Multiple sequence alignment - TraesCS5B01G468200

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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 TraesCS5B01G468200 chr5B 100.000 3167 0 0 1 3167 641804334 641807500 0.000000e+00 5849.0
1 TraesCS5B01G468200 chr5B 88.821 1950 189 16 629 2551 641428678 641426731 0.000000e+00 2366.0
2 TraesCS5B01G468200 chr5B 86.970 1650 189 17 607 2242 641413385 641411748 0.000000e+00 1832.0
3 TraesCS5B01G468200 chr5B 80.376 372 60 9 2376 2738 641411665 641411298 1.450000e-68 270.0
4 TraesCS5B01G468200 chr5D 94.762 2558 90 11 220 2756 510903777 510906311 0.000000e+00 3941.0
5 TraesCS5B01G468200 chr5D 86.671 1658 180 17 625 2253 510600034 510598389 0.000000e+00 1799.0
6 TraesCS5B01G468200 chr5D 85.533 1735 191 38 625 2334 510647899 510646200 0.000000e+00 1759.0
7 TraesCS5B01G468200 chr5D 80.523 1299 228 20 1037 2321 510465992 510464705 0.000000e+00 974.0
8 TraesCS5B01G468200 chr5D 76.632 1164 194 46 1035 2135 510492432 510491284 3.540000e-159 571.0
9 TraesCS5B01G468200 chr5D 76.579 1029 192 29 924 1911 510354052 510353032 1.300000e-143 520.0
10 TraesCS5B01G468200 chr5D 95.819 287 11 1 2845 3131 77866529 77866814 2.230000e-126 462.0
11 TraesCS5B01G468200 chr5D 96.113 283 11 0 2847 3129 450608769 450609051 2.230000e-126 462.0
12 TraesCS5B01G468200 chr5D 92.557 309 21 2 2825 3133 430510199 430510505 2.900000e-120 442.0
13 TraesCS5B01G468200 chr5D 78.323 489 79 15 931 1396 510440257 510439773 1.110000e-74 291.0
14 TraesCS5B01G468200 chr5D 86.822 258 28 5 2484 2736 510632468 510632212 1.860000e-72 283.0
15 TraesCS5B01G468200 chr5D 98.000 50 1 0 173 222 510903711 510903760 1.560000e-13 87.9
16 TraesCS5B01G468200 chr5D 92.453 53 2 2 3116 3167 51253980 51253929 1.220000e-09 75.0
17 TraesCS5B01G468200 chr5D 92.453 53 2 2 3116 3167 51330546 51330495 1.220000e-09 75.0
18 TraesCS5B01G468200 chr5D 92.453 53 2 2 3116 3167 188340204 188340255 1.220000e-09 75.0
19 TraesCS5B01G468200 chr5D 92.453 53 2 2 3116 3167 339726088 339726139 1.220000e-09 75.0
20 TraesCS5B01G468200 chr5D 95.556 45 2 0 178 222 510492725 510492681 4.380000e-09 73.1
21 TraesCS5B01G468200 chr5A 92.016 2530 127 26 1 2506 639097419 639099897 0.000000e+00 3483.0
22 TraesCS5B01G468200 chr5A 88.153 1722 174 16 606 2303 638812856 638811141 0.000000e+00 2023.0
23 TraesCS5B01G468200 chr5A 79.447 1085 201 15 1096 2167 639087094 639088169 0.000000e+00 749.0
24 TraesCS5B01G468200 chr5A 80.060 662 111 19 1037 1683 638641832 638641177 3.700000e-129 472.0
25 TraesCS5B01G468200 chr5A 86.650 397 53 0 1016 1412 638806889 638806493 1.040000e-119 440.0
26 TraesCS5B01G468200 chr5A 84.438 347 43 7 2388 2723 638811140 638810794 6.550000e-87 331.0
27 TraesCS5B01G468200 chr5A 89.354 263 18 3 2498 2750 639104451 639104713 3.940000e-84 322.0
28 TraesCS5B01G468200 chr4A 96.207 290 10 1 2844 3133 11842760 11843048 1.030000e-129 473.0
29 TraesCS5B01G468200 chr2D 95.517 290 12 1 2845 3134 540821227 540821515 2.230000e-126 462.0
30 TraesCS5B01G468200 chr1B 95.470 287 13 0 2845 3131 687533452 687533166 2.880000e-125 459.0
31 TraesCS5B01G468200 chr7A 93.980 299 18 0 2844 3142 170685914 170685616 1.340000e-123 453.0
32 TraesCS5B01G468200 chr3D 95.139 288 13 1 2845 3132 593683688 593683402 1.340000e-123 453.0
33 TraesCS5B01G468200 chr3D 92.453 53 2 2 3116 3167 324319270 324319219 1.220000e-09 75.0
34 TraesCS5B01G468200 chr3D 92.453 53 2 2 3116 3167 507065365 507065416 1.220000e-09 75.0
35 TraesCS5B01G468200 chr2B 94.558 294 15 1 2842 3135 107096495 107096787 1.340000e-123 453.0
36 TraesCS5B01G468200 chr2A 94.118 51 2 1 3116 3166 561271872 561271823 3.390000e-10 76.8
37 TraesCS5B01G468200 chr1D 94.231 52 0 3 3116 3167 309436488 309436440 3.390000e-10 76.8


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 TraesCS5B01G468200 chr5B 641804334 641807500 3166 False 5849.000000 5849 100.000000 1 3167 1 chr5B.!!$F1 3166
1 TraesCS5B01G468200 chr5B 641426731 641428678 1947 True 2366.000000 2366 88.821000 629 2551 1 chr5B.!!$R1 1922
2 TraesCS5B01G468200 chr5B 641411298 641413385 2087 True 1051.000000 1832 83.673000 607 2738 2 chr5B.!!$R2 2131
3 TraesCS5B01G468200 chr5D 510903711 510906311 2600 False 2014.450000 3941 96.381000 173 2756 2 chr5D.!!$F6 2583
4 TraesCS5B01G468200 chr5D 510598389 510600034 1645 True 1799.000000 1799 86.671000 625 2253 1 chr5D.!!$R6 1628
5 TraesCS5B01G468200 chr5D 510646200 510647899 1699 True 1759.000000 1759 85.533000 625 2334 1 chr5D.!!$R8 1709
6 TraesCS5B01G468200 chr5D 510464705 510465992 1287 True 974.000000 974 80.523000 1037 2321 1 chr5D.!!$R5 1284
7 TraesCS5B01G468200 chr5D 510353032 510354052 1020 True 520.000000 520 76.579000 924 1911 1 chr5D.!!$R3 987
8 TraesCS5B01G468200 chr5D 510491284 510492725 1441 True 322.050000 571 86.094000 178 2135 2 chr5D.!!$R9 1957
9 TraesCS5B01G468200 chr5A 639097419 639099897 2478 False 3483.000000 3483 92.016000 1 2506 1 chr5A.!!$F2 2505
10 TraesCS5B01G468200 chr5A 638806493 638812856 6363 True 931.333333 2023 86.413667 606 2723 3 chr5A.!!$R2 2117
11 TraesCS5B01G468200 chr5A 639087094 639088169 1075 False 749.000000 749 79.447000 1096 2167 1 chr5A.!!$F1 1071
12 TraesCS5B01G468200 chr5A 638641177 638641832 655 True 472.000000 472 80.060000 1037 1683 1 chr5A.!!$R1 646

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
276 296 0.861837 GCATCGATCGGGATCAACAC 59.138 55.0 16.41 0.0 37.69 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2243 2384 0.800012 TAACGAAGCCAACAATCCGC 59.2 50.0 0.0 0.0 0.0 5.54 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 63 8.479280 CACATTTTATTTCAAGGCGCATTATAC 58.521 33.333 7.11 0.00 0.00 1.47
78 79 9.064804 GCGCATTATACTAACACGTGTATTATA 57.935 33.333 23.69 18.11 32.42 0.98
114 115 6.127225 TGTTGACCTTTTGTGAAATGGATGAA 60.127 34.615 7.72 0.00 38.63 2.57
120 121 4.359971 TTGTGAAATGGATGAAGATGCG 57.640 40.909 0.00 0.00 0.00 4.73
166 167 8.365210 GTGATTTTATCGTTTGCACATAACTTG 58.635 33.333 0.00 0.00 0.00 3.16
239 259 2.097466 GTCACATATGTTTCAAGGGCCG 59.903 50.000 5.37 0.00 0.00 6.13
270 290 2.847327 ATTCAAGCATCGATCGGGAT 57.153 45.000 16.41 3.77 0.00 3.85
276 296 0.861837 GCATCGATCGGGATCAACAC 59.138 55.000 16.41 0.00 37.69 3.32
287 307 5.764131 TCGGGATCAACACAAAAATGTTAC 58.236 37.500 0.00 0.00 40.89 2.50
337 357 9.653287 GATGGATACGGTGATATTCTTGATTTA 57.347 33.333 0.00 0.00 42.51 1.40
400 420 6.872628 TCACGGTGTCTAATAGGTACATAG 57.127 41.667 8.17 0.00 0.00 2.23
404 424 6.658391 ACGGTGTCTAATAGGTACATAGGATC 59.342 42.308 0.00 0.00 0.00 3.36
615 635 1.153369 CCCATGCGACGGTGAATCT 60.153 57.895 0.00 0.00 0.00 2.40
728 752 4.072131 GCATTGTTAGAAGGAGACCAACA 58.928 43.478 0.00 0.00 0.00 3.33
729 753 4.518970 GCATTGTTAGAAGGAGACCAACAA 59.481 41.667 0.00 0.00 41.70 2.83
1162 1218 0.460987 CTACCGCAAGAAGCTCCCAG 60.461 60.000 0.00 0.00 42.61 4.45
1620 1743 6.361433 TGGTGGTGATTCACTCTTCTTAAAA 58.639 36.000 16.02 0.00 37.75 1.52
1830 1953 5.424757 CAAGAATTGGATGGTTGCATCATT 58.575 37.500 0.00 0.00 43.94 2.57
1845 1968 5.782047 TGCATCATTCGAATTTGGAGTTTT 58.218 33.333 8.21 0.00 0.00 2.43
2081 2210 4.759516 TTCTAAACATTCCAAGGTTCGC 57.240 40.909 0.00 0.00 30.85 4.70
2243 2384 3.438781 ACCAACGGTTGTTATGCATGTAG 59.561 43.478 18.73 2.54 36.28 2.74
2258 2399 1.448985 TGTAGCGGATTGTTGGCTTC 58.551 50.000 0.00 0.00 38.19 3.86
2266 2407 3.619483 CGGATTGTTGGCTTCGTTATGTA 59.381 43.478 0.00 0.00 0.00 2.29
2305 2480 3.248363 TGCACTTGTCATTTCTCTTGTCG 59.752 43.478 0.00 0.00 0.00 4.35
2321 2496 1.269778 TGTCGACTCTGGTCTTGCTTG 60.270 52.381 17.92 0.00 40.10 4.01
2325 2500 2.288213 CGACTCTGGTCTTGCTTGTACA 60.288 50.000 0.00 0.00 40.10 2.90
2342 2517 7.321745 CTTGTACAAGCCTAATTTAGGGAAG 57.678 40.000 22.03 4.46 46.32 3.46
2370 2547 3.559069 AGCATATTCCCATGTCTGTTGG 58.441 45.455 0.00 0.00 0.00 3.77
2439 2618 1.067295 ACAATGGCTGGGAGAACTCA 58.933 50.000 4.23 0.00 0.00 3.41
2440 2619 1.271597 ACAATGGCTGGGAGAACTCAC 60.272 52.381 4.23 0.46 0.00 3.51
2555 2739 0.755698 GAGTAGGATCCGCCTCACCA 60.756 60.000 21.91 0.00 46.97 4.17
2560 2744 1.153349 GATCCGCCTCACCAAGACC 60.153 63.158 0.00 0.00 0.00 3.85
2561 2745 1.899437 GATCCGCCTCACCAAGACCA 61.899 60.000 0.00 0.00 0.00 4.02
2563 2747 1.746615 CCGCCTCACCAAGACCATG 60.747 63.158 0.00 0.00 0.00 3.66
2564 2748 1.003355 CGCCTCACCAAGACCATGT 60.003 57.895 0.00 0.00 0.00 3.21
2573 2759 2.162681 CCAAGACCATGTGGAGGTTTC 58.837 52.381 5.96 0.00 40.09 2.78
2583 2769 0.615331 TGGAGGTTTCAGCAGCTAGG 59.385 55.000 0.00 0.00 0.00 3.02
2663 2859 5.339530 CCATGGTATCCTCCTTCAAAGTTCT 60.340 44.000 2.57 0.00 0.00 3.01
2765 2969 2.745515 GGTGAAGAACCTAACGCTCT 57.254 50.000 0.00 0.00 46.55 4.09
2766 2970 2.338500 GGTGAAGAACCTAACGCTCTG 58.662 52.381 0.00 0.00 46.55 3.35
2767 2971 2.288886 GGTGAAGAACCTAACGCTCTGT 60.289 50.000 0.00 0.00 46.55 3.41
2768 2972 2.731976 GTGAAGAACCTAACGCTCTGTG 59.268 50.000 0.00 0.00 0.00 3.66
2769 2973 2.364324 TGAAGAACCTAACGCTCTGTGT 59.636 45.455 0.00 0.00 0.00 3.72
2770 2974 2.440539 AGAACCTAACGCTCTGTGTG 57.559 50.000 0.00 0.00 0.00 3.82
2771 2975 1.000955 AGAACCTAACGCTCTGTGTGG 59.999 52.381 0.00 0.00 0.00 4.17
2772 2976 0.756903 AACCTAACGCTCTGTGTGGT 59.243 50.000 0.00 0.00 38.24 4.16
2773 2977 0.033504 ACCTAACGCTCTGTGTGGTG 59.966 55.000 0.00 0.00 36.17 4.17
2774 2978 0.033504 CCTAACGCTCTGTGTGGTGT 59.966 55.000 0.00 0.00 0.00 4.16
2775 2979 1.540363 CCTAACGCTCTGTGTGGTGTT 60.540 52.381 0.00 0.00 39.16 3.32
2776 2980 1.792949 CTAACGCTCTGTGTGGTGTTC 59.207 52.381 0.00 0.00 37.37 3.18
2781 2985 0.886490 CTCTGTGTGGTGTTCCAGCC 60.886 60.000 0.00 0.00 45.24 4.85
2787 2991 0.890996 GTGGTGTTCCAGCCTCTTGG 60.891 60.000 0.00 0.00 45.24 3.61
2800 3004 2.569059 CCTCTTGGGCATACTGACATG 58.431 52.381 0.00 0.00 0.00 3.21
2801 3005 2.171237 CCTCTTGGGCATACTGACATGA 59.829 50.000 0.00 0.00 0.00 3.07
2802 3006 3.181447 CCTCTTGGGCATACTGACATGAT 60.181 47.826 0.00 0.00 0.00 2.45
2803 3007 3.812262 TCTTGGGCATACTGACATGATG 58.188 45.455 0.00 0.00 0.00 3.07
2804 3008 2.643995 TGGGCATACTGACATGATGG 57.356 50.000 0.00 0.00 0.00 3.51
2805 3009 2.126057 TGGGCATACTGACATGATGGA 58.874 47.619 0.00 0.00 0.00 3.41
2806 3010 2.158769 TGGGCATACTGACATGATGGAC 60.159 50.000 0.00 0.00 0.00 4.02
2807 3011 2.138320 GGCATACTGACATGATGGACG 58.862 52.381 0.00 0.00 0.00 4.79
2809 3013 2.541346 GCATACTGACATGATGGACGTG 59.459 50.000 0.00 0.00 40.93 4.49
2810 3014 2.959507 TACTGACATGATGGACGTGG 57.040 50.000 0.00 0.00 39.59 4.94
2811 3015 0.250234 ACTGACATGATGGACGTGGG 59.750 55.000 0.00 0.00 39.59 4.61
2812 3016 1.078497 TGACATGATGGACGTGGGC 60.078 57.895 0.00 0.00 39.59 5.36
2813 3017 2.125147 ACATGATGGACGTGGGCG 60.125 61.111 0.00 0.00 44.93 6.13
2824 3028 2.577593 GTGGGCGTGTCCTCCTAC 59.422 66.667 0.00 0.00 34.39 3.18
2825 3029 2.118732 TGGGCGTGTCCTCCTACA 59.881 61.111 0.00 0.00 34.39 2.74
2826 3030 1.534476 TGGGCGTGTCCTCCTACAA 60.534 57.895 0.00 0.00 34.39 2.41
2840 6859 5.124776 TCCTCCTACAACAACAACAACAAAG 59.875 40.000 0.00 0.00 0.00 2.77
2841 6860 5.317733 TCCTACAACAACAACAACAAAGG 57.682 39.130 0.00 0.00 0.00 3.11
2844 6863 4.001618 ACAACAACAACAACAAAGGCTT 57.998 36.364 0.00 0.00 0.00 4.35
2845 6864 4.384940 ACAACAACAACAACAAAGGCTTT 58.615 34.783 6.68 6.68 0.00 3.51
2847 6866 5.637387 ACAACAACAACAACAAAGGCTTTAG 59.363 36.000 12.95 9.69 0.00 1.85
2849 6868 3.452755 ACAACAACAAAGGCTTTAGGC 57.547 42.857 12.95 0.00 41.43 3.93
2860 6879 1.338107 GCTTTAGGCCCTGTTTGGTT 58.662 50.000 0.00 0.00 34.27 3.67
2861 6880 1.272490 GCTTTAGGCCCTGTTTGGTTC 59.728 52.381 0.00 0.00 34.27 3.62
2862 6881 2.593026 CTTTAGGCCCTGTTTGGTTCA 58.407 47.619 0.00 0.00 0.00 3.18
2863 6882 2.990740 TTAGGCCCTGTTTGGTTCAT 57.009 45.000 0.00 0.00 0.00 2.57
2864 6883 4.340617 CTTTAGGCCCTGTTTGGTTCATA 58.659 43.478 0.00 0.00 0.00 2.15
2865 6884 2.990740 AGGCCCTGTTTGGTTCATAA 57.009 45.000 0.00 0.00 0.00 1.90
2867 6886 2.110011 AGGCCCTGTTTGGTTCATAAGT 59.890 45.455 0.00 0.00 0.00 2.24
2868 6887 2.492088 GGCCCTGTTTGGTTCATAAGTC 59.508 50.000 0.00 0.00 0.00 3.01
2869 6888 3.153919 GCCCTGTTTGGTTCATAAGTCA 58.846 45.455 0.00 0.00 0.00 3.41
2870 6889 3.763897 GCCCTGTTTGGTTCATAAGTCAT 59.236 43.478 0.00 0.00 0.00 3.06
2872 6891 5.066505 GCCCTGTTTGGTTCATAAGTCATAG 59.933 44.000 0.00 0.00 0.00 2.23
2873 6892 5.590259 CCCTGTTTGGTTCATAAGTCATAGG 59.410 44.000 0.00 0.00 0.00 2.57
2908 6927 7.832769 AGTCTCAACTTATAAGTCTCAAGTCC 58.167 38.462 18.28 8.73 38.57 3.85
2910 6929 6.954684 TCTCAACTTATAAGTCTCAAGTCCCT 59.045 38.462 18.28 0.00 38.57 4.20
2911 6930 8.114102 TCTCAACTTATAAGTCTCAAGTCCCTA 58.886 37.037 18.28 0.00 38.57 3.53
2912 6931 8.660295 TCAACTTATAAGTCTCAAGTCCCTAA 57.340 34.615 18.28 0.00 38.57 2.69
2913 6932 9.096823 TCAACTTATAAGTCTCAAGTCCCTAAA 57.903 33.333 18.28 0.00 38.57 1.85
2914 6933 9.720769 CAACTTATAAGTCTCAAGTCCCTAAAA 57.279 33.333 18.28 0.00 38.57 1.52
2916 6935 9.945904 ACTTATAAGTCTCAAGTCCCTAAAAAG 57.054 33.333 12.50 0.00 32.86 2.27
2917 6936 9.945904 CTTATAAGTCTCAAGTCCCTAAAAAGT 57.054 33.333 4.18 0.00 0.00 2.66
2918 6937 9.939802 TTATAAGTCTCAAGTCCCTAAAAAGTC 57.060 33.333 0.00 0.00 0.00 3.01
2921 6940 5.369993 AGTCTCAAGTCCCTAAAAAGTCCTT 59.630 40.000 0.00 0.00 0.00 3.36
2922 6941 6.557633 AGTCTCAAGTCCCTAAAAAGTCCTTA 59.442 38.462 0.00 0.00 0.00 2.69
2924 6943 5.872963 TCAAGTCCCTAAAAAGTCCTTACC 58.127 41.667 0.00 0.00 0.00 2.85
2925 6944 5.609708 TCAAGTCCCTAAAAAGTCCTTACCT 59.390 40.000 0.00 0.00 0.00 3.08
2926 6945 5.500546 AGTCCCTAAAAAGTCCTTACCTG 57.499 43.478 0.00 0.00 0.00 4.00
2927 6946 4.912133 AGTCCCTAAAAAGTCCTTACCTGT 59.088 41.667 0.00 0.00 0.00 4.00
2928 6947 5.371769 AGTCCCTAAAAAGTCCTTACCTGTT 59.628 40.000 0.00 0.00 0.00 3.16
2929 6948 6.066690 GTCCCTAAAAAGTCCTTACCTGTTT 58.933 40.000 0.00 0.00 0.00 2.83
2931 6950 5.243060 CCCTAAAAAGTCCTTACCTGTTTGG 59.757 44.000 0.00 0.00 42.93 3.28
2941 6960 3.036431 CCTGTTTGGTTCCTGGGAC 57.964 57.895 0.00 0.00 0.00 4.46
2944 6963 2.230660 CTGTTTGGTTCCTGGGACTTC 58.769 52.381 4.84 0.00 0.00 3.01
2945 6964 1.850345 TGTTTGGTTCCTGGGACTTCT 59.150 47.619 4.84 0.00 0.00 2.85
2947 6966 3.460340 TGTTTGGTTCCTGGGACTTCTAA 59.540 43.478 4.84 0.00 0.00 2.10
2948 6967 4.072839 GTTTGGTTCCTGGGACTTCTAAG 58.927 47.826 4.84 0.00 0.00 2.18
3000 7019 7.654022 AGTCCTTATAAGACTCTTCTTGAGG 57.346 40.000 14.28 1.14 46.72 3.86
3001 7020 6.609616 AGTCCTTATAAGACTCTTCTTGAGGG 59.390 42.308 14.28 0.00 46.72 4.30
3002 7021 6.381707 GTCCTTATAAGACTCTTCTTGAGGGT 59.618 42.308 14.28 0.00 46.72 4.34
3012 7031 7.264294 ACTCTTCTTGAGGGTCTTATTTCAT 57.736 36.000 0.00 0.00 46.72 2.57
3013 7032 8.380742 ACTCTTCTTGAGGGTCTTATTTCATA 57.619 34.615 0.00 0.00 46.72 2.15
3014 7033 8.826765 ACTCTTCTTGAGGGTCTTATTTCATAA 58.173 33.333 0.00 0.00 46.72 1.90
3015 7034 9.323985 CTCTTCTTGAGGGTCTTATTTCATAAG 57.676 37.037 0.00 0.00 39.98 1.73
3016 7035 8.826765 TCTTCTTGAGGGTCTTATTTCATAAGT 58.173 33.333 3.93 0.00 42.21 2.24
3018 7037 9.449719 TTCTTGAGGGTCTTATTTCATAAGTTC 57.550 33.333 3.93 0.44 42.21 3.01
3019 7038 8.047310 TCTTGAGGGTCTTATTTCATAAGTTCC 58.953 37.037 3.93 7.34 42.21 3.62
3020 7039 7.265599 TGAGGGTCTTATTTCATAAGTTCCA 57.734 36.000 15.33 0.00 42.21 3.53
3021 7040 7.695055 TGAGGGTCTTATTTCATAAGTTCCAA 58.305 34.615 15.33 6.28 42.21 3.53
3022 7041 8.167392 TGAGGGTCTTATTTCATAAGTTCCAAA 58.833 33.333 15.33 6.07 42.21 3.28
3024 7043 8.971073 AGGGTCTTATTTCATAAGTTCCAAATG 58.029 33.333 15.33 0.00 42.21 2.32
3025 7044 7.706607 GGGTCTTATTTCATAAGTTCCAAATGC 59.293 37.037 15.33 0.00 42.21 3.56
3028 7047 7.398618 TCTTATTTCATAAGTTCCAAATGCCCA 59.601 33.333 3.93 0.00 42.21 5.36
3031 7050 4.415596 TCATAAGTTCCAAATGCCCACTT 58.584 39.130 0.00 0.00 0.00 3.16
3032 7051 4.837860 TCATAAGTTCCAAATGCCCACTTT 59.162 37.500 0.00 0.00 0.00 2.66
3033 7052 6.013379 TCATAAGTTCCAAATGCCCACTTTA 58.987 36.000 0.00 0.00 0.00 1.85
3035 7054 4.871933 AGTTCCAAATGCCCACTTTAAG 57.128 40.909 0.00 0.00 0.00 1.85
3036 7055 4.223144 AGTTCCAAATGCCCACTTTAAGT 58.777 39.130 0.00 0.00 0.00 2.24
3037 7056 4.280929 AGTTCCAAATGCCCACTTTAAGTC 59.719 41.667 0.00 0.00 0.00 3.01
3038 7057 3.161866 TCCAAATGCCCACTTTAAGTCC 58.838 45.455 0.00 0.00 0.00 3.85
3039 7058 2.233676 CCAAATGCCCACTTTAAGTCCC 59.766 50.000 0.00 0.00 0.00 4.46
3040 7059 3.165071 CAAATGCCCACTTTAAGTCCCT 58.835 45.455 0.00 0.00 0.00 4.20
3041 7060 4.340617 CAAATGCCCACTTTAAGTCCCTA 58.659 43.478 0.00 0.00 0.00 3.53
3042 7061 4.881157 AATGCCCACTTTAAGTCCCTAT 57.119 40.909 0.00 0.00 0.00 2.57
3044 7063 5.987019 ATGCCCACTTTAAGTCCCTATAA 57.013 39.130 0.00 0.00 0.00 0.98
3045 7064 5.367945 TGCCCACTTTAAGTCCCTATAAG 57.632 43.478 0.00 0.00 0.00 1.73
3046 7065 4.786454 TGCCCACTTTAAGTCCCTATAAGT 59.214 41.667 0.00 0.00 0.00 2.24
3047 7066 5.104652 TGCCCACTTTAAGTCCCTATAAGTC 60.105 44.000 0.00 0.00 0.00 3.01
3048 7067 5.686913 GCCCACTTTAAGTCCCTATAAGTCC 60.687 48.000 0.00 0.00 0.00 3.85
3049 7068 5.163227 CCCACTTTAAGTCCCTATAAGTCCC 60.163 48.000 0.00 0.00 0.00 4.46
3050 7069 5.666265 CCACTTTAAGTCCCTATAAGTCCCT 59.334 44.000 0.00 0.00 0.00 4.20
3051 7070 6.183360 CCACTTTAAGTCCCTATAAGTCCCTC 60.183 46.154 0.00 0.00 0.00 4.30
3054 7073 3.621682 AGTCCCTATAAGTCCCTCCTG 57.378 52.381 0.00 0.00 0.00 3.86
3055 7074 2.866454 AGTCCCTATAAGTCCCTCCTGT 59.134 50.000 0.00 0.00 0.00 4.00
3056 7075 3.275228 AGTCCCTATAAGTCCCTCCTGTT 59.725 47.826 0.00 0.00 0.00 3.16
3057 7076 4.038633 GTCCCTATAAGTCCCTCCTGTTT 58.961 47.826 0.00 0.00 0.00 2.83
3058 7077 4.037927 TCCCTATAAGTCCCTCCTGTTTG 58.962 47.826 0.00 0.00 0.00 2.93
3059 7078 3.136626 CCCTATAAGTCCCTCCTGTTTGG 59.863 52.174 0.00 0.00 37.10 3.28
3060 7079 3.780850 CCTATAAGTCCCTCCTGTTTGGT 59.219 47.826 0.00 0.00 37.07 3.67
3063 7082 5.853572 ATAAGTCCCTCCTGTTTGGTTTA 57.146 39.130 0.00 0.00 37.07 2.01
3064 7083 3.790089 AGTCCCTCCTGTTTGGTTTAG 57.210 47.619 0.00 0.00 37.07 1.85
3065 7084 3.323775 AGTCCCTCCTGTTTGGTTTAGA 58.676 45.455 0.00 0.00 37.07 2.10
3066 7085 3.916989 AGTCCCTCCTGTTTGGTTTAGAT 59.083 43.478 0.00 0.00 37.07 1.98
3067 7086 4.010349 GTCCCTCCTGTTTGGTTTAGATG 58.990 47.826 0.00 0.00 37.07 2.90
3070 7089 3.010138 CCTCCTGTTTGGTTTAGATGGGA 59.990 47.826 0.00 0.00 37.07 4.37
3071 7090 4.010349 CTCCTGTTTGGTTTAGATGGGAC 58.990 47.826 0.00 0.00 37.07 4.46
3072 7091 3.655777 TCCTGTTTGGTTTAGATGGGACT 59.344 43.478 0.00 0.00 37.07 3.85
3074 7093 5.311121 TCCTGTTTGGTTTAGATGGGACTTA 59.689 40.000 0.00 0.00 37.07 2.24
3075 7094 6.011981 TCCTGTTTGGTTTAGATGGGACTTAT 60.012 38.462 0.00 0.00 37.07 1.73
3076 7095 7.183112 TCCTGTTTGGTTTAGATGGGACTTATA 59.817 37.037 0.00 0.00 37.07 0.98
3077 7096 7.499232 CCTGTTTGGTTTAGATGGGACTTATAG 59.501 40.741 0.00 0.00 0.00 1.31
3078 7097 7.343357 TGTTTGGTTTAGATGGGACTTATAGG 58.657 38.462 0.00 0.00 0.00 2.57
3079 7098 6.509523 TTGGTTTAGATGGGACTTATAGGG 57.490 41.667 0.00 0.00 0.00 3.53
3081 7100 5.605488 TGGTTTAGATGGGACTTATAGGGAC 59.395 44.000 0.00 0.00 0.00 4.46
3082 7101 5.845065 GGTTTAGATGGGACTTATAGGGACT 59.155 44.000 0.00 0.00 46.37 3.85
3084 7103 7.147355 GGTTTAGATGGGACTTATAGGGACTTT 60.147 40.741 0.00 0.00 41.75 2.66
3085 7104 8.272889 GTTTAGATGGGACTTATAGGGACTTTT 58.727 37.037 0.00 0.00 41.75 2.27
3109 7128 8.640063 TTTTAAGTCCCTAAACCAATAAGTCC 57.360 34.615 0.00 0.00 0.00 3.85
3112 7131 4.227527 AGTCCCTAAACCAATAAGTCCCTG 59.772 45.833 0.00 0.00 0.00 4.45
3113 7132 4.226620 GTCCCTAAACCAATAAGTCCCTGA 59.773 45.833 0.00 0.00 0.00 3.86
3114 7133 4.853276 TCCCTAAACCAATAAGTCCCTGAA 59.147 41.667 0.00 0.00 0.00 3.02
3115 7134 5.313772 TCCCTAAACCAATAAGTCCCTGAAA 59.686 40.000 0.00 0.00 0.00 2.69
3116 7135 6.014012 CCCTAAACCAATAAGTCCCTGAAAA 58.986 40.000 0.00 0.00 0.00 2.29
3117 7136 6.071560 CCCTAAACCAATAAGTCCCTGAAAAC 60.072 42.308 0.00 0.00 0.00 2.43
3118 7137 6.492087 CCTAAACCAATAAGTCCCTGAAAACA 59.508 38.462 0.00 0.00 0.00 2.83
3119 7138 6.800072 AAACCAATAAGTCCCTGAAAACAA 57.200 33.333 0.00 0.00 0.00 2.83
3120 7139 6.800072 AACCAATAAGTCCCTGAAAACAAA 57.200 33.333 0.00 0.00 0.00 2.83
3121 7140 6.156748 ACCAATAAGTCCCTGAAAACAAAC 57.843 37.500 0.00 0.00 0.00 2.93
3122 7141 5.659079 ACCAATAAGTCCCTGAAAACAAACA 59.341 36.000 0.00 0.00 0.00 2.83
3123 7142 5.983118 CCAATAAGTCCCTGAAAACAAACAC 59.017 40.000 0.00 0.00 0.00 3.32
3124 7143 5.784578 ATAAGTCCCTGAAAACAAACACC 57.215 39.130 0.00 0.00 0.00 4.16
3125 7144 2.384828 AGTCCCTGAAAACAAACACCC 58.615 47.619 0.00 0.00 0.00 4.61
3126 7145 2.024369 AGTCCCTGAAAACAAACACCCT 60.024 45.455 0.00 0.00 0.00 4.34
3127 7146 2.361119 GTCCCTGAAAACAAACACCCTC 59.639 50.000 0.00 0.00 0.00 4.30
3128 7147 2.243736 TCCCTGAAAACAAACACCCTCT 59.756 45.455 0.00 0.00 0.00 3.69
3129 7148 3.031013 CCCTGAAAACAAACACCCTCTT 58.969 45.455 0.00 0.00 0.00 2.85
3131 7150 4.278419 CCCTGAAAACAAACACCCTCTTAG 59.722 45.833 0.00 0.00 0.00 2.18
3132 7151 4.887655 CCTGAAAACAAACACCCTCTTAGT 59.112 41.667 0.00 0.00 0.00 2.24
3135 7154 3.503800 AACAAACACCCTCTTAGTCCC 57.496 47.619 0.00 0.00 0.00 4.46
3136 7155 2.414612 ACAAACACCCTCTTAGTCCCA 58.585 47.619 0.00 0.00 0.00 4.37
3138 7157 3.203487 ACAAACACCCTCTTAGTCCCAAA 59.797 43.478 0.00 0.00 0.00 3.28
3139 7158 3.503800 AACACCCTCTTAGTCCCAAAC 57.496 47.619 0.00 0.00 0.00 2.93
3140 7159 2.414612 ACACCCTCTTAGTCCCAAACA 58.585 47.619 0.00 0.00 0.00 2.83
3141 7160 2.781174 ACACCCTCTTAGTCCCAAACAA 59.219 45.455 0.00 0.00 0.00 2.83
3142 7161 3.181443 ACACCCTCTTAGTCCCAAACAAG 60.181 47.826 0.00 0.00 0.00 3.16
3144 7163 3.462205 ACCCTCTTAGTCCCAAACAAGTT 59.538 43.478 0.00 0.00 0.00 2.66
3145 7164 3.821033 CCCTCTTAGTCCCAAACAAGTTG 59.179 47.826 0.00 0.00 36.94 3.16
3158 7177 4.762289 AACAAGTTGGGATAGGCTAGAG 57.238 45.455 7.96 0.00 0.00 2.43
3160 7179 3.041946 CAAGTTGGGATAGGCTAGAGGT 58.958 50.000 0.00 0.00 0.00 3.85
3161 7180 2.683768 AGTTGGGATAGGCTAGAGGTG 58.316 52.381 0.00 0.00 0.00 4.00
3162 7181 2.247635 AGTTGGGATAGGCTAGAGGTGA 59.752 50.000 0.00 0.00 0.00 4.02
3163 7182 3.039011 GTTGGGATAGGCTAGAGGTGAA 58.961 50.000 0.00 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 6.511121 CGTGTTAGTATAATGCGCCTTGAAAT 60.511 38.462 4.18 0.00 0.00 2.17
78 79 9.829507 TCACAAAAGGTCAACAATAATGAAAAT 57.170 25.926 0.00 0.00 0.00 1.82
85 86 7.786030 TCCATTTCACAAAAGGTCAACAATAA 58.214 30.769 0.00 0.00 0.00 1.40
87 88 6.232581 TCCATTTCACAAAAGGTCAACAAT 57.767 33.333 0.00 0.00 0.00 2.71
91 92 6.323482 TCTTCATCCATTTCACAAAAGGTCAA 59.677 34.615 0.00 0.00 0.00 3.18
98 99 4.458642 TCGCATCTTCATCCATTTCACAAA 59.541 37.500 0.00 0.00 0.00 2.83
114 115 5.649782 AAGTTTTTCCAATGATCGCATCT 57.350 34.783 0.00 0.00 32.35 2.90
150 151 4.968626 TGCTATCAAGTTATGTGCAAACG 58.031 39.130 0.00 0.00 31.81 3.60
166 167 5.123502 CAGATTTGGCATGGATACTGCTATC 59.876 44.000 0.00 0.00 39.63 2.08
270 290 7.328277 AGTGCTAGTAACATTTTTGTGTTGA 57.672 32.000 2.76 0.00 42.02 3.18
276 296 7.417612 ACTGACAAGTGCTAGTAACATTTTTG 58.582 34.615 0.00 0.00 34.48 2.44
287 307 1.063806 GTGCGACTGACAAGTGCTAG 58.936 55.000 0.00 0.00 36.52 3.42
321 341 6.064717 AGCCAGGGTAAATCAAGAATATCAC 58.935 40.000 0.00 0.00 0.00 3.06
337 357 2.269940 ACTTGTGAGATAAGCCAGGGT 58.730 47.619 0.00 0.00 0.00 4.34
371 391 3.306166 CCTATTAGACACCGTGAAAAGCG 59.694 47.826 5.28 0.00 0.00 4.68
400 420 5.426689 TGCACCTTCAGGATATATGATCC 57.573 43.478 0.00 1.07 38.94 3.36
404 424 4.633126 CGGAATGCACCTTCAGGATATATG 59.367 45.833 0.00 0.00 38.94 1.78
1010 1064 0.398522 TGTGGCCATCTCCTACCGAT 60.399 55.000 9.72 0.00 0.00 4.18
1530 1634 8.494016 AATCCTCAGAGAAAAATACCTTAACG 57.506 34.615 0.00 0.00 0.00 3.18
1620 1743 2.026262 GTGATCCACATACAACACCCCT 60.026 50.000 0.00 0.00 34.08 4.79
1830 1953 6.003950 AGATCCTTCAAAACTCCAAATTCGA 58.996 36.000 0.00 0.00 0.00 3.71
1845 1968 3.041211 CACCCACCTATCAGATCCTTCA 58.959 50.000 0.00 0.00 0.00 3.02
2243 2384 0.800012 TAACGAAGCCAACAATCCGC 59.200 50.000 0.00 0.00 0.00 5.54
2266 2407 7.833786 ACAAGTGCAAATTAGATGAACATGAT 58.166 30.769 0.00 0.00 31.17 2.45
2283 2458 3.248363 CGACAAGAGAAATGACAAGTGCA 59.752 43.478 0.00 0.00 0.00 4.57
2305 2480 3.386768 TGTACAAGCAAGACCAGAGTC 57.613 47.619 0.00 0.00 43.89 3.36
2321 2496 5.297029 CAGCTTCCCTAAATTAGGCTTGTAC 59.703 44.000 13.46 1.07 44.86 2.90
2325 2500 3.291584 GCAGCTTCCCTAAATTAGGCTT 58.708 45.455 13.46 0.00 44.86 4.35
2359 2534 4.456911 AGCTTCATAACACCAACAGACATG 59.543 41.667 0.00 0.00 0.00 3.21
2360 2535 4.655963 AGCTTCATAACACCAACAGACAT 58.344 39.130 0.00 0.00 0.00 3.06
2370 2547 8.718102 TCCTTGTATAGAAAGCTTCATAACAC 57.282 34.615 0.00 0.06 0.00 3.32
2439 2618 2.679837 CTGAAGCATGGCAAGATTACGT 59.320 45.455 0.00 0.00 0.00 3.57
2440 2619 2.679837 ACTGAAGCATGGCAAGATTACG 59.320 45.455 0.00 0.00 0.00 3.18
2555 2739 2.815589 GCTGAAACCTCCACATGGTCTT 60.816 50.000 0.00 0.00 36.69 3.01
2560 2744 0.524862 GCTGCTGAAACCTCCACATG 59.475 55.000 0.00 0.00 0.00 3.21
2561 2745 0.403271 AGCTGCTGAAACCTCCACAT 59.597 50.000 0.00 0.00 0.00 3.21
2563 2747 1.677217 CCTAGCTGCTGAAACCTCCAC 60.677 57.143 13.43 0.00 0.00 4.02
2564 2748 0.615331 CCTAGCTGCTGAAACCTCCA 59.385 55.000 13.43 0.00 0.00 3.86
2573 2759 0.737219 GCAATGAACCCTAGCTGCTG 59.263 55.000 13.43 2.21 0.00 4.41
2583 2769 0.442699 GAACTCGTCGGCAATGAACC 59.557 55.000 0.00 0.00 0.00 3.62
2603 2789 2.567615 ACTGGAACTGGATGTACCTGAC 59.432 50.000 0.00 0.00 40.23 3.51
2747 2951 2.731976 CACAGAGCGTTAGGTTCTTCAC 59.268 50.000 0.00 0.00 33.45 3.18
2748 2952 2.364324 ACACAGAGCGTTAGGTTCTTCA 59.636 45.455 0.00 0.00 33.45 3.02
2756 2960 1.792949 GAACACCACACAGAGCGTTAG 59.207 52.381 0.00 0.00 0.00 2.34
2757 2961 1.539496 GGAACACCACACAGAGCGTTA 60.539 52.381 0.00 0.00 0.00 3.18
2758 2962 0.814010 GGAACACCACACAGAGCGTT 60.814 55.000 0.00 0.00 0.00 4.84
2759 2963 1.227556 GGAACACCACACAGAGCGT 60.228 57.895 0.00 0.00 0.00 5.07
2760 2964 1.224069 CTGGAACACCACACAGAGCG 61.224 60.000 0.00 0.00 32.86 5.03
2761 2965 1.510480 GCTGGAACACCACACAGAGC 61.510 60.000 0.00 0.00 32.86 4.09
2762 2966 0.886490 GGCTGGAACACCACACAGAG 60.886 60.000 0.00 0.00 32.86 3.35
2763 2967 1.148273 GGCTGGAACACCACACAGA 59.852 57.895 0.00 0.00 32.86 3.41
2764 2968 0.886490 GAGGCTGGAACACCACACAG 60.886 60.000 0.00 0.00 33.13 3.66
2765 2969 1.148273 GAGGCTGGAACACCACACA 59.852 57.895 0.00 0.00 33.13 3.72
2766 2970 0.179018 AAGAGGCTGGAACACCACAC 60.179 55.000 0.00 0.00 33.13 3.82
2767 2971 0.179020 CAAGAGGCTGGAACACCACA 60.179 55.000 0.00 0.00 33.13 4.17
2768 2972 0.890996 CCAAGAGGCTGGAACACCAC 60.891 60.000 0.00 0.00 38.96 4.16
2769 2973 1.455849 CCAAGAGGCTGGAACACCA 59.544 57.895 0.00 0.00 38.96 4.17
2770 2974 1.303643 CCCAAGAGGCTGGAACACC 60.304 63.158 0.00 0.00 38.96 4.16
2771 2975 4.404691 CCCAAGAGGCTGGAACAC 57.595 61.111 0.00 0.00 38.96 3.32
2781 2985 3.548745 TCATGTCAGTATGCCCAAGAG 57.451 47.619 0.00 0.00 34.76 2.85
2787 2991 2.138320 CGTCCATCATGTCAGTATGCC 58.862 52.381 0.00 0.00 34.76 4.40
2807 3011 1.823169 TTGTAGGAGGACACGCCCAC 61.823 60.000 0.00 0.00 37.25 4.61
2809 3013 1.079336 GTTGTAGGAGGACACGCCC 60.079 63.158 0.00 0.00 37.25 6.13
2810 3014 0.034337 TTGTTGTAGGAGGACACGCC 59.966 55.000 0.00 0.00 36.73 5.68
2811 3015 1.145803 GTTGTTGTAGGAGGACACGC 58.854 55.000 0.00 0.00 0.00 5.34
2812 3016 2.519377 TGTTGTTGTAGGAGGACACG 57.481 50.000 0.00 0.00 0.00 4.49
2813 3017 3.537580 TGTTGTTGTTGTAGGAGGACAC 58.462 45.455 0.00 0.00 0.00 3.67
2814 3018 3.916359 TGTTGTTGTTGTAGGAGGACA 57.084 42.857 0.00 0.00 0.00 4.02
2815 3019 3.942748 TGTTGTTGTTGTTGTAGGAGGAC 59.057 43.478 0.00 0.00 0.00 3.85
2816 3020 4.223556 TGTTGTTGTTGTTGTAGGAGGA 57.776 40.909 0.00 0.00 0.00 3.71
2817 3021 4.974368 TTGTTGTTGTTGTTGTAGGAGG 57.026 40.909 0.00 0.00 0.00 4.30
2818 3022 5.339990 CCTTTGTTGTTGTTGTTGTAGGAG 58.660 41.667 0.00 0.00 0.00 3.69
2820 3024 3.862845 GCCTTTGTTGTTGTTGTTGTAGG 59.137 43.478 0.00 0.00 0.00 3.18
2821 3025 4.743493 AGCCTTTGTTGTTGTTGTTGTAG 58.257 39.130 0.00 0.00 0.00 2.74
2822 3026 4.792521 AGCCTTTGTTGTTGTTGTTGTA 57.207 36.364 0.00 0.00 0.00 2.41
2824 3028 5.063312 CCTAAAGCCTTTGTTGTTGTTGTTG 59.937 40.000 0.00 0.00 0.00 3.33
2825 3029 5.175127 CCTAAAGCCTTTGTTGTTGTTGTT 58.825 37.500 0.00 0.00 0.00 2.83
2826 3030 4.754322 CCTAAAGCCTTTGTTGTTGTTGT 58.246 39.130 0.00 0.00 0.00 3.32
2841 6860 1.272490 GAACCAAACAGGGCCTAAAGC 59.728 52.381 5.28 0.00 43.89 3.51
2844 6863 2.990740 ATGAACCAAACAGGGCCTAA 57.009 45.000 5.28 0.00 43.89 2.69
2845 6864 3.332485 ACTTATGAACCAAACAGGGCCTA 59.668 43.478 5.28 0.00 43.89 3.93
2847 6866 2.492088 GACTTATGAACCAAACAGGGCC 59.508 50.000 0.00 0.00 43.89 5.80
2849 6868 5.590259 CCTATGACTTATGAACCAAACAGGG 59.410 44.000 0.00 0.00 43.89 4.45
2850 6869 6.316390 GTCCTATGACTTATGAACCAAACAGG 59.684 42.308 0.00 0.00 40.03 4.00
2851 6870 7.308782 GTCCTATGACTTATGAACCAAACAG 57.691 40.000 0.00 0.00 38.53 3.16
2882 6901 8.958506 GGACTTGAGACTTATAAGTTGAGACTA 58.041 37.037 18.96 6.16 39.88 2.59
2883 6902 7.093684 GGGACTTGAGACTTATAAGTTGAGACT 60.094 40.741 18.96 10.98 39.88 3.24
2884 6903 7.036829 GGGACTTGAGACTTATAAGTTGAGAC 58.963 42.308 18.96 13.24 39.88 3.36
2885 6904 6.954684 AGGGACTTGAGACTTATAAGTTGAGA 59.045 38.462 18.96 6.15 34.84 3.27
2887 6906 8.660295 TTAGGGACTTGAGACTTATAAGTTGA 57.340 34.615 18.96 4.13 38.78 3.18
2888 6907 9.720769 TTTTAGGGACTTGAGACTTATAAGTTG 57.279 33.333 18.96 9.81 38.78 3.16
2891 6910 9.945904 ACTTTTTAGGGACTTGAGACTTATAAG 57.054 33.333 11.05 11.05 41.75 1.73
2892 6911 9.939802 GACTTTTTAGGGACTTGAGACTTATAA 57.060 33.333 0.00 0.00 41.75 0.98
2893 6912 8.537858 GGACTTTTTAGGGACTTGAGACTTATA 58.462 37.037 0.00 0.00 41.75 0.98
2894 6913 7.237887 AGGACTTTTTAGGGACTTGAGACTTAT 59.762 37.037 0.00 0.00 41.75 1.73
2895 6914 6.557633 AGGACTTTTTAGGGACTTGAGACTTA 59.442 38.462 0.00 0.00 41.75 2.24
2896 6915 5.369993 AGGACTTTTTAGGGACTTGAGACTT 59.630 40.000 0.00 0.00 41.75 3.01
2897 6916 4.908481 AGGACTTTTTAGGGACTTGAGACT 59.092 41.667 0.00 0.00 41.75 3.24
2900 6919 5.938710 GGTAAGGACTTTTTAGGGACTTGAG 59.061 44.000 0.00 0.00 41.75 3.02
2901 6920 5.609708 AGGTAAGGACTTTTTAGGGACTTGA 59.390 40.000 0.00 0.00 41.75 3.02
2902 6921 5.705905 CAGGTAAGGACTTTTTAGGGACTTG 59.294 44.000 0.00 0.00 41.75 3.16
2903 6922 5.371769 ACAGGTAAGGACTTTTTAGGGACTT 59.628 40.000 0.00 0.00 41.75 3.01
2904 6923 4.912133 ACAGGTAAGGACTTTTTAGGGACT 59.088 41.667 0.00 0.00 46.37 3.85
2905 6924 5.238624 ACAGGTAAGGACTTTTTAGGGAC 57.761 43.478 0.00 0.00 0.00 4.46
2906 6925 5.917545 AACAGGTAAGGACTTTTTAGGGA 57.082 39.130 0.00 0.00 0.00 4.20
2907 6926 5.243060 CCAAACAGGTAAGGACTTTTTAGGG 59.757 44.000 0.00 0.00 0.00 3.53
2908 6927 6.327279 CCAAACAGGTAAGGACTTTTTAGG 57.673 41.667 0.00 0.00 0.00 2.69
2924 6943 2.158608 AGAAGTCCCAGGAACCAAACAG 60.159 50.000 0.00 0.00 0.00 3.16
2925 6944 1.850345 AGAAGTCCCAGGAACCAAACA 59.150 47.619 0.00 0.00 0.00 2.83
2926 6945 2.658807 AGAAGTCCCAGGAACCAAAC 57.341 50.000 0.00 0.00 0.00 2.93
2927 6946 3.720002 ACTTAGAAGTCCCAGGAACCAAA 59.280 43.478 0.00 0.00 32.86 3.28
2928 6947 3.323775 ACTTAGAAGTCCCAGGAACCAA 58.676 45.455 0.00 0.00 32.86 3.67
2929 6948 2.986050 ACTTAGAAGTCCCAGGAACCA 58.014 47.619 0.00 0.00 32.86 3.67
2975 6994 7.125053 CCCTCAAGAAGAGTCTTATAAGGACTT 59.875 40.741 21.86 13.78 42.45 3.01
2976 6995 6.609616 CCCTCAAGAAGAGTCTTATAAGGACT 59.390 42.308 21.86 13.34 42.45 3.85
2977 6996 6.381707 ACCCTCAAGAAGAGTCTTATAAGGAC 59.618 42.308 21.86 9.23 42.45 3.85
2978 6997 6.503944 ACCCTCAAGAAGAGTCTTATAAGGA 58.496 40.000 21.86 11.24 42.45 3.36
2979 6998 6.609616 AGACCCTCAAGAAGAGTCTTATAAGG 59.390 42.308 16.60 16.60 42.45 2.69
2982 7001 9.716556 AATAAGACCCTCAAGAAGAGTCTTATA 57.283 33.333 18.79 1.42 44.10 0.98
2985 7004 6.943899 AATAAGACCCTCAAGAAGAGTCTT 57.056 37.500 4.68 4.68 45.36 3.01
2986 7005 6.498651 TGAAATAAGACCCTCAAGAAGAGTCT 59.501 38.462 0.00 0.00 43.12 3.24
2987 7006 6.702329 TGAAATAAGACCCTCAAGAAGAGTC 58.298 40.000 0.00 0.00 43.12 3.36
2988 7007 6.688073 TGAAATAAGACCCTCAAGAAGAGT 57.312 37.500 0.00 0.00 43.12 3.24
3005 7024 6.667414 AGTGGGCATTTGGAACTTATGAAATA 59.333 34.615 0.00 0.00 0.00 1.40
3006 7025 5.484998 AGTGGGCATTTGGAACTTATGAAAT 59.515 36.000 0.00 0.00 0.00 2.17
3007 7026 4.837860 AGTGGGCATTTGGAACTTATGAAA 59.162 37.500 0.00 0.00 0.00 2.69
3008 7027 4.415596 AGTGGGCATTTGGAACTTATGAA 58.584 39.130 0.00 0.00 0.00 2.57
3009 7028 4.046286 AGTGGGCATTTGGAACTTATGA 57.954 40.909 0.00 0.00 0.00 2.15
3010 7029 4.806640 AAGTGGGCATTTGGAACTTATG 57.193 40.909 0.00 0.00 29.56 1.90
3012 7031 5.836358 ACTTAAAGTGGGCATTTGGAACTTA 59.164 36.000 0.00 0.00 31.09 2.24
3013 7032 4.653801 ACTTAAAGTGGGCATTTGGAACTT 59.346 37.500 0.00 0.00 32.60 2.66
3014 7033 4.223144 ACTTAAAGTGGGCATTTGGAACT 58.777 39.130 0.00 0.00 0.00 3.01
3015 7034 4.556233 GACTTAAAGTGGGCATTTGGAAC 58.444 43.478 0.00 0.00 0.00 3.62
3016 7035 3.576550 GGACTTAAAGTGGGCATTTGGAA 59.423 43.478 0.00 0.00 0.00 3.53
3018 7037 2.233676 GGGACTTAAAGTGGGCATTTGG 59.766 50.000 0.00 0.00 0.00 3.28
3019 7038 3.165071 AGGGACTTAAAGTGGGCATTTG 58.835 45.455 0.00 0.00 27.25 2.32
3020 7039 3.542969 AGGGACTTAAAGTGGGCATTT 57.457 42.857 0.00 0.00 27.25 2.32
3021 7040 4.881157 ATAGGGACTTAAAGTGGGCATT 57.119 40.909 0.00 0.00 41.75 3.56
3022 7041 5.432060 ACTTATAGGGACTTAAAGTGGGCAT 59.568 40.000 0.00 0.00 39.58 4.40
3024 7043 5.366460 GACTTATAGGGACTTAAAGTGGGC 58.634 45.833 0.00 0.00 40.60 5.36
3025 7044 5.163227 GGGACTTATAGGGACTTAAAGTGGG 60.163 48.000 0.00 0.00 40.60 4.61
3028 7047 5.904169 GGAGGGACTTATAGGGACTTAAAGT 59.096 44.000 0.00 0.00 42.31 2.66
3031 7050 5.042827 ACAGGAGGGACTTATAGGGACTTAA 60.043 44.000 0.00 0.00 41.55 1.85
3032 7051 4.485021 ACAGGAGGGACTTATAGGGACTTA 59.515 45.833 0.00 0.00 41.55 2.24
3033 7052 3.275228 ACAGGAGGGACTTATAGGGACTT 59.725 47.826 0.00 0.00 41.55 3.01
3035 7054 3.331718 ACAGGAGGGACTTATAGGGAC 57.668 52.381 0.00 0.00 41.55 4.46
3036 7055 4.037927 CAAACAGGAGGGACTTATAGGGA 58.962 47.826 0.00 0.00 41.55 4.20
3037 7056 3.136626 CCAAACAGGAGGGACTTATAGGG 59.863 52.174 0.00 0.00 41.55 3.53
3038 7057 3.780850 ACCAAACAGGAGGGACTTATAGG 59.219 47.826 0.00 0.00 41.55 2.57
3039 7058 5.437191 AACCAAACAGGAGGGACTTATAG 57.563 43.478 0.00 0.00 41.55 1.31
3040 7059 5.853572 AAACCAAACAGGAGGGACTTATA 57.146 39.130 0.00 0.00 41.55 0.98
3041 7060 4.741928 AAACCAAACAGGAGGGACTTAT 57.258 40.909 0.00 0.00 41.55 1.73
3042 7061 4.909088 TCTAAACCAAACAGGAGGGACTTA 59.091 41.667 0.00 0.00 41.55 2.24
3045 7064 3.782656 TCTAAACCAAACAGGAGGGAC 57.217 47.619 0.00 0.00 41.22 4.46
3046 7065 3.010138 CCATCTAAACCAAACAGGAGGGA 59.990 47.826 0.00 0.00 41.22 4.20
3047 7066 3.356290 CCATCTAAACCAAACAGGAGGG 58.644 50.000 0.00 0.00 41.22 4.30
3048 7067 3.010138 TCCCATCTAAACCAAACAGGAGG 59.990 47.826 0.00 0.00 41.22 4.30
3049 7068 4.010349 GTCCCATCTAAACCAAACAGGAG 58.990 47.826 0.00 0.00 41.22 3.69
3050 7069 3.655777 AGTCCCATCTAAACCAAACAGGA 59.344 43.478 0.00 0.00 41.22 3.86
3051 7070 4.034285 AGTCCCATCTAAACCAAACAGG 57.966 45.455 0.00 0.00 45.67 4.00
3054 7073 6.771267 CCCTATAAGTCCCATCTAAACCAAAC 59.229 42.308 0.00 0.00 0.00 2.93
3055 7074 6.679303 TCCCTATAAGTCCCATCTAAACCAAA 59.321 38.462 0.00 0.00 0.00 3.28
3056 7075 6.100714 GTCCCTATAAGTCCCATCTAAACCAA 59.899 42.308 0.00 0.00 0.00 3.67
3057 7076 5.605488 GTCCCTATAAGTCCCATCTAAACCA 59.395 44.000 0.00 0.00 0.00 3.67
3058 7077 5.845065 AGTCCCTATAAGTCCCATCTAAACC 59.155 44.000 0.00 0.00 0.00 3.27
3059 7078 6.997942 AGTCCCTATAAGTCCCATCTAAAC 57.002 41.667 0.00 0.00 0.00 2.01
3060 7079 8.401955 AAAAGTCCCTATAAGTCCCATCTAAA 57.598 34.615 0.00 0.00 0.00 1.85
3063 7082 6.910259 AAAAAGTCCCTATAAGTCCCATCT 57.090 37.500 0.00 0.00 0.00 2.90
3084 7103 7.670979 GGGACTTATTGGTTTAGGGACTTAAAA 59.329 37.037 0.00 0.00 41.75 1.52
3085 7104 7.018851 AGGGACTTATTGGTTTAGGGACTTAAA 59.981 37.037 0.00 0.00 34.75 1.52
3087 7106 6.034003 AGGGACTTATTGGTTTAGGGACTTA 58.966 40.000 0.00 0.00 34.75 2.24
3088 7107 4.856182 AGGGACTTATTGGTTTAGGGACTT 59.144 41.667 0.00 0.00 34.75 3.01
3089 7108 4.227527 CAGGGACTTATTGGTTTAGGGACT 59.772 45.833 0.00 0.00 39.39 3.85
3091 7110 4.440808 TCAGGGACTTATTGGTTTAGGGA 58.559 43.478 0.00 0.00 34.60 4.20
3092 7111 4.855298 TCAGGGACTTATTGGTTTAGGG 57.145 45.455 0.00 0.00 34.60 3.53
3093 7112 6.492087 TGTTTTCAGGGACTTATTGGTTTAGG 59.508 38.462 0.00 0.00 34.60 2.69
3094 7113 7.519032 TGTTTTCAGGGACTTATTGGTTTAG 57.481 36.000 0.00 0.00 34.60 1.85
3098 7117 5.659079 TGTTTGTTTTCAGGGACTTATTGGT 59.341 36.000 0.00 0.00 34.60 3.67
3099 7118 5.983118 GTGTTTGTTTTCAGGGACTTATTGG 59.017 40.000 0.00 0.00 34.60 3.16
3100 7119 5.983118 GGTGTTTGTTTTCAGGGACTTATTG 59.017 40.000 0.00 0.00 34.60 1.90
3103 7122 3.955551 GGGTGTTTGTTTTCAGGGACTTA 59.044 43.478 0.00 0.00 34.60 2.24
3105 7124 2.024369 AGGGTGTTTGTTTTCAGGGACT 60.024 45.455 0.00 0.00 43.88 3.85
3106 7125 2.361119 GAGGGTGTTTGTTTTCAGGGAC 59.639 50.000 0.00 0.00 0.00 4.46
3108 7127 2.666317 AGAGGGTGTTTGTTTTCAGGG 58.334 47.619 0.00 0.00 0.00 4.45
3109 7128 4.887655 ACTAAGAGGGTGTTTGTTTTCAGG 59.112 41.667 0.00 0.00 0.00 3.86
3112 7131 4.277672 GGGACTAAGAGGGTGTTTGTTTTC 59.722 45.833 0.00 0.00 0.00 2.29
3113 7132 4.212716 GGGACTAAGAGGGTGTTTGTTTT 58.787 43.478 0.00 0.00 0.00 2.43
3114 7133 3.203487 TGGGACTAAGAGGGTGTTTGTTT 59.797 43.478 0.00 0.00 0.00 2.83
3115 7134 2.781174 TGGGACTAAGAGGGTGTTTGTT 59.219 45.455 0.00 0.00 0.00 2.83
3116 7135 2.414612 TGGGACTAAGAGGGTGTTTGT 58.585 47.619 0.00 0.00 0.00 2.83
3117 7136 3.502123 TTGGGACTAAGAGGGTGTTTG 57.498 47.619 0.00 0.00 0.00 2.93
3118 7137 3.203487 TGTTTGGGACTAAGAGGGTGTTT 59.797 43.478 0.00 0.00 0.00 2.83
3119 7138 2.781174 TGTTTGGGACTAAGAGGGTGTT 59.219 45.455 0.00 0.00 0.00 3.32
3120 7139 2.414612 TGTTTGGGACTAAGAGGGTGT 58.585 47.619 0.00 0.00 0.00 4.16
3121 7140 3.181443 ACTTGTTTGGGACTAAGAGGGTG 60.181 47.826 0.00 0.00 0.00 4.61
3122 7141 3.053826 ACTTGTTTGGGACTAAGAGGGT 58.946 45.455 0.00 0.00 0.00 4.34
3123 7142 3.790089 ACTTGTTTGGGACTAAGAGGG 57.210 47.619 0.00 0.00 0.00 4.30
3135 7154 4.843728 TCTAGCCTATCCCAACTTGTTTG 58.156 43.478 0.00 0.00 34.63 2.93
3136 7155 4.080299 CCTCTAGCCTATCCCAACTTGTTT 60.080 45.833 0.00 0.00 0.00 2.83
3138 7157 3.041946 CCTCTAGCCTATCCCAACTTGT 58.958 50.000 0.00 0.00 0.00 3.16
3139 7158 3.041946 ACCTCTAGCCTATCCCAACTTG 58.958 50.000 0.00 0.00 0.00 3.16
3140 7159 3.041946 CACCTCTAGCCTATCCCAACTT 58.958 50.000 0.00 0.00 0.00 2.66
3141 7160 2.247635 TCACCTCTAGCCTATCCCAACT 59.752 50.000 0.00 0.00 0.00 3.16
3142 7161 2.679082 TCACCTCTAGCCTATCCCAAC 58.321 52.381 0.00 0.00 0.00 3.77
3144 7163 3.039011 GTTTCACCTCTAGCCTATCCCA 58.961 50.000 0.00 0.00 0.00 4.37
3145 7164 2.369203 GGTTTCACCTCTAGCCTATCCC 59.631 54.545 0.00 0.00 34.73 3.85


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

AutoCloner maintained by Alex Coulton.