Multiple sequence alignment - TraesCS6B01G135700

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS6B01G135700 chr6B 100.000 2618 0 0 1 2618 132949727 132947110 0.000000e+00 4835.0
1 TraesCS6B01G135700 chr6B 98.364 2261 31 6 362 2618 463401642 463403900 0.000000e+00 3965.0
2 TraesCS6B01G135700 chr6B 89.412 1634 112 24 991 2618 536157639 536156061 0.000000e+00 2002.0
3 TraesCS6B01G135700 chr6B 86.935 199 15 10 454 652 536157856 536157669 2.040000e-51 213.0
4 TraesCS6B01G135700 chr5A 99.249 2264 15 2 357 2618 680744130 680746393 0.000000e+00 4085.0
5 TraesCS6B01G135700 chr5A 93.443 61 3 1 267 326 396387394 396387454 3.590000e-14 89.8
6 TraesCS6B01G135700 chr7A 99.546 2203 10 0 416 2618 9493230 9491028 0.000000e+00 4013.0
7 TraesCS6B01G135700 chr7A 88.462 104 10 2 267 368 299403928 299403825 9.840000e-25 124.0
8 TraesCS6B01G135700 chr4B 97.983 2231 12 2 417 2618 245452941 245455167 0.000000e+00 3840.0
9 TraesCS6B01G135700 chr4B 93.478 46 3 0 59 104 613391646 613391691 4.680000e-08 69.4
10 TraesCS6B01G135700 chr1A 99.741 1930 5 0 428 2357 517178423 517180352 0.000000e+00 3537.0
11 TraesCS6B01G135700 chr1A 89.706 68 4 3 265 330 192592795 192592729 1.670000e-12 84.2
12 TraesCS6B01G135700 chr1A 95.349 43 2 0 61 103 137874122 137874080 4.680000e-08 69.4
13 TraesCS6B01G135700 chr3B 87.869 2135 153 46 447 2575 145882970 145880936 0.000000e+00 2410.0
14 TraesCS6B01G135700 chr3B 92.771 83 5 1 265 347 761919775 761919694 4.580000e-23 119.0
15 TraesCS6B01G135700 chr3B 87.500 56 5 2 50 103 42602613 42602668 2.180000e-06 63.9
16 TraesCS6B01G135700 chr2B 89.455 1650 111 25 976 2618 706803192 706801599 0.000000e+00 2025.0
17 TraesCS6B01G135700 chr2B 91.830 306 21 4 625 929 706803998 706803696 8.660000e-115 424.0
18 TraesCS6B01G135700 chr2B 87.864 206 14 10 447 652 706804137 706803943 5.630000e-57 231.0
19 TraesCS6B01G135700 chr2B 91.489 47 3 1 61 107 109330915 109330870 2.180000e-06 63.9
20 TraesCS6B01G135700 chr1D 86.688 939 84 25 1688 2618 404279067 404279972 0.000000e+00 1003.0
21 TraesCS6B01G135700 chr1D 80.660 1334 157 61 425 1715 404274512 404275787 0.000000e+00 941.0
22 TraesCS6B01G135700 chr2A 87.093 860 86 10 927 1770 545739371 545738521 0.000000e+00 950.0
23 TraesCS6B01G135700 chr2A 87.179 156 6 13 364 513 256194500 256194647 5.800000e-37 165.0
24 TraesCS6B01G135700 chr2A 92.308 104 6 1 2 103 392729480 392729377 2.100000e-31 147.0
25 TraesCS6B01G135700 chr2A 84.049 163 15 11 357 513 432597226 432597069 2.100000e-31 147.0
26 TraesCS6B01G135700 chr2A 86.719 128 10 6 384 508 216749536 216749413 4.540000e-28 135.0
27 TraesCS6B01G135700 chr2A 80.000 150 18 6 1692 1838 724978154 724978294 1.660000e-17 100.0
28 TraesCS6B01G135700 chr7B 79.836 977 123 38 417 1366 610360841 610361770 0.000000e+00 645.0
29 TraesCS6B01G135700 chr6D 90.798 163 9 2 103 259 59431386 59431224 2.040000e-51 213.0
30 TraesCS6B01G135700 chr6D 95.082 61 2 1 267 326 20925712 20925772 7.710000e-16 95.3
31 TraesCS6B01G135700 chr6D 100.000 30 0 0 318 347 337760497 337760468 3.640000e-04 56.5
32 TraesCS6B01G135700 chr3A 87.662 154 9 7 365 513 726727191 726727339 1.250000e-38 171.0
33 TraesCS6B01G135700 chr3A 92.381 105 6 1 2 104 159996640 159996536 5.840000e-32 148.0
34 TraesCS6B01G135700 chr7D 88.571 105 10 2 265 368 459949116 459949013 2.740000e-25 126.0
35 TraesCS6B01G135700 chr7D 88.571 105 10 2 265 368 459949542 459949439 2.740000e-25 126.0
36 TraesCS6B01G135700 chr7D 93.478 46 3 0 62 107 515400483 515400438 4.680000e-08 69.4
37 TraesCS6B01G135700 chr1B 86.667 105 13 1 265 369 25616937 25617040 5.920000e-22 115.0
38 TraesCS6B01G135700 chr1B 90.909 44 4 0 61 104 280711643 280711600 2.810000e-05 60.2
39 TraesCS6B01G135700 chr4A 88.172 93 8 3 265 356 289725105 289725015 9.910000e-20 108.0
40 TraesCS6B01G135700 chr2D 84.615 104 15 1 265 368 566166531 566166429 4.610000e-18 102.0
41 TraesCS6B01G135700 chr4D 95.349 43 2 0 61 103 51993174 51993132 4.680000e-08 69.4
42 TraesCS6B01G135700 chr3D 83.099 71 8 2 170 239 58474324 58474257 7.820000e-06 62.1


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6B01G135700 chr6B 132947110 132949727 2617 True 4835.000000 4835 100.000000 1 2618 1 chr6B.!!$R1 2617
1 TraesCS6B01G135700 chr6B 463401642 463403900 2258 False 3965.000000 3965 98.364000 362 2618 1 chr6B.!!$F1 2256
2 TraesCS6B01G135700 chr6B 536156061 536157856 1795 True 1107.500000 2002 88.173500 454 2618 2 chr6B.!!$R2 2164
3 TraesCS6B01G135700 chr5A 680744130 680746393 2263 False 4085.000000 4085 99.249000 357 2618 1 chr5A.!!$F2 2261
4 TraesCS6B01G135700 chr7A 9491028 9493230 2202 True 4013.000000 4013 99.546000 416 2618 1 chr7A.!!$R1 2202
5 TraesCS6B01G135700 chr4B 245452941 245455167 2226 False 3840.000000 3840 97.983000 417 2618 1 chr4B.!!$F1 2201
6 TraesCS6B01G135700 chr1A 517178423 517180352 1929 False 3537.000000 3537 99.741000 428 2357 1 chr1A.!!$F1 1929
7 TraesCS6B01G135700 chr3B 145880936 145882970 2034 True 2410.000000 2410 87.869000 447 2575 1 chr3B.!!$R1 2128
8 TraesCS6B01G135700 chr2B 706801599 706804137 2538 True 893.333333 2025 89.716333 447 2618 3 chr2B.!!$R2 2171
9 TraesCS6B01G135700 chr1D 404274512 404279972 5460 False 972.000000 1003 83.674000 425 2618 2 chr1D.!!$F1 2193
10 TraesCS6B01G135700 chr2A 545738521 545739371 850 True 950.000000 950 87.093000 927 1770 1 chr2A.!!$R4 843
11 TraesCS6B01G135700 chr7B 610360841 610361770 929 False 645.000000 645 79.836000 417 1366 1 chr7B.!!$F1 949

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
304 305 0.107508 AGCATGGATTGACCTCGTGG 60.108 55.0 0.99 0.99 39.86 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2184 6052 2.897271 TGGTACAACGGAGGGTAGTA 57.103 50.0 0.0 0.0 31.92 1.82 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 9.809096 TGTTACTTTCATTTGAAATTTACTGCA 57.191 25.926 6.21 0.00 42.44 4.41
35 36 9.979578 ACTTTCATTTGAAATTTACTGCATACA 57.020 25.926 6.21 0.00 42.44 2.29
44 45 8.673711 TGAAATTTACTGCATACAATAGACACC 58.326 33.333 0.00 0.00 0.00 4.16
45 46 8.574251 AAATTTACTGCATACAATAGACACCA 57.426 30.769 0.00 0.00 0.00 4.17
46 47 6.978343 TTTACTGCATACAATAGACACCAC 57.022 37.500 0.00 0.00 0.00 4.16
47 48 4.826274 ACTGCATACAATAGACACCACT 57.174 40.909 0.00 0.00 0.00 4.00
48 49 5.165961 ACTGCATACAATAGACACCACTT 57.834 39.130 0.00 0.00 0.00 3.16
49 50 6.294361 ACTGCATACAATAGACACCACTTA 57.706 37.500 0.00 0.00 0.00 2.24
50 51 6.889198 ACTGCATACAATAGACACCACTTAT 58.111 36.000 0.00 0.00 0.00 1.73
51 52 8.018537 ACTGCATACAATAGACACCACTTATA 57.981 34.615 0.00 0.00 0.00 0.98
52 53 8.144478 ACTGCATACAATAGACACCACTTATAG 58.856 37.037 0.00 0.00 0.00 1.31
53 54 8.245195 TGCATACAATAGACACCACTTATAGA 57.755 34.615 0.00 0.00 0.00 1.98
54 55 8.141909 TGCATACAATAGACACCACTTATAGAC 58.858 37.037 0.00 0.00 0.00 2.59
55 56 8.141909 GCATACAATAGACACCACTTATAGACA 58.858 37.037 0.00 0.00 0.00 3.41
56 57 9.464714 CATACAATAGACACCACTTATAGACAC 57.535 37.037 0.00 0.00 0.00 3.67
57 58 7.719871 ACAATAGACACCACTTATAGACACT 57.280 36.000 0.00 0.00 0.00 3.55
58 59 8.818622 ACAATAGACACCACTTATAGACACTA 57.181 34.615 0.00 0.00 0.00 2.74
59 60 9.422681 ACAATAGACACCACTTATAGACACTAT 57.577 33.333 0.00 0.00 0.00 2.12
60 61 9.684448 CAATAGACACCACTTATAGACACTATG 57.316 37.037 0.00 0.00 0.00 2.23
61 62 8.998277 ATAGACACCACTTATAGACACTATGT 57.002 34.615 0.00 0.00 0.00 2.29
63 64 8.998277 AGACACCACTTATAGACACTATGTAT 57.002 34.615 0.00 0.00 0.00 2.29
64 65 9.069082 AGACACCACTTATAGACACTATGTATC 57.931 37.037 0.00 0.00 0.00 2.24
65 66 8.762481 ACACCACTTATAGACACTATGTATCA 57.238 34.615 0.00 0.00 0.00 2.15
66 67 9.197306 ACACCACTTATAGACACTATGTATCAA 57.803 33.333 0.00 0.00 0.00 2.57
67 68 9.464714 CACCACTTATAGACACTATGTATCAAC 57.535 37.037 0.00 0.00 0.00 3.18
68 69 8.639761 ACCACTTATAGACACTATGTATCAACC 58.360 37.037 0.00 0.00 0.00 3.77
69 70 7.808381 CCACTTATAGACACTATGTATCAACCG 59.192 40.741 0.00 0.00 0.00 4.44
70 71 7.808381 CACTTATAGACACTATGTATCAACCGG 59.192 40.741 0.00 0.00 0.00 5.28
71 72 5.723672 ATAGACACTATGTATCAACCGGG 57.276 43.478 6.32 0.00 0.00 5.73
72 73 3.638860 AGACACTATGTATCAACCGGGA 58.361 45.455 6.32 0.00 0.00 5.14
73 74 3.637229 AGACACTATGTATCAACCGGGAG 59.363 47.826 6.32 0.00 0.00 4.30
74 75 2.102588 ACACTATGTATCAACCGGGAGC 59.897 50.000 6.32 0.00 0.00 4.70
75 76 1.340248 ACTATGTATCAACCGGGAGCG 59.660 52.381 6.32 0.00 0.00 5.03
76 77 0.677288 TATGTATCAACCGGGAGCGG 59.323 55.000 6.32 0.00 0.00 5.52
77 78 2.588034 GTATCAACCGGGAGCGGC 60.588 66.667 6.32 0.00 0.00 6.53
78 79 4.215742 TATCAACCGGGAGCGGCG 62.216 66.667 6.32 0.51 0.00 6.46
102 103 4.280494 CGCGCGGGTATGGCTAGT 62.280 66.667 24.84 0.00 0.00 2.57
103 104 2.911484 CGCGCGGGTATGGCTAGTA 61.911 63.158 24.84 0.00 0.00 1.82
104 105 1.080705 GCGCGGGTATGGCTAGTAG 60.081 63.158 8.83 0.00 0.00 2.57
105 106 1.803366 GCGCGGGTATGGCTAGTAGT 61.803 60.000 8.83 0.00 0.00 2.73
106 107 1.527034 CGCGGGTATGGCTAGTAGTA 58.473 55.000 0.00 0.00 0.00 1.82
107 108 1.198637 CGCGGGTATGGCTAGTAGTAC 59.801 57.143 0.00 0.00 0.00 2.73
108 109 2.512705 GCGGGTATGGCTAGTAGTACT 58.487 52.381 8.14 8.14 0.00 2.73
109 110 2.889678 GCGGGTATGGCTAGTAGTACTT 59.110 50.000 8.40 0.00 0.00 2.24
110 111 3.320256 GCGGGTATGGCTAGTAGTACTTT 59.680 47.826 8.40 0.00 0.00 2.66
111 112 4.202192 GCGGGTATGGCTAGTAGTACTTTT 60.202 45.833 8.40 0.00 0.00 2.27
112 113 5.527033 CGGGTATGGCTAGTAGTACTTTTC 58.473 45.833 8.40 0.00 0.00 2.29
113 114 5.068198 CGGGTATGGCTAGTAGTACTTTTCA 59.932 44.000 8.40 5.04 0.00 2.69
114 115 6.239232 CGGGTATGGCTAGTAGTACTTTTCAT 60.239 42.308 8.40 11.45 0.00 2.57
115 116 7.153315 GGGTATGGCTAGTAGTACTTTTCATC 58.847 42.308 8.40 4.90 0.00 2.92
116 117 7.015389 GGGTATGGCTAGTAGTACTTTTCATCT 59.985 40.741 8.40 0.00 0.00 2.90
117 118 9.075678 GGTATGGCTAGTAGTACTTTTCATCTA 57.924 37.037 8.40 0.00 0.00 1.98
120 121 8.008513 TGGCTAGTAGTACTTTTCATCTAAGG 57.991 38.462 8.40 0.00 0.00 2.69
121 122 6.924612 GGCTAGTAGTACTTTTCATCTAAGGC 59.075 42.308 8.40 5.04 0.00 4.35
122 123 7.417570 GGCTAGTAGTACTTTTCATCTAAGGCA 60.418 40.741 8.40 0.00 0.00 4.75
123 124 8.145122 GCTAGTAGTACTTTTCATCTAAGGCAT 58.855 37.037 8.40 0.00 0.00 4.40
124 125 9.469807 CTAGTAGTACTTTTCATCTAAGGCATG 57.530 37.037 8.40 0.00 0.00 4.06
125 126 7.852263 AGTAGTACTTTTCATCTAAGGCATGT 58.148 34.615 0.00 0.00 0.00 3.21
126 127 8.978472 AGTAGTACTTTTCATCTAAGGCATGTA 58.022 33.333 0.00 0.00 0.00 2.29
127 128 9.595823 GTAGTACTTTTCATCTAAGGCATGTAA 57.404 33.333 0.00 0.00 0.00 2.41
130 131 7.338800 ACTTTTCATCTAAGGCATGTAATGG 57.661 36.000 0.00 0.00 46.86 3.16
131 132 7.118723 ACTTTTCATCTAAGGCATGTAATGGA 58.881 34.615 0.00 0.00 46.86 3.41
132 133 7.781693 ACTTTTCATCTAAGGCATGTAATGGAT 59.218 33.333 0.00 0.00 46.86 3.41
133 134 7.514784 TTTCATCTAAGGCATGTAATGGATG 57.485 36.000 11.25 11.25 46.86 3.51
134 135 5.563592 TCATCTAAGGCATGTAATGGATGG 58.436 41.667 14.95 3.65 46.86 3.51
135 136 5.310331 TCATCTAAGGCATGTAATGGATGGA 59.690 40.000 14.95 5.17 46.86 3.41
136 137 5.233083 TCTAAGGCATGTAATGGATGGAG 57.767 43.478 0.00 0.00 46.86 3.86
137 138 2.965671 AGGCATGTAATGGATGGAGG 57.034 50.000 0.00 0.00 46.86 4.30
138 139 2.421725 AGGCATGTAATGGATGGAGGA 58.578 47.619 0.00 0.00 46.86 3.71
139 140 2.785269 AGGCATGTAATGGATGGAGGAA 59.215 45.455 0.00 0.00 46.86 3.36
140 141 3.152341 GGCATGTAATGGATGGAGGAAG 58.848 50.000 0.00 0.00 46.86 3.46
141 142 3.152341 GCATGTAATGGATGGAGGAAGG 58.848 50.000 0.00 0.00 46.86 3.46
142 143 3.759581 CATGTAATGGATGGAGGAAGGG 58.240 50.000 0.00 0.00 41.79 3.95
143 144 1.494721 TGTAATGGATGGAGGAAGGGC 59.505 52.381 0.00 0.00 0.00 5.19
144 145 1.494721 GTAATGGATGGAGGAAGGGCA 59.505 52.381 0.00 0.00 0.00 5.36
145 146 0.259938 AATGGATGGAGGAAGGGCAC 59.740 55.000 0.00 0.00 0.00 5.01
146 147 1.987807 ATGGATGGAGGAAGGGCACG 61.988 60.000 0.00 0.00 0.00 5.34
147 148 2.514824 GATGGAGGAAGGGCACGC 60.515 66.667 0.00 0.00 0.00 5.34
148 149 3.329542 GATGGAGGAAGGGCACGCA 62.330 63.158 0.00 0.00 0.00 5.24
149 150 2.615227 GATGGAGGAAGGGCACGCAT 62.615 60.000 0.00 0.00 0.00 4.73
150 151 2.825836 GGAGGAAGGGCACGCATG 60.826 66.667 0.00 0.00 0.00 4.06
151 152 2.825836 GAGGAAGGGCACGCATGG 60.826 66.667 0.00 0.00 0.00 3.66
152 153 3.329542 GAGGAAGGGCACGCATGGA 62.330 63.158 0.00 0.00 0.00 3.41
153 154 2.361104 GGAAGGGCACGCATGGAA 60.361 61.111 0.00 0.00 0.00 3.53
154 155 1.976474 GGAAGGGCACGCATGGAAA 60.976 57.895 0.00 0.00 0.00 3.13
155 156 1.531739 GGAAGGGCACGCATGGAAAA 61.532 55.000 0.00 0.00 0.00 2.29
156 157 0.532115 GAAGGGCACGCATGGAAAAT 59.468 50.000 0.00 0.00 0.00 1.82
157 158 0.975887 AAGGGCACGCATGGAAAATT 59.024 45.000 0.00 0.00 0.00 1.82
158 159 0.247185 AGGGCACGCATGGAAAATTG 59.753 50.000 0.00 0.00 0.00 2.32
159 160 1.360931 GGGCACGCATGGAAAATTGC 61.361 55.000 0.00 0.00 35.50 3.56
165 166 2.652941 GCATGGAAAATTGCGAGGAA 57.347 45.000 0.00 0.00 0.00 3.36
166 167 2.958213 GCATGGAAAATTGCGAGGAAA 58.042 42.857 0.00 0.00 0.00 3.13
167 168 3.324993 GCATGGAAAATTGCGAGGAAAA 58.675 40.909 0.00 0.00 0.00 2.29
168 169 3.934579 GCATGGAAAATTGCGAGGAAAAT 59.065 39.130 0.00 0.00 0.00 1.82
169 170 5.108517 GCATGGAAAATTGCGAGGAAAATA 58.891 37.500 0.00 0.00 0.00 1.40
170 171 5.232838 GCATGGAAAATTGCGAGGAAAATAG 59.767 40.000 0.00 0.00 0.00 1.73
171 172 6.563422 CATGGAAAATTGCGAGGAAAATAGA 58.437 36.000 0.00 0.00 0.00 1.98
172 173 6.582677 TGGAAAATTGCGAGGAAAATAGAA 57.417 33.333 0.00 0.00 0.00 2.10
173 174 6.987386 TGGAAAATTGCGAGGAAAATAGAAA 58.013 32.000 0.00 0.00 0.00 2.52
174 175 6.866248 TGGAAAATTGCGAGGAAAATAGAAAC 59.134 34.615 0.00 0.00 0.00 2.78
175 176 6.866248 GGAAAATTGCGAGGAAAATAGAAACA 59.134 34.615 0.00 0.00 0.00 2.83
176 177 7.148804 GGAAAATTGCGAGGAAAATAGAAACAC 60.149 37.037 0.00 0.00 0.00 3.32
177 178 5.957842 ATTGCGAGGAAAATAGAAACACA 57.042 34.783 0.00 0.00 0.00 3.72
178 179 4.742438 TGCGAGGAAAATAGAAACACAC 57.258 40.909 0.00 0.00 0.00 3.82
179 180 3.500680 TGCGAGGAAAATAGAAACACACC 59.499 43.478 0.00 0.00 0.00 4.16
180 181 3.751698 GCGAGGAAAATAGAAACACACCT 59.248 43.478 0.00 0.00 0.00 4.00
181 182 4.215613 GCGAGGAAAATAGAAACACACCTT 59.784 41.667 0.00 0.00 0.00 3.50
182 183 5.410439 GCGAGGAAAATAGAAACACACCTTA 59.590 40.000 0.00 0.00 0.00 2.69
183 184 6.620089 GCGAGGAAAATAGAAACACACCTTAC 60.620 42.308 0.00 0.00 0.00 2.34
184 185 6.425721 CGAGGAAAATAGAAACACACCTTACA 59.574 38.462 0.00 0.00 0.00 2.41
185 186 7.119262 CGAGGAAAATAGAAACACACCTTACAT 59.881 37.037 0.00 0.00 0.00 2.29
186 187 8.706322 AGGAAAATAGAAACACACCTTACATT 57.294 30.769 0.00 0.00 0.00 2.71
187 188 8.576442 AGGAAAATAGAAACACACCTTACATTG 58.424 33.333 0.00 0.00 0.00 2.82
188 189 8.357402 GGAAAATAGAAACACACCTTACATTGT 58.643 33.333 0.00 0.00 0.00 2.71
190 191 8.458573 AAATAGAAACACACCTTACATTGTGA 57.541 30.769 8.64 0.00 45.03 3.58
191 192 8.635765 AATAGAAACACACCTTACATTGTGAT 57.364 30.769 8.64 0.00 45.03 3.06
192 193 6.959639 AGAAACACACCTTACATTGTGATT 57.040 33.333 8.64 3.05 45.03 2.57
193 194 7.346751 AGAAACACACCTTACATTGTGATTT 57.653 32.000 8.64 5.63 45.03 2.17
194 195 7.781056 AGAAACACACCTTACATTGTGATTTT 58.219 30.769 8.64 0.24 45.03 1.82
195 196 8.257306 AGAAACACACCTTACATTGTGATTTTT 58.743 29.630 8.64 0.00 45.03 1.94
234 235 9.774413 ATACACCTTATATAAAAGAACGAAGGG 57.226 33.333 0.00 0.00 36.99 3.95
235 236 7.052248 ACACCTTATATAAAAGAACGAAGGGG 58.948 38.462 0.00 0.00 41.01 4.79
236 237 6.485648 CACCTTATATAAAAGAACGAAGGGGG 59.514 42.308 0.00 0.00 36.99 5.40
237 238 6.159222 ACCTTATATAAAAGAACGAAGGGGGT 59.841 38.462 0.00 0.00 36.99 4.95
238 239 7.348011 ACCTTATATAAAAGAACGAAGGGGGTA 59.652 37.037 0.00 0.00 36.99 3.69
239 240 7.876582 CCTTATATAAAAGAACGAAGGGGGTAG 59.123 40.741 0.00 0.00 0.00 3.18
240 241 2.873094 AAAAGAACGAAGGGGGTAGG 57.127 50.000 0.00 0.00 0.00 3.18
241 242 1.738474 AAAGAACGAAGGGGGTAGGT 58.262 50.000 0.00 0.00 0.00 3.08
242 243 0.981943 AAGAACGAAGGGGGTAGGTG 59.018 55.000 0.00 0.00 0.00 4.00
243 244 0.908180 AGAACGAAGGGGGTAGGTGG 60.908 60.000 0.00 0.00 0.00 4.61
244 245 0.906282 GAACGAAGGGGGTAGGTGGA 60.906 60.000 0.00 0.00 0.00 4.02
245 246 0.253020 AACGAAGGGGGTAGGTGGAT 60.253 55.000 0.00 0.00 0.00 3.41
246 247 0.638292 ACGAAGGGGGTAGGTGGATA 59.362 55.000 0.00 0.00 0.00 2.59
247 248 1.222298 ACGAAGGGGGTAGGTGGATAT 59.778 52.381 0.00 0.00 0.00 1.63
248 249 2.452047 ACGAAGGGGGTAGGTGGATATA 59.548 50.000 0.00 0.00 0.00 0.86
249 250 3.116629 ACGAAGGGGGTAGGTGGATATAA 60.117 47.826 0.00 0.00 0.00 0.98
250 251 3.905591 CGAAGGGGGTAGGTGGATATAAA 59.094 47.826 0.00 0.00 0.00 1.40
251 252 4.348754 CGAAGGGGGTAGGTGGATATAAAA 59.651 45.833 0.00 0.00 0.00 1.52
252 253 5.013808 CGAAGGGGGTAGGTGGATATAAAAT 59.986 44.000 0.00 0.00 0.00 1.82
253 254 6.466759 CGAAGGGGGTAGGTGGATATAAAATT 60.467 42.308 0.00 0.00 0.00 1.82
254 255 6.464530 AGGGGGTAGGTGGATATAAAATTC 57.535 41.667 0.00 0.00 0.00 2.17
255 256 6.165550 AGGGGGTAGGTGGATATAAAATTCT 58.834 40.000 0.00 0.00 0.00 2.40
256 257 6.628233 AGGGGGTAGGTGGATATAAAATTCTT 59.372 38.462 0.00 0.00 0.00 2.52
257 258 6.946583 GGGGGTAGGTGGATATAAAATTCTTC 59.053 42.308 0.00 0.00 0.00 2.87
258 259 7.422089 GGGGGTAGGTGGATATAAAATTCTTCA 60.422 40.741 0.00 0.00 0.00 3.02
259 260 8.002459 GGGGTAGGTGGATATAAAATTCTTCAA 58.998 37.037 0.00 0.00 0.00 2.69
260 261 9.588096 GGGTAGGTGGATATAAAATTCTTCAAT 57.412 33.333 0.00 0.00 0.00 2.57
273 274 8.718158 AAAATTCTTCAATCTTTCTCTTCCCT 57.282 30.769 0.00 0.00 0.00 4.20
274 275 9.813826 AAAATTCTTCAATCTTTCTCTTCCCTA 57.186 29.630 0.00 0.00 0.00 3.53
275 276 9.813826 AAATTCTTCAATCTTTCTCTTCCCTAA 57.186 29.630 0.00 0.00 0.00 2.69
276 277 9.987726 AATTCTTCAATCTTTCTCTTCCCTAAT 57.012 29.630 0.00 0.00 0.00 1.73
301 302 6.808008 ATAATAAAGCATGGATTGACCTCG 57.192 37.500 0.00 0.00 39.86 4.63
302 303 2.496899 AAAGCATGGATTGACCTCGT 57.503 45.000 0.00 0.00 39.86 4.18
303 304 1.742761 AAGCATGGATTGACCTCGTG 58.257 50.000 0.00 0.00 39.86 4.35
304 305 0.107508 AGCATGGATTGACCTCGTGG 60.108 55.000 0.99 0.99 39.86 4.94
305 306 1.097547 GCATGGATTGACCTCGTGGG 61.098 60.000 8.63 2.00 39.86 4.61
314 315 2.048503 CCTCGTGGGTTCACCGTC 60.049 66.667 0.00 0.00 44.64 4.79
315 316 2.732016 CTCGTGGGTTCACCGTCA 59.268 61.111 0.00 0.00 44.64 4.35
316 317 1.663702 CTCGTGGGTTCACCGTCAC 60.664 63.158 0.00 0.00 44.64 3.67
317 318 2.107343 CGTGGGTTCACCGTCACA 59.893 61.111 6.29 0.00 44.64 3.58
318 319 1.521906 CGTGGGTTCACCGTCACAA 60.522 57.895 6.29 0.00 44.64 3.33
319 320 0.882927 CGTGGGTTCACCGTCACAAT 60.883 55.000 6.29 0.00 44.64 2.71
320 321 1.605968 CGTGGGTTCACCGTCACAATA 60.606 52.381 6.29 0.00 44.64 1.90
321 322 1.802365 GTGGGTTCACCGTCACAATAC 59.198 52.381 1.63 0.00 44.64 1.89
322 323 1.073177 GGGTTCACCGTCACAATACG 58.927 55.000 0.00 0.00 42.49 3.06
323 324 0.441145 GGTTCACCGTCACAATACGC 59.559 55.000 0.00 0.00 41.51 4.42
324 325 1.425412 GTTCACCGTCACAATACGCT 58.575 50.000 0.00 0.00 41.51 5.07
325 326 1.796459 GTTCACCGTCACAATACGCTT 59.204 47.619 0.00 0.00 41.51 4.68
326 327 1.424403 TCACCGTCACAATACGCTTG 58.576 50.000 0.00 0.00 41.51 4.01
327 328 1.144969 CACCGTCACAATACGCTTGT 58.855 50.000 0.00 0.00 41.51 3.16
328 329 1.529438 CACCGTCACAATACGCTTGTT 59.471 47.619 1.48 0.00 41.51 2.83
329 330 1.796459 ACCGTCACAATACGCTTGTTC 59.204 47.619 1.48 0.00 41.51 3.18
330 331 1.127951 CCGTCACAATACGCTTGTTCC 59.872 52.381 1.48 0.00 41.51 3.62
331 332 1.127951 CGTCACAATACGCTTGTTCCC 59.872 52.381 1.48 0.00 35.87 3.97
332 333 1.127951 GTCACAATACGCTTGTTCCCG 59.872 52.381 1.48 0.00 0.00 5.14
333 334 1.153353 CACAATACGCTTGTTCCCGT 58.847 50.000 1.48 0.00 41.11 5.28
334 335 2.029200 TCACAATACGCTTGTTCCCGTA 60.029 45.455 1.48 0.00 43.10 4.02
335 336 2.737783 CACAATACGCTTGTTCCCGTAA 59.262 45.455 1.48 0.00 42.35 3.18
336 337 3.186817 CACAATACGCTTGTTCCCGTAAA 59.813 43.478 1.48 0.00 42.35 2.01
337 338 4.004982 ACAATACGCTTGTTCCCGTAAAT 58.995 39.130 0.00 0.00 42.35 1.40
338 339 4.456566 ACAATACGCTTGTTCCCGTAAATT 59.543 37.500 0.00 0.00 42.35 1.82
339 340 5.048573 ACAATACGCTTGTTCCCGTAAATTT 60.049 36.000 0.00 0.00 42.35 1.82
340 341 6.149142 ACAATACGCTTGTTCCCGTAAATTTA 59.851 34.615 0.00 0.00 42.35 1.40
341 342 4.408993 ACGCTTGTTCCCGTAAATTTAC 57.591 40.909 16.87 16.87 35.69 2.01
1556 2079 2.202932 GGAGTGCATCGTCGGCAT 60.203 61.111 0.00 0.00 44.11 4.40
2184 6052 2.612115 CTGCTGGGAAGGGGGAGT 60.612 66.667 0.00 0.00 0.00 3.85
2205 6073 3.386932 ACTACCCTCCGTTGTACCATA 57.613 47.619 0.00 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 9.979578 TGTATGCAGTAAATTTCAAATGAAAGT 57.020 25.926 13.42 8.62 45.87 2.66
18 19 8.673711 GGTGTCTATTGTATGCAGTAAATTTCA 58.326 33.333 0.00 0.00 0.00 2.69
19 20 8.673711 TGGTGTCTATTGTATGCAGTAAATTTC 58.326 33.333 0.00 0.00 0.00 2.17
21 22 7.829211 AGTGGTGTCTATTGTATGCAGTAAATT 59.171 33.333 0.00 0.00 0.00 1.82
23 24 6.707290 AGTGGTGTCTATTGTATGCAGTAAA 58.293 36.000 0.00 0.00 0.00 2.01
25 26 5.932619 AGTGGTGTCTATTGTATGCAGTA 57.067 39.130 0.00 0.00 0.00 2.74
26 27 4.826274 AGTGGTGTCTATTGTATGCAGT 57.174 40.909 0.00 0.00 0.00 4.40
27 28 8.360390 TCTATAAGTGGTGTCTATTGTATGCAG 58.640 37.037 0.00 0.00 0.00 4.41
28 29 8.141909 GTCTATAAGTGGTGTCTATTGTATGCA 58.858 37.037 0.00 0.00 0.00 3.96
29 30 8.141909 TGTCTATAAGTGGTGTCTATTGTATGC 58.858 37.037 0.00 0.00 0.00 3.14
30 31 9.464714 GTGTCTATAAGTGGTGTCTATTGTATG 57.535 37.037 0.00 0.00 0.00 2.39
31 32 9.422681 AGTGTCTATAAGTGGTGTCTATTGTAT 57.577 33.333 0.00 0.00 0.00 2.29
32 33 8.818622 AGTGTCTATAAGTGGTGTCTATTGTA 57.181 34.615 0.00 0.00 0.00 2.41
33 34 7.719871 AGTGTCTATAAGTGGTGTCTATTGT 57.280 36.000 0.00 0.00 0.00 2.71
34 35 9.684448 CATAGTGTCTATAAGTGGTGTCTATTG 57.316 37.037 0.00 0.00 0.00 1.90
35 36 9.422681 ACATAGTGTCTATAAGTGGTGTCTATT 57.577 33.333 0.00 0.00 0.00 1.73
36 37 8.998277 ACATAGTGTCTATAAGTGGTGTCTAT 57.002 34.615 0.00 0.00 0.00 1.98
38 39 8.998277 ATACATAGTGTCTATAAGTGGTGTCT 57.002 34.615 0.00 0.00 0.00 3.41
39 40 8.847196 TGATACATAGTGTCTATAAGTGGTGTC 58.153 37.037 0.00 0.00 0.00 3.67
40 41 8.762481 TGATACATAGTGTCTATAAGTGGTGT 57.238 34.615 0.00 0.00 0.00 4.16
41 42 9.464714 GTTGATACATAGTGTCTATAAGTGGTG 57.535 37.037 0.00 0.00 0.00 4.17
42 43 8.639761 GGTTGATACATAGTGTCTATAAGTGGT 58.360 37.037 0.00 0.00 0.00 4.16
43 44 7.808381 CGGTTGATACATAGTGTCTATAAGTGG 59.192 40.741 0.00 0.00 0.00 4.00
44 45 7.808381 CCGGTTGATACATAGTGTCTATAAGTG 59.192 40.741 0.00 0.00 0.00 3.16
45 46 7.039923 CCCGGTTGATACATAGTGTCTATAAGT 60.040 40.741 0.00 0.00 0.00 2.24
46 47 7.176165 TCCCGGTTGATACATAGTGTCTATAAG 59.824 40.741 0.00 0.00 0.00 1.73
47 48 7.005902 TCCCGGTTGATACATAGTGTCTATAA 58.994 38.462 0.00 0.00 0.00 0.98
48 49 6.545567 TCCCGGTTGATACATAGTGTCTATA 58.454 40.000 0.00 0.00 0.00 1.31
49 50 5.391256 TCCCGGTTGATACATAGTGTCTAT 58.609 41.667 0.00 0.00 0.00 1.98
50 51 4.795469 TCCCGGTTGATACATAGTGTCTA 58.205 43.478 0.00 0.00 0.00 2.59
51 52 3.637229 CTCCCGGTTGATACATAGTGTCT 59.363 47.826 0.00 0.00 0.00 3.41
52 53 3.799232 GCTCCCGGTTGATACATAGTGTC 60.799 52.174 0.00 0.00 0.00 3.67
53 54 2.102588 GCTCCCGGTTGATACATAGTGT 59.897 50.000 0.00 0.00 0.00 3.55
54 55 2.755650 GCTCCCGGTTGATACATAGTG 58.244 52.381 0.00 0.00 0.00 2.74
55 56 1.340248 CGCTCCCGGTTGATACATAGT 59.660 52.381 0.00 0.00 0.00 2.12
56 57 2.065993 CGCTCCCGGTTGATACATAG 57.934 55.000 0.00 0.00 0.00 2.23
85 86 2.797866 CTACTAGCCATACCCGCGCG 62.798 65.000 25.67 25.67 0.00 6.86
86 87 1.080705 CTACTAGCCATACCCGCGC 60.081 63.158 0.00 0.00 0.00 6.86
87 88 1.198637 GTACTACTAGCCATACCCGCG 59.801 57.143 0.00 0.00 0.00 6.46
88 89 2.512705 AGTACTACTAGCCATACCCGC 58.487 52.381 0.00 0.00 0.00 6.13
89 90 5.068198 TGAAAAGTACTACTAGCCATACCCG 59.932 44.000 0.00 0.00 0.00 5.28
90 91 6.475596 TGAAAAGTACTACTAGCCATACCC 57.524 41.667 0.00 0.00 0.00 3.69
91 92 7.953752 AGATGAAAAGTACTACTAGCCATACC 58.046 38.462 0.00 0.00 0.00 2.73
94 95 8.643324 CCTTAGATGAAAAGTACTACTAGCCAT 58.357 37.037 0.00 0.00 0.00 4.40
95 96 7.417570 GCCTTAGATGAAAAGTACTACTAGCCA 60.418 40.741 0.00 0.00 0.00 4.75
96 97 6.924612 GCCTTAGATGAAAAGTACTACTAGCC 59.075 42.308 0.00 0.00 0.00 3.93
97 98 7.490000 TGCCTTAGATGAAAAGTACTACTAGC 58.510 38.462 0.00 0.00 0.00 3.42
98 99 9.469807 CATGCCTTAGATGAAAAGTACTACTAG 57.530 37.037 0.00 0.00 0.00 2.57
99 100 8.978472 ACATGCCTTAGATGAAAAGTACTACTA 58.022 33.333 0.00 0.00 0.00 1.82
100 101 7.852263 ACATGCCTTAGATGAAAAGTACTACT 58.148 34.615 0.00 0.00 0.00 2.57
101 102 9.595823 TTACATGCCTTAGATGAAAAGTACTAC 57.404 33.333 0.00 0.00 0.00 2.73
103 104 9.113838 CATTACATGCCTTAGATGAAAAGTACT 57.886 33.333 0.00 0.00 0.00 2.73
104 105 8.345565 CCATTACATGCCTTAGATGAAAAGTAC 58.654 37.037 0.00 0.00 0.00 2.73
105 106 8.271458 TCCATTACATGCCTTAGATGAAAAGTA 58.729 33.333 0.00 0.00 0.00 2.24
106 107 7.118723 TCCATTACATGCCTTAGATGAAAAGT 58.881 34.615 0.00 0.00 0.00 2.66
107 108 7.572523 TCCATTACATGCCTTAGATGAAAAG 57.427 36.000 0.00 0.00 0.00 2.27
108 109 7.014518 CCATCCATTACATGCCTTAGATGAAAA 59.985 37.037 14.04 0.00 33.35 2.29
109 110 6.491062 CCATCCATTACATGCCTTAGATGAAA 59.509 38.462 14.04 0.00 33.35 2.69
110 111 6.005823 CCATCCATTACATGCCTTAGATGAA 58.994 40.000 14.04 0.00 33.35 2.57
111 112 5.310331 TCCATCCATTACATGCCTTAGATGA 59.690 40.000 14.04 2.43 33.35 2.92
112 113 5.563592 TCCATCCATTACATGCCTTAGATG 58.436 41.667 0.00 0.64 0.00 2.90
113 114 5.280882 CCTCCATCCATTACATGCCTTAGAT 60.281 44.000 0.00 0.00 0.00 1.98
114 115 4.042062 CCTCCATCCATTACATGCCTTAGA 59.958 45.833 0.00 0.00 0.00 2.10
115 116 4.042062 TCCTCCATCCATTACATGCCTTAG 59.958 45.833 0.00 0.00 0.00 2.18
116 117 3.980022 TCCTCCATCCATTACATGCCTTA 59.020 43.478 0.00 0.00 0.00 2.69
117 118 2.785269 TCCTCCATCCATTACATGCCTT 59.215 45.455 0.00 0.00 0.00 4.35
118 119 2.421725 TCCTCCATCCATTACATGCCT 58.578 47.619 0.00 0.00 0.00 4.75
119 120 2.957402 TCCTCCATCCATTACATGCC 57.043 50.000 0.00 0.00 0.00 4.40
120 121 3.152341 CCTTCCTCCATCCATTACATGC 58.848 50.000 0.00 0.00 0.00 4.06
121 122 3.759581 CCCTTCCTCCATCCATTACATG 58.240 50.000 0.00 0.00 0.00 3.21
122 123 2.108952 GCCCTTCCTCCATCCATTACAT 59.891 50.000 0.00 0.00 0.00 2.29
123 124 1.494721 GCCCTTCCTCCATCCATTACA 59.505 52.381 0.00 0.00 0.00 2.41
124 125 1.494721 TGCCCTTCCTCCATCCATTAC 59.505 52.381 0.00 0.00 0.00 1.89
125 126 1.494721 GTGCCCTTCCTCCATCCATTA 59.505 52.381 0.00 0.00 0.00 1.90
126 127 0.259938 GTGCCCTTCCTCCATCCATT 59.740 55.000 0.00 0.00 0.00 3.16
127 128 1.925888 GTGCCCTTCCTCCATCCAT 59.074 57.895 0.00 0.00 0.00 3.41
128 129 2.669133 CGTGCCCTTCCTCCATCCA 61.669 63.158 0.00 0.00 0.00 3.41
129 130 2.190578 CGTGCCCTTCCTCCATCC 59.809 66.667 0.00 0.00 0.00 3.51
130 131 2.514824 GCGTGCCCTTCCTCCATC 60.515 66.667 0.00 0.00 0.00 3.51
131 132 2.683465 ATGCGTGCCCTTCCTCCAT 61.683 57.895 0.00 0.00 0.00 3.41
132 133 3.329889 ATGCGTGCCCTTCCTCCA 61.330 61.111 0.00 0.00 0.00 3.86
133 134 2.825836 CATGCGTGCCCTTCCTCC 60.826 66.667 0.00 0.00 0.00 4.30
134 135 2.819984 TTCCATGCGTGCCCTTCCTC 62.820 60.000 0.00 0.00 0.00 3.71
135 136 2.424842 TTTCCATGCGTGCCCTTCCT 62.425 55.000 0.00 0.00 0.00 3.36
136 137 1.531739 TTTTCCATGCGTGCCCTTCC 61.532 55.000 0.00 0.00 0.00 3.46
137 138 0.532115 ATTTTCCATGCGTGCCCTTC 59.468 50.000 0.00 0.00 0.00 3.46
138 139 0.975887 AATTTTCCATGCGTGCCCTT 59.024 45.000 0.00 0.00 0.00 3.95
139 140 0.247185 CAATTTTCCATGCGTGCCCT 59.753 50.000 0.00 0.00 0.00 5.19
140 141 1.360931 GCAATTTTCCATGCGTGCCC 61.361 55.000 0.00 0.00 32.17 5.36
141 142 2.080700 GCAATTTTCCATGCGTGCC 58.919 52.632 0.00 0.00 32.17 5.01
146 147 2.652941 TTCCTCGCAATTTTCCATGC 57.347 45.000 0.00 0.00 39.17 4.06
147 148 6.563422 TCTATTTTCCTCGCAATTTTCCATG 58.437 36.000 0.00 0.00 0.00 3.66
148 149 6.773976 TCTATTTTCCTCGCAATTTTCCAT 57.226 33.333 0.00 0.00 0.00 3.41
149 150 6.582677 TTCTATTTTCCTCGCAATTTTCCA 57.417 33.333 0.00 0.00 0.00 3.53
150 151 6.866248 TGTTTCTATTTTCCTCGCAATTTTCC 59.134 34.615 0.00 0.00 0.00 3.13
151 152 7.381139 TGTGTTTCTATTTTCCTCGCAATTTTC 59.619 33.333 0.00 0.00 0.00 2.29
152 153 7.169140 GTGTGTTTCTATTTTCCTCGCAATTTT 59.831 33.333 0.00 0.00 0.00 1.82
153 154 6.640907 GTGTGTTTCTATTTTCCTCGCAATTT 59.359 34.615 0.00 0.00 0.00 1.82
154 155 6.149633 GTGTGTTTCTATTTTCCTCGCAATT 58.850 36.000 0.00 0.00 0.00 2.32
155 156 5.335661 GGTGTGTTTCTATTTTCCTCGCAAT 60.336 40.000 0.00 0.00 0.00 3.56
156 157 4.023536 GGTGTGTTTCTATTTTCCTCGCAA 60.024 41.667 0.00 0.00 0.00 4.85
157 158 3.500680 GGTGTGTTTCTATTTTCCTCGCA 59.499 43.478 0.00 0.00 0.00 5.10
158 159 3.751698 AGGTGTGTTTCTATTTTCCTCGC 59.248 43.478 0.00 0.00 0.00 5.03
159 160 5.941948 AAGGTGTGTTTCTATTTTCCTCG 57.058 39.130 0.00 0.00 0.00 4.63
160 161 7.739498 TGTAAGGTGTGTTTCTATTTTCCTC 57.261 36.000 0.00 0.00 0.00 3.71
161 162 8.576442 CAATGTAAGGTGTGTTTCTATTTTCCT 58.424 33.333 0.00 0.00 0.00 3.36
162 163 8.357402 ACAATGTAAGGTGTGTTTCTATTTTCC 58.643 33.333 0.00 0.00 0.00 3.13
163 164 9.180678 CACAATGTAAGGTGTGTTTCTATTTTC 57.819 33.333 0.00 0.00 40.22 2.29
164 165 8.908903 TCACAATGTAAGGTGTGTTTCTATTTT 58.091 29.630 3.92 0.00 44.45 1.82
165 166 8.458573 TCACAATGTAAGGTGTGTTTCTATTT 57.541 30.769 3.92 0.00 44.45 1.40
166 167 8.635765 ATCACAATGTAAGGTGTGTTTCTATT 57.364 30.769 3.92 0.00 44.45 1.73
167 168 8.635765 AATCACAATGTAAGGTGTGTTTCTAT 57.364 30.769 3.92 0.00 44.45 1.98
168 169 8.458573 AAATCACAATGTAAGGTGTGTTTCTA 57.541 30.769 3.92 0.00 44.45 2.10
169 170 6.959639 AATCACAATGTAAGGTGTGTTTCT 57.040 33.333 3.92 0.00 44.45 2.52
170 171 8.419076 AAAAATCACAATGTAAGGTGTGTTTC 57.581 30.769 3.92 0.00 44.45 2.78
208 209 9.774413 CCCTTCGTTCTTTTATATAAGGTGTAT 57.226 33.333 3.49 0.00 31.98 2.29
209 210 8.206189 CCCCTTCGTTCTTTTATATAAGGTGTA 58.794 37.037 3.49 0.00 31.98 2.90
210 211 7.052248 CCCCTTCGTTCTTTTATATAAGGTGT 58.948 38.462 3.49 0.00 31.98 4.16
211 212 6.485648 CCCCCTTCGTTCTTTTATATAAGGTG 59.514 42.308 3.49 0.00 31.98 4.00
212 213 6.159222 ACCCCCTTCGTTCTTTTATATAAGGT 59.841 38.462 3.49 0.00 31.98 3.50
213 214 6.598503 ACCCCCTTCGTTCTTTTATATAAGG 58.401 40.000 3.49 0.00 33.37 2.69
214 215 7.876582 CCTACCCCCTTCGTTCTTTTATATAAG 59.123 40.741 0.00 0.00 0.00 1.73
215 216 7.348011 ACCTACCCCCTTCGTTCTTTTATATAA 59.652 37.037 0.00 0.00 0.00 0.98
216 217 6.845975 ACCTACCCCCTTCGTTCTTTTATATA 59.154 38.462 0.00 0.00 0.00 0.86
217 218 5.668991 ACCTACCCCCTTCGTTCTTTTATAT 59.331 40.000 0.00 0.00 0.00 0.86
218 219 5.032170 ACCTACCCCCTTCGTTCTTTTATA 58.968 41.667 0.00 0.00 0.00 0.98
219 220 3.848377 ACCTACCCCCTTCGTTCTTTTAT 59.152 43.478 0.00 0.00 0.00 1.40
220 221 3.008266 CACCTACCCCCTTCGTTCTTTTA 59.992 47.826 0.00 0.00 0.00 1.52
221 222 2.060275 ACCTACCCCCTTCGTTCTTTT 58.940 47.619 0.00 0.00 0.00 2.27
222 223 1.350019 CACCTACCCCCTTCGTTCTTT 59.650 52.381 0.00 0.00 0.00 2.52
223 224 0.981943 CACCTACCCCCTTCGTTCTT 59.018 55.000 0.00 0.00 0.00 2.52
224 225 0.908180 CCACCTACCCCCTTCGTTCT 60.908 60.000 0.00 0.00 0.00 3.01
225 226 0.906282 TCCACCTACCCCCTTCGTTC 60.906 60.000 0.00 0.00 0.00 3.95
226 227 0.253020 ATCCACCTACCCCCTTCGTT 60.253 55.000 0.00 0.00 0.00 3.85
227 228 0.638292 TATCCACCTACCCCCTTCGT 59.362 55.000 0.00 0.00 0.00 3.85
228 229 2.025636 ATATCCACCTACCCCCTTCG 57.974 55.000 0.00 0.00 0.00 3.79
229 230 5.917545 TTTTATATCCACCTACCCCCTTC 57.082 43.478 0.00 0.00 0.00 3.46
230 231 6.628233 AGAATTTTATATCCACCTACCCCCTT 59.372 38.462 0.00 0.00 0.00 3.95
231 232 6.165550 AGAATTTTATATCCACCTACCCCCT 58.834 40.000 0.00 0.00 0.00 4.79
232 233 6.464530 AGAATTTTATATCCACCTACCCCC 57.535 41.667 0.00 0.00 0.00 5.40
233 234 7.523415 TGAAGAATTTTATATCCACCTACCCC 58.477 38.462 0.00 0.00 0.00 4.95
234 235 8.990163 TTGAAGAATTTTATATCCACCTACCC 57.010 34.615 0.00 0.00 0.00 3.69
247 248 9.813826 AGGGAAGAGAAAGATTGAAGAATTTTA 57.186 29.630 0.00 0.00 0.00 1.52
248 249 8.718158 AGGGAAGAGAAAGATTGAAGAATTTT 57.282 30.769 0.00 0.00 0.00 1.82
249 250 9.813826 TTAGGGAAGAGAAAGATTGAAGAATTT 57.186 29.630 0.00 0.00 0.00 1.82
250 251 9.987726 ATTAGGGAAGAGAAAGATTGAAGAATT 57.012 29.630 0.00 0.00 0.00 2.17
275 276 8.950210 CGAGGTCAATCCATGCTTTATTATTAT 58.050 33.333 0.00 0.00 39.02 1.28
276 277 7.936847 ACGAGGTCAATCCATGCTTTATTATTA 59.063 33.333 0.00 0.00 39.02 0.98
277 278 6.772716 ACGAGGTCAATCCATGCTTTATTATT 59.227 34.615 0.00 0.00 39.02 1.40
278 279 6.205464 CACGAGGTCAATCCATGCTTTATTAT 59.795 38.462 0.00 0.00 39.02 1.28
279 280 5.527214 CACGAGGTCAATCCATGCTTTATTA 59.473 40.000 0.00 0.00 39.02 0.98
280 281 4.336433 CACGAGGTCAATCCATGCTTTATT 59.664 41.667 0.00 0.00 39.02 1.40
281 282 3.879295 CACGAGGTCAATCCATGCTTTAT 59.121 43.478 0.00 0.00 39.02 1.40
282 283 3.270027 CACGAGGTCAATCCATGCTTTA 58.730 45.455 0.00 0.00 39.02 1.85
283 284 2.086869 CACGAGGTCAATCCATGCTTT 58.913 47.619 0.00 0.00 39.02 3.51
284 285 1.679944 CCACGAGGTCAATCCATGCTT 60.680 52.381 0.00 0.00 39.02 3.91
285 286 0.107508 CCACGAGGTCAATCCATGCT 60.108 55.000 0.00 0.00 39.02 3.79
286 287 1.097547 CCCACGAGGTCAATCCATGC 61.098 60.000 0.00 0.00 39.02 4.06
287 288 3.085208 CCCACGAGGTCAATCCATG 57.915 57.895 0.00 0.00 39.02 3.66
297 298 2.048503 GACGGTGAACCCACGAGG 60.049 66.667 0.00 0.00 44.09 4.63
298 299 1.663702 GTGACGGTGAACCCACGAG 60.664 63.158 0.00 0.00 44.09 4.18
299 300 1.957765 TTGTGACGGTGAACCCACGA 61.958 55.000 0.00 0.00 44.09 4.35
300 301 0.882927 ATTGTGACGGTGAACCCACG 60.883 55.000 0.00 0.00 44.09 4.94
301 302 1.802365 GTATTGTGACGGTGAACCCAC 59.198 52.381 2.84 2.84 42.46 4.61
302 303 1.605968 CGTATTGTGACGGTGAACCCA 60.606 52.381 0.00 0.00 39.19 4.51
303 304 1.073177 CGTATTGTGACGGTGAACCC 58.927 55.000 0.00 0.00 39.19 4.11
304 305 0.441145 GCGTATTGTGACGGTGAACC 59.559 55.000 0.00 0.00 43.13 3.62
305 306 3.941194 GCGTATTGTGACGGTGAAC 57.059 52.632 0.00 0.00 43.13 3.18
310 311 1.127951 GGAACAAGCGTATTGTGACGG 59.872 52.381 8.59 0.00 43.13 4.79
311 312 1.127951 GGGAACAAGCGTATTGTGACG 59.872 52.381 8.59 0.00 45.70 4.35
312 313 1.127951 CGGGAACAAGCGTATTGTGAC 59.872 52.381 8.59 6.70 32.22 3.67
313 314 1.270412 ACGGGAACAAGCGTATTGTGA 60.270 47.619 8.59 0.00 32.22 3.58
314 315 1.153353 ACGGGAACAAGCGTATTGTG 58.847 50.000 8.59 0.57 32.22 3.33
315 316 2.747396 TACGGGAACAAGCGTATTGT 57.253 45.000 2.76 2.76 0.00 2.71
316 317 4.609691 ATTTACGGGAACAAGCGTATTG 57.390 40.909 0.00 1.56 0.00 1.90
317 318 5.632244 AAATTTACGGGAACAAGCGTATT 57.368 34.783 0.00 0.00 0.00 1.89
318 319 6.110543 GTAAATTTACGGGAACAAGCGTAT 57.889 37.500 12.39 0.00 0.00 3.06
319 320 5.529014 GTAAATTTACGGGAACAAGCGTA 57.471 39.130 12.39 0.00 0.00 4.42
320 321 4.408993 GTAAATTTACGGGAACAAGCGT 57.591 40.909 12.39 0.00 0.00 5.07
413 414 9.490379 CGTGCTTTATTAGTAGGGAAAGATTAT 57.510 33.333 0.00 0.00 31.83 1.28
414 415 7.929785 CCGTGCTTTATTAGTAGGGAAAGATTA 59.070 37.037 0.00 0.00 44.42 1.75
1556 2079 4.402793 GCTCCTCCTCTTCTACATGTGTTA 59.597 45.833 9.11 0.00 0.00 2.41
1696 2247 5.697633 TCGTTATTAAAGAAAAGCACCGACT 59.302 36.000 0.00 0.00 0.00 4.18
2184 6052 2.897271 TGGTACAACGGAGGGTAGTA 57.103 50.000 0.00 0.00 31.92 1.82


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.