Multiple sequence alignment - TraesCS4A01G319100

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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 TraesCS4A01G319100 chr4A 100.000 2411 0 0 787 3197 608045078 608042668 0.000000e+00 4453
1 TraesCS4A01G319100 chr4A 100.000 308 0 0 1 308 608045864 608045557 1.290000e-158 569
2 TraesCS4A01G319100 chr5B 88.123 2147 152 52 949 3034 706852523 706854627 0.000000e+00 2457
3 TraesCS4A01G319100 chr5B 87.755 147 13 4 3043 3189 706855241 706855382 1.970000e-37 167
4 TraesCS4A01G319100 chr5B 78.903 237 29 12 1 229 706852045 706852268 1.200000e-29 141
5 TraesCS4A01G319100 chr5B 81.977 172 7 12 803 950 706852305 706852476 1.200000e-24 124
6 TraesCS4A01G319100 chr5D 93.002 1229 76 7 949 2176 564586898 564588117 0.000000e+00 1784
7 TraesCS4A01G319100 chr5D 86.446 605 45 24 2266 2851 564588157 564588743 2.090000e-176 628
8 TraesCS4A01G319100 chr5D 91.739 230 10 4 1 229 564586178 564586399 8.610000e-81 311
9 TraesCS4A01G319100 chr5D 86.452 155 12 7 805 950 564586706 564586860 9.180000e-36 161
10 TraesCS4A01G319100 chr3A 76.923 559 118 9 1598 2149 646685103 646685657 1.110000e-79 307
11 TraesCS4A01G319100 chr3D 75.623 562 120 12 1598 2149 508613989 508614543 2.450000e-66 263
12 TraesCS4A01G319100 chr7D 86.014 143 17 3 2894 3035 405114965 405115105 1.990000e-32 150
13 TraesCS4A01G319100 chr7D 85.315 143 18 3 2894 3035 404247108 404247248 9.240000e-31 145


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 TraesCS4A01G319100 chr4A 608042668 608045864 3196 True 2511.00 4453 100.00000 1 3197 2 chr4A.!!$R1 3196
1 TraesCS4A01G319100 chr5B 706852045 706855382 3337 False 722.25 2457 84.18950 1 3189 4 chr5B.!!$F1 3188
2 TraesCS4A01G319100 chr5D 564586178 564588743 2565 False 721.00 1784 89.40975 1 2851 4 chr5D.!!$F1 2850
3 TraesCS4A01G319100 chr3A 646685103 646685657 554 False 307.00 307 76.92300 1598 2149 1 chr3A.!!$F1 551
4 TraesCS4A01G319100 chr3D 508613989 508614543 554 False 263.00 263 75.62300 1598 2149 1 chr3D.!!$F1 551

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
118 124 0.040157 CCACATGTTTCACTGTGCCG 60.040 55.0 2.12 0.00 41.10 5.69 F
281 295 0.454285 GTGCACACACACACACACAC 60.454 55.0 13.17 0.00 46.61 3.82 F
1593 1965 0.244450 TTTACAGGGAGGTGTACGCG 59.756 55.0 3.53 3.53 32.53 6.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1501 1853 0.106167 ATGCTCTGCTTCCATGGCAT 60.106 50.0 6.96 1.04 39.07 4.40 R
2112 2487 0.461961 CCTCGAGGGTCTTCATGTCC 59.538 60.0 24.62 0.00 0.00 4.02 R
2446 2855 0.031178 GTGAGTGCCAAGGTTGCAAG 59.969 55.0 0.00 0.00 41.06 4.01 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
118 124 0.040157 CCACATGTTTCACTGTGCCG 60.040 55.000 2.12 0.00 41.10 5.69
160 166 2.060050 TTTGGTGTGTTGGTGGGTAG 57.940 50.000 0.00 0.00 0.00 3.18
161 167 1.214217 TTGGTGTGTTGGTGGGTAGA 58.786 50.000 0.00 0.00 0.00 2.59
163 169 1.053424 GGTGTGTTGGTGGGTAGAGA 58.947 55.000 0.00 0.00 0.00 3.10
166 172 2.301870 GTGTGTTGGTGGGTAGAGATGA 59.698 50.000 0.00 0.00 0.00 2.92
194 200 5.619626 GAATGTGGCAGAGAGCGATATTCC 61.620 50.000 9.30 0.00 46.41 3.01
203 209 0.530650 AGCGATATTCCGGCACACTG 60.531 55.000 0.00 0.00 0.00 3.66
204 210 1.934463 CGATATTCCGGCACACTGC 59.066 57.895 0.00 0.00 44.08 4.40
243 257 2.592993 CGCCCTCCCTCTCACCAAA 61.593 63.158 0.00 0.00 0.00 3.28
246 260 0.771127 CCCTCCCTCTCACCAAAACA 59.229 55.000 0.00 0.00 0.00 2.83
249 263 3.295973 CCTCCCTCTCACCAAAACAAAA 58.704 45.455 0.00 0.00 0.00 2.44
250 264 3.319122 CCTCCCTCTCACCAAAACAAAAG 59.681 47.826 0.00 0.00 0.00 2.27
253 267 3.491447 CCCTCTCACCAAAACAAAAGCAG 60.491 47.826 0.00 0.00 0.00 4.24
256 270 4.269183 TCTCACCAAAACAAAAGCAGAGA 58.731 39.130 0.00 0.00 0.00 3.10
257 271 4.704540 TCTCACCAAAACAAAAGCAGAGAA 59.295 37.500 0.00 0.00 0.00 2.87
258 272 5.184864 TCTCACCAAAACAAAAGCAGAGAAA 59.815 36.000 0.00 0.00 0.00 2.52
259 273 5.788450 TCACCAAAACAAAAGCAGAGAAAA 58.212 33.333 0.00 0.00 0.00 2.29
260 274 6.226787 TCACCAAAACAAAAGCAGAGAAAAA 58.773 32.000 0.00 0.00 0.00 1.94
261 275 6.878389 TCACCAAAACAAAAGCAGAGAAAAAT 59.122 30.769 0.00 0.00 0.00 1.82
262 276 6.962678 CACCAAAACAAAAGCAGAGAAAAATG 59.037 34.615 0.00 0.00 0.00 2.32
263 277 6.654582 ACCAAAACAAAAGCAGAGAAAAATGT 59.345 30.769 0.00 0.00 0.00 2.71
264 278 6.962678 CCAAAACAAAAGCAGAGAAAAATGTG 59.037 34.615 0.00 0.00 0.00 3.21
265 279 5.723492 AACAAAAGCAGAGAAAAATGTGC 57.277 34.783 0.00 0.00 39.65 4.57
266 280 4.757594 ACAAAAGCAGAGAAAAATGTGCA 58.242 34.783 0.00 0.00 41.69 4.57
267 281 4.567959 ACAAAAGCAGAGAAAAATGTGCAC 59.432 37.500 10.75 10.75 41.69 4.57
268 282 4.389890 AAAGCAGAGAAAAATGTGCACA 57.610 36.364 24.08 24.08 41.69 4.57
269 283 3.360249 AGCAGAGAAAAATGTGCACAC 57.640 42.857 24.37 9.18 41.69 3.82
270 284 2.689471 AGCAGAGAAAAATGTGCACACA 59.311 40.909 24.37 5.85 46.44 3.72
271 285 2.791004 GCAGAGAAAAATGTGCACACAC 59.209 45.455 24.37 11.60 45.05 3.82
279 293 4.763593 GTGCACACACACACACAC 57.236 55.556 13.17 0.00 46.61 3.82
280 294 1.872468 GTGCACACACACACACACA 59.128 52.632 13.17 0.00 46.61 3.72
281 295 0.454285 GTGCACACACACACACACAC 60.454 55.000 13.17 0.00 46.61 3.82
282 296 0.886490 TGCACACACACACACACACA 60.886 50.000 0.00 0.00 0.00 3.72
283 297 0.454285 GCACACACACACACACACAC 60.454 55.000 0.00 0.00 0.00 3.82
284 298 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
285 299 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
286 300 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
287 301 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
288 302 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
289 303 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
290 304 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
291 305 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
292 306 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
293 307 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
294 308 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
295 309 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
296 310 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
297 311 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
298 312 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
299 313 1.136000 CACACACACACACACACACAG 60.136 52.381 0.00 0.00 0.00 3.66
300 314 1.270571 ACACACACACACACACACAGA 60.271 47.619 0.00 0.00 0.00 3.41
301 315 1.394572 CACACACACACACACACAGAG 59.605 52.381 0.00 0.00 0.00 3.35
302 316 1.275010 ACACACACACACACACAGAGA 59.725 47.619 0.00 0.00 0.00 3.10
303 317 1.929169 CACACACACACACACAGAGAG 59.071 52.381 0.00 0.00 0.00 3.20
304 318 1.824852 ACACACACACACACAGAGAGA 59.175 47.619 0.00 0.00 0.00 3.10
305 319 2.159184 ACACACACACACACAGAGAGAG 60.159 50.000 0.00 0.00 0.00 3.20
306 320 2.099756 CACACACACACACAGAGAGAGA 59.900 50.000 0.00 0.00 0.00 3.10
307 321 2.360483 ACACACACACACAGAGAGAGAG 59.640 50.000 0.00 0.00 0.00 3.20
811 825 5.714863 AGAGAGAGAGAGAGAGAGAGAGAT 58.285 45.833 0.00 0.00 0.00 2.75
812 826 5.539574 AGAGAGAGAGAGAGAGAGAGAGATG 59.460 48.000 0.00 0.00 0.00 2.90
818 1090 3.713248 AGAGAGAGAGAGAGATGCAGAGA 59.287 47.826 0.00 0.00 0.00 3.10
823 1095 4.885907 AGAGAGAGAGATGCAGAGAGAAAG 59.114 45.833 0.00 0.00 0.00 2.62
832 1104 1.824230 GCAGAGAGAAAGCAGAGGAGA 59.176 52.381 0.00 0.00 0.00 3.71
834 1106 2.166254 CAGAGAGAAAGCAGAGGAGACC 59.834 54.545 0.00 0.00 0.00 3.85
837 1109 1.546476 GAGAAAGCAGAGGAGACCGAA 59.454 52.381 0.00 0.00 0.00 4.30
958 1307 1.728971 CACTGCACTCTCCATCGTTTC 59.271 52.381 0.00 0.00 0.00 2.78
961 1310 2.670414 CTGCACTCTCCATCGTTTCTTC 59.330 50.000 0.00 0.00 0.00 2.87
979 1328 2.002505 TCTCTGGCCTAGCATACTCC 57.997 55.000 3.32 0.00 0.00 3.85
1007 1359 1.141665 TCCAGTCGATCATGGTGCG 59.858 57.895 12.36 0.00 37.84 5.34
1126 1478 3.610619 CTGCACGTGCCCCTCATCA 62.611 63.158 35.72 15.05 41.18 3.07
1398 1750 3.020237 GCCGTGGAAGGAGACCCTC 62.020 68.421 0.00 0.00 43.48 4.30
1407 1759 3.942601 GAGACCCTCTCCTTCCGG 58.057 66.667 0.00 0.00 37.55 5.14
1503 1855 2.496899 AAGCACCCTTACCACTGATG 57.503 50.000 0.00 0.00 0.00 3.07
1505 1857 1.032114 GCACCCTTACCACTGATGCC 61.032 60.000 0.00 0.00 0.00 4.40
1507 1859 1.064463 CACCCTTACCACTGATGCCAT 60.064 52.381 0.00 0.00 0.00 4.40
1508 1860 1.064463 ACCCTTACCACTGATGCCATG 60.064 52.381 0.00 0.00 0.00 3.66
1593 1965 0.244450 TTTACAGGGAGGTGTACGCG 59.756 55.000 3.53 3.53 32.53 6.01
1911 2283 2.169789 CACCTTCATGGCGCTCTCG 61.170 63.158 7.64 0.00 40.22 4.04
2112 2487 2.509336 CAGAAGCACTACCGGGCG 60.509 66.667 6.32 0.00 34.54 6.13
2197 2578 0.681887 CCAGCCAGCCATGACATGAA 60.682 55.000 17.24 0.00 0.00 2.57
2207 2588 3.181483 GCCATGACATGAAGGATTGAACC 60.181 47.826 17.24 0.00 0.00 3.62
2221 2602 2.992847 TGAACCTACCAGACAGAGGA 57.007 50.000 0.00 0.00 34.24 3.71
2222 2603 3.474798 TGAACCTACCAGACAGAGGAT 57.525 47.619 0.00 0.00 34.24 3.24
2246 2627 3.017265 GCTCTCTGCTCTGCTCTAATC 57.983 52.381 0.00 0.00 38.95 1.75
2247 2628 2.624838 GCTCTCTGCTCTGCTCTAATCT 59.375 50.000 0.00 0.00 38.95 2.40
2248 2629 3.551454 GCTCTCTGCTCTGCTCTAATCTG 60.551 52.174 0.00 0.00 38.95 2.90
2249 2630 3.630168 TCTCTGCTCTGCTCTAATCTGT 58.370 45.455 0.00 0.00 0.00 3.41
2250 2631 4.786425 TCTCTGCTCTGCTCTAATCTGTA 58.214 43.478 0.00 0.00 0.00 2.74
2251 2632 5.384336 TCTCTGCTCTGCTCTAATCTGTAT 58.616 41.667 0.00 0.00 0.00 2.29
2252 2633 5.832595 TCTCTGCTCTGCTCTAATCTGTATT 59.167 40.000 0.00 0.00 0.00 1.89
2263 2644 5.158141 TCTAATCTGTATTGCTCCTCCCAT 58.842 41.667 0.00 0.00 0.00 4.00
2264 2645 4.803329 AATCTGTATTGCTCCTCCCATT 57.197 40.909 0.00 0.00 0.00 3.16
2312 2703 4.291783 AGACTGAGAAAAGAGAAACGTCG 58.708 43.478 0.00 0.00 0.00 5.12
2360 2758 6.711277 ACAGCTTAATTGGTTGATCTAGTGA 58.289 36.000 0.00 0.00 0.00 3.41
2374 2775 2.911280 GTGATAGCACGTACGCGC 59.089 61.111 20.08 20.08 42.83 6.86
2375 2776 2.649662 TGATAGCACGTACGCGCG 60.650 61.111 30.96 30.96 42.83 6.86
2394 2795 2.905075 CGTACCAAGAAGCATGGATGA 58.095 47.619 0.00 0.00 40.56 2.92
2428 2837 6.785337 TGATAATTTCCTAAGACCGAGTCA 57.215 37.500 6.78 0.00 34.60 3.41
2429 2838 7.361457 TGATAATTTCCTAAGACCGAGTCAT 57.639 36.000 6.78 0.00 34.60 3.06
2430 2839 7.434492 TGATAATTTCCTAAGACCGAGTCATC 58.566 38.462 6.78 0.00 34.60 2.92
2446 2855 3.076296 ATCGTCGTCGTCGTCGTCC 62.076 63.158 18.44 3.60 45.27 4.79
2452 2861 1.659335 GTCGTCGTCGTCCTTGCAA 60.659 57.895 0.00 0.00 38.33 4.08
2457 2866 0.878523 TCGTCGTCCTTGCAACCTTG 60.879 55.000 0.00 0.00 0.00 3.61
2460 2869 2.192861 CGTCCTTGCAACCTTGGCA 61.193 57.895 0.00 0.00 40.00 4.92
2461 2870 1.363807 GTCCTTGCAACCTTGGCAC 59.636 57.895 0.00 0.00 41.75 5.01
2462 2871 1.109323 GTCCTTGCAACCTTGGCACT 61.109 55.000 0.00 0.00 41.75 4.40
2463 2872 0.823356 TCCTTGCAACCTTGGCACTC 60.823 55.000 0.00 0.00 41.75 3.51
2464 2873 1.108727 CCTTGCAACCTTGGCACTCA 61.109 55.000 0.00 0.00 41.75 3.41
2465 2874 0.031178 CTTGCAACCTTGGCACTCAC 59.969 55.000 0.00 0.00 41.75 3.51
2466 2875 0.395586 TTGCAACCTTGGCACTCACT 60.396 50.000 0.00 0.00 41.75 3.41
2487 2904 1.597302 CATGAGCCATGAGCCGAGG 60.597 63.158 8.92 0.00 43.81 4.63
2517 2938 2.002018 ATGGTTTGTCGTGGGGTGGT 62.002 55.000 0.00 0.00 0.00 4.16
2518 2939 2.190841 GGTTTGTCGTGGGGTGGTG 61.191 63.158 0.00 0.00 0.00 4.17
2519 2940 2.517402 TTTGTCGTGGGGTGGTGC 60.517 61.111 0.00 0.00 0.00 5.01
2520 2941 3.050354 TTTGTCGTGGGGTGGTGCT 62.050 57.895 0.00 0.00 0.00 4.40
2521 2942 2.559922 TTTGTCGTGGGGTGGTGCTT 62.560 55.000 0.00 0.00 0.00 3.91
2522 2943 2.978010 GTCGTGGGGTGGTGCTTG 60.978 66.667 0.00 0.00 0.00 4.01
2523 2944 4.263572 TCGTGGGGTGGTGCTTGG 62.264 66.667 0.00 0.00 0.00 3.61
2525 2946 4.603535 GTGGGGTGGTGCTTGGCT 62.604 66.667 0.00 0.00 0.00 4.75
2526 2947 3.831637 TGGGGTGGTGCTTGGCTT 61.832 61.111 0.00 0.00 0.00 4.35
2527 2948 3.305516 GGGGTGGTGCTTGGCTTG 61.306 66.667 0.00 0.00 0.00 4.01
2528 2949 2.521708 GGGTGGTGCTTGGCTTGT 60.522 61.111 0.00 0.00 0.00 3.16
2529 2950 2.564721 GGGTGGTGCTTGGCTTGTC 61.565 63.158 0.00 0.00 0.00 3.18
2530 2951 1.827789 GGTGGTGCTTGGCTTGTCA 60.828 57.895 0.00 0.00 0.00 3.58
2580 3001 3.074412 CTGTGCCCGACTTTTCTATTGT 58.926 45.455 0.00 0.00 0.00 2.71
2684 3105 3.143675 TGCCGTTGCATCTCTTCTC 57.856 52.632 0.00 0.00 44.23 2.87
2685 3106 0.610174 TGCCGTTGCATCTCTTCTCT 59.390 50.000 0.00 0.00 44.23 3.10
2686 3107 1.002430 TGCCGTTGCATCTCTTCTCTT 59.998 47.619 0.00 0.00 44.23 2.85
2687 3108 1.663135 GCCGTTGCATCTCTTCTCTTC 59.337 52.381 0.00 0.00 37.47 2.87
2696 3117 3.674528 TCTCTTCTCTTCCACTTGCTG 57.325 47.619 0.00 0.00 0.00 4.41
2697 3121 2.075338 CTCTTCTCTTCCACTTGCTGC 58.925 52.381 0.00 0.00 0.00 5.25
2800 3243 4.524328 ACCAAGAACAACAGATTCCATTCC 59.476 41.667 0.00 0.00 0.00 3.01
2801 3244 4.523943 CCAAGAACAACAGATTCCATTCCA 59.476 41.667 0.00 0.00 0.00 3.53
2802 3245 5.186409 CCAAGAACAACAGATTCCATTCCAT 59.814 40.000 0.00 0.00 0.00 3.41
2803 3246 6.295462 CCAAGAACAACAGATTCCATTCCATT 60.295 38.462 0.00 0.00 0.00 3.16
2804 3247 6.521151 AGAACAACAGATTCCATTCCATTC 57.479 37.500 0.00 0.00 0.00 2.67
2812 3255 3.959535 TTCCATTCCATTCAACCAAGC 57.040 42.857 0.00 0.00 0.00 4.01
2827 3270 2.307098 ACCAAGCAAGGCATCTTCTACT 59.693 45.455 0.00 0.00 0.00 2.57
2828 3271 2.681848 CCAAGCAAGGCATCTTCTACTG 59.318 50.000 0.00 0.00 0.00 2.74
2829 3272 2.035530 AGCAAGGCATCTTCTACTGC 57.964 50.000 0.00 0.00 37.66 4.40
2830 3273 1.558756 AGCAAGGCATCTTCTACTGCT 59.441 47.619 0.00 0.00 38.45 4.24
2851 3294 8.903820 ACTGCTACTTTCTATGTGTTTTCTTTT 58.096 29.630 0.00 0.00 0.00 2.27
2854 3297 7.149128 GCTACTTTCTATGTGTTTTCTTTTGCG 60.149 37.037 0.00 0.00 0.00 4.85
2867 3318 7.806014 TGTTTTCTTTTGCGGTAATGTTATCTC 59.194 33.333 0.00 0.00 0.00 2.75
2873 3324 2.097541 GCGGTAATGTTATCTCGCGAAC 60.098 50.000 11.33 5.91 34.08 3.95
2890 3341 4.101448 CGTCAGCTGGGAAGGGGG 62.101 72.222 15.13 0.00 0.00 5.40
2903 3367 0.478507 AAGGGGGTGACACTTTCCTG 59.521 55.000 5.39 0.00 0.00 3.86
2905 3369 0.698818 GGGGGTGACACTTTCCTGAT 59.301 55.000 5.39 0.00 0.00 2.90
2914 3378 6.128254 GGTGACACTTTCCTGATAGTTTTAGC 60.128 42.308 5.39 0.00 0.00 3.09
2916 3380 6.650807 TGACACTTTCCTGATAGTTTTAGCTG 59.349 38.462 0.00 0.00 0.00 4.24
2917 3381 6.534634 ACACTTTCCTGATAGTTTTAGCTGT 58.465 36.000 0.00 0.00 0.00 4.40
2919 3383 6.650807 CACTTTCCTGATAGTTTTAGCTGTGA 59.349 38.462 0.00 0.00 0.00 3.58
2920 3384 7.335422 CACTTTCCTGATAGTTTTAGCTGTGAT 59.665 37.037 0.00 0.00 0.00 3.06
2921 3385 7.335422 ACTTTCCTGATAGTTTTAGCTGTGATG 59.665 37.037 0.00 0.00 0.00 3.07
2939 3403 4.805719 GTGATGCGAGATCAAATAGTGACA 59.194 41.667 0.00 0.00 39.72 3.58
2944 3408 5.700832 TGCGAGATCAAATAGTGACAGTTTT 59.299 36.000 0.00 0.00 39.72 2.43
2950 3414 9.442047 AGATCAAATAGTGACAGTTTTAGAAGG 57.558 33.333 0.00 0.00 39.72 3.46
2952 3416 8.833231 TCAAATAGTGACAGTTTTAGAAGGAG 57.167 34.615 0.00 0.00 0.00 3.69
2996 3460 7.934855 AATATCATGCTGTTCTGAAGAAACT 57.065 32.000 0.00 0.00 35.58 2.66
2997 3461 9.453572 AAATATCATGCTGTTCTGAAGAAACTA 57.546 29.630 0.00 0.00 35.58 2.24
2999 3463 5.858381 TCATGCTGTTCTGAAGAAACTACT 58.142 37.500 0.00 0.00 35.58 2.57
3021 3486 3.427573 ACCCCCATACAACTAAAACTGC 58.572 45.455 0.00 0.00 0.00 4.40
3034 3499 6.237313 ACTAAAACTGCCATCTAAACGTTC 57.763 37.500 0.00 0.00 0.00 3.95
3037 3502 0.373716 CTGCCATCTAAACGTTCGCC 59.626 55.000 0.00 0.00 0.00 5.54
3038 3503 1.347221 GCCATCTAAACGTTCGCCG 59.653 57.895 0.00 0.00 44.03 6.46
3039 3504 2.003672 CCATCTAAACGTTCGCCGG 58.996 57.895 0.00 0.00 42.24 6.13
3040 3505 1.347221 CATCTAAACGTTCGCCGGC 59.653 57.895 19.07 19.07 42.24 6.13
3041 3506 1.082117 CATCTAAACGTTCGCCGGCT 61.082 55.000 26.68 6.03 42.24 5.52
3056 4126 1.196012 CGGCTAAGAGGGTCCTTCTT 58.804 55.000 19.29 19.29 0.00 2.52
3057 4127 1.137282 CGGCTAAGAGGGTCCTTCTTC 59.863 57.143 18.94 6.70 0.00 2.87
3058 4128 1.137282 GGCTAAGAGGGTCCTTCTTCG 59.863 57.143 18.94 14.16 0.00 3.79
3060 4130 2.159212 GCTAAGAGGGTCCTTCTTCGTC 60.159 54.545 18.94 6.76 0.00 4.20
3062 4132 2.312424 AGAGGGTCCTTCTTCGTCTT 57.688 50.000 0.00 0.00 0.00 3.01
3063 4133 2.610873 AGAGGGTCCTTCTTCGTCTTT 58.389 47.619 0.00 0.00 0.00 2.52
3064 4134 2.973406 AGAGGGTCCTTCTTCGTCTTTT 59.027 45.455 0.00 0.00 0.00 2.27
3065 4135 3.067833 GAGGGTCCTTCTTCGTCTTTTG 58.932 50.000 0.00 0.00 0.00 2.44
3066 4136 2.438392 AGGGTCCTTCTTCGTCTTTTGT 59.562 45.455 0.00 0.00 0.00 2.83
3067 4137 2.806818 GGGTCCTTCTTCGTCTTTTGTC 59.193 50.000 0.00 0.00 0.00 3.18
3072 4142 3.365364 CCTTCTTCGTCTTTTGTCATGGC 60.365 47.826 0.00 0.00 0.00 4.40
3077 4147 1.791555 CGTCTTTTGTCATGGCGATGC 60.792 52.381 3.45 0.27 29.15 3.91
3081 4151 2.565210 TTTGTCATGGCGATGCAATC 57.435 45.000 15.28 3.83 40.89 2.67
3082 4152 1.461559 TTGTCATGGCGATGCAATCA 58.538 45.000 3.45 0.00 45.97 2.57
3085 4155 1.003116 GTCATGGCGATGCAATCAGAC 60.003 52.381 3.45 0.00 45.97 3.51
3093 4163 2.730934 ATGCAATCAGACCAGCATCT 57.269 45.000 0.00 0.00 43.67 2.90
3113 4183 7.535139 GCATCTAGCAAACATGGTAAGTAAAA 58.465 34.615 0.00 0.00 44.79 1.52
3132 4202 9.612066 AAGTAAAAATTTGGAAGAAGATGCAAA 57.388 25.926 0.00 0.00 43.35 3.68
3189 4259 3.269906 AGACAGGACAGATGTAGGTAGGT 59.730 47.826 0.00 0.00 0.00 3.08
3190 4260 4.477581 AGACAGGACAGATGTAGGTAGGTA 59.522 45.833 0.00 0.00 0.00 3.08
3191 4261 5.134679 AGACAGGACAGATGTAGGTAGGTAT 59.865 44.000 0.00 0.00 0.00 2.73
3192 4262 5.141182 ACAGGACAGATGTAGGTAGGTATG 58.859 45.833 0.00 0.00 0.00 2.39
3193 4263 5.141182 CAGGACAGATGTAGGTAGGTATGT 58.859 45.833 0.00 0.00 0.00 2.29
3194 4264 6.126273 ACAGGACAGATGTAGGTAGGTATGTA 60.126 42.308 0.00 0.00 0.00 2.29
3195 4265 6.948886 CAGGACAGATGTAGGTAGGTATGTAT 59.051 42.308 0.00 0.00 0.00 2.29
3196 4266 6.948886 AGGACAGATGTAGGTAGGTATGTATG 59.051 42.308 0.00 0.00 0.00 2.39
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 0.385098 GCGACGTGGGCTAAACAAAC 60.385 55.000 0.00 0.00 0.00 2.93
19 20 3.023591 GCAGCGACGTGGGCTAAAC 62.024 63.158 10.10 0.98 39.08 2.01
160 166 4.449131 TCTGCCACATTCATCTTCATCTC 58.551 43.478 0.00 0.00 0.00 2.75
161 167 4.163649 TCTCTGCCACATTCATCTTCATCT 59.836 41.667 0.00 0.00 0.00 2.90
163 169 4.452825 CTCTCTGCCACATTCATCTTCAT 58.547 43.478 0.00 0.00 0.00 2.57
166 172 2.641305 GCTCTCTGCCACATTCATCTT 58.359 47.619 0.00 0.00 35.15 2.40
187 193 0.810031 ACGCAGTGTGCCGGAATATC 60.810 55.000 5.05 0.00 42.51 1.63
203 209 4.612536 ACGCAAACAGCAGCACGC 62.613 61.111 0.00 0.00 46.13 5.34
204 210 2.723271 CACGCAAACAGCAGCACG 60.723 61.111 0.00 0.00 46.13 5.34
243 257 5.063817 GTGCACATTTTTCTCTGCTTTTGTT 59.936 36.000 13.17 0.00 0.00 2.83
246 260 4.567959 GTGTGCACATTTTTCTCTGCTTTT 59.432 37.500 24.69 0.00 0.00 2.27
249 263 2.689471 TGTGTGCACATTTTTCTCTGCT 59.311 40.909 24.69 0.00 36.21 4.24
250 264 2.791004 GTGTGTGCACATTTTTCTCTGC 59.209 45.455 24.69 6.31 43.97 4.26
262 276 0.454285 GTGTGTGTGTGTGTGTGCAC 60.454 55.000 10.75 10.75 45.44 4.57
263 277 0.886490 TGTGTGTGTGTGTGTGTGCA 60.886 50.000 0.00 0.00 0.00 4.57
264 278 0.454285 GTGTGTGTGTGTGTGTGTGC 60.454 55.000 0.00 0.00 0.00 4.57
265 279 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
266 280 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
267 281 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
268 282 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
269 283 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
270 284 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
271 285 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
272 286 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
273 287 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
274 288 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
275 289 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
276 290 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
277 291 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
278 292 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
279 293 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
280 294 1.155889 CTGTGTGTGTGTGTGTGTGT 58.844 50.000 0.00 0.00 0.00 3.72
281 295 1.394572 CTCTGTGTGTGTGTGTGTGTG 59.605 52.381 0.00 0.00 0.00 3.82
282 296 1.275010 TCTCTGTGTGTGTGTGTGTGT 59.725 47.619 0.00 0.00 0.00 3.72
283 297 1.929169 CTCTCTGTGTGTGTGTGTGTG 59.071 52.381 0.00 0.00 0.00 3.82
284 298 1.824852 TCTCTCTGTGTGTGTGTGTGT 59.175 47.619 0.00 0.00 0.00 3.72
285 299 2.099756 TCTCTCTCTGTGTGTGTGTGTG 59.900 50.000 0.00 0.00 0.00 3.82
286 300 2.360483 CTCTCTCTCTGTGTGTGTGTGT 59.640 50.000 0.00 0.00 0.00 3.72
287 301 3.010624 CTCTCTCTCTGTGTGTGTGTG 57.989 52.381 0.00 0.00 0.00 3.82
786 800 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
787 801 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
788 802 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
789 803 5.782047 CATCTCTCTCTCTCTCTCTCTCTC 58.218 50.000 0.00 0.00 0.00 3.20
811 825 1.549620 CTCCTCTGCTTTCTCTCTGCA 59.450 52.381 0.00 0.00 35.30 4.41
812 826 1.824230 TCTCCTCTGCTTTCTCTCTGC 59.176 52.381 0.00 0.00 0.00 4.26
818 1090 1.548269 CTTCGGTCTCCTCTGCTTTCT 59.452 52.381 0.00 0.00 0.00 2.52
823 1095 2.185608 GGCTTCGGTCTCCTCTGC 59.814 66.667 0.00 0.00 0.00 4.26
837 1109 2.855880 TTTTATACACGGCCGCGGCT 62.856 55.000 45.23 30.36 41.60 5.52
958 1307 2.298729 GGAGTATGCTAGGCCAGAGAAG 59.701 54.545 5.01 0.00 0.00 2.85
961 1310 0.600557 CGGAGTATGCTAGGCCAGAG 59.399 60.000 5.01 2.20 0.00 3.35
979 1328 0.246635 ATCGACTGGACCAAGAACCG 59.753 55.000 0.00 0.00 0.00 4.44
1038 1390 4.222847 GAGGGGATGTCCGACCGC 62.223 72.222 0.00 0.00 39.01 5.68
1042 1394 3.147595 CTGCGAGGGGATGTCCGA 61.148 66.667 0.00 0.00 36.71 4.55
1053 1405 1.817099 GGGCCAGATGAACTGCGAG 60.817 63.158 4.39 0.00 44.52 5.03
1116 1468 2.189499 GCCGATGTTGATGAGGGGC 61.189 63.158 0.00 0.00 0.00 5.80
1119 1471 2.537560 GCCGCCGATGTTGATGAGG 61.538 63.158 0.00 0.00 0.00 3.86
1126 1478 3.204827 GAGCATGCCGCCGATGTT 61.205 61.111 15.66 0.00 44.04 2.71
1489 1841 1.683943 CATGGCATCAGTGGTAAGGG 58.316 55.000 0.00 0.00 0.00 3.95
1498 1850 1.309950 CTCTGCTTCCATGGCATCAG 58.690 55.000 6.96 8.00 39.07 2.90
1499 1851 0.750546 GCTCTGCTTCCATGGCATCA 60.751 55.000 6.96 0.00 39.07 3.07
1500 1852 0.750546 TGCTCTGCTTCCATGGCATC 60.751 55.000 6.96 0.00 39.07 3.91
1501 1853 0.106167 ATGCTCTGCTTCCATGGCAT 60.106 50.000 6.96 1.04 39.07 4.40
1503 1855 0.465824 AGATGCTCTGCTTCCATGGC 60.466 55.000 6.96 0.00 33.95 4.40
1505 1857 2.753452 ACAAAGATGCTCTGCTTCCATG 59.247 45.455 2.51 0.00 33.95 3.66
1507 1859 2.574006 ACAAAGATGCTCTGCTTCCA 57.426 45.000 2.51 0.00 33.95 3.53
1508 1860 3.247173 CGATACAAAGATGCTCTGCTTCC 59.753 47.826 2.51 0.00 33.95 3.46
1547 1919 2.806608 TGGTTTCTTCGTCGTTAGCT 57.193 45.000 0.00 0.00 0.00 3.32
1911 2283 0.896226 AGCTCTTGTACCTCCCGTTC 59.104 55.000 0.00 0.00 0.00 3.95
1918 2290 0.545309 TGGAGGCAGCTCTTGTACCT 60.545 55.000 0.00 0.00 0.00 3.08
1944 2316 1.367840 GACCCTGCTGTTCACGACT 59.632 57.895 0.00 0.00 0.00 4.18
2112 2487 0.461961 CCTCGAGGGTCTTCATGTCC 59.538 60.000 24.62 0.00 0.00 4.02
2184 2565 3.657398 TCAATCCTTCATGTCATGGCT 57.343 42.857 12.90 0.00 0.00 4.75
2189 2570 4.288366 TGGTAGGTTCAATCCTTCATGTCA 59.712 41.667 0.00 0.00 38.86 3.58
2197 2578 3.772025 CTCTGTCTGGTAGGTTCAATCCT 59.228 47.826 0.00 0.00 41.20 3.24
2207 2588 1.686052 GCTCCATCCTCTGTCTGGTAG 59.314 57.143 0.00 0.00 0.00 3.18
2243 2624 4.803329 AATGGGAGGAGCAATACAGATT 57.197 40.909 0.00 0.00 0.00 2.40
2244 2625 4.263243 GCTAATGGGAGGAGCAATACAGAT 60.263 45.833 0.00 0.00 36.20 2.90
2245 2626 3.071602 GCTAATGGGAGGAGCAATACAGA 59.928 47.826 0.00 0.00 36.20 3.41
2246 2627 3.406764 GCTAATGGGAGGAGCAATACAG 58.593 50.000 0.00 0.00 36.20 2.74
2247 2628 2.106511 GGCTAATGGGAGGAGCAATACA 59.893 50.000 0.00 0.00 37.98 2.29
2248 2629 2.106511 TGGCTAATGGGAGGAGCAATAC 59.893 50.000 0.00 0.00 37.98 1.89
2249 2630 2.417652 TGGCTAATGGGAGGAGCAATA 58.582 47.619 0.00 0.00 37.98 1.90
2250 2631 1.225373 TGGCTAATGGGAGGAGCAAT 58.775 50.000 0.00 0.00 37.98 3.56
2251 2632 1.225373 ATGGCTAATGGGAGGAGCAA 58.775 50.000 0.00 0.00 37.98 3.91
2252 2633 1.133699 CAATGGCTAATGGGAGGAGCA 60.134 52.381 0.00 0.00 37.98 4.26
2263 2644 4.785301 AGCTAAGCTGAATCAATGGCTAA 58.215 39.130 0.00 0.00 37.57 3.09
2264 2645 4.428294 AGCTAAGCTGAATCAATGGCTA 57.572 40.909 0.00 0.00 37.57 3.93
2312 2703 6.686130 AATAATAACATTCGATCGACGGAC 57.314 37.500 19.26 0.00 42.82 4.79
2372 2773 0.739462 TCCATGCTTCTTGGTACGCG 60.739 55.000 3.53 3.53 35.64 6.01
2373 2774 1.331756 CATCCATGCTTCTTGGTACGC 59.668 52.381 0.00 0.00 35.64 4.42
2374 2775 2.905075 TCATCCATGCTTCTTGGTACG 58.095 47.619 0.00 0.00 35.64 3.67
2375 2776 5.841957 AATTCATCCATGCTTCTTGGTAC 57.158 39.130 0.00 0.00 35.64 3.34
2379 2780 5.593679 AGGAAATTCATCCATGCTTCTTG 57.406 39.130 0.00 0.00 42.27 3.02
2446 2855 0.031178 GTGAGTGCCAAGGTTGCAAG 59.969 55.000 0.00 0.00 41.06 4.01
2460 2869 3.487211 TGGCTCATGGCAGTGAGT 58.513 55.556 20.44 0.00 45.80 3.41
2517 2938 0.528924 GATGCATGACAAGCCAAGCA 59.471 50.000 2.46 0.00 43.51 3.91
2518 2939 0.815734 AGATGCATGACAAGCCAAGC 59.184 50.000 2.46 0.00 0.00 4.01
2519 2940 1.816835 ACAGATGCATGACAAGCCAAG 59.183 47.619 2.46 0.00 0.00 3.61
2520 2941 1.913778 ACAGATGCATGACAAGCCAA 58.086 45.000 2.46 0.00 0.00 4.52
2521 2942 1.913778 AACAGATGCATGACAAGCCA 58.086 45.000 2.46 0.00 0.00 4.75
2522 2943 2.490903 AGAAACAGATGCATGACAAGCC 59.509 45.455 2.46 0.00 0.00 4.35
2523 2944 3.057736 ACAGAAACAGATGCATGACAAGC 60.058 43.478 2.46 0.00 0.00 4.01
2524 2945 4.761235 ACAGAAACAGATGCATGACAAG 57.239 40.909 2.46 0.00 0.00 3.16
2525 2946 5.518848 AAACAGAAACAGATGCATGACAA 57.481 34.783 2.46 0.00 0.00 3.18
2526 2947 5.163530 ACAAAACAGAAACAGATGCATGACA 60.164 36.000 2.46 0.00 0.00 3.58
2527 2948 5.284079 ACAAAACAGAAACAGATGCATGAC 58.716 37.500 2.46 0.00 0.00 3.06
2528 2949 5.518848 ACAAAACAGAAACAGATGCATGA 57.481 34.783 2.46 0.00 0.00 3.07
2529 2950 4.380678 CGACAAAACAGAAACAGATGCATG 59.619 41.667 2.46 0.00 0.00 4.06
2530 2951 4.036734 ACGACAAAACAGAAACAGATGCAT 59.963 37.500 0.00 0.00 0.00 3.96
2683 3104 1.276421 GAGTAGGCAGCAAGTGGAAGA 59.724 52.381 0.00 0.00 0.00 2.87
2684 3105 1.277557 AGAGTAGGCAGCAAGTGGAAG 59.722 52.381 0.00 0.00 0.00 3.46
2685 3106 1.352083 AGAGTAGGCAGCAAGTGGAA 58.648 50.000 0.00 0.00 0.00 3.53
2686 3107 1.825474 GTAGAGTAGGCAGCAAGTGGA 59.175 52.381 0.00 0.00 0.00 4.02
2687 3108 1.827969 AGTAGAGTAGGCAGCAAGTGG 59.172 52.381 0.00 0.00 0.00 4.00
2696 3117 5.295950 TGTACATAGACGAGTAGAGTAGGC 58.704 45.833 0.00 0.00 0.00 3.93
2697 3121 6.930164 ACATGTACATAGACGAGTAGAGTAGG 59.070 42.308 8.32 0.00 0.00 3.18
2800 3243 2.232941 AGATGCCTTGCTTGGTTGAATG 59.767 45.455 0.00 0.00 0.00 2.67
2801 3244 2.532843 AGATGCCTTGCTTGGTTGAAT 58.467 42.857 0.00 0.00 0.00 2.57
2802 3245 1.999648 AGATGCCTTGCTTGGTTGAA 58.000 45.000 0.00 0.00 0.00 2.69
2803 3246 1.888512 GAAGATGCCTTGCTTGGTTGA 59.111 47.619 0.00 0.00 31.62 3.18
2804 3247 1.891150 AGAAGATGCCTTGCTTGGTTG 59.109 47.619 0.00 0.00 31.62 3.77
2812 3255 4.399004 AGTAGCAGTAGAAGATGCCTTG 57.601 45.455 0.00 0.00 43.60 3.61
2827 3270 7.647715 GCAAAAGAAAACACATAGAAAGTAGCA 59.352 33.333 0.00 0.00 0.00 3.49
2828 3271 7.149128 CGCAAAAGAAAACACATAGAAAGTAGC 60.149 37.037 0.00 0.00 0.00 3.58
2829 3272 7.323656 CCGCAAAAGAAAACACATAGAAAGTAG 59.676 37.037 0.00 0.00 0.00 2.57
2830 3273 7.136119 CCGCAAAAGAAAACACATAGAAAGTA 58.864 34.615 0.00 0.00 0.00 2.24
2851 3294 1.065851 TCGCGAGATAACATTACCGCA 59.934 47.619 3.71 0.00 42.34 5.69
2854 3297 3.111098 ACGTTCGCGAGATAACATTACC 58.889 45.455 9.59 0.00 44.71 2.85
2873 3324 4.101448 CCCCCTTCCCAGCTGACG 62.101 72.222 17.39 4.69 0.00 4.35
2890 3341 6.651225 AGCTAAAACTATCAGGAAAGTGTCAC 59.349 38.462 0.00 0.00 0.00 3.67
2903 3367 5.043903 TCTCGCATCACAGCTAAAACTATC 58.956 41.667 0.00 0.00 0.00 2.08
2905 3369 4.450082 TCTCGCATCACAGCTAAAACTA 57.550 40.909 0.00 0.00 0.00 2.24
2914 3378 5.045872 TCACTATTTGATCTCGCATCACAG 58.954 41.667 0.00 0.00 0.00 3.66
2916 3380 4.805719 TGTCACTATTTGATCTCGCATCAC 59.194 41.667 0.00 0.00 36.32 3.06
2917 3381 5.009854 TGTCACTATTTGATCTCGCATCA 57.990 39.130 0.00 0.00 36.32 3.07
2919 3383 5.016051 ACTGTCACTATTTGATCTCGCAT 57.984 39.130 0.00 0.00 36.32 4.73
2920 3384 4.456280 ACTGTCACTATTTGATCTCGCA 57.544 40.909 0.00 0.00 36.32 5.10
2921 3385 5.786401 AAACTGTCACTATTTGATCTCGC 57.214 39.130 0.00 0.00 36.32 5.03
2964 3428 6.541278 TCAGAACAGCATGATATTTTCTCCAG 59.459 38.462 0.00 0.00 39.69 3.86
2967 3431 8.206325 TCTTCAGAACAGCATGATATTTTCTC 57.794 34.615 0.00 0.00 39.69 2.87
2968 3432 8.571461 TTCTTCAGAACAGCATGATATTTTCT 57.429 30.769 0.00 0.00 39.69 2.52
2973 3437 8.263640 AGTAGTTTCTTCAGAACAGCATGATAT 58.736 33.333 0.00 0.00 39.69 1.63
2978 3442 6.166982 GGTAGTAGTTTCTTCAGAACAGCAT 58.833 40.000 0.00 0.00 33.13 3.79
2982 3446 4.285260 GGGGGTAGTAGTTTCTTCAGAACA 59.715 45.833 0.00 0.00 33.13 3.18
2996 3460 6.576840 GCAGTTTTAGTTGTATGGGGGTAGTA 60.577 42.308 0.00 0.00 0.00 1.82
2997 3461 5.805424 GCAGTTTTAGTTGTATGGGGGTAGT 60.805 44.000 0.00 0.00 0.00 2.73
2999 3463 4.568169 GGCAGTTTTAGTTGTATGGGGGTA 60.568 45.833 0.00 0.00 0.00 3.69
3021 3486 2.003672 CCGGCGAACGTTTAGATGG 58.996 57.895 9.30 2.11 42.24 3.51
3034 3499 4.222847 GGACCCTCTTAGCCGGCG 62.223 72.222 23.20 7.22 0.00 6.46
3037 3502 1.137282 GAAGAAGGACCCTCTTAGCCG 59.863 57.143 5.28 0.00 0.00 5.52
3038 3503 1.137282 CGAAGAAGGACCCTCTTAGCC 59.863 57.143 5.28 0.00 0.00 3.93
3039 3504 1.826096 ACGAAGAAGGACCCTCTTAGC 59.174 52.381 11.67 0.00 0.00 3.09
3040 3505 3.358118 AGACGAAGAAGGACCCTCTTAG 58.642 50.000 5.28 8.21 0.00 2.18
3041 3506 3.453059 AGACGAAGAAGGACCCTCTTA 57.547 47.619 5.28 0.00 0.00 2.10
3056 4126 1.731709 CATCGCCATGACAAAAGACGA 59.268 47.619 0.00 0.00 30.57 4.20
3057 4127 1.791555 GCATCGCCATGACAAAAGACG 60.792 52.381 0.00 0.00 30.57 4.18
3058 4128 1.199789 TGCATCGCCATGACAAAAGAC 59.800 47.619 0.00 0.00 30.57 3.01
3060 4130 2.350899 TTGCATCGCCATGACAAAAG 57.649 45.000 0.00 0.00 30.57 2.27
3062 4132 1.817447 TGATTGCATCGCCATGACAAA 59.183 42.857 0.00 0.00 32.98 2.83
3063 4133 1.402613 CTGATTGCATCGCCATGACAA 59.597 47.619 0.00 0.00 33.44 3.18
3064 4134 1.018910 CTGATTGCATCGCCATGACA 58.981 50.000 0.00 0.00 30.57 3.58
3065 4135 1.003116 GTCTGATTGCATCGCCATGAC 60.003 52.381 0.00 0.00 30.57 3.06
3066 4136 1.302366 GTCTGATTGCATCGCCATGA 58.698 50.000 0.00 0.00 30.57 3.07
3067 4137 0.309922 GGTCTGATTGCATCGCCATG 59.690 55.000 0.00 0.00 0.00 3.66
3072 4142 1.306148 ATGCTGGTCTGATTGCATCG 58.694 50.000 8.45 0.00 41.60 3.84
3077 4147 3.189618 TGCTAGATGCTGGTCTGATTG 57.810 47.619 0.00 0.00 43.37 2.67
3081 4151 2.703416 TGTTTGCTAGATGCTGGTCTG 58.297 47.619 0.00 0.00 43.37 3.51
3082 4152 3.276857 CATGTTTGCTAGATGCTGGTCT 58.723 45.455 0.00 0.00 43.37 3.85
3085 4155 2.372264 ACCATGTTTGCTAGATGCTGG 58.628 47.619 0.00 0.00 43.37 4.85
3093 4163 9.482627 CCAAATTTTTACTTACCATGTTTGCTA 57.517 29.630 0.00 0.00 0.00 3.49
3099 4169 9.981114 CTTCTTCCAAATTTTTACTTACCATGT 57.019 29.630 0.00 0.00 0.00 3.21


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

AutoCloner maintained by Alex Coulton.