Multiple sequence alignment - TraesCS2B01G474000

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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 TraesCS2B01G474000 chr2B 100.000 2786 0 0 657 3442 671040586 671037801 0.000000e+00 5145.0
1 TraesCS2B01G474000 chr2B 90.047 1286 93 20 1166 2443 670853254 670854512 0.000000e+00 1633.0
2 TraesCS2B01G474000 chr2B 94.784 786 37 2 2659 3442 24204788 24205571 0.000000e+00 1221.0
3 TraesCS2B01G474000 chr2B 100.000 290 0 0 1 290 671041242 671040953 1.410000e-148 536.0
4 TraesCS2B01G474000 chr2B 84.173 139 6 2 2524 2662 24204077 24204199 1.680000e-23 121.0
5 TraesCS2B01G474000 chr2D 93.774 1815 72 8 670 2482 561909645 561907870 0.000000e+00 2687.0
6 TraesCS2B01G474000 chr2D 85.851 1668 134 52 814 2443 561851272 561852875 0.000000e+00 1679.0
7 TraesCS2B01G474000 chr2D 86.905 168 15 6 88 253 561910152 561909990 7.590000e-42 182.0
8 TraesCS2B01G474000 chr2D 91.011 89 8 0 1 89 166943082 166943170 1.680000e-23 121.0
9 TraesCS2B01G474000 chr2D 89.474 95 10 0 2 96 451463248 451463342 1.680000e-23 121.0
10 TraesCS2B01G474000 chr2A 94.320 1690 70 9 777 2458 701868754 701867083 0.000000e+00 2566.0
11 TraesCS2B01G474000 chr2A 89.294 1289 96 22 1166 2443 701497127 701498384 0.000000e+00 1578.0
12 TraesCS2B01G474000 chr2A 91.371 394 30 3 1324 1714 628063377 628062985 1.410000e-148 536.0
13 TraesCS2B01G474000 chr3B 92.733 922 43 6 2524 3442 27201444 27200544 0.000000e+00 1310.0
14 TraesCS2B01G474000 chr3B 89.775 489 32 4 2530 3016 459088372 459088844 8.170000e-171 610.0
15 TraesCS2B01G474000 chr3B 91.124 169 12 2 3275 3442 459088843 459089009 3.460000e-55 226.0
16 TraesCS2B01G474000 chr1B 92.484 918 48 5 2527 3442 264013768 264012870 0.000000e+00 1293.0
17 TraesCS2B01G474000 chr3A 94.529 786 39 2 2659 3442 39707695 39706912 0.000000e+00 1210.0
18 TraesCS2B01G474000 chr3A 84.267 928 84 22 2524 3442 730326790 730325916 0.000000e+00 848.0
19 TraesCS2B01G474000 chr3A 84.173 139 6 2 2524 2662 39708409 39708287 1.680000e-23 121.0
20 TraesCS2B01G474000 chr3A 91.860 86 6 1 1 86 434839930 434840014 6.030000e-23 119.0
21 TraesCS2B01G474000 chr4D 87.983 932 68 15 2520 3442 7046302 7047198 0.000000e+00 1061.0
22 TraesCS2B01G474000 chr3D 86.853 928 71 16 2524 3442 91690816 91689931 0.000000e+00 990.0
23 TraesCS2B01G474000 chr3D 96.000 50 2 0 3389 3438 473820178 473820129 7.920000e-12 82.4
24 TraesCS2B01G474000 chr1A 86.232 828 74 17 2524 3339 549507908 549507109 0.000000e+00 861.0
25 TraesCS2B01G474000 chr1A 94.444 90 5 0 1 90 227495696 227495607 4.630000e-29 139.0
26 TraesCS2B01G474000 chr1A 92.000 100 5 3 1 98 223451283 223451185 1.670000e-28 137.0
27 TraesCS2B01G474000 chr4A 78.347 956 142 34 2518 3442 66415720 66416641 3.000000e-155 558.0
28 TraesCS2B01G474000 chr7A 87.579 475 36 6 2524 2993 616227058 616227514 2.350000e-146 529.0
29 TraesCS2B01G474000 chr7A 93.939 99 3 3 1 97 175160011 175160108 2.770000e-31 147.0
30 TraesCS2B01G474000 chr1D 85.657 495 58 6 2855 3347 7700314 7699831 3.060000e-140 508.0
31 TraesCS2B01G474000 chr1D 96.000 50 2 0 3389 3438 328447277 328447228 7.920000e-12 82.4
32 TraesCS2B01G474000 chr7B 95.455 132 6 0 1729 1860 506596659 506596790 9.680000e-51 211.0
33 TraesCS2B01G474000 chr5D 96.396 111 4 0 1484 1594 436205412 436205522 2.110000e-42 183.0
34 TraesCS2B01G474000 chr5D 93.617 94 6 0 1 94 59063557 59063464 1.290000e-29 141.0
35 TraesCS2B01G474000 chr7D 93.103 87 6 0 2 88 359149767 359149681 1.000000e-25 128.0
36 TraesCS2B01G474000 chr5B 89.691 97 9 1 2 98 75901315 75901220 4.660000e-24 122.0


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 TraesCS2B01G474000 chr2B 671037801 671041242 3441 True 2840.5 5145 100.0000 1 3442 2 chr2B.!!$R1 3441
1 TraesCS2B01G474000 chr2B 670853254 670854512 1258 False 1633.0 1633 90.0470 1166 2443 1 chr2B.!!$F1 1277
2 TraesCS2B01G474000 chr2B 24204077 24205571 1494 False 671.0 1221 89.4785 2524 3442 2 chr2B.!!$F2 918
3 TraesCS2B01G474000 chr2D 561851272 561852875 1603 False 1679.0 1679 85.8510 814 2443 1 chr2D.!!$F3 1629
4 TraesCS2B01G474000 chr2D 561907870 561910152 2282 True 1434.5 2687 90.3395 88 2482 2 chr2D.!!$R1 2394
5 TraesCS2B01G474000 chr2A 701867083 701868754 1671 True 2566.0 2566 94.3200 777 2458 1 chr2A.!!$R2 1681
6 TraesCS2B01G474000 chr2A 701497127 701498384 1257 False 1578.0 1578 89.2940 1166 2443 1 chr2A.!!$F1 1277
7 TraesCS2B01G474000 chr3B 27200544 27201444 900 True 1310.0 1310 92.7330 2524 3442 1 chr3B.!!$R1 918
8 TraesCS2B01G474000 chr3B 459088372 459089009 637 False 418.0 610 90.4495 2530 3442 2 chr3B.!!$F1 912
9 TraesCS2B01G474000 chr1B 264012870 264013768 898 True 1293.0 1293 92.4840 2527 3442 1 chr1B.!!$R1 915
10 TraesCS2B01G474000 chr3A 730325916 730326790 874 True 848.0 848 84.2670 2524 3442 1 chr3A.!!$R1 918
11 TraesCS2B01G474000 chr3A 39706912 39708409 1497 True 665.5 1210 89.3510 2524 3442 2 chr3A.!!$R2 918
12 TraesCS2B01G474000 chr4D 7046302 7047198 896 False 1061.0 1061 87.9830 2520 3442 1 chr4D.!!$F1 922
13 TraesCS2B01G474000 chr3D 91689931 91690816 885 True 990.0 990 86.8530 2524 3442 1 chr3D.!!$R1 918
14 TraesCS2B01G474000 chr1A 549507109 549507908 799 True 861.0 861 86.2320 2524 3339 1 chr1A.!!$R3 815
15 TraesCS2B01G474000 chr4A 66415720 66416641 921 False 558.0 558 78.3470 2518 3442 1 chr4A.!!$F1 924

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
285 288 0.526211 TGGGTTGACGATGACGAGAG 59.474 55.000 0.0 0.0 42.66 3.2 F
286 289 0.809385 GGGTTGACGATGACGAGAGA 59.191 55.000 0.0 0.0 42.66 3.1 F
287 290 1.202200 GGGTTGACGATGACGAGAGAG 60.202 57.143 0.0 0.0 42.66 3.2 F
1331 1390 0.952984 GCGAAGAAGCAGCTCAAGGT 60.953 55.000 0.0 0.0 37.05 3.5 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1208 1256 0.033109 TCAAGATGGAGGGCGAGAGA 60.033 55.000 0.0 0.0 0.00 3.10 R
1253 1301 0.107654 GGATTCAGCGGCCTACAACT 60.108 55.000 0.0 0.0 0.00 3.16 R
1706 1765 1.226435 GCAGACGAGCGAGTAGGTG 60.226 63.158 0.0 0.0 0.00 4.00 R
3116 4413 0.179111 ATACATCGTGCCGACCAGTG 60.179 55.000 0.0 0.0 39.18 3.66 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
46 47 5.782893 TTGTCTTTAACTTGGTTGGATGG 57.217 39.130 0.00 0.00 0.00 3.51
47 48 4.798882 TGTCTTTAACTTGGTTGGATGGT 58.201 39.130 0.00 0.00 0.00 3.55
48 49 4.825085 TGTCTTTAACTTGGTTGGATGGTC 59.175 41.667 0.00 0.00 0.00 4.02
49 50 4.825085 GTCTTTAACTTGGTTGGATGGTCA 59.175 41.667 0.00 0.00 0.00 4.02
50 51 5.300792 GTCTTTAACTTGGTTGGATGGTCAA 59.699 40.000 0.00 0.00 0.00 3.18
51 52 5.300792 TCTTTAACTTGGTTGGATGGTCAAC 59.699 40.000 0.00 0.00 44.42 3.18
52 53 3.312736 AACTTGGTTGGATGGTCAACT 57.687 42.857 7.51 0.00 44.52 3.16
53 54 3.312736 ACTTGGTTGGATGGTCAACTT 57.687 42.857 7.51 0.00 44.52 2.66
54 55 3.642141 ACTTGGTTGGATGGTCAACTTT 58.358 40.909 7.51 0.00 44.52 2.66
55 56 4.030216 ACTTGGTTGGATGGTCAACTTTT 58.970 39.130 7.51 0.00 44.52 2.27
56 57 4.099419 ACTTGGTTGGATGGTCAACTTTTC 59.901 41.667 7.51 0.00 44.52 2.29
57 58 3.909732 TGGTTGGATGGTCAACTTTTCT 58.090 40.909 7.51 0.00 44.52 2.52
58 59 3.888930 TGGTTGGATGGTCAACTTTTCTC 59.111 43.478 7.51 0.00 44.52 2.87
59 60 3.255888 GGTTGGATGGTCAACTTTTCTCC 59.744 47.826 7.51 0.00 44.52 3.71
60 61 2.778299 TGGATGGTCAACTTTTCTCCG 58.222 47.619 0.00 0.00 0.00 4.63
61 62 2.084546 GGATGGTCAACTTTTCTCCGG 58.915 52.381 0.00 0.00 0.00 5.14
62 63 2.552373 GGATGGTCAACTTTTCTCCGGT 60.552 50.000 0.00 0.00 0.00 5.28
63 64 1.961793 TGGTCAACTTTTCTCCGGTG 58.038 50.000 0.00 0.00 0.00 4.94
64 65 0.591659 GGTCAACTTTTCTCCGGTGC 59.408 55.000 0.00 0.00 0.00 5.01
65 66 1.305201 GTCAACTTTTCTCCGGTGCA 58.695 50.000 0.00 0.00 0.00 4.57
66 67 1.673920 GTCAACTTTTCTCCGGTGCAA 59.326 47.619 0.00 0.00 0.00 4.08
67 68 1.673920 TCAACTTTTCTCCGGTGCAAC 59.326 47.619 0.00 0.00 0.00 4.17
68 69 0.661020 AACTTTTCTCCGGTGCAACG 59.339 50.000 19.45 19.45 38.12 4.10
69 70 1.082104 CTTTTCTCCGGTGCAACGC 60.082 57.895 21.21 0.00 38.12 4.84
70 71 1.781025 CTTTTCTCCGGTGCAACGCA 61.781 55.000 21.21 1.55 38.12 5.24
79 80 2.437537 TGCAACGCACGGGCATAT 60.438 55.556 11.77 0.00 41.24 1.78
80 81 2.024588 GCAACGCACGGGCATATG 59.975 61.111 11.77 6.17 41.24 1.78
81 82 2.760159 GCAACGCACGGGCATATGT 61.760 57.895 11.77 0.00 41.24 2.29
82 83 1.062365 CAACGCACGGGCATATGTG 59.938 57.895 11.77 0.00 41.24 3.21
103 104 5.105064 TGTGCTAGTGATACTAAAAGGGGAC 60.105 44.000 0.00 0.00 29.00 4.46
104 105 4.407945 TGCTAGTGATACTAAAAGGGGACC 59.592 45.833 0.00 0.00 38.60 4.46
105 106 4.654724 GCTAGTGATACTAAAAGGGGACCT 59.345 45.833 0.00 0.00 46.88 3.85
154 155 5.305128 TCAGGAACTTTCAGCAATTCCAAAT 59.695 36.000 4.78 0.00 42.66 2.32
155 156 5.636543 CAGGAACTTTCAGCAATTCCAAATC 59.363 40.000 4.78 0.00 42.66 2.17
156 157 4.931601 GGAACTTTCAGCAATTCCAAATCC 59.068 41.667 0.00 0.00 40.38 3.01
169 172 9.478768 GCAATTCCAAATCCAAAATTTTGAAAT 57.521 25.926 28.44 18.86 40.55 2.17
184 187 6.631971 TTTTGAAATTTCCAAATTCCAGCC 57.368 33.333 15.48 0.00 37.62 4.85
189 192 2.397044 TTCCAAATTCCAGCCTGGTT 57.603 45.000 11.27 0.00 39.03 3.67
191 194 3.756082 TCCAAATTCCAGCCTGGTTAT 57.244 42.857 11.27 2.97 39.03 1.89
192 195 4.059773 TCCAAATTCCAGCCTGGTTATT 57.940 40.909 11.27 9.09 39.03 1.40
196 199 6.498651 TCCAAATTCCAGCCTGGTTATTAAAA 59.501 34.615 11.27 0.00 39.03 1.52
197 200 7.016661 TCCAAATTCCAGCCTGGTTATTAAAAA 59.983 33.333 11.27 0.00 39.03 1.94
229 232 2.230025 AGTCAGAGAGTCACATGAACGG 59.770 50.000 0.00 0.00 0.00 4.44
239 242 4.431131 ATGAACGGGCCTGCAGGG 62.431 66.667 33.46 19.59 35.18 4.45
253 256 1.306482 CAGGGGAGAGAAGGCTGGA 60.306 63.158 0.00 0.00 0.00 3.86
254 257 1.306568 AGGGGAGAGAAGGCTGGAC 60.307 63.158 0.00 0.00 0.00 4.02
255 258 1.613630 GGGGAGAGAAGGCTGGACA 60.614 63.158 0.00 0.00 0.00 4.02
256 259 1.621672 GGGGAGAGAAGGCTGGACAG 61.622 65.000 0.00 0.00 0.00 3.51
257 260 0.616111 GGGAGAGAAGGCTGGACAGA 60.616 60.000 3.00 0.00 0.00 3.41
258 261 1.270907 GGAGAGAAGGCTGGACAGAA 58.729 55.000 3.00 0.00 0.00 3.02
259 262 1.836802 GGAGAGAAGGCTGGACAGAAT 59.163 52.381 3.00 0.00 0.00 2.40
260 263 3.034635 GGAGAGAAGGCTGGACAGAATA 58.965 50.000 3.00 0.00 0.00 1.75
261 264 3.645687 GGAGAGAAGGCTGGACAGAATAT 59.354 47.826 3.00 0.00 0.00 1.28
262 265 4.262420 GGAGAGAAGGCTGGACAGAATATC 60.262 50.000 3.00 0.00 0.00 1.63
263 266 4.293494 AGAGAAGGCTGGACAGAATATCA 58.707 43.478 3.00 0.00 0.00 2.15
264 267 4.100808 AGAGAAGGCTGGACAGAATATCAC 59.899 45.833 3.00 0.00 0.00 3.06
265 268 3.776969 AGAAGGCTGGACAGAATATCACA 59.223 43.478 3.00 0.00 0.00 3.58
266 269 4.411540 AGAAGGCTGGACAGAATATCACAT 59.588 41.667 3.00 0.00 0.00 3.21
267 270 4.082665 AGGCTGGACAGAATATCACATG 57.917 45.455 3.00 0.00 0.00 3.21
268 271 3.144506 GGCTGGACAGAATATCACATGG 58.855 50.000 3.00 0.00 0.00 3.66
269 272 3.144506 GCTGGACAGAATATCACATGGG 58.855 50.000 3.00 0.00 0.00 4.00
270 273 3.434167 GCTGGACAGAATATCACATGGGT 60.434 47.826 3.00 0.00 0.00 4.51
271 274 4.785301 CTGGACAGAATATCACATGGGTT 58.215 43.478 0.00 0.00 0.00 4.11
272 275 4.525996 TGGACAGAATATCACATGGGTTG 58.474 43.478 0.00 0.00 0.00 3.77
273 276 4.227073 TGGACAGAATATCACATGGGTTGA 59.773 41.667 0.00 0.00 0.00 3.18
274 277 4.576463 GGACAGAATATCACATGGGTTGAC 59.424 45.833 0.00 0.00 0.00 3.18
275 278 4.191544 ACAGAATATCACATGGGTTGACG 58.808 43.478 0.00 0.00 0.00 4.35
276 279 4.081142 ACAGAATATCACATGGGTTGACGA 60.081 41.667 0.00 0.00 0.00 4.20
277 280 5.059161 CAGAATATCACATGGGTTGACGAT 58.941 41.667 0.00 0.00 0.00 3.73
278 281 5.049886 CAGAATATCACATGGGTTGACGATG 60.050 44.000 0.00 0.00 40.69 3.84
279 282 4.687901 ATATCACATGGGTTGACGATGA 57.312 40.909 0.00 0.00 37.47 2.92
280 283 2.093306 TCACATGGGTTGACGATGAC 57.907 50.000 0.00 0.00 37.47 3.06
281 284 0.721154 CACATGGGTTGACGATGACG 59.279 55.000 0.00 0.00 45.75 4.35
282 285 0.606096 ACATGGGTTGACGATGACGA 59.394 50.000 0.00 0.00 42.66 4.20
283 286 1.280982 CATGGGTTGACGATGACGAG 58.719 55.000 0.00 0.00 42.66 4.18
284 287 1.135112 CATGGGTTGACGATGACGAGA 60.135 52.381 0.00 0.00 42.66 4.04
285 288 0.526211 TGGGTTGACGATGACGAGAG 59.474 55.000 0.00 0.00 42.66 3.20
286 289 0.809385 GGGTTGACGATGACGAGAGA 59.191 55.000 0.00 0.00 42.66 3.10
287 290 1.202200 GGGTTGACGATGACGAGAGAG 60.202 57.143 0.00 0.00 42.66 3.20
288 291 1.738350 GGTTGACGATGACGAGAGAGA 59.262 52.381 0.00 0.00 42.66 3.10
289 292 2.223157 GGTTGACGATGACGAGAGAGAG 60.223 54.545 0.00 0.00 42.66 3.20
687 690 1.226323 GGACGAGTGGACACGATCG 60.226 63.158 14.88 14.88 40.86 3.69
762 765 7.600065 TGTCAGATCCCTAAATATACGTTAGC 58.400 38.462 0.00 0.00 0.00 3.09
775 778 3.784701 ACGTTAGCATGAGACGAGATT 57.215 42.857 18.49 0.00 39.85 2.40
1002 1017 1.202290 GCCATTGTTGTCCGCCTTATG 60.202 52.381 0.00 0.00 0.00 1.90
1003 1018 2.091541 CCATTGTTGTCCGCCTTATGT 58.908 47.619 0.00 0.00 0.00 2.29
1005 1020 2.552599 TTGTTGTCCGCCTTATGTCA 57.447 45.000 0.00 0.00 0.00 3.58
1007 1022 1.346395 TGTTGTCCGCCTTATGTCACT 59.654 47.619 0.00 0.00 0.00 3.41
1008 1023 2.000447 GTTGTCCGCCTTATGTCACTC 59.000 52.381 0.00 0.00 0.00 3.51
1082 1106 2.159585 CGTGCGCAATTGGATCAGTTAA 60.160 45.455 14.00 0.00 0.00 2.01
1208 1256 4.564782 TTCATCTTCAGATTGCAGGTCT 57.435 40.909 0.00 0.00 31.21 3.85
1268 1321 0.970640 TTGTAGTTGTAGGCCGCTGA 59.029 50.000 0.00 0.00 0.00 4.26
1331 1390 0.952984 GCGAAGAAGCAGCTCAAGGT 60.953 55.000 0.00 0.00 37.05 3.50
1350 1409 1.298157 TGTAGCTGACAATGGCACGC 61.298 55.000 0.00 2.93 34.15 5.34
1352 1411 4.120331 GCTGACAATGGCACGCCC 62.120 66.667 5.42 0.00 34.56 6.13
1440 1499 1.006220 AACATCGTGCTCGTGCTCA 60.006 52.632 11.19 0.00 40.48 4.26
1594 1653 3.868985 AAAGGCCACCACGACCGT 61.869 61.111 5.01 0.00 0.00 4.83
1706 1765 2.496817 CTCTACCTGCCGCTGTCC 59.503 66.667 0.00 0.00 0.00 4.02
1826 1885 2.659016 CTGCTCACCTTCTCCGCA 59.341 61.111 0.00 0.00 0.00 5.69
1969 2028 0.251354 ATGCAGCTCACCTTCGACAT 59.749 50.000 0.00 0.00 0.00 3.06
2273 2332 0.103026 TCATCGCCGTCATCTTCCTG 59.897 55.000 0.00 0.00 0.00 3.86
2363 2422 2.770164 ACCAGCACTACCTTGATGAC 57.230 50.000 0.00 0.00 34.71 3.06
2432 2497 0.320160 ACCGGACTGTAAAACTCGCC 60.320 55.000 9.46 0.00 0.00 5.54
2444 2509 3.848142 CTCGCCACAGAGTGAACG 58.152 61.111 0.00 2.83 35.23 3.95
2450 2515 2.695359 GCCACAGAGTGAACGGAATTA 58.305 47.619 0.00 0.00 35.23 1.40
2455 2520 6.919728 CACAGAGTGAACGGAATTAGCCGA 62.920 50.000 12.17 0.00 44.31 5.54
2468 2533 5.470845 AATTAGCCGAAATTCGAGTTGAG 57.529 39.130 17.75 0.00 43.74 3.02
2469 2534 2.457366 AGCCGAAATTCGAGTTGAGT 57.543 45.000 17.75 0.00 43.74 3.41
2482 2547 2.233431 GAGTTGAGTCTCTGCTCACCAT 59.767 50.000 14.95 0.00 44.23 3.55
2483 2548 2.636893 AGTTGAGTCTCTGCTCACCATT 59.363 45.455 0.65 0.00 44.23 3.16
2484 2549 2.740981 GTTGAGTCTCTGCTCACCATTG 59.259 50.000 0.65 0.00 44.23 2.82
2485 2550 1.973515 TGAGTCTCTGCTCACCATTGT 59.026 47.619 0.65 0.00 40.23 2.71
2486 2551 2.289257 TGAGTCTCTGCTCACCATTGTG 60.289 50.000 0.65 0.00 40.23 3.33
2487 2552 0.801251 GTCTCTGCTCACCATTGTGC 59.199 55.000 0.00 0.00 42.46 4.57
2488 2553 0.689055 TCTCTGCTCACCATTGTGCT 59.311 50.000 0.00 0.00 41.84 4.40
2489 2554 0.803117 CTCTGCTCACCATTGTGCTG 59.197 55.000 0.00 0.82 41.84 4.41
2490 2555 0.109153 TCTGCTCACCATTGTGCTGT 59.891 50.000 0.00 0.00 41.84 4.40
2491 2556 0.520404 CTGCTCACCATTGTGCTGTC 59.480 55.000 0.00 0.00 41.84 3.51
2492 2557 0.109153 TGCTCACCATTGTGCTGTCT 59.891 50.000 0.00 0.00 41.84 3.41
2493 2558 0.520404 GCTCACCATTGTGCTGTCTG 59.480 55.000 0.00 0.00 42.46 3.51
2494 2559 1.162698 CTCACCATTGTGCTGTCTGG 58.837 55.000 0.00 0.00 42.46 3.86
2495 2560 0.764271 TCACCATTGTGCTGTCTGGA 59.236 50.000 0.00 0.00 42.46 3.86
2496 2561 1.352017 TCACCATTGTGCTGTCTGGAT 59.648 47.619 0.00 0.00 42.46 3.41
2497 2562 2.165167 CACCATTGTGCTGTCTGGATT 58.835 47.619 0.00 0.00 35.31 3.01
2498 2563 2.559668 CACCATTGTGCTGTCTGGATTT 59.440 45.455 0.00 0.00 35.31 2.17
2499 2564 3.006110 CACCATTGTGCTGTCTGGATTTT 59.994 43.478 0.00 0.00 35.31 1.82
2500 2565 4.218200 CACCATTGTGCTGTCTGGATTTTA 59.782 41.667 0.00 0.00 35.31 1.52
2501 2566 4.218417 ACCATTGTGCTGTCTGGATTTTAC 59.782 41.667 0.00 0.00 32.92 2.01
2502 2567 4.460382 CCATTGTGCTGTCTGGATTTTACT 59.540 41.667 0.00 0.00 0.00 2.24
2503 2568 5.647658 CCATTGTGCTGTCTGGATTTTACTA 59.352 40.000 0.00 0.00 0.00 1.82
2504 2569 6.183360 CCATTGTGCTGTCTGGATTTTACTAG 60.183 42.308 0.00 0.00 0.00 2.57
2505 2570 5.738619 TGTGCTGTCTGGATTTTACTAGA 57.261 39.130 0.00 0.00 0.00 2.43
2506 2571 6.299805 TGTGCTGTCTGGATTTTACTAGAT 57.700 37.500 0.00 0.00 30.77 1.98
2507 2572 6.341316 TGTGCTGTCTGGATTTTACTAGATC 58.659 40.000 0.00 0.00 30.77 2.75
2508 2573 6.070824 TGTGCTGTCTGGATTTTACTAGATCA 60.071 38.462 0.00 0.00 30.77 2.92
2509 2574 6.256757 GTGCTGTCTGGATTTTACTAGATCAC 59.743 42.308 0.00 0.00 30.77 3.06
2510 2575 5.460419 GCTGTCTGGATTTTACTAGATCACG 59.540 44.000 0.00 0.00 30.77 4.35
2511 2576 6.525578 TGTCTGGATTTTACTAGATCACGT 57.474 37.500 0.00 0.00 30.77 4.49
2512 2577 6.931838 TGTCTGGATTTTACTAGATCACGTT 58.068 36.000 0.00 0.00 30.77 3.99
2513 2578 7.383687 TGTCTGGATTTTACTAGATCACGTTT 58.616 34.615 0.00 0.00 30.77 3.60
2514 2579 7.876068 TGTCTGGATTTTACTAGATCACGTTTT 59.124 33.333 0.00 0.00 30.77 2.43
2515 2580 8.169268 GTCTGGATTTTACTAGATCACGTTTTG 58.831 37.037 0.00 0.00 30.77 2.44
2516 2581 7.333423 TCTGGATTTTACTAGATCACGTTTTGG 59.667 37.037 0.00 0.00 0.00 3.28
2517 2582 7.162761 TGGATTTTACTAGATCACGTTTTGGA 58.837 34.615 0.00 0.00 0.00 3.53
2518 2583 7.662258 TGGATTTTACTAGATCACGTTTTGGAA 59.338 33.333 0.00 0.00 0.00 3.53
2599 2664 8.567948 TCACTGTATTCAAGAAAGGTCAAAATC 58.432 33.333 0.00 0.00 0.00 2.17
2600 2665 8.571336 CACTGTATTCAAGAAAGGTCAAAATCT 58.429 33.333 0.00 0.00 0.00 2.40
2601 2666 9.136323 ACTGTATTCAAGAAAGGTCAAAATCTT 57.864 29.630 0.00 0.00 32.55 2.40
2602 2667 9.403110 CTGTATTCAAGAAAGGTCAAAATCTTG 57.597 33.333 7.80 7.80 46.36 3.02
2608 2673 7.423844 AAGAAAGGTCAAAATCTTGAAAGGT 57.576 32.000 0.00 0.00 43.18 3.50
2609 2674 7.043961 AGAAAGGTCAAAATCTTGAAAGGTC 57.956 36.000 0.00 0.00 43.18 3.85
2610 2675 6.607198 AGAAAGGTCAAAATCTTGAAAGGTCA 59.393 34.615 0.00 0.00 43.18 4.02
2611 2676 6.790232 AAGGTCAAAATCTTGAAAGGTCAA 57.210 33.333 0.00 0.00 43.18 3.18
2612 2677 6.790232 AGGTCAAAATCTTGAAAGGTCAAA 57.210 33.333 0.00 0.00 43.18 2.69
2613 2678 7.181569 AGGTCAAAATCTTGAAAGGTCAAAA 57.818 32.000 0.00 0.00 43.18 2.44
2614 2679 7.795047 AGGTCAAAATCTTGAAAGGTCAAAAT 58.205 30.769 0.00 0.00 43.18 1.82
2657 2722 1.399855 CGTGTCACTCTACGGTCACTG 60.400 57.143 0.65 0.00 36.71 3.66
2662 3319 2.156917 CACTCTACGGTCACTGGTACA 58.843 52.381 0.00 0.00 0.00 2.90
2685 3937 5.523552 CAGTATCCATTGTATTTCGCTGACA 59.476 40.000 0.00 0.00 0.00 3.58
2726 3998 3.840666 ACTGCCACTCCTCTCTGAAATTA 59.159 43.478 0.00 0.00 0.00 1.40
2839 4111 1.637553 AGCCTTCTGTGGTCCATGAAT 59.362 47.619 9.71 0.00 0.00 2.57
2868 4163 0.690192 TTGAATCTCCAACTCCCGCA 59.310 50.000 0.00 0.00 0.00 5.69
2913 4208 2.672651 TCGTTGGCCGACTACCGA 60.673 61.111 21.11 10.36 41.60 4.69
2923 4218 0.099259 CGACTACCGACGCCATGTTA 59.901 55.000 0.00 0.00 41.76 2.41
2927 4222 0.179121 TACCGACGCCATGTTAGCAG 60.179 55.000 0.00 0.00 0.00 4.24
3116 4413 1.486726 AGGCATACTCCTGGTTAGTGC 59.513 52.381 0.00 1.18 34.56 4.40
3296 4602 1.153958 GCATGTTCTTTCTGCCGCC 60.154 57.895 0.00 0.00 0.00 6.13
3297 4603 1.135315 CATGTTCTTTCTGCCGCCG 59.865 57.895 0.00 0.00 0.00 6.46
3348 4663 0.248289 GGCGAGGCTACAACCTAACA 59.752 55.000 0.00 0.00 41.32 2.41
3352 4667 3.679083 GCGAGGCTACAACCTAACAATCT 60.679 47.826 0.00 0.00 41.32 2.40
3361 4676 4.018960 ACAACCTAACAATCTCATGCCTCT 60.019 41.667 0.00 0.00 0.00 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 8.531146 CCATCCAACCAAGTTAAAGACAATTAT 58.469 33.333 0.00 0.00 0.00 1.28
21 22 7.507616 ACCATCCAACCAAGTTAAAGACAATTA 59.492 33.333 0.00 0.00 0.00 1.40
22 23 6.326323 ACCATCCAACCAAGTTAAAGACAATT 59.674 34.615 0.00 0.00 0.00 2.32
23 24 5.838521 ACCATCCAACCAAGTTAAAGACAAT 59.161 36.000 0.00 0.00 0.00 2.71
24 25 5.205056 ACCATCCAACCAAGTTAAAGACAA 58.795 37.500 0.00 0.00 0.00 3.18
25 26 4.798882 ACCATCCAACCAAGTTAAAGACA 58.201 39.130 0.00 0.00 0.00 3.41
26 27 4.825085 TGACCATCCAACCAAGTTAAAGAC 59.175 41.667 0.00 0.00 0.00 3.01
27 28 5.055265 TGACCATCCAACCAAGTTAAAGA 57.945 39.130 0.00 0.00 0.00 2.52
28 29 5.301805 AGTTGACCATCCAACCAAGTTAAAG 59.698 40.000 0.00 0.00 45.52 1.85
29 30 5.205056 AGTTGACCATCCAACCAAGTTAAA 58.795 37.500 0.00 0.00 45.52 1.52
30 31 4.798882 AGTTGACCATCCAACCAAGTTAA 58.201 39.130 0.00 0.00 45.52 2.01
31 32 4.447138 AGTTGACCATCCAACCAAGTTA 57.553 40.909 0.00 0.00 45.52 2.24
32 33 3.312736 AGTTGACCATCCAACCAAGTT 57.687 42.857 0.00 0.00 45.52 2.66
33 34 3.312736 AAGTTGACCATCCAACCAAGT 57.687 42.857 0.00 0.00 45.52 3.16
34 35 4.342092 AGAAAAGTTGACCATCCAACCAAG 59.658 41.667 0.00 0.00 45.52 3.61
35 36 4.285863 AGAAAAGTTGACCATCCAACCAA 58.714 39.130 0.00 0.00 45.52 3.67
36 37 3.888930 GAGAAAAGTTGACCATCCAACCA 59.111 43.478 0.00 0.00 45.52 3.67
37 38 3.255888 GGAGAAAAGTTGACCATCCAACC 59.744 47.826 0.00 0.00 45.52 3.77
38 39 3.058224 CGGAGAAAAGTTGACCATCCAAC 60.058 47.826 0.00 0.00 44.92 3.77
39 40 3.146066 CGGAGAAAAGTTGACCATCCAA 58.854 45.455 0.00 0.00 0.00 3.53
40 41 2.552155 CCGGAGAAAAGTTGACCATCCA 60.552 50.000 0.00 0.00 0.00 3.41
41 42 2.084546 CCGGAGAAAAGTTGACCATCC 58.915 52.381 0.00 0.00 0.00 3.51
42 43 2.484264 CACCGGAGAAAAGTTGACCATC 59.516 50.000 9.46 0.00 0.00 3.51
43 44 2.504367 CACCGGAGAAAAGTTGACCAT 58.496 47.619 9.46 0.00 0.00 3.55
44 45 1.961793 CACCGGAGAAAAGTTGACCA 58.038 50.000 9.46 0.00 0.00 4.02
45 46 0.591659 GCACCGGAGAAAAGTTGACC 59.408 55.000 9.46 0.00 0.00 4.02
46 47 1.305201 TGCACCGGAGAAAAGTTGAC 58.695 50.000 9.46 0.00 0.00 3.18
47 48 1.673920 GTTGCACCGGAGAAAAGTTGA 59.326 47.619 9.46 0.00 0.00 3.18
48 49 1.596954 CGTTGCACCGGAGAAAAGTTG 60.597 52.381 9.46 0.00 0.00 3.16
49 50 0.661020 CGTTGCACCGGAGAAAAGTT 59.339 50.000 9.46 0.00 0.00 2.66
50 51 1.782028 GCGTTGCACCGGAGAAAAGT 61.782 55.000 9.46 0.00 0.00 2.66
51 52 1.082104 GCGTTGCACCGGAGAAAAG 60.082 57.895 9.46 4.42 0.00 2.27
52 53 1.820056 TGCGTTGCACCGGAGAAAA 60.820 52.632 9.46 0.00 31.71 2.29
53 54 2.203084 TGCGTTGCACCGGAGAAA 60.203 55.556 9.46 0.00 31.71 2.52
62 63 2.437537 ATATGCCCGTGCGTTGCA 60.438 55.556 8.11 8.11 41.78 4.08
63 64 2.024588 CATATGCCCGTGCGTTGC 59.975 61.111 0.00 0.00 41.78 4.17
64 65 1.062365 CACATATGCCCGTGCGTTG 59.938 57.895 1.58 0.00 41.78 4.10
65 66 3.496711 CACATATGCCCGTGCGTT 58.503 55.556 1.58 0.00 41.78 4.84
75 76 7.604164 CCCCTTTTAGTATCACTAGCACATATG 59.396 40.741 0.00 0.00 31.47 1.78
76 77 7.512746 TCCCCTTTTAGTATCACTAGCACATAT 59.487 37.037 0.00 0.00 31.47 1.78
77 78 6.842280 TCCCCTTTTAGTATCACTAGCACATA 59.158 38.462 0.00 0.00 31.47 2.29
78 79 5.665812 TCCCCTTTTAGTATCACTAGCACAT 59.334 40.000 0.00 0.00 31.47 3.21
79 80 5.027460 TCCCCTTTTAGTATCACTAGCACA 58.973 41.667 0.00 0.00 31.47 4.57
80 81 5.358090 GTCCCCTTTTAGTATCACTAGCAC 58.642 45.833 0.00 0.00 31.47 4.40
81 82 4.407945 GGTCCCCTTTTAGTATCACTAGCA 59.592 45.833 0.00 0.00 31.47 3.49
82 83 4.654724 AGGTCCCCTTTTAGTATCACTAGC 59.345 45.833 0.00 0.00 31.47 3.42
83 84 5.453480 GCAGGTCCCCTTTTAGTATCACTAG 60.453 48.000 0.00 0.00 31.47 2.57
84 85 4.407945 GCAGGTCCCCTTTTAGTATCACTA 59.592 45.833 0.00 0.00 0.00 2.74
85 86 3.200165 GCAGGTCCCCTTTTAGTATCACT 59.800 47.826 0.00 0.00 0.00 3.41
86 87 3.542648 GCAGGTCCCCTTTTAGTATCAC 58.457 50.000 0.00 0.00 0.00 3.06
104 105 4.335647 AGCACGACCAAGGGGCAG 62.336 66.667 0.00 0.00 37.90 4.85
105 106 4.641645 CAGCACGACCAAGGGGCA 62.642 66.667 0.00 0.00 37.90 5.36
113 114 1.795286 CTGAAGAAGAACAGCACGACC 59.205 52.381 0.00 0.00 0.00 4.79
155 156 9.813446 TGGAATTTGGAAATTTCAAAATTTTGG 57.187 25.926 32.39 11.40 45.88 3.28
169 172 2.397044 ACCAGGCTGGAATTTGGAAA 57.603 45.000 38.99 0.00 40.96 3.13
172 175 5.930837 TTAATAACCAGGCTGGAATTTGG 57.069 39.130 38.99 13.08 40.96 3.28
196 199 9.342308 TGTGACTCTCTGACTAATTTGAATTTT 57.658 29.630 0.00 0.00 0.00 1.82
197 200 8.908786 TGTGACTCTCTGACTAATTTGAATTT 57.091 30.769 0.00 0.00 0.00 1.82
200 203 7.670364 TCATGTGACTCTCTGACTAATTTGAA 58.330 34.615 0.00 0.00 0.00 2.69
202 205 7.411264 CGTTCATGTGACTCTCTGACTAATTTG 60.411 40.741 0.00 0.00 0.00 2.32
204 207 6.096036 CGTTCATGTGACTCTCTGACTAATT 58.904 40.000 0.00 0.00 0.00 1.40
205 208 5.393569 CCGTTCATGTGACTCTCTGACTAAT 60.394 44.000 0.00 0.00 0.00 1.73
206 209 4.082733 CCGTTCATGTGACTCTCTGACTAA 60.083 45.833 0.00 0.00 0.00 2.24
207 210 3.440522 CCGTTCATGTGACTCTCTGACTA 59.559 47.826 0.00 0.00 0.00 2.59
208 211 2.230025 CCGTTCATGTGACTCTCTGACT 59.770 50.000 0.00 0.00 0.00 3.41
209 212 2.600731 CCGTTCATGTGACTCTCTGAC 58.399 52.381 0.00 0.00 0.00 3.51
210 213 1.546029 CCCGTTCATGTGACTCTCTGA 59.454 52.381 0.00 0.00 0.00 3.27
211 214 2.001812 CCCGTTCATGTGACTCTCTG 57.998 55.000 0.00 0.00 0.00 3.35
212 215 0.247736 GCCCGTTCATGTGACTCTCT 59.752 55.000 0.00 0.00 0.00 3.10
216 219 1.003355 CAGGCCCGTTCATGTGACT 60.003 57.895 0.00 0.00 0.00 3.41
229 232 3.011517 TTCTCTCCCCTGCAGGCC 61.012 66.667 28.39 0.00 0.00 5.19
239 242 1.270907 TTCTGTCCAGCCTTCTCTCC 58.729 55.000 0.00 0.00 0.00 3.71
253 256 4.081142 TCGTCAACCCATGTGATATTCTGT 60.081 41.667 0.00 0.00 0.00 3.41
254 257 4.441792 TCGTCAACCCATGTGATATTCTG 58.558 43.478 0.00 0.00 0.00 3.02
255 258 4.753516 TCGTCAACCCATGTGATATTCT 57.246 40.909 0.00 0.00 0.00 2.40
256 259 5.050091 GTCATCGTCAACCCATGTGATATTC 60.050 44.000 0.00 0.00 0.00 1.75
257 260 4.816385 GTCATCGTCAACCCATGTGATATT 59.184 41.667 0.00 0.00 0.00 1.28
258 261 4.380531 GTCATCGTCAACCCATGTGATAT 58.619 43.478 0.00 0.00 0.00 1.63
259 262 3.736740 CGTCATCGTCAACCCATGTGATA 60.737 47.826 0.00 0.00 0.00 2.15
260 263 2.632377 GTCATCGTCAACCCATGTGAT 58.368 47.619 0.00 0.00 0.00 3.06
261 264 1.671556 CGTCATCGTCAACCCATGTGA 60.672 52.381 0.00 0.00 0.00 3.58
262 265 0.721154 CGTCATCGTCAACCCATGTG 59.279 55.000 0.00 0.00 0.00 3.21
263 266 0.606096 TCGTCATCGTCAACCCATGT 59.394 50.000 0.00 0.00 38.33 3.21
264 267 1.135112 TCTCGTCATCGTCAACCCATG 60.135 52.381 0.00 0.00 38.33 3.66
265 268 1.135139 CTCTCGTCATCGTCAACCCAT 59.865 52.381 0.00 0.00 38.33 4.00
266 269 0.526211 CTCTCGTCATCGTCAACCCA 59.474 55.000 0.00 0.00 38.33 4.51
267 270 0.809385 TCTCTCGTCATCGTCAACCC 59.191 55.000 0.00 0.00 38.33 4.11
268 271 1.738350 TCTCTCTCGTCATCGTCAACC 59.262 52.381 0.00 0.00 38.33 3.77
269 272 3.046285 CTCTCTCTCGTCATCGTCAAC 57.954 52.381 0.00 0.00 38.33 3.18
657 660 1.265454 ACTCGTCCATCTGAACCCCC 61.265 60.000 0.00 0.00 0.00 5.40
658 661 0.108138 CACTCGTCCATCTGAACCCC 60.108 60.000 0.00 0.00 0.00 4.95
659 662 0.108138 CCACTCGTCCATCTGAACCC 60.108 60.000 0.00 0.00 0.00 4.11
660 663 0.895530 TCCACTCGTCCATCTGAACC 59.104 55.000 0.00 0.00 0.00 3.62
661 664 1.272490 TGTCCACTCGTCCATCTGAAC 59.728 52.381 0.00 0.00 0.00 3.18
662 665 1.272490 GTGTCCACTCGTCCATCTGAA 59.728 52.381 0.00 0.00 0.00 3.02
663 666 0.888619 GTGTCCACTCGTCCATCTGA 59.111 55.000 0.00 0.00 0.00 3.27
664 667 0.456824 CGTGTCCACTCGTCCATCTG 60.457 60.000 0.00 0.00 0.00 2.90
665 668 0.608308 TCGTGTCCACTCGTCCATCT 60.608 55.000 1.50 0.00 34.81 2.90
666 669 0.456221 ATCGTGTCCACTCGTCCATC 59.544 55.000 1.50 0.00 34.81 3.51
667 670 0.456221 GATCGTGTCCACTCGTCCAT 59.544 55.000 1.50 0.00 34.81 3.41
668 671 1.880894 GATCGTGTCCACTCGTCCA 59.119 57.895 1.50 0.00 34.81 4.02
687 690 2.649190 GAGATTTTTCTCTCCCCAGGC 58.351 52.381 0.00 0.00 36.47 4.85
728 731 2.739943 AGGGATCTGACAGTTCATCGA 58.260 47.619 14.08 0.00 0.00 3.59
762 765 4.269603 CCAGCTTAACAATCTCGTCTCATG 59.730 45.833 0.00 0.00 0.00 3.07
1002 1017 0.456312 GACCACCGTCGATGAGTGAC 60.456 60.000 20.93 13.50 33.21 3.67
1003 1018 0.608308 AGACCACCGTCGATGAGTGA 60.608 55.000 20.93 0.00 44.28 3.41
1005 1020 1.313812 GGAGACCACCGTCGATGAGT 61.314 60.000 6.11 0.11 44.28 3.41
1007 1022 2.404186 CGGAGACCACCGTCGATGA 61.404 63.158 6.11 0.00 46.70 2.92
1008 1023 2.102357 CGGAGACCACCGTCGATG 59.898 66.667 0.00 0.00 46.70 3.84
1082 1106 1.427072 CCGGGGCAGGGGAATAATCT 61.427 60.000 0.00 0.00 0.00 2.40
1128 1153 2.403252 ATCCTGCAAACCCGAAGTAG 57.597 50.000 0.00 0.00 0.00 2.57
1129 1154 2.568062 TGTATCCTGCAAACCCGAAGTA 59.432 45.455 0.00 0.00 0.00 2.24
1208 1256 0.033109 TCAAGATGGAGGGCGAGAGA 60.033 55.000 0.00 0.00 0.00 3.10
1253 1301 0.107654 GGATTCAGCGGCCTACAACT 60.108 55.000 0.00 0.00 0.00 3.16
1268 1321 2.878406 CGATTAGTCCGGCAAATGGATT 59.122 45.455 0.00 0.00 37.93 3.01
1307 1366 3.858989 GCTGCTTCTTCGCCTCGC 61.859 66.667 0.00 0.00 0.00 5.03
1331 1390 1.298157 GCGTGCCATTGTCAGCTACA 61.298 55.000 0.00 0.00 35.88 2.74
1706 1765 1.226435 GCAGACGAGCGAGTAGGTG 60.226 63.158 0.00 0.00 0.00 4.00
1925 1984 2.625617 GGACAGGATCAGGGAGAAGAGT 60.626 54.545 0.00 0.00 0.00 3.24
1969 2028 1.300931 GTGTCGCTCTTGAGCACCA 60.301 57.895 20.59 13.47 34.41 4.17
2363 2422 2.932614 CAGTATCTTCTTCACCTTGGCG 59.067 50.000 0.00 0.00 0.00 5.69
2432 2497 2.673368 GGCTAATTCCGTTCACTCTGTG 59.327 50.000 0.00 0.00 34.45 3.66
2444 2509 4.331717 TCAACTCGAATTTCGGCTAATTCC 59.668 41.667 18.02 0.00 40.01 3.01
2450 2515 2.028930 AGACTCAACTCGAATTTCGGCT 60.029 45.455 18.02 1.55 40.88 5.52
2455 2520 4.241681 GAGCAGAGACTCAACTCGAATTT 58.758 43.478 5.02 0.00 41.25 1.82
2482 2547 6.109156 TCTAGTAAAATCCAGACAGCACAA 57.891 37.500 0.00 0.00 0.00 3.33
2483 2548 5.738619 TCTAGTAAAATCCAGACAGCACA 57.261 39.130 0.00 0.00 0.00 4.57
2484 2549 6.256757 GTGATCTAGTAAAATCCAGACAGCAC 59.743 42.308 0.00 0.00 0.00 4.40
2485 2550 6.341316 GTGATCTAGTAAAATCCAGACAGCA 58.659 40.000 0.00 0.00 0.00 4.41
2486 2551 5.460419 CGTGATCTAGTAAAATCCAGACAGC 59.540 44.000 0.00 0.00 0.00 4.40
2487 2552 6.565234 ACGTGATCTAGTAAAATCCAGACAG 58.435 40.000 0.00 0.00 0.00 3.51
2488 2553 6.525578 ACGTGATCTAGTAAAATCCAGACA 57.474 37.500 0.00 0.00 0.00 3.41
2489 2554 7.829378 AAACGTGATCTAGTAAAATCCAGAC 57.171 36.000 0.00 0.00 0.00 3.51
2490 2555 7.333423 CCAAAACGTGATCTAGTAAAATCCAGA 59.667 37.037 0.00 0.00 0.00 3.86
2491 2556 7.333423 TCCAAAACGTGATCTAGTAAAATCCAG 59.667 37.037 0.00 0.00 0.00 3.86
2492 2557 7.162761 TCCAAAACGTGATCTAGTAAAATCCA 58.837 34.615 0.00 0.00 0.00 3.41
2493 2558 7.605410 TCCAAAACGTGATCTAGTAAAATCC 57.395 36.000 0.00 0.00 0.00 3.01
2500 2565 8.915036 ACTCTATATTCCAAAACGTGATCTAGT 58.085 33.333 0.00 0.00 0.00 2.57
2599 2664 5.449304 GTGACCGTATTTTGACCTTTCAAG 58.551 41.667 0.00 0.00 42.79 3.02
2600 2665 4.276431 GGTGACCGTATTTTGACCTTTCAA 59.724 41.667 0.00 0.00 40.14 2.69
2601 2666 3.816523 GGTGACCGTATTTTGACCTTTCA 59.183 43.478 0.00 0.00 0.00 2.69
2602 2667 3.120442 CGGTGACCGTATTTTGACCTTTC 60.120 47.826 17.28 0.00 42.73 2.62
2603 2668 2.809696 CGGTGACCGTATTTTGACCTTT 59.190 45.455 17.28 0.00 42.73 3.11
2604 2669 2.419667 CGGTGACCGTATTTTGACCTT 58.580 47.619 17.28 0.00 42.73 3.50
2605 2670 2.088950 CGGTGACCGTATTTTGACCT 57.911 50.000 17.28 0.00 42.73 3.85
2657 2722 5.989777 AGCGAAATACAATGGATACTGTACC 59.010 40.000 0.00 0.00 30.94 3.34
2662 3319 5.670485 TGTCAGCGAAATACAATGGATACT 58.330 37.500 0.00 0.00 37.61 2.12
2685 3937 3.319405 CAGTAGAGAGGTGTATTCGCCAT 59.681 47.826 4.63 0.00 45.81 4.40
2726 3998 2.159421 ACGCAGATAAGACGTTCGACAT 60.159 45.455 0.00 0.00 36.46 3.06
2839 4111 5.809001 AGTTGGAGATTCAAGTTAGCATCA 58.191 37.500 0.00 0.00 0.00 3.07
2868 4163 2.291282 TGAACTTCAAGTTGGGTGTGGT 60.291 45.455 7.75 0.00 38.80 4.16
2913 4208 2.040544 GCACCTGCTAACATGGCGT 61.041 57.895 0.00 0.00 38.21 5.68
3116 4413 0.179111 ATACATCGTGCCGACCAGTG 60.179 55.000 0.00 0.00 39.18 3.66
3273 4578 1.160137 GCAGAAAGAACATGCGGACT 58.840 50.000 0.00 0.00 0.00 3.85
3348 4663 3.478509 GCTCAATGAGAGGCATGAGATT 58.521 45.455 15.38 0.00 44.86 2.40
3361 4676 1.376683 CGTTTCCCCGGCTCAATGA 60.377 57.895 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.