Multiple sequence alignment - TraesCS3A01G413500

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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 TraesCS3A01G413500 chr3A 100.000 2338 0 0 1 2338 657101543 657099206 0.000000e+00 4318.0
1 TraesCS3A01G413500 chr3A 93.027 1176 46 14 839 1988 679486896 679485731 0.000000e+00 1685.0
2 TraesCS3A01G413500 chr3A 94.374 871 23 3 1 846 679487804 679486935 0.000000e+00 1314.0
3 TraesCS3A01G413500 chr3A 91.418 536 34 9 9 535 686680876 686681408 0.000000e+00 725.0
4 TraesCS3A01G413500 chr3A 90.873 252 20 3 2088 2338 679480645 679480396 3.720000e-88 335.0
5 TraesCS3A01G413500 chr3A 100.000 31 0 0 2017 2047 679485704 679485674 9.020000e-05 58.4
6 TraesCS3A01G413500 chr7B 95.403 1153 33 8 839 1988 598903665 598902530 0.000000e+00 1818.0
7 TraesCS3A01G413500 chr7B 95.226 1152 35 7 839 1988 643728664 643727531 0.000000e+00 1805.0
8 TraesCS3A01G413500 chr7B 95.154 1073 22 6 839 1906 644905669 644904622 0.000000e+00 1666.0
9 TraesCS3A01G413500 chr7B 96.378 911 26 5 839 1742 599262944 599262034 0.000000e+00 1493.0
10 TraesCS3A01G413500 chr7B 95.863 846 22 7 4 846 599263817 599262982 0.000000e+00 1356.0
11 TraesCS3A01G413500 chr7B 95.294 850 27 7 4 846 644906551 644905708 0.000000e+00 1336.0
12 TraesCS3A01G413500 chr7B 95.379 844 26 6 5 846 599299202 599298370 0.000000e+00 1330.0
13 TraesCS3A01G413500 chr7B 94.320 845 18 8 4 846 598904520 598903704 0.000000e+00 1267.0
14 TraesCS3A01G413500 chr7B 93.609 845 23 8 4 846 643729518 643728703 0.000000e+00 1232.0
15 TraesCS3A01G413500 chr7B 94.433 503 22 4 839 1335 599298332 599297830 0.000000e+00 769.0
16 TraesCS3A01G413500 chr7B 95.620 411 17 1 1333 1742 599278507 599278097 0.000000e+00 658.0
17 TraesCS3A01G413500 chr3D 94.459 1155 37 10 839 1988 542808724 542807592 0.000000e+00 1753.0
18 TraesCS3A01G413500 chr3D 94.374 871 24 2 1 846 542809633 542808763 0.000000e+00 1314.0
19 TraesCS3A01G413500 chr3D 92.029 276 20 2 2064 2338 542802498 542802224 1.010000e-103 387.0
20 TraesCS3A01G413500 chr3D 100.000 31 0 0 2017 2047 542807565 542807535 9.020000e-05 58.4
21 TraesCS3A01G413500 chr3B 97.278 845 16 4 4 846 718657297 718656458 0.000000e+00 1426.0
22 TraesCS3A01G413500 chr3B 97.521 484 11 1 1505 1988 718656043 718655561 0.000000e+00 826.0
23 TraesCS3A01G413500 chr3B 96.552 377 8 3 839 1210 718656419 718656043 9.180000e-174 619.0
24 TraesCS3A01G413500 chr1A 90.930 871 42 14 9 846 496824372 496823506 0.000000e+00 1136.0
25 TraesCS3A01G413500 chr1A 81.250 256 18 9 839 1081 498006723 498006961 1.850000e-41 180.0
26 TraesCS3A01G413500 chr1B 90.267 863 47 15 9 840 537469567 537468711 0.000000e+00 1094.0
27 TraesCS3A01G413500 chr1B 89.697 165 16 1 2167 2330 555781659 555781495 2.350000e-50 209.0
28 TraesCS3A01G413500 chr1D 90.249 482 19 5 384 840 402749312 402749790 2.570000e-169 604.0
29 TraesCS3A01G413500 chr1D 87.739 261 12 10 839 1081 402749835 402750093 1.060000e-73 287.0
30 TraesCS3A01G413500 chr1D 87.500 168 19 2 2165 2330 351478065 351477898 2.370000e-45 193.0
31 TraesCS3A01G413500 chr5D 77.876 565 91 21 1221 1765 10071480 10072030 1.040000e-83 320.0
32 TraesCS3A01G413500 chr5D 88.166 169 17 3 2172 2338 447897664 447897497 5.100000e-47 198.0
33 TraesCS3A01G413500 chr7D 77.273 572 87 29 1221 1765 625860421 625860976 1.760000e-76 296.0
34 TraesCS3A01G413500 chr2A 82.534 292 38 11 1491 1771 11801186 11800897 6.450000e-61 244.0
35 TraesCS3A01G413500 chr2A 88.166 169 18 2 2164 2330 772236117 772236285 1.420000e-47 200.0
36 TraesCS3A01G413500 chr5A 92.453 159 12 0 2172 2330 450561338 450561180 6.500000e-56 228.0
37 TraesCS3A01G413500 chr2D 90.798 163 11 2 2172 2330 131479964 131479802 5.060000e-52 215.0
38 TraesCS3A01G413500 chr7A 88.750 160 15 2 2174 2330 179888739 179888580 2.370000e-45 193.0
39 TraesCS3A01G413500 chr6B 94.118 102 6 0 2069 2170 400328477 400328376 3.110000e-34 156.0
40 TraesCS3A01G413500 chr6B 92.523 107 8 0 2064 2170 400333545 400333439 1.120000e-33 154.0


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 TraesCS3A01G413500 chr3A 657099206 657101543 2337 True 4318.000000 4318 100.000000 1 2338 1 chr3A.!!$R1 2337
1 TraesCS3A01G413500 chr3A 679485674 679487804 2130 True 1019.133333 1685 95.800333 1 2047 3 chr3A.!!$R3 2046
2 TraesCS3A01G413500 chr3A 686680876 686681408 532 False 725.000000 725 91.418000 9 535 1 chr3A.!!$F1 526
3 TraesCS3A01G413500 chr7B 598902530 598904520 1990 True 1542.500000 1818 94.861500 4 1988 2 chr7B.!!$R2 1984
4 TraesCS3A01G413500 chr7B 643727531 643729518 1987 True 1518.500000 1805 94.417500 4 1988 2 chr7B.!!$R5 1984
5 TraesCS3A01G413500 chr7B 644904622 644906551 1929 True 1501.000000 1666 95.224000 4 1906 2 chr7B.!!$R6 1902
6 TraesCS3A01G413500 chr7B 599262034 599263817 1783 True 1424.500000 1493 96.120500 4 1742 2 chr7B.!!$R3 1738
7 TraesCS3A01G413500 chr7B 599297830 599299202 1372 True 1049.500000 1330 94.906000 5 1335 2 chr7B.!!$R4 1330
8 TraesCS3A01G413500 chr3D 542807535 542809633 2098 True 1041.800000 1753 96.277667 1 2047 3 chr3D.!!$R2 2046
9 TraesCS3A01G413500 chr3B 718655561 718657297 1736 True 957.000000 1426 97.117000 4 1988 3 chr3B.!!$R1 1984
10 TraesCS3A01G413500 chr1A 496823506 496824372 866 True 1136.000000 1136 90.930000 9 846 1 chr1A.!!$R1 837
11 TraesCS3A01G413500 chr1B 537468711 537469567 856 True 1094.000000 1094 90.267000 9 840 1 chr1B.!!$R1 831
12 TraesCS3A01G413500 chr1D 402749312 402750093 781 False 445.500000 604 88.994000 384 1081 2 chr1D.!!$F1 697
13 TraesCS3A01G413500 chr5D 10071480 10072030 550 False 320.000000 320 77.876000 1221 1765 1 chr5D.!!$F1 544
14 TraesCS3A01G413500 chr7D 625860421 625860976 555 False 296.000000 296 77.273000 1221 1765 1 chr7D.!!$F1 544

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
778 844 3.742327 CGGTATTGATGATCTGTGTGGCT 60.742 47.826 0.0 0.0 0.0 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1999 2222 0.03254 CCTCTTGTGGTTTTGCCTGC 59.967 55.0 0.0 0.0 38.35 4.85 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
84 91 5.055812 TGGTTCAAATTTGACATGGCTTTC 58.944 37.500 20.35 3.85 36.83 2.62
191 201 4.769688 TGCTTCATAACAGGTGTATGGAG 58.230 43.478 0.00 0.00 31.58 3.86
409 424 5.261209 TGCATGTAACAGCAACTCTTTTT 57.739 34.783 0.00 0.00 37.90 1.94
463 478 5.473039 ACAGAAATTTGCATCAAGCTTACC 58.527 37.500 0.00 0.00 45.94 2.85
683 749 9.557061 CAAGAATCATCTCTCCTATTTCATTCA 57.443 33.333 0.00 0.00 33.77 2.57
771 837 4.502016 CCTGATCCGGTATTGATGATCTG 58.498 47.826 0.00 0.00 35.69 2.90
778 844 3.742327 CGGTATTGATGATCTGTGTGGCT 60.742 47.826 0.00 0.00 0.00 4.75
1063 1195 3.963687 TACGTCGAGGCGCTCCAGA 62.964 63.158 7.64 0.00 34.88 3.86
1094 1226 1.005630 GCAGTTGTCTCTGGTCGCT 60.006 57.895 0.00 0.00 36.12 4.93
1347 1512 2.905075 CATCCAAGTAGTCGATTGGCA 58.095 47.619 10.13 1.60 44.67 4.92
1495 1709 8.312669 AGGTAGCATGACTTCTTAGTAAGAAT 57.687 34.615 22.51 14.07 45.75 2.40
1781 2000 3.254166 AGAGTGCGAATTTGAATGCTTGT 59.746 39.130 0.00 0.00 0.00 3.16
1841 2062 7.341445 ACTGATACAGAGTGAGGATTAAGTC 57.659 40.000 5.76 0.00 35.18 3.01
1848 2071 5.065731 CAGAGTGAGGATTAAGTCATTTGCC 59.934 44.000 0.00 0.00 0.00 4.52
1865 2088 7.283127 GTCATTTGCCTTATGTGAGGATTAAGA 59.717 37.037 0.00 0.00 39.25 2.10
1991 2214 9.498176 AAATAATTGTAAGTCGAAGTTGTAGGT 57.502 29.630 0.00 0.00 0.00 3.08
1992 2215 9.498176 AATAATTGTAAGTCGAAGTTGTAGGTT 57.502 29.630 0.00 0.00 0.00 3.50
1993 2216 7.797038 AATTGTAAGTCGAAGTTGTAGGTTT 57.203 32.000 0.00 0.00 0.00 3.27
1994 2217 7.797038 ATTGTAAGTCGAAGTTGTAGGTTTT 57.203 32.000 0.00 0.00 0.00 2.43
1995 2218 6.592798 TGTAAGTCGAAGTTGTAGGTTTTG 57.407 37.500 0.00 0.00 0.00 2.44
1996 2219 6.108015 TGTAAGTCGAAGTTGTAGGTTTTGT 58.892 36.000 0.00 0.00 0.00 2.83
1997 2220 5.729974 AAGTCGAAGTTGTAGGTTTTGTC 57.270 39.130 0.00 0.00 0.00 3.18
1998 2221 4.761975 AGTCGAAGTTGTAGGTTTTGTCA 58.238 39.130 0.00 0.00 0.00 3.58
1999 2222 4.809426 AGTCGAAGTTGTAGGTTTTGTCAG 59.191 41.667 0.00 0.00 0.00 3.51
2000 2223 3.558418 TCGAAGTTGTAGGTTTTGTCAGC 59.442 43.478 0.00 0.00 0.00 4.26
2001 2224 3.311322 CGAAGTTGTAGGTTTTGTCAGCA 59.689 43.478 0.00 0.00 0.00 4.41
2002 2225 4.552767 CGAAGTTGTAGGTTTTGTCAGCAG 60.553 45.833 0.00 0.00 0.00 4.24
2003 2226 3.214328 AGTTGTAGGTTTTGTCAGCAGG 58.786 45.455 0.00 0.00 0.00 4.85
2058 2291 2.281970 CAGCCTGCAGGTGCTTGA 60.282 61.111 32.81 0.00 42.66 3.02
2059 2292 2.033757 AGCCTGCAGGTGCTTGAG 59.966 61.111 32.81 6.29 42.66 3.02
2060 2293 3.060615 GCCTGCAGGTGCTTGAGG 61.061 66.667 32.81 6.54 42.66 3.86
2061 2294 2.360852 CCTGCAGGTGCTTGAGGG 60.361 66.667 25.53 0.00 42.66 4.30
2062 2295 3.060615 CTGCAGGTGCTTGAGGGC 61.061 66.667 5.57 0.00 42.66 5.19
2063 2296 4.666253 TGCAGGTGCTTGAGGGCC 62.666 66.667 0.00 0.00 42.66 5.80
2065 2298 4.020617 CAGGTGCTTGAGGGCCGA 62.021 66.667 0.00 0.00 0.00 5.54
2066 2299 4.021925 AGGTGCTTGAGGGCCGAC 62.022 66.667 0.00 0.00 0.00 4.79
2095 2328 4.183686 GTCGCCGCCGCAGTAGTA 62.184 66.667 0.00 0.00 34.03 1.82
2096 2329 3.884350 TCGCCGCCGCAGTAGTAG 61.884 66.667 0.00 0.00 34.03 2.57
2097 2330 3.884350 CGCCGCCGCAGTAGTAGA 61.884 66.667 0.00 0.00 34.03 2.59
2098 2331 2.493030 GCCGCCGCAGTAGTAGAA 59.507 61.111 0.00 0.00 34.03 2.10
2099 2332 1.589196 GCCGCCGCAGTAGTAGAAG 60.589 63.158 0.00 0.00 34.03 2.85
2100 2333 1.065928 CCGCCGCAGTAGTAGAAGG 59.934 63.158 0.00 0.00 0.00 3.46
2101 2334 1.664321 CCGCCGCAGTAGTAGAAGGT 61.664 60.000 0.00 0.00 0.00 3.50
2102 2335 1.019673 CGCCGCAGTAGTAGAAGGTA 58.980 55.000 0.00 0.00 0.00 3.08
2103 2336 1.002684 CGCCGCAGTAGTAGAAGGTAG 60.003 57.143 0.00 0.00 0.00 3.18
2104 2337 1.269154 GCCGCAGTAGTAGAAGGTAGC 60.269 57.143 0.00 0.00 0.00 3.58
2105 2338 2.022195 CCGCAGTAGTAGAAGGTAGCA 58.978 52.381 0.00 0.00 0.00 3.49
2106 2339 2.033550 CCGCAGTAGTAGAAGGTAGCAG 59.966 54.545 0.00 0.00 0.00 4.24
2107 2340 2.033550 CGCAGTAGTAGAAGGTAGCAGG 59.966 54.545 0.00 0.00 0.00 4.85
2108 2341 2.362717 GCAGTAGTAGAAGGTAGCAGGG 59.637 54.545 0.00 0.00 0.00 4.45
2109 2342 3.899726 CAGTAGTAGAAGGTAGCAGGGA 58.100 50.000 0.00 0.00 0.00 4.20
2110 2343 4.475345 CAGTAGTAGAAGGTAGCAGGGAT 58.525 47.826 0.00 0.00 0.00 3.85
2111 2344 4.896482 CAGTAGTAGAAGGTAGCAGGGATT 59.104 45.833 0.00 0.00 0.00 3.01
2112 2345 6.069331 CAGTAGTAGAAGGTAGCAGGGATTA 58.931 44.000 0.00 0.00 0.00 1.75
2113 2346 6.207810 CAGTAGTAGAAGGTAGCAGGGATTAG 59.792 46.154 0.00 0.00 0.00 1.73
2114 2347 5.145513 AGTAGAAGGTAGCAGGGATTAGT 57.854 43.478 0.00 0.00 0.00 2.24
2115 2348 4.896482 AGTAGAAGGTAGCAGGGATTAGTG 59.104 45.833 0.00 0.00 0.00 2.74
2116 2349 3.995636 AGAAGGTAGCAGGGATTAGTGA 58.004 45.455 0.00 0.00 0.00 3.41
2117 2350 4.561752 AGAAGGTAGCAGGGATTAGTGAT 58.438 43.478 0.00 0.00 0.00 3.06
2118 2351 5.716979 AGAAGGTAGCAGGGATTAGTGATA 58.283 41.667 0.00 0.00 0.00 2.15
2119 2352 5.777732 AGAAGGTAGCAGGGATTAGTGATAG 59.222 44.000 0.00 0.00 0.00 2.08
2120 2353 5.340891 AGGTAGCAGGGATTAGTGATAGA 57.659 43.478 0.00 0.00 0.00 1.98
2121 2354 5.329399 AGGTAGCAGGGATTAGTGATAGAG 58.671 45.833 0.00 0.00 0.00 2.43
2122 2355 5.075205 AGGTAGCAGGGATTAGTGATAGAGA 59.925 44.000 0.00 0.00 0.00 3.10
2123 2356 5.775701 GGTAGCAGGGATTAGTGATAGAGAA 59.224 44.000 0.00 0.00 0.00 2.87
2124 2357 5.799827 AGCAGGGATTAGTGATAGAGAAC 57.200 43.478 0.00 0.00 0.00 3.01
2125 2358 5.211973 AGCAGGGATTAGTGATAGAGAACA 58.788 41.667 0.00 0.00 0.00 3.18
2126 2359 5.304101 AGCAGGGATTAGTGATAGAGAACAG 59.696 44.000 0.00 0.00 0.00 3.16
2127 2360 5.303078 GCAGGGATTAGTGATAGAGAACAGA 59.697 44.000 0.00 0.00 0.00 3.41
2128 2361 6.516527 GCAGGGATTAGTGATAGAGAACAGAG 60.517 46.154 0.00 0.00 0.00 3.35
2129 2362 6.775142 CAGGGATTAGTGATAGAGAACAGAGA 59.225 42.308 0.00 0.00 0.00 3.10
2130 2363 7.451255 CAGGGATTAGTGATAGAGAACAGAGAT 59.549 40.741 0.00 0.00 0.00 2.75
2131 2364 7.669722 AGGGATTAGTGATAGAGAACAGAGATC 59.330 40.741 0.00 0.00 0.00 2.75
2132 2365 7.450014 GGGATTAGTGATAGAGAACAGAGATCA 59.550 40.741 0.00 0.00 0.00 2.92
2133 2366 8.514594 GGATTAGTGATAGAGAACAGAGATCAG 58.485 40.741 0.00 0.00 0.00 2.90
2134 2367 7.815840 TTAGTGATAGAGAACAGAGATCAGG 57.184 40.000 0.00 0.00 0.00 3.86
2135 2368 5.139727 AGTGATAGAGAACAGAGATCAGGG 58.860 45.833 0.00 0.00 0.00 4.45
2136 2369 5.103728 AGTGATAGAGAACAGAGATCAGGGA 60.104 44.000 0.00 0.00 0.00 4.20
2137 2370 5.596361 GTGATAGAGAACAGAGATCAGGGAA 59.404 44.000 0.00 0.00 0.00 3.97
2138 2371 6.097554 GTGATAGAGAACAGAGATCAGGGAAA 59.902 42.308 0.00 0.00 0.00 3.13
2139 2372 6.843333 TGATAGAGAACAGAGATCAGGGAAAT 59.157 38.462 0.00 0.00 0.00 2.17
2140 2373 7.346698 TGATAGAGAACAGAGATCAGGGAAATT 59.653 37.037 0.00 0.00 0.00 1.82
2141 2374 8.789767 ATAGAGAACAGAGATCAGGGAAATTA 57.210 34.615 0.00 0.00 0.00 1.40
2142 2375 7.123355 AGAGAACAGAGATCAGGGAAATTAG 57.877 40.000 0.00 0.00 0.00 1.73
2143 2376 6.900186 AGAGAACAGAGATCAGGGAAATTAGA 59.100 38.462 0.00 0.00 0.00 2.10
2144 2377 6.883744 AGAACAGAGATCAGGGAAATTAGAC 58.116 40.000 0.00 0.00 0.00 2.59
2145 2378 6.671779 AGAACAGAGATCAGGGAAATTAGACT 59.328 38.462 0.00 0.00 0.00 3.24
2146 2379 6.882768 ACAGAGATCAGGGAAATTAGACTT 57.117 37.500 0.00 0.00 0.00 3.01
2147 2380 7.264294 ACAGAGATCAGGGAAATTAGACTTT 57.736 36.000 0.00 0.00 0.00 2.66
2148 2381 7.108847 ACAGAGATCAGGGAAATTAGACTTTG 58.891 38.462 0.00 0.00 0.00 2.77
2149 2382 7.108847 CAGAGATCAGGGAAATTAGACTTTGT 58.891 38.462 0.00 0.00 0.00 2.83
2150 2383 7.609532 CAGAGATCAGGGAAATTAGACTTTGTT 59.390 37.037 0.00 0.00 0.00 2.83
2151 2384 7.609532 AGAGATCAGGGAAATTAGACTTTGTTG 59.390 37.037 0.00 0.00 0.00 3.33
2152 2385 7.461749 AGATCAGGGAAATTAGACTTTGTTGA 58.538 34.615 0.00 0.00 0.00 3.18
2153 2386 8.112183 AGATCAGGGAAATTAGACTTTGTTGAT 58.888 33.333 0.00 0.00 0.00 2.57
2154 2387 8.655935 ATCAGGGAAATTAGACTTTGTTGATT 57.344 30.769 0.00 0.00 0.00 2.57
2155 2388 9.753674 ATCAGGGAAATTAGACTTTGTTGATTA 57.246 29.630 0.00 0.00 0.00 1.75
2156 2389 9.753674 TCAGGGAAATTAGACTTTGTTGATTAT 57.246 29.630 0.00 0.00 0.00 1.28
2159 2392 9.087424 GGGAAATTAGACTTTGTTGATTATTGC 57.913 33.333 0.00 0.00 0.00 3.56
2160 2393 9.860898 GGAAATTAGACTTTGTTGATTATTGCT 57.139 29.630 0.00 0.00 0.00 3.91
2163 2396 8.693542 ATTAGACTTTGTTGATTATTGCTTGC 57.306 30.769 0.00 0.00 0.00 4.01
2164 2397 5.473039 AGACTTTGTTGATTATTGCTTGCC 58.527 37.500 0.00 0.00 0.00 4.52
2165 2398 5.244626 AGACTTTGTTGATTATTGCTTGCCT 59.755 36.000 0.00 0.00 0.00 4.75
2166 2399 5.473039 ACTTTGTTGATTATTGCTTGCCTC 58.527 37.500 0.00 0.00 0.00 4.70
2167 2400 5.244626 ACTTTGTTGATTATTGCTTGCCTCT 59.755 36.000 0.00 0.00 0.00 3.69
2168 2401 6.434028 ACTTTGTTGATTATTGCTTGCCTCTA 59.566 34.615 0.00 0.00 0.00 2.43
2169 2402 6.832520 TTGTTGATTATTGCTTGCCTCTAA 57.167 33.333 0.00 0.00 0.00 2.10
2170 2403 6.832520 TGTTGATTATTGCTTGCCTCTAAA 57.167 33.333 0.00 0.00 0.00 1.85
2171 2404 7.225784 TGTTGATTATTGCTTGCCTCTAAAA 57.774 32.000 0.00 0.00 0.00 1.52
2172 2405 7.315142 TGTTGATTATTGCTTGCCTCTAAAAG 58.685 34.615 0.00 0.00 0.00 2.27
2178 2411 3.689309 GCTTGCCTCTAAAAGCATCTC 57.311 47.619 2.66 0.00 46.45 2.75
2179 2412 2.357323 GCTTGCCTCTAAAAGCATCTCC 59.643 50.000 2.66 0.00 46.45 3.71
2180 2413 3.614092 CTTGCCTCTAAAAGCATCTCCA 58.386 45.455 0.00 0.00 39.11 3.86
2181 2414 3.719268 TGCCTCTAAAAGCATCTCCAA 57.281 42.857 0.00 0.00 33.08 3.53
2182 2415 4.240881 TGCCTCTAAAAGCATCTCCAAT 57.759 40.909 0.00 0.00 33.08 3.16
2183 2416 5.372343 TGCCTCTAAAAGCATCTCCAATA 57.628 39.130 0.00 0.00 33.08 1.90
2184 2417 5.371526 TGCCTCTAAAAGCATCTCCAATAG 58.628 41.667 0.00 0.00 33.08 1.73
2185 2418 5.130975 TGCCTCTAAAAGCATCTCCAATAGA 59.869 40.000 0.00 0.00 39.02 1.98
2186 2419 6.058183 GCCTCTAAAAGCATCTCCAATAGAA 58.942 40.000 0.00 0.00 37.89 2.10
2187 2420 6.204495 GCCTCTAAAAGCATCTCCAATAGAAG 59.796 42.308 0.00 0.00 37.89 2.85
2188 2421 7.504403 CCTCTAAAAGCATCTCCAATAGAAGA 58.496 38.462 0.00 0.00 37.89 2.87
2189 2422 8.156165 CCTCTAAAAGCATCTCCAATAGAAGAT 58.844 37.037 0.00 0.00 37.89 2.40
2190 2423 8.899427 TCTAAAAGCATCTCCAATAGAAGATG 57.101 34.615 7.77 7.77 37.89 2.90
2191 2424 8.489489 TCTAAAAGCATCTCCAATAGAAGATGT 58.511 33.333 12.47 0.00 39.99 3.06
2192 2425 9.770097 CTAAAAGCATCTCCAATAGAAGATGTA 57.230 33.333 12.47 0.00 39.99 2.29
2193 2426 8.674263 AAAAGCATCTCCAATAGAAGATGTAG 57.326 34.615 12.47 0.00 39.99 2.74
2194 2427 7.609097 AAGCATCTCCAATAGAAGATGTAGA 57.391 36.000 12.47 0.00 39.99 2.59
2195 2428 7.795534 AGCATCTCCAATAGAAGATGTAGAT 57.204 36.000 12.47 0.00 39.99 1.98
2196 2429 7.839907 AGCATCTCCAATAGAAGATGTAGATC 58.160 38.462 12.47 0.00 39.99 2.75
2197 2430 7.041107 GCATCTCCAATAGAAGATGTAGATCC 58.959 42.308 12.47 0.00 39.99 3.36
2198 2431 7.310299 GCATCTCCAATAGAAGATGTAGATCCA 60.310 40.741 12.47 0.00 39.99 3.41
2199 2432 8.591940 CATCTCCAATAGAAGATGTAGATCCAA 58.408 37.037 0.00 0.00 37.89 3.53
2200 2433 8.553085 TCTCCAATAGAAGATGTAGATCCAAA 57.447 34.615 0.00 0.00 0.00 3.28
2201 2434 8.992349 TCTCCAATAGAAGATGTAGATCCAAAA 58.008 33.333 0.00 0.00 0.00 2.44
2202 2435 9.618890 CTCCAATAGAAGATGTAGATCCAAAAA 57.381 33.333 0.00 0.00 0.00 1.94
2221 2454 9.691362 TCCAAAAATAACTAACTTTTGCATCTC 57.309 29.630 0.00 0.00 38.26 2.75
2222 2455 8.925700 CCAAAAATAACTAACTTTTGCATCTCC 58.074 33.333 0.00 0.00 38.26 3.71
2223 2456 9.474920 CAAAAATAACTAACTTTTGCATCTCCA 57.525 29.630 0.00 0.00 34.37 3.86
2225 2458 9.696917 AAAATAACTAACTTTTGCATCTCCAAG 57.303 29.630 0.00 0.00 0.00 3.61
2226 2459 5.712152 AACTAACTTTTGCATCTCCAAGG 57.288 39.130 0.00 0.00 0.00 3.61
2227 2460 3.507622 ACTAACTTTTGCATCTCCAAGGC 59.492 43.478 0.00 0.00 0.00 4.35
2228 2461 1.260544 ACTTTTGCATCTCCAAGGCC 58.739 50.000 0.00 0.00 0.00 5.19
2229 2462 0.533951 CTTTTGCATCTCCAAGGCCC 59.466 55.000 0.00 0.00 0.00 5.80
2230 2463 0.178938 TTTTGCATCTCCAAGGCCCA 60.179 50.000 0.00 0.00 0.00 5.36
2231 2464 0.178938 TTTGCATCTCCAAGGCCCAA 60.179 50.000 0.00 0.00 0.00 4.12
2232 2465 0.178938 TTGCATCTCCAAGGCCCAAA 60.179 50.000 0.00 0.00 0.00 3.28
2233 2466 0.178938 TGCATCTCCAAGGCCCAAAA 60.179 50.000 0.00 0.00 0.00 2.44
2234 2467 0.247460 GCATCTCCAAGGCCCAAAAC 59.753 55.000 0.00 0.00 0.00 2.43
2235 2468 0.897621 CATCTCCAAGGCCCAAAACC 59.102 55.000 0.00 0.00 0.00 3.27
2236 2469 0.252239 ATCTCCAAGGCCCAAAACCC 60.252 55.000 0.00 0.00 0.00 4.11
2237 2470 1.156095 CTCCAAGGCCCAAAACCCT 59.844 57.895 0.00 0.00 0.00 4.34
2238 2471 0.471780 CTCCAAGGCCCAAAACCCTT 60.472 55.000 0.00 0.00 42.01 3.95
2239 2472 0.471022 TCCAAGGCCCAAAACCCTTC 60.471 55.000 0.00 0.00 39.36 3.46
2240 2473 0.762461 CCAAGGCCCAAAACCCTTCA 60.762 55.000 0.00 0.00 39.36 3.02
2241 2474 0.392706 CAAGGCCCAAAACCCTTCAC 59.607 55.000 0.00 0.00 39.36 3.18
2242 2475 0.762842 AAGGCCCAAAACCCTTCACC 60.763 55.000 0.00 0.00 36.78 4.02
2243 2476 1.458588 GGCCCAAAACCCTTCACCA 60.459 57.895 0.00 0.00 0.00 4.17
2244 2477 1.051556 GGCCCAAAACCCTTCACCAA 61.052 55.000 0.00 0.00 0.00 3.67
2245 2478 0.105964 GCCCAAAACCCTTCACCAAC 59.894 55.000 0.00 0.00 0.00 3.77
2246 2479 1.490574 CCCAAAACCCTTCACCAACA 58.509 50.000 0.00 0.00 0.00 3.33
2247 2480 1.412343 CCCAAAACCCTTCACCAACAG 59.588 52.381 0.00 0.00 0.00 3.16
2248 2481 2.383855 CCAAAACCCTTCACCAACAGA 58.616 47.619 0.00 0.00 0.00 3.41
2249 2482 2.965147 CCAAAACCCTTCACCAACAGAT 59.035 45.455 0.00 0.00 0.00 2.90
2250 2483 3.243839 CCAAAACCCTTCACCAACAGATG 60.244 47.826 0.00 0.00 0.00 2.90
2251 2484 3.593442 AAACCCTTCACCAACAGATGA 57.407 42.857 0.00 0.00 0.00 2.92
2252 2485 3.814504 AACCCTTCACCAACAGATGAT 57.185 42.857 0.00 0.00 0.00 2.45
2253 2486 3.077484 ACCCTTCACCAACAGATGATG 57.923 47.619 0.00 0.00 0.00 3.07
2254 2487 2.376518 ACCCTTCACCAACAGATGATGT 59.623 45.455 0.00 0.00 46.97 3.06
2255 2488 3.587061 ACCCTTCACCAACAGATGATGTA 59.413 43.478 0.00 0.00 43.00 2.29
2256 2489 4.194640 CCCTTCACCAACAGATGATGTAG 58.805 47.826 0.00 0.00 43.00 2.74
2257 2490 4.080919 CCCTTCACCAACAGATGATGTAGA 60.081 45.833 0.00 0.00 43.00 2.59
2258 2491 5.397221 CCCTTCACCAACAGATGATGTAGAT 60.397 44.000 0.00 0.00 43.00 1.98
2259 2492 5.526479 CCTTCACCAACAGATGATGTAGATG 59.474 44.000 0.00 0.00 43.00 2.90
2260 2493 4.445453 TCACCAACAGATGATGTAGATGC 58.555 43.478 0.00 0.00 43.00 3.91
2261 2494 4.080975 TCACCAACAGATGATGTAGATGCA 60.081 41.667 0.00 0.00 43.00 3.96
2262 2495 4.637091 CACCAACAGATGATGTAGATGCAA 59.363 41.667 0.00 0.00 43.00 4.08
2263 2496 5.124297 CACCAACAGATGATGTAGATGCAAA 59.876 40.000 0.00 0.00 43.00 3.68
2264 2497 5.711506 ACCAACAGATGATGTAGATGCAAAA 59.288 36.000 0.00 0.00 43.00 2.44
2265 2498 6.209192 ACCAACAGATGATGTAGATGCAAAAA 59.791 34.615 0.00 0.00 43.00 1.94
2284 2517 2.640316 AAATTACATCTCCGCCTCCC 57.360 50.000 0.00 0.00 0.00 4.30
2285 2518 0.393077 AATTACATCTCCGCCTCCCG 59.607 55.000 0.00 0.00 0.00 5.14
2294 2527 3.533720 CGCCTCCCGGAGATGTAA 58.466 61.111 16.69 0.00 30.72 2.41
2295 2528 1.820581 CGCCTCCCGGAGATGTAAA 59.179 57.895 16.69 0.00 30.72 2.01
2296 2529 0.529992 CGCCTCCCGGAGATGTAAAC 60.530 60.000 16.69 0.00 30.72 2.01
2297 2530 0.831307 GCCTCCCGGAGATGTAAACT 59.169 55.000 16.69 0.00 0.00 2.66
2298 2531 2.037144 GCCTCCCGGAGATGTAAACTA 58.963 52.381 16.69 0.00 0.00 2.24
2299 2532 2.223994 GCCTCCCGGAGATGTAAACTAC 60.224 54.545 16.69 0.00 0.00 2.73
2300 2533 3.028850 CCTCCCGGAGATGTAAACTACA 58.971 50.000 16.69 0.00 43.80 2.74
2301 2534 3.449737 CCTCCCGGAGATGTAAACTACAA 59.550 47.826 16.69 0.00 42.76 2.41
2302 2535 4.430908 CTCCCGGAGATGTAAACTACAAC 58.569 47.826 9.01 0.00 42.76 3.32
2303 2536 3.119388 TCCCGGAGATGTAAACTACAACG 60.119 47.826 0.73 0.00 42.76 4.10
2304 2537 2.601763 CCGGAGATGTAAACTACAACGC 59.398 50.000 0.00 0.00 42.76 4.84
2305 2538 2.601763 CGGAGATGTAAACTACAACGCC 59.398 50.000 6.74 6.74 44.13 5.68
2306 2539 3.675228 CGGAGATGTAAACTACAACGCCT 60.675 47.826 12.57 0.53 44.93 5.52
2307 2540 3.864003 GGAGATGTAAACTACAACGCCTC 59.136 47.826 8.82 5.52 44.17 4.70
2308 2541 3.508762 AGATGTAAACTACAACGCCTCG 58.491 45.455 0.00 0.00 42.76 4.63
2309 2542 1.421382 TGTAAACTACAACGCCTCGC 58.579 50.000 0.00 0.00 35.38 5.03
2310 2543 1.269673 TGTAAACTACAACGCCTCGCA 60.270 47.619 0.00 0.00 35.38 5.10
2311 2544 1.389106 GTAAACTACAACGCCTCGCAG 59.611 52.381 0.00 0.00 0.00 5.18
2312 2545 0.249741 AAACTACAACGCCTCGCAGT 60.250 50.000 0.00 0.00 0.00 4.40
2313 2546 0.944311 AACTACAACGCCTCGCAGTG 60.944 55.000 0.00 0.00 0.00 3.66
2314 2547 2.730672 CTACAACGCCTCGCAGTGC 61.731 63.158 4.58 4.58 0.00 4.40
2315 2548 3.507597 TACAACGCCTCGCAGTGCA 62.508 57.895 16.83 1.35 0.00 4.57
2316 2549 2.980213 TACAACGCCTCGCAGTGCAA 62.980 55.000 16.83 0.00 0.00 4.08
2317 2550 2.899838 AACGCCTCGCAGTGCAAA 60.900 55.556 16.83 1.04 0.00 3.68
2318 2551 2.260869 AACGCCTCGCAGTGCAAAT 61.261 52.632 16.83 0.00 0.00 2.32
2319 2552 1.795170 AACGCCTCGCAGTGCAAATT 61.795 50.000 16.83 0.00 0.00 1.82
2320 2553 1.081242 CGCCTCGCAGTGCAAATTT 60.081 52.632 16.83 0.00 0.00 1.82
2321 2554 1.339235 CGCCTCGCAGTGCAAATTTG 61.339 55.000 16.83 14.03 0.00 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 1.760480 GGGAGAGAGGTCAGAGGGC 60.760 68.421 0.00 0.00 0.00 5.19
84 91 6.151648 TCCTTTCTAAACCAAGCATCAATCAG 59.848 38.462 0.00 0.00 0.00 2.90
191 201 8.391106 CAGTTTATATGAGTCTACTTTTGTGCC 58.609 37.037 0.00 0.00 0.00 5.01
444 459 5.797051 ACATGGTAAGCTTGATGCAAATTT 58.203 33.333 9.86 0.00 45.94 1.82
463 478 4.892433 TGCCCTTACCAAAATTCAACATG 58.108 39.130 0.00 0.00 0.00 3.21
683 749 4.394300 GCATCAGCAGTACAGAAATTCAGT 59.606 41.667 0.00 0.00 41.58 3.41
1347 1512 2.243221 CAGGGGGTTCAGGATTCATCTT 59.757 50.000 0.00 0.00 0.00 2.40
1532 1746 9.528489 AATTGCTTAACCCTTTCAGTATCTAAA 57.472 29.630 0.00 0.00 0.00 1.85
1781 2000 6.677913 GCTGTAGCATTCTTCAAGGTAAAAA 58.322 36.000 0.00 0.00 41.59 1.94
1841 2062 7.572523 TCTTAATCCTCACATAAGGCAAATG 57.427 36.000 0.00 0.00 36.29 2.32
1848 2071 6.926272 GTGGTAGCTCTTAATCCTCACATAAG 59.074 42.308 0.00 0.00 0.00 1.73
1865 2088 3.806949 TTGGATTTTCTGGTGGTAGCT 57.193 42.857 0.00 0.00 0.00 3.32
1988 2211 1.484038 TTTGCCTGCTGACAAAACCT 58.516 45.000 2.64 0.00 33.06 3.50
1989 2212 2.307934 TTTTGCCTGCTGACAAAACC 57.692 45.000 12.55 0.00 39.99 3.27
1991 2214 1.552337 TGGTTTTGCCTGCTGACAAAA 59.448 42.857 12.55 12.55 41.97 2.44
1992 2215 1.134848 GTGGTTTTGCCTGCTGACAAA 60.135 47.619 0.98 0.98 38.35 2.83
1993 2216 0.459489 GTGGTTTTGCCTGCTGACAA 59.541 50.000 0.00 0.00 38.35 3.18
1994 2217 0.682532 TGTGGTTTTGCCTGCTGACA 60.683 50.000 0.00 0.00 38.35 3.58
1995 2218 0.459489 TTGTGGTTTTGCCTGCTGAC 59.541 50.000 0.00 0.00 38.35 3.51
1996 2219 0.746063 CTTGTGGTTTTGCCTGCTGA 59.254 50.000 0.00 0.00 38.35 4.26
1997 2220 0.746063 TCTTGTGGTTTTGCCTGCTG 59.254 50.000 0.00 0.00 38.35 4.41
1998 2221 1.035139 CTCTTGTGGTTTTGCCTGCT 58.965 50.000 0.00 0.00 38.35 4.24
1999 2222 0.032540 CCTCTTGTGGTTTTGCCTGC 59.967 55.000 0.00 0.00 38.35 4.85
2000 2223 1.691196 TCCTCTTGTGGTTTTGCCTG 58.309 50.000 0.00 0.00 38.35 4.85
2001 2224 2.629617 CAATCCTCTTGTGGTTTTGCCT 59.370 45.455 0.00 0.00 38.35 4.75
2002 2225 2.289010 CCAATCCTCTTGTGGTTTTGCC 60.289 50.000 0.00 0.00 37.90 4.52
2003 2226 2.365293 ACCAATCCTCTTGTGGTTTTGC 59.635 45.455 0.00 0.00 43.19 3.68
2048 2281 4.020617 TCGGCCCTCAAGCACCTG 62.021 66.667 0.00 0.00 0.00 4.00
2049 2282 4.021925 GTCGGCCCTCAAGCACCT 62.022 66.667 0.00 0.00 0.00 4.00
2078 2311 4.183686 TACTACTGCGGCGGCGAC 62.184 66.667 36.87 25.33 44.10 5.19
2079 2312 3.884350 CTACTACTGCGGCGGCGA 61.884 66.667 36.87 18.75 44.10 5.54
2080 2313 3.405592 TTCTACTACTGCGGCGGCG 62.406 63.158 28.70 28.70 44.10 6.46
2081 2314 1.589196 CTTCTACTACTGCGGCGGC 60.589 63.158 9.78 9.68 40.52 6.53
2082 2315 1.065928 CCTTCTACTACTGCGGCGG 59.934 63.158 9.78 7.39 0.00 6.13
2083 2316 1.002684 CTACCTTCTACTACTGCGGCG 60.003 57.143 0.51 0.51 0.00 6.46
2084 2317 1.269154 GCTACCTTCTACTACTGCGGC 60.269 57.143 0.00 0.00 0.00 6.53
2085 2318 2.022195 TGCTACCTTCTACTACTGCGG 58.978 52.381 0.00 0.00 0.00 5.69
2086 2319 2.033550 CCTGCTACCTTCTACTACTGCG 59.966 54.545 0.00 0.00 0.00 5.18
2087 2320 2.362717 CCCTGCTACCTTCTACTACTGC 59.637 54.545 0.00 0.00 0.00 4.40
2088 2321 3.899726 TCCCTGCTACCTTCTACTACTG 58.100 50.000 0.00 0.00 0.00 2.74
2089 2322 4.817874 ATCCCTGCTACCTTCTACTACT 57.182 45.455 0.00 0.00 0.00 2.57
2090 2323 6.016108 CACTAATCCCTGCTACCTTCTACTAC 60.016 46.154 0.00 0.00 0.00 2.73
2091 2324 6.069331 CACTAATCCCTGCTACCTTCTACTA 58.931 44.000 0.00 0.00 0.00 1.82
2092 2325 4.896482 CACTAATCCCTGCTACCTTCTACT 59.104 45.833 0.00 0.00 0.00 2.57
2093 2326 4.894114 TCACTAATCCCTGCTACCTTCTAC 59.106 45.833 0.00 0.00 0.00 2.59
2094 2327 5.138758 TCACTAATCCCTGCTACCTTCTA 57.861 43.478 0.00 0.00 0.00 2.10
2095 2328 3.995636 TCACTAATCCCTGCTACCTTCT 58.004 45.455 0.00 0.00 0.00 2.85
2096 2329 4.965200 ATCACTAATCCCTGCTACCTTC 57.035 45.455 0.00 0.00 0.00 3.46
2097 2330 5.716979 TCTATCACTAATCCCTGCTACCTT 58.283 41.667 0.00 0.00 0.00 3.50
2098 2331 5.075205 TCTCTATCACTAATCCCTGCTACCT 59.925 44.000 0.00 0.00 0.00 3.08
2099 2332 5.326069 TCTCTATCACTAATCCCTGCTACC 58.674 45.833 0.00 0.00 0.00 3.18
2100 2333 6.265649 TGTTCTCTATCACTAATCCCTGCTAC 59.734 42.308 0.00 0.00 0.00 3.58
2101 2334 6.373759 TGTTCTCTATCACTAATCCCTGCTA 58.626 40.000 0.00 0.00 0.00 3.49
2102 2335 5.211973 TGTTCTCTATCACTAATCCCTGCT 58.788 41.667 0.00 0.00 0.00 4.24
2103 2336 5.303078 TCTGTTCTCTATCACTAATCCCTGC 59.697 44.000 0.00 0.00 0.00 4.85
2104 2337 6.775142 TCTCTGTTCTCTATCACTAATCCCTG 59.225 42.308 0.00 0.00 0.00 4.45
2105 2338 6.916909 TCTCTGTTCTCTATCACTAATCCCT 58.083 40.000 0.00 0.00 0.00 4.20
2106 2339 7.450014 TGATCTCTGTTCTCTATCACTAATCCC 59.550 40.741 0.00 0.00 0.00 3.85
2107 2340 8.402798 TGATCTCTGTTCTCTATCACTAATCC 57.597 38.462 0.00 0.00 0.00 3.01
2108 2341 8.514594 CCTGATCTCTGTTCTCTATCACTAATC 58.485 40.741 0.00 0.00 0.00 1.75
2109 2342 7.451255 CCCTGATCTCTGTTCTCTATCACTAAT 59.549 40.741 0.00 0.00 0.00 1.73
2110 2343 6.775142 CCCTGATCTCTGTTCTCTATCACTAA 59.225 42.308 0.00 0.00 0.00 2.24
2111 2344 6.101881 TCCCTGATCTCTGTTCTCTATCACTA 59.898 42.308 0.00 0.00 0.00 2.74
2112 2345 5.103728 TCCCTGATCTCTGTTCTCTATCACT 60.104 44.000 0.00 0.00 0.00 3.41
2113 2346 5.136828 TCCCTGATCTCTGTTCTCTATCAC 58.863 45.833 0.00 0.00 0.00 3.06
2114 2347 5.394562 TCCCTGATCTCTGTTCTCTATCA 57.605 43.478 0.00 0.00 0.00 2.15
2115 2348 6.723298 TTTCCCTGATCTCTGTTCTCTATC 57.277 41.667 0.00 0.00 0.00 2.08
2116 2349 7.688918 AATTTCCCTGATCTCTGTTCTCTAT 57.311 36.000 0.00 0.00 0.00 1.98
2117 2350 8.061920 TCTAATTTCCCTGATCTCTGTTCTCTA 58.938 37.037 0.00 0.00 0.00 2.43
2118 2351 6.900186 TCTAATTTCCCTGATCTCTGTTCTCT 59.100 38.462 0.00 0.00 0.00 3.10
2119 2352 6.983890 GTCTAATTTCCCTGATCTCTGTTCTC 59.016 42.308 0.00 0.00 0.00 2.87
2120 2353 6.671779 AGTCTAATTTCCCTGATCTCTGTTCT 59.328 38.462 0.00 0.00 0.00 3.01
2121 2354 6.883744 AGTCTAATTTCCCTGATCTCTGTTC 58.116 40.000 0.00 0.00 0.00 3.18
2122 2355 6.882768 AGTCTAATTTCCCTGATCTCTGTT 57.117 37.500 0.00 0.00 0.00 3.16
2123 2356 6.882768 AAGTCTAATTTCCCTGATCTCTGT 57.117 37.500 0.00 0.00 0.00 3.41
2124 2357 7.108847 ACAAAGTCTAATTTCCCTGATCTCTG 58.891 38.462 0.00 0.00 0.00 3.35
2125 2358 7.264294 ACAAAGTCTAATTTCCCTGATCTCT 57.736 36.000 0.00 0.00 0.00 3.10
2126 2359 7.607991 TCAACAAAGTCTAATTTCCCTGATCTC 59.392 37.037 0.00 0.00 0.00 2.75
2127 2360 7.461749 TCAACAAAGTCTAATTTCCCTGATCT 58.538 34.615 0.00 0.00 0.00 2.75
2128 2361 7.687941 TCAACAAAGTCTAATTTCCCTGATC 57.312 36.000 0.00 0.00 0.00 2.92
2129 2362 8.655935 AATCAACAAAGTCTAATTTCCCTGAT 57.344 30.769 0.00 0.00 0.00 2.90
2130 2363 9.753674 ATAATCAACAAAGTCTAATTTCCCTGA 57.246 29.630 0.00 0.00 0.00 3.86
2133 2366 9.087424 GCAATAATCAACAAAGTCTAATTTCCC 57.913 33.333 0.00 0.00 0.00 3.97
2134 2367 9.860898 AGCAATAATCAACAAAGTCTAATTTCC 57.139 29.630 0.00 0.00 0.00 3.13
2137 2370 9.143631 GCAAGCAATAATCAACAAAGTCTAATT 57.856 29.630 0.00 0.00 0.00 1.40
2138 2371 7.761249 GGCAAGCAATAATCAACAAAGTCTAAT 59.239 33.333 0.00 0.00 0.00 1.73
2139 2372 7.039784 AGGCAAGCAATAATCAACAAAGTCTAA 60.040 33.333 0.00 0.00 0.00 2.10
2140 2373 6.434028 AGGCAAGCAATAATCAACAAAGTCTA 59.566 34.615 0.00 0.00 0.00 2.59
2141 2374 5.244626 AGGCAAGCAATAATCAACAAAGTCT 59.755 36.000 0.00 0.00 0.00 3.24
2142 2375 5.473039 AGGCAAGCAATAATCAACAAAGTC 58.527 37.500 0.00 0.00 0.00 3.01
2143 2376 5.244626 AGAGGCAAGCAATAATCAACAAAGT 59.755 36.000 0.00 0.00 0.00 2.66
2144 2377 5.717119 AGAGGCAAGCAATAATCAACAAAG 58.283 37.500 0.00 0.00 0.00 2.77
2145 2378 5.726980 AGAGGCAAGCAATAATCAACAAA 57.273 34.783 0.00 0.00 0.00 2.83
2146 2379 6.832520 TTAGAGGCAAGCAATAATCAACAA 57.167 33.333 0.00 0.00 0.00 2.83
2147 2380 6.832520 TTTAGAGGCAAGCAATAATCAACA 57.167 33.333 0.00 0.00 0.00 3.33
2148 2381 6.254373 GCTTTTAGAGGCAAGCAATAATCAAC 59.746 38.462 2.00 0.00 44.18 3.18
2149 2382 6.332630 GCTTTTAGAGGCAAGCAATAATCAA 58.667 36.000 2.00 0.00 44.18 2.57
2150 2383 5.894807 GCTTTTAGAGGCAAGCAATAATCA 58.105 37.500 2.00 0.00 44.18 2.57
2158 2391 2.357323 GGAGATGCTTTTAGAGGCAAGC 59.643 50.000 0.00 0.00 44.87 4.01
2159 2392 3.614092 TGGAGATGCTTTTAGAGGCAAG 58.386 45.455 0.00 0.00 41.90 4.01
2160 2393 3.719268 TGGAGATGCTTTTAGAGGCAA 57.281 42.857 0.00 0.00 41.90 4.52
2161 2394 3.719268 TTGGAGATGCTTTTAGAGGCA 57.281 42.857 0.00 0.00 42.80 4.75
2162 2395 5.615289 TCTATTGGAGATGCTTTTAGAGGC 58.385 41.667 0.00 0.00 0.00 4.70
2163 2396 7.504403 TCTTCTATTGGAGATGCTTTTAGAGG 58.496 38.462 0.00 0.00 32.88 3.69
2164 2397 8.991026 CATCTTCTATTGGAGATGCTTTTAGAG 58.009 37.037 11.80 0.00 32.88 2.43
2165 2398 8.489489 ACATCTTCTATTGGAGATGCTTTTAGA 58.511 33.333 21.24 0.00 41.11 2.10
2166 2399 8.674263 ACATCTTCTATTGGAGATGCTTTTAG 57.326 34.615 21.24 1.33 41.11 1.85
2167 2400 9.770097 CTACATCTTCTATTGGAGATGCTTTTA 57.230 33.333 21.24 8.64 41.11 1.52
2168 2401 8.489489 TCTACATCTTCTATTGGAGATGCTTTT 58.511 33.333 21.24 8.04 41.11 2.27
2169 2402 8.027524 TCTACATCTTCTATTGGAGATGCTTT 57.972 34.615 21.24 8.33 41.11 3.51
2170 2403 7.609097 TCTACATCTTCTATTGGAGATGCTT 57.391 36.000 21.24 8.93 41.11 3.91
2171 2404 7.093377 GGATCTACATCTTCTATTGGAGATGCT 60.093 40.741 21.24 12.93 44.12 3.79
2172 2405 7.041107 GGATCTACATCTTCTATTGGAGATGC 58.959 42.308 21.24 7.85 42.36 3.91
2173 2406 8.131847 TGGATCTACATCTTCTATTGGAGATG 57.868 38.462 20.12 20.12 42.36 2.90
2174 2407 8.733092 TTGGATCTACATCTTCTATTGGAGAT 57.267 34.615 0.00 0.00 44.46 2.75
2175 2408 8.553085 TTTGGATCTACATCTTCTATTGGAGA 57.447 34.615 0.00 0.00 37.23 3.71
2176 2409 9.618890 TTTTTGGATCTACATCTTCTATTGGAG 57.381 33.333 0.00 0.00 0.00 3.86
2195 2428 9.691362 GAGATGCAAAAGTTAGTTATTTTTGGA 57.309 29.630 10.58 8.64 43.10 3.53
2196 2429 8.925700 GGAGATGCAAAAGTTAGTTATTTTTGG 58.074 33.333 10.58 0.00 40.41 3.28
2197 2430 9.474920 TGGAGATGCAAAAGTTAGTTATTTTTG 57.525 29.630 5.72 5.72 42.03 2.44
2199 2432 9.696917 CTTGGAGATGCAAAAGTTAGTTATTTT 57.303 29.630 0.00 0.00 0.00 1.82
2200 2433 8.306761 CCTTGGAGATGCAAAAGTTAGTTATTT 58.693 33.333 0.00 0.00 0.00 1.40
2201 2434 7.577616 GCCTTGGAGATGCAAAAGTTAGTTATT 60.578 37.037 0.00 0.00 0.00 1.40
2202 2435 6.127619 GCCTTGGAGATGCAAAAGTTAGTTAT 60.128 38.462 0.00 0.00 0.00 1.89
2203 2436 5.183140 GCCTTGGAGATGCAAAAGTTAGTTA 59.817 40.000 0.00 0.00 0.00 2.24
2204 2437 4.021981 GCCTTGGAGATGCAAAAGTTAGTT 60.022 41.667 0.00 0.00 0.00 2.24
2205 2438 3.507622 GCCTTGGAGATGCAAAAGTTAGT 59.492 43.478 0.00 0.00 0.00 2.24
2206 2439 3.119352 GGCCTTGGAGATGCAAAAGTTAG 60.119 47.826 0.00 0.00 0.00 2.34
2207 2440 2.825532 GGCCTTGGAGATGCAAAAGTTA 59.174 45.455 0.00 0.00 0.00 2.24
2208 2441 1.620323 GGCCTTGGAGATGCAAAAGTT 59.380 47.619 0.00 0.00 0.00 2.66
2209 2442 1.260544 GGCCTTGGAGATGCAAAAGT 58.739 50.000 0.00 0.00 0.00 2.66
2210 2443 0.533951 GGGCCTTGGAGATGCAAAAG 59.466 55.000 0.84 0.00 0.00 2.27
2211 2444 0.178938 TGGGCCTTGGAGATGCAAAA 60.179 50.000 4.53 0.00 0.00 2.44
2212 2445 0.178938 TTGGGCCTTGGAGATGCAAA 60.179 50.000 4.53 0.00 0.00 3.68
2213 2446 0.178938 TTTGGGCCTTGGAGATGCAA 60.179 50.000 4.53 0.00 0.00 4.08
2214 2447 0.178938 TTTTGGGCCTTGGAGATGCA 60.179 50.000 4.53 0.00 0.00 3.96
2215 2448 0.247460 GTTTTGGGCCTTGGAGATGC 59.753 55.000 4.53 0.00 0.00 3.91
2216 2449 0.897621 GGTTTTGGGCCTTGGAGATG 59.102 55.000 4.53 0.00 0.00 2.90
2217 2450 0.252239 GGGTTTTGGGCCTTGGAGAT 60.252 55.000 4.53 0.00 0.00 2.75
2218 2451 1.155155 GGGTTTTGGGCCTTGGAGA 59.845 57.895 4.53 0.00 0.00 3.71
2219 2452 0.471780 AAGGGTTTTGGGCCTTGGAG 60.472 55.000 4.53 0.00 0.00 3.86
2220 2453 0.471022 GAAGGGTTTTGGGCCTTGGA 60.471 55.000 4.53 0.00 0.00 3.53
2221 2454 0.762461 TGAAGGGTTTTGGGCCTTGG 60.762 55.000 4.53 0.00 0.00 3.61
2222 2455 0.392706 GTGAAGGGTTTTGGGCCTTG 59.607 55.000 4.53 0.00 0.00 3.61
2223 2456 0.762842 GGTGAAGGGTTTTGGGCCTT 60.763 55.000 4.53 0.00 0.00 4.35
2224 2457 1.152333 GGTGAAGGGTTTTGGGCCT 60.152 57.895 4.53 0.00 0.00 5.19
2225 2458 1.051556 TTGGTGAAGGGTTTTGGGCC 61.052 55.000 0.00 0.00 0.00 5.80
2226 2459 0.105964 GTTGGTGAAGGGTTTTGGGC 59.894 55.000 0.00 0.00 0.00 5.36
2227 2460 1.412343 CTGTTGGTGAAGGGTTTTGGG 59.588 52.381 0.00 0.00 0.00 4.12
2228 2461 2.383855 TCTGTTGGTGAAGGGTTTTGG 58.616 47.619 0.00 0.00 0.00 3.28
2229 2462 3.636300 TCATCTGTTGGTGAAGGGTTTTG 59.364 43.478 0.00 0.00 0.00 2.44
2230 2463 3.909732 TCATCTGTTGGTGAAGGGTTTT 58.090 40.909 0.00 0.00 0.00 2.43
2231 2464 3.593442 TCATCTGTTGGTGAAGGGTTT 57.407 42.857 0.00 0.00 0.00 3.27
2232 2465 3.181429 ACATCATCTGTTGGTGAAGGGTT 60.181 43.478 6.01 0.00 38.89 4.11
2233 2466 2.376518 ACATCATCTGTTGGTGAAGGGT 59.623 45.455 6.01 0.00 38.89 4.34
2234 2467 3.077484 ACATCATCTGTTGGTGAAGGG 57.923 47.619 6.01 0.00 38.89 3.95
2235 2468 5.089970 TCTACATCATCTGTTGGTGAAGG 57.910 43.478 6.01 0.00 38.89 3.46
2236 2469 5.007430 GCATCTACATCATCTGTTGGTGAAG 59.993 44.000 6.01 0.00 42.24 3.02
2237 2470 4.877823 GCATCTACATCATCTGTTGGTGAA 59.122 41.667 6.01 0.00 42.24 3.18
2238 2471 4.080975 TGCATCTACATCATCTGTTGGTGA 60.081 41.667 6.01 0.00 42.24 4.02
2239 2472 4.193865 TGCATCTACATCATCTGTTGGTG 58.806 43.478 0.00 0.00 42.45 4.17
2240 2473 4.492494 TGCATCTACATCATCTGTTGGT 57.508 40.909 0.00 0.00 39.39 3.67
2241 2474 5.823209 TTTGCATCTACATCATCTGTTGG 57.177 39.130 0.00 0.00 39.39 3.77
2263 2496 3.288092 GGGAGGCGGAGATGTAATTTTT 58.712 45.455 0.00 0.00 0.00 1.94
2264 2497 2.745152 CGGGAGGCGGAGATGTAATTTT 60.745 50.000 0.00 0.00 0.00 1.82
2265 2498 1.202651 CGGGAGGCGGAGATGTAATTT 60.203 52.381 0.00 0.00 0.00 1.82
2266 2499 0.393077 CGGGAGGCGGAGATGTAATT 59.607 55.000 0.00 0.00 0.00 1.40
2267 2500 2.050269 CGGGAGGCGGAGATGTAAT 58.950 57.895 0.00 0.00 0.00 1.89
2268 2501 3.533720 CGGGAGGCGGAGATGTAA 58.466 61.111 0.00 0.00 0.00 2.41
2278 2511 4.752890 TGTAGTTTACATCTCCGGGAGGC 61.753 52.174 23.39 6.09 41.43 4.70
2279 2512 3.028850 TGTAGTTTACATCTCCGGGAGG 58.971 50.000 23.39 11.16 42.47 4.30
2280 2513 4.430908 GTTGTAGTTTACATCTCCGGGAG 58.569 47.826 18.25 18.25 38.68 4.30
2281 2514 3.119388 CGTTGTAGTTTACATCTCCGGGA 60.119 47.826 0.00 0.00 38.68 5.14
2282 2515 3.184541 CGTTGTAGTTTACATCTCCGGG 58.815 50.000 0.00 0.00 38.68 5.73
2283 2516 2.601763 GCGTTGTAGTTTACATCTCCGG 59.398 50.000 0.00 0.00 38.68 5.14
2284 2517 2.601763 GGCGTTGTAGTTTACATCTCCG 59.398 50.000 0.00 0.00 38.68 4.63
2285 2518 3.858247 AGGCGTTGTAGTTTACATCTCC 58.142 45.455 0.00 0.30 38.68 3.71
2286 2519 3.546670 CGAGGCGTTGTAGTTTACATCTC 59.453 47.826 0.00 0.00 38.68 2.75
2287 2520 3.508762 CGAGGCGTTGTAGTTTACATCT 58.491 45.455 0.00 0.00 38.68 2.90
2288 2521 2.028883 GCGAGGCGTTGTAGTTTACATC 59.971 50.000 0.00 0.00 38.68 3.06
2289 2522 1.997606 GCGAGGCGTTGTAGTTTACAT 59.002 47.619 0.00 0.00 38.68 2.29
2290 2523 1.269673 TGCGAGGCGTTGTAGTTTACA 60.270 47.619 0.00 0.00 36.79 2.41
2291 2524 1.389106 CTGCGAGGCGTTGTAGTTTAC 59.611 52.381 3.78 0.00 0.00 2.01
2292 2525 1.000060 ACTGCGAGGCGTTGTAGTTTA 60.000 47.619 11.14 0.00 0.00 2.01
2293 2526 0.249741 ACTGCGAGGCGTTGTAGTTT 60.250 50.000 11.14 0.00 0.00 2.66
2294 2527 0.944311 CACTGCGAGGCGTTGTAGTT 60.944 55.000 13.90 0.00 0.00 2.24
2295 2528 1.372997 CACTGCGAGGCGTTGTAGT 60.373 57.895 11.14 11.14 0.00 2.73
2296 2529 2.730672 GCACTGCGAGGCGTTGTAG 61.731 63.158 9.87 9.87 0.00 2.74
2297 2530 2.736995 GCACTGCGAGGCGTTGTA 60.737 61.111 0.00 0.00 0.00 2.41
2298 2531 4.908687 TGCACTGCGAGGCGTTGT 62.909 61.111 0.00 0.00 0.00 3.32
2299 2532 2.462255 ATTTGCACTGCGAGGCGTTG 62.462 55.000 0.00 0.00 0.00 4.10
2300 2533 1.795170 AATTTGCACTGCGAGGCGTT 61.795 50.000 0.00 0.00 0.00 4.84
2301 2534 1.795170 AAATTTGCACTGCGAGGCGT 61.795 50.000 0.00 0.00 0.00 5.68
2302 2535 1.081242 AAATTTGCACTGCGAGGCG 60.081 52.632 0.00 0.00 0.00 5.52
2303 2536 2.437850 CAAATTTGCACTGCGAGGC 58.562 52.632 5.01 0.00 0.00 4.70


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

AutoCloner maintained by Alex Coulton.