Multiple sequence alignment - TraesCS6B01G365700

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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 TraesCS6B01G365700 chr6B 100.000 2861 0 0 1 2861 637863363 637860503 0.000000e+00 5284.0
1 TraesCS6B01G365700 chr6D 90.019 2114 91 42 510 2581 423170363 423172398 0.000000e+00 2625.0
2 TraesCS6B01G365700 chr6D 88.632 519 36 16 1 508 423169767 423170273 6.780000e-171 610.0
3 TraesCS6B01G365700 chr6A 91.800 1939 74 36 774 2679 566430901 566429015 0.000000e+00 2621.0
4 TraesCS6B01G365700 chr6A 85.741 540 17 26 1 501 566433725 566433207 1.520000e-142 516.0
5 TraesCS6B01G365700 chr6A 92.469 239 8 6 511 744 566431135 566430902 1.640000e-87 333.0
6 TraesCS6B01G365700 chr3B 86.038 573 42 17 173 743 782682702 782682166 5.310000e-162 580.0
7 TraesCS6B01G365700 chr5A 85.690 580 44 20 167 743 652659310 652659853 2.470000e-160 575.0
8 TraesCS6B01G365700 chr5A 85.320 579 44 23 167 743 687294462 687295001 6.920000e-156 560.0
9 TraesCS6B01G365700 chr5B 85.739 575 43 20 172 743 529228259 529227721 3.200000e-159 571.0
10 TraesCS6B01G365700 chr5B 85.517 580 45 20 167 743 420374171 420374714 1.150000e-158 569.0
11 TraesCS6B01G365700 chr5B 82.414 580 45 28 167 743 592855680 592856205 1.210000e-123 453.0
12 TraesCS6B01G365700 chr1B 85.542 581 44 23 167 743 593492791 593493335 3.200000e-159 571.0
13 TraesCS6B01G365700 chr7B 84.509 581 43 20 167 743 472330547 472331084 5.430000e-147 531.0
14 TraesCS6B01G365700 chr7B 84.211 190 26 3 1266 1455 79051408 79051593 6.300000e-42 182.0
15 TraesCS6B01G365700 chr7B 92.308 52 2 2 692 743 701319858 701319809 3.950000e-09 73.1
16 TraesCS6B01G365700 chr7A 85.864 191 21 5 1266 1455 122207631 122207816 6.250000e-47 198.0
17 TraesCS6B01G365700 chr7D 80.769 260 40 8 1266 1525 117792096 117792345 8.090000e-46 195.0
18 TraesCS6B01G365700 chr4D 95.082 61 1 2 1328 1387 51296327 51296268 8.440000e-16 95.3
19 TraesCS6B01G365700 chr4D 95.556 45 2 0 1328 1372 390273862 390273906 3.950000e-09 73.1
20 TraesCS6B01G365700 chr4A 95.000 60 1 2 1328 1386 545215491 545215549 3.040000e-15 93.5
21 TraesCS6B01G365700 chr1D 95.556 45 2 0 1328 1372 212526729 212526773 3.950000e-09 73.1


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 TraesCS6B01G365700 chr6B 637860503 637863363 2860 True 5284.000000 5284 100.000000 1 2861 1 chr6B.!!$R1 2860
1 TraesCS6B01G365700 chr6D 423169767 423172398 2631 False 1617.500000 2625 89.325500 1 2581 2 chr6D.!!$F1 2580
2 TraesCS6B01G365700 chr6A 566429015 566433725 4710 True 1156.666667 2621 90.003333 1 2679 3 chr6A.!!$R1 2678
3 TraesCS6B01G365700 chr3B 782682166 782682702 536 True 580.000000 580 86.038000 173 743 1 chr3B.!!$R1 570
4 TraesCS6B01G365700 chr5A 652659310 652659853 543 False 575.000000 575 85.690000 167 743 1 chr5A.!!$F1 576
5 TraesCS6B01G365700 chr5A 687294462 687295001 539 False 560.000000 560 85.320000 167 743 1 chr5A.!!$F2 576
6 TraesCS6B01G365700 chr5B 529227721 529228259 538 True 571.000000 571 85.739000 172 743 1 chr5B.!!$R1 571
7 TraesCS6B01G365700 chr5B 420374171 420374714 543 False 569.000000 569 85.517000 167 743 1 chr5B.!!$F1 576
8 TraesCS6B01G365700 chr5B 592855680 592856205 525 False 453.000000 453 82.414000 167 743 1 chr5B.!!$F2 576
9 TraesCS6B01G365700 chr1B 593492791 593493335 544 False 571.000000 571 85.542000 167 743 1 chr1B.!!$F1 576
10 TraesCS6B01G365700 chr7B 472330547 472331084 537 False 531.000000 531 84.509000 167 743 1 chr7B.!!$F2 576

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
67 70 0.034089 TCGACTGGGCTCTCATCTCA 60.034 55.0 0.0 0.0 0.0 3.27 F
491 541 0.035152 GCCTGGGACACACATGATCA 60.035 55.0 0.0 0.0 0.0 2.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1119 3359 0.776451 CGTCGTTGTTGGAGAACTCG 59.224 55.0 0.00 0.0 34.17 4.18 R
2322 4610 0.769776 ATGTAGCTAGCATGGGGCCT 60.770 55.0 18.83 0.0 46.50 5.19 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
62 65 2.041115 CGACTCGACTGGGCTCTCA 61.041 63.158 0.00 0.00 0.00 3.27
63 66 1.380403 CGACTCGACTGGGCTCTCAT 61.380 60.000 0.00 0.00 0.00 2.90
67 70 0.034089 TCGACTGGGCTCTCATCTCA 60.034 55.000 0.00 0.00 0.00 3.27
83 86 5.903810 TCATCTCACATCTCACATCTCAAG 58.096 41.667 0.00 0.00 0.00 3.02
129 132 3.635591 AGCCAACCTCCCATAAAGATTG 58.364 45.455 0.00 0.00 0.00 2.67
258 261 1.002011 GTCTCCCTTTGGCCACTCC 60.002 63.158 3.88 0.00 0.00 3.85
272 275 0.249073 CACTCCATCGGTCCATCGAC 60.249 60.000 0.00 0.00 42.21 4.20
273 276 1.008424 CTCCATCGGTCCATCGACG 60.008 63.158 0.00 0.00 42.21 5.12
274 277 2.027605 CCATCGGTCCATCGACGG 59.972 66.667 0.00 0.00 42.21 4.79
275 278 2.658593 CATCGGTCCATCGACGGC 60.659 66.667 0.00 0.00 42.21 5.68
276 279 4.266070 ATCGGTCCATCGACGGCG 62.266 66.667 2.87 2.87 42.21 6.46
349 371 8.031277 CCTAGACCCAAAAGAAATGAAATGAAG 58.969 37.037 0.00 0.00 0.00 3.02
368 390 1.066787 AGTTTGCCTTCCGTCTCTAGC 60.067 52.381 0.00 0.00 0.00 3.42
390 417 2.736670 AGCCTAGGTTTAAGCCCATG 57.263 50.000 11.31 0.00 0.00 3.66
437 481 4.432892 CGATGCGTGTGTGTACATATATGC 60.433 45.833 21.43 21.43 39.39 3.14
483 533 1.284313 TATGTCATGCCTGGGACACA 58.716 50.000 6.44 5.50 45.84 3.72
491 541 0.035152 GCCTGGGACACACATGATCA 60.035 55.000 0.00 0.00 0.00 2.92
492 542 2.015588 GCCTGGGACACACATGATCAG 61.016 57.143 0.00 0.00 0.00 2.90
501 551 4.202441 ACACACATGATCAGCCTATTTCC 58.798 43.478 0.00 0.00 0.00 3.13
582 2798 1.524621 CGGCTGGCAGGATAGTTGG 60.525 63.158 17.64 0.00 0.00 3.77
661 2882 0.108186 CTGCGACTGCCATTCCACTA 60.108 55.000 0.00 0.00 41.78 2.74
720 2941 1.276705 GGGAGAGAGCGAGAGGTTTTT 59.723 52.381 0.00 0.00 45.11 1.94
722 2943 3.056035 GGGAGAGAGCGAGAGGTTTTTAA 60.056 47.826 0.00 0.00 45.11 1.52
723 2944 4.177783 GGAGAGAGCGAGAGGTTTTTAAG 58.822 47.826 0.00 0.00 45.11 1.85
724 2945 3.591023 AGAGAGCGAGAGGTTTTTAAGC 58.409 45.455 0.00 0.00 45.11 3.09
725 2946 3.259625 AGAGAGCGAGAGGTTTTTAAGCT 59.740 43.478 0.00 0.00 45.11 3.74
727 2948 2.416893 GAGCGAGAGGTTTTTAAGCTGG 59.583 50.000 0.00 0.00 45.11 4.85
728 2949 1.135660 GCGAGAGGTTTTTAAGCTGGC 60.136 52.381 0.00 0.00 39.77 4.85
729 2950 1.468914 CGAGAGGTTTTTAAGCTGGCC 59.531 52.381 0.00 0.00 39.77 5.36
730 2951 1.819288 GAGAGGTTTTTAAGCTGGCCC 59.181 52.381 0.00 0.00 39.77 5.80
731 2952 0.895530 GAGGTTTTTAAGCTGGCCCC 59.104 55.000 0.00 0.00 39.77 5.80
732 2953 0.487325 AGGTTTTTAAGCTGGCCCCT 59.513 50.000 0.00 0.00 37.93 4.79
733 2954 1.132849 AGGTTTTTAAGCTGGCCCCTT 60.133 47.619 0.00 5.56 37.93 3.95
748 2969 1.183676 CCCTTCCTTGCTTGCTTGCT 61.184 55.000 3.47 0.00 0.00 3.91
751 2972 0.390124 TTCCTTGCTTGCTTGCTTGG 59.610 50.000 3.47 5.44 0.00 3.61
753 2974 0.599204 CCTTGCTTGCTTGCTTGGTG 60.599 55.000 3.47 0.00 0.00 4.17
754 2975 0.103572 CTTGCTTGCTTGCTTGGTGT 59.896 50.000 3.47 0.00 0.00 4.16
755 2976 1.337703 CTTGCTTGCTTGCTTGGTGTA 59.662 47.619 3.47 0.00 0.00 2.90
756 2977 0.953727 TGCTTGCTTGCTTGGTGTAG 59.046 50.000 3.47 0.00 0.00 2.74
758 2979 1.068954 GCTTGCTTGCTTGGTGTAGTC 60.069 52.381 0.00 0.00 0.00 2.59
759 2980 1.537202 CTTGCTTGCTTGGTGTAGTCC 59.463 52.381 0.00 0.00 0.00 3.85
760 2981 0.250727 TGCTTGCTTGGTGTAGTCCC 60.251 55.000 0.00 0.00 0.00 4.46
761 2982 0.960861 GCTTGCTTGGTGTAGTCCCC 60.961 60.000 0.00 0.00 0.00 4.81
762 2983 0.693049 CTTGCTTGGTGTAGTCCCCT 59.307 55.000 0.00 0.00 0.00 4.79
763 2984 0.690762 TTGCTTGGTGTAGTCCCCTC 59.309 55.000 0.00 0.00 0.00 4.30
764 2985 1.198759 TGCTTGGTGTAGTCCCCTCC 61.199 60.000 0.00 0.00 0.00 4.30
765 2986 1.198759 GCTTGGTGTAGTCCCCTCCA 61.199 60.000 0.00 0.00 0.00 3.86
766 2987 0.613777 CTTGGTGTAGTCCCCTCCAC 59.386 60.000 0.00 0.00 0.00 4.02
767 2988 0.104882 TTGGTGTAGTCCCCTCCACA 60.105 55.000 0.00 0.00 0.00 4.17
768 2989 0.834687 TGGTGTAGTCCCCTCCACAC 60.835 60.000 0.00 0.00 40.40 3.82
769 2990 0.544595 GGTGTAGTCCCCTCCACACT 60.545 60.000 3.97 0.00 40.82 3.55
770 2991 0.896226 GTGTAGTCCCCTCCACACTC 59.104 60.000 0.00 0.00 38.56 3.51
771 2992 0.611062 TGTAGTCCCCTCCACACTCG 60.611 60.000 0.00 0.00 0.00 4.18
772 2993 1.000019 TAGTCCCCTCCACACTCGG 60.000 63.158 0.00 0.00 0.00 4.63
773 2994 4.083862 GTCCCCTCCACACTCGGC 62.084 72.222 0.00 0.00 0.00 5.54
902 3130 2.983136 CGCACAAACACTACAGAGAGAG 59.017 50.000 0.00 0.00 0.00 3.20
903 3131 3.304726 CGCACAAACACTACAGAGAGAGA 60.305 47.826 0.00 0.00 0.00 3.10
904 3132 3.984633 GCACAAACACTACAGAGAGAGAC 59.015 47.826 0.00 0.00 0.00 3.36
905 3133 4.222886 CACAAACACTACAGAGAGAGACG 58.777 47.826 0.00 0.00 0.00 4.18
906 3134 4.023963 CACAAACACTACAGAGAGAGACGA 60.024 45.833 0.00 0.00 0.00 4.20
907 3135 4.214545 ACAAACACTACAGAGAGAGACGAG 59.785 45.833 0.00 0.00 0.00 4.18
908 3136 2.352388 ACACTACAGAGAGAGACGAGC 58.648 52.381 0.00 0.00 0.00 5.03
909 3137 2.027561 ACACTACAGAGAGAGACGAGCT 60.028 50.000 0.00 0.00 0.00 4.09
910 3138 3.196039 ACACTACAGAGAGAGACGAGCTA 59.804 47.826 0.00 0.00 0.00 3.32
911 3139 3.802139 CACTACAGAGAGAGACGAGCTAG 59.198 52.174 0.00 0.00 0.00 3.42
912 3140 1.663695 ACAGAGAGAGACGAGCTAGC 58.336 55.000 6.62 6.62 0.00 3.42
913 3141 1.209504 ACAGAGAGAGACGAGCTAGCT 59.790 52.381 19.45 19.45 0.00 3.32
936 3164 1.067495 AGACGCTCCAAGTCAAGCTAC 60.067 52.381 0.00 0.00 40.84 3.58
946 3174 3.499737 CAAGCTACCAAGGCGCGG 61.500 66.667 8.83 0.00 34.52 6.46
1057 3285 3.869272 CGCAGCTGCCGTTCATCC 61.869 66.667 32.07 2.46 37.91 3.51
1534 3780 4.429212 CGATGTGGACGACCGCCA 62.429 66.667 14.77 6.78 45.20 5.69
1535 3781 2.509336 GATGTGGACGACCGCCAG 60.509 66.667 14.77 0.00 45.20 4.85
1908 4159 3.895656 TCTTGTGAGTTGGCAGTAGTACT 59.104 43.478 0.00 0.00 0.00 2.73
1915 4166 3.564225 AGTTGGCAGTAGTACTTTGCAAC 59.436 43.478 24.62 23.24 39.54 4.17
1961 4212 5.461032 AAATAATCTCCACCGTTTTTGCA 57.539 34.783 0.00 0.00 0.00 4.08
2001 4252 0.701147 AGCTAGCTTGCTCCCCTTTT 59.299 50.000 17.30 0.00 39.34 2.27
2055 4322 6.569179 TTCCTGTAATTTGCAAGAAGGTAC 57.431 37.500 0.00 0.23 0.00 3.34
2061 4328 8.410673 TGTAATTTGCAAGAAGGTACCAATTA 57.589 30.769 15.94 9.78 0.00 1.40
2067 4338 7.113658 TGCAAGAAGGTACCAATTACAAAAA 57.886 32.000 15.94 0.00 31.46 1.94
2075 4346 8.429237 AGGTACCAATTACAAAAATTCCATCA 57.571 30.769 15.94 0.00 31.46 3.07
2080 4351 6.818142 CCAATTACAAAAATTCCATCAGGACC 59.182 38.462 0.00 0.00 45.73 4.46
2082 4353 6.588719 TTACAAAAATTCCATCAGGACCTG 57.411 37.500 15.99 15.99 45.73 4.00
2087 4358 4.387026 AATTCCATCAGGACCTGTTGAA 57.613 40.909 27.38 22.59 45.73 2.69
2095 4366 5.152623 TCAGGACCTGTTGAACTTATCAG 57.847 43.478 21.06 0.00 39.77 2.90
2096 4367 4.593206 TCAGGACCTGTTGAACTTATCAGT 59.407 41.667 21.06 0.00 39.77 3.41
2126 4401 6.091169 AGACAAAGATTAAATTTTGCATGCCG 59.909 34.615 16.68 0.00 37.71 5.69
2129 4404 4.104776 AGATTAAATTTTGCATGCCGTCG 58.895 39.130 16.68 0.00 0.00 5.12
2130 4405 1.623359 TAAATTTTGCATGCCGTCGC 58.377 45.000 16.68 0.00 0.00 5.19
2191 4479 3.328505 GCAACATGCAAGGCAGTAAAAT 58.671 40.909 0.00 0.00 43.65 1.82
2204 4492 4.376146 GCAGTAAAATTTTGGCAACTGGA 58.624 39.130 23.39 0.00 35.89 3.86
2214 4502 0.392336 GGCAACTGGAAAATGTGGCA 59.608 50.000 0.00 0.00 34.97 4.92
2322 4610 2.324541 CATTGTTTTTCCTCCCCCACA 58.675 47.619 0.00 0.00 0.00 4.17
2340 4628 1.384502 AGGCCCCATGCTAGCTACA 60.385 57.895 17.23 0.00 40.92 2.74
2349 4637 2.879002 TGCTAGCTACATCTGTCTGC 57.121 50.000 17.23 0.00 0.00 4.26
2390 4678 4.338879 AGATGGCTCTTTTTAGCATGTGT 58.661 39.130 0.00 0.00 44.64 3.72
2508 4796 2.478539 GCGGATGGCTCAAAAGATCAAC 60.479 50.000 0.00 0.00 39.11 3.18
2604 4898 1.547372 GCTTGCCTCAATCATGGTTGT 59.453 47.619 18.05 0.00 0.00 3.32
2609 4903 3.640498 TGCCTCAATCATGGTTGTTTTCA 59.360 39.130 18.05 9.44 0.00 2.69
2611 4905 5.221682 TGCCTCAATCATGGTTGTTTTCATT 60.222 36.000 18.05 0.00 0.00 2.57
2621 4915 5.444983 TGGTTGTTTTCATTATTGACGTCG 58.555 37.500 11.62 0.00 0.00 5.12
2630 4924 3.781341 TTATTGACGTCGCACAGTTTC 57.219 42.857 11.62 0.00 0.00 2.78
2684 4978 8.794335 ATAAAATCAGTCCTTACAAGAACTCC 57.206 34.615 0.00 0.00 0.00 3.85
2685 4979 4.828072 ATCAGTCCTTACAAGAACTCCC 57.172 45.455 0.00 0.00 0.00 4.30
2686 4980 2.561419 TCAGTCCTTACAAGAACTCCCG 59.439 50.000 0.00 0.00 0.00 5.14
2687 4981 2.299297 CAGTCCTTACAAGAACTCCCGT 59.701 50.000 0.00 0.00 0.00 5.28
2688 4982 2.299297 AGTCCTTACAAGAACTCCCGTG 59.701 50.000 0.00 0.00 0.00 4.94
2689 4983 1.001633 TCCTTACAAGAACTCCCGTGC 59.998 52.381 0.00 0.00 0.00 5.34
2690 4984 1.270625 CCTTACAAGAACTCCCGTGCA 60.271 52.381 0.00 0.00 0.00 4.57
2691 4985 2.489971 CTTACAAGAACTCCCGTGCAA 58.510 47.619 0.00 0.00 0.00 4.08
2692 4986 1.873698 TACAAGAACTCCCGTGCAAC 58.126 50.000 0.00 0.00 0.00 4.17
2693 4987 0.818040 ACAAGAACTCCCGTGCAACC 60.818 55.000 0.00 0.00 0.00 3.77
2694 4988 1.228154 AAGAACTCCCGTGCAACCC 60.228 57.895 0.00 0.00 0.00 4.11
2695 4989 1.990160 AAGAACTCCCGTGCAACCCA 61.990 55.000 0.00 0.00 0.00 4.51
2696 4990 2.203294 AACTCCCGTGCAACCCAC 60.203 61.111 0.00 0.00 41.15 4.61
2697 4991 2.676163 GAACTCCCGTGCAACCCACT 62.676 60.000 0.00 0.00 42.42 4.00
2698 4992 2.113139 CTCCCGTGCAACCCACTT 59.887 61.111 0.00 0.00 42.42 3.16
2699 4993 1.966451 CTCCCGTGCAACCCACTTC 60.966 63.158 0.00 0.00 42.42 3.01
2700 4994 2.203280 CCCGTGCAACCCACTTCA 60.203 61.111 0.00 0.00 42.42 3.02
2701 4995 1.826054 CCCGTGCAACCCACTTCAA 60.826 57.895 0.00 0.00 42.42 2.69
2702 4996 1.388065 CCCGTGCAACCCACTTCAAA 61.388 55.000 0.00 0.00 42.42 2.69
2703 4997 0.673437 CCGTGCAACCCACTTCAAAT 59.327 50.000 0.00 0.00 42.42 2.32
2704 4998 1.883275 CCGTGCAACCCACTTCAAATA 59.117 47.619 0.00 0.00 42.42 1.40
2705 4999 2.294791 CCGTGCAACCCACTTCAAATAA 59.705 45.455 0.00 0.00 42.42 1.40
2706 5000 3.056891 CCGTGCAACCCACTTCAAATAAT 60.057 43.478 0.00 0.00 42.42 1.28
2707 5001 4.555262 CGTGCAACCCACTTCAAATAATT 58.445 39.130 0.00 0.00 42.42 1.40
2708 5002 4.987912 CGTGCAACCCACTTCAAATAATTT 59.012 37.500 0.00 0.00 42.42 1.82
2709 5003 5.118510 CGTGCAACCCACTTCAAATAATTTC 59.881 40.000 0.00 0.00 42.42 2.17
2710 5004 5.408299 GTGCAACCCACTTCAAATAATTTCC 59.592 40.000 0.00 0.00 41.35 3.13
2711 5005 5.306678 TGCAACCCACTTCAAATAATTTCCT 59.693 36.000 0.00 0.00 0.00 3.36
2712 5006 5.639082 GCAACCCACTTCAAATAATTTCCTG 59.361 40.000 0.00 0.00 0.00 3.86
2713 5007 5.405935 ACCCACTTCAAATAATTTCCTGC 57.594 39.130 0.00 0.00 0.00 4.85
2714 5008 4.837860 ACCCACTTCAAATAATTTCCTGCA 59.162 37.500 0.00 0.00 0.00 4.41
2715 5009 5.306678 ACCCACTTCAAATAATTTCCTGCAA 59.693 36.000 0.00 0.00 0.00 4.08
2716 5010 6.183361 ACCCACTTCAAATAATTTCCTGCAAA 60.183 34.615 0.00 0.00 0.00 3.68
2717 5011 6.709846 CCCACTTCAAATAATTTCCTGCAAAA 59.290 34.615 0.00 0.00 0.00 2.44
2718 5012 7.228308 CCCACTTCAAATAATTTCCTGCAAAAA 59.772 33.333 0.00 0.00 0.00 1.94
2744 5038 8.492415 AAAAACCCTCTTAAAATAAAGGAGCT 57.508 30.769 0.00 0.00 0.00 4.09
2745 5039 7.704578 AAACCCTCTTAAAATAAAGGAGCTC 57.295 36.000 4.71 4.71 0.00 4.09
2746 5040 5.756918 ACCCTCTTAAAATAAAGGAGCTCC 58.243 41.667 26.22 26.22 0.00 4.70
2747 5041 5.133941 CCCTCTTAAAATAAAGGAGCTCCC 58.866 45.833 29.54 11.59 36.42 4.30
2748 5042 4.816925 CCTCTTAAAATAAAGGAGCTCCCG 59.183 45.833 29.54 5.20 40.87 5.14
2749 5043 5.429130 CTCTTAAAATAAAGGAGCTCCCGT 58.571 41.667 29.54 19.31 40.87 5.28
2750 5044 5.812286 TCTTAAAATAAAGGAGCTCCCGTT 58.188 37.500 29.54 24.10 40.87 4.44
2751 5045 5.878669 TCTTAAAATAAAGGAGCTCCCGTTC 59.121 40.000 29.54 3.72 40.87 3.95
2752 5046 3.713826 AAATAAAGGAGCTCCCGTTCA 57.286 42.857 29.54 10.71 40.87 3.18
2753 5047 3.713826 AATAAAGGAGCTCCCGTTCAA 57.286 42.857 29.54 10.12 40.87 2.69
2754 5048 2.762535 TAAAGGAGCTCCCGTTCAAG 57.237 50.000 29.54 0.00 40.87 3.02
2755 5049 1.056660 AAAGGAGCTCCCGTTCAAGA 58.943 50.000 29.54 0.00 40.87 3.02
2756 5050 1.056660 AAGGAGCTCCCGTTCAAGAA 58.943 50.000 29.54 0.00 40.87 2.52
2757 5051 1.280457 AGGAGCTCCCGTTCAAGAAT 58.720 50.000 29.54 3.28 40.87 2.40
2758 5052 1.065854 AGGAGCTCCCGTTCAAGAATG 60.066 52.381 29.54 0.00 40.87 2.67
2759 5053 1.066143 GGAGCTCCCGTTCAAGAATGA 60.066 52.381 23.19 0.00 0.00 2.57
2760 5054 2.615493 GGAGCTCCCGTTCAAGAATGAA 60.615 50.000 23.19 0.00 43.18 2.57
2761 5055 3.074412 GAGCTCCCGTTCAAGAATGAAA 58.926 45.455 0.87 0.00 46.66 2.69
2762 5056 3.690460 AGCTCCCGTTCAAGAATGAAAT 58.310 40.909 3.66 0.00 46.66 2.17
2763 5057 4.082125 AGCTCCCGTTCAAGAATGAAATT 58.918 39.130 3.66 0.00 46.66 1.82
2764 5058 5.253330 AGCTCCCGTTCAAGAATGAAATTA 58.747 37.500 3.66 0.00 46.66 1.40
2765 5059 5.355350 AGCTCCCGTTCAAGAATGAAATTAG 59.645 40.000 3.66 0.00 46.66 1.73
2766 5060 5.354234 GCTCCCGTTCAAGAATGAAATTAGA 59.646 40.000 3.66 0.00 46.66 2.10
2767 5061 6.457528 GCTCCCGTTCAAGAATGAAATTAGAG 60.458 42.308 3.66 0.36 46.66 2.43
2768 5062 5.880332 TCCCGTTCAAGAATGAAATTAGAGG 59.120 40.000 3.66 0.00 46.66 3.69
2769 5063 5.449177 CCCGTTCAAGAATGAAATTAGAGGC 60.449 44.000 3.66 0.00 46.66 4.70
2770 5064 5.355350 CCGTTCAAGAATGAAATTAGAGGCT 59.645 40.000 3.66 0.00 46.66 4.58
2771 5065 6.538742 CCGTTCAAGAATGAAATTAGAGGCTA 59.461 38.462 3.66 0.00 46.66 3.93
2772 5066 7.254590 CCGTTCAAGAATGAAATTAGAGGCTAG 60.255 40.741 3.66 0.00 46.66 3.42
2773 5067 7.278868 CGTTCAAGAATGAAATTAGAGGCTAGT 59.721 37.037 0.00 0.00 46.66 2.57
2774 5068 8.951243 GTTCAAGAATGAAATTAGAGGCTAGTT 58.049 33.333 0.00 0.00 46.66 2.24
2775 5069 8.723942 TCAAGAATGAAATTAGAGGCTAGTTC 57.276 34.615 0.00 0.00 36.07 3.01
2776 5070 7.770897 TCAAGAATGAAATTAGAGGCTAGTTCC 59.229 37.037 0.00 0.00 36.07 3.62
2777 5071 7.444703 AGAATGAAATTAGAGGCTAGTTCCT 57.555 36.000 0.00 0.00 36.07 3.36
2778 5072 7.278875 AGAATGAAATTAGAGGCTAGTTCCTG 58.721 38.462 0.00 0.00 36.07 3.86
2779 5073 6.814954 ATGAAATTAGAGGCTAGTTCCTGA 57.185 37.500 0.00 0.00 36.38 3.86
2780 5074 6.620877 TGAAATTAGAGGCTAGTTCCTGAA 57.379 37.500 0.00 0.00 36.38 3.02
2781 5075 6.644347 TGAAATTAGAGGCTAGTTCCTGAAG 58.356 40.000 0.00 0.00 36.38 3.02
2782 5076 6.440647 TGAAATTAGAGGCTAGTTCCTGAAGA 59.559 38.462 0.00 0.00 36.38 2.87
2783 5077 6.875972 AATTAGAGGCTAGTTCCTGAAGAA 57.124 37.500 0.00 0.00 36.38 2.52
2784 5078 6.875972 ATTAGAGGCTAGTTCCTGAAGAAA 57.124 37.500 0.00 0.00 36.38 2.52
2785 5079 6.681729 TTAGAGGCTAGTTCCTGAAGAAAA 57.318 37.500 0.00 0.00 36.38 2.29
2786 5080 4.900684 AGAGGCTAGTTCCTGAAGAAAAC 58.099 43.478 0.00 0.00 36.38 2.43
2787 5081 4.348168 AGAGGCTAGTTCCTGAAGAAAACA 59.652 41.667 0.00 0.00 36.38 2.83
2788 5082 5.048846 AGGCTAGTTCCTGAAGAAAACAA 57.951 39.130 0.00 0.00 35.85 2.83
2789 5083 4.822350 AGGCTAGTTCCTGAAGAAAACAAC 59.178 41.667 0.00 0.00 35.85 3.32
2790 5084 4.578928 GGCTAGTTCCTGAAGAAAACAACA 59.421 41.667 0.00 0.00 35.85 3.33
2791 5085 5.505819 GGCTAGTTCCTGAAGAAAACAACAC 60.506 44.000 0.00 0.00 35.85 3.32
2792 5086 4.983671 AGTTCCTGAAGAAAACAACACC 57.016 40.909 0.00 0.00 35.85 4.16
2793 5087 3.377172 AGTTCCTGAAGAAAACAACACCG 59.623 43.478 0.00 0.00 35.85 4.94
2794 5088 2.993937 TCCTGAAGAAAACAACACCGT 58.006 42.857 0.00 0.00 0.00 4.83
2795 5089 2.940410 TCCTGAAGAAAACAACACCGTC 59.060 45.455 0.00 0.00 0.00 4.79
2796 5090 2.943033 CCTGAAGAAAACAACACCGTCT 59.057 45.455 0.00 0.00 0.00 4.18
2797 5091 3.377172 CCTGAAGAAAACAACACCGTCTT 59.623 43.478 0.00 0.00 0.00 3.01
2798 5092 4.495844 CCTGAAGAAAACAACACCGTCTTC 60.496 45.833 5.05 5.05 42.89 2.87
2799 5093 3.375922 TGAAGAAAACAACACCGTCTTCC 59.624 43.478 8.74 0.00 42.23 3.46
2800 5094 3.277142 AGAAAACAACACCGTCTTCCT 57.723 42.857 0.00 0.00 0.00 3.36
2801 5095 3.617284 AGAAAACAACACCGTCTTCCTT 58.383 40.909 0.00 0.00 0.00 3.36
2802 5096 3.626217 AGAAAACAACACCGTCTTCCTTC 59.374 43.478 0.00 0.00 0.00 3.46
2803 5097 3.277142 AAACAACACCGTCTTCCTTCT 57.723 42.857 0.00 0.00 0.00 2.85
2804 5098 2.240493 ACAACACCGTCTTCCTTCTG 57.760 50.000 0.00 0.00 0.00 3.02
2805 5099 0.868406 CAACACCGTCTTCCTTCTGC 59.132 55.000 0.00 0.00 0.00 4.26
2806 5100 0.468226 AACACCGTCTTCCTTCTGCA 59.532 50.000 0.00 0.00 0.00 4.41
2807 5101 0.687354 ACACCGTCTTCCTTCTGCAT 59.313 50.000 0.00 0.00 0.00 3.96
2808 5102 1.338200 ACACCGTCTTCCTTCTGCATC 60.338 52.381 0.00 0.00 0.00 3.91
2809 5103 0.250513 ACCGTCTTCCTTCTGCATCC 59.749 55.000 0.00 0.00 0.00 3.51
2810 5104 0.462759 CCGTCTTCCTTCTGCATCCC 60.463 60.000 0.00 0.00 0.00 3.85
2811 5105 0.539051 CGTCTTCCTTCTGCATCCCT 59.461 55.000 0.00 0.00 0.00 4.20
2812 5106 1.472376 CGTCTTCCTTCTGCATCCCTC 60.472 57.143 0.00 0.00 0.00 4.30
2813 5107 1.134250 GTCTTCCTTCTGCATCCCTCC 60.134 57.143 0.00 0.00 0.00 4.30
2814 5108 0.914644 CTTCCTTCTGCATCCCTCCA 59.085 55.000 0.00 0.00 0.00 3.86
2815 5109 0.620556 TTCCTTCTGCATCCCTCCAC 59.379 55.000 0.00 0.00 0.00 4.02
2816 5110 0.547471 TCCTTCTGCATCCCTCCACA 60.547 55.000 0.00 0.00 0.00 4.17
2817 5111 0.329261 CCTTCTGCATCCCTCCACAA 59.671 55.000 0.00 0.00 0.00 3.33
2818 5112 1.064166 CCTTCTGCATCCCTCCACAAT 60.064 52.381 0.00 0.00 0.00 2.71
2819 5113 2.622452 CCTTCTGCATCCCTCCACAATT 60.622 50.000 0.00 0.00 0.00 2.32
2820 5114 2.133281 TCTGCATCCCTCCACAATTG 57.867 50.000 3.24 3.24 0.00 2.32
2821 5115 0.458669 CTGCATCCCTCCACAATTGC 59.541 55.000 5.05 0.00 0.00 3.56
2822 5116 0.971959 TGCATCCCTCCACAATTGCC 60.972 55.000 5.05 0.00 0.00 4.52
2823 5117 2.008268 GCATCCCTCCACAATTGCCG 62.008 60.000 5.05 0.00 0.00 5.69
2824 5118 1.754234 ATCCCTCCACAATTGCCGC 60.754 57.895 5.05 0.00 0.00 6.53
2825 5119 3.814268 CCCTCCACAATTGCCGCG 61.814 66.667 5.05 0.00 0.00 6.46
2826 5120 4.481112 CCTCCACAATTGCCGCGC 62.481 66.667 5.05 0.00 0.00 6.86
2827 5121 4.481112 CTCCACAATTGCCGCGCC 62.481 66.667 5.05 0.00 0.00 6.53
2829 5123 4.132441 CCACAATTGCCGCGCCAT 62.132 61.111 5.05 0.00 0.00 4.40
2830 5124 2.881827 CACAATTGCCGCGCCATG 60.882 61.111 5.05 0.00 0.00 3.66
2831 5125 4.799824 ACAATTGCCGCGCCATGC 62.800 61.111 5.05 2.51 41.47 4.06
2838 5132 3.130819 CCGCGCCATGCCAAGTAA 61.131 61.111 0.00 0.00 42.08 2.24
2839 5133 2.695759 CCGCGCCATGCCAAGTAAA 61.696 57.895 0.00 0.00 42.08 2.01
2840 5134 1.211449 CGCGCCATGCCAAGTAAAA 59.789 52.632 0.00 0.00 42.08 1.52
2841 5135 0.179140 CGCGCCATGCCAAGTAAAAT 60.179 50.000 0.00 0.00 42.08 1.82
2842 5136 1.280066 GCGCCATGCCAAGTAAAATG 58.720 50.000 0.00 0.00 37.76 2.32
2843 5137 1.404047 GCGCCATGCCAAGTAAAATGT 60.404 47.619 0.00 0.00 37.76 2.71
2844 5138 2.261345 CGCCATGCCAAGTAAAATGTG 58.739 47.619 0.00 0.00 0.00 3.21
2845 5139 2.352617 CGCCATGCCAAGTAAAATGTGT 60.353 45.455 0.00 0.00 0.00 3.72
2846 5140 3.663025 GCCATGCCAAGTAAAATGTGTT 58.337 40.909 0.00 0.00 0.00 3.32
2847 5141 4.617067 CGCCATGCCAAGTAAAATGTGTTA 60.617 41.667 0.00 0.00 0.00 2.41
2848 5142 5.233988 GCCATGCCAAGTAAAATGTGTTAA 58.766 37.500 0.00 0.00 0.00 2.01
2849 5143 5.698545 GCCATGCCAAGTAAAATGTGTTAAA 59.301 36.000 0.00 0.00 0.00 1.52
2850 5144 6.203723 GCCATGCCAAGTAAAATGTGTTAAAA 59.796 34.615 0.00 0.00 0.00 1.52
2851 5145 7.254932 GCCATGCCAAGTAAAATGTGTTAAAAA 60.255 33.333 0.00 0.00 0.00 1.94
2852 5146 8.782144 CCATGCCAAGTAAAATGTGTTAAAAAT 58.218 29.630 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
54 57 2.037901 TGAGATGTGAGATGAGAGCCC 58.962 52.381 0.00 0.00 0.00 5.19
56 59 3.797451 TGTGAGATGTGAGATGAGAGC 57.203 47.619 0.00 0.00 0.00 4.09
57 60 5.299782 TGAGATGTGAGATGTGAGATGAGAG 59.700 44.000 0.00 0.00 0.00 3.20
58 61 5.198965 TGAGATGTGAGATGTGAGATGAGA 58.801 41.667 0.00 0.00 0.00 3.27
62 65 5.657745 AGACTTGAGATGTGAGATGTGAGAT 59.342 40.000 0.00 0.00 0.00 2.75
63 66 5.015515 AGACTTGAGATGTGAGATGTGAGA 58.984 41.667 0.00 0.00 0.00 3.27
67 70 5.662456 CATGAGACTTGAGATGTGAGATGT 58.338 41.667 0.00 0.00 0.00 3.06
83 86 2.730672 GGACACGCACGCATGAGAC 61.731 63.158 2.50 0.00 0.00 3.36
129 132 0.696501 TGGCCCTAGGGTTGTTCTTC 59.303 55.000 28.96 9.41 37.65 2.87
258 261 2.658593 GCCGTCGATGGACCGATG 60.659 66.667 28.06 0.00 43.15 3.84
273 276 4.451150 TCAGTGCCCATCGTCGCC 62.451 66.667 0.00 0.00 0.00 5.54
274 277 3.188786 GTCAGTGCCCATCGTCGC 61.189 66.667 0.00 0.00 0.00 5.19
275 278 1.807165 CTGTCAGTGCCCATCGTCG 60.807 63.158 0.00 0.00 0.00 5.12
276 279 2.103042 GCTGTCAGTGCCCATCGTC 61.103 63.158 0.93 0.00 0.00 4.20
277 280 1.257750 TAGCTGTCAGTGCCCATCGT 61.258 55.000 0.00 0.00 0.00 3.73
349 371 1.360820 GCTAGAGACGGAAGGCAAAC 58.639 55.000 0.00 0.00 46.78 2.93
378 405 4.750598 GCTACTAGCTACATGGGCTTAAAC 59.249 45.833 18.02 4.58 40.74 2.01
437 481 0.890683 GCAGATTTTGGGACTGGGTG 59.109 55.000 0.00 0.00 33.00 4.61
483 533 3.131709 CCGGAAATAGGCTGATCATGT 57.868 47.619 0.00 0.00 0.00 3.21
661 2882 4.351938 TACAAGACGCAGCGCCGT 62.352 61.111 16.61 11.51 45.30 5.68
720 2941 1.691219 CAAGGAAGGGGCCAGCTTA 59.309 57.895 4.39 0.00 0.00 3.09
722 2943 4.372999 GCAAGGAAGGGGCCAGCT 62.373 66.667 4.39 0.00 0.00 4.24
723 2944 3.893961 AAGCAAGGAAGGGGCCAGC 62.894 63.158 4.39 0.00 0.00 4.85
724 2945 1.980772 CAAGCAAGGAAGGGGCCAG 60.981 63.158 4.39 0.00 0.00 4.85
725 2946 2.118076 CAAGCAAGGAAGGGGCCA 59.882 61.111 4.39 0.00 0.00 5.36
727 2948 1.910276 AAGCAAGCAAGGAAGGGGC 60.910 57.895 0.00 0.00 0.00 5.80
728 2949 1.969862 CAAGCAAGCAAGGAAGGGG 59.030 57.895 0.00 0.00 0.00 4.79
729 2950 1.183676 AGCAAGCAAGCAAGGAAGGG 61.184 55.000 3.19 0.00 36.85 3.95
730 2951 0.677842 AAGCAAGCAAGCAAGGAAGG 59.322 50.000 3.19 0.00 36.85 3.46
731 2952 1.604693 CCAAGCAAGCAAGCAAGGAAG 60.605 52.381 3.19 0.00 36.85 3.46
732 2953 0.390124 CCAAGCAAGCAAGCAAGGAA 59.610 50.000 3.19 0.00 36.85 3.36
733 2954 0.756442 ACCAAGCAAGCAAGCAAGGA 60.756 50.000 14.74 0.00 35.49 3.36
753 2974 1.321074 CCGAGTGTGGAGGGGACTAC 61.321 65.000 0.00 0.00 44.43 2.73
754 2975 1.000019 CCGAGTGTGGAGGGGACTA 60.000 63.158 0.00 0.00 44.43 2.59
756 2977 4.083862 GCCGAGTGTGGAGGGGAC 62.084 72.222 0.00 0.00 0.00 4.46
758 2979 3.775654 GAGCCGAGTGTGGAGGGG 61.776 72.222 0.00 0.00 0.00 4.79
759 2980 3.775654 GGAGCCGAGTGTGGAGGG 61.776 72.222 0.00 0.00 0.00 4.30
760 2981 4.135153 CGGAGCCGAGTGTGGAGG 62.135 72.222 2.00 0.00 42.83 4.30
761 2982 3.062466 TCGGAGCCGAGTGTGGAG 61.062 66.667 7.66 0.00 44.01 3.86
769 2990 1.134007 TCTATGTAAGGTCGGAGCCGA 60.134 52.381 7.66 7.66 46.87 5.54
770 2991 1.001597 GTCTATGTAAGGTCGGAGCCG 60.002 57.143 1.74 1.74 41.35 5.52
771 2992 2.029623 TGTCTATGTAAGGTCGGAGCC 58.970 52.381 3.13 0.00 0.00 4.70
772 2993 3.643763 CATGTCTATGTAAGGTCGGAGC 58.356 50.000 0.00 0.00 0.00 4.70
773 2994 3.068165 TGCATGTCTATGTAAGGTCGGAG 59.932 47.826 0.00 0.00 36.65 4.63
834 3062 1.612676 GTGCGGTTTTAAGGGGAAGT 58.387 50.000 0.00 0.00 0.00 3.01
902 3130 0.233848 GCGTCTCTAGCTAGCTCGTC 59.766 60.000 23.26 10.44 0.00 4.20
903 3131 0.179067 AGCGTCTCTAGCTAGCTCGT 60.179 55.000 23.26 6.31 44.05 4.18
904 3132 0.511221 GAGCGTCTCTAGCTAGCTCG 59.489 60.000 23.26 18.98 46.13 5.03
906 3134 0.181587 TGGAGCGTCTCTAGCTAGCT 59.818 55.000 23.12 23.12 46.13 3.32
907 3135 1.001815 CTTGGAGCGTCTCTAGCTAGC 60.002 57.143 16.35 6.62 46.13 3.42
908 3136 2.289547 GACTTGGAGCGTCTCTAGCTAG 59.710 54.545 15.01 15.01 46.13 3.42
909 3137 2.290464 GACTTGGAGCGTCTCTAGCTA 58.710 52.381 0.00 0.00 46.13 3.32
911 3139 0.811915 TGACTTGGAGCGTCTCTAGC 59.188 55.000 6.78 0.00 32.70 3.42
912 3140 2.733858 GCTTGACTTGGAGCGTCTCTAG 60.734 54.545 6.78 7.16 32.70 2.43
913 3141 1.202582 GCTTGACTTGGAGCGTCTCTA 59.797 52.381 6.78 0.00 32.70 2.43
936 3164 1.432270 GAGAATTCTCCGCGCCTTGG 61.432 60.000 22.68 0.00 37.02 3.61
946 3174 1.067071 ACGTGAACCCGGAGAATTCTC 60.067 52.381 24.68 24.68 42.14 2.87
1119 3359 0.776451 CGTCGTTGTTGGAGAACTCG 59.224 55.000 0.00 0.00 34.17 4.18
1275 3521 1.898885 GAACTTCCTCGTCTCCCCC 59.101 63.158 0.00 0.00 0.00 5.40
1915 4166 8.692110 TTAAGCTATTTTGAATCAACATGCAG 57.308 30.769 5.00 0.00 0.00 4.41
1961 4212 4.261825 GCTAGCTAAACATGGATCGAGACT 60.262 45.833 7.70 0.00 0.00 3.24
2005 4256 7.442062 GCCATTTTGATTCCATAATAACTTGGG 59.558 37.037 0.00 0.00 33.62 4.12
2055 4322 6.818142 GGTCCTGATGGAATTTTTGTAATTGG 59.182 38.462 0.00 0.00 45.18 3.16
2061 4328 4.482990 ACAGGTCCTGATGGAATTTTTGT 58.517 39.130 26.18 0.00 45.18 2.83
2067 4338 3.331889 AGTTCAACAGGTCCTGATGGAAT 59.668 43.478 26.18 15.17 45.18 3.01
2075 4346 5.552178 GAACTGATAAGTTCAACAGGTCCT 58.448 41.667 16.94 0.00 45.35 3.85
2087 4358 5.825593 TCTTTGTCTGGGAACTGATAAGT 57.174 39.130 0.00 0.00 39.73 2.24
2095 4366 7.440856 TGCAAAATTTAATCTTTGTCTGGGAAC 59.559 33.333 10.03 0.00 35.42 3.62
2096 4367 7.504403 TGCAAAATTTAATCTTTGTCTGGGAA 58.496 30.769 10.03 0.00 35.42 3.97
2101 4375 6.091169 CGGCATGCAAAATTTAATCTTTGTCT 59.909 34.615 21.36 0.00 35.42 3.41
2102 4376 6.128580 ACGGCATGCAAAATTTAATCTTTGTC 60.129 34.615 21.36 0.00 35.42 3.18
2126 4401 3.701241 TGTTGTTCCATTTTCTTGCGAC 58.299 40.909 0.00 0.00 0.00 5.19
2129 4404 8.772705 TGATATTTTGTTGTTCCATTTTCTTGC 58.227 29.630 0.00 0.00 0.00 4.01
2170 4458 2.437200 TTTACTGCCTTGCATGTTGC 57.563 45.000 0.00 0.00 45.29 4.17
2171 4459 5.927954 AAATTTTACTGCCTTGCATGTTG 57.072 34.783 0.00 0.00 38.13 3.33
2172 4460 5.239087 CCAAAATTTTACTGCCTTGCATGTT 59.761 36.000 2.44 0.00 38.13 2.71
2173 4461 4.756135 CCAAAATTTTACTGCCTTGCATGT 59.244 37.500 2.44 0.00 38.13 3.21
2174 4462 4.378666 GCCAAAATTTTACTGCCTTGCATG 60.379 41.667 2.44 0.00 38.13 4.06
2183 4471 6.917217 TTTCCAGTTGCCAAAATTTTACTG 57.083 33.333 18.53 18.53 34.32 2.74
2191 4479 3.539604 CCACATTTTCCAGTTGCCAAAA 58.460 40.909 0.00 0.00 0.00 2.44
2204 4492 2.167487 ACGAACCTTTGTGCCACATTTT 59.833 40.909 0.00 0.00 0.00 1.82
2214 4502 5.063438 CGTATGATGATGAACGAACCTTTGT 59.937 40.000 0.00 0.00 37.53 2.83
2322 4610 0.769776 ATGTAGCTAGCATGGGGCCT 60.770 55.000 18.83 0.00 46.50 5.19
2340 4628 2.803030 AGCAATTCAGGCAGACAGAT 57.197 45.000 0.00 0.00 0.00 2.90
2349 4637 2.555325 TCTCTGTGCAAAGCAATTCAGG 59.445 45.455 0.00 1.48 41.47 3.86
2468 4756 1.002257 TCACGTGCCAATCTGCCAT 60.002 52.632 11.67 0.00 0.00 4.40
2604 4898 4.212425 ACTGTGCGACGTCAATAATGAAAA 59.788 37.500 17.16 0.00 37.30 2.29
2609 4903 3.124636 GGAAACTGTGCGACGTCAATAAT 59.875 43.478 17.16 0.00 0.00 1.28
2611 4905 2.063266 GGAAACTGTGCGACGTCAATA 58.937 47.619 17.16 0.29 0.00 1.90
2621 4915 5.982465 TTGCAAATTAAAGGAAACTGTGC 57.018 34.783 0.00 0.00 42.68 4.57
2679 4973 2.203294 GTGGGTTGCACGGGAGTT 60.203 61.111 0.00 0.00 44.67 3.01
2681 4975 1.966451 GAAGTGGGTTGCACGGGAG 60.966 63.158 0.00 0.00 0.00 4.30
2682 4976 2.112297 GAAGTGGGTTGCACGGGA 59.888 61.111 0.00 0.00 0.00 5.14
2683 4977 1.388065 TTTGAAGTGGGTTGCACGGG 61.388 55.000 0.00 0.00 0.00 5.28
2684 4978 0.673437 ATTTGAAGTGGGTTGCACGG 59.327 50.000 0.00 0.00 0.00 4.94
2685 4979 3.634568 TTATTTGAAGTGGGTTGCACG 57.365 42.857 0.00 0.00 0.00 5.34
2686 4980 5.408299 GGAAATTATTTGAAGTGGGTTGCAC 59.592 40.000 0.00 0.00 0.00 4.57
2687 4981 5.306678 AGGAAATTATTTGAAGTGGGTTGCA 59.693 36.000 0.00 0.00 0.00 4.08
2688 4982 5.639082 CAGGAAATTATTTGAAGTGGGTTGC 59.361 40.000 0.00 0.00 0.00 4.17
2689 4983 5.639082 GCAGGAAATTATTTGAAGTGGGTTG 59.361 40.000 0.00 0.00 0.00 3.77
2690 4984 5.306678 TGCAGGAAATTATTTGAAGTGGGTT 59.693 36.000 0.00 0.00 0.00 4.11
2691 4985 4.837860 TGCAGGAAATTATTTGAAGTGGGT 59.162 37.500 0.00 0.00 0.00 4.51
2692 4986 5.404466 TGCAGGAAATTATTTGAAGTGGG 57.596 39.130 0.00 0.00 0.00 4.61
2693 4987 7.727331 TTTTGCAGGAAATTATTTGAAGTGG 57.273 32.000 0.00 0.00 0.00 4.00
2719 5013 8.492415 AGCTCCTTTATTTTAAGAGGGTTTTT 57.508 30.769 0.00 0.00 0.00 1.94
2720 5014 7.178628 GGAGCTCCTTTATTTTAAGAGGGTTTT 59.821 37.037 26.25 0.00 0.00 2.43
2721 5015 6.663953 GGAGCTCCTTTATTTTAAGAGGGTTT 59.336 38.462 26.25 0.00 0.00 3.27
2722 5016 6.188407 GGAGCTCCTTTATTTTAAGAGGGTT 58.812 40.000 26.25 0.00 0.00 4.11
2723 5017 5.340110 GGGAGCTCCTTTATTTTAAGAGGGT 60.340 44.000 31.36 0.00 35.95 4.34
2724 5018 5.133941 GGGAGCTCCTTTATTTTAAGAGGG 58.866 45.833 31.36 0.00 35.95 4.30
2725 5019 4.816925 CGGGAGCTCCTTTATTTTAAGAGG 59.183 45.833 31.36 1.32 35.95 3.69
2726 5020 5.429130 ACGGGAGCTCCTTTATTTTAAGAG 58.571 41.667 31.36 9.57 35.95 2.85
2727 5021 5.431179 ACGGGAGCTCCTTTATTTTAAGA 57.569 39.130 31.36 0.00 35.95 2.10
2728 5022 5.646360 TGAACGGGAGCTCCTTTATTTTAAG 59.354 40.000 31.36 12.23 35.95 1.85
2729 5023 5.562635 TGAACGGGAGCTCCTTTATTTTAA 58.437 37.500 31.36 7.04 35.95 1.52
2730 5024 5.168647 TGAACGGGAGCTCCTTTATTTTA 57.831 39.130 31.36 11.66 35.95 1.52
2731 5025 4.028993 TGAACGGGAGCTCCTTTATTTT 57.971 40.909 31.36 15.11 35.95 1.82
2732 5026 3.713826 TGAACGGGAGCTCCTTTATTT 57.286 42.857 31.36 16.77 35.95 1.40
2733 5027 3.263425 TCTTGAACGGGAGCTCCTTTATT 59.737 43.478 31.36 19.49 35.95 1.40
2734 5028 2.838202 TCTTGAACGGGAGCTCCTTTAT 59.162 45.455 31.36 15.70 35.95 1.40
2735 5029 2.253610 TCTTGAACGGGAGCTCCTTTA 58.746 47.619 31.36 13.52 35.95 1.85
2736 5030 1.056660 TCTTGAACGGGAGCTCCTTT 58.943 50.000 31.36 23.63 35.95 3.11
2737 5031 1.056660 TTCTTGAACGGGAGCTCCTT 58.943 50.000 31.36 19.42 35.95 3.36
2738 5032 1.065854 CATTCTTGAACGGGAGCTCCT 60.066 52.381 31.36 13.11 35.95 3.69
2739 5033 1.066143 TCATTCTTGAACGGGAGCTCC 60.066 52.381 25.59 25.59 0.00 4.70
2740 5034 2.386661 TCATTCTTGAACGGGAGCTC 57.613 50.000 4.71 4.71 0.00 4.09
2741 5035 2.859165 TTCATTCTTGAACGGGAGCT 57.141 45.000 0.00 0.00 36.94 4.09
2742 5036 4.440839 AATTTCATTCTTGAACGGGAGC 57.559 40.909 0.00 0.00 41.50 4.70
2743 5037 6.037610 CCTCTAATTTCATTCTTGAACGGGAG 59.962 42.308 0.00 0.00 41.50 4.30
2744 5038 5.880332 CCTCTAATTTCATTCTTGAACGGGA 59.120 40.000 0.00 0.00 41.50 5.14
2745 5039 5.449177 GCCTCTAATTTCATTCTTGAACGGG 60.449 44.000 0.00 0.00 41.50 5.28
2746 5040 5.355350 AGCCTCTAATTTCATTCTTGAACGG 59.645 40.000 0.00 0.00 41.50 4.44
2747 5041 6.428385 AGCCTCTAATTTCATTCTTGAACG 57.572 37.500 0.00 0.00 41.50 3.95
2748 5042 8.499403 ACTAGCCTCTAATTTCATTCTTGAAC 57.501 34.615 0.00 0.00 41.50 3.18
2749 5043 9.167311 GAACTAGCCTCTAATTTCATTCTTGAA 57.833 33.333 0.00 0.00 40.09 2.69
2750 5044 7.770897 GGAACTAGCCTCTAATTTCATTCTTGA 59.229 37.037 0.00 0.00 0.00 3.02
2751 5045 7.772757 AGGAACTAGCCTCTAATTTCATTCTTG 59.227 37.037 0.00 0.00 36.02 3.02
2752 5046 7.772757 CAGGAACTAGCCTCTAATTTCATTCTT 59.227 37.037 0.00 0.00 36.02 2.52
2753 5047 7.126421 TCAGGAACTAGCCTCTAATTTCATTCT 59.874 37.037 0.00 0.00 36.02 2.40
2754 5048 7.275920 TCAGGAACTAGCCTCTAATTTCATTC 58.724 38.462 0.00 0.00 36.02 2.67
2755 5049 7.200434 TCAGGAACTAGCCTCTAATTTCATT 57.800 36.000 0.00 0.00 36.02 2.57
2756 5050 6.814954 TCAGGAACTAGCCTCTAATTTCAT 57.185 37.500 0.00 0.00 36.02 2.57
2757 5051 6.440647 TCTTCAGGAACTAGCCTCTAATTTCA 59.559 38.462 0.00 0.00 36.02 2.69
2758 5052 6.879400 TCTTCAGGAACTAGCCTCTAATTTC 58.121 40.000 0.00 0.00 36.02 2.17
2759 5053 6.875972 TCTTCAGGAACTAGCCTCTAATTT 57.124 37.500 0.00 0.00 36.02 1.82
2760 5054 6.875972 TTCTTCAGGAACTAGCCTCTAATT 57.124 37.500 0.00 0.00 36.02 1.40
2761 5055 6.875972 TTTCTTCAGGAACTAGCCTCTAAT 57.124 37.500 0.00 0.00 36.02 1.73
2762 5056 6.042781 TGTTTTCTTCAGGAACTAGCCTCTAA 59.957 38.462 0.00 0.00 36.02 2.10
2763 5057 5.542635 TGTTTTCTTCAGGAACTAGCCTCTA 59.457 40.000 0.00 0.00 36.02 2.43
2764 5058 4.348168 TGTTTTCTTCAGGAACTAGCCTCT 59.652 41.667 0.00 0.00 36.02 3.69
2765 5059 4.642429 TGTTTTCTTCAGGAACTAGCCTC 58.358 43.478 0.00 0.00 36.02 4.70
2766 5060 4.706842 TGTTTTCTTCAGGAACTAGCCT 57.293 40.909 0.00 0.00 36.02 4.58
2767 5061 4.578928 TGTTGTTTTCTTCAGGAACTAGCC 59.421 41.667 0.00 0.00 36.02 3.93
2768 5062 5.505819 GGTGTTGTTTTCTTCAGGAACTAGC 60.506 44.000 0.00 0.00 36.02 3.42
2769 5063 5.277345 CGGTGTTGTTTTCTTCAGGAACTAG 60.277 44.000 0.00 0.00 36.02 2.57
2770 5064 4.573201 CGGTGTTGTTTTCTTCAGGAACTA 59.427 41.667 0.00 0.00 36.02 2.24
2771 5065 3.377172 CGGTGTTGTTTTCTTCAGGAACT 59.623 43.478 0.00 0.00 43.88 3.01
2772 5066 3.128068 ACGGTGTTGTTTTCTTCAGGAAC 59.872 43.478 0.00 0.00 33.13 3.62
2773 5067 3.349022 ACGGTGTTGTTTTCTTCAGGAA 58.651 40.909 0.00 0.00 0.00 3.36
2774 5068 2.940410 GACGGTGTTGTTTTCTTCAGGA 59.060 45.455 0.00 0.00 0.00 3.86
2775 5069 2.943033 AGACGGTGTTGTTTTCTTCAGG 59.057 45.455 0.00 0.00 0.00 3.86
2776 5070 4.495844 GGAAGACGGTGTTGTTTTCTTCAG 60.496 45.833 10.82 0.00 42.63 3.02
2777 5071 3.375922 GGAAGACGGTGTTGTTTTCTTCA 59.624 43.478 10.82 0.00 42.63 3.02
2778 5072 3.626217 AGGAAGACGGTGTTGTTTTCTTC 59.374 43.478 0.00 0.00 40.93 2.87
2779 5073 3.617284 AGGAAGACGGTGTTGTTTTCTT 58.383 40.909 0.00 0.00 34.40 2.52
2780 5074 3.277142 AGGAAGACGGTGTTGTTTTCT 57.723 42.857 0.00 0.00 34.40 2.52
2781 5075 3.626217 AGAAGGAAGACGGTGTTGTTTTC 59.374 43.478 0.00 0.00 33.49 2.29
2782 5076 3.377172 CAGAAGGAAGACGGTGTTGTTTT 59.623 43.478 0.00 0.00 0.00 2.43
2783 5077 2.943033 CAGAAGGAAGACGGTGTTGTTT 59.057 45.455 0.00 0.00 0.00 2.83
2784 5078 2.561569 CAGAAGGAAGACGGTGTTGTT 58.438 47.619 0.00 0.00 0.00 2.83
2785 5079 1.810412 GCAGAAGGAAGACGGTGTTGT 60.810 52.381 0.00 0.00 0.00 3.32
2786 5080 0.868406 GCAGAAGGAAGACGGTGTTG 59.132 55.000 0.00 0.00 0.00 3.33
2787 5081 0.468226 TGCAGAAGGAAGACGGTGTT 59.532 50.000 0.00 0.00 0.00 3.32
2788 5082 0.687354 ATGCAGAAGGAAGACGGTGT 59.313 50.000 0.00 0.00 0.00 4.16
2789 5083 1.363744 GATGCAGAAGGAAGACGGTG 58.636 55.000 0.00 0.00 0.00 4.94
2790 5084 0.250513 GGATGCAGAAGGAAGACGGT 59.749 55.000 0.00 0.00 0.00 4.83
2791 5085 0.462759 GGGATGCAGAAGGAAGACGG 60.463 60.000 0.00 0.00 0.00 4.79
2792 5086 0.539051 AGGGATGCAGAAGGAAGACG 59.461 55.000 0.00 0.00 0.00 4.18
2793 5087 1.134250 GGAGGGATGCAGAAGGAAGAC 60.134 57.143 0.00 0.00 0.00 3.01
2794 5088 1.207791 GGAGGGATGCAGAAGGAAGA 58.792 55.000 0.00 0.00 0.00 2.87
2795 5089 0.914644 TGGAGGGATGCAGAAGGAAG 59.085 55.000 0.00 0.00 0.00 3.46
2796 5090 0.620556 GTGGAGGGATGCAGAAGGAA 59.379 55.000 0.00 0.00 0.00 3.36
2797 5091 0.547471 TGTGGAGGGATGCAGAAGGA 60.547 55.000 0.00 0.00 0.00 3.36
2798 5092 0.329261 TTGTGGAGGGATGCAGAAGG 59.671 55.000 0.00 0.00 0.00 3.46
2799 5093 2.426024 CAATTGTGGAGGGATGCAGAAG 59.574 50.000 0.00 0.00 0.00 2.85
2800 5094 2.449464 CAATTGTGGAGGGATGCAGAA 58.551 47.619 0.00 0.00 0.00 3.02
2801 5095 1.956636 GCAATTGTGGAGGGATGCAGA 60.957 52.381 7.40 0.00 34.10 4.26
2802 5096 0.458669 GCAATTGTGGAGGGATGCAG 59.541 55.000 7.40 0.00 34.10 4.41
2803 5097 0.971959 GGCAATTGTGGAGGGATGCA 60.972 55.000 7.40 0.00 35.57 3.96
2804 5098 1.818555 GGCAATTGTGGAGGGATGC 59.181 57.895 7.40 0.00 0.00 3.91
2805 5099 2.008268 GCGGCAATTGTGGAGGGATG 62.008 60.000 7.40 0.00 0.00 3.51
2806 5100 1.754234 GCGGCAATTGTGGAGGGAT 60.754 57.895 7.40 0.00 0.00 3.85
2807 5101 2.361104 GCGGCAATTGTGGAGGGA 60.361 61.111 7.40 0.00 0.00 4.20
2808 5102 3.814268 CGCGGCAATTGTGGAGGG 61.814 66.667 7.40 1.37 0.00 4.30
2809 5103 4.481112 GCGCGGCAATTGTGGAGG 62.481 66.667 8.83 0.00 0.00 4.30
2810 5104 4.481112 GGCGCGGCAATTGTGGAG 62.481 66.667 29.32 2.51 0.00 3.86
2812 5106 4.132441 ATGGCGCGGCAATTGTGG 62.132 61.111 39.24 0.37 0.00 4.17
2813 5107 2.881827 CATGGCGCGGCAATTGTG 60.882 61.111 39.24 27.71 0.00 3.33
2814 5108 4.799824 GCATGGCGCGGCAATTGT 62.800 61.111 39.24 20.66 0.00 2.71
2821 5115 2.206515 TTTTACTTGGCATGGCGCGG 62.207 55.000 15.27 9.33 43.84 6.46
2822 5116 0.179140 ATTTTACTTGGCATGGCGCG 60.179 50.000 15.27 0.00 43.84 6.86
2823 5117 1.280066 CATTTTACTTGGCATGGCGC 58.720 50.000 15.27 0.00 41.28 6.53
2824 5118 2.261345 CACATTTTACTTGGCATGGCG 58.739 47.619 15.27 3.56 0.00 5.69
2825 5119 3.317603 ACACATTTTACTTGGCATGGC 57.682 42.857 13.29 13.29 0.00 4.40
2826 5120 7.721286 TTTTAACACATTTTACTTGGCATGG 57.279 32.000 5.31 0.00 0.00 3.66


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

AutoCloner maintained by Alex Coulton.