Multiple sequence alignment - TraesCS1A01G059100

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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 TraesCS1A01G059100 chr1A 100.000 3410 0 0 1 3410 39873140 39869731 0.000000e+00 6298
1 TraesCS1A01G059100 chr1A 85.226 1638 175 41 820 2432 497083137 497084732 0.000000e+00 1622
2 TraesCS1A01G059100 chr1B 90.248 1815 123 20 993 2774 60109132 60107339 0.000000e+00 2322
3 TraesCS1A01G059100 chr1B 85.006 1634 184 36 823 2432 537771333 537772929 0.000000e+00 1604
4 TraesCS1A01G059100 chr1B 91.242 982 78 4 1501 2474 60473798 60474779 0.000000e+00 1330
5 TraesCS1A01G059100 chr1B 90.819 806 67 6 1 801 592268137 592267334 0.000000e+00 1072
6 TraesCS1A01G059100 chr1B 79.213 712 76 38 2573 3230 60481411 60482104 2.430000e-116 429
7 TraesCS1A01G059100 chr1B 93.333 270 12 4 1166 1431 60473219 60473486 8.870000e-106 394
8 TraesCS1A01G059100 chr1B 83.155 374 25 20 807 1150 60456579 60456944 1.190000e-79 307
9 TraesCS1A01G059100 chr1B 93.289 149 6 3 3086 3230 60070284 60070136 2.060000e-52 217
10 TraesCS1A01G059100 chr1B 86.275 153 9 6 2839 2982 60070599 60070450 4.560000e-34 156
11 TraesCS1A01G059100 chr1D 91.170 1291 74 22 1500 2773 40597995 40599262 0.000000e+00 1716
12 TraesCS1A01G059100 chr1D 85.058 1633 181 41 823 2432 400792286 400793878 0.000000e+00 1605
13 TraesCS1A01G059100 chr1D 86.329 651 47 20 806 1431 40597146 40597779 0.000000e+00 671
14 TraesCS1A01G059100 chr1D 83.801 321 25 13 2917 3230 40600062 40600362 2.590000e-71 279
15 TraesCS1A01G059100 chr1D 88.462 156 7 9 2775 2920 40599455 40599609 9.720000e-41 178
16 TraesCS1A01G059100 chr7A 85.826 1531 162 30 952 2464 130400750 130399257 0.000000e+00 1574
17 TraesCS1A01G059100 chr7A 92.857 798 49 6 1 793 285571337 285570543 0.000000e+00 1151
18 TraesCS1A01G059100 chr7D 85.677 1550 157 37 952 2464 131652334 131650813 0.000000e+00 1572
19 TraesCS1A01G059100 chr7B 85.364 1551 151 38 952 2464 93068026 93066514 0.000000e+00 1537
20 TraesCS1A01G059100 chr2A 92.317 820 53 8 1 814 118474066 118473251 0.000000e+00 1157
21 TraesCS1A01G059100 chr3A 91.729 798 61 5 1 793 535174681 535175478 0.000000e+00 1103
22 TraesCS1A01G059100 chr2D 92.190 781 55 6 17 793 520039928 520039150 0.000000e+00 1099
23 TraesCS1A01G059100 chr4B 91.667 792 55 9 7 793 377799042 377799827 0.000000e+00 1086
24 TraesCS1A01G059100 chr6B 91.343 797 64 4 1 793 564644362 564645157 0.000000e+00 1085
25 TraesCS1A01G059100 chr2B 91.332 796 61 7 3 793 406114533 406113741 0.000000e+00 1081
26 TraesCS1A01G059100 chr5B 91.184 794 65 5 3 793 710361215 710360424 0.000000e+00 1074


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 TraesCS1A01G059100 chr1A 39869731 39873140 3409 True 6298 6298 100.0000 1 3410 1 chr1A.!!$R1 3409
1 TraesCS1A01G059100 chr1A 497083137 497084732 1595 False 1622 1622 85.2260 820 2432 1 chr1A.!!$F1 1612
2 TraesCS1A01G059100 chr1B 60107339 60109132 1793 True 2322 2322 90.2480 993 2774 1 chr1B.!!$R1 1781
3 TraesCS1A01G059100 chr1B 537771333 537772929 1596 False 1604 1604 85.0060 823 2432 1 chr1B.!!$F3 1609
4 TraesCS1A01G059100 chr1B 592267334 592268137 803 True 1072 1072 90.8190 1 801 1 chr1B.!!$R2 800
5 TraesCS1A01G059100 chr1B 60473219 60474779 1560 False 862 1330 92.2875 1166 2474 2 chr1B.!!$F4 1308
6 TraesCS1A01G059100 chr1B 60481411 60482104 693 False 429 429 79.2130 2573 3230 1 chr1B.!!$F2 657
7 TraesCS1A01G059100 chr1D 400792286 400793878 1592 False 1605 1605 85.0580 823 2432 1 chr1D.!!$F1 1609
8 TraesCS1A01G059100 chr1D 40597146 40600362 3216 False 711 1716 87.4405 806 3230 4 chr1D.!!$F2 2424
9 TraesCS1A01G059100 chr7A 130399257 130400750 1493 True 1574 1574 85.8260 952 2464 1 chr7A.!!$R1 1512
10 TraesCS1A01G059100 chr7A 285570543 285571337 794 True 1151 1151 92.8570 1 793 1 chr7A.!!$R2 792
11 TraesCS1A01G059100 chr7D 131650813 131652334 1521 True 1572 1572 85.6770 952 2464 1 chr7D.!!$R1 1512
12 TraesCS1A01G059100 chr7B 93066514 93068026 1512 True 1537 1537 85.3640 952 2464 1 chr7B.!!$R1 1512
13 TraesCS1A01G059100 chr2A 118473251 118474066 815 True 1157 1157 92.3170 1 814 1 chr2A.!!$R1 813
14 TraesCS1A01G059100 chr3A 535174681 535175478 797 False 1103 1103 91.7290 1 793 1 chr3A.!!$F1 792
15 TraesCS1A01G059100 chr2D 520039150 520039928 778 True 1099 1099 92.1900 17 793 1 chr2D.!!$R1 776
16 TraesCS1A01G059100 chr4B 377799042 377799827 785 False 1086 1086 91.6670 7 793 1 chr4B.!!$F1 786
17 TraesCS1A01G059100 chr6B 564644362 564645157 795 False 1085 1085 91.3430 1 793 1 chr6B.!!$F1 792
18 TraesCS1A01G059100 chr2B 406113741 406114533 792 True 1081 1081 91.3320 3 793 1 chr2B.!!$R1 790
19 TraesCS1A01G059100 chr5B 710360424 710361215 791 True 1074 1074 91.1840 3 793 1 chr5B.!!$R1 790

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
950 977 0.035056 CCCGGGAAATCTTGACTGCT 60.035 55.0 18.48 0.0 0.0 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2914 3578 0.53065 GAGATCGCGGCCTCATTTCA 60.531 55.0 18.95 0.0 0.0 2.69 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
130 132 1.802960 CAACTGCCTCTAGTGTGCTTG 59.197 52.381 0.00 0.00 0.00 4.01
220 226 1.148310 GTGTGCACGTAAGCAGATGT 58.852 50.000 13.13 0.00 46.69 3.06
487 498 1.149401 TTGTCCGACATGGCAACCA 59.851 52.632 1.09 0.00 38.19 3.67
529 540 3.206964 TGCAGTTAAACGAACATGGACA 58.793 40.909 0.00 0.00 40.86 4.02
552 563 0.250901 GTCTGGACCATGGCAACTGT 60.251 55.000 13.04 0.00 37.61 3.55
592 603 4.451150 GTGGCGTGCGGGATCAGA 62.451 66.667 0.00 0.00 0.00 3.27
604 616 1.404843 GGATCAGAAGGTACGAGGCT 58.595 55.000 0.00 0.00 0.00 4.58
667 680 1.177401 CACGTGTGAGAGGGATCAGA 58.823 55.000 7.58 0.00 0.00 3.27
694 710 0.949105 AAAAGACGTGTGGGCGCTAG 60.949 55.000 7.64 0.00 34.88 3.42
709 725 1.269448 CGCTAGTTGTTTTGCCCACAT 59.731 47.619 0.00 0.00 0.00 3.21
793 809 2.760634 ACATGTGTGGCACTTATCGA 57.239 45.000 19.83 0.00 35.11 3.59
794 810 2.621338 ACATGTGTGGCACTTATCGAG 58.379 47.619 19.83 4.97 35.11 4.04
795 811 2.028112 ACATGTGTGGCACTTATCGAGT 60.028 45.455 19.83 5.59 39.89 4.18
796 812 2.363788 TGTGTGGCACTTATCGAGTC 57.636 50.000 19.83 0.00 36.10 3.36
797 813 1.893137 TGTGTGGCACTTATCGAGTCT 59.107 47.619 19.83 0.00 36.10 3.24
798 814 2.299013 TGTGTGGCACTTATCGAGTCTT 59.701 45.455 19.83 0.00 36.10 3.01
799 815 3.508402 TGTGTGGCACTTATCGAGTCTTA 59.492 43.478 19.83 0.00 36.10 2.10
800 816 4.021807 TGTGTGGCACTTATCGAGTCTTAA 60.022 41.667 19.83 0.00 36.10 1.85
801 817 4.927425 GTGTGGCACTTATCGAGTCTTAAA 59.073 41.667 19.83 0.00 36.10 1.52
802 818 5.581085 GTGTGGCACTTATCGAGTCTTAAAT 59.419 40.000 19.83 0.00 36.10 1.40
803 819 6.092259 GTGTGGCACTTATCGAGTCTTAAATT 59.908 38.462 19.83 0.00 36.10 1.82
804 820 6.653320 TGTGGCACTTATCGAGTCTTAAATTT 59.347 34.615 19.83 0.00 36.10 1.82
826 842 6.822667 TTATAAGTGTGAAGTACGGAGTGA 57.177 37.500 0.00 0.00 45.73 3.41
835 851 6.540914 TGTGAAGTACGGAGTGAAAAAGATTT 59.459 34.615 0.00 0.00 45.73 2.17
853 869 3.953712 TTTCATCTTAGCCACTGACGA 57.046 42.857 0.00 0.00 0.00 4.20
861 877 2.550830 AGCCACTGACGACAGATTTT 57.449 45.000 21.50 0.00 46.03 1.82
862 878 2.417719 AGCCACTGACGACAGATTTTC 58.582 47.619 21.50 5.76 46.03 2.29
864 880 1.726791 CCACTGACGACAGATTTTCGG 59.273 52.381 21.50 7.63 46.03 4.30
865 881 2.609491 CCACTGACGACAGATTTTCGGA 60.609 50.000 21.50 0.00 46.03 4.55
866 882 2.408704 CACTGACGACAGATTTTCGGAC 59.591 50.000 21.50 0.00 46.03 4.79
873 889 6.258287 TGACGACAGATTTTCGGACTTTTAAA 59.742 34.615 0.00 0.00 40.92 1.52
898 918 1.182385 GGTAGAGGCTCCAGATCGGG 61.182 65.000 11.71 5.39 34.36 5.14
914 934 0.307760 CGGGAAGCACAAGAACACAC 59.692 55.000 0.00 0.00 0.00 3.82
915 935 1.388547 GGGAAGCACAAGAACACACA 58.611 50.000 0.00 0.00 0.00 3.72
918 938 2.682856 GGAAGCACAAGAACACACAAGA 59.317 45.455 0.00 0.00 0.00 3.02
919 939 3.242870 GGAAGCACAAGAACACACAAGAG 60.243 47.826 0.00 0.00 0.00 2.85
921 941 1.268743 GCACAAGAACACACAAGAGCC 60.269 52.381 0.00 0.00 0.00 4.70
922 942 2.016318 CACAAGAACACACAAGAGCCA 58.984 47.619 0.00 0.00 0.00 4.75
923 943 2.017049 ACAAGAACACACAAGAGCCAC 58.983 47.619 0.00 0.00 0.00 5.01
924 944 1.003545 CAAGAACACACAAGAGCCACG 60.004 52.381 0.00 0.00 0.00 4.94
925 945 0.464036 AGAACACACAAGAGCCACGA 59.536 50.000 0.00 0.00 0.00 4.35
948 975 1.369091 CGCCCGGGAAATCTTGACTG 61.369 60.000 29.31 0.00 0.00 3.51
949 976 1.657751 GCCCGGGAAATCTTGACTGC 61.658 60.000 29.31 0.00 0.00 4.40
950 977 0.035056 CCCGGGAAATCTTGACTGCT 60.035 55.000 18.48 0.00 0.00 4.24
1191 1266 3.245371 TGCACCTCCATTTTCCTCTCATT 60.245 43.478 0.00 0.00 0.00 2.57
1216 1318 8.153479 TCTATATTGTTCGGTTGATTGATTGG 57.847 34.615 0.00 0.00 0.00 3.16
1232 1334 1.317613 TTGGGATGTGTGCTGTGTTC 58.682 50.000 0.00 0.00 0.00 3.18
1238 1340 1.286501 TGTGTGCTGTGTTCGACTTC 58.713 50.000 0.00 0.00 0.00 3.01
1497 1916 1.460743 CGATGTTGATGTCGTTGCTGT 59.539 47.619 0.00 0.00 33.42 4.40
1498 1917 2.096268 CGATGTTGATGTCGTTGCTGTT 60.096 45.455 0.00 0.00 33.42 3.16
1507 1929 2.005537 CGTTGCTGTTGCTTCACGC 61.006 57.895 0.00 0.00 40.48 5.34
1590 2012 2.034879 CGGCAAGTTCCTGCACGAT 61.035 57.895 0.00 0.00 44.52 3.73
1656 2078 0.810031 CCAACATCATCGTCCCGACC 60.810 60.000 0.00 0.00 39.18 4.79
1674 2096 3.367087 CGACCTTCGACATCAAGTACCTT 60.367 47.826 0.00 0.00 43.74 3.50
2013 2435 2.508663 GCCGAGAAGTACACCGCC 60.509 66.667 0.00 0.00 0.00 6.13
2052 2474 2.809010 GTCCTCCGCTGGCTCTAC 59.191 66.667 0.00 0.00 0.00 2.59
2121 2543 1.447663 CATGGTCGACATCCACGCA 60.448 57.895 18.91 4.28 37.84 5.24
2124 2546 2.432456 GTCGACATCCACGCAGCA 60.432 61.111 11.55 0.00 0.00 4.41
2235 2657 1.425066 ACCAAAGAGAACATGGAGGCA 59.575 47.619 0.00 0.00 37.66 4.75
2426 2854 4.541779 CAATAGAGAAGAGGTCGATTCGG 58.458 47.826 6.18 0.00 0.00 4.30
2453 2889 4.155280 AGAAGAGAGACGAAGAAGCACTAC 59.845 45.833 0.00 0.00 0.00 2.73
2477 2913 1.693062 CTATGCTCAGGGATGCAGACT 59.307 52.381 0.00 0.00 42.74 3.24
2480 2916 0.469070 GCTCAGGGATGCAGACTGAT 59.531 55.000 15.41 0.00 40.16 2.90
2497 2933 3.439513 ATGCGCGGCCGAAGATACA 62.440 57.895 33.48 16.65 36.29 2.29
2528 2964 6.782298 TCGTTATTTTAATTGTCACCGTGA 57.218 33.333 0.00 0.00 0.00 4.35
2536 2972 8.480643 TTTTAATTGTCACCGTGAATGTTTTT 57.519 26.923 1.88 0.00 0.00 1.94
2549 2985 8.372521 CCGTGAATGTTTTTATTATGCTTTCAC 58.627 33.333 0.00 0.00 39.09 3.18
2578 3023 2.368439 GTGTCCATTTGCATCCTAGCA 58.632 47.619 0.00 0.00 43.99 3.49
2636 3081 6.971527 TGTAACGTGGGTGAGTAATTATTG 57.028 37.500 0.00 0.00 0.00 1.90
2674 3119 1.666553 TTGTGCTTCGCTACCACCG 60.667 57.895 0.00 0.00 0.00 4.94
2729 3176 5.880332 TCATTGGTGCAGATTAGAACTTACC 59.120 40.000 0.00 0.00 0.00 2.85
2737 3184 5.813157 GCAGATTAGAACTTACCCTTCACTC 59.187 44.000 0.00 0.00 0.00 3.51
2851 3508 2.011617 GCCAGGGCCCATATCCAACT 62.012 60.000 27.56 0.00 34.56 3.16
2852 3509 1.444933 CCAGGGCCCATATCCAACTA 58.555 55.000 27.56 0.00 0.00 2.24
2853 3510 1.352352 CCAGGGCCCATATCCAACTAG 59.648 57.143 27.56 0.00 0.00 2.57
2914 3578 4.583073 GCCACGATTCCATTAATAAAGGGT 59.417 41.667 0.00 0.00 37.79 4.34
2989 4109 3.597728 CGAGAGCTCCCCGTAGCC 61.598 72.222 10.93 0.00 43.86 3.93
2990 4110 2.442272 GAGAGCTCCCCGTAGCCA 60.442 66.667 10.93 0.00 43.86 4.75
2991 4111 1.834822 GAGAGCTCCCCGTAGCCAT 60.835 63.158 10.93 0.00 43.86 4.40
2992 4112 0.539901 GAGAGCTCCCCGTAGCCATA 60.540 60.000 10.93 0.00 43.86 2.74
2993 4113 0.105658 AGAGCTCCCCGTAGCCATAA 60.106 55.000 10.93 0.00 43.86 1.90
2994 4114 0.033642 GAGCTCCCCGTAGCCATAAC 59.966 60.000 0.87 0.00 43.86 1.89
2995 4115 0.689745 AGCTCCCCGTAGCCATAACA 60.690 55.000 0.00 0.00 43.86 2.41
3015 4135 1.614824 CCTCCTGCAACCTCCTCCT 60.615 63.158 0.00 0.00 0.00 3.69
3018 4138 2.125350 CTGCAACCTCCTCCTCGC 60.125 66.667 0.00 0.00 0.00 5.03
3022 4142 2.685380 AACCTCCTCCTCGCCCTG 60.685 66.667 0.00 0.00 0.00 4.45
3052 4172 3.400054 AGCCGGCTGGTACCTTCC 61.400 66.667 32.33 12.71 37.67 3.46
3053 4173 3.400054 GCCGGCTGGTACCTTCCT 61.400 66.667 22.15 0.00 37.67 3.36
3055 4175 2.494918 CGGCTGGTACCTTCCTCG 59.505 66.667 14.36 6.40 0.00 4.63
3056 4176 2.050350 CGGCTGGTACCTTCCTCGA 61.050 63.158 14.36 0.00 0.00 4.04
3057 4177 1.601419 CGGCTGGTACCTTCCTCGAA 61.601 60.000 14.36 0.00 0.00 3.71
3058 4178 0.108281 GGCTGGTACCTTCCTCGAAC 60.108 60.000 14.36 0.00 0.00 3.95
3059 4179 0.458025 GCTGGTACCTTCCTCGAACG 60.458 60.000 14.36 0.00 0.00 3.95
3060 4180 0.458025 CTGGTACCTTCCTCGAACGC 60.458 60.000 14.36 0.00 0.00 4.84
3061 4181 1.153686 GGTACCTTCCTCGAACGCC 60.154 63.158 4.06 0.00 0.00 5.68
3062 4182 1.515736 GTACCTTCCTCGAACGCCG 60.516 63.158 0.00 0.00 40.25 6.46
3063 4183 3.346631 TACCTTCCTCGAACGCCGC 62.347 63.158 0.00 0.00 38.37 6.53
3158 4319 0.748367 TCAGATACGTGCGCCTCTCT 60.748 55.000 4.18 0.00 0.00 3.10
3196 4357 7.926674 TTCTGCATCTCATACAAGATTTGAA 57.073 32.000 0.00 0.00 33.68 2.69
3211 4372 8.562892 ACAAGATTTGAAAAGATACACACTCTG 58.437 33.333 0.00 0.00 0.00 3.35
3231 4395 5.003804 TCTGTAAAGGAAAACAGAGATGGC 58.996 41.667 1.19 0.00 45.40 4.40
3232 4396 3.751175 TGTAAAGGAAAACAGAGATGGCG 59.249 43.478 0.00 0.00 0.00 5.69
3233 4397 2.568623 AAGGAAAACAGAGATGGCGT 57.431 45.000 0.00 0.00 0.00 5.68
3234 4398 2.100605 AGGAAAACAGAGATGGCGTC 57.899 50.000 0.00 0.00 0.00 5.19
3235 4399 1.625818 AGGAAAACAGAGATGGCGTCT 59.374 47.619 9.44 9.44 40.81 4.18
3236 4400 2.832129 AGGAAAACAGAGATGGCGTCTA 59.168 45.455 9.68 0.00 37.29 2.59
3237 4401 3.260884 AGGAAAACAGAGATGGCGTCTAA 59.739 43.478 9.68 0.00 37.29 2.10
3238 4402 4.080863 AGGAAAACAGAGATGGCGTCTAAT 60.081 41.667 9.68 0.00 37.29 1.73
3239 4403 4.636206 GGAAAACAGAGATGGCGTCTAATT 59.364 41.667 9.68 1.60 37.29 1.40
3240 4404 5.815740 GGAAAACAGAGATGGCGTCTAATTA 59.184 40.000 9.68 0.00 37.29 1.40
3241 4405 6.315393 GGAAAACAGAGATGGCGTCTAATTAA 59.685 38.462 9.68 0.00 37.29 1.40
3242 4406 7.012421 GGAAAACAGAGATGGCGTCTAATTAAT 59.988 37.037 9.68 0.00 37.29 1.40
3243 4407 6.851222 AACAGAGATGGCGTCTAATTAATG 57.149 37.500 9.68 4.87 37.29 1.90
3244 4408 6.161855 ACAGAGATGGCGTCTAATTAATGA 57.838 37.500 9.68 0.00 37.29 2.57
3245 4409 6.763355 ACAGAGATGGCGTCTAATTAATGAT 58.237 36.000 9.68 0.00 37.29 2.45
3246 4410 6.870965 ACAGAGATGGCGTCTAATTAATGATC 59.129 38.462 9.68 0.00 37.29 2.92
3247 4411 7.095910 CAGAGATGGCGTCTAATTAATGATCT 58.904 38.462 9.68 0.00 37.29 2.75
3248 4412 7.601886 CAGAGATGGCGTCTAATTAATGATCTT 59.398 37.037 9.68 0.00 37.29 2.40
3249 4413 7.601886 AGAGATGGCGTCTAATTAATGATCTTG 59.398 37.037 9.68 0.00 37.29 3.02
3250 4414 7.445121 AGATGGCGTCTAATTAATGATCTTGA 58.555 34.615 7.63 0.00 34.69 3.02
3251 4415 8.099537 AGATGGCGTCTAATTAATGATCTTGAT 58.900 33.333 7.63 0.00 34.69 2.57
3252 4416 7.425577 TGGCGTCTAATTAATGATCTTGATG 57.574 36.000 0.00 0.00 0.00 3.07
3253 4417 6.992123 TGGCGTCTAATTAATGATCTTGATGT 59.008 34.615 0.00 0.00 0.00 3.06
3254 4418 7.498900 TGGCGTCTAATTAATGATCTTGATGTT 59.501 33.333 0.00 0.00 0.00 2.71
3255 4419 8.988934 GGCGTCTAATTAATGATCTTGATGTTA 58.011 33.333 0.00 0.00 0.00 2.41
3266 4430 8.922058 ATGATCTTGATGTTAGCAATTGAAAC 57.078 30.769 10.34 12.71 0.00 2.78
3267 4431 7.884257 TGATCTTGATGTTAGCAATTGAAACA 58.116 30.769 21.71 21.71 37.51 2.83
3268 4432 8.525316 TGATCTTGATGTTAGCAATTGAAACAT 58.475 29.630 26.69 26.69 44.35 2.71
3269 4433 9.362539 GATCTTGATGTTAGCAATTGAAACATT 57.637 29.630 26.90 17.43 42.35 2.71
3270 4434 8.523523 TCTTGATGTTAGCAATTGAAACATTG 57.476 30.769 26.90 21.62 42.35 2.82
3277 4441 4.666928 GCAATTGAAACATTGCGGAAAT 57.333 36.364 10.34 0.00 42.78 2.17
3278 4442 5.776519 GCAATTGAAACATTGCGGAAATA 57.223 34.783 10.34 0.00 42.78 1.40
3279 4443 5.550070 GCAATTGAAACATTGCGGAAATAC 58.450 37.500 10.34 0.00 42.78 1.89
3280 4444 5.119898 GCAATTGAAACATTGCGGAAATACA 59.880 36.000 10.34 0.00 42.78 2.29
3281 4445 6.347240 GCAATTGAAACATTGCGGAAATACAA 60.347 34.615 10.34 0.00 42.78 2.41
3282 4446 7.623925 GCAATTGAAACATTGCGGAAATACAAT 60.624 33.333 10.34 0.00 42.78 2.71
3283 4447 7.903995 ATTGAAACATTGCGGAAATACAATT 57.096 28.000 0.00 0.00 34.32 2.32
3284 4448 6.942886 TGAAACATTGCGGAAATACAATTC 57.057 33.333 0.00 0.00 34.32 2.17
3285 4449 6.450545 TGAAACATTGCGGAAATACAATTCA 58.549 32.000 0.00 0.00 34.32 2.57
3286 4450 6.585702 TGAAACATTGCGGAAATACAATTCAG 59.414 34.615 0.00 0.00 34.32 3.02
3287 4451 5.643379 ACATTGCGGAAATACAATTCAGT 57.357 34.783 0.00 0.00 34.32 3.41
3288 4452 6.751514 ACATTGCGGAAATACAATTCAGTA 57.248 33.333 0.00 0.00 34.32 2.74
3289 4453 7.333528 ACATTGCGGAAATACAATTCAGTAT 57.666 32.000 0.00 0.00 34.32 2.12
3290 4454 7.195646 ACATTGCGGAAATACAATTCAGTATG 58.804 34.615 0.00 0.00 34.32 2.39
3291 4455 5.168526 TGCGGAAATACAATTCAGTATGC 57.831 39.130 0.00 0.00 35.02 3.14
3292 4456 4.637977 TGCGGAAATACAATTCAGTATGCA 59.362 37.500 0.00 0.00 35.02 3.96
3293 4457 4.970003 GCGGAAATACAATTCAGTATGCAC 59.030 41.667 0.00 0.00 35.02 4.57
3294 4458 5.448496 GCGGAAATACAATTCAGTATGCACA 60.448 40.000 0.00 0.00 35.02 4.57
3295 4459 6.728200 CGGAAATACAATTCAGTATGCACAT 58.272 36.000 0.00 0.00 35.02 3.21
3296 4460 6.634035 CGGAAATACAATTCAGTATGCACATG 59.366 38.462 0.00 0.00 35.02 3.21
3297 4461 6.418819 GGAAATACAATTCAGTATGCACATGC 59.581 38.462 0.00 0.00 42.50 4.06
3298 4462 3.788333 ACAATTCAGTATGCACATGCC 57.212 42.857 0.49 0.00 41.18 4.40
3299 4463 2.428171 ACAATTCAGTATGCACATGCCC 59.572 45.455 0.49 0.00 41.18 5.36
3300 4464 2.691526 CAATTCAGTATGCACATGCCCT 59.308 45.455 0.49 0.00 41.18 5.19
3301 4465 3.862877 ATTCAGTATGCACATGCCCTA 57.137 42.857 0.49 0.00 41.18 3.53
3302 4466 3.643199 TTCAGTATGCACATGCCCTAA 57.357 42.857 0.49 0.00 41.18 2.69
3303 4467 3.862877 TCAGTATGCACATGCCCTAAT 57.137 42.857 0.49 0.00 41.18 1.73
3304 4468 4.169059 TCAGTATGCACATGCCCTAATT 57.831 40.909 0.49 0.00 41.18 1.40
3305 4469 4.535781 TCAGTATGCACATGCCCTAATTT 58.464 39.130 0.49 0.00 41.18 1.82
3306 4470 4.580167 TCAGTATGCACATGCCCTAATTTC 59.420 41.667 0.49 0.00 41.18 2.17
3307 4471 4.581824 CAGTATGCACATGCCCTAATTTCT 59.418 41.667 0.49 0.00 41.18 2.52
3308 4472 4.823989 AGTATGCACATGCCCTAATTTCTC 59.176 41.667 0.49 0.00 41.18 2.87
3309 4473 3.084536 TGCACATGCCCTAATTTCTCA 57.915 42.857 0.49 0.00 41.18 3.27
3310 4474 2.754552 TGCACATGCCCTAATTTCTCAC 59.245 45.455 0.49 0.00 41.18 3.51
3311 4475 3.019564 GCACATGCCCTAATTTCTCACT 58.980 45.455 0.00 0.00 34.31 3.41
3312 4476 3.445096 GCACATGCCCTAATTTCTCACTT 59.555 43.478 0.00 0.00 34.31 3.16
3313 4477 4.640201 GCACATGCCCTAATTTCTCACTTA 59.360 41.667 0.00 0.00 34.31 2.24
3314 4478 5.125417 GCACATGCCCTAATTTCTCACTTAA 59.875 40.000 0.00 0.00 34.31 1.85
3315 4479 6.678900 GCACATGCCCTAATTTCTCACTTAAG 60.679 42.308 0.00 0.00 34.31 1.85
3316 4480 6.599244 CACATGCCCTAATTTCTCACTTAAGA 59.401 38.462 10.09 0.00 0.00 2.10
3317 4481 7.284034 CACATGCCCTAATTTCTCACTTAAGAT 59.716 37.037 10.09 0.00 0.00 2.40
3318 4482 7.836183 ACATGCCCTAATTTCTCACTTAAGATT 59.164 33.333 10.09 0.00 0.00 2.40
3319 4483 8.689972 CATGCCCTAATTTCTCACTTAAGATTT 58.310 33.333 10.09 0.00 0.00 2.17
3320 4484 8.650143 TGCCCTAATTTCTCACTTAAGATTTT 57.350 30.769 10.09 0.00 0.00 1.82
3321 4485 9.088987 TGCCCTAATTTCTCACTTAAGATTTTT 57.911 29.630 10.09 0.00 0.00 1.94
3375 4539 7.946381 TGAGAATAGACTCATACAGAAGTGT 57.054 36.000 0.00 0.00 41.21 3.55
3376 4540 8.354711 TGAGAATAGACTCATACAGAAGTGTT 57.645 34.615 0.00 0.00 41.21 3.32
3377 4541 8.462811 TGAGAATAGACTCATACAGAAGTGTTC 58.537 37.037 0.00 0.00 41.21 3.18
3378 4542 8.588290 AGAATAGACTCATACAGAAGTGTTCT 57.412 34.615 0.00 0.00 41.70 3.01
3379 4543 9.030452 AGAATAGACTCATACAGAAGTGTTCTT 57.970 33.333 0.00 0.00 38.11 2.52
3380 4544 8.994429 AATAGACTCATACAGAAGTGTTCTTG 57.006 34.615 0.00 0.00 38.11 3.02
3381 4545 6.412362 AGACTCATACAGAAGTGTTCTTGT 57.588 37.500 0.00 0.00 38.11 3.16
3382 4546 6.821388 AGACTCATACAGAAGTGTTCTTGTT 58.179 36.000 0.00 0.00 38.11 2.83
3383 4547 7.275920 AGACTCATACAGAAGTGTTCTTGTTT 58.724 34.615 0.00 0.00 38.11 2.83
3384 4548 8.421784 AGACTCATACAGAAGTGTTCTTGTTTA 58.578 33.333 0.00 0.00 38.11 2.01
3385 4549 8.594881 ACTCATACAGAAGTGTTCTTGTTTAG 57.405 34.615 0.00 0.00 38.11 1.85
3386 4550 8.421784 ACTCATACAGAAGTGTTCTTGTTTAGA 58.578 33.333 0.00 0.00 38.11 2.10
3387 4551 9.429359 CTCATACAGAAGTGTTCTTGTTTAGAT 57.571 33.333 0.00 0.00 38.11 1.98
3388 4552 9.208022 TCATACAGAAGTGTTCTTGTTTAGATG 57.792 33.333 0.00 0.00 38.11 2.90
3389 4553 8.993121 CATACAGAAGTGTTCTTGTTTAGATGT 58.007 33.333 0.00 0.00 38.11 3.06
3390 4554 7.865706 ACAGAAGTGTTCTTGTTTAGATGTT 57.134 32.000 0.00 0.00 38.11 2.71
3391 4555 7.697691 ACAGAAGTGTTCTTGTTTAGATGTTG 58.302 34.615 0.00 0.00 38.11 3.33
3392 4556 7.336931 ACAGAAGTGTTCTTGTTTAGATGTTGT 59.663 33.333 0.00 0.00 38.11 3.32
3393 4557 8.826710 CAGAAGTGTTCTTGTTTAGATGTTGTA 58.173 33.333 0.00 0.00 38.11 2.41
3394 4558 9.391006 AGAAGTGTTCTTGTTTAGATGTTGTAA 57.609 29.630 0.00 0.00 36.36 2.41
3395 4559 9.997482 GAAGTGTTCTTGTTTAGATGTTGTAAA 57.003 29.630 0.00 0.00 33.64 2.01
3396 4560 9.783256 AAGTGTTCTTGTTTAGATGTTGTAAAC 57.217 29.630 1.54 1.54 39.72 2.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 2.420022 CCACACACTAGCCTTTATGTGC 59.580 50.000 8.40 0.00 45.08 4.57
12 13 1.060729 TGCCCACACACTAGCCTTTA 58.939 50.000 0.00 0.00 0.00 1.85
15 16 0.405585 AAATGCCCACACACTAGCCT 59.594 50.000 0.00 0.00 0.00 4.58
130 132 3.942130 AAAAGTTGCCACCTGCTTATC 57.058 42.857 0.00 0.00 42.00 1.75
305 315 3.306019 GGACAGTTGCCATGTAAAAAGGG 60.306 47.826 0.00 0.00 0.00 3.95
349 359 3.006323 CACTAGGCAGTTGAGAGAGTTGT 59.994 47.826 0.00 0.00 30.46 3.32
487 498 2.009774 GTTGCCATGTCGCTGAACTAT 58.990 47.619 0.00 0.00 0.00 2.12
588 599 1.544691 GTCAAGCCTCGTACCTTCTGA 59.455 52.381 0.00 0.00 0.00 3.27
592 603 2.159282 CGTATGTCAAGCCTCGTACCTT 60.159 50.000 0.00 0.00 0.00 3.50
604 616 0.038067 CCCACACGTCCGTATGTCAA 60.038 55.000 0.00 0.00 0.00 3.18
694 710 4.236935 CATCTACATGTGGGCAAAACAAC 58.763 43.478 9.11 0.00 0.00 3.32
799 815 8.932791 CACTCCGTACTTCACACTTATAAATTT 58.067 33.333 0.00 0.00 0.00 1.82
800 816 8.308931 TCACTCCGTACTTCACACTTATAAATT 58.691 33.333 0.00 0.00 0.00 1.82
801 817 7.833786 TCACTCCGTACTTCACACTTATAAAT 58.166 34.615 0.00 0.00 0.00 1.40
802 818 7.218228 TCACTCCGTACTTCACACTTATAAA 57.782 36.000 0.00 0.00 0.00 1.40
803 819 6.822667 TCACTCCGTACTTCACACTTATAA 57.177 37.500 0.00 0.00 0.00 0.98
804 820 6.822667 TTCACTCCGTACTTCACACTTATA 57.177 37.500 0.00 0.00 0.00 0.98
813 829 7.186021 TGAAATCTTTTTCACTCCGTACTTC 57.814 36.000 0.00 0.00 44.81 3.01
835 851 2.164422 CTGTCGTCAGTGGCTAAGATGA 59.836 50.000 1.16 0.00 36.97 2.92
853 869 7.535997 GGCTATTTAAAAGTCCGAAAATCTGT 58.464 34.615 0.00 0.00 0.00 3.41
861 877 3.615224 ACCGGCTATTTAAAAGTCCGA 57.385 42.857 20.04 0.00 36.43 4.55
862 878 4.685924 TCTACCGGCTATTTAAAAGTCCG 58.314 43.478 0.00 14.57 35.09 4.79
864 880 4.510711 GCCTCTACCGGCTATTTAAAAGTC 59.489 45.833 0.00 0.00 46.63 3.01
865 881 4.449131 GCCTCTACCGGCTATTTAAAAGT 58.551 43.478 0.00 0.00 46.63 2.66
898 918 3.790123 GCTCTTGTGTGTTCTTGTGCTTC 60.790 47.826 0.00 0.00 0.00 3.86
914 934 3.782244 GCGTGCTCGTGGCTCTTG 61.782 66.667 10.18 0.00 42.39 3.02
924 944 3.202706 GATTTCCCGGGCGTGCTC 61.203 66.667 18.49 4.01 0.00 4.26
925 945 3.268103 AAGATTTCCCGGGCGTGCT 62.268 57.895 18.49 7.86 0.00 4.40
950 977 1.276138 TGCACTGCTCTAGCTTTAGCA 59.724 47.619 18.43 18.43 46.11 3.49
978 1019 0.669318 TTAGCTTTCTCCGCACACCG 60.669 55.000 0.00 0.00 0.00 4.94
980 1021 1.871039 TGTTTAGCTTTCTCCGCACAC 59.129 47.619 0.00 0.00 0.00 3.82
981 1022 2.248280 TGTTTAGCTTTCTCCGCACA 57.752 45.000 0.00 0.00 0.00 4.57
983 1024 2.483877 CACATGTTTAGCTTTCTCCGCA 59.516 45.455 0.00 0.00 0.00 5.69
984 1025 2.729156 GCACATGTTTAGCTTTCTCCGC 60.729 50.000 0.00 0.00 0.00 5.54
986 1027 3.671702 GCTGCACATGTTTAGCTTTCTCC 60.672 47.826 19.04 0.00 33.53 3.71
988 1029 2.229784 GGCTGCACATGTTTAGCTTTCT 59.770 45.455 23.14 0.00 36.45 2.52
990 1031 1.962807 TGGCTGCACATGTTTAGCTTT 59.037 42.857 23.14 0.00 36.45 3.51
1191 1266 7.228507 CCCAATCAATCAACCGAACAATATAGA 59.771 37.037 0.00 0.00 0.00 1.98
1216 1318 0.512952 GTCGAACACAGCACACATCC 59.487 55.000 0.00 0.00 0.00 3.51
1232 1334 1.153939 CCAGCTCCTGTCGAAGTCG 60.154 63.158 0.00 0.00 41.45 4.18
1238 1340 4.135153 CCCGTCCAGCTCCTGTCG 62.135 72.222 0.00 0.00 0.00 4.35
1590 2012 3.368427 CGTTGGTGAGGCTCTTGATCTTA 60.368 47.826 16.72 0.00 0.00 2.10
1674 2096 2.621338 GTGTTGAAGATGATCGGCTGA 58.379 47.619 0.00 0.00 0.00 4.26
1857 2279 1.533753 CATGGTGGGGTTGTTGGCT 60.534 57.895 0.00 0.00 0.00 4.75
1942 2364 5.538813 TGATGAGGTAGTTGTTGTACTCAGT 59.461 40.000 0.00 0.00 0.00 3.41
1944 2366 6.437477 AGATGATGAGGTAGTTGTTGTACTCA 59.563 38.462 0.00 0.00 0.00 3.41
2235 2657 5.047943 CAGATTCTTACCGATCCCGATAAGT 60.048 44.000 0.00 0.00 41.49 2.24
2426 2854 4.083003 TGCTTCTTCGTCTCTCTTCTCTTC 60.083 45.833 0.00 0.00 0.00 2.87
2464 2900 1.158484 CGCATCAGTCTGCATCCCTG 61.158 60.000 0.00 0.00 42.40 4.45
2477 2913 3.145422 TATCTTCGGCCGCGCATCA 62.145 57.895 23.51 0.00 0.00 3.07
2480 2916 4.136511 TGTATCTTCGGCCGCGCA 62.137 61.111 23.51 6.18 0.00 6.09
2506 2942 7.535940 ACATTCACGGTGACAATTAAAATAACG 59.464 33.333 10.97 0.00 0.00 3.18
2518 2954 6.804295 GCATAATAAAAACATTCACGGTGACA 59.196 34.615 10.97 3.01 0.00 3.58
2519 2955 7.027161 AGCATAATAAAAACATTCACGGTGAC 58.973 34.615 10.97 0.00 0.00 3.67
2520 2956 7.151999 AGCATAATAAAAACATTCACGGTGA 57.848 32.000 6.76 6.76 0.00 4.02
2521 2957 7.810766 AAGCATAATAAAAACATTCACGGTG 57.189 32.000 0.56 0.56 0.00 4.94
2528 2964 8.085296 TGTCCGTGAAAGCATAATAAAAACATT 58.915 29.630 0.00 0.00 0.00 2.71
2536 2972 4.691685 ACGTTTGTCCGTGAAAGCATAATA 59.308 37.500 0.00 0.00 40.08 0.98
2578 3023 1.899814 TCGACTGGTTGACCTAGCATT 59.100 47.619 1.34 0.00 36.82 3.56
2589 3034 8.475639 ACATTATATTACAACTCTCGACTGGTT 58.524 33.333 0.00 0.00 0.00 3.67
2618 3063 9.680315 TTTAAAAACAATAATTACTCACCCACG 57.320 29.630 0.00 0.00 0.00 4.94
2729 3176 6.373774 ACATTATTGCTCTTTCTGAGTGAAGG 59.626 38.462 0.00 0.00 44.41 3.46
2737 3184 7.217636 CGTGATTTGACATTATTGCTCTTTCTG 59.782 37.037 0.00 0.00 0.00 3.02
2773 3220 0.618458 TCTGCCCCTGACGCTAATTT 59.382 50.000 0.00 0.00 0.00 1.82
2851 3508 2.656069 GCGGGTCTCAAGGGCACTA 61.656 63.158 0.00 0.00 0.00 2.74
2852 3509 4.021925 GCGGGTCTCAAGGGCACT 62.022 66.667 0.00 0.00 0.00 4.40
2853 3510 3.959991 GAGCGGGTCTCAAGGGCAC 62.960 68.421 0.00 0.00 41.51 5.01
2914 3578 0.530650 GAGATCGCGGCCTCATTTCA 60.531 55.000 18.95 0.00 0.00 2.69
2980 4100 1.002087 GAGGATGTTATGGCTACGGGG 59.998 57.143 0.00 0.00 0.00 5.73
2981 4101 1.002087 GGAGGATGTTATGGCTACGGG 59.998 57.143 0.00 0.00 0.00 5.28
2982 4102 1.971357 AGGAGGATGTTATGGCTACGG 59.029 52.381 0.00 0.00 0.00 4.02
2983 4103 2.868044 GCAGGAGGATGTTATGGCTACG 60.868 54.545 0.00 0.00 0.00 3.51
2984 4104 2.104792 TGCAGGAGGATGTTATGGCTAC 59.895 50.000 0.00 0.00 0.00 3.58
2985 4105 2.407562 TGCAGGAGGATGTTATGGCTA 58.592 47.619 0.00 0.00 0.00 3.93
2986 4106 1.216064 TGCAGGAGGATGTTATGGCT 58.784 50.000 0.00 0.00 0.00 4.75
2987 4107 1.678101 GTTGCAGGAGGATGTTATGGC 59.322 52.381 0.00 0.00 0.00 4.40
2988 4108 2.092212 AGGTTGCAGGAGGATGTTATGG 60.092 50.000 0.00 0.00 0.00 2.74
2989 4109 3.209410 GAGGTTGCAGGAGGATGTTATG 58.791 50.000 0.00 0.00 0.00 1.90
2990 4110 2.173569 GGAGGTTGCAGGAGGATGTTAT 59.826 50.000 0.00 0.00 0.00 1.89
2991 4111 1.559682 GGAGGTTGCAGGAGGATGTTA 59.440 52.381 0.00 0.00 0.00 2.41
2992 4112 0.329596 GGAGGTTGCAGGAGGATGTT 59.670 55.000 0.00 0.00 0.00 2.71
2993 4113 0.548682 AGGAGGTTGCAGGAGGATGT 60.549 55.000 0.00 0.00 0.00 3.06
2994 4114 0.179936 GAGGAGGTTGCAGGAGGATG 59.820 60.000 0.00 0.00 0.00 3.51
2995 4115 0.985490 GGAGGAGGTTGCAGGAGGAT 60.985 60.000 0.00 0.00 0.00 3.24
3035 4155 3.400054 GGAAGGTACCAGCCGGCT 61.400 66.667 27.08 27.08 34.57 5.52
3041 4161 0.458025 GCGTTCGAGGAAGGTACCAG 60.458 60.000 15.94 0.00 31.18 4.00
3042 4162 1.588082 GCGTTCGAGGAAGGTACCA 59.412 57.895 15.94 0.00 31.18 3.25
3044 4164 1.515736 CGGCGTTCGAGGAAGGTAC 60.516 63.158 0.00 0.00 42.43 3.34
3045 4165 2.879907 CGGCGTTCGAGGAAGGTA 59.120 61.111 0.00 0.00 42.43 3.08
3046 4166 4.736896 GCGGCGTTCGAGGAAGGT 62.737 66.667 9.37 0.00 42.43 3.50
3158 4319 6.600427 TGAGATGCAGAAATGCTAAAATGAGA 59.400 34.615 1.53 0.00 35.49 3.27
3196 4357 8.837389 GTTTTCCTTTACAGAGTGTGTATCTTT 58.163 33.333 0.29 0.00 41.45 2.52
3211 4372 3.751698 ACGCCATCTCTGTTTTCCTTTAC 59.248 43.478 0.00 0.00 0.00 2.01
3215 4379 1.625818 AGACGCCATCTCTGTTTTCCT 59.374 47.619 0.00 0.00 28.16 3.36
3240 4404 9.362539 GTTTCAATTGCTAACATCAAGATCATT 57.637 29.630 14.58 0.00 0.00 2.57
3241 4405 8.525316 TGTTTCAATTGCTAACATCAAGATCAT 58.475 29.630 16.93 0.00 0.00 2.45
3242 4406 7.884257 TGTTTCAATTGCTAACATCAAGATCA 58.116 30.769 16.93 0.00 0.00 2.92
3243 4407 8.922058 ATGTTTCAATTGCTAACATCAAGATC 57.078 30.769 22.50 0.00 37.85 2.75
3244 4408 9.146984 CAATGTTTCAATTGCTAACATCAAGAT 57.853 29.630 25.61 14.83 40.54 2.40
3245 4409 8.523523 CAATGTTTCAATTGCTAACATCAAGA 57.476 30.769 25.61 8.92 40.54 3.02
3257 4421 6.702972 TGTATTTCCGCAATGTTTCAATTG 57.297 33.333 0.00 0.00 39.98 2.32
3258 4422 7.903995 ATTGTATTTCCGCAATGTTTCAATT 57.096 28.000 0.00 0.00 34.44 2.32
3259 4423 7.601886 TGAATTGTATTTCCGCAATGTTTCAAT 59.398 29.630 0.00 0.00 35.72 2.57
3260 4424 6.925718 TGAATTGTATTTCCGCAATGTTTCAA 59.074 30.769 0.00 0.00 35.72 2.69
3261 4425 6.450545 TGAATTGTATTTCCGCAATGTTTCA 58.549 32.000 0.00 0.00 35.72 2.69
3262 4426 6.586082 ACTGAATTGTATTTCCGCAATGTTTC 59.414 34.615 0.00 0.00 35.72 2.78
3263 4427 6.454795 ACTGAATTGTATTTCCGCAATGTTT 58.545 32.000 0.00 0.00 35.72 2.83
3264 4428 6.024552 ACTGAATTGTATTTCCGCAATGTT 57.975 33.333 0.00 0.00 35.72 2.71
3265 4429 5.643379 ACTGAATTGTATTTCCGCAATGT 57.357 34.783 0.00 0.00 35.72 2.71
3266 4430 6.142798 GCATACTGAATTGTATTTCCGCAATG 59.857 38.462 0.00 0.00 35.72 2.82
3267 4431 6.183360 TGCATACTGAATTGTATTTCCGCAAT 60.183 34.615 0.00 0.00 36.95 3.56
3268 4432 5.124617 TGCATACTGAATTGTATTTCCGCAA 59.875 36.000 0.00 0.00 30.51 4.85
3269 4433 4.637977 TGCATACTGAATTGTATTTCCGCA 59.362 37.500 0.00 0.00 31.45 5.69
3270 4434 4.970003 GTGCATACTGAATTGTATTTCCGC 59.030 41.667 0.00 0.00 31.45 5.54
3271 4435 6.117911 TGTGCATACTGAATTGTATTTCCG 57.882 37.500 0.00 0.00 31.45 4.30
3272 4436 6.418819 GCATGTGCATACTGAATTGTATTTCC 59.581 38.462 0.00 0.00 41.59 3.13
3273 4437 6.418819 GGCATGTGCATACTGAATTGTATTTC 59.581 38.462 7.36 0.00 44.36 2.17
3274 4438 6.275335 GGCATGTGCATACTGAATTGTATTT 58.725 36.000 7.36 0.00 44.36 1.40
3275 4439 5.221303 GGGCATGTGCATACTGAATTGTATT 60.221 40.000 7.36 0.00 44.36 1.89
3276 4440 4.279169 GGGCATGTGCATACTGAATTGTAT 59.721 41.667 7.36 0.00 44.36 2.29
3277 4441 3.631686 GGGCATGTGCATACTGAATTGTA 59.368 43.478 7.36 0.00 44.36 2.41
3278 4442 2.428171 GGGCATGTGCATACTGAATTGT 59.572 45.455 7.36 0.00 44.36 2.71
3279 4443 2.691526 AGGGCATGTGCATACTGAATTG 59.308 45.455 7.36 0.00 44.36 2.32
3280 4444 3.022557 AGGGCATGTGCATACTGAATT 57.977 42.857 7.36 0.00 44.36 2.17
3281 4445 2.742428 AGGGCATGTGCATACTGAAT 57.258 45.000 7.36 0.00 44.36 2.57
3282 4446 3.643199 TTAGGGCATGTGCATACTGAA 57.357 42.857 7.36 0.00 44.36 3.02
3283 4447 3.862877 ATTAGGGCATGTGCATACTGA 57.137 42.857 7.36 0.00 44.36 3.41
3284 4448 4.581824 AGAAATTAGGGCATGTGCATACTG 59.418 41.667 7.36 0.00 44.36 2.74
3285 4449 4.796606 AGAAATTAGGGCATGTGCATACT 58.203 39.130 7.36 4.59 44.36 2.12
3286 4450 4.580167 TGAGAAATTAGGGCATGTGCATAC 59.420 41.667 7.36 0.00 44.36 2.39
3287 4451 4.580167 GTGAGAAATTAGGGCATGTGCATA 59.420 41.667 7.36 0.00 44.36 3.14
3288 4452 3.382546 GTGAGAAATTAGGGCATGTGCAT 59.617 43.478 7.36 0.00 44.36 3.96
3289 4453 2.754552 GTGAGAAATTAGGGCATGTGCA 59.245 45.455 7.36 0.00 44.36 4.57
3290 4454 3.019564 AGTGAGAAATTAGGGCATGTGC 58.980 45.455 0.00 0.00 41.14 4.57
3291 4455 6.599244 TCTTAAGTGAGAAATTAGGGCATGTG 59.401 38.462 1.63 0.00 0.00 3.21
3292 4456 6.721318 TCTTAAGTGAGAAATTAGGGCATGT 58.279 36.000 1.63 0.00 0.00 3.21
3293 4457 7.814264 ATCTTAAGTGAGAAATTAGGGCATG 57.186 36.000 1.63 0.00 0.00 4.06
3294 4458 8.829373 AAATCTTAAGTGAGAAATTAGGGCAT 57.171 30.769 1.63 0.00 0.00 4.40
3295 4459 8.650143 AAAATCTTAAGTGAGAAATTAGGGCA 57.350 30.769 1.63 0.00 0.00 5.36
3351 4515 7.946381 ACACTTCTGTATGAGTCTATTCTCA 57.054 36.000 0.00 0.00 46.39 3.27
3352 4516 8.682710 AGAACACTTCTGTATGAGTCTATTCTC 58.317 37.037 0.00 0.00 38.91 2.87
3353 4517 8.588290 AGAACACTTCTGTATGAGTCTATTCT 57.412 34.615 0.00 0.00 38.91 2.40
3354 4518 9.081997 CAAGAACACTTCTGTATGAGTCTATTC 57.918 37.037 0.00 0.00 40.59 1.75
3355 4519 8.589338 ACAAGAACACTTCTGTATGAGTCTATT 58.411 33.333 0.00 0.00 40.59 1.73
3356 4520 8.128322 ACAAGAACACTTCTGTATGAGTCTAT 57.872 34.615 0.00 0.00 40.59 1.98
3357 4521 7.526142 ACAAGAACACTTCTGTATGAGTCTA 57.474 36.000 0.00 0.00 40.59 2.59
3358 4522 6.412362 ACAAGAACACTTCTGTATGAGTCT 57.588 37.500 0.00 0.00 40.59 3.24
3359 4523 7.484035 AAACAAGAACACTTCTGTATGAGTC 57.516 36.000 0.00 0.00 40.59 3.36
3360 4524 8.421784 TCTAAACAAGAACACTTCTGTATGAGT 58.578 33.333 0.00 0.00 40.59 3.41
3361 4525 8.818141 TCTAAACAAGAACACTTCTGTATGAG 57.182 34.615 0.00 0.00 40.59 2.90
3362 4526 9.208022 CATCTAAACAAGAACACTTCTGTATGA 57.792 33.333 0.00 0.00 40.59 2.15
3363 4527 8.993121 ACATCTAAACAAGAACACTTCTGTATG 58.007 33.333 0.00 0.00 40.59 2.39
3364 4528 9.561069 AACATCTAAACAAGAACACTTCTGTAT 57.439 29.630 0.00 0.00 40.59 2.29
3365 4529 8.826710 CAACATCTAAACAAGAACACTTCTGTA 58.173 33.333 0.00 0.00 40.59 2.74
3366 4530 7.336931 ACAACATCTAAACAAGAACACTTCTGT 59.663 33.333 0.00 0.00 40.59 3.41
3367 4531 7.697691 ACAACATCTAAACAAGAACACTTCTG 58.302 34.615 0.00 0.00 40.59 3.02
3368 4532 7.865706 ACAACATCTAAACAAGAACACTTCT 57.134 32.000 0.00 0.00 43.15 2.85
3369 4533 9.997482 TTTACAACATCTAAACAAGAACACTTC 57.003 29.630 0.00 0.00 37.89 3.01
3370 4534 9.783256 GTTTACAACATCTAAACAAGAACACTT 57.217 29.630 0.00 0.00 37.89 3.16
3371 4535 8.952278 TGTTTACAACATCTAAACAAGAACACT 58.048 29.630 2.07 0.00 39.84 3.55
3372 4536 9.562583 TTGTTTACAACATCTAAACAAGAACAC 57.437 29.630 10.85 0.00 43.92 3.32
3379 4543 8.757789 CGTAGTCTTGTTTACAACATCTAAACA 58.242 33.333 0.64 0.64 41.79 2.83
3380 4544 8.758715 ACGTAGTCTTGTTTACAACATCTAAAC 58.241 33.333 0.00 0.00 37.47 2.01
3381 4545 8.757789 CACGTAGTCTTGTTTACAACATCTAAA 58.242 33.333 0.00 0.00 41.61 1.85
3382 4546 7.922278 ACACGTAGTCTTGTTTACAACATCTAA 59.078 33.333 0.00 0.00 41.61 2.10
3383 4547 7.380333 CACACGTAGTCTTGTTTACAACATCTA 59.620 37.037 0.00 0.00 41.61 1.98
3384 4548 6.200286 CACACGTAGTCTTGTTTACAACATCT 59.800 38.462 0.00 0.00 41.61 2.90
3385 4549 6.352526 CACACGTAGTCTTGTTTACAACATC 58.647 40.000 0.00 0.00 41.61 3.06
3386 4550 6.281848 CACACGTAGTCTTGTTTACAACAT 57.718 37.500 0.00 0.00 41.61 2.71
3387 4551 5.705813 CACACGTAGTCTTGTTTACAACA 57.294 39.130 0.00 0.00 41.61 3.33


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

AutoCloner maintained by Alex Coulton.