Multiple sequence alignment - TraesCS3B01G464400

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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 TraesCS3B01G464400 chr3B 100.000 3355 0 0 1 3355 707243119 707239765 0.000000e+00 6196.0
1 TraesCS3B01G464400 chr3B 88.515 357 38 3 1302 1657 708311134 708310780 2.390000e-116 429.0
2 TraesCS3B01G464400 chr3B 84.935 385 54 3 1287 1669 707128690 707128308 1.460000e-103 387.0
3 TraesCS3B01G464400 chr3B 82.984 382 63 2 1284 1664 707122541 707122161 8.910000e-91 344.0
4 TraesCS3B01G464400 chr3B 76.938 529 99 16 1764 2284 708416207 708416720 2.550000e-71 279.0
5 TraesCS3B01G464400 chr3B 86.087 115 16 0 1032 1146 708311340 708311226 1.260000e-24 124.0
6 TraesCS3B01G464400 chr3D 91.879 1416 72 20 978 2378 535669257 535667870 0.000000e+00 1938.0
7 TraesCS3B01G464400 chr3D 93.658 473 21 5 2429 2894 535667870 535667400 0.000000e+00 699.0
8 TraesCS3B01G464400 chr3D 95.074 406 15 4 543 943 535669665 535669260 4.720000e-178 634.0
9 TraesCS3B01G464400 chr3D 94.412 340 14 4 2979 3315 535667394 535667057 4.960000e-143 518.0
10 TraesCS3B01G464400 chr3D 85.014 367 53 2 1290 1655 536164210 536164575 4.090000e-99 372.0
11 TraesCS3B01G464400 chr3D 82.443 393 64 5 1284 1673 535590040 535589650 4.150000e-89 339.0
12 TraesCS3B01G464400 chr3D 82.415 381 65 2 1285 1664 536206742 536207121 6.940000e-87 331.0
13 TraesCS3B01G464400 chr3D 80.378 423 76 4 1780 2199 535650463 535650045 6.990000e-82 315.0
14 TraesCS3B01G464400 chr3D 86.283 226 24 6 84 304 535670237 535670014 4.330000e-59 239.0
15 TraesCS3B01G464400 chr3D 85.039 127 19 0 1021 1147 536164024 536164150 2.720000e-26 130.0
16 TraesCS3B01G464400 chr3D 88.889 90 8 2 2892 2979 474976697 474976608 3.540000e-20 110.0
17 TraesCS3B01G464400 chr3A 91.026 1248 75 17 545 1760 670861557 670860315 0.000000e+00 1650.0
18 TraesCS3B01G464400 chr3A 89.356 1165 84 10 1741 2893 670860303 670859167 0.000000e+00 1428.0
19 TraesCS3B01G464400 chr3A 86.243 378 50 2 1281 1657 671661156 671660780 3.120000e-110 409.0
20 TraesCS3B01G464400 chr3A 83.173 416 63 4 1798 2210 671660768 671660357 1.140000e-99 374.0
21 TraesCS3B01G464400 chr3A 82.474 291 33 9 3016 3305 670858958 670858685 4.330000e-59 239.0
22 TraesCS3B01G464400 chr3A 87.826 115 14 0 1032 1146 671661328 671661214 5.840000e-28 135.0
23 TraesCS3B01G464400 chr3A 88.298 94 8 3 2885 2975 746207555 746207648 3.540000e-20 110.0
24 TraesCS3B01G464400 chr3A 82.569 109 14 3 313 417 605984044 605984151 1.280000e-14 91.6
25 TraesCS3B01G464400 chr6D 80.606 165 21 10 15 171 462312048 462312209 2.110000e-22 117.0
26 TraesCS3B01G464400 chr5D 90.588 85 7 1 2892 2975 118840385 118840301 9.840000e-21 111.0
27 TraesCS3B01G464400 chr5D 82.000 100 14 3 307 405 355218844 355218940 7.720000e-12 82.4
28 TraesCS3B01G464400 chr1A 88.889 90 9 1 2887 2975 589498368 589498457 3.540000e-20 110.0
29 TraesCS3B01G464400 chr1A 87.640 89 11 0 2889 2977 583302749 583302837 1.650000e-18 104.0
30 TraesCS3B01G464400 chr1A 81.928 83 10 2 306 386 516581601 516581522 7.770000e-07 65.8
31 TraesCS3B01G464400 chr6B 88.764 89 9 1 2889 2976 667394933 667394845 1.270000e-19 108.0
32 TraesCS3B01G464400 chr6B 79.042 167 22 9 15 171 704769799 704769962 5.920000e-18 102.0
33 TraesCS3B01G464400 chr4D 89.535 86 8 1 2891 2975 31338350 31338435 1.270000e-19 108.0
34 TraesCS3B01G464400 chr4D 89.362 47 2 3 232 275 238804757 238804803 4.680000e-04 56.5
35 TraesCS3B01G464400 chr1D 88.764 89 8 2 2892 2978 381152671 381152583 1.270000e-19 108.0
36 TraesCS3B01G464400 chr1B 80.986 142 17 6 2837 2975 141772013 141771879 1.650000e-18 104.0
37 TraesCS3B01G464400 chr5A 85.263 95 12 2 312 405 616920922 616920829 2.760000e-16 97.1
38 TraesCS3B01G464400 chr5A 83.824 68 8 3 322 386 513909247 513909314 1.010000e-05 62.1
39 TraesCS3B01G464400 chr5B 96.154 52 2 0 23 74 696347254 696347203 5.960000e-13 86.1
40 TraesCS3B01G464400 chr5B 92.308 52 4 0 23 74 696353344 696353293 1.290000e-09 75.0
41 TraesCS3B01G464400 chr2D 100.000 28 0 0 241 268 419802483 419802456 6.000000e-03 52.8


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3B01G464400 chr3B 707239765 707243119 3354 True 6196.000000 6196 100.000000 1 3355 1 chr3B.!!$R3 3354
1 TraesCS3B01G464400 chr3B 708416207 708416720 513 False 279.000000 279 76.938000 1764 2284 1 chr3B.!!$F1 520
2 TraesCS3B01G464400 chr3B 708310780 708311340 560 True 276.500000 429 87.301000 1032 1657 2 chr3B.!!$R4 625
3 TraesCS3B01G464400 chr3D 535667057 535670237 3180 True 805.600000 1938 92.261200 84 3315 5 chr3D.!!$R4 3231
4 TraesCS3B01G464400 chr3D 536164024 536164575 551 False 251.000000 372 85.026500 1021 1655 2 chr3D.!!$F2 634
5 TraesCS3B01G464400 chr3A 670858685 670861557 2872 True 1105.666667 1650 87.618667 545 3305 3 chr3A.!!$R1 2760
6 TraesCS3B01G464400 chr3A 671660357 671661328 971 True 306.000000 409 85.747333 1032 2210 3 chr3A.!!$R2 1178

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
792 921 0.391661 CTTGCCGTACACATGGAGCT 60.392 55.0 0.0 0.0 31.77 4.09 F
1150 1297 0.259938 ATCCAGCTTGGGGAATGGAC 59.740 55.0 0.0 0.0 44.28 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1946 2162 0.032678 CTACGCGCCATCTCCTCAAT 59.967 55.0 5.73 0.0 0.00 2.57 R
2398 2621 0.105964 TTCTAATAGCCGCATGCCGT 59.894 50.0 13.15 0.0 42.71 5.68 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
100 101 6.149640 TCGGTTACTTGCATGCTACATAAAAA 59.850 34.615 20.33 0.64 0.00 1.94
101 102 6.468956 CGGTTACTTGCATGCTACATAAAAAG 59.531 38.462 20.33 13.34 0.00 2.27
104 105 9.573133 GTTACTTGCATGCTACATAAAAAGATT 57.427 29.630 20.33 0.00 0.00 2.40
133 137 1.816074 TGGACCGGATACAGCAAAAC 58.184 50.000 9.46 0.00 0.00 2.43
138 142 3.219281 ACCGGATACAGCAAAACAAACT 58.781 40.909 9.46 0.00 0.00 2.66
141 145 6.174760 ACCGGATACAGCAAAACAAACTATA 58.825 36.000 9.46 0.00 0.00 1.31
273 279 8.893563 ATATGTGAAGTAAAAAGAAATGGGGA 57.106 30.769 0.00 0.00 0.00 4.81
276 282 6.490040 TGTGAAGTAAAAAGAAATGGGGAGAG 59.510 38.462 0.00 0.00 0.00 3.20
277 283 6.490381 GTGAAGTAAAAAGAAATGGGGAGAGT 59.510 38.462 0.00 0.00 0.00 3.24
351 416 3.820467 AGAAAATTGCACGGATCTCAACA 59.180 39.130 0.00 0.00 0.00 3.33
357 422 3.521560 TGCACGGATCTCAACATAAGAC 58.478 45.455 0.00 0.00 0.00 3.01
360 425 4.363999 CACGGATCTCAACATAAGACCTC 58.636 47.826 0.00 0.00 0.00 3.85
378 443 5.714333 AGACCTCATGAATATAGCATCGACT 59.286 40.000 0.00 0.00 0.00 4.18
386 451 6.385033 TGAATATAGCATCGACTGAGACATG 58.615 40.000 0.00 0.00 0.00 3.21
388 453 6.772360 ATATAGCATCGACTGAGACATGAT 57.228 37.500 0.00 0.00 0.00 2.45
405 473 5.885881 ACATGATGAAGTCTTAGTCGACTC 58.114 41.667 23.89 7.70 43.14 3.36
417 485 1.469308 AGTCGACTCGGACTTAGCAAG 59.531 52.381 13.58 0.00 44.65 4.01
420 488 1.469308 CGACTCGGACTTAGCAAGACT 59.531 52.381 3.37 0.00 0.00 3.24
421 489 2.676839 CGACTCGGACTTAGCAAGACTA 59.323 50.000 3.37 0.00 0.00 2.59
518 586 9.549509 CGTAGGAAATGTATTTTCGATGAAAAA 57.450 29.630 8.59 0.00 43.32 1.94
540 608 4.279145 ACAAATAACGAGCTCCCTAGAGA 58.721 43.478 8.47 0.00 43.39 3.10
543 611 0.396001 AACGAGCTCCCTAGAGACCC 60.396 60.000 8.47 0.00 43.39 4.46
544 612 1.283381 ACGAGCTCCCTAGAGACCCT 61.283 60.000 8.47 0.00 43.39 4.34
545 613 0.766131 CGAGCTCCCTAGAGACCCTA 59.234 60.000 8.47 0.00 43.39 3.53
547 615 0.854908 AGCTCCCTAGAGACCCTACC 59.145 60.000 0.00 0.00 43.39 3.18
548 616 0.854908 GCTCCCTAGAGACCCTACCT 59.145 60.000 0.00 0.00 43.39 3.08
617 735 0.684479 TCACCTCTGACCTCGGGATG 60.684 60.000 0.00 0.00 0.00 3.51
641 759 3.996614 GCCATTGGCCAGTACGTT 58.003 55.556 17.28 0.00 44.06 3.99
656 774 3.041940 GTTCGTCTGGTGGCCGTG 61.042 66.667 0.00 0.00 0.00 4.94
672 790 4.404394 TGGCCGTGAGAAAGTCAGAATATA 59.596 41.667 0.00 0.00 35.13 0.86
792 921 0.391661 CTTGCCGTACACATGGAGCT 60.392 55.000 0.00 0.00 31.77 4.09
898 1030 1.679305 AGATGCGGTCGACCTCACT 60.679 57.895 28.50 22.37 32.99 3.41
900 1032 0.802607 GATGCGGTCGACCTCACTTC 60.803 60.000 28.50 19.21 32.99 3.01
918 1050 4.621886 CACTTCGCAGAGGAGTTTAAGTAC 59.378 45.833 0.00 0.00 38.43 2.73
958 1090 1.225704 GCAGCATTGGCCTCTACCT 59.774 57.895 3.32 0.00 42.56 3.08
959 1091 0.817229 GCAGCATTGGCCTCTACCTC 60.817 60.000 3.32 0.00 42.56 3.85
960 1092 0.835941 CAGCATTGGCCTCTACCTCT 59.164 55.000 3.32 0.00 42.56 3.69
961 1093 2.042464 CAGCATTGGCCTCTACCTCTA 58.958 52.381 3.32 0.00 42.56 2.43
962 1094 2.043227 AGCATTGGCCTCTACCTCTAC 58.957 52.381 3.32 0.00 42.56 2.59
963 1095 1.070914 GCATTGGCCTCTACCTCTACC 59.929 57.143 3.32 0.00 0.00 3.18
966 1098 1.216064 TGGCCTCTACCTCTACCGTA 58.784 55.000 3.32 0.00 0.00 4.02
967 1099 1.565759 TGGCCTCTACCTCTACCGTAA 59.434 52.381 3.32 0.00 0.00 3.18
968 1100 2.228925 GGCCTCTACCTCTACCGTAAG 58.771 57.143 0.00 0.00 0.00 2.34
969 1101 2.422661 GGCCTCTACCTCTACCGTAAGT 60.423 54.545 0.00 0.00 0.00 2.24
970 1102 2.877786 GCCTCTACCTCTACCGTAAGTC 59.122 54.545 0.00 0.00 0.00 3.01
971 1103 3.433456 GCCTCTACCTCTACCGTAAGTCT 60.433 52.174 0.00 0.00 0.00 3.24
972 1104 4.202305 GCCTCTACCTCTACCGTAAGTCTA 60.202 50.000 0.00 0.00 0.00 2.59
973 1105 5.296748 CCTCTACCTCTACCGTAAGTCTAC 58.703 50.000 0.00 0.00 0.00 2.59
974 1106 5.070313 CCTCTACCTCTACCGTAAGTCTACT 59.930 48.000 0.00 0.00 0.00 2.57
990 1122 2.914756 TACTGCGGCTCCGGGTCATA 62.915 60.000 10.57 0.00 40.19 2.15
1075 1207 2.284921 CTCTCCTGCCCACCCTCA 60.285 66.667 0.00 0.00 0.00 3.86
1150 1297 0.259938 ATCCAGCTTGGGGAATGGAC 59.740 55.000 0.00 0.00 44.28 4.02
1208 1373 1.006220 CGGAAAAGGTTTGCCTGCC 60.006 57.895 0.00 0.00 46.33 4.85
1227 1392 4.293648 GGGGTTTGGGTTGTGCGC 62.294 66.667 0.00 0.00 0.00 6.09
1243 1422 1.524621 CGCCCAGGCCTGTCAATAG 60.525 63.158 30.63 14.33 37.98 1.73
1248 1427 2.420687 CCCAGGCCTGTCAATAGTTCTC 60.421 54.545 30.63 0.00 0.00 2.87
1251 1430 3.937706 CAGGCCTGTCAATAGTTCTCAAG 59.062 47.826 25.53 0.00 0.00 3.02
1267 1446 8.641499 AGTTCTCAAGATCTTACGAATTGATC 57.359 34.615 7.86 2.39 37.46 2.92
1454 1633 1.227380 GATCGCGCACCTCCTCAAT 60.227 57.895 8.75 0.00 0.00 2.57
1556 1735 1.078848 GTCCGCCAATGTCAGCTCT 60.079 57.895 0.00 0.00 0.00 4.09
1613 1792 3.333219 TGGGCCAAGCTCTCCCTG 61.333 66.667 2.13 0.00 40.69 4.45
1662 1844 4.062991 CAACTACCTTTTCACCGTAAGCT 58.937 43.478 0.00 0.00 0.00 3.74
1735 1918 9.743057 TTCAACAAGTGAACCAAAATGTAATAG 57.257 29.630 0.00 0.00 41.47 1.73
1760 1944 7.766278 AGGTTCAAACATACACACTCTGATATC 59.234 37.037 0.00 0.00 0.00 1.63
1928 2144 3.057736 GCTTCTACTACGTCAAGTCCACA 60.058 47.826 0.00 0.00 0.00 4.17
1953 2169 2.159014 CGGACGGTGGAAATATTGAGGA 60.159 50.000 0.00 0.00 0.00 3.71
2063 2282 2.096218 GCACATCAAGTTCGTGTTCCTC 60.096 50.000 0.00 0.00 33.13 3.71
2178 2397 0.539438 GGTGCATGACCTTGGGAACA 60.539 55.000 0.00 0.00 42.25 3.18
2179 2398 1.549203 GTGCATGACCTTGGGAACAT 58.451 50.000 0.00 0.00 42.32 2.71
2180 2399 1.203052 GTGCATGACCTTGGGAACATG 59.797 52.381 0.00 16.64 42.32 3.21
2222 2441 4.859304 ACTACACGAACAAGGTGATACA 57.141 40.909 0.00 0.00 38.73 2.29
2377 2600 0.766674 ATAGGGCTGGCGGTCCAATA 60.767 55.000 21.08 3.79 43.45 1.90
2378 2601 0.766674 TAGGGCTGGCGGTCCAATAT 60.767 55.000 21.08 0.00 43.45 1.28
2379 2602 1.152756 GGGCTGGCGGTCCAATATT 60.153 57.895 13.27 0.00 42.91 1.28
2380 2603 1.455383 GGGCTGGCGGTCCAATATTG 61.455 60.000 13.27 8.58 42.91 1.90
2381 2604 0.751643 GGCTGGCGGTCCAATATTGT 60.752 55.000 14.25 0.00 42.91 2.71
2382 2605 1.102978 GCTGGCGGTCCAATATTGTT 58.897 50.000 14.25 0.00 42.91 2.83
2383 2606 1.065551 GCTGGCGGTCCAATATTGTTC 59.934 52.381 14.25 6.63 42.91 3.18
2384 2607 1.676006 CTGGCGGTCCAATATTGTTCC 59.324 52.381 14.25 13.57 42.91 3.62
2385 2608 0.661020 GGCGGTCCAATATTGTTCCG 59.339 55.000 28.46 28.46 41.71 4.30
2386 2609 1.658994 GCGGTCCAATATTGTTCCGA 58.341 50.000 32.93 16.37 41.50 4.55
2387 2610 1.329599 GCGGTCCAATATTGTTCCGAC 59.670 52.381 32.93 23.51 41.50 4.79
2388 2611 2.901249 CGGTCCAATATTGTTCCGACT 58.099 47.619 28.70 0.00 41.50 4.18
2389 2612 2.864343 CGGTCCAATATTGTTCCGACTC 59.136 50.000 28.70 15.73 41.50 3.36
2390 2613 3.430374 CGGTCCAATATTGTTCCGACTCT 60.430 47.826 28.70 0.00 41.50 3.24
2391 2614 4.202080 CGGTCCAATATTGTTCCGACTCTA 60.202 45.833 28.70 0.00 41.50 2.43
2392 2615 5.290386 GGTCCAATATTGTTCCGACTCTAG 58.710 45.833 14.25 0.00 0.00 2.43
2393 2616 5.068723 GGTCCAATATTGTTCCGACTCTAGA 59.931 44.000 14.25 0.00 0.00 2.43
2394 2617 6.210078 GTCCAATATTGTTCCGACTCTAGAG 58.790 44.000 18.49 18.49 0.00 2.43
2395 2618 4.985409 CCAATATTGTTCCGACTCTAGAGC 59.015 45.833 19.97 11.34 0.00 4.09
2396 2619 2.853731 ATTGTTCCGACTCTAGAGCG 57.146 50.000 19.97 21.19 0.00 5.03
2397 2620 1.531423 TTGTTCCGACTCTAGAGCGT 58.469 50.000 24.80 9.47 0.00 5.07
2398 2621 2.391616 TGTTCCGACTCTAGAGCGTA 57.608 50.000 24.80 13.83 0.00 4.42
2399 2622 2.005451 TGTTCCGACTCTAGAGCGTAC 58.995 52.381 24.80 22.03 0.00 3.67
2400 2623 1.005137 GTTCCGACTCTAGAGCGTACG 60.005 57.143 24.80 20.76 0.00 3.67
2401 2624 0.529337 TCCGACTCTAGAGCGTACGG 60.529 60.000 27.10 27.10 36.41 4.02
2402 2625 1.276250 CGACTCTAGAGCGTACGGC 59.724 63.158 19.97 9.46 44.05 5.68
2412 2635 2.355837 CGTACGGCATGCGGCTAT 60.356 61.111 23.67 8.47 44.01 2.97
2413 2636 1.954146 CGTACGGCATGCGGCTATT 60.954 57.895 23.67 8.12 44.01 1.73
2414 2637 0.665068 CGTACGGCATGCGGCTATTA 60.665 55.000 23.67 7.14 44.01 0.98
2415 2638 1.068474 GTACGGCATGCGGCTATTAG 58.932 55.000 23.67 4.65 44.01 1.73
2416 2639 0.963225 TACGGCATGCGGCTATTAGA 59.037 50.000 23.67 0.00 44.01 2.10
2417 2640 0.105964 ACGGCATGCGGCTATTAGAA 59.894 50.000 23.67 0.00 44.01 2.10
2418 2641 1.225855 CGGCATGCGGCTATTAGAAA 58.774 50.000 12.44 0.00 44.01 2.52
2419 2642 1.806542 CGGCATGCGGCTATTAGAAAT 59.193 47.619 12.44 0.00 44.01 2.17
2420 2643 3.000041 CGGCATGCGGCTATTAGAAATA 59.000 45.455 12.44 0.00 44.01 1.40
2421 2644 3.181520 CGGCATGCGGCTATTAGAAATAC 60.182 47.826 12.44 0.00 44.01 1.89
2422 2645 3.127030 GGCATGCGGCTATTAGAAATACC 59.873 47.826 12.44 0.00 44.01 2.73
2423 2646 3.181520 GCATGCGGCTATTAGAAATACCG 60.182 47.826 0.00 12.37 43.37 4.02
2424 2647 3.034721 TGCGGCTATTAGAAATACCGG 57.965 47.619 0.00 0.00 40.91 5.28
2425 2648 2.366266 TGCGGCTATTAGAAATACCGGT 59.634 45.455 13.98 13.98 40.91 5.28
2426 2649 3.573538 TGCGGCTATTAGAAATACCGGTA 59.426 43.478 18.46 18.46 40.91 4.02
2427 2650 4.171754 GCGGCTATTAGAAATACCGGTAG 58.828 47.826 20.91 5.63 40.91 3.18
2450 2728 2.832672 CGGAGCCAAGATTTAAGCAC 57.167 50.000 0.00 0.00 0.00 4.40
2465 2743 4.069869 CACAGTGAGGGCAAGTGG 57.930 61.111 0.00 0.00 32.02 4.00
2475 2753 0.252197 GGGCAAGTGGGACGATAACT 59.748 55.000 0.00 0.00 0.00 2.24
2572 2851 9.461312 TGTTATTAAGAGTTTGCATATCAACCT 57.539 29.630 0.00 0.00 33.73 3.50
2611 2890 2.297033 GCTCCATCTCCTCAGTCAGATC 59.703 54.545 0.00 0.00 0.00 2.75
2670 2949 6.834876 TCATCTTCATTCTTGAAACACATCG 58.165 36.000 0.00 0.00 41.22 3.84
2742 3021 7.652105 GTGTGATTGTATGGTACTATGGTAGTG 59.348 40.741 1.31 0.00 39.81 2.74
2769 3052 3.767673 AGACAGGCTAATAGTTCCGAACA 59.232 43.478 13.69 0.52 0.00 3.18
2788 3071 6.401153 CCGAACAAAGAGTTTACATAGTGAGC 60.401 42.308 0.00 0.00 41.51 4.26
2904 3191 7.726033 ATGTAATGATATACTCCCTCTGTCC 57.274 40.000 0.00 0.00 0.00 4.02
2905 3192 6.017192 TGTAATGATATACTCCCTCTGTCCC 58.983 44.000 0.00 0.00 0.00 4.46
2906 3193 4.767000 ATGATATACTCCCTCTGTCCCA 57.233 45.455 0.00 0.00 0.00 4.37
2907 3194 4.767000 TGATATACTCCCTCTGTCCCAT 57.233 45.455 0.00 0.00 0.00 4.00
2908 3195 5.878484 TGATATACTCCCTCTGTCCCATA 57.122 43.478 0.00 0.00 0.00 2.74
2909 3196 6.227624 TGATATACTCCCTCTGTCCCATAA 57.772 41.667 0.00 0.00 0.00 1.90
2910 3197 6.815880 TGATATACTCCCTCTGTCCCATAAT 58.184 40.000 0.00 0.00 0.00 1.28
2911 3198 7.950803 TGATATACTCCCTCTGTCCCATAATA 58.049 38.462 0.00 0.00 0.00 0.98
2912 3199 8.578376 TGATATACTCCCTCTGTCCCATAATAT 58.422 37.037 0.00 0.00 0.00 1.28
2915 3202 8.846423 ATACTCCCTCTGTCCCATAATATAAG 57.154 38.462 0.00 0.00 0.00 1.73
2916 3203 6.875469 ACTCCCTCTGTCCCATAATATAAGA 58.125 40.000 0.00 0.00 0.00 2.10
2917 3204 7.313731 ACTCCCTCTGTCCCATAATATAAGAA 58.686 38.462 0.00 0.00 0.00 2.52
2918 3205 7.964293 ACTCCCTCTGTCCCATAATATAAGAAT 59.036 37.037 0.00 0.00 0.00 2.40
2919 3206 8.150827 TCCCTCTGTCCCATAATATAAGAATG 57.849 38.462 0.00 0.00 0.00 2.67
2920 3207 7.739444 TCCCTCTGTCCCATAATATAAGAATGT 59.261 37.037 0.00 0.00 0.00 2.71
2921 3208 8.386264 CCCTCTGTCCCATAATATAAGAATGTT 58.614 37.037 0.00 0.00 0.00 2.71
2922 3209 9.799106 CCTCTGTCCCATAATATAAGAATGTTT 57.201 33.333 0.00 0.00 0.00 2.83
2926 3213 9.928618 TGTCCCATAATATAAGAATGTTTTCCA 57.071 29.630 0.00 0.00 31.84 3.53
2929 3216 9.696917 CCCATAATATAAGAATGTTTTCCAAGC 57.303 33.333 0.00 0.00 31.84 4.01
2936 3223 6.463995 AAGAATGTTTTCCAAGCTACAACA 57.536 33.333 0.00 0.00 31.84 3.33
2937 3224 6.076981 AGAATGTTTTCCAAGCTACAACAG 57.923 37.500 0.00 0.00 31.14 3.16
2938 3225 5.594317 AGAATGTTTTCCAAGCTACAACAGT 59.406 36.000 0.00 0.00 31.14 3.55
2939 3226 5.852282 ATGTTTTCCAAGCTACAACAGTT 57.148 34.783 0.00 0.00 31.14 3.16
2940 3227 5.652994 TGTTTTCCAAGCTACAACAGTTT 57.347 34.783 0.00 0.00 0.00 2.66
2941 3228 5.406649 TGTTTTCCAAGCTACAACAGTTTG 58.593 37.500 0.00 0.00 43.16 2.93
2942 3229 5.184096 TGTTTTCCAAGCTACAACAGTTTGA 59.816 36.000 2.85 0.00 45.57 2.69
2943 3230 5.906113 TTTCCAAGCTACAACAGTTTGAA 57.094 34.783 2.85 0.00 45.57 2.69
2944 3231 5.906113 TTCCAAGCTACAACAGTTTGAAA 57.094 34.783 2.85 0.00 45.57 2.69
2945 3232 5.906113 TCCAAGCTACAACAGTTTGAAAA 57.094 34.783 2.85 0.00 45.57 2.29
2946 3233 6.463995 TCCAAGCTACAACAGTTTGAAAAT 57.536 33.333 2.85 0.00 45.57 1.82
2947 3234 6.272318 TCCAAGCTACAACAGTTTGAAAATG 58.728 36.000 3.59 3.59 45.57 2.32
2948 3235 6.042143 CCAAGCTACAACAGTTTGAAAATGT 58.958 36.000 5.06 5.06 45.57 2.71
2949 3236 6.534793 CCAAGCTACAACAGTTTGAAAATGTT 59.465 34.615 16.80 16.80 45.57 2.71
2950 3237 7.254084 CCAAGCTACAACAGTTTGAAAATGTTC 60.254 37.037 19.24 9.56 45.57 3.18
2951 3238 7.100458 AGCTACAACAGTTTGAAAATGTTCT 57.900 32.000 19.24 11.73 35.04 3.01
2952 3239 7.547227 AGCTACAACAGTTTGAAAATGTTCTT 58.453 30.769 19.24 12.41 35.04 2.52
2953 3240 8.682710 AGCTACAACAGTTTGAAAATGTTCTTA 58.317 29.630 19.24 12.82 35.04 2.10
2954 3241 9.463443 GCTACAACAGTTTGAAAATGTTCTTAT 57.537 29.630 19.24 9.17 35.04 1.73
2970 3257 7.713734 TGTTCTTATATTATAGGACGGAGGG 57.286 40.000 0.00 0.00 0.00 4.30
2971 3258 7.472741 TGTTCTTATATTATAGGACGGAGGGA 58.527 38.462 0.00 0.00 0.00 4.20
2972 3259 7.614583 TGTTCTTATATTATAGGACGGAGGGAG 59.385 40.741 0.00 0.00 0.00 4.30
2973 3260 7.281366 TCTTATATTATAGGACGGAGGGAGT 57.719 40.000 0.00 0.00 0.00 3.85
2974 3261 8.397951 TCTTATATTATAGGACGGAGGGAGTA 57.602 38.462 0.00 0.00 0.00 2.59
2977 3264 4.736611 TTATAGGACGGAGGGAGTACAT 57.263 45.455 0.00 0.00 0.00 2.29
3004 3292 0.950555 GTTGACTCGCATGAGCCACA 60.951 55.000 0.00 0.00 46.69 4.17
3006 3294 2.433145 ACTCGCATGAGCCACACG 60.433 61.111 0.00 0.00 46.69 4.49
3007 3295 3.857854 CTCGCATGAGCCACACGC 61.858 66.667 0.00 0.00 37.52 5.34
3011 3299 3.490759 CATGAGCCACACGCCGTC 61.491 66.667 0.00 0.00 38.78 4.79
3013 3301 3.315142 ATGAGCCACACGCCGTCAT 62.315 57.895 0.00 0.00 38.78 3.06
3076 3529 0.450184 ACCAAACACGCTGTTGTGAC 59.550 50.000 8.75 0.00 40.14 3.67
3086 3539 0.163788 CTGTTGTGACGTCGAATGCC 59.836 55.000 11.62 0.00 0.00 4.40
3117 3570 7.377928 CACAAGAACAAAGTATCAAAAGAGCTG 59.622 37.037 0.00 0.00 0.00 4.24
3155 3608 1.870055 GCCCTAGGTCAACGACGACA 61.870 60.000 8.29 0.00 37.66 4.35
3202 3655 3.116300 GTGCGTGATGAATATGTCTCGT 58.884 45.455 8.35 0.00 34.79 4.18
3218 3671 0.960861 TCGTCCTCAGCGAGACACAT 60.961 55.000 7.07 0.00 34.11 3.21
3287 3740 6.598850 AGATTCATGCAGGTTGTTTTGTTTTT 59.401 30.769 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 59 9.511272 AAGTAACCGACTATTTAATGGAACTTT 57.489 29.630 0.00 0.00 37.44 2.66
59 60 8.943002 CAAGTAACCGACTATTTAATGGAACTT 58.057 33.333 0.00 0.00 37.44 2.66
60 61 7.065443 GCAAGTAACCGACTATTTAATGGAACT 59.935 37.037 0.00 0.00 37.44 3.01
61 62 7.148373 TGCAAGTAACCGACTATTTAATGGAAC 60.148 37.037 0.00 0.00 37.44 3.62
62 63 6.879993 TGCAAGTAACCGACTATTTAATGGAA 59.120 34.615 0.00 0.00 37.44 3.53
63 64 6.408035 TGCAAGTAACCGACTATTTAATGGA 58.592 36.000 0.00 0.00 37.44 3.41
64 65 6.671614 TGCAAGTAACCGACTATTTAATGG 57.328 37.500 0.00 0.00 37.44 3.16
65 66 6.632834 GCATGCAAGTAACCGACTATTTAATG 59.367 38.462 14.21 0.00 37.44 1.90
66 67 6.542370 AGCATGCAAGTAACCGACTATTTAAT 59.458 34.615 21.98 0.00 37.44 1.40
67 68 5.878116 AGCATGCAAGTAACCGACTATTTAA 59.122 36.000 21.98 0.00 37.44 1.52
68 69 5.424757 AGCATGCAAGTAACCGACTATTTA 58.575 37.500 21.98 0.00 37.44 1.40
69 70 4.261801 AGCATGCAAGTAACCGACTATTT 58.738 39.130 21.98 0.00 37.44 1.40
70 71 3.873910 AGCATGCAAGTAACCGACTATT 58.126 40.909 21.98 0.00 37.44 1.73
71 72 3.543680 AGCATGCAAGTAACCGACTAT 57.456 42.857 21.98 0.00 37.44 2.12
72 73 3.193903 TGTAGCATGCAAGTAACCGACTA 59.806 43.478 21.98 0.00 37.44 2.59
73 74 2.028476 TGTAGCATGCAAGTAACCGACT 60.028 45.455 21.98 0.00 41.56 4.18
74 75 2.343101 TGTAGCATGCAAGTAACCGAC 58.657 47.619 21.98 3.92 0.00 4.79
75 76 2.753055 TGTAGCATGCAAGTAACCGA 57.247 45.000 21.98 0.00 0.00 4.69
76 77 5.478233 TTTATGTAGCATGCAAGTAACCG 57.522 39.130 21.98 0.00 31.62 4.44
77 78 7.535139 TCTTTTTATGTAGCATGCAAGTAACC 58.465 34.615 21.98 0.00 31.62 2.85
78 79 9.573133 AATCTTTTTATGTAGCATGCAAGTAAC 57.427 29.630 21.98 10.00 31.62 2.50
110 111 2.570415 TGCTGTATCCGGTCCAAAAA 57.430 45.000 0.00 0.00 0.00 1.94
111 112 2.570415 TTGCTGTATCCGGTCCAAAA 57.430 45.000 0.00 0.00 0.00 2.44
112 113 2.554893 GTTTTGCTGTATCCGGTCCAAA 59.445 45.455 0.00 0.90 0.00 3.28
117 118 3.219281 AGTTTGTTTTGCTGTATCCGGT 58.781 40.909 0.00 0.00 0.00 5.28
319 372 8.831715 ATCCGTGCAATTTTCTTTTTAATTCT 57.168 26.923 0.00 0.00 0.00 2.40
323 376 7.429633 TGAGATCCGTGCAATTTTCTTTTTAA 58.570 30.769 0.00 0.00 0.00 1.52
324 377 6.976088 TGAGATCCGTGCAATTTTCTTTTTA 58.024 32.000 0.00 0.00 0.00 1.52
329 394 3.820467 TGTTGAGATCCGTGCAATTTTCT 59.180 39.130 0.00 0.00 0.00 2.52
330 395 4.159377 TGTTGAGATCCGTGCAATTTTC 57.841 40.909 0.00 0.00 0.00 2.29
351 416 8.194104 GTCGATGCTATATTCATGAGGTCTTAT 58.806 37.037 0.00 0.00 0.00 1.73
357 422 5.958955 TCAGTCGATGCTATATTCATGAGG 58.041 41.667 0.00 0.00 0.00 3.86
360 425 6.385033 TGTCTCAGTCGATGCTATATTCATG 58.615 40.000 0.00 0.00 0.00 3.07
378 443 5.648092 TCGACTAAGACTTCATCATGTCTCA 59.352 40.000 0.00 0.00 42.02 3.27
405 473 5.168569 TGTTCATTAGTCTTGCTAAGTCCG 58.831 41.667 0.00 0.00 42.34 4.79
492 560 9.549509 TTTTTCATCGAAAATACATTTCCTACG 57.450 29.630 2.95 0.00 43.77 3.51
518 586 4.098196 GTCTCTAGGGAGCTCGTTATTTGT 59.902 45.833 7.83 0.00 39.31 2.83
520 588 3.637694 GGTCTCTAGGGAGCTCGTTATTT 59.362 47.826 14.72 0.00 39.31 1.40
526 594 0.766131 TAGGGTCTCTAGGGAGCTCG 59.234 60.000 20.74 0.00 39.31 5.03
641 759 3.680786 CTCACGGCCACCAGACGA 61.681 66.667 2.24 0.00 0.00 4.20
656 774 4.308265 GGCCGGTATATTCTGACTTTCTC 58.692 47.826 1.90 0.00 0.00 2.87
714 832 1.445238 GAAGAGCGCGCTGTTCTCT 60.445 57.895 45.06 31.67 41.38 3.10
792 921 1.133945 TGGCAGTTGTACTTGCTTCCA 60.134 47.619 14.24 7.88 0.00 3.53
884 1013 2.504244 CGAAGTGAGGTCGACCGC 60.504 66.667 29.10 29.10 41.02 5.68
898 1030 4.553323 GTGTACTTAAACTCCTCTGCGAA 58.447 43.478 0.00 0.00 0.00 4.70
900 1032 3.056749 AGGTGTACTTAAACTCCTCTGCG 60.057 47.826 0.00 0.00 38.66 5.18
918 1050 0.665835 CTAGCTAGCCTGTCGAGGTG 59.334 60.000 12.13 0.00 42.15 4.00
943 1075 1.070914 GGTAGAGGTAGAGGCCAATGC 59.929 57.143 5.01 0.00 0.00 3.56
948 1080 2.228925 CTTACGGTAGAGGTAGAGGCC 58.771 57.143 0.00 0.00 0.00 5.19
958 1090 2.283298 CCGCAGTAGACTTACGGTAGA 58.717 52.381 11.18 0.00 37.96 2.59
959 1091 1.268437 GCCGCAGTAGACTTACGGTAG 60.268 57.143 17.67 0.00 42.20 3.18
960 1092 0.734889 GCCGCAGTAGACTTACGGTA 59.265 55.000 17.67 0.00 42.20 4.02
961 1093 0.964358 AGCCGCAGTAGACTTACGGT 60.964 55.000 17.67 6.51 42.20 4.83
962 1094 0.248539 GAGCCGCAGTAGACTTACGG 60.249 60.000 13.97 13.97 42.75 4.02
963 1095 0.248539 GGAGCCGCAGTAGACTTACG 60.249 60.000 0.00 0.00 34.88 3.18
966 1098 2.711922 CCGGAGCCGCAGTAGACTT 61.712 63.158 0.00 0.00 38.24 3.01
967 1099 3.141488 CCGGAGCCGCAGTAGACT 61.141 66.667 0.00 0.00 38.24 3.24
968 1100 4.208686 CCCGGAGCCGCAGTAGAC 62.209 72.222 0.73 0.00 38.24 2.59
969 1101 4.753662 ACCCGGAGCCGCAGTAGA 62.754 66.667 0.73 0.00 38.24 2.59
970 1102 4.208686 GACCCGGAGCCGCAGTAG 62.209 72.222 0.73 0.00 38.24 2.57
971 1103 2.914756 TATGACCCGGAGCCGCAGTA 62.915 60.000 0.73 0.00 38.24 2.74
973 1105 3.506059 CTATGACCCGGAGCCGCAG 62.506 68.421 0.73 0.00 38.24 5.18
974 1106 3.536917 CTATGACCCGGAGCCGCA 61.537 66.667 0.73 0.00 38.24 5.69
990 1122 1.593750 GCTCTTCATGCCGATCGCT 60.594 57.895 10.32 0.00 38.78 4.93
1075 1207 2.010582 GACGCGAGGAGGAAGAGCAT 62.011 60.000 15.93 0.00 0.00 3.79
1208 1373 3.611674 GCACAACCCAAACCCCGG 61.612 66.667 0.00 0.00 0.00 5.73
1227 1392 1.561542 AGAACTATTGACAGGCCTGGG 59.438 52.381 35.42 19.07 34.19 4.45
1230 1395 3.840666 TCTTGAGAACTATTGACAGGCCT 59.159 43.478 0.00 0.00 0.00 5.19
1232 1411 5.669477 AGATCTTGAGAACTATTGACAGGC 58.331 41.667 0.00 0.00 0.00 4.85
1235 1414 8.051901 TCGTAAGATCTTGAGAACTATTGACA 57.948 34.615 18.47 0.00 45.01 3.58
1267 1446 4.414852 CTGCATGTCCTGGAAATTTTACG 58.585 43.478 0.00 0.00 0.00 3.18
1358 1537 2.562912 GCCTCGTTCACCGACGTA 59.437 61.111 0.00 0.00 41.60 3.57
1454 1633 2.662596 GCCACGATGAGGGTGTGA 59.337 61.111 0.00 0.00 35.66 3.58
1735 1918 7.254117 CGATATCAGAGTGTGTATGTTTGAACC 60.254 40.741 3.12 0.00 0.00 3.62
1760 1944 6.117911 TGCATGGACATAAATTAACTGACG 57.882 37.500 0.00 0.00 0.00 4.35
1946 2162 0.032678 CTACGCGCCATCTCCTCAAT 59.967 55.000 5.73 0.00 0.00 2.57
1953 2169 0.598680 GATCTTGCTACGCGCCATCT 60.599 55.000 5.73 0.00 38.05 2.90
2035 2254 1.151668 GAACTTGATGTGCAGCTCGT 58.848 50.000 0.00 0.00 0.00 4.18
2063 2282 2.535984 GCCATCGAAGAGTGTTGTATCG 59.464 50.000 0.00 0.00 43.63 2.92
2135 2354 1.741401 CTCGAGCCCGATGCAACAA 60.741 57.895 0.00 0.00 44.62 2.83
2181 2400 1.243342 TTTTCCAGTCGGCAGCCATG 61.243 55.000 13.30 6.78 0.00 3.66
2222 2441 1.889829 CGTGACTCCTCTTCTCCAACT 59.110 52.381 0.00 0.00 0.00 3.16
2377 2600 2.093106 ACGCTCTAGAGTCGGAACAAT 58.907 47.619 28.05 12.48 34.14 2.71
2378 2601 1.531423 ACGCTCTAGAGTCGGAACAA 58.469 50.000 28.05 0.00 34.14 2.83
2379 2602 2.005451 GTACGCTCTAGAGTCGGAACA 58.995 52.381 28.05 14.82 34.14 3.18
2380 2603 1.005137 CGTACGCTCTAGAGTCGGAAC 60.005 57.143 28.05 24.16 34.14 3.62
2381 2604 1.284657 CGTACGCTCTAGAGTCGGAA 58.715 55.000 28.05 18.48 34.14 4.30
2382 2605 0.529337 CCGTACGCTCTAGAGTCGGA 60.529 60.000 28.05 22.20 39.11 4.55
2383 2606 1.933005 CCGTACGCTCTAGAGTCGG 59.067 63.158 28.05 25.17 34.58 4.79
2384 2607 1.276250 GCCGTACGCTCTAGAGTCG 59.724 63.158 25.14 25.14 35.30 4.18
2385 2608 0.945813 ATGCCGTACGCTCTAGAGTC 59.054 55.000 20.75 12.01 38.78 3.36
2386 2609 0.663688 CATGCCGTACGCTCTAGAGT 59.336 55.000 20.75 5.76 38.78 3.24
2387 2610 0.661780 GCATGCCGTACGCTCTAGAG 60.662 60.000 15.85 15.85 38.78 2.43
2388 2611 1.359117 GCATGCCGTACGCTCTAGA 59.641 57.895 10.49 0.00 38.78 2.43
2389 2612 2.011349 CGCATGCCGTACGCTCTAG 61.011 63.158 13.15 0.00 38.78 2.43
2390 2613 2.025584 CGCATGCCGTACGCTCTA 59.974 61.111 13.15 0.00 38.78 2.43
2391 2614 4.873129 CCGCATGCCGTACGCTCT 62.873 66.667 13.15 0.00 38.78 4.09
2395 2618 0.665068 TAATAGCCGCATGCCGTACG 60.665 55.000 13.15 8.69 42.71 3.67
2396 2619 1.068474 CTAATAGCCGCATGCCGTAC 58.932 55.000 13.15 0.00 42.71 3.67
2397 2620 0.963225 TCTAATAGCCGCATGCCGTA 59.037 50.000 13.15 1.15 42.71 4.02
2398 2621 0.105964 TTCTAATAGCCGCATGCCGT 59.894 50.000 13.15 0.00 42.71 5.68
2399 2622 1.225855 TTTCTAATAGCCGCATGCCG 58.774 50.000 13.15 6.93 42.71 5.69
2400 2623 3.127030 GGTATTTCTAATAGCCGCATGCC 59.873 47.826 13.15 0.00 42.71 4.40
2401 2624 3.181520 CGGTATTTCTAATAGCCGCATGC 60.182 47.826 7.91 7.91 41.71 4.06
2402 2625 3.370978 CCGGTATTTCTAATAGCCGCATG 59.629 47.826 0.00 0.00 38.08 4.06
2403 2626 3.007614 ACCGGTATTTCTAATAGCCGCAT 59.992 43.478 4.49 0.00 38.08 4.73
2404 2627 2.366266 ACCGGTATTTCTAATAGCCGCA 59.634 45.455 4.49 0.00 38.08 5.69
2405 2628 3.036075 ACCGGTATTTCTAATAGCCGC 57.964 47.619 4.49 0.00 38.08 6.53
2406 2629 5.392811 CCTCTACCGGTATTTCTAATAGCCG 60.393 48.000 16.25 0.00 38.99 5.52
2407 2630 5.624052 GCCTCTACCGGTATTTCTAATAGCC 60.624 48.000 16.25 0.00 0.00 3.93
2408 2631 5.409211 GCCTCTACCGGTATTTCTAATAGC 58.591 45.833 16.25 4.72 0.00 2.97
2409 2632 5.392811 CCGCCTCTACCGGTATTTCTAATAG 60.393 48.000 16.25 1.26 40.84 1.73
2410 2633 4.460382 CCGCCTCTACCGGTATTTCTAATA 59.540 45.833 16.25 0.00 40.84 0.98
2411 2634 3.257624 CCGCCTCTACCGGTATTTCTAAT 59.742 47.826 16.25 0.00 40.84 1.73
2412 2635 2.624838 CCGCCTCTACCGGTATTTCTAA 59.375 50.000 16.25 0.00 40.84 2.10
2413 2636 2.158623 TCCGCCTCTACCGGTATTTCTA 60.159 50.000 16.25 0.00 45.71 2.10
2414 2637 1.038280 CCGCCTCTACCGGTATTTCT 58.962 55.000 16.25 0.00 40.84 2.52
2415 2638 1.000496 CTCCGCCTCTACCGGTATTTC 60.000 57.143 16.25 4.13 45.71 2.17
2416 2639 1.038280 CTCCGCCTCTACCGGTATTT 58.962 55.000 16.25 0.00 45.71 1.40
2417 2640 1.461911 GCTCCGCCTCTACCGGTATT 61.462 60.000 16.25 0.00 45.71 1.89
2418 2641 1.902432 GCTCCGCCTCTACCGGTAT 60.902 63.158 16.25 0.00 45.71 2.73
2419 2642 2.517875 GCTCCGCCTCTACCGGTA 60.518 66.667 14.95 14.95 45.71 4.02
2450 2728 1.302832 GTCCCACTTGCCCTCACTG 60.303 63.158 0.00 0.00 0.00 3.66
2465 2743 7.148373 TGGTAATACTTTTTGCAGTTATCGTCC 60.148 37.037 0.00 0.00 0.00 4.79
2475 2753 7.920151 GCACATCATATGGTAATACTTTTTGCA 59.080 33.333 2.13 0.00 33.60 4.08
2572 2851 2.036475 GAGCTCGCCCTGATCTCATTTA 59.964 50.000 0.00 0.00 39.22 1.40
2611 2890 7.589954 CGTACCACCTTACTTTTGAAATTGAAG 59.410 37.037 0.00 0.00 0.00 3.02
2711 2990 7.768582 CCATAGTACCATACAATCACACAAAGA 59.231 37.037 0.00 0.00 0.00 2.52
2742 3021 4.443621 GGAACTATTAGCCTGTCTTGGAC 58.556 47.826 0.00 0.00 0.00 4.02
2769 3052 4.566004 TGCGCTCACTATGTAAACTCTTT 58.434 39.130 9.73 0.00 0.00 2.52
2903 3190 9.696917 GCTTGGAAAACATTCTTATATTATGGG 57.303 33.333 0.00 0.00 0.00 4.00
2910 3197 9.290988 TGTTGTAGCTTGGAAAACATTCTTATA 57.709 29.630 0.00 0.00 0.00 0.98
2911 3198 8.177119 TGTTGTAGCTTGGAAAACATTCTTAT 57.823 30.769 0.00 0.00 0.00 1.73
2912 3199 7.284489 ACTGTTGTAGCTTGGAAAACATTCTTA 59.716 33.333 0.00 0.00 30.90 2.10
2913 3200 6.096846 ACTGTTGTAGCTTGGAAAACATTCTT 59.903 34.615 0.00 0.00 30.90 2.52
2914 3201 5.594317 ACTGTTGTAGCTTGGAAAACATTCT 59.406 36.000 0.00 0.00 30.90 2.40
2915 3202 5.831997 ACTGTTGTAGCTTGGAAAACATTC 58.168 37.500 0.00 0.00 30.90 2.67
2916 3203 5.852282 ACTGTTGTAGCTTGGAAAACATT 57.148 34.783 0.00 0.00 30.90 2.71
2917 3204 5.852282 AACTGTTGTAGCTTGGAAAACAT 57.148 34.783 0.00 0.00 30.90 2.71
2918 3205 5.184096 TCAAACTGTTGTAGCTTGGAAAACA 59.816 36.000 0.00 0.00 34.09 2.83
2919 3206 5.646606 TCAAACTGTTGTAGCTTGGAAAAC 58.353 37.500 0.00 0.00 34.09 2.43
2920 3207 5.906113 TCAAACTGTTGTAGCTTGGAAAA 57.094 34.783 0.00 0.00 34.09 2.29
2921 3208 5.906113 TTCAAACTGTTGTAGCTTGGAAA 57.094 34.783 0.00 0.00 34.09 3.13
2922 3209 5.906113 TTTCAAACTGTTGTAGCTTGGAA 57.094 34.783 0.00 0.00 34.09 3.53
2923 3210 5.906113 TTTTCAAACTGTTGTAGCTTGGA 57.094 34.783 0.00 0.00 34.09 3.53
2924 3211 6.042143 ACATTTTCAAACTGTTGTAGCTTGG 58.958 36.000 0.00 0.00 34.09 3.61
2925 3212 7.489113 AGAACATTTTCAAACTGTTGTAGCTTG 59.511 33.333 10.37 0.00 36.07 4.01
2926 3213 7.547227 AGAACATTTTCAAACTGTTGTAGCTT 58.453 30.769 10.37 0.00 36.07 3.74
2927 3214 7.100458 AGAACATTTTCAAACTGTTGTAGCT 57.900 32.000 10.37 0.00 36.07 3.32
2928 3215 7.755582 AAGAACATTTTCAAACTGTTGTAGC 57.244 32.000 10.37 0.00 36.07 3.58
2944 3231 8.759782 CCCTCCGTCCTATAATATAAGAACATT 58.240 37.037 0.00 0.00 0.00 2.71
2945 3232 8.120538 TCCCTCCGTCCTATAATATAAGAACAT 58.879 37.037 0.00 0.00 0.00 2.71
2946 3233 7.472741 TCCCTCCGTCCTATAATATAAGAACA 58.527 38.462 0.00 0.00 0.00 3.18
2947 3234 7.614974 ACTCCCTCCGTCCTATAATATAAGAAC 59.385 40.741 0.00 0.00 0.00 3.01
2948 3235 7.706674 ACTCCCTCCGTCCTATAATATAAGAA 58.293 38.462 0.00 0.00 0.00 2.52
2949 3236 7.281366 ACTCCCTCCGTCCTATAATATAAGA 57.719 40.000 0.00 0.00 0.00 2.10
2950 3237 8.051535 TGTACTCCCTCCGTCCTATAATATAAG 58.948 40.741 0.00 0.00 0.00 1.73
2951 3238 7.932134 TGTACTCCCTCCGTCCTATAATATAA 58.068 38.462 0.00 0.00 0.00 0.98
2952 3239 7.515004 TGTACTCCCTCCGTCCTATAATATA 57.485 40.000 0.00 0.00 0.00 0.86
2953 3240 6.398655 TGTACTCCCTCCGTCCTATAATAT 57.601 41.667 0.00 0.00 0.00 1.28
2954 3241 5.848286 TGTACTCCCTCCGTCCTATAATA 57.152 43.478 0.00 0.00 0.00 0.98
2955 3242 4.736611 TGTACTCCCTCCGTCCTATAAT 57.263 45.455 0.00 0.00 0.00 1.28
2956 3243 4.141088 ACATGTACTCCCTCCGTCCTATAA 60.141 45.833 0.00 0.00 0.00 0.98
2957 3244 3.396946 ACATGTACTCCCTCCGTCCTATA 59.603 47.826 0.00 0.00 0.00 1.31
2958 3245 2.177233 ACATGTACTCCCTCCGTCCTAT 59.823 50.000 0.00 0.00 0.00 2.57
2959 3246 1.567649 ACATGTACTCCCTCCGTCCTA 59.432 52.381 0.00 0.00 0.00 2.94
2960 3247 0.335361 ACATGTACTCCCTCCGTCCT 59.665 55.000 0.00 0.00 0.00 3.85
2961 3248 0.745468 GACATGTACTCCCTCCGTCC 59.255 60.000 0.00 0.00 0.00 4.79
2962 3249 1.765230 AGACATGTACTCCCTCCGTC 58.235 55.000 0.00 0.00 0.00 4.79
2963 3250 2.423088 CCTAGACATGTACTCCCTCCGT 60.423 54.545 0.00 0.00 0.00 4.69
2964 3251 2.231529 CCTAGACATGTACTCCCTCCG 58.768 57.143 0.00 0.00 0.00 4.63
2965 3252 2.091222 ACCCTAGACATGTACTCCCTCC 60.091 54.545 0.00 0.00 0.00 4.30
2966 3253 3.315880 ACCCTAGACATGTACTCCCTC 57.684 52.381 0.00 0.00 0.00 4.30
2967 3254 3.012502 TCAACCCTAGACATGTACTCCCT 59.987 47.826 0.00 0.00 0.00 4.20
2968 3255 3.132467 GTCAACCCTAGACATGTACTCCC 59.868 52.174 0.00 0.00 36.06 4.30
2969 3256 4.024670 AGTCAACCCTAGACATGTACTCC 58.975 47.826 0.00 0.00 38.46 3.85
2970 3257 4.201930 CGAGTCAACCCTAGACATGTACTC 60.202 50.000 0.00 3.91 38.46 2.59
2971 3258 3.695060 CGAGTCAACCCTAGACATGTACT 59.305 47.826 0.00 0.37 38.46 2.73
2972 3259 3.734293 GCGAGTCAACCCTAGACATGTAC 60.734 52.174 0.00 0.00 38.46 2.90
2973 3260 2.426024 GCGAGTCAACCCTAGACATGTA 59.574 50.000 0.00 0.00 38.46 2.29
2974 3261 1.204941 GCGAGTCAACCCTAGACATGT 59.795 52.381 0.00 0.00 38.46 3.21
2977 3264 1.204704 CATGCGAGTCAACCCTAGACA 59.795 52.381 0.00 0.00 38.46 3.41
3009 3297 6.066054 TGATCATCAGAGTCTCGTTATGAC 57.934 41.667 13.60 9.98 34.88 3.06
3011 3299 6.128876 GCATTGATCATCAGAGTCTCGTTATG 60.129 42.308 0.00 0.61 0.00 1.90
3013 3301 5.284864 GCATTGATCATCAGAGTCTCGTTA 58.715 41.667 0.00 0.00 0.00 3.18
3067 3520 0.163788 GGCATTCGACGTCACAACAG 59.836 55.000 17.16 5.44 0.00 3.16
3086 3539 3.183574 TGATACTTTGTTCTTGTGTCGCG 59.816 43.478 0.00 0.00 0.00 5.87
3117 3570 3.391665 ATAGCCAGCAGCCGTCACC 62.392 63.158 0.00 0.00 45.47 4.02
3155 3608 8.680903 CATAGCAACTTCCATTTAGACTTGATT 58.319 33.333 0.00 0.00 0.00 2.57
3202 3655 1.216444 GCATGTGTCTCGCTGAGGA 59.784 57.895 0.00 0.00 0.00 3.71
3214 3667 0.671472 TGAGGCGAGACAAGCATGTG 60.671 55.000 0.00 0.00 40.74 3.21
3218 3671 2.047844 GCTGAGGCGAGACAAGCA 60.048 61.111 0.00 0.00 36.08 3.91
3264 3717 6.756299 AAAAACAAAACAACCTGCATGAAT 57.244 29.167 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.