Multiple sequence alignment - TraesCS7B01G034900

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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 TraesCS7B01G034900 chr7B 100.000 2888 0 0 1 2888 34220537 34223424 0.000000e+00 5334.0
1 TraesCS7B01G034900 chr7B 87.037 108 13 1 418 524 34231631 34231524 1.410000e-23 121.0
2 TraesCS7B01G034900 chr7D 96.456 1721 55 3 1169 2888 2487318 2485603 0.000000e+00 2835.0
3 TraesCS7B01G034900 chr7D 91.609 1311 107 3 1574 2883 52091139 52092447 0.000000e+00 1808.0
4 TraesCS7B01G034900 chr7D 88.031 259 25 6 1 254 84594293 84594550 4.680000e-78 302.0
5 TraesCS7B01G034900 chr7D 93.684 95 5 1 252 345 84594573 84594667 1.080000e-29 141.0
6 TraesCS7B01G034900 chr6B 96.059 1218 43 5 413 1626 666827775 666826559 0.000000e+00 1978.0
7 TraesCS7B01G034900 chr6B 91.686 1311 106 3 1574 2883 63422824 63421516 0.000000e+00 1814.0
8 TraesCS7B01G034900 chr6B 96.378 1049 37 1 1630 2677 666804133 666803085 0.000000e+00 1725.0
9 TraesCS7B01G034900 chr6B 83.137 1103 169 15 422 1518 63423914 63422823 0.000000e+00 990.0
10 TraesCS7B01G034900 chr6B 88.776 98 10 1 418 514 666792549 666792646 5.060000e-23 119.0
11 TraesCS7B01G034900 chr1B 94.644 1251 67 0 536 1786 551220118 551218868 0.000000e+00 1940.0
12 TraesCS7B01G034900 chr1B 96.573 1109 37 1 1781 2888 551213791 551212683 0.000000e+00 1836.0
13 TraesCS7B01G034900 chr1B 87.736 106 12 1 419 524 551186336 551186440 3.910000e-24 122.0
14 TraesCS7B01G034900 chr3D 91.915 1311 102 4 1574 2883 496842107 496840800 0.000000e+00 1831.0
15 TraesCS7B01G034900 chr6D 91.838 1311 104 3 1574 2883 469086354 469085046 0.000000e+00 1825.0
16 TraesCS7B01G034900 chr6D 83.333 1104 154 24 422 1518 469087433 469086353 0.000000e+00 992.0
17 TraesCS7B01G034900 chr4B 91.533 1311 107 4 1574 2883 67558145 67556838 0.000000e+00 1803.0
18 TraesCS7B01G034900 chr4B 83.046 1103 170 17 422 1518 67559235 67558144 0.000000e+00 985.0
19 TraesCS7B01G034900 chr3B 78.534 2497 437 71 411 2869 52924712 52927147 0.000000e+00 1550.0
20 TraesCS7B01G034900 chr3B 76.321 1060 203 39 422 1461 160141473 160142504 9.170000e-145 523.0
21 TraesCS7B01G034900 chr3A 87.554 1149 140 3 1720 2866 20214263 20213116 0.000000e+00 1327.0
22 TraesCS7B01G034900 chr3A 76.321 1060 203 39 422 1461 174278314 174279345 9.170000e-145 523.0
23 TraesCS7B01G034900 chr7A 94.749 419 20 2 1 418 85895381 85895798 0.000000e+00 651.0
24 TraesCS7B01G034900 chr1D 77.778 540 114 6 805 1341 95707054 95706518 7.720000e-86 327.0
25 TraesCS7B01G034900 chr2B 78.832 137 25 4 19 153 780041662 780041528 3.960000e-14 89.8


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 TraesCS7B01G034900 chr7B 34220537 34223424 2887 False 5334.0 5334 100.0000 1 2888 1 chr7B.!!$F1 2887
1 TraesCS7B01G034900 chr7D 2485603 2487318 1715 True 2835.0 2835 96.4560 1169 2888 1 chr7D.!!$R1 1719
2 TraesCS7B01G034900 chr7D 52091139 52092447 1308 False 1808.0 1808 91.6090 1574 2883 1 chr7D.!!$F1 1309
3 TraesCS7B01G034900 chr6B 666826559 666827775 1216 True 1978.0 1978 96.0590 413 1626 1 chr6B.!!$R2 1213
4 TraesCS7B01G034900 chr6B 666803085 666804133 1048 True 1725.0 1725 96.3780 1630 2677 1 chr6B.!!$R1 1047
5 TraesCS7B01G034900 chr6B 63421516 63423914 2398 True 1402.0 1814 87.4115 422 2883 2 chr6B.!!$R3 2461
6 TraesCS7B01G034900 chr1B 551218868 551220118 1250 True 1940.0 1940 94.6440 536 1786 1 chr1B.!!$R2 1250
7 TraesCS7B01G034900 chr1B 551212683 551213791 1108 True 1836.0 1836 96.5730 1781 2888 1 chr1B.!!$R1 1107
8 TraesCS7B01G034900 chr3D 496840800 496842107 1307 True 1831.0 1831 91.9150 1574 2883 1 chr3D.!!$R1 1309
9 TraesCS7B01G034900 chr6D 469085046 469087433 2387 True 1408.5 1825 87.5855 422 2883 2 chr6D.!!$R1 2461
10 TraesCS7B01G034900 chr4B 67556838 67559235 2397 True 1394.0 1803 87.2895 422 2883 2 chr4B.!!$R1 2461
11 TraesCS7B01G034900 chr3B 52924712 52927147 2435 False 1550.0 1550 78.5340 411 2869 1 chr3B.!!$F1 2458
12 TraesCS7B01G034900 chr3B 160141473 160142504 1031 False 523.0 523 76.3210 422 1461 1 chr3B.!!$F2 1039
13 TraesCS7B01G034900 chr3A 20213116 20214263 1147 True 1327.0 1327 87.5540 1720 2866 1 chr3A.!!$R1 1146
14 TraesCS7B01G034900 chr3A 174278314 174279345 1031 False 523.0 523 76.3210 422 1461 1 chr3A.!!$F1 1039
15 TraesCS7B01G034900 chr1D 95706518 95707054 536 True 327.0 327 77.7780 805 1341 1 chr1D.!!$R1 536

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
162 163 0.179018 AGGCGAGCTGTTCCAAGTTT 60.179 50.000 0.0 0.0 0.0 2.66 F
163 164 0.668535 GGCGAGCTGTTCCAAGTTTT 59.331 50.000 0.0 0.0 0.0 2.43 F
164 165 1.067060 GGCGAGCTGTTCCAAGTTTTT 59.933 47.619 0.0 0.0 0.0 1.94 F
1211 1226 1.771854 TCTGGTGCCTGGTAAAGAACA 59.228 47.619 0.0 0.0 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1278 1293 0.402121 AAACCTCTGCAACTCCTCCC 59.598 55.000 0.0 0.0 0.00 4.30 R
1626 1648 2.834549 TCCTGGATTGAAGACCTGAGAC 59.165 50.000 0.0 0.0 0.00 3.36 R
1693 1715 4.445453 TCATGTTCCTGTGCATGATCTAC 58.555 43.478 0.0 0.0 44.29 2.59 R
2638 2663 0.409092 ACCATCAAGCCCAATCACCA 59.591 50.000 0.0 0.0 0.00 4.17 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
26 27 8.559536 ACAATATGTTCGAATATCACATGTTCC 58.440 33.333 10.94 0.00 31.93 3.62
27 28 8.558700 CAATATGTTCGAATATCACATGTTCCA 58.441 33.333 10.94 0.00 31.93 3.53
28 29 8.853077 ATATGTTCGAATATCACATGTTCCAT 57.147 30.769 10.94 2.81 33.19 3.41
29 30 7.572523 ATGTTCGAATATCACATGTTCCATT 57.427 32.000 0.00 0.00 29.74 3.16
30 31 6.784176 TGTTCGAATATCACATGTTCCATTG 58.216 36.000 0.00 0.00 0.00 2.82
31 32 6.374053 TGTTCGAATATCACATGTTCCATTGT 59.626 34.615 0.00 0.00 0.00 2.71
32 33 6.362210 TCGAATATCACATGTTCCATTGTG 57.638 37.500 0.00 0.00 43.61 3.33
37 38 4.566545 TCACATGTTCCATTGTGACAAC 57.433 40.909 0.00 0.00 45.35 3.32
38 39 3.950395 TCACATGTTCCATTGTGACAACA 59.050 39.130 0.00 0.00 45.35 3.33
39 40 4.043750 CACATGTTCCATTGTGACAACAC 58.956 43.478 0.00 0.00 44.74 3.32
40 41 7.431717 TCACATGTTCCATTGTGACAACACG 62.432 44.000 0.00 0.00 45.35 4.49
47 48 3.821995 GTGACAACACGGGCAAGT 58.178 55.556 0.00 0.00 37.28 3.16
48 49 2.103410 GTGACAACACGGGCAAGTT 58.897 52.632 0.00 0.00 37.28 2.66
50 51 0.393132 TGACAACACGGGCAAGTTGA 60.393 50.000 18.49 0.00 46.01 3.18
51 52 0.951558 GACAACACGGGCAAGTTGAT 59.048 50.000 18.49 6.77 46.01 2.57
52 53 2.147958 GACAACACGGGCAAGTTGATA 58.852 47.619 18.49 0.00 46.01 2.15
53 54 2.151202 ACAACACGGGCAAGTTGATAG 58.849 47.619 18.49 0.00 46.01 2.08
54 55 2.224426 ACAACACGGGCAAGTTGATAGA 60.224 45.455 18.49 0.00 46.01 1.98
55 56 2.386661 ACACGGGCAAGTTGATAGAG 57.613 50.000 7.16 0.00 0.00 2.43
56 57 1.066143 ACACGGGCAAGTTGATAGAGG 60.066 52.381 7.16 0.00 0.00 3.69
57 58 1.207089 CACGGGCAAGTTGATAGAGGA 59.793 52.381 7.16 0.00 0.00 3.71
58 59 1.906574 ACGGGCAAGTTGATAGAGGAA 59.093 47.619 7.16 0.00 0.00 3.36
59 60 2.505819 ACGGGCAAGTTGATAGAGGAAT 59.494 45.455 7.16 0.00 0.00 3.01
60 61 3.134458 CGGGCAAGTTGATAGAGGAATC 58.866 50.000 7.16 0.00 0.00 2.52
61 62 3.181461 CGGGCAAGTTGATAGAGGAATCT 60.181 47.826 7.16 0.00 0.00 2.40
62 63 4.384940 GGGCAAGTTGATAGAGGAATCTC 58.615 47.826 7.16 0.00 40.25 2.75
63 64 4.054671 GGCAAGTTGATAGAGGAATCTCG 58.945 47.826 7.16 0.00 44.47 4.04
64 65 4.202161 GGCAAGTTGATAGAGGAATCTCGA 60.202 45.833 7.16 0.00 44.47 4.04
65 66 5.510520 GGCAAGTTGATAGAGGAATCTCGAT 60.511 44.000 7.16 0.00 44.47 3.59
66 67 5.404968 GCAAGTTGATAGAGGAATCTCGATG 59.595 44.000 7.16 0.00 44.47 3.84
67 68 5.720371 AGTTGATAGAGGAATCTCGATGG 57.280 43.478 0.00 0.00 44.47 3.51
68 69 4.526262 AGTTGATAGAGGAATCTCGATGGG 59.474 45.833 0.00 0.00 44.47 4.00
69 70 4.388577 TGATAGAGGAATCTCGATGGGA 57.611 45.455 0.00 0.00 44.47 4.37
70 71 4.740902 TGATAGAGGAATCTCGATGGGAA 58.259 43.478 0.00 0.00 44.47 3.97
71 72 5.336945 TGATAGAGGAATCTCGATGGGAAT 58.663 41.667 0.00 0.00 44.47 3.01
72 73 5.420421 TGATAGAGGAATCTCGATGGGAATC 59.580 44.000 0.00 0.00 44.47 2.52
73 74 2.903135 AGAGGAATCTCGATGGGAATCC 59.097 50.000 0.00 0.00 44.47 3.01
74 75 3.695423 AGAGGAATCTCGATGGGAATCCA 60.695 47.826 0.09 0.00 45.04 3.41
75 76 5.187246 AGAGGAATCTCGATGGGAATCCAA 61.187 45.833 0.09 0.00 44.57 3.53
76 77 6.975407 AGAGGAATCTCGATGGGAATCCAAG 61.975 48.000 0.09 0.00 44.57 3.61
77 78 9.996549 TAGAGGAATCTCGATGGGAATCCAAGT 62.997 44.444 0.09 0.00 44.57 3.16
78 79 9.996549 AGAGGAATCTCGATGGGAATCCAAGTA 62.997 44.444 0.09 0.00 44.57 2.24
99 100 8.454106 CAAGTACTGGAGTTTGAGAATTATTGG 58.546 37.037 0.00 0.00 0.00 3.16
100 101 7.918076 AGTACTGGAGTTTGAGAATTATTGGA 58.082 34.615 0.00 0.00 0.00 3.53
101 102 8.552296 AGTACTGGAGTTTGAGAATTATTGGAT 58.448 33.333 0.00 0.00 0.00 3.41
102 103 9.832445 GTACTGGAGTTTGAGAATTATTGGATA 57.168 33.333 0.00 0.00 0.00 2.59
104 105 9.927081 ACTGGAGTTTGAGAATTATTGGATATT 57.073 29.630 0.00 0.00 0.00 1.28
106 107 9.699410 TGGAGTTTGAGAATTATTGGATATTGT 57.301 29.630 0.00 0.00 0.00 2.71
122 123 9.487790 TTGGATATTGTTTTAAAGAAAGCCTTG 57.512 29.630 0.00 0.00 34.79 3.61
123 124 8.646900 TGGATATTGTTTTAAAGAAAGCCTTGT 58.353 29.630 0.00 0.00 34.79 3.16
124 125 9.140286 GGATATTGTTTTAAAGAAAGCCTTGTC 57.860 33.333 0.00 0.00 34.79 3.18
125 126 9.691362 GATATTGTTTTAAAGAAAGCCTTGTCA 57.309 29.630 0.00 0.00 34.79 3.58
127 128 7.826260 TTGTTTTAAAGAAAGCCTTGTCAAG 57.174 32.000 5.53 5.53 34.79 3.02
128 129 5.810074 TGTTTTAAAGAAAGCCTTGTCAAGC 59.190 36.000 7.09 3.26 34.79 4.01
129 130 5.590530 TTTAAAGAAAGCCTTGTCAAGCA 57.409 34.783 7.09 0.00 34.79 3.91
130 131 5.789643 TTAAAGAAAGCCTTGTCAAGCAT 57.210 34.783 7.09 0.00 34.79 3.79
131 132 3.655276 AAGAAAGCCTTGTCAAGCATG 57.345 42.857 7.09 0.00 32.92 4.06
132 133 2.867624 AGAAAGCCTTGTCAAGCATGA 58.132 42.857 7.09 0.00 0.00 3.07
133 134 2.818432 AGAAAGCCTTGTCAAGCATGAG 59.182 45.455 7.09 0.00 35.88 2.90
134 135 2.283145 AAGCCTTGTCAAGCATGAGT 57.717 45.000 7.09 0.00 35.88 3.41
135 136 2.283145 AGCCTTGTCAAGCATGAGTT 57.717 45.000 7.09 0.00 35.88 3.01
136 137 2.157738 AGCCTTGTCAAGCATGAGTTC 58.842 47.619 7.09 0.00 35.88 3.01
137 138 2.157738 GCCTTGTCAAGCATGAGTTCT 58.842 47.619 7.09 0.00 35.88 3.01
138 139 2.555757 GCCTTGTCAAGCATGAGTTCTT 59.444 45.455 7.09 0.00 35.88 2.52
139 140 3.005155 GCCTTGTCAAGCATGAGTTCTTT 59.995 43.478 7.09 0.00 35.88 2.52
140 141 4.791974 CCTTGTCAAGCATGAGTTCTTTC 58.208 43.478 7.09 0.00 35.88 2.62
141 142 4.320788 CCTTGTCAAGCATGAGTTCTTTCC 60.321 45.833 7.09 0.00 35.88 3.13
142 143 2.807967 TGTCAAGCATGAGTTCTTTCCG 59.192 45.455 0.00 0.00 35.88 4.30
143 144 3.067106 GTCAAGCATGAGTTCTTTCCGA 58.933 45.455 0.00 0.00 35.88 4.55
144 145 3.124297 GTCAAGCATGAGTTCTTTCCGAG 59.876 47.826 0.00 0.00 35.88 4.63
145 146 2.393271 AGCATGAGTTCTTTCCGAGG 57.607 50.000 0.00 0.00 0.00 4.63
146 147 0.729690 GCATGAGTTCTTTCCGAGGC 59.270 55.000 0.00 0.00 0.00 4.70
147 148 1.002366 CATGAGTTCTTTCCGAGGCG 58.998 55.000 0.00 0.00 0.00 5.52
148 149 0.895530 ATGAGTTCTTTCCGAGGCGA 59.104 50.000 0.00 0.00 0.00 5.54
149 150 0.243907 TGAGTTCTTTCCGAGGCGAG 59.756 55.000 0.00 0.00 0.00 5.03
150 151 1.079317 GAGTTCTTTCCGAGGCGAGC 61.079 60.000 0.00 0.00 0.00 5.03
151 152 1.079750 GTTCTTTCCGAGGCGAGCT 60.080 57.895 0.00 0.00 0.00 4.09
152 153 1.079819 TTCTTTCCGAGGCGAGCTG 60.080 57.895 0.00 0.00 0.00 4.24
153 154 1.816863 TTCTTTCCGAGGCGAGCTGT 61.817 55.000 0.00 0.00 0.00 4.40
154 155 1.374758 CTTTCCGAGGCGAGCTGTT 60.375 57.895 0.00 0.00 0.00 3.16
155 156 1.355066 CTTTCCGAGGCGAGCTGTTC 61.355 60.000 0.00 0.00 0.00 3.18
156 157 2.781595 TTTCCGAGGCGAGCTGTTCC 62.782 60.000 0.00 0.00 0.00 3.62
157 158 4.069232 CCGAGGCGAGCTGTTCCA 62.069 66.667 0.00 0.00 0.00 3.53
158 159 2.048222 CGAGGCGAGCTGTTCCAA 60.048 61.111 0.00 0.00 0.00 3.53
159 160 2.097038 CGAGGCGAGCTGTTCCAAG 61.097 63.158 0.00 0.00 0.00 3.61
160 161 1.004440 GAGGCGAGCTGTTCCAAGT 60.004 57.895 0.00 0.00 0.00 3.16
161 162 0.603975 GAGGCGAGCTGTTCCAAGTT 60.604 55.000 0.00 0.00 0.00 2.66
162 163 0.179018 AGGCGAGCTGTTCCAAGTTT 60.179 50.000 0.00 0.00 0.00 2.66
163 164 0.668535 GGCGAGCTGTTCCAAGTTTT 59.331 50.000 0.00 0.00 0.00 2.43
164 165 1.067060 GGCGAGCTGTTCCAAGTTTTT 59.933 47.619 0.00 0.00 0.00 1.94
193 194 3.568443 GCTCTAAGCCTCTAAGGTACCT 58.432 50.000 9.21 9.21 37.80 3.08
194 195 3.570975 GCTCTAAGCCTCTAAGGTACCTC 59.429 52.174 16.64 0.75 37.80 3.85
195 196 4.794334 CTCTAAGCCTCTAAGGTACCTCA 58.206 47.826 16.64 0.00 37.80 3.86
196 197 5.202004 CTCTAAGCCTCTAAGGTACCTCAA 58.798 45.833 16.64 5.78 37.80 3.02
197 198 4.954826 TCTAAGCCTCTAAGGTACCTCAAC 59.045 45.833 16.64 2.08 37.80 3.18
198 199 3.185880 AGCCTCTAAGGTACCTCAACA 57.814 47.619 16.64 0.00 37.80 3.33
199 200 3.725634 AGCCTCTAAGGTACCTCAACAT 58.274 45.455 16.64 0.83 37.80 2.71
200 201 4.880164 AGCCTCTAAGGTACCTCAACATA 58.120 43.478 16.64 2.19 37.80 2.29
201 202 4.650131 AGCCTCTAAGGTACCTCAACATAC 59.350 45.833 16.64 2.75 37.80 2.39
202 203 4.650131 GCCTCTAAGGTACCTCAACATACT 59.350 45.833 16.64 0.00 37.80 2.12
203 204 5.452077 GCCTCTAAGGTACCTCAACATACTG 60.452 48.000 16.64 0.00 37.80 2.74
204 205 5.069251 CCTCTAAGGTACCTCAACATACTGG 59.931 48.000 16.64 0.00 0.00 4.00
205 206 5.586877 TCTAAGGTACCTCAACATACTGGT 58.413 41.667 16.64 0.00 36.66 4.00
206 207 4.553330 AAGGTACCTCAACATACTGGTG 57.447 45.455 16.64 0.00 36.12 4.17
207 208 3.786553 AGGTACCTCAACATACTGGTGA 58.213 45.455 9.21 0.00 42.67 4.02
208 209 4.362677 AGGTACCTCAACATACTGGTGAT 58.637 43.478 9.21 0.00 44.04 3.06
209 210 4.783227 AGGTACCTCAACATACTGGTGATT 59.217 41.667 9.21 0.00 44.04 2.57
210 211 5.104900 AGGTACCTCAACATACTGGTGATTC 60.105 44.000 9.21 0.00 44.04 2.52
211 212 4.222124 ACCTCAACATACTGGTGATTCC 57.778 45.455 0.00 0.00 44.04 3.01
212 213 3.198068 CCTCAACATACTGGTGATTCCG 58.802 50.000 0.00 0.00 44.04 4.30
213 214 3.118775 CCTCAACATACTGGTGATTCCGA 60.119 47.826 0.00 0.00 44.04 4.55
214 215 4.503910 CTCAACATACTGGTGATTCCGAA 58.496 43.478 0.00 0.00 44.04 4.30
215 216 5.097742 TCAACATACTGGTGATTCCGAAT 57.902 39.130 0.00 0.00 39.52 3.34
216 217 6.228616 TCAACATACTGGTGATTCCGAATA 57.771 37.500 0.00 0.00 39.52 1.75
217 218 6.645306 TCAACATACTGGTGATTCCGAATAA 58.355 36.000 0.00 0.00 39.52 1.40
218 219 7.279615 TCAACATACTGGTGATTCCGAATAAT 58.720 34.615 0.00 0.00 39.52 1.28
219 220 7.773224 TCAACATACTGGTGATTCCGAATAATT 59.227 33.333 0.00 0.00 39.52 1.40
220 221 8.405531 CAACATACTGGTGATTCCGAATAATTT 58.594 33.333 0.00 0.00 37.20 1.82
221 222 7.930217 ACATACTGGTGATTCCGAATAATTTG 58.070 34.615 0.00 0.00 39.52 2.32
222 223 7.556275 ACATACTGGTGATTCCGAATAATTTGT 59.444 33.333 0.00 0.00 39.52 2.83
223 224 6.436843 ACTGGTGATTCCGAATAATTTGTC 57.563 37.500 0.00 0.00 39.52 3.18
224 225 5.943416 ACTGGTGATTCCGAATAATTTGTCA 59.057 36.000 0.00 0.00 39.52 3.58
225 226 6.432783 ACTGGTGATTCCGAATAATTTGTCAA 59.567 34.615 0.00 0.00 39.52 3.18
226 227 6.851609 TGGTGATTCCGAATAATTTGTCAAG 58.148 36.000 0.00 0.00 39.52 3.02
227 228 5.743872 GGTGATTCCGAATAATTTGTCAAGC 59.256 40.000 0.00 0.00 0.00 4.01
228 229 6.321717 GTGATTCCGAATAATTTGTCAAGCA 58.678 36.000 0.00 0.00 0.00 3.91
229 230 6.974622 GTGATTCCGAATAATTTGTCAAGCAT 59.025 34.615 0.00 0.00 0.00 3.79
230 231 6.974048 TGATTCCGAATAATTTGTCAAGCATG 59.026 34.615 0.00 0.00 0.00 4.06
231 232 6.507958 TTCCGAATAATTTGTCAAGCATGA 57.492 33.333 0.00 0.00 0.00 3.07
232 233 6.122850 TCCGAATAATTTGTCAAGCATGAG 57.877 37.500 0.00 0.00 35.88 2.90
233 234 5.647658 TCCGAATAATTTGTCAAGCATGAGT 59.352 36.000 0.00 0.00 35.88 3.41
234 235 6.150976 TCCGAATAATTTGTCAAGCATGAGTT 59.849 34.615 0.00 0.00 35.88 3.01
235 236 6.470235 CCGAATAATTTGTCAAGCATGAGTTC 59.530 38.462 0.00 0.00 35.88 3.01
236 237 7.246311 CGAATAATTTGTCAAGCATGAGTTCT 58.754 34.615 0.00 0.00 35.88 3.01
237 238 7.752239 CGAATAATTTGTCAAGCATGAGTTCTT 59.248 33.333 0.00 0.00 35.88 2.52
238 239 9.415544 GAATAATTTGTCAAGCATGAGTTCTTT 57.584 29.630 0.00 0.00 35.88 2.52
239 240 8.976986 ATAATTTGTCAAGCATGAGTTCTTTC 57.023 30.769 0.00 0.00 35.88 2.62
240 241 4.836125 TTGTCAAGCATGAGTTCTTTCC 57.164 40.909 0.00 0.00 35.88 3.13
241 242 3.819368 TGTCAAGCATGAGTTCTTTCCA 58.181 40.909 0.00 0.00 35.88 3.53
242 243 4.401022 TGTCAAGCATGAGTTCTTTCCAT 58.599 39.130 0.00 0.00 35.88 3.41
243 244 4.456911 TGTCAAGCATGAGTTCTTTCCATC 59.543 41.667 0.00 0.00 35.88 3.51
244 245 4.699257 GTCAAGCATGAGTTCTTTCCATCT 59.301 41.667 0.00 0.00 35.88 2.90
245 246 5.182760 GTCAAGCATGAGTTCTTTCCATCTT 59.817 40.000 0.00 0.00 35.88 2.40
246 247 5.771666 TCAAGCATGAGTTCTTTCCATCTTT 59.228 36.000 0.00 0.00 0.00 2.52
247 248 6.942005 TCAAGCATGAGTTCTTTCCATCTTTA 59.058 34.615 0.00 0.00 0.00 1.85
248 249 7.613022 TCAAGCATGAGTTCTTTCCATCTTTAT 59.387 33.333 0.00 0.00 0.00 1.40
249 250 7.951347 AGCATGAGTTCTTTCCATCTTTATT 57.049 32.000 0.00 0.00 0.00 1.40
250 251 7.769220 AGCATGAGTTCTTTCCATCTTTATTG 58.231 34.615 0.00 0.00 0.00 1.90
251 252 7.395489 AGCATGAGTTCTTTCCATCTTTATTGT 59.605 33.333 0.00 0.00 0.00 2.71
252 253 8.031277 GCATGAGTTCTTTCCATCTTTATTGTT 58.969 33.333 0.00 0.00 0.00 2.83
253 254 9.918630 CATGAGTTCTTTCCATCTTTATTGTTT 57.081 29.630 0.00 0.00 0.00 2.83
255 256 9.354673 TGAGTTCTTTCCATCTTTATTGTTTCT 57.645 29.630 0.00 0.00 0.00 2.52
256 257 9.833182 GAGTTCTTTCCATCTTTATTGTTTCTC 57.167 33.333 0.00 0.00 0.00 2.87
257 258 9.579932 AGTTCTTTCCATCTTTATTGTTTCTCT 57.420 29.630 0.00 0.00 0.00 3.10
258 259 9.833182 GTTCTTTCCATCTTTATTGTTTCTCTC 57.167 33.333 0.00 0.00 0.00 3.20
259 260 8.567285 TCTTTCCATCTTTATTGTTTCTCTCC 57.433 34.615 0.00 0.00 0.00 3.71
260 261 8.386264 TCTTTCCATCTTTATTGTTTCTCTCCT 58.614 33.333 0.00 0.00 0.00 3.69
261 262 8.940397 TTTCCATCTTTATTGTTTCTCTCCTT 57.060 30.769 0.00 0.00 0.00 3.36
262 263 8.940397 TTCCATCTTTATTGTTTCTCTCCTTT 57.060 30.769 0.00 0.00 0.00 3.11
264 265 9.449719 TCCATCTTTATTGTTTCTCTCCTTTAC 57.550 33.333 0.00 0.00 0.00 2.01
265 266 9.231297 CCATCTTTATTGTTTCTCTCCTTTACA 57.769 33.333 0.00 0.00 0.00 2.41
267 268 8.848474 TCTTTATTGTTTCTCTCCTTTACAGG 57.152 34.615 0.00 0.00 42.50 4.00
269 270 8.617290 TTTATTGTTTCTCTCCTTTACAGGAC 57.383 34.615 0.00 0.00 45.20 3.85
270 271 5.623956 TTGTTTCTCTCCTTTACAGGACA 57.376 39.130 0.00 0.00 45.20 4.02
271 272 5.825593 TGTTTCTCTCCTTTACAGGACAT 57.174 39.130 0.00 0.00 45.20 3.06
272 273 5.551233 TGTTTCTCTCCTTTACAGGACATG 58.449 41.667 0.00 0.00 45.20 3.21
273 274 5.071788 TGTTTCTCTCCTTTACAGGACATGT 59.928 40.000 0.00 0.00 45.20 3.21
274 275 5.825593 TTCTCTCCTTTACAGGACATGTT 57.174 39.130 0.00 0.00 45.20 2.71
275 276 5.407407 TCTCTCCTTTACAGGACATGTTC 57.593 43.478 0.00 0.00 45.20 3.18
276 277 4.223032 TCTCTCCTTTACAGGACATGTTCC 59.777 45.833 0.00 2.84 45.20 3.62
288 289 5.913137 GGACATGTTCCATACAAATTGGA 57.087 39.130 0.00 0.00 45.10 3.53
289 290 6.469782 GGACATGTTCCATACAAATTGGAT 57.530 37.500 0.00 0.00 45.10 3.41
290 291 6.877236 GGACATGTTCCATACAAATTGGATT 58.123 36.000 0.00 0.00 45.10 3.01
291 292 7.330262 GGACATGTTCCATACAAATTGGATTT 58.670 34.615 0.00 0.00 45.10 2.17
292 293 7.823799 GGACATGTTCCATACAAATTGGATTTT 59.176 33.333 0.00 0.00 45.10 1.82
293 294 9.868277 GACATGTTCCATACAAATTGGATTTTA 57.132 29.630 0.00 0.00 42.69 1.52
294 295 9.651913 ACATGTTCCATACAAATTGGATTTTAC 57.348 29.630 0.00 0.00 42.69 2.01
295 296 9.097257 CATGTTCCATACAAATTGGATTTTACC 57.903 33.333 0.00 0.00 42.69 2.85
296 297 8.429237 TGTTCCATACAAATTGGATTTTACCT 57.571 30.769 0.00 0.00 42.69 3.08
297 298 8.875168 TGTTCCATACAAATTGGATTTTACCTT 58.125 29.630 0.00 0.00 42.69 3.50
298 299 9.719355 GTTCCATACAAATTGGATTTTACCTTT 57.281 29.630 0.00 0.00 42.69 3.11
331 332 9.862371 ACAGTTTCAGAATACTAGTTACATGAG 57.138 33.333 0.00 0.00 0.00 2.90
332 333 9.862371 CAGTTTCAGAATACTAGTTACATGAGT 57.138 33.333 0.00 0.00 0.00 3.41
361 362 7.448748 AACCACTAAGAATTTTTATCGCAGT 57.551 32.000 0.00 0.00 0.00 4.40
362 363 7.073342 ACCACTAAGAATTTTTATCGCAGTC 57.927 36.000 0.00 0.00 0.00 3.51
363 364 6.879458 ACCACTAAGAATTTTTATCGCAGTCT 59.121 34.615 0.00 0.00 0.00 3.24
364 365 7.148407 ACCACTAAGAATTTTTATCGCAGTCTG 60.148 37.037 0.00 0.00 0.00 3.51
365 366 7.182761 CACTAAGAATTTTTATCGCAGTCTGG 58.817 38.462 1.14 0.00 0.00 3.86
366 367 5.567138 AAGAATTTTTATCGCAGTCTGGG 57.433 39.130 10.59 10.59 0.00 4.45
367 368 4.589908 AGAATTTTTATCGCAGTCTGGGT 58.410 39.130 15.83 6.94 0.00 4.51
368 369 5.741011 AGAATTTTTATCGCAGTCTGGGTA 58.259 37.500 15.83 6.07 0.00 3.69
369 370 6.357367 AGAATTTTTATCGCAGTCTGGGTAT 58.643 36.000 15.83 10.71 0.00 2.73
370 371 6.828785 AGAATTTTTATCGCAGTCTGGGTATT 59.171 34.615 15.83 6.03 0.00 1.89
371 372 7.990886 AGAATTTTTATCGCAGTCTGGGTATTA 59.009 33.333 15.83 5.19 0.00 0.98
372 373 8.514330 AATTTTTATCGCAGTCTGGGTATTAA 57.486 30.769 15.83 10.04 0.00 1.40
373 374 6.913873 TTTTATCGCAGTCTGGGTATTAAC 57.086 37.500 15.83 0.00 0.00 2.01
374 375 5.601583 TTATCGCAGTCTGGGTATTAACA 57.398 39.130 15.83 0.00 0.00 2.41
375 376 4.689612 ATCGCAGTCTGGGTATTAACAT 57.310 40.909 15.83 0.00 0.00 2.71
376 377 3.792401 TCGCAGTCTGGGTATTAACATG 58.208 45.455 15.83 0.00 0.00 3.21
377 378 3.196901 TCGCAGTCTGGGTATTAACATGT 59.803 43.478 15.83 0.00 0.00 3.21
378 379 3.555956 CGCAGTCTGGGTATTAACATGTC 59.444 47.826 8.71 0.00 0.00 3.06
379 380 4.513442 GCAGTCTGGGTATTAACATGTCA 58.487 43.478 0.00 0.00 0.00 3.58
380 381 4.941263 GCAGTCTGGGTATTAACATGTCAA 59.059 41.667 0.00 0.00 0.00 3.18
381 382 5.163754 GCAGTCTGGGTATTAACATGTCAAC 60.164 44.000 0.00 0.00 0.00 3.18
382 383 5.937540 CAGTCTGGGTATTAACATGTCAACA 59.062 40.000 0.00 0.00 0.00 3.33
383 384 6.599244 CAGTCTGGGTATTAACATGTCAACAT 59.401 38.462 0.00 0.00 36.96 2.71
384 385 7.121168 CAGTCTGGGTATTAACATGTCAACATT 59.879 37.037 0.00 0.00 33.61 2.71
385 386 8.325787 AGTCTGGGTATTAACATGTCAACATTA 58.674 33.333 0.00 0.00 33.61 1.90
386 387 8.395633 GTCTGGGTATTAACATGTCAACATTAC 58.604 37.037 0.00 0.00 33.61 1.89
387 388 8.103935 TCTGGGTATTAACATGTCAACATTACA 58.896 33.333 0.00 0.00 33.61 2.41
388 389 8.815565 TGGGTATTAACATGTCAACATTACAT 57.184 30.769 0.00 0.00 38.08 2.29
389 390 9.907229 TGGGTATTAACATGTCAACATTACATA 57.093 29.630 0.00 0.00 35.82 2.29
476 478 5.825593 AGTCTGAAAATGACCCTGAACTA 57.174 39.130 0.00 0.00 35.21 2.24
514 516 2.043664 TCACTCTGTCCTCTCCAATCCT 59.956 50.000 0.00 0.00 0.00 3.24
635 647 1.823899 GGCGCTCATAAACCCCAGG 60.824 63.158 7.64 0.00 0.00 4.45
666 678 2.443016 CCTCCCCTGTCTCTCCCG 60.443 72.222 0.00 0.00 0.00 5.14
801 814 3.508952 AATCCCCTTCCTCCTTCTGTA 57.491 47.619 0.00 0.00 0.00 2.74
880 894 7.780745 TGAGTAGGAAAATTTGTGGTTTTAGGA 59.219 33.333 0.00 0.00 0.00 2.94
989 1004 1.813786 GGCAATGCAGGTTACGGTTTA 59.186 47.619 7.79 0.00 0.00 2.01
1048 1063 5.691754 GTGAGGTTTCATTTCAATGGTCAAC 59.308 40.000 0.00 1.94 37.03 3.18
1211 1226 1.771854 TCTGGTGCCTGGTAAAGAACA 59.228 47.619 0.00 0.00 0.00 3.18
1229 1244 5.010282 AGAACAAGTGGATGGGTTGTTATC 58.990 41.667 0.00 0.00 42.91 1.75
1278 1293 8.748380 TGAAGATGTCTGAATATATAACTGCG 57.252 34.615 0.00 0.00 0.00 5.18
1482 1497 5.694995 TCCTTGACTGGAACTGAGAATTTT 58.305 37.500 0.00 0.00 32.39 1.82
1547 1562 5.222631 CAGCCCTACAAAACAGAATTTCAC 58.777 41.667 0.00 0.00 0.00 3.18
1605 1624 3.438087 AGAGTTCTCAATTGCATGTTCCG 59.562 43.478 0.00 0.00 0.00 4.30
1626 1648 3.245284 CGGAAGATTACATTACTGGCACG 59.755 47.826 0.00 0.00 0.00 5.34
1693 1715 5.048224 GCTCATCAACCAATTATCCATCAGG 60.048 44.000 0.00 0.00 0.00 3.86
1886 1908 2.439507 GGTGGGCTGAGAGAAATCCATA 59.560 50.000 0.00 0.00 0.00 2.74
1953 1975 8.691797 GTTATAGGAGAAGATCACTTTGACTCT 58.308 37.037 0.00 0.00 36.39 3.24
2176 2199 3.976654 TCAGAGGATGAAAGGATTAGGGG 59.023 47.826 0.00 0.00 34.02 4.79
2340 2363 5.667539 TGCTAGAAGGTATGAGCATATCC 57.332 43.478 0.00 0.50 39.93 2.59
2472 2495 4.697352 CACAGAAGTTGTTAGAAGGGATGG 59.303 45.833 0.00 0.00 38.16 3.51
2621 2646 6.339587 TGTTTTAGTGCTATGAAAAAGGGG 57.660 37.500 0.00 0.00 0.00 4.79
2638 2663 4.881157 AGGGGGTTAAAGCATGTAGAAT 57.119 40.909 0.00 0.00 0.00 2.40
2788 2813 8.017418 ACAGAAAGTTGGAAATGGTTTATTGA 57.983 30.769 0.00 0.00 0.00 2.57
2791 2816 6.418057 AAGTTGGAAATGGTTTATTGAGCA 57.582 33.333 0.00 0.00 0.00 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.559536 GGAACATGTGATATTCGAACATATTGT 58.440 33.333 0.00 0.00 33.31 2.71
1 2 8.558700 TGGAACATGTGATATTCGAACATATTG 58.441 33.333 0.00 0.00 33.31 1.90
2 3 8.675705 TGGAACATGTGATATTCGAACATATT 57.324 30.769 0.00 0.00 33.31 1.28
16 17 4.202000 GTGTTGTCACAATGGAACATGTGA 60.202 41.667 0.00 4.60 46.31 3.58
17 18 4.043750 GTGTTGTCACAATGGAACATGTG 58.956 43.478 0.00 0.00 43.39 3.21
18 19 3.243035 CGTGTTGTCACAATGGAACATGT 60.243 43.478 0.00 0.00 43.83 3.21
19 20 3.299162 CGTGTTGTCACAATGGAACATG 58.701 45.455 0.00 0.00 43.83 3.21
20 21 2.293122 CCGTGTTGTCACAATGGAACAT 59.707 45.455 0.00 0.00 43.83 2.71
21 22 1.673400 CCGTGTTGTCACAATGGAACA 59.327 47.619 0.00 0.00 43.94 3.18
22 23 1.001815 CCCGTGTTGTCACAATGGAAC 60.002 52.381 7.74 0.00 44.02 3.62
23 24 1.313772 CCCGTGTTGTCACAATGGAA 58.686 50.000 7.74 0.00 44.02 3.53
24 25 1.169661 GCCCGTGTTGTCACAATGGA 61.170 55.000 7.74 0.00 44.02 3.41
25 26 1.285641 GCCCGTGTTGTCACAATGG 59.714 57.895 0.00 0.00 44.02 3.16
26 27 0.383590 TTGCCCGTGTTGTCACAATG 59.616 50.000 0.00 0.00 44.02 2.82
27 28 0.667993 CTTGCCCGTGTTGTCACAAT 59.332 50.000 0.00 0.00 44.02 2.71
28 29 0.678366 ACTTGCCCGTGTTGTCACAA 60.678 50.000 0.00 0.00 44.02 3.33
29 30 0.678366 AACTTGCCCGTGTTGTCACA 60.678 50.000 0.00 0.00 44.02 3.58
30 31 0.248458 CAACTTGCCCGTGTTGTCAC 60.248 55.000 0.00 0.00 38.81 3.67
31 32 0.393132 TCAACTTGCCCGTGTTGTCA 60.393 50.000 0.00 0.00 42.71 3.58
32 33 0.951558 ATCAACTTGCCCGTGTTGTC 59.048 50.000 0.00 0.00 42.71 3.18
33 34 2.151202 CTATCAACTTGCCCGTGTTGT 58.849 47.619 0.00 0.00 42.71 3.32
34 35 2.416547 CTCTATCAACTTGCCCGTGTTG 59.583 50.000 0.00 0.00 43.28 3.33
35 36 2.615493 CCTCTATCAACTTGCCCGTGTT 60.615 50.000 0.00 0.00 0.00 3.32
36 37 1.066143 CCTCTATCAACTTGCCCGTGT 60.066 52.381 0.00 0.00 0.00 4.49
37 38 1.207089 TCCTCTATCAACTTGCCCGTG 59.793 52.381 0.00 0.00 0.00 4.94
38 39 1.568504 TCCTCTATCAACTTGCCCGT 58.431 50.000 0.00 0.00 0.00 5.28
39 40 2.691409 TTCCTCTATCAACTTGCCCG 57.309 50.000 0.00 0.00 0.00 6.13
40 41 4.384940 GAGATTCCTCTATCAACTTGCCC 58.615 47.826 0.00 0.00 36.50 5.36
41 42 4.054671 CGAGATTCCTCTATCAACTTGCC 58.945 47.826 0.00 0.00 37.28 4.52
42 43 4.938080 TCGAGATTCCTCTATCAACTTGC 58.062 43.478 0.00 0.00 37.28 4.01
43 44 5.925397 CCATCGAGATTCCTCTATCAACTTG 59.075 44.000 0.00 0.00 37.28 3.16
44 45 5.011533 CCCATCGAGATTCCTCTATCAACTT 59.988 44.000 0.00 0.00 37.28 2.66
45 46 4.526262 CCCATCGAGATTCCTCTATCAACT 59.474 45.833 0.00 0.00 37.28 3.16
46 47 4.524714 TCCCATCGAGATTCCTCTATCAAC 59.475 45.833 0.00 0.00 37.28 3.18
47 48 4.740902 TCCCATCGAGATTCCTCTATCAA 58.259 43.478 0.00 0.00 37.28 2.57
48 49 4.388577 TCCCATCGAGATTCCTCTATCA 57.611 45.455 0.00 0.00 37.28 2.15
49 50 5.163457 GGATTCCCATCGAGATTCCTCTATC 60.163 48.000 6.77 0.00 37.28 2.08
50 51 4.714308 GGATTCCCATCGAGATTCCTCTAT 59.286 45.833 6.77 0.00 37.28 1.98
51 52 4.090090 GGATTCCCATCGAGATTCCTCTA 58.910 47.826 6.77 0.00 37.28 2.43
52 53 2.903135 GGATTCCCATCGAGATTCCTCT 59.097 50.000 6.77 0.00 37.28 3.69
53 54 2.634940 TGGATTCCCATCGAGATTCCTC 59.365 50.000 12.57 0.00 37.58 3.71
54 55 2.694397 TGGATTCCCATCGAGATTCCT 58.306 47.619 12.57 0.00 37.58 3.36
55 56 3.181450 ACTTGGATTCCCATCGAGATTCC 60.181 47.826 0.00 6.99 43.12 3.01
56 57 4.078639 ACTTGGATTCCCATCGAGATTC 57.921 45.455 0.00 0.00 43.12 2.52
57 58 4.656112 AGTACTTGGATTCCCATCGAGATT 59.344 41.667 0.00 0.00 43.12 2.40
58 59 4.039730 CAGTACTTGGATTCCCATCGAGAT 59.960 45.833 0.00 0.00 43.12 2.75
59 60 3.384789 CAGTACTTGGATTCCCATCGAGA 59.615 47.826 0.00 0.00 43.12 4.04
60 61 3.722147 CAGTACTTGGATTCCCATCGAG 58.278 50.000 0.00 0.00 43.12 4.04
61 62 3.819564 CAGTACTTGGATTCCCATCGA 57.180 47.619 0.00 0.00 43.12 3.59
73 74 8.454106 CCAATAATTCTCAAACTCCAGTACTTG 58.546 37.037 0.00 0.00 0.00 3.16
74 75 8.383175 TCCAATAATTCTCAAACTCCAGTACTT 58.617 33.333 0.00 0.00 0.00 2.24
75 76 7.918076 TCCAATAATTCTCAAACTCCAGTACT 58.082 34.615 0.00 0.00 0.00 2.73
76 77 8.738645 ATCCAATAATTCTCAAACTCCAGTAC 57.261 34.615 0.00 0.00 0.00 2.73
78 79 9.927081 AATATCCAATAATTCTCAAACTCCAGT 57.073 29.630 0.00 0.00 0.00 4.00
80 81 9.699410 ACAATATCCAATAATTCTCAAACTCCA 57.301 29.630 0.00 0.00 0.00 3.86
96 97 9.487790 CAAGGCTTTCTTTAAAACAATATCCAA 57.512 29.630 0.00 0.00 32.41 3.53
97 98 8.646900 ACAAGGCTTTCTTTAAAACAATATCCA 58.353 29.630 0.00 0.00 32.41 3.41
98 99 9.140286 GACAAGGCTTTCTTTAAAACAATATCC 57.860 33.333 0.00 0.00 32.41 2.59
99 100 9.691362 TGACAAGGCTTTCTTTAAAACAATATC 57.309 29.630 0.00 0.00 32.41 1.63
101 102 9.528018 CTTGACAAGGCTTTCTTTAAAACAATA 57.472 29.630 7.35 0.00 32.41 1.90
102 103 7.011389 GCTTGACAAGGCTTTCTTTAAAACAAT 59.989 33.333 16.80 0.00 32.41 2.71
103 104 6.312672 GCTTGACAAGGCTTTCTTTAAAACAA 59.687 34.615 16.80 0.00 32.41 2.83
104 105 5.810074 GCTTGACAAGGCTTTCTTTAAAACA 59.190 36.000 16.80 0.00 32.41 2.83
105 106 5.810074 TGCTTGACAAGGCTTTCTTTAAAAC 59.190 36.000 16.80 0.00 32.41 2.43
106 107 5.971763 TGCTTGACAAGGCTTTCTTTAAAA 58.028 33.333 16.80 0.00 32.41 1.52
107 108 5.590530 TGCTTGACAAGGCTTTCTTTAAA 57.409 34.783 16.80 0.00 32.41 1.52
108 109 5.301551 TCATGCTTGACAAGGCTTTCTTTAA 59.698 36.000 16.80 0.00 32.41 1.52
109 110 4.826733 TCATGCTTGACAAGGCTTTCTTTA 59.173 37.500 16.80 0.00 32.41 1.85
110 111 3.638160 TCATGCTTGACAAGGCTTTCTTT 59.362 39.130 16.80 0.00 32.41 2.52
111 112 3.225104 TCATGCTTGACAAGGCTTTCTT 58.775 40.909 16.80 0.00 35.79 2.52
112 113 2.818432 CTCATGCTTGACAAGGCTTTCT 59.182 45.455 16.80 0.00 0.00 2.52
113 114 2.555757 ACTCATGCTTGACAAGGCTTTC 59.444 45.455 16.80 0.00 0.00 2.62
114 115 2.590821 ACTCATGCTTGACAAGGCTTT 58.409 42.857 16.80 0.00 0.00 3.51
115 116 2.283145 ACTCATGCTTGACAAGGCTT 57.717 45.000 16.80 0.00 0.00 4.35
116 117 2.157738 GAACTCATGCTTGACAAGGCT 58.842 47.619 16.80 0.00 0.00 4.58
117 118 2.157738 AGAACTCATGCTTGACAAGGC 58.842 47.619 16.80 9.52 0.00 4.35
118 119 4.320788 GGAAAGAACTCATGCTTGACAAGG 60.321 45.833 16.80 2.37 0.00 3.61
119 120 4.612259 CGGAAAGAACTCATGCTTGACAAG 60.612 45.833 11.02 11.02 0.00 3.16
120 121 3.250762 CGGAAAGAACTCATGCTTGACAA 59.749 43.478 0.00 0.00 0.00 3.18
121 122 2.807967 CGGAAAGAACTCATGCTTGACA 59.192 45.455 0.00 0.00 0.00 3.58
122 123 3.067106 TCGGAAAGAACTCATGCTTGAC 58.933 45.455 0.00 0.00 0.00 3.18
123 124 3.329386 CTCGGAAAGAACTCATGCTTGA 58.671 45.455 1.92 1.92 0.00 3.02
124 125 2.417933 CCTCGGAAAGAACTCATGCTTG 59.582 50.000 0.00 0.00 0.00 4.01
125 126 2.704572 CCTCGGAAAGAACTCATGCTT 58.295 47.619 0.00 0.00 0.00 3.91
126 127 1.677217 GCCTCGGAAAGAACTCATGCT 60.677 52.381 0.00 0.00 0.00 3.79
127 128 0.729690 GCCTCGGAAAGAACTCATGC 59.270 55.000 0.00 0.00 0.00 4.06
128 129 1.002366 CGCCTCGGAAAGAACTCATG 58.998 55.000 0.00 0.00 0.00 3.07
129 130 0.895530 TCGCCTCGGAAAGAACTCAT 59.104 50.000 0.00 0.00 0.00 2.90
130 131 0.243907 CTCGCCTCGGAAAGAACTCA 59.756 55.000 0.00 0.00 0.00 3.41
131 132 1.079317 GCTCGCCTCGGAAAGAACTC 61.079 60.000 0.00 0.00 0.00 3.01
132 133 1.079750 GCTCGCCTCGGAAAGAACT 60.080 57.895 0.00 0.00 0.00 3.01
133 134 1.079750 AGCTCGCCTCGGAAAGAAC 60.080 57.895 0.00 0.00 0.00 3.01
134 135 1.079819 CAGCTCGCCTCGGAAAGAA 60.080 57.895 0.00 0.00 0.00 2.52
135 136 1.816863 AACAGCTCGCCTCGGAAAGA 61.817 55.000 0.00 0.00 0.00 2.52
136 137 1.355066 GAACAGCTCGCCTCGGAAAG 61.355 60.000 0.00 0.00 0.00 2.62
137 138 1.374252 GAACAGCTCGCCTCGGAAA 60.374 57.895 0.00 0.00 0.00 3.13
138 139 2.261671 GAACAGCTCGCCTCGGAA 59.738 61.111 0.00 0.00 0.00 4.30
139 140 3.760035 GGAACAGCTCGCCTCGGA 61.760 66.667 0.00 0.00 0.00 4.55
140 141 3.589654 TTGGAACAGCTCGCCTCGG 62.590 63.158 0.00 0.00 42.39 4.63
141 142 2.048222 TTGGAACAGCTCGCCTCG 60.048 61.111 0.00 0.00 42.39 4.63
142 143 0.603975 AACTTGGAACAGCTCGCCTC 60.604 55.000 0.00 0.00 42.39 4.70
143 144 0.179018 AAACTTGGAACAGCTCGCCT 60.179 50.000 0.00 0.00 42.39 5.52
144 145 0.668535 AAAACTTGGAACAGCTCGCC 59.331 50.000 0.00 0.00 42.39 5.54
145 146 2.492019 AAAAACTTGGAACAGCTCGC 57.508 45.000 0.00 0.00 42.39 5.03
172 173 3.568443 AGGTACCTTAGAGGCTTAGAGC 58.432 50.000 9.21 0.00 39.63 4.09
173 174 4.794334 TGAGGTACCTTAGAGGCTTAGAG 58.206 47.826 17.53 0.00 39.63 2.43
174 175 4.875578 TGAGGTACCTTAGAGGCTTAGA 57.124 45.455 17.53 0.00 39.63 2.10
175 176 4.710375 TGTTGAGGTACCTTAGAGGCTTAG 59.290 45.833 17.53 0.00 39.63 2.18
176 177 4.680407 TGTTGAGGTACCTTAGAGGCTTA 58.320 43.478 17.53 0.00 39.63 3.09
177 178 3.517612 TGTTGAGGTACCTTAGAGGCTT 58.482 45.455 17.53 0.00 39.63 4.35
178 179 3.185880 TGTTGAGGTACCTTAGAGGCT 57.814 47.619 17.53 0.00 39.63 4.58
179 180 4.650131 AGTATGTTGAGGTACCTTAGAGGC 59.350 45.833 17.53 2.10 39.63 4.70
180 181 5.069251 CCAGTATGTTGAGGTACCTTAGAGG 59.931 48.000 17.53 5.03 42.49 3.69
181 182 5.657302 ACCAGTATGTTGAGGTACCTTAGAG 59.343 44.000 17.53 0.00 31.32 2.43
182 183 5.421056 CACCAGTATGTTGAGGTACCTTAGA 59.579 44.000 17.53 6.58 32.01 2.10
183 184 5.421056 TCACCAGTATGTTGAGGTACCTTAG 59.579 44.000 17.53 0.00 32.01 2.18
184 185 5.335261 TCACCAGTATGTTGAGGTACCTTA 58.665 41.667 17.53 9.55 32.01 2.69
185 186 4.164981 TCACCAGTATGTTGAGGTACCTT 58.835 43.478 17.53 1.47 32.01 3.50
186 187 3.786553 TCACCAGTATGTTGAGGTACCT 58.213 45.455 16.26 16.26 32.01 3.08
187 188 4.755266 ATCACCAGTATGTTGAGGTACC 57.245 45.455 2.73 2.73 32.01 3.34
188 189 5.116882 GGAATCACCAGTATGTTGAGGTAC 58.883 45.833 0.00 0.00 38.79 3.34
189 190 4.142026 CGGAATCACCAGTATGTTGAGGTA 60.142 45.833 0.00 0.00 38.90 3.08
190 191 3.369471 CGGAATCACCAGTATGTTGAGGT 60.369 47.826 0.00 0.00 38.90 3.85
191 192 3.118775 TCGGAATCACCAGTATGTTGAGG 60.119 47.826 0.00 0.00 38.90 3.86
192 193 4.123497 TCGGAATCACCAGTATGTTGAG 57.877 45.455 0.00 0.00 38.90 3.02
193 194 4.545208 TTCGGAATCACCAGTATGTTGA 57.455 40.909 0.00 0.00 38.90 3.18
194 195 6.918892 TTATTCGGAATCACCAGTATGTTG 57.081 37.500 6.49 0.00 38.90 3.33
195 196 8.405531 CAAATTATTCGGAATCACCAGTATGTT 58.594 33.333 6.49 0.00 38.90 2.71
196 197 7.556275 ACAAATTATTCGGAATCACCAGTATGT 59.444 33.333 6.49 1.28 38.90 2.29
197 198 7.930217 ACAAATTATTCGGAATCACCAGTATG 58.070 34.615 6.49 0.73 38.90 2.39
198 199 7.773224 TGACAAATTATTCGGAATCACCAGTAT 59.227 33.333 6.49 0.00 38.90 2.12
199 200 7.106890 TGACAAATTATTCGGAATCACCAGTA 58.893 34.615 6.49 0.00 38.90 2.74
200 201 5.943416 TGACAAATTATTCGGAATCACCAGT 59.057 36.000 6.49 2.48 38.90 4.00
201 202 6.435430 TGACAAATTATTCGGAATCACCAG 57.565 37.500 6.49 0.00 38.90 4.00
202 203 6.624861 GCTTGACAAATTATTCGGAATCACCA 60.625 38.462 6.49 0.00 38.90 4.17
203 204 5.743872 GCTTGACAAATTATTCGGAATCACC 59.256 40.000 6.49 0.00 0.00 4.02
204 205 6.321717 TGCTTGACAAATTATTCGGAATCAC 58.678 36.000 6.49 0.00 0.00 3.06
205 206 6.507958 TGCTTGACAAATTATTCGGAATCA 57.492 33.333 6.49 0.00 0.00 2.57
206 207 7.195646 TCATGCTTGACAAATTATTCGGAATC 58.804 34.615 6.49 0.00 0.00 2.52
207 208 7.099266 TCATGCTTGACAAATTATTCGGAAT 57.901 32.000 8.49 8.49 0.00 3.01
208 209 6.150976 ACTCATGCTTGACAAATTATTCGGAA 59.849 34.615 0.00 0.00 0.00 4.30
209 210 5.647658 ACTCATGCTTGACAAATTATTCGGA 59.352 36.000 0.00 0.00 0.00 4.55
210 211 5.883661 ACTCATGCTTGACAAATTATTCGG 58.116 37.500 0.00 0.00 0.00 4.30
211 212 7.246311 AGAACTCATGCTTGACAAATTATTCG 58.754 34.615 0.00 0.00 0.00 3.34
212 213 8.976986 AAGAACTCATGCTTGACAAATTATTC 57.023 30.769 0.00 0.00 0.00 1.75
213 214 9.415544 GAAAGAACTCATGCTTGACAAATTATT 57.584 29.630 0.00 0.00 0.00 1.40
214 215 8.031277 GGAAAGAACTCATGCTTGACAAATTAT 58.969 33.333 0.00 0.00 0.00 1.28
215 216 7.014134 TGGAAAGAACTCATGCTTGACAAATTA 59.986 33.333 0.00 0.00 0.00 1.40
216 217 6.183360 TGGAAAGAACTCATGCTTGACAAATT 60.183 34.615 0.00 0.00 0.00 1.82
217 218 5.302568 TGGAAAGAACTCATGCTTGACAAAT 59.697 36.000 0.00 0.00 0.00 2.32
218 219 4.644234 TGGAAAGAACTCATGCTTGACAAA 59.356 37.500 0.00 0.00 0.00 2.83
219 220 4.206375 TGGAAAGAACTCATGCTTGACAA 58.794 39.130 0.00 0.00 0.00 3.18
220 221 3.819368 TGGAAAGAACTCATGCTTGACA 58.181 40.909 0.00 0.00 0.00 3.58
221 222 4.699257 AGATGGAAAGAACTCATGCTTGAC 59.301 41.667 0.00 0.00 0.00 3.18
222 223 4.914983 AGATGGAAAGAACTCATGCTTGA 58.085 39.130 1.92 1.92 0.00 3.02
223 224 5.640189 AAGATGGAAAGAACTCATGCTTG 57.360 39.130 0.00 0.00 0.00 4.01
224 225 7.951347 ATAAAGATGGAAAGAACTCATGCTT 57.049 32.000 0.00 0.00 0.00 3.91
225 226 7.395489 ACAATAAAGATGGAAAGAACTCATGCT 59.605 33.333 0.00 0.00 0.00 3.79
226 227 7.542025 ACAATAAAGATGGAAAGAACTCATGC 58.458 34.615 0.00 0.00 0.00 4.06
227 228 9.918630 AAACAATAAAGATGGAAAGAACTCATG 57.081 29.630 0.00 0.00 0.00 3.07
229 230 9.354673 AGAAACAATAAAGATGGAAAGAACTCA 57.645 29.630 0.00 0.00 0.00 3.41
230 231 9.833182 GAGAAACAATAAAGATGGAAAGAACTC 57.167 33.333 0.00 0.00 0.00 3.01
231 232 9.579932 AGAGAAACAATAAAGATGGAAAGAACT 57.420 29.630 0.00 0.00 0.00 3.01
232 233 9.833182 GAGAGAAACAATAAAGATGGAAAGAAC 57.167 33.333 0.00 0.00 0.00 3.01
233 234 9.014297 GGAGAGAAACAATAAAGATGGAAAGAA 57.986 33.333 0.00 0.00 0.00 2.52
234 235 8.386264 AGGAGAGAAACAATAAAGATGGAAAGA 58.614 33.333 0.00 0.00 0.00 2.52
235 236 8.572855 AGGAGAGAAACAATAAAGATGGAAAG 57.427 34.615 0.00 0.00 0.00 2.62
236 237 8.940397 AAGGAGAGAAACAATAAAGATGGAAA 57.060 30.769 0.00 0.00 0.00 3.13
237 238 8.940397 AAAGGAGAGAAACAATAAAGATGGAA 57.060 30.769 0.00 0.00 0.00 3.53
238 239 9.449719 GTAAAGGAGAGAAACAATAAAGATGGA 57.550 33.333 0.00 0.00 0.00 3.41
239 240 9.231297 TGTAAAGGAGAGAAACAATAAAGATGG 57.769 33.333 0.00 0.00 0.00 3.51
241 242 9.454859 CCTGTAAAGGAGAGAAACAATAAAGAT 57.545 33.333 0.00 0.00 0.00 2.40
242 243 8.656806 TCCTGTAAAGGAGAGAAACAATAAAGA 58.343 33.333 0.00 0.00 33.38 2.52
243 244 8.722394 GTCCTGTAAAGGAGAGAAACAATAAAG 58.278 37.037 0.27 0.00 38.88 1.85
244 245 8.215050 TGTCCTGTAAAGGAGAGAAACAATAAA 58.785 33.333 0.27 0.00 38.88 1.40
245 246 7.741785 TGTCCTGTAAAGGAGAGAAACAATAA 58.258 34.615 0.27 0.00 38.88 1.40
246 247 7.311092 TGTCCTGTAAAGGAGAGAAACAATA 57.689 36.000 0.27 0.00 38.88 1.90
247 248 6.187727 TGTCCTGTAAAGGAGAGAAACAAT 57.812 37.500 0.27 0.00 38.88 2.71
248 249 5.623956 TGTCCTGTAAAGGAGAGAAACAA 57.376 39.130 0.27 0.00 38.88 2.83
249 250 5.071788 ACATGTCCTGTAAAGGAGAGAAACA 59.928 40.000 0.27 0.00 38.88 2.83
250 251 5.552178 ACATGTCCTGTAAAGGAGAGAAAC 58.448 41.667 0.27 0.00 38.88 2.78
251 252 5.825593 ACATGTCCTGTAAAGGAGAGAAA 57.174 39.130 0.27 0.00 38.88 2.52
252 253 5.280011 GGAACATGTCCTGTAAAGGAGAGAA 60.280 44.000 0.27 0.00 43.98 2.87
253 254 4.223032 GGAACATGTCCTGTAAAGGAGAGA 59.777 45.833 0.27 0.00 43.98 3.10
254 255 4.508662 GGAACATGTCCTGTAAAGGAGAG 58.491 47.826 0.27 0.00 43.98 3.20
255 256 4.553330 GGAACATGTCCTGTAAAGGAGA 57.447 45.455 0.27 0.28 43.98 3.71
305 306 9.862371 CTCATGTAACTAGTATTCTGAAACTGT 57.138 33.333 0.00 7.88 0.00 3.55
306 307 9.862371 ACTCATGTAACTAGTATTCTGAAACTG 57.138 33.333 0.00 7.47 0.00 3.16
335 336 9.174166 ACTGCGATAAAAATTCTTAGTGGTTAT 57.826 29.630 0.00 0.00 0.00 1.89
336 337 8.556213 ACTGCGATAAAAATTCTTAGTGGTTA 57.444 30.769 0.00 0.00 0.00 2.85
337 338 7.390718 AGACTGCGATAAAAATTCTTAGTGGTT 59.609 33.333 0.00 0.00 0.00 3.67
338 339 6.879458 AGACTGCGATAAAAATTCTTAGTGGT 59.121 34.615 0.00 0.00 0.00 4.16
339 340 7.182761 CAGACTGCGATAAAAATTCTTAGTGG 58.817 38.462 0.00 0.00 0.00 4.00
340 341 7.182761 CCAGACTGCGATAAAAATTCTTAGTG 58.817 38.462 0.00 0.00 0.00 2.74
341 342 6.316390 CCCAGACTGCGATAAAAATTCTTAGT 59.684 38.462 0.00 0.00 0.00 2.24
342 343 6.316390 ACCCAGACTGCGATAAAAATTCTTAG 59.684 38.462 0.00 0.00 0.00 2.18
343 344 6.177610 ACCCAGACTGCGATAAAAATTCTTA 58.822 36.000 0.00 0.00 0.00 2.10
344 345 5.010282 ACCCAGACTGCGATAAAAATTCTT 58.990 37.500 0.00 0.00 0.00 2.52
345 346 4.589908 ACCCAGACTGCGATAAAAATTCT 58.410 39.130 0.00 0.00 0.00 2.40
346 347 4.965119 ACCCAGACTGCGATAAAAATTC 57.035 40.909 0.00 0.00 0.00 2.17
347 348 8.403236 GTTAATACCCAGACTGCGATAAAAATT 58.597 33.333 0.00 0.00 0.00 1.82
348 349 7.554835 TGTTAATACCCAGACTGCGATAAAAAT 59.445 33.333 0.00 0.00 0.00 1.82
349 350 6.879993 TGTTAATACCCAGACTGCGATAAAAA 59.120 34.615 0.00 0.00 0.00 1.94
350 351 6.408035 TGTTAATACCCAGACTGCGATAAAA 58.592 36.000 0.00 0.00 0.00 1.52
351 352 5.979993 TGTTAATACCCAGACTGCGATAAA 58.020 37.500 0.00 0.00 0.00 1.40
352 353 5.601583 TGTTAATACCCAGACTGCGATAA 57.398 39.130 0.00 0.00 0.00 1.75
353 354 5.069914 ACATGTTAATACCCAGACTGCGATA 59.930 40.000 0.00 0.00 0.00 2.92
354 355 4.141711 ACATGTTAATACCCAGACTGCGAT 60.142 41.667 0.00 0.00 0.00 4.58
355 356 3.196901 ACATGTTAATACCCAGACTGCGA 59.803 43.478 0.00 0.00 0.00 5.10
356 357 3.531538 ACATGTTAATACCCAGACTGCG 58.468 45.455 0.00 0.00 0.00 5.18
357 358 4.513442 TGACATGTTAATACCCAGACTGC 58.487 43.478 0.00 0.00 0.00 4.40
358 359 5.937540 TGTTGACATGTTAATACCCAGACTG 59.062 40.000 6.31 0.00 0.00 3.51
359 360 6.121776 TGTTGACATGTTAATACCCAGACT 57.878 37.500 6.31 0.00 0.00 3.24
360 361 7.391148 AATGTTGACATGTTAATACCCAGAC 57.609 36.000 6.31 0.00 36.56 3.51
361 362 8.103935 TGTAATGTTGACATGTTAATACCCAGA 58.896 33.333 6.31 0.00 36.56 3.86
362 363 8.275015 TGTAATGTTGACATGTTAATACCCAG 57.725 34.615 6.31 0.00 36.56 4.45
363 364 8.815565 ATGTAATGTTGACATGTTAATACCCA 57.184 30.769 6.31 0.39 36.18 4.51
402 403 9.746457 AGACTTTTCTCTAAAAATAAGGCATCT 57.254 29.630 0.00 0.00 34.26 2.90
440 442 8.304596 TCATTTTCAGACTTTGAGTACGAGTAT 58.695 33.333 0.00 0.00 37.07 2.12
441 443 7.594015 GTCATTTTCAGACTTTGAGTACGAGTA 59.406 37.037 0.00 0.00 37.07 2.59
443 445 6.128795 GGTCATTTTCAGACTTTGAGTACGAG 60.129 42.308 0.00 0.00 37.07 4.18
464 466 3.455910 CAGGGAATCATAGTTCAGGGTCA 59.544 47.826 0.00 0.00 0.00 4.02
476 478 4.163078 AGAGTGACGATTTCAGGGAATCAT 59.837 41.667 1.52 0.00 36.12 2.45
635 647 1.687297 GGGAGGGAGATGGGTTCGTC 61.687 65.000 0.00 0.00 0.00 4.20
666 678 1.092345 GGCTGAAGGAGATGCGTTCC 61.092 60.000 0.00 0.37 39.92 3.62
769 782 3.380320 GGAAGGGGATTACCAACGATTTG 59.620 47.826 0.00 0.00 42.91 2.32
776 789 2.680439 AGGAGGAAGGGGATTACCAA 57.320 50.000 0.00 0.00 42.91 3.67
801 814 2.037251 AGATGCAACTACCACAAGACGT 59.963 45.455 0.00 0.00 0.00 4.34
989 1004 2.740904 CGCGGATCCATGATGATAGCAT 60.741 50.000 13.41 0.00 37.47 3.79
1048 1063 5.520376 AAATCAGGCCCAATTCGAATAAG 57.480 39.130 11.83 7.28 0.00 1.73
1131 1146 4.097892 TCAGCAAGAAAACCTTTCACTTCC 59.902 41.667 2.25 0.00 31.42 3.46
1211 1226 5.243730 CACAAAGATAACAACCCATCCACTT 59.756 40.000 0.00 0.00 0.00 3.16
1229 1244 3.005050 ACAGCCAACATCATCACACAAAG 59.995 43.478 0.00 0.00 0.00 2.77
1278 1293 0.402121 AAACCTCTGCAACTCCTCCC 59.598 55.000 0.00 0.00 0.00 4.30
1547 1562 4.762289 ATGTTAGGCCTCTGTTTCCTAG 57.238 45.455 9.68 0.00 34.31 3.02
1605 1624 4.189231 ACGTGCCAGTAATGTAATCTTCC 58.811 43.478 0.00 0.00 0.00 3.46
1626 1648 2.834549 TCCTGGATTGAAGACCTGAGAC 59.165 50.000 0.00 0.00 0.00 3.36
1693 1715 4.445453 TCATGTTCCTGTGCATGATCTAC 58.555 43.478 0.00 0.00 44.29 2.59
2176 2199 1.675641 CCAGGCCAGCCACACTTAC 60.676 63.158 12.03 0.00 38.92 2.34
2472 2495 3.166679 AGACCTTGGTGTACTCCTCTTC 58.833 50.000 14.75 6.47 0.00 2.87
2621 2646 6.699575 ATCACCATTCTACATGCTTTAACC 57.300 37.500 0.00 0.00 0.00 2.85
2638 2663 0.409092 ACCATCAAGCCCAATCACCA 59.591 50.000 0.00 0.00 0.00 4.17
2788 2813 5.809001 TGTCCAAGTCTTTGATTAGATGCT 58.191 37.500 0.00 0.00 36.36 3.79


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

AutoCloner maintained by Alex Coulton.