TCAAACTT
120766 TCAAACTT
1 TCAAACTT
* *
120774 TGAAACTC
1 TCAAACTT
120782 TCAAACT
1 TCAAACT
120789 AAGAAAATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (8 bp):
TCAAACTT
Found at i:130918 original size:17 final size:16
Alignment explanation
Indices: 130895--130940 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
130885 TATATGATTT
130895 AAAAAATAATTAAATA
1 AAAAAATAATTAAATA
*
130911 ACAAAAATAA--AATTA
1 A-AAAAATAATTAAATA
*
130926 AAATAATAATTAAAT
1 AAAAAATAATTAAAT
130941 GGTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
14 7 0.29
15 5 0.21
16 4 0.17
17 8 0.33
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAATAATTAAATA
Found at i:132214 original size:16 final size:17
Alignment explanation
Indices: 132182--132226 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
132172 GTTTAATAAA
132182 ATATTT-AT-GAAATAT
1 ATATTTAATAGAAATAT
132197 ATATTTAATAGAAA-AT
1 ATATTTAATAGAAATAT
*
132213 ATTTTTTAATAGAA
1 A-TATTTAATAGAA
132227 TATGATTGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 6 0.23
16 5 0.19
17 15 0.58
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (17 bp):
ATATTTAATAGAAATAT
Found at i:132310 original size:28 final size:27
Alignment explanation
Indices: 132270--132322 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
132260 TACACCTTAT
*
132270 AAAAATATCATTTTAATAATTATTTAA
1 AAAAATATCATTTTAAAAATTATTTAA
*
132297 AAAAGATATTATTTTAAAAATTATTT
1 AAAA-ATATCATTTTAAAAATTATTT
132323 TTATTGTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
AAAAATATCATTTTAAAAATTATTTAA
Done.