Multiple sequence alignment - TraesCS2D01G423400

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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 TraesCS2D01G423400 chr2D 100.000 5340 0 0 1 5340 536537271 536531932 0.000000e+00 9862.0
1 TraesCS2D01G423400 chr2D 77.171 1739 335 49 2636 4349 536904909 536903208 0.000000e+00 955.0
2 TraesCS2D01G423400 chr2D 97.333 75 2 0 1391 1465 401277000 401276926 1.560000e-25 128.0
3 TraesCS2D01G423400 chr2A 95.627 2950 102 13 1462 4399 679279329 679276395 0.000000e+00 4708.0
4 TraesCS2D01G423400 chr2A 89.652 1063 68 16 189 1239 679280607 679279575 0.000000e+00 1315.0
5 TraesCS2D01G423400 chr2A 90.486 946 54 11 4409 5337 679276412 679275486 0.000000e+00 1216.0
6 TraesCS2D01G423400 chr2A 92.670 191 7 2 1207 1391 679279517 679279328 8.820000e-68 268.0
7 TraesCS2D01G423400 chr2A 92.432 185 13 1 3 186 679282328 679282144 4.100000e-66 263.0
8 TraesCS2D01G423400 chr2A 92.982 57 3 1 1509 1565 165847581 165847636 1.230000e-11 82.4
9 TraesCS2D01G423400 chr2A 95.349 43 1 1 1505 1547 59351774 59351815 3.450000e-07 67.6
10 TraesCS2D01G423400 chr2B 96.649 1731 52 4 2673 4399 638774442 638772714 0.000000e+00 2870.0
11 TraesCS2D01G423400 chr2B 93.255 934 60 2 4409 5340 638772731 638771799 0.000000e+00 1373.0
12 TraesCS2D01G423400 chr2B 88.276 1143 67 27 265 1391 638776993 638775902 0.000000e+00 1306.0
13 TraesCS2D01G423400 chr2B 93.023 731 31 10 1475 2200 638775894 638775179 0.000000e+00 1050.0
14 TraesCS2D01G423400 chr2B 92.277 505 25 7 2188 2690 638774999 638774507 0.000000e+00 704.0
15 TraesCS2D01G423400 chr2B 91.503 153 11 2 3 154 638823576 638823425 5.420000e-50 209.0
16 TraesCS2D01G423400 chr2B 97.333 75 2 0 1391 1465 63954822 63954896 1.560000e-25 128.0
17 TraesCS2D01G423400 chr3D 97.333 75 2 0 1391 1465 20533466 20533392 1.560000e-25 128.0
18 TraesCS2D01G423400 chr3B 97.333 75 2 0 1391 1465 819847517 819847443 1.560000e-25 128.0
19 TraesCS2D01G423400 chr1B 97.333 75 2 0 1391 1465 534170842 534170768 1.560000e-25 128.0
20 TraesCS2D01G423400 chr7D 96.154 78 2 1 1389 1465 44653321 44653244 5.610000e-25 126.0
21 TraesCS2D01G423400 chr7D 95.000 80 4 0 1386 1465 185380997 185381076 5.610000e-25 126.0
22 TraesCS2D01G423400 chr6B 97.297 74 2 0 1392 1465 642074106 642074179 5.610000e-25 126.0
23 TraesCS2D01G423400 chr5D 97.297 74 2 0 1392 1465 401035826 401035899 5.610000e-25 126.0
24 TraesCS2D01G423400 chr5D 86.207 58 5 3 1510 1566 242117180 242117125 5.780000e-05 60.2
25 TraesCS2D01G423400 chr6A 87.273 55 5 2 1511 1565 85569681 85569733 1.610000e-05 62.1
26 TraesCS2D01G423400 chr4D 90.698 43 3 1 1505 1547 444252758 444252799 7.470000e-04 56.5
27 TraesCS2D01G423400 chr4B 90.698 43 3 1 1505 1547 553918219 553918260 7.470000e-04 56.5
28 TraesCS2D01G423400 chr4A 96.970 33 1 0 1518 1550 23596888 23596856 7.470000e-04 56.5


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 TraesCS2D01G423400 chr2D 536531932 536537271 5339 True 9862.0 9862 100.0000 1 5340 1 chr2D.!!$R2 5339
1 TraesCS2D01G423400 chr2D 536903208 536904909 1701 True 955.0 955 77.1710 2636 4349 1 chr2D.!!$R3 1713
2 TraesCS2D01G423400 chr2A 679275486 679282328 6842 True 1554.0 4708 92.1734 3 5337 5 chr2A.!!$R1 5334
3 TraesCS2D01G423400 chr2B 638771799 638776993 5194 True 1460.6 2870 92.6960 265 5340 5 chr2B.!!$R2 5075

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
722 2266 0.109781 GCACGCGTGAATTCCACATT 60.110 50.0 41.19 0.0 45.98 2.71 F
1417 3081 0.095762 GGAATTTTCACGTACGCCGG 59.904 55.0 16.72 0.0 42.24 6.13 F
1440 3104 0.179111 TAATGCTCTTCGCCGAGTGG 60.179 55.0 0.00 0.0 38.05 4.00 F
1444 3108 0.389426 GCTCTTCGCCGAGTGGTAAA 60.389 55.0 0.00 0.0 37.67 2.01 F
2048 3717 0.531532 GAGATCATGCTGGACACGGG 60.532 60.0 0.00 0.0 0.00 5.28 F
3369 5319 0.625316 TGTGCAGGTGGGATAAGCAT 59.375 50.0 0.00 0.0 37.56 3.79 F
4060 6023 0.597637 GTGGCTCGATGACCATACCG 60.598 60.0 5.38 0.0 38.46 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2298 4159 0.173481 TCAGATGAACGGAGGCTTCG 59.827 55.000 14.98 14.98 0.00 3.79 R
2374 4235 3.032017 ACTGTCCAGAATCAACTCGTG 57.968 47.619 0.40 0.00 0.00 4.35 R
2873 4820 3.394274 TGCCAAGGCCTGCTTAAGATATA 59.606 43.478 5.69 0.00 41.09 0.86 R
3369 5319 5.258841 TCGGAGTAGTACTGAATTTCCTCA 58.741 41.667 7.76 0.00 0.00 3.86 R
3719 5673 2.358898 CTCCGTAATCTTTGGCCCAATG 59.641 50.000 0.00 0.00 0.00 2.82 R
4286 6249 0.818445 TCGAGACCAGGGCGTAGATC 60.818 60.000 0.00 0.00 0.00 2.75 R
5299 7281 1.348594 GATAGCGAGGCGTTTGTGC 59.651 57.895 0.00 0.00 0.00 4.57 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
33 34 4.487714 AATTTGCTATCTCGAGGGTTCA 57.512 40.909 13.56 3.52 0.00 3.18
46 47 1.980036 AGGGTTCAATTTGCCATGCTT 59.020 42.857 0.00 0.00 0.00 3.91
47 48 3.172339 AGGGTTCAATTTGCCATGCTTA 58.828 40.909 0.00 0.00 0.00 3.09
53 54 6.017192 GGTTCAATTTGCCATGCTTAAAAACT 60.017 34.615 0.00 0.00 0.00 2.66
74 75 4.082274 TCGACGTTAGATTTGTAGCGAA 57.918 40.909 0.00 0.00 31.72 4.70
76 77 5.097529 TCGACGTTAGATTTGTAGCGAAAT 58.902 37.500 0.00 0.00 31.72 2.17
96 97 7.484959 GCGAAATCTATTTGTTTTTCCCACTAG 59.515 37.037 0.00 0.00 0.00 2.57
111 112 3.074412 CCACTAGAAACTGCCGAATTGT 58.926 45.455 0.00 0.00 0.00 2.71
124 126 6.038271 ACTGCCGAATTGTTATGTCTTATTCC 59.962 38.462 0.00 0.00 0.00 3.01
125 127 5.007234 TGCCGAATTGTTATGTCTTATTCCG 59.993 40.000 0.00 0.00 0.00 4.30
211 1747 8.806429 TTCTTAAGCATCAGATGTATTTTCCA 57.194 30.769 12.18 0.00 0.00 3.53
212 1748 8.213518 TCTTAAGCATCAGATGTATTTTCCAC 57.786 34.615 12.18 0.00 0.00 4.02
242 1778 4.935702 ACCAATCAATAATTGTCATGCGG 58.064 39.130 0.00 0.00 42.80 5.69
246 1782 6.364165 CCAATCAATAATTGTCATGCGGATTC 59.636 38.462 0.00 0.00 42.80 2.52
254 1790 0.464373 TCATGCGGATTCTGAAGCCC 60.464 55.000 18.26 11.69 31.85 5.19
261 1797 3.397482 CGGATTCTGAAGCCCATCTTAG 58.603 50.000 18.26 0.00 34.56 2.18
263 1799 4.443457 CGGATTCTGAAGCCCATCTTAGAA 60.443 45.833 18.26 0.00 34.56 2.10
274 1810 7.968014 AGCCCATCTTAGAAAAATCTTGATT 57.032 32.000 0.00 0.00 0.00 2.57
284 1820 7.704789 AGAAAAATCTTGATTTGACAAGTGC 57.295 32.000 9.06 0.00 44.96 4.40
294 1830 9.462174 CTTGATTTGACAAGTGCAGTAAAAATA 57.538 29.630 0.00 0.00 41.32 1.40
324 1860 0.320683 CTCACCAGCACGATCAACCA 60.321 55.000 0.00 0.00 0.00 3.67
401 1940 3.983741 AGTTTCTCGTTTCTCTGACCTG 58.016 45.455 0.00 0.00 0.00 4.00
448 1990 7.602265 TGATTAGACGAACAACTCAATTCATGA 59.398 33.333 0.00 0.00 36.38 3.07
457 1999 2.028420 TCAATTCATGAGTCGGGCAG 57.972 50.000 0.00 0.00 33.04 4.85
469 2011 2.106938 GGGCAGCGATCGACATCA 59.893 61.111 21.57 0.00 0.00 3.07
587 2129 6.094719 CACCACATGTTTGTCTATTGGATTG 58.905 40.000 0.00 0.00 32.34 2.67
588 2130 6.009589 ACCACATGTTTGTCTATTGGATTGA 58.990 36.000 0.00 0.00 32.34 2.57
589 2131 6.493115 ACCACATGTTTGTCTATTGGATTGAA 59.507 34.615 0.00 0.00 32.34 2.69
596 2140 8.690884 TGTTTGTCTATTGGATTGAAAAGAACA 58.309 29.630 0.00 0.00 0.00 3.18
606 2150 5.411669 GGATTGAAAAGAACAGTCCGTACAT 59.588 40.000 0.00 0.00 35.23 2.29
668 2212 3.928754 TCAACACCATAGATAGGAGGCT 58.071 45.455 0.00 0.00 0.00 4.58
671 2215 4.750833 ACACCATAGATAGGAGGCTAGT 57.249 45.455 0.00 0.00 0.00 2.57
684 2228 4.342665 AGGAGGCTAGTACAGTAGCATTTC 59.657 45.833 15.97 10.51 46.29 2.17
719 2263 0.725784 CTTGCACGCGTGAATTCCAC 60.726 55.000 41.19 22.07 42.30 4.02
720 2264 1.440145 TTGCACGCGTGAATTCCACA 61.440 50.000 41.19 24.40 45.98 4.17
721 2265 1.233950 TGCACGCGTGAATTCCACAT 61.234 50.000 41.19 0.00 45.98 3.21
722 2266 0.109781 GCACGCGTGAATTCCACATT 60.110 50.000 41.19 0.00 45.98 2.71
723 2267 1.665735 GCACGCGTGAATTCCACATTT 60.666 47.619 41.19 0.00 45.98 2.32
724 2268 2.241722 CACGCGTGAATTCCACATTTC 58.758 47.619 34.93 0.00 45.98 2.17
725 2269 1.199097 ACGCGTGAATTCCACATTTCC 59.801 47.619 12.93 0.00 45.98 3.13
726 2270 1.790123 CGCGTGAATTCCACATTTCCG 60.790 52.381 2.27 0.00 45.98 4.30
754 2298 2.488545 TCTCACGAGGCTTGTCTACTTC 59.511 50.000 3.86 0.00 0.00 3.01
757 2307 1.546476 ACGAGGCTTGTCTACTTCCTG 59.454 52.381 0.18 0.00 0.00 3.86
766 2316 4.602340 TGTCTACTTCCTGTGAACCTTC 57.398 45.455 0.00 0.00 0.00 3.46
789 2345 2.456119 CCAGCGACAGGATTCGTGC 61.456 63.158 6.28 0.00 41.26 5.34
828 2384 5.524284 AGTGATAACAGATGCATACTCGTC 58.476 41.667 0.00 0.00 0.00 4.20
871 2427 8.648097 CGAATTGGATTTTCGATACGATATCTT 58.352 33.333 0.34 0.00 46.73 2.40
907 2473 1.346395 TGTCCTGCGACCTGTGTATTT 59.654 47.619 0.00 0.00 38.32 1.40
971 2537 3.748568 CACTCCCAGTTCTTTAGCTGAAC 59.251 47.826 7.21 7.21 42.77 3.18
1156 2722 2.517875 CAGGTAGCCTGCCATGCC 60.518 66.667 0.45 0.00 45.13 4.40
1157 2723 3.016971 AGGTAGCCTGCCATGCCA 61.017 61.111 0.45 0.00 29.57 4.92
1270 2934 7.410800 TTTTGCGTTCGAGAAAGTAGATTAA 57.589 32.000 0.00 0.00 0.00 1.40
1288 2952 2.717580 AATCAGTCGTAACGCTGTGA 57.282 45.000 0.00 0.00 34.53 3.58
1393 3057 5.474876 ACCGGCTGGTAGTATATACTAACAC 59.525 44.000 28.99 24.28 46.35 3.32
1394 3058 5.709164 CCGGCTGGTAGTATATACTAACACT 59.291 44.000 28.99 7.55 46.35 3.55
1395 3059 6.881065 CCGGCTGGTAGTATATACTAACACTA 59.119 42.308 28.99 15.44 46.35 2.74
1398 3062 8.728833 GGCTGGTAGTATATACTAACACTACTG 58.271 40.741 28.99 21.53 46.35 2.74
1399 3063 8.728833 GCTGGTAGTATATACTAACACTACTGG 58.271 40.741 28.99 20.97 46.35 4.00
1409 3073 6.780706 ACTAACACTACTGGAATTTTCACG 57.219 37.500 0.00 0.00 0.00 4.35
1410 3074 6.285990 ACTAACACTACTGGAATTTTCACGT 58.714 36.000 0.00 0.00 0.00 4.49
1411 3075 7.436118 ACTAACACTACTGGAATTTTCACGTA 58.564 34.615 0.00 0.00 0.00 3.57
1412 3076 6.535274 AACACTACTGGAATTTTCACGTAC 57.465 37.500 0.00 0.00 0.00 3.67
1413 3077 4.682860 ACACTACTGGAATTTTCACGTACG 59.317 41.667 15.01 15.01 0.00 3.67
1414 3078 3.676646 ACTACTGGAATTTTCACGTACGC 59.323 43.478 16.72 0.00 0.00 4.42
1415 3079 1.802365 ACTGGAATTTTCACGTACGCC 59.198 47.619 16.72 6.25 0.00 5.68
1416 3080 0.791422 TGGAATTTTCACGTACGCCG 59.209 50.000 16.72 7.10 44.03 6.46
1417 3081 0.095762 GGAATTTTCACGTACGCCGG 59.904 55.000 16.72 0.00 42.24 6.13
1418 3082 0.095762 GAATTTTCACGTACGCCGGG 59.904 55.000 16.72 2.68 42.98 5.73
1419 3083 0.603439 AATTTTCACGTACGCCGGGT 60.603 50.000 16.72 1.55 41.99 5.28
1420 3084 1.293267 ATTTTCACGTACGCCGGGTG 61.293 55.000 16.72 5.93 41.99 4.61
1421 3085 2.641439 TTTTCACGTACGCCGGGTGT 62.641 55.000 18.47 18.47 41.99 4.16
1422 3086 1.800283 TTTCACGTACGCCGGGTGTA 61.800 55.000 16.72 16.19 41.99 2.90
1423 3087 1.800283 TTCACGTACGCCGGGTGTAA 61.800 55.000 21.24 5.43 41.99 2.41
1424 3088 1.153784 CACGTACGCCGGGTGTAAT 60.154 57.895 21.24 10.52 42.24 1.89
1425 3089 1.153784 ACGTACGCCGGGTGTAATG 60.154 57.895 21.24 18.07 42.24 1.90
1426 3090 2.519175 CGTACGCCGGGTGTAATGC 61.519 63.158 21.24 9.07 30.12 3.56
1427 3091 1.153509 GTACGCCGGGTGTAATGCT 60.154 57.895 21.24 0.00 30.12 3.79
1428 3092 1.142314 TACGCCGGGTGTAATGCTC 59.858 57.895 17.70 0.00 0.00 4.26
1429 3093 1.324740 TACGCCGGGTGTAATGCTCT 61.325 55.000 17.70 0.00 0.00 4.09
1430 3094 1.449601 CGCCGGGTGTAATGCTCTT 60.450 57.895 2.18 0.00 0.00 2.85
1431 3095 1.429148 CGCCGGGTGTAATGCTCTTC 61.429 60.000 2.18 0.00 0.00 2.87
1432 3096 1.429148 GCCGGGTGTAATGCTCTTCG 61.429 60.000 2.18 0.00 0.00 3.79
1433 3097 1.429148 CCGGGTGTAATGCTCTTCGC 61.429 60.000 0.00 0.00 39.77 4.70
1434 3098 1.429148 CGGGTGTAATGCTCTTCGCC 61.429 60.000 0.00 0.00 38.05 5.54
1435 3099 1.429148 GGGTGTAATGCTCTTCGCCG 61.429 60.000 0.00 0.00 38.05 6.46
1436 3100 0.459585 GGTGTAATGCTCTTCGCCGA 60.460 55.000 0.00 0.00 38.05 5.54
1437 3101 0.924090 GTGTAATGCTCTTCGCCGAG 59.076 55.000 0.00 0.00 38.05 4.63
1438 3102 0.530744 TGTAATGCTCTTCGCCGAGT 59.469 50.000 0.00 0.00 38.05 4.18
1439 3103 0.924090 GTAATGCTCTTCGCCGAGTG 59.076 55.000 0.00 0.00 38.05 3.51
1440 3104 0.179111 TAATGCTCTTCGCCGAGTGG 60.179 55.000 0.00 0.00 38.05 4.00
1441 3105 2.172483 AATGCTCTTCGCCGAGTGGT 62.172 55.000 0.00 0.00 38.05 4.16
1442 3106 1.320344 ATGCTCTTCGCCGAGTGGTA 61.320 55.000 0.00 0.00 38.05 3.25
1443 3107 1.214589 GCTCTTCGCCGAGTGGTAA 59.785 57.895 0.00 0.00 37.67 2.85
1444 3108 0.389426 GCTCTTCGCCGAGTGGTAAA 60.389 55.000 0.00 0.00 37.67 2.01
1445 3109 1.938016 GCTCTTCGCCGAGTGGTAAAA 60.938 52.381 0.00 0.00 37.67 1.52
1446 3110 1.725164 CTCTTCGCCGAGTGGTAAAAC 59.275 52.381 0.00 0.00 37.67 2.43
1447 3111 1.068895 TCTTCGCCGAGTGGTAAAACA 59.931 47.619 0.00 0.00 37.67 2.83
1448 3112 1.193874 CTTCGCCGAGTGGTAAAACAC 59.806 52.381 0.00 0.00 41.63 3.32
1449 3113 0.940519 TCGCCGAGTGGTAAAACACG 60.941 55.000 0.00 0.00 45.80 4.49
1453 3117 1.855513 CGAGTGGTAAAACACGGACA 58.144 50.000 0.00 0.00 45.80 4.02
1454 3118 1.523934 CGAGTGGTAAAACACGGACAC 59.476 52.381 0.00 0.00 45.80 3.67
1455 3119 2.800629 CGAGTGGTAAAACACGGACACT 60.801 50.000 0.00 0.00 45.80 3.55
1456 3120 2.798847 GAGTGGTAAAACACGGACACTC 59.201 50.000 6.84 6.84 45.80 3.51
1457 3121 2.168936 AGTGGTAAAACACGGACACTCA 59.831 45.455 0.00 0.00 45.80 3.41
1458 3122 2.542595 GTGGTAAAACACGGACACTCAG 59.457 50.000 0.00 0.00 0.00 3.35
1459 3123 1.529865 GGTAAAACACGGACACTCAGC 59.470 52.381 0.00 0.00 0.00 4.26
1460 3124 2.206750 GTAAAACACGGACACTCAGCA 58.793 47.619 0.00 0.00 0.00 4.41
1461 3125 1.745232 AAAACACGGACACTCAGCAA 58.255 45.000 0.00 0.00 0.00 3.91
1462 3126 1.745232 AAACACGGACACTCAGCAAA 58.255 45.000 0.00 0.00 0.00 3.68
1504 3168 9.817809 CTGATTACTACTCCTACTAAATTTGCA 57.182 33.333 0.00 0.00 0.00 4.08
1554 3219 1.946650 GCCTCTGCATCGTACGCTC 60.947 63.158 11.24 2.31 37.47 5.03
1595 3260 2.741759 TTGCATGTGACGAGCTCTTA 57.258 45.000 12.85 0.00 0.00 2.10
1598 3263 3.599343 TGCATGTGACGAGCTCTTATTT 58.401 40.909 12.85 0.00 0.00 1.40
1643 3308 6.764308 AGGATTAATAAATGGCATGGATCG 57.236 37.500 0.00 0.00 0.00 3.69
1711 3376 2.425592 CGGCGCCATCTTCCCATA 59.574 61.111 28.98 0.00 0.00 2.74
1716 3381 1.308998 CGCCATCTTCCCATAACACC 58.691 55.000 0.00 0.00 0.00 4.16
1779 3444 1.590932 CTCAGATCCAATGCTTCCCG 58.409 55.000 0.00 0.00 0.00 5.14
1959 3624 3.991773 TCGATCGGTTCTTTGTTTACTGG 59.008 43.478 16.41 0.00 0.00 4.00
2048 3717 0.531532 GAGATCATGCTGGACACGGG 60.532 60.000 0.00 0.00 0.00 5.28
2110 3779 5.585445 GGATACGACGTCTCATCTGGTATAT 59.415 44.000 14.70 0.00 0.00 0.86
2111 3780 6.760298 GGATACGACGTCTCATCTGGTATATA 59.240 42.308 14.70 0.00 0.00 0.86
2112 3781 7.441760 GGATACGACGTCTCATCTGGTATATAT 59.558 40.741 14.70 0.00 0.00 0.86
2113 3782 9.473640 GATACGACGTCTCATCTGGTATATATA 57.526 37.037 14.70 0.00 0.00 0.86
2250 4111 3.844577 TTCCTCACACGCTACTAACTC 57.155 47.619 0.00 0.00 0.00 3.01
2298 4159 6.459066 TGCAGATAGCTTATCACATCTTACC 58.541 40.000 0.00 0.00 45.94 2.85
2374 4235 2.298163 TCCCAAGTCAGTACCTCGAAAC 59.702 50.000 0.00 0.00 0.00 2.78
2421 4282 1.668101 CCTGGTCAGGTCGCCTACTC 61.668 65.000 8.78 0.00 43.61 2.59
2453 4314 6.360370 ACTGAGATCTAGTAAGGCACAAAA 57.640 37.500 0.00 0.00 0.00 2.44
2455 4316 7.398024 ACTGAGATCTAGTAAGGCACAAAAAT 58.602 34.615 0.00 0.00 0.00 1.82
2456 4317 7.885399 ACTGAGATCTAGTAAGGCACAAAAATT 59.115 33.333 0.00 0.00 0.00 1.82
2489 4350 7.894364 ACTCCTAAGAGAGGTAAATACTCAACA 59.106 37.037 0.00 0.00 46.76 3.33
2513 4376 4.822896 GGAAACATACTTGTACCCACAACA 59.177 41.667 0.00 0.00 39.75 3.33
2595 4458 3.057033 ACCGTCACGTTTGTAGCTCTATT 60.057 43.478 0.00 0.00 0.00 1.73
2658 4521 9.708092 GTTTTGGAGACTAACTCTACTTGTATT 57.292 33.333 0.00 0.00 44.37 1.89
2857 4804 6.898041 TGTGTAATGCATAACTTCACAAGAC 58.102 36.000 0.00 0.00 32.66 3.01
2873 4820 7.994425 TCACAAGACACACCAATGTTATTAT 57.006 32.000 0.00 0.00 36.72 1.28
3087 5037 4.487714 TGGGTGAAAGATAGCAGGTTAG 57.512 45.455 0.00 0.00 0.00 2.34
3369 5319 0.625316 TGTGCAGGTGGGATAAGCAT 59.375 50.000 0.00 0.00 37.56 3.79
3719 5673 3.750828 GCTCCCAGCACTCTACTTC 57.249 57.895 0.00 0.00 41.89 3.01
3961 5924 6.101005 AGCAGGAGGAGATAGCTAAGAATTTT 59.899 38.462 0.00 0.00 33.06 1.82
4000 5963 3.693085 TGTTGTAGAGGGAGTACATCGAC 59.307 47.826 0.00 0.00 30.54 4.20
4060 6023 0.597637 GTGGCTCGATGACCATACCG 60.598 60.000 5.38 0.00 38.46 4.02
4138 6101 2.550180 GTTGGTCCTCAAAGAAGACAGC 59.450 50.000 0.00 0.00 37.08 4.40
4293 6256 1.152440 AGCTCCCCCTGGATCTACG 60.152 63.158 0.00 0.00 40.80 3.51
4391 6355 5.699097 TTGTAGGTTTGCTTTGGTACATC 57.301 39.130 0.00 0.00 39.30 3.06
4392 6356 4.980573 TGTAGGTTTGCTTTGGTACATCT 58.019 39.130 0.00 0.00 39.30 2.90
4393 6357 5.381757 TGTAGGTTTGCTTTGGTACATCTT 58.618 37.500 0.00 0.00 39.30 2.40
4394 6358 5.830991 TGTAGGTTTGCTTTGGTACATCTTT 59.169 36.000 0.00 0.00 39.30 2.52
4395 6359 5.869649 AGGTTTGCTTTGGTACATCTTTT 57.130 34.783 0.00 0.00 39.30 2.27
4396 6360 6.233905 AGGTTTGCTTTGGTACATCTTTTT 57.766 33.333 0.00 0.00 39.30 1.94
4572 6536 5.305585 AGCCCAGATGTAATACGGTATTTG 58.694 41.667 17.74 9.90 0.00 2.32
4701 6665 8.642908 TGTAATTGTGACTAAATCGTCATAGG 57.357 34.615 0.00 0.00 44.84 2.57
4782 6747 8.399425 TGCAAACGTATTAACTCTTTCTTCAAA 58.601 29.630 0.00 0.00 0.00 2.69
4956 6921 2.356665 TACTTTCAGTTTGCTGGGCA 57.643 45.000 0.00 0.00 42.78 5.36
5061 7028 6.147821 GCACATAGTTGTAACAGTCAAGATGT 59.852 38.462 0.00 0.00 35.14 3.06
5160 7142 1.736126 CAGTCTGCCAGCACATAACAG 59.264 52.381 0.00 0.00 0.00 3.16
5267 7249 0.604780 GCTTGCTGAAGAGCTGGTCA 60.605 55.000 9.78 0.00 46.39 4.02
5280 7262 1.067060 GCTGGTCAAAGTTGTGGAACC 59.933 52.381 0.00 0.00 34.36 3.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 9.157104 TCGAGATAGCAAATTATGTTGTTACAA 57.843 29.630 0.00 0.00 37.91 2.41
1 2 8.710835 TCGAGATAGCAAATTATGTTGTTACA 57.289 30.769 0.00 0.00 38.95 2.41
24 25 1.736696 GCATGGCAAATTGAACCCTCG 60.737 52.381 0.00 0.00 0.00 4.63
33 34 5.405269 GTCGAGTTTTTAAGCATGGCAAATT 59.595 36.000 0.00 0.00 0.00 1.82
46 47 7.409661 CGCTACAAATCTAACGTCGAGTTTTTA 60.410 37.037 0.00 0.00 43.86 1.52
47 48 6.587651 GCTACAAATCTAACGTCGAGTTTTT 58.412 36.000 0.00 0.00 43.86 1.94
53 54 3.745332 TCGCTACAAATCTAACGTCGA 57.255 42.857 0.00 0.00 0.00 4.20
76 77 8.846211 CAGTTTCTAGTGGGAAAAACAAATAGA 58.154 33.333 5.56 0.00 37.02 1.98
78 79 7.430441 GCAGTTTCTAGTGGGAAAAACAAATA 58.570 34.615 5.56 0.00 37.02 1.40
96 97 5.296813 AGACATAACAATTCGGCAGTTTC 57.703 39.130 0.00 0.00 0.00 2.78
111 112 6.601613 AGTGGCAAAATCGGAATAAGACATAA 59.398 34.615 0.00 0.00 0.00 1.90
124 126 3.641437 TTCTTTGGAGTGGCAAAATCG 57.359 42.857 0.00 0.00 0.00 3.34
125 127 6.866010 ATTTTTCTTTGGAGTGGCAAAATC 57.134 33.333 0.00 0.00 0.00 2.17
186 188 8.677300 GTGGAAAATACATCTGATGCTTAAGAA 58.323 33.333 17.24 0.00 0.00 2.52
187 189 7.283127 GGTGGAAAATACATCTGATGCTTAAGA 59.717 37.037 17.24 0.00 0.00 2.10
225 1761 5.821995 TCAGAATCCGCATGACAATTATTGA 59.178 36.000 12.28 0.00 0.00 2.57
226 1762 6.063640 TCAGAATCCGCATGACAATTATTG 57.936 37.500 3.07 3.07 0.00 1.90
235 1771 0.464373 GGGCTTCAGAATCCGCATGA 60.464 55.000 0.00 0.00 0.00 3.07
237 1773 0.184451 ATGGGCTTCAGAATCCGCAT 59.816 50.000 7.36 7.36 0.00 4.73
238 1774 0.464373 GATGGGCTTCAGAATCCGCA 60.464 55.000 0.00 0.89 0.00 5.69
242 1778 7.396540 TTTTTCTAAGATGGGCTTCAGAATC 57.603 36.000 0.00 0.00 38.05 2.52
246 1782 7.121759 TCAAGATTTTTCTAAGATGGGCTTCAG 59.878 37.037 0.00 0.00 38.05 3.02
261 1797 7.223387 ACTGCACTTGTCAAATCAAGATTTTTC 59.777 33.333 12.38 3.38 45.11 2.29
263 1799 6.576185 ACTGCACTTGTCAAATCAAGATTTT 58.424 32.000 12.38 0.00 45.11 1.82
274 1810 8.389779 TCTGATATTTTTACTGCACTTGTCAA 57.610 30.769 0.00 0.00 0.00 3.18
284 1820 7.414540 GGTGAGGCTGTTCTGATATTTTTACTG 60.415 40.741 0.00 0.00 0.00 2.74
294 1830 0.035630 GCTGGTGAGGCTGTTCTGAT 60.036 55.000 0.00 0.00 0.00 2.90
324 1860 8.665685 GGACGAAATTATTGATAGAGTTTGTGT 58.334 33.333 0.00 0.00 0.00 3.72
375 1914 4.985409 GTCAGAGAAACGAGAAACTCATGT 59.015 41.667 0.00 0.00 32.59 3.21
376 1915 4.387256 GGTCAGAGAAACGAGAAACTCATG 59.613 45.833 0.00 0.00 32.59 3.07
380 1919 3.637229 TCAGGTCAGAGAAACGAGAAACT 59.363 43.478 0.00 0.00 0.00 2.66
385 1924 2.924454 GCTGTCAGGTCAGAGAAACGAG 60.924 54.545 1.14 0.00 37.61 4.18
457 1999 3.171705 GAGAGGTGATGTCGATCGC 57.828 57.895 11.09 6.41 38.23 4.58
469 2011 2.412323 TTACATCGCCGCGAGAGGT 61.412 57.895 21.61 21.09 39.91 3.85
587 2129 7.544566 TCAATCTATGTACGGACTGTTCTTTTC 59.455 37.037 0.00 0.00 0.00 2.29
588 2130 7.383687 TCAATCTATGTACGGACTGTTCTTTT 58.616 34.615 0.00 0.00 0.00 2.27
589 2131 6.931838 TCAATCTATGTACGGACTGTTCTTT 58.068 36.000 0.00 0.00 0.00 2.52
596 2140 4.797604 GCTGCATCAATCTATGTACGGACT 60.798 45.833 0.00 0.00 0.00 3.85
606 2150 0.394192 CCGGAGGCTGCATCAATCTA 59.606 55.000 16.67 0.00 46.14 1.98
632 2176 3.694072 GGTGTTGAAGCTACATAATGGCA 59.306 43.478 0.00 0.00 37.23 4.92
668 2212 4.862574 CACTTGCGAAATGCTACTGTACTA 59.137 41.667 0.00 0.00 46.63 1.82
671 2215 3.000041 CCACTTGCGAAATGCTACTGTA 59.000 45.455 0.00 0.00 46.63 2.74
684 2228 0.030638 CAAGGACAAACCCACTTGCG 59.969 55.000 0.00 0.00 40.05 4.85
719 2263 0.798776 GTGAGACACCAGCGGAAATG 59.201 55.000 1.50 0.00 0.00 2.32
720 2264 0.670546 CGTGAGACACCAGCGGAAAT 60.671 55.000 1.50 0.00 0.00 2.17
721 2265 1.300620 CGTGAGACACCAGCGGAAA 60.301 57.895 1.50 0.00 0.00 3.13
722 2266 2.142357 CTCGTGAGACACCAGCGGAA 62.142 60.000 1.50 0.00 35.39 4.30
723 2267 2.596338 TCGTGAGACACCAGCGGA 60.596 61.111 1.50 0.00 33.31 5.54
724 2268 2.126307 CTCGTGAGACACCAGCGG 60.126 66.667 0.00 0.00 35.39 5.52
725 2269 2.126307 CCTCGTGAGACACCAGCG 60.126 66.667 0.00 0.00 35.39 5.18
726 2270 2.433318 GCCTCGTGAGACACCAGC 60.433 66.667 0.00 0.00 35.39 4.85
754 2298 0.397941 TGGCTCAGAAGGTTCACAGG 59.602 55.000 0.00 0.00 0.00 4.00
757 2307 1.294659 CGCTGGCTCAGAAGGTTCAC 61.295 60.000 6.40 0.00 32.44 3.18
766 2316 0.809241 GAATCCTGTCGCTGGCTCAG 60.809 60.000 0.00 0.00 34.12 3.35
789 2345 6.019075 TGTTATCACTTCTGTTTCACGAGTTG 60.019 38.462 0.00 0.00 0.00 3.16
828 2384 2.985456 GGCTCCCAGGAGTCACAG 59.015 66.667 13.47 0.00 45.40 3.66
892 2454 5.847111 ATAGAGTAAATACACAGGTCGCA 57.153 39.130 0.00 0.00 0.00 5.10
1216 2782 5.293079 AGAAGAAGACGAAGCTATTTGCATC 59.707 40.000 0.00 0.00 45.94 3.91
1224 2790 9.878599 CAAAAATTAAAGAAGAAGACGAAGCTA 57.121 29.630 0.00 0.00 0.00 3.32
1231 2797 7.375017 TCGAACGCAAAAATTAAAGAAGAAGAC 59.625 33.333 0.00 0.00 0.00 3.01
1270 2934 2.941453 ATCACAGCGTTACGACTGAT 57.059 45.000 26.26 16.88 35.69 2.90
1391 3055 4.433805 GCGTACGTGAAAATTCCAGTAGTG 60.434 45.833 17.90 0.00 0.00 2.74
1392 3056 3.676646 GCGTACGTGAAAATTCCAGTAGT 59.323 43.478 17.90 0.00 0.00 2.73
1393 3057 3.061697 GGCGTACGTGAAAATTCCAGTAG 59.938 47.826 17.90 0.00 0.00 2.57
1394 3058 2.995258 GGCGTACGTGAAAATTCCAGTA 59.005 45.455 17.90 0.00 0.00 2.74
1395 3059 1.802365 GGCGTACGTGAAAATTCCAGT 59.198 47.619 17.90 0.00 0.00 4.00
1398 3062 0.095762 CCGGCGTACGTGAAAATTCC 59.904 55.000 17.90 5.69 42.24 3.01
1399 3063 0.095762 CCCGGCGTACGTGAAAATTC 59.904 55.000 17.90 0.00 42.24 2.17
1400 3064 0.603439 ACCCGGCGTACGTGAAAATT 60.603 50.000 17.90 0.00 42.24 1.82
1401 3065 1.004679 ACCCGGCGTACGTGAAAAT 60.005 52.632 17.90 0.00 42.24 1.82
1402 3066 1.955157 CACCCGGCGTACGTGAAAA 60.955 57.895 17.90 0.00 42.24 2.29
1403 3067 1.800283 TACACCCGGCGTACGTGAAA 61.800 55.000 17.90 9.28 42.24 2.69
1404 3068 1.800283 TTACACCCGGCGTACGTGAA 61.800 55.000 17.90 10.85 42.24 3.18
1405 3069 1.594194 ATTACACCCGGCGTACGTGA 61.594 55.000 17.90 6.42 42.24 4.35
1406 3070 1.153784 ATTACACCCGGCGTACGTG 60.154 57.895 17.90 11.59 42.24 4.49
1407 3071 1.153784 CATTACACCCGGCGTACGT 60.154 57.895 17.90 1.51 42.24 3.57
1408 3072 2.519175 GCATTACACCCGGCGTACG 61.519 63.158 11.84 11.84 43.80 3.67
1409 3073 1.149964 GAGCATTACACCCGGCGTAC 61.150 60.000 6.01 0.00 0.00 3.67
1410 3074 1.142314 GAGCATTACACCCGGCGTA 59.858 57.895 6.01 0.00 0.00 4.42
1411 3075 2.125269 GAGCATTACACCCGGCGT 60.125 61.111 6.01 0.00 0.00 5.68
1412 3076 1.429148 GAAGAGCATTACACCCGGCG 61.429 60.000 0.00 0.00 0.00 6.46
1413 3077 1.429148 CGAAGAGCATTACACCCGGC 61.429 60.000 0.00 0.00 0.00 6.13
1414 3078 2.677971 CGAAGAGCATTACACCCGG 58.322 57.895 0.00 0.00 0.00 5.73
1426 3090 1.725164 GTTTTACCACTCGGCGAAGAG 59.275 52.381 12.13 1.35 43.56 2.85
1427 3091 1.068895 TGTTTTACCACTCGGCGAAGA 59.931 47.619 12.13 0.00 34.57 2.87
1428 3092 1.193874 GTGTTTTACCACTCGGCGAAG 59.806 52.381 12.13 6.54 34.57 3.79
1429 3093 1.219646 GTGTTTTACCACTCGGCGAA 58.780 50.000 12.13 0.00 34.57 4.70
1430 3094 0.940519 CGTGTTTTACCACTCGGCGA 60.941 55.000 10.14 10.14 34.57 5.54
1431 3095 1.489824 CGTGTTTTACCACTCGGCG 59.510 57.895 0.00 0.00 34.57 6.46
1432 3096 1.864176 CCGTGTTTTACCACTCGGC 59.136 57.895 1.78 0.00 44.35 5.54
1434 3098 1.523934 GTGTCCGTGTTTTACCACTCG 59.476 52.381 0.00 0.00 33.07 4.18
1435 3099 2.798847 GAGTGTCCGTGTTTTACCACTC 59.201 50.000 0.00 0.00 38.23 3.51
1436 3100 2.168936 TGAGTGTCCGTGTTTTACCACT 59.831 45.455 0.00 0.00 33.71 4.00
1437 3101 2.542595 CTGAGTGTCCGTGTTTTACCAC 59.457 50.000 0.00 0.00 0.00 4.16
1438 3102 2.828877 CTGAGTGTCCGTGTTTTACCA 58.171 47.619 0.00 0.00 0.00 3.25
1439 3103 1.529865 GCTGAGTGTCCGTGTTTTACC 59.470 52.381 0.00 0.00 0.00 2.85
1440 3104 2.206750 TGCTGAGTGTCCGTGTTTTAC 58.793 47.619 0.00 0.00 0.00 2.01
1441 3105 2.605837 TGCTGAGTGTCCGTGTTTTA 57.394 45.000 0.00 0.00 0.00 1.52
1442 3106 1.745232 TTGCTGAGTGTCCGTGTTTT 58.255 45.000 0.00 0.00 0.00 2.43
1443 3107 1.670811 CTTTGCTGAGTGTCCGTGTTT 59.329 47.619 0.00 0.00 0.00 2.83
1444 3108 1.299541 CTTTGCTGAGTGTCCGTGTT 58.700 50.000 0.00 0.00 0.00 3.32
1445 3109 1.160329 GCTTTGCTGAGTGTCCGTGT 61.160 55.000 0.00 0.00 0.00 4.49
1446 3110 1.571460 GCTTTGCTGAGTGTCCGTG 59.429 57.895 0.00 0.00 0.00 4.94
1447 3111 1.956170 CGCTTTGCTGAGTGTCCGT 60.956 57.895 0.00 0.00 0.00 4.69
1448 3112 1.664649 TCGCTTTGCTGAGTGTCCG 60.665 57.895 0.00 0.00 0.00 4.79
1449 3113 1.569479 GGTCGCTTTGCTGAGTGTCC 61.569 60.000 2.37 2.37 0.00 4.02
1450 3114 0.601311 AGGTCGCTTTGCTGAGTGTC 60.601 55.000 0.00 0.00 0.00 3.67
1451 3115 0.679505 TAGGTCGCTTTGCTGAGTGT 59.320 50.000 0.00 0.00 0.00 3.55
1452 3116 2.015736 ATAGGTCGCTTTGCTGAGTG 57.984 50.000 0.00 0.00 0.00 3.51
1453 3117 2.770164 AATAGGTCGCTTTGCTGAGT 57.230 45.000 0.00 0.00 0.00 3.41
1454 3118 5.277538 GGAATTAATAGGTCGCTTTGCTGAG 60.278 44.000 0.00 0.00 0.00 3.35
1455 3119 4.574828 GGAATTAATAGGTCGCTTTGCTGA 59.425 41.667 0.00 0.00 0.00 4.26
1456 3120 4.576463 AGGAATTAATAGGTCGCTTTGCTG 59.424 41.667 0.00 0.00 0.00 4.41
1457 3121 4.576463 CAGGAATTAATAGGTCGCTTTGCT 59.424 41.667 0.00 0.00 0.00 3.91
1458 3122 4.574828 TCAGGAATTAATAGGTCGCTTTGC 59.425 41.667 0.00 0.00 0.00 3.68
1459 3123 6.867662 ATCAGGAATTAATAGGTCGCTTTG 57.132 37.500 0.00 0.00 0.00 2.77
1460 3124 8.211629 AGTAATCAGGAATTAATAGGTCGCTTT 58.788 33.333 0.00 0.00 31.65 3.51
1461 3125 7.736893 AGTAATCAGGAATTAATAGGTCGCTT 58.263 34.615 0.00 0.00 31.65 4.68
1462 3126 7.304497 AGTAATCAGGAATTAATAGGTCGCT 57.696 36.000 0.00 0.00 31.65 4.93
1547 3212 1.079127 ATGGCTGTGTGGAGCGTAC 60.079 57.895 0.00 0.00 40.13 3.67
1554 3219 2.198827 TTTGGTAGATGGCTGTGTGG 57.801 50.000 0.00 0.00 0.00 4.17
1598 3263 9.787435 ATCCTAACTGAAAAGTACACATACAAA 57.213 29.630 0.00 0.00 33.30 2.83
1643 3308 7.114095 TCTTCTAGTCTCTCTAACCTTCTTCC 58.886 42.308 0.00 0.00 0.00 3.46
1737 3402 2.601367 GCAGGCAAAGGCAAGGGA 60.601 61.111 0.00 0.00 43.71 4.20
1839 3504 1.270550 CCAGCAAAATGCCGGGATATC 59.729 52.381 9.63 0.00 46.52 1.63
1959 3624 3.120130 CCTCTCACACGAGACTCTACAAC 60.120 52.174 0.03 0.00 43.55 3.32
2111 3780 8.083462 GCGAGACTAGCTAAAAGGAAATAGTAT 58.917 37.037 0.00 0.00 0.00 2.12
2112 3781 7.424001 GCGAGACTAGCTAAAAGGAAATAGTA 58.576 38.462 0.00 0.00 0.00 1.82
2113 3782 6.274579 GCGAGACTAGCTAAAAGGAAATAGT 58.725 40.000 0.00 0.00 0.00 2.12
2184 3853 7.882271 AGAATAAATAGATGCTAAGCTTCCCTG 59.118 37.037 0.00 0.00 33.95 4.45
2185 3854 7.983363 AGAATAAATAGATGCTAAGCTTCCCT 58.017 34.615 0.00 0.00 33.95 4.20
2240 4101 4.803098 TTTCAGGTGAGGAGTTAGTAGC 57.197 45.455 0.00 0.00 0.00 3.58
2298 4159 0.173481 TCAGATGAACGGAGGCTTCG 59.827 55.000 14.98 14.98 0.00 3.79
2374 4235 3.032017 ACTGTCCAGAATCAACTCGTG 57.968 47.619 0.40 0.00 0.00 4.35
2421 4282 7.038659 CCTTACTAGATCTCAGTTGTTCCTTG 58.961 42.308 0.00 0.00 0.00 3.61
2453 4314 5.413309 CTCTCTTAGGAGTGGTGTCAATT 57.587 43.478 1.31 0.00 40.29 2.32
2489 4350 4.986054 TGTGGGTACAAGTATGTTTCCT 57.014 40.909 0.00 0.00 41.05 3.36
2513 4376 8.212259 ACACATCCTAAGGCTATCTATGAAAT 57.788 34.615 6.78 0.00 0.00 2.17
2584 4447 8.978539 CGACAAATAAGCATAAATAGAGCTACA 58.021 33.333 0.00 0.00 37.70 2.74
2873 4820 3.394274 TGCCAAGGCCTGCTTAAGATATA 59.606 43.478 5.69 0.00 41.09 0.86
3087 5037 5.977883 TTGTCGTGCAAAAGGTAACTGGTC 61.978 45.833 0.00 0.00 39.11 4.02
3369 5319 5.258841 TCGGAGTAGTACTGAATTTCCTCA 58.741 41.667 7.76 0.00 0.00 3.86
3719 5673 2.358898 CTCCGTAATCTTTGGCCCAATG 59.641 50.000 0.00 0.00 0.00 2.82
3879 5834 6.402226 GGAAATTCAAGACGCGTTTATCTCTT 60.402 38.462 15.53 8.14 0.00 2.85
3961 5924 8.270080 TCTACAACAACATAGTCAACAACAAA 57.730 30.769 0.00 0.00 0.00 2.83
4000 5963 7.328737 AGCAGAGATACGCTATTTATTTTACCG 59.671 37.037 0.00 0.00 36.50 4.02
4060 6023 0.962855 GCAACTCTTTCCTGGCCTCC 60.963 60.000 3.32 0.00 0.00 4.30
4138 6101 2.800881 TGCATAGTCTAGGCATGACG 57.199 50.000 14.96 0.00 40.93 4.35
4286 6249 0.818445 TCGAGACCAGGGCGTAGATC 60.818 60.000 0.00 0.00 0.00 2.75
4293 6256 1.079750 GACAAGTCGAGACCAGGGC 60.080 63.158 0.00 0.00 0.00 5.19
4572 6536 5.796350 ACATTACGTTTCCTCATTAGTGC 57.204 39.130 0.00 0.00 0.00 4.40
4701 6665 6.238593 GCCTTCTCAGATGGATTGACATTTAC 60.239 42.308 10.89 0.00 0.00 2.01
4782 6747 4.009675 ACACGCATCACTTGAAATACCAT 58.990 39.130 0.00 0.00 0.00 3.55
4830 6795 8.518430 TGGAATATTTGGATTCGAAGAATTGA 57.482 30.769 3.35 0.00 45.90 2.57
4833 6798 8.292444 TGTTGGAATATTTGGATTCGAAGAAT 57.708 30.769 3.35 4.31 45.90 2.40
4841 6806 7.507797 TTTGGGATGTTGGAATATTTGGATT 57.492 32.000 0.00 0.00 0.00 3.01
4950 6915 2.833338 TCTGGAATTCCATTTTGCCCAG 59.167 45.455 27.20 12.37 46.46 4.45
4956 6921 6.423776 TCAAAGCTTCTGGAATTCCATTTT 57.576 33.333 27.20 17.75 46.46 1.82
5125 7093 4.057432 GCAGACTGAGGCATAAGATCTTC 58.943 47.826 12.24 0.00 0.00 2.87
5160 7142 3.119849 GGACCATACAAAGCACACATCAC 60.120 47.826 0.00 0.00 0.00 3.06
5204 7186 8.865090 ACACATAATAATCAGGGTTTCAACAAA 58.135 29.630 0.00 0.00 0.00 2.83
5207 7189 7.754924 CACACACATAATAATCAGGGTTTCAAC 59.245 37.037 0.00 0.00 0.00 3.18
5209 7191 6.945435 ACACACACATAATAATCAGGGTTTCA 59.055 34.615 0.00 0.00 0.00 2.69
5280 7262 1.795286 GCTGACTTCGTCAACCTTCAG 59.205 52.381 0.00 0.00 42.26 3.02
5299 7281 1.348594 GATAGCGAGGCGTTTGTGC 59.651 57.895 0.00 0.00 0.00 4.57


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

AutoCloner maintained by Alex Coulton.