Multiple sequence alignment - TraesCS7B01G001400

Loading Multiple Alignment...

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 TraesCS7B01G001400 chr7B 100.000 3694 0 0 1 3694 420851 424544 0.000000e+00 6822.0
1 TraesCS7B01G001400 chr7B 81.481 297 28 20 3128 3401 423890 424182 6.210000e-53 219.0
2 TraesCS7B01G001400 chr7B 81.481 297 28 20 3040 3332 423978 424251 6.210000e-53 219.0
3 TraesCS7B01G001400 chr7B 90.000 170 12 1 3363 3527 423978 424147 8.030000e-52 215.0
4 TraesCS7B01G001400 chr7B 90.000 170 12 1 3128 3297 424213 424377 8.030000e-52 215.0
5 TraesCS7B01G001400 chr7B 85.849 106 9 4 3424 3524 424112 424216 1.400000e-19 108.0
6 TraesCS7B01G001400 chr7B 85.849 106 9 4 3262 3366 424274 424374 1.400000e-19 108.0
7 TraesCS7B01G001400 chr5D 90.271 2621 118 75 682 3260 562102730 562100205 0.000000e+00 3301.0
8 TraesCS7B01G001400 chr5D 88.475 295 9 7 3334 3627 562100177 562099907 2.130000e-87 333.0
9 TraesCS7B01G001400 chr5D 80.845 355 19 25 3040 3357 562100337 562099995 2.220000e-57 233.0
10 TraesCS7B01G001400 chr5D 88.360 189 10 3 3104 3285 562100178 562099995 2.230000e-52 217.0
11 TraesCS7B01G001400 chr5D 86.145 166 14 5 3334 3490 562100274 562100109 1.760000e-38 171.0
12 TraesCS7B01G001400 chr5D 82.209 163 23 4 3334 3490 562100367 562100205 6.430000e-28 135.0
13 TraesCS7B01G001400 chr5D 88.406 69 5 2 3628 3694 562099805 562099738 3.060000e-11 80.5
14 TraesCS7B01G001400 chr5B 92.254 1278 41 18 1987 3257 712696676 712697902 0.000000e+00 1759.0
15 TraesCS7B01G001400 chr5B 95.620 274 6 3 942 1215 712695878 712696145 5.670000e-118 435.0
16 TraesCS7B01G001400 chr5B 93.396 212 14 0 1498 1709 712696419 712696630 7.700000e-82 315.0
17 TraesCS7B01G001400 chr5B 89.076 238 18 5 3460 3694 712698301 712698533 4.670000e-74 289.0
18 TraesCS7B01G001400 chr5B 92.903 155 6 1 1224 1378 712696190 712696339 1.730000e-53 220.0
19 TraesCS7B01G001400 chr5B 93.056 144 7 2 3334 3474 712697837 712697980 1.340000e-49 207.0
20 TraesCS7B01G001400 chr5B 85.185 189 9 9 3057 3232 712697791 712697973 3.790000e-40 176.0
21 TraesCS7B01G001400 chr5B 90.756 119 9 1 3371 3487 712697784 712697902 1.370000e-34 158.0
22 TraesCS7B01G001400 chr5B 80.435 138 9 12 2942 3072 712698197 712698323 5.080000e-14 89.8
23 TraesCS7B01G001400 chr7D 94.667 675 29 4 1 671 37281016 37281687 0.000000e+00 1040.0
24 TraesCS7B01G001400 chr7D 93.481 675 36 4 1 671 602282826 602283496 0.000000e+00 996.0
25 TraesCS7B01G001400 chr7D 93.205 677 36 7 1 671 75161170 75161842 0.000000e+00 987.0
26 TraesCS7B01G001400 chr2D 93.510 678 32 7 1 671 370188447 370187775 0.000000e+00 998.0
27 TraesCS7B01G001400 chr2D 94.207 656 30 5 1 652 648149693 648150344 0.000000e+00 994.0
28 TraesCS7B01G001400 chr1D 93.481 675 34 6 1 671 61781235 61780567 0.000000e+00 994.0
29 TraesCS7B01G001400 chr6A 93.481 675 33 7 1 671 107047690 107047023 0.000000e+00 992.0
30 TraesCS7B01G001400 chr7A 93.195 676 37 6 1 671 168463338 168464009 0.000000e+00 985.0
31 TraesCS7B01G001400 chr5A 93.505 662 35 6 11 671 544022539 544023193 0.000000e+00 977.0


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 TraesCS7B01G001400 chr7B 420851 424544 3693 False 1129.428571 6822 87.808571 1 3694 7 chr7B.!!$F1 3693
1 TraesCS7B01G001400 chr5D 562099738 562102730 2992 True 638.642857 3301 86.387286 682 3694 7 chr5D.!!$R1 3012
2 TraesCS7B01G001400 chr5B 712695878 712698533 2655 False 405.422222 1759 90.297889 942 3694 9 chr5B.!!$F1 2752
3 TraesCS7B01G001400 chr7D 37281016 37281687 671 False 1040.000000 1040 94.667000 1 671 1 chr7D.!!$F1 670
4 TraesCS7B01G001400 chr7D 602282826 602283496 670 False 996.000000 996 93.481000 1 671 1 chr7D.!!$F3 670
5 TraesCS7B01G001400 chr7D 75161170 75161842 672 False 987.000000 987 93.205000 1 671 1 chr7D.!!$F2 670
6 TraesCS7B01G001400 chr2D 370187775 370188447 672 True 998.000000 998 93.510000 1 671 1 chr2D.!!$R1 670
7 TraesCS7B01G001400 chr2D 648149693 648150344 651 False 994.000000 994 94.207000 1 652 1 chr2D.!!$F1 651
8 TraesCS7B01G001400 chr1D 61780567 61781235 668 True 994.000000 994 93.481000 1 671 1 chr1D.!!$R1 670
9 TraesCS7B01G001400 chr6A 107047023 107047690 667 True 992.000000 992 93.481000 1 671 1 chr6A.!!$R1 670
10 TraesCS7B01G001400 chr7A 168463338 168464009 671 False 985.000000 985 93.195000 1 671 1 chr7A.!!$F1 670
11 TraesCS7B01G001400 chr5A 544022539 544023193 654 False 977.000000 977 93.505000 11 671 1 chr5A.!!$F1 660

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
33 37 0.699399 AGTCGGAGTGGAAGGAGAGA 59.301 55.0 0.0 0.0 0.00 3.10 F
1413 1476 0.254462 CTTCCTCTTGCTCTTCCCCC 59.746 60.0 0.0 0.0 0.00 5.40 F
1625 1707 0.179124 AGCTCGCCATTCTCGAAGAC 60.179 55.0 0.0 0.0 35.38 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1415 1478 0.316937 AAAATCTGTGTGTGCGTGCG 60.317 50.0 0.0 0.0 0.0 5.34 R
2502 2598 0.172352 CTCTCTCTGTCACGGCTTCC 59.828 60.0 0.0 0.0 0.0 3.46 R
3184 3295 0.396811 CTGTTTCTTCCAGGTCCGGT 59.603 55.0 0.0 0.0 0.0 5.28 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 37 0.699399 AGTCGGAGTGGAAGGAGAGA 59.301 55.000 0.00 0.00 0.00 3.10
84 94 2.604046 AACCCGAAGATCTCATTCCG 57.396 50.000 0.00 0.00 0.00 4.30
90 100 4.034510 CCCGAAGATCTCATTCCGAAAAAG 59.965 45.833 0.00 0.00 0.00 2.27
123 134 1.635487 TGGAGGGGTGATTTCCTTCAG 59.365 52.381 0.00 0.00 33.91 3.02
124 135 1.683319 GGAGGGGTGATTTCCTTCAGC 60.683 57.143 0.00 0.00 42.11 4.26
126 137 1.428912 AGGGGTGATTTCCTTCAGCAA 59.571 47.619 6.06 0.00 44.08 3.91
137 148 3.214328 TCCTTCAGCAAGTGGAAAAGAC 58.786 45.455 0.00 0.00 0.00 3.01
533 547 7.896274 CGTGATTTGTTATACGTTAGGAAAGTG 59.104 37.037 0.00 0.00 0.00 3.16
658 673 3.444388 GGAGACTATTCACCAACTCGTCT 59.556 47.826 0.00 0.00 32.87 4.18
758 773 5.738619 AATTGGGTAATTGGACTTGGAAC 57.261 39.130 0.00 0.00 35.26 3.62
800 815 4.624913 TGGGCCCAAATAACAATTATCCA 58.375 39.130 26.33 0.00 0.00 3.41
801 816 5.032846 TGGGCCCAAATAACAATTATCCAA 58.967 37.500 26.33 0.00 0.00 3.53
802 817 5.130145 TGGGCCCAAATAACAATTATCCAAG 59.870 40.000 26.33 0.00 0.00 3.61
803 818 5.365314 GGGCCCAAATAACAATTATCCAAGA 59.635 40.000 19.95 0.00 0.00 3.02
820 835 1.758122 GAAATCCAATGGCCGGCCT 60.758 57.895 43.34 27.34 36.94 5.19
821 836 2.019897 GAAATCCAATGGCCGGCCTG 62.020 60.000 43.34 33.51 36.94 4.85
826 841 4.684134 AATGGCCGGCCTGCACTT 62.684 61.111 43.34 25.32 36.94 3.16
827 842 4.684134 ATGGCCGGCCTGCACTTT 62.684 61.111 43.34 17.91 36.94 2.66
847 862 6.314896 CACTTTTCTCTCTCTCTCTCTCTCTC 59.685 46.154 0.00 0.00 0.00 3.20
873 888 2.977772 ATTTCTTCCTCTGGCTCTCG 57.022 50.000 0.00 0.00 0.00 4.04
875 890 0.891373 TTCTTCCTCTGGCTCTCGTG 59.109 55.000 0.00 0.00 0.00 4.35
885 901 2.581354 CTCTCGTGCCTTCCCCAG 59.419 66.667 0.00 0.00 0.00 4.45
895 911 1.279496 CCTTCCCCAGACATCTCACA 58.721 55.000 0.00 0.00 0.00 3.58
897 913 1.625315 CTTCCCCAGACATCTCACACA 59.375 52.381 0.00 0.00 0.00 3.72
951 973 2.289945 GGAGATCCCTCGATTGGATTGG 60.290 54.545 15.55 0.00 42.69 3.16
1222 1285 6.153851 GGCCCTAAAGCAAAGGTTTTTATCTA 59.846 38.462 0.00 0.00 34.94 1.98
1286 1349 7.131907 TCCTAATCCTAACCAAATCGATGAA 57.868 36.000 0.00 0.00 0.00 2.57
1287 1350 7.745717 TCCTAATCCTAACCAAATCGATGAAT 58.254 34.615 0.00 0.00 0.00 2.57
1288 1351 7.661437 TCCTAATCCTAACCAAATCGATGAATG 59.339 37.037 0.00 0.00 0.00 2.67
1289 1352 7.445402 CCTAATCCTAACCAAATCGATGAATGT 59.555 37.037 0.00 0.00 0.00 2.71
1290 1353 7.645058 AATCCTAACCAAATCGATGAATGTT 57.355 32.000 0.00 3.51 0.00 2.71
1348 1411 0.914417 TCCTCCCCAAATTCGAGGCT 60.914 55.000 0.00 0.00 42.54 4.58
1382 1445 2.164865 CTGCGAGAGGCTGGTCTGTT 62.165 60.000 0.00 0.00 44.05 3.16
1384 1447 1.016653 GCGAGAGGCTGGTCTGTTTC 61.017 60.000 0.00 0.00 39.11 2.78
1386 1449 0.980423 GAGAGGCTGGTCTGTTTCCT 59.020 55.000 0.00 0.00 0.00 3.36
1398 1461 4.320023 GTCTGTTTCCTTCTTCCTCTTCC 58.680 47.826 0.00 0.00 0.00 3.46
1401 1464 4.235372 TGTTTCCTTCTTCCTCTTCCTCT 58.765 43.478 0.00 0.00 0.00 3.69
1402 1465 4.660771 TGTTTCCTTCTTCCTCTTCCTCTT 59.339 41.667 0.00 0.00 0.00 2.85
1403 1466 4.899352 TTCCTTCTTCCTCTTCCTCTTG 57.101 45.455 0.00 0.00 0.00 3.02
1404 1467 2.569404 TCCTTCTTCCTCTTCCTCTTGC 59.431 50.000 0.00 0.00 0.00 4.01
1405 1468 2.571202 CCTTCTTCCTCTTCCTCTTGCT 59.429 50.000 0.00 0.00 0.00 3.91
1406 1469 3.369366 CCTTCTTCCTCTTCCTCTTGCTC 60.369 52.174 0.00 0.00 0.00 4.26
1407 1470 3.182887 TCTTCCTCTTCCTCTTGCTCT 57.817 47.619 0.00 0.00 0.00 4.09
1408 1471 3.515562 TCTTCCTCTTCCTCTTGCTCTT 58.484 45.455 0.00 0.00 0.00 2.85
1409 1472 3.513515 TCTTCCTCTTCCTCTTGCTCTTC 59.486 47.826 0.00 0.00 0.00 2.87
1410 1473 2.183679 TCCTCTTCCTCTTGCTCTTCC 58.816 52.381 0.00 0.00 0.00 3.46
1411 1474 1.209261 CCTCTTCCTCTTGCTCTTCCC 59.791 57.143 0.00 0.00 0.00 3.97
1412 1475 1.209261 CTCTTCCTCTTGCTCTTCCCC 59.791 57.143 0.00 0.00 0.00 4.81
1413 1476 0.254462 CTTCCTCTTGCTCTTCCCCC 59.746 60.000 0.00 0.00 0.00 5.40
1434 1497 0.316937 CGCACGCACACACAGATTTT 60.317 50.000 0.00 0.00 0.00 1.82
1444 1507 5.620654 GCACACACAGATTTTGCATCTACAT 60.621 40.000 0.00 0.00 33.24 2.29
1446 1509 7.680350 GCACACACAGATTTTGCATCTACATAT 60.680 37.037 0.00 0.00 33.24 1.78
1447 1510 7.642586 CACACACAGATTTTGCATCTACATATG 59.357 37.037 0.00 0.00 0.00 1.78
1448 1511 7.337689 ACACACAGATTTTGCATCTACATATGT 59.662 33.333 13.93 13.93 0.00 2.29
1452 1526 9.577110 ACAGATTTTGCATCTACATATGTTTTG 57.423 29.630 14.77 10.32 0.00 2.44
1495 1569 9.790344 CCAGATTCCAACATATATCTCTTTCTT 57.210 33.333 0.00 0.00 0.00 2.52
1625 1707 0.179124 AGCTCGCCATTCTCGAAGAC 60.179 55.000 0.00 0.00 35.38 3.01
1691 1773 1.513158 CAAGATCGACGAGGCCACT 59.487 57.895 5.01 0.00 0.00 4.00
1709 1791 0.809241 CTGCGCTCATGAGGAAGGTC 60.809 60.000 23.89 5.34 0.00 3.85
1710 1792 1.522580 GCGCTCATGAGGAAGGTCC 60.523 63.158 23.89 4.62 36.58 4.46
1719 1801 4.703703 GGAAGGTCCTGCACAGAC 57.296 61.111 0.00 3.90 32.53 3.51
1720 1802 1.003233 GGAAGGTCCTGCACAGACC 60.003 63.158 19.40 19.40 39.18 3.85
1721 1803 1.003233 GAAGGTCCTGCACAGACCC 60.003 63.158 22.13 8.88 39.70 4.46
1722 1804 1.462238 AAGGTCCTGCACAGACCCT 60.462 57.895 22.13 10.99 39.70 4.34
1831 1913 0.247145 CGTTGGCGTGCTTTCGATAC 60.247 55.000 0.00 0.00 0.00 2.24
2094 2179 1.043116 CGGCTCTGACCCACCAGATA 61.043 60.000 0.00 0.00 41.79 1.98
2214 2299 1.459455 CCCATGTCACCGGCAAACAA 61.459 55.000 0.00 0.00 0.00 2.83
2266 2351 1.274167 TCGCCGAATACAAGGTCAGTT 59.726 47.619 0.00 0.00 0.00 3.16
2267 2352 1.393539 CGCCGAATACAAGGTCAGTTG 59.606 52.381 0.00 0.00 0.00 3.16
2268 2353 2.423577 GCCGAATACAAGGTCAGTTGT 58.576 47.619 0.00 0.00 43.22 3.32
2269 2354 3.592059 GCCGAATACAAGGTCAGTTGTA 58.408 45.455 0.00 0.00 44.86 2.41
2270 2355 3.998341 GCCGAATACAAGGTCAGTTGTAA 59.002 43.478 0.87 0.00 44.15 2.41
2271 2356 4.142966 GCCGAATACAAGGTCAGTTGTAAC 60.143 45.833 0.87 0.00 44.15 2.50
2272 2357 5.235516 CCGAATACAAGGTCAGTTGTAACT 58.764 41.667 0.87 0.00 44.15 2.24
2273 2358 6.392354 CCGAATACAAGGTCAGTTGTAACTA 58.608 40.000 0.87 0.00 44.15 2.24
2274 2359 6.530534 CCGAATACAAGGTCAGTTGTAACTAG 59.469 42.308 0.87 0.00 44.15 2.57
2675 2771 4.316823 AGCAGGTCCCGGTCTCCA 62.317 66.667 0.00 0.00 0.00 3.86
2758 2854 5.124457 GCTCCTTTGCTTATTCATTCAGTCA 59.876 40.000 0.00 0.00 0.00 3.41
2829 2925 4.022849 AGCAGCTCTTTGTTGAAACCATAC 60.023 41.667 0.00 0.00 0.00 2.39
2830 2926 4.798574 CAGCTCTTTGTTGAAACCATACC 58.201 43.478 0.00 0.00 0.00 2.73
2889 2985 3.910627 ACAGAGGAAGGTACCATCTGTTT 59.089 43.478 24.78 8.47 41.15 2.83
3132 3234 5.221581 TGGAAGAAACACTAGACAGGTAACC 60.222 44.000 0.00 0.00 37.17 2.85
3134 3236 5.725325 AGAAACACTAGACAGGTAACCTC 57.275 43.478 0.00 0.00 37.17 3.85
3135 3237 4.527427 AGAAACACTAGACAGGTAACCTCC 59.473 45.833 0.00 0.00 37.17 4.30
3181 3292 9.167311 GATTGATGATATATACAAGGTTGGGTC 57.833 37.037 0.00 0.00 0.00 4.46
3184 3295 5.149239 TGATATATACAAGGTTGGGTCGGA 58.851 41.667 0.00 0.00 0.00 4.55
3185 3296 3.832615 ATATACAAGGTTGGGTCGGAC 57.167 47.619 0.00 0.00 0.00 4.79
3203 3314 0.396811 ACCGGACCTGGAAGAAACAG 59.603 55.000 9.46 0.00 34.07 3.16
3207 3318 2.353803 CGGACCTGGAAGAAACAGTAGG 60.354 54.545 0.00 0.00 34.07 3.18
3208 3319 2.904434 GGACCTGGAAGAAACAGTAGGA 59.096 50.000 0.00 0.00 34.07 2.94
3216 3327 5.221783 TGGAAGAAACAGTAGGAAGGTAACC 60.222 44.000 0.00 0.00 37.17 2.85
3222 3333 3.511540 ACAGTAGGAAGGTAACCCGTAAC 59.488 47.826 0.00 0.00 35.12 2.50
3227 3338 1.901833 GAAGGTAACCCGTAACCTCCA 59.098 52.381 0.00 0.00 45.51 3.86
3236 3347 4.812653 ACCCGTAACCTCCATCTTATACT 58.187 43.478 0.00 0.00 0.00 2.12
3237 3348 5.957132 ACCCGTAACCTCCATCTTATACTA 58.043 41.667 0.00 0.00 0.00 1.82
3238 3349 5.772169 ACCCGTAACCTCCATCTTATACTAC 59.228 44.000 0.00 0.00 0.00 2.73
3239 3350 5.771666 CCCGTAACCTCCATCTTATACTACA 59.228 44.000 0.00 0.00 0.00 2.74
3240 3351 6.436532 CCCGTAACCTCCATCTTATACTACAT 59.563 42.308 0.00 0.00 0.00 2.29
3241 3352 7.313646 CCGTAACCTCCATCTTATACTACATG 58.686 42.308 0.00 0.00 0.00 3.21
3243 3354 8.358148 CGTAACCTCCATCTTATACTACATGTT 58.642 37.037 2.30 0.00 0.00 2.71
3261 3372 9.650371 CTACATGTTAAAATGGTTGATGATACG 57.350 33.333 2.30 0.00 31.46 3.06
3262 3373 8.275015 ACATGTTAAAATGGTTGATGATACGA 57.725 30.769 10.41 0.00 31.46 3.43
3263 3374 8.181573 ACATGTTAAAATGGTTGATGATACGAC 58.818 33.333 10.41 0.00 31.46 4.34
3264 3375 7.079182 TGTTAAAATGGTTGATGATACGACC 57.921 36.000 0.00 0.00 42.82 4.79
3265 3376 6.882140 TGTTAAAATGGTTGATGATACGACCT 59.118 34.615 0.00 0.00 42.91 3.85
3266 3377 5.818136 AAAATGGTTGATGATACGACCTG 57.182 39.130 0.00 0.00 42.91 4.00
3269 3380 1.760613 GGTTGATGATACGACCTGGGA 59.239 52.381 0.00 0.00 40.23 4.37
3270 3381 2.224066 GGTTGATGATACGACCTGGGAG 60.224 54.545 0.00 0.00 40.23 4.30
3271 3382 2.693591 GTTGATGATACGACCTGGGAGA 59.306 50.000 0.00 0.00 0.00 3.71
3272 3383 3.026707 TGATGATACGACCTGGGAGAA 57.973 47.619 0.00 0.00 0.00 2.87
3273 3384 2.693591 TGATGATACGACCTGGGAGAAC 59.306 50.000 0.00 0.00 0.00 3.01
3274 3385 2.225382 TGATACGACCTGGGAGAACA 57.775 50.000 0.00 0.00 0.00 3.18
3275 3386 2.100197 TGATACGACCTGGGAGAACAG 58.900 52.381 0.00 0.00 38.21 3.16
3276 3387 2.100989 GATACGACCTGGGAGAACAGT 58.899 52.381 0.00 0.00 36.75 3.55
3277 3388 2.885135 TACGACCTGGGAGAACAGTA 57.115 50.000 0.00 0.00 36.75 2.74
3278 3389 1.546961 ACGACCTGGGAGAACAGTAG 58.453 55.000 0.00 0.00 36.75 2.57
3279 3390 0.818296 CGACCTGGGAGAACAGTAGG 59.182 60.000 0.00 0.00 36.75 3.18
3280 3391 1.616187 CGACCTGGGAGAACAGTAGGA 60.616 57.143 0.00 0.00 36.75 2.94
3281 3392 2.537143 GACCTGGGAGAACAGTAGGAA 58.463 52.381 0.00 0.00 36.75 3.36
3283 3394 1.834263 CCTGGGAGAACAGTAGGAAGG 59.166 57.143 0.00 0.00 36.75 3.46
3284 3395 2.541466 CTGGGAGAACAGTAGGAAGGT 58.459 52.381 0.00 0.00 33.81 3.50
3285 3396 3.565890 CCTGGGAGAACAGTAGGAAGGTA 60.566 52.174 0.00 0.00 36.75 3.08
3286 3397 4.094476 CTGGGAGAACAGTAGGAAGGTAA 58.906 47.826 0.00 0.00 33.81 2.85
3287 3398 3.836562 TGGGAGAACAGTAGGAAGGTAAC 59.163 47.826 0.00 0.00 0.00 2.50
3288 3399 3.197333 GGGAGAACAGTAGGAAGGTAACC 59.803 52.174 0.00 0.00 37.17 2.85
3290 3401 2.830321 AGAACAGTAGGAAGGTAACCCG 59.170 50.000 0.00 0.00 35.12 5.28
3292 3403 3.456380 ACAGTAGGAAGGTAACCCGTA 57.544 47.619 0.00 0.00 35.12 4.02
3293 3404 3.778265 ACAGTAGGAAGGTAACCCGTAA 58.222 45.455 0.00 0.00 35.12 3.18
3294 3405 3.511540 ACAGTAGGAAGGTAACCCGTAAC 59.488 47.826 0.00 0.00 35.12 2.50
3295 3406 3.099905 AGTAGGAAGGTAACCCGTAACC 58.900 50.000 0.00 0.00 35.12 2.85
3297 3408 2.182827 AGGAAGGTAACCCGTAACCTC 58.817 52.381 0.00 0.00 45.51 3.85
3298 3409 1.208052 GGAAGGTAACCCGTAACCTCC 59.792 57.143 0.00 0.00 45.51 4.30
3299 3410 1.901833 GAAGGTAACCCGTAACCTCCA 59.098 52.381 0.00 0.00 45.51 3.86
3300 3411 2.259014 AGGTAACCCGTAACCTCCAT 57.741 50.000 0.00 0.00 42.60 3.41
3301 3412 2.113807 AGGTAACCCGTAACCTCCATC 58.886 52.381 0.00 0.00 42.60 3.51
3302 3413 2.113807 GGTAACCCGTAACCTCCATCT 58.886 52.381 0.00 0.00 32.72 2.90
3303 3414 2.502947 GGTAACCCGTAACCTCCATCTT 59.497 50.000 0.00 0.00 32.72 2.40
3304 3415 3.706086 GGTAACCCGTAACCTCCATCTTA 59.294 47.826 0.00 0.00 32.72 2.10
3305 3416 4.346127 GGTAACCCGTAACCTCCATCTTAT 59.654 45.833 0.00 0.00 32.72 1.73
3306 3417 5.539955 GGTAACCCGTAACCTCCATCTTATA 59.460 44.000 0.00 0.00 32.72 0.98
3307 3418 5.541953 AACCCGTAACCTCCATCTTATAC 57.458 43.478 0.00 0.00 0.00 1.47
3308 3419 4.812653 ACCCGTAACCTCCATCTTATACT 58.187 43.478 0.00 0.00 0.00 2.12
3309 3420 5.957132 ACCCGTAACCTCCATCTTATACTA 58.043 41.667 0.00 0.00 0.00 1.82
3310 3421 5.772169 ACCCGTAACCTCCATCTTATACTAC 59.228 44.000 0.00 0.00 0.00 2.73
3311 3422 5.771666 CCCGTAACCTCCATCTTATACTACA 59.228 44.000 0.00 0.00 0.00 2.74
3312 3423 6.436532 CCCGTAACCTCCATCTTATACTACAT 59.563 42.308 0.00 0.00 0.00 2.29
3313 3424 7.313646 CCGTAACCTCCATCTTATACTACATG 58.686 42.308 0.00 0.00 0.00 3.21
3314 3425 7.039923 CCGTAACCTCCATCTTATACTACATGT 60.040 40.741 2.69 2.69 0.00 3.21
3315 3426 8.358148 CGTAACCTCCATCTTATACTACATGTT 58.642 37.037 2.30 0.00 0.00 2.71
3333 3444 9.650371 CTACATGTTAAAATGGTTGATGATACG 57.350 33.333 2.30 0.00 31.46 3.06
3334 3445 8.275015 ACATGTTAAAATGGTTGATGATACGA 57.725 30.769 10.41 0.00 31.46 3.43
3335 3446 8.181573 ACATGTTAAAATGGTTGATGATACGAC 58.818 33.333 10.41 0.00 31.46 4.34
3336 3447 7.079182 TGTTAAAATGGTTGATGATACGACC 57.921 36.000 0.00 0.00 42.82 4.79
3337 3448 6.882140 TGTTAAAATGGTTGATGATACGACCT 59.118 34.615 0.00 0.00 42.91 3.85
3338 3449 5.818136 AAAATGGTTGATGATACGACCTG 57.182 39.130 0.00 0.00 42.91 4.00
3339 3450 2.979814 TGGTTGATGATACGACCTGG 57.020 50.000 0.00 0.00 42.91 4.45
3340 3451 1.484653 TGGTTGATGATACGACCTGGG 59.515 52.381 0.00 0.00 42.91 4.45
3341 3452 1.760613 GGTTGATGATACGACCTGGGA 59.239 52.381 0.00 0.00 40.23 4.37
3342 3453 2.224066 GGTTGATGATACGACCTGGGAG 60.224 54.545 0.00 0.00 40.23 4.30
3414 3527 7.921304 TGATTGATGATATATACAAGGCTGGT 58.079 34.615 0.00 0.00 0.00 4.00
3508 3956 4.768448 TGATACGACCTGGAAGAACAGTAA 59.232 41.667 0.00 0.00 36.75 2.24
3524 3972 3.256558 CAGTAAGCAGGTAACCCGTAAC 58.743 50.000 0.00 0.00 35.12 2.50
3539 3989 1.129251 CGTAACCTGTCTTGCATGCTG 59.871 52.381 20.33 11.88 0.00 4.41
3554 4004 4.216731 GCATGCTGAATTGATGACGTATG 58.783 43.478 11.37 0.00 0.00 2.39
3568 4018 0.393808 CGTATGGAAGGTTGGGTGGG 60.394 60.000 0.00 0.00 0.00 4.61
3570 4020 0.996583 TATGGAAGGTTGGGTGGGAC 59.003 55.000 0.00 0.00 0.00 4.46
3571 4021 1.800229 ATGGAAGGTTGGGTGGGACC 61.800 60.000 0.00 0.00 37.60 4.46
3661 4212 2.099141 TGCACTGCCAGTACAGATTC 57.901 50.000 0.00 0.00 40.25 2.52
3679 4232 4.697756 TGTGTACTGCGCCAGGCC 62.698 66.667 5.63 0.00 42.61 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 20 1.285078 TGATCTCTCCTTCCACTCCGA 59.715 52.381 0.00 0.00 0.00 4.55
33 37 7.712264 TTTTGCGATTCTTTTCAATTGTGAT 57.288 28.000 5.13 0.00 32.48 3.06
84 94 6.073003 CCCTCCATCGATATTAGCACTTTTTC 60.073 42.308 0.00 0.00 0.00 2.29
90 100 2.567615 ACCCCTCCATCGATATTAGCAC 59.432 50.000 0.00 0.00 0.00 4.40
123 134 4.590850 ATTTCCTGTCTTTTCCACTTGC 57.409 40.909 0.00 0.00 0.00 4.01
124 135 7.092716 CCAATATTTCCTGTCTTTTCCACTTG 58.907 38.462 0.00 0.00 0.00 3.16
126 137 6.314917 ACCAATATTTCCTGTCTTTTCCACT 58.685 36.000 0.00 0.00 0.00 4.00
137 148 8.292444 TCCTTGATAACAACCAATATTTCCTG 57.708 34.615 0.00 0.00 32.27 3.86
309 320 2.936498 CAGACACGTCACAACTTTCCTT 59.064 45.455 0.00 0.00 0.00 3.36
533 547 6.874134 TCTCTTCACTCTTTATTACAACCAGC 59.126 38.462 0.00 0.00 0.00 4.85
616 631 4.761975 TCCGCGGTTTATTTTCTCTGTAT 58.238 39.130 27.15 0.00 0.00 2.29
617 632 4.082081 TCTCCGCGGTTTATTTTCTCTGTA 60.082 41.667 27.15 0.00 0.00 2.74
618 633 3.000727 CTCCGCGGTTTATTTTCTCTGT 58.999 45.455 27.15 0.00 0.00 3.41
622 637 3.329929 AGTCTCCGCGGTTTATTTTCT 57.670 42.857 27.15 10.30 0.00 2.52
674 689 9.981460 AGGATTTTCATCTGGTTTTAGTTATCT 57.019 29.630 0.00 0.00 0.00 1.98
709 724 9.787435 TGTTGTTGTATTTATTACTCCAACTCT 57.213 29.630 14.25 0.00 39.80 3.24
723 738 9.061435 CCAATTACCCAATTTGTTGTTGTATTT 57.939 29.630 0.00 0.00 31.82 1.40
724 739 8.432805 TCCAATTACCCAATTTGTTGTTGTATT 58.567 29.630 0.00 0.00 31.82 1.89
725 740 7.875554 GTCCAATTACCCAATTTGTTGTTGTAT 59.124 33.333 0.00 0.00 31.82 2.29
726 741 7.070074 AGTCCAATTACCCAATTTGTTGTTGTA 59.930 33.333 0.00 0.00 31.82 2.41
727 742 6.052360 GTCCAATTACCCAATTTGTTGTTGT 58.948 36.000 0.00 0.00 31.82 3.32
728 743 6.287525 AGTCCAATTACCCAATTTGTTGTTG 58.712 36.000 0.00 0.00 31.82 3.33
729 744 6.493189 AGTCCAATTACCCAATTTGTTGTT 57.507 33.333 0.00 0.00 31.82 2.83
737 752 4.093743 GGTTCCAAGTCCAATTACCCAAT 58.906 43.478 0.00 0.00 0.00 3.16
746 761 4.959210 TGAAATTTCAGGTTCCAAGTCCAA 59.041 37.500 16.91 0.00 32.50 3.53
758 773 5.583457 GCCCAAATCTCAATGAAATTTCAGG 59.417 40.000 24.17 18.49 41.08 3.86
800 815 1.329913 GGCCGGCCATTGGATTTCTT 61.330 55.000 40.73 0.00 35.81 2.52
801 816 1.758122 GGCCGGCCATTGGATTTCT 60.758 57.895 40.73 0.00 35.81 2.52
802 817 1.758122 AGGCCGGCCATTGGATTTC 60.758 57.895 45.13 16.21 38.92 2.17
803 818 2.059786 CAGGCCGGCCATTGGATTT 61.060 57.895 45.13 21.51 38.92 2.17
820 835 4.406456 AGAGAGAGAGAGAGAAAAGTGCA 58.594 43.478 0.00 0.00 0.00 4.57
821 836 4.702131 AGAGAGAGAGAGAGAGAAAAGTGC 59.298 45.833 0.00 0.00 0.00 4.40
822 837 6.176183 AGAGAGAGAGAGAGAGAGAAAAGTG 58.824 44.000 0.00 0.00 0.00 3.16
823 838 6.214412 AGAGAGAGAGAGAGAGAGAGAAAAGT 59.786 42.308 0.00 0.00 0.00 2.66
824 839 6.538021 CAGAGAGAGAGAGAGAGAGAGAAAAG 59.462 46.154 0.00 0.00 0.00 2.27
825 840 6.409704 CAGAGAGAGAGAGAGAGAGAGAAAA 58.590 44.000 0.00 0.00 0.00 2.29
826 841 5.104776 CCAGAGAGAGAGAGAGAGAGAGAAA 60.105 48.000 0.00 0.00 0.00 2.52
827 842 4.406972 CCAGAGAGAGAGAGAGAGAGAGAA 59.593 50.000 0.00 0.00 0.00 2.87
847 862 3.054802 AGCCAGAGGAAGAAATACACCAG 60.055 47.826 0.00 0.00 0.00 4.00
873 888 0.107459 GAGATGTCTGGGGAAGGCAC 60.107 60.000 0.00 0.00 45.21 5.01
875 890 0.107459 GTGAGATGTCTGGGGAAGGC 60.107 60.000 0.00 0.00 0.00 4.35
879 895 1.269958 CTGTGTGAGATGTCTGGGGA 58.730 55.000 0.00 0.00 0.00 4.81
885 901 2.103042 GGCGGCTGTGTGAGATGTC 61.103 63.158 0.00 0.00 0.00 3.06
914 936 0.958876 CTCCGGCCACAAACCCTAAC 60.959 60.000 2.24 0.00 0.00 2.34
964 986 1.808234 CGATTCGATTCGACCACGCC 61.808 60.000 21.74 0.00 41.62 5.68
1231 1294 2.191128 GGGGGATGAAGATGAATCGG 57.809 55.000 0.00 0.00 0.00 4.18
1286 1349 3.338249 ACTCGAAGCTGCATACAAACAT 58.662 40.909 1.02 0.00 0.00 2.71
1287 1350 2.736721 GACTCGAAGCTGCATACAAACA 59.263 45.455 1.02 0.00 0.00 2.83
1288 1351 2.094417 GGACTCGAAGCTGCATACAAAC 59.906 50.000 1.02 0.00 0.00 2.93
1289 1352 2.028112 AGGACTCGAAGCTGCATACAAA 60.028 45.455 1.02 0.00 0.00 2.83
1290 1353 1.550524 AGGACTCGAAGCTGCATACAA 59.449 47.619 1.02 0.00 0.00 2.41
1382 1445 3.008485 GCAAGAGGAAGAGGAAGAAGGAA 59.992 47.826 0.00 0.00 0.00 3.36
1384 1447 2.571202 AGCAAGAGGAAGAGGAAGAAGG 59.429 50.000 0.00 0.00 0.00 3.46
1386 1449 3.515562 AGAGCAAGAGGAAGAGGAAGAA 58.484 45.455 0.00 0.00 0.00 2.52
1414 1477 2.116736 AAATCTGTGTGTGCGTGCGG 62.117 55.000 0.00 0.00 0.00 5.69
1415 1478 0.316937 AAAATCTGTGTGTGCGTGCG 60.317 50.000 0.00 0.00 0.00 5.34
1416 1479 1.122849 CAAAATCTGTGTGTGCGTGC 58.877 50.000 0.00 0.00 0.00 5.34
1417 1480 1.122849 GCAAAATCTGTGTGTGCGTG 58.877 50.000 0.00 0.00 0.00 5.34
1418 1481 0.737804 TGCAAAATCTGTGTGTGCGT 59.262 45.000 0.00 0.00 38.05 5.24
1419 1482 1.980844 GATGCAAAATCTGTGTGTGCG 59.019 47.619 0.00 0.00 38.05 5.34
1420 1483 3.293311 AGATGCAAAATCTGTGTGTGC 57.707 42.857 0.00 0.00 35.75 4.57
1421 1484 5.361135 TGTAGATGCAAAATCTGTGTGTG 57.639 39.130 0.00 0.00 0.00 3.82
1434 1497 6.432472 TCAACCACAAAACATATGTAGATGCA 59.568 34.615 9.21 0.00 0.00 3.96
1446 1509 8.642935 TGGATAGATAATTCAACCACAAAACA 57.357 30.769 0.00 0.00 0.00 2.83
1447 1510 8.956426 TCTGGATAGATAATTCAACCACAAAAC 58.044 33.333 0.00 0.00 0.00 2.43
1448 1511 9.699410 ATCTGGATAGATAATTCAACCACAAAA 57.301 29.630 0.00 0.00 41.82 2.44
1452 1526 7.939039 TGGAATCTGGATAGATAATTCAACCAC 59.061 37.037 0.00 0.00 42.80 4.16
1485 1559 3.244840 ACCTGCAGCAGAAAGAAAGAGAT 60.245 43.478 24.90 0.00 32.44 2.75
1495 1569 1.842920 TCCTGGACCTGCAGCAGAA 60.843 57.895 24.90 5.50 32.44 3.02
1496 1570 2.203832 TCCTGGACCTGCAGCAGA 60.204 61.111 24.90 2.34 32.44 4.26
1553 1635 3.681835 ACCTCCACGACGTCCTGC 61.682 66.667 10.58 0.00 0.00 4.85
1589 1671 2.989253 TGCTCGACCTTCTCGGCA 60.989 61.111 0.00 0.00 42.58 5.69
1625 1707 2.604011 CTCGAGCAGCTTCTTGATCTTG 59.396 50.000 3.60 0.00 31.51 3.02
1691 1773 1.219124 GACCTTCCTCATGAGCGCA 59.781 57.895 17.76 0.00 0.00 6.09
1709 1791 2.667418 CCAGAGGGTCTGTGCAGG 59.333 66.667 3.35 0.00 42.80 4.85
1710 1792 2.046507 GCCAGAGGGTCTGTGCAG 60.047 66.667 10.63 0.00 42.80 4.41
1711 1793 3.640407 GGCCAGAGGGTCTGTGCA 61.640 66.667 0.00 0.00 42.80 4.57
1717 1799 0.988063 AAAGAGAAGGCCAGAGGGTC 59.012 55.000 5.01 0.00 39.90 4.46
1718 1800 0.695347 CAAAGAGAAGGCCAGAGGGT 59.305 55.000 5.01 0.00 36.17 4.34
1719 1801 0.695347 ACAAAGAGAAGGCCAGAGGG 59.305 55.000 5.01 0.00 37.18 4.30
1720 1802 1.072965 ACACAAAGAGAAGGCCAGAGG 59.927 52.381 5.01 0.00 0.00 3.69
1721 1803 2.557920 ACACAAAGAGAAGGCCAGAG 57.442 50.000 5.01 0.00 0.00 3.35
1722 1804 3.297134 AAACACAAAGAGAAGGCCAGA 57.703 42.857 5.01 0.00 0.00 3.86
1831 1913 3.933332 GGATCCGACTTTTTGGTGTCTAG 59.067 47.826 0.00 0.00 0.00 2.43
1908 1990 5.632959 CGAATAATTTGGCGTAGGTTTTCA 58.367 37.500 0.00 0.00 0.00 2.69
2009 2091 5.511234 AGCTTTTGAGGCATCATGTAATC 57.489 39.130 0.03 0.00 34.73 1.75
2094 2179 1.202330 CCATGGAGAGCTTGGTCTCT 58.798 55.000 23.37 7.45 45.48 3.10
2214 2299 3.073798 TGACCAGACCATAACCAATGTGT 59.926 43.478 0.00 0.00 33.34 3.72
2266 2351 0.393448 TGGCGCAACCACTAGTTACA 59.607 50.000 10.83 0.00 46.36 2.41
2267 2352 3.220447 TGGCGCAACCACTAGTTAC 57.780 52.632 10.83 0.00 46.36 2.50
2310 2404 1.398595 GTGTGCGTGATGAAGCAAAC 58.601 50.000 0.00 0.00 45.61 2.93
2324 2418 4.256920 ACTATCATCAGAACTTGGTGTGC 58.743 43.478 0.00 0.00 39.07 4.57
2502 2598 0.172352 CTCTCTCTGTCACGGCTTCC 59.828 60.000 0.00 0.00 0.00 3.46
2503 2599 0.172352 CCTCTCTCTGTCACGGCTTC 59.828 60.000 0.00 0.00 0.00 3.86
2504 2600 1.882989 GCCTCTCTCTGTCACGGCTT 61.883 60.000 0.00 0.00 34.80 4.35
2675 2771 4.183223 TGATTAATAACCATGCCTGCCT 57.817 40.909 0.00 0.00 0.00 4.75
2717 2813 4.497516 AGGAGCATAATGGTCTACCTCAT 58.502 43.478 0.00 0.00 43.82 2.90
2758 2854 4.707105 TCATGACAACACTCAGACATTGT 58.293 39.130 0.00 0.00 37.97 2.71
2829 2925 9.112658 TCTATAATAAAAGGAAGACCATAGGGG 57.887 37.037 0.00 0.00 44.81 4.79
2982 3080 2.432146 TCATCATACGGCTTTCAGCTCT 59.568 45.455 0.00 0.00 41.99 4.09
3024 3122 2.963782 AGGTTACGGAATACCTGCCTAG 59.036 50.000 0.00 0.00 43.05 3.02
3025 3123 2.961062 GAGGTTACGGAATACCTGCCTA 59.039 50.000 0.00 0.00 44.65 3.93
3026 3124 1.761198 GAGGTTACGGAATACCTGCCT 59.239 52.381 0.00 0.00 44.65 4.75
3181 3292 1.823169 TTTCTTCCAGGTCCGGTCCG 61.823 60.000 12.29 3.60 0.00 4.79
3184 3295 0.396811 CTGTTTCTTCCAGGTCCGGT 59.603 55.000 0.00 0.00 0.00 5.28
3185 3296 0.396811 ACTGTTTCTTCCAGGTCCGG 59.603 55.000 0.00 0.00 34.16 5.14
3203 3314 3.099905 AGGTTACGGGTTACCTTCCTAC 58.900 50.000 3.78 0.00 39.34 3.18
3207 3318 1.901833 TGGAGGTTACGGGTTACCTTC 59.098 52.381 10.52 9.28 42.09 3.46
3208 3319 2.028561 TGGAGGTTACGGGTTACCTT 57.971 50.000 10.52 0.00 42.09 3.50
3216 3327 6.889301 TGTAGTATAAGATGGAGGTTACGG 57.111 41.667 0.00 0.00 0.00 4.02
3236 3347 9.384764 TCGTATCATCAACCATTTTAACATGTA 57.615 29.630 0.00 0.00 0.00 2.29
3237 3348 8.181573 GTCGTATCATCAACCATTTTAACATGT 58.818 33.333 0.00 0.00 0.00 3.21
3238 3349 7.643764 GGTCGTATCATCAACCATTTTAACATG 59.356 37.037 0.00 0.00 0.00 3.21
3239 3350 7.556275 AGGTCGTATCATCAACCATTTTAACAT 59.444 33.333 0.00 0.00 34.09 2.71
3240 3351 6.882140 AGGTCGTATCATCAACCATTTTAACA 59.118 34.615 0.00 0.00 34.09 2.41
3241 3352 7.186804 CAGGTCGTATCATCAACCATTTTAAC 58.813 38.462 0.00 0.00 34.09 2.01
3243 3354 5.820423 CCAGGTCGTATCATCAACCATTTTA 59.180 40.000 0.00 0.00 34.09 1.52
3250 3361 2.693591 TCTCCCAGGTCGTATCATCAAC 59.306 50.000 0.00 0.00 0.00 3.18
3260 3371 0.818296 CCTACTGTTCTCCCAGGTCG 59.182 60.000 0.00 0.00 36.75 4.79
3261 3372 2.233305 TCCTACTGTTCTCCCAGGTC 57.767 55.000 0.00 0.00 36.75 3.85
3262 3373 2.541466 CTTCCTACTGTTCTCCCAGGT 58.459 52.381 0.00 0.00 36.75 4.00
3263 3374 1.834263 CCTTCCTACTGTTCTCCCAGG 59.166 57.143 0.00 0.00 36.75 4.45
3264 3375 2.541466 ACCTTCCTACTGTTCTCCCAG 58.459 52.381 0.00 0.00 38.45 4.45
3265 3376 2.715763 ACCTTCCTACTGTTCTCCCA 57.284 50.000 0.00 0.00 0.00 4.37
3266 3377 3.197333 GGTTACCTTCCTACTGTTCTCCC 59.803 52.174 0.00 0.00 0.00 4.30
3269 3380 2.830321 CGGGTTACCTTCCTACTGTTCT 59.170 50.000 0.00 0.00 33.28 3.01
3270 3381 2.564504 ACGGGTTACCTTCCTACTGTTC 59.435 50.000 0.00 0.00 33.28 3.18
3271 3382 2.613129 ACGGGTTACCTTCCTACTGTT 58.387 47.619 0.00 0.00 33.28 3.16
3272 3383 2.315720 ACGGGTTACCTTCCTACTGT 57.684 50.000 0.00 0.00 33.28 3.55
3273 3384 3.118992 GGTTACGGGTTACCTTCCTACTG 60.119 52.174 0.00 0.00 33.28 2.74
3274 3385 3.099905 GGTTACGGGTTACCTTCCTACT 58.900 50.000 0.00 0.00 33.28 2.57
3275 3386 3.099905 AGGTTACGGGTTACCTTCCTAC 58.900 50.000 3.78 0.00 39.34 3.18
3276 3387 3.365472 GAGGTTACGGGTTACCTTCCTA 58.635 50.000 10.52 0.00 42.09 2.94
3277 3388 2.182827 GAGGTTACGGGTTACCTTCCT 58.817 52.381 10.52 2.53 42.09 3.36
3278 3389 1.208052 GGAGGTTACGGGTTACCTTCC 59.792 57.143 10.52 9.40 42.09 3.46
3279 3390 1.901833 TGGAGGTTACGGGTTACCTTC 59.098 52.381 10.52 9.28 42.09 3.46
3280 3391 2.028561 TGGAGGTTACGGGTTACCTT 57.971 50.000 10.52 0.00 42.09 3.50
3281 3392 2.113807 GATGGAGGTTACGGGTTACCT 58.886 52.381 9.11 9.11 44.41 3.08
3283 3394 3.900966 AAGATGGAGGTTACGGGTTAC 57.099 47.619 0.00 0.00 0.00 2.50
3284 3395 6.376248 AGTATAAGATGGAGGTTACGGGTTA 58.624 40.000 0.00 0.00 0.00 2.85
3285 3396 5.214293 AGTATAAGATGGAGGTTACGGGTT 58.786 41.667 0.00 0.00 0.00 4.11
3286 3397 4.812653 AGTATAAGATGGAGGTTACGGGT 58.187 43.478 0.00 0.00 0.00 5.28
3287 3398 5.771666 TGTAGTATAAGATGGAGGTTACGGG 59.228 44.000 0.00 0.00 0.00 5.28
3288 3399 6.889301 TGTAGTATAAGATGGAGGTTACGG 57.111 41.667 0.00 0.00 0.00 4.02
3307 3418 9.650371 CGTATCATCAACCATTTTAACATGTAG 57.350 33.333 0.00 0.00 0.00 2.74
3308 3419 9.384764 TCGTATCATCAACCATTTTAACATGTA 57.615 29.630 0.00 0.00 0.00 2.29
3309 3420 8.181573 GTCGTATCATCAACCATTTTAACATGT 58.818 33.333 0.00 0.00 0.00 3.21
3310 3421 7.643764 GGTCGTATCATCAACCATTTTAACATG 59.356 37.037 0.00 0.00 0.00 3.21
3311 3422 7.556275 AGGTCGTATCATCAACCATTTTAACAT 59.444 33.333 0.00 0.00 34.09 2.71
3312 3423 6.882140 AGGTCGTATCATCAACCATTTTAACA 59.118 34.615 0.00 0.00 34.09 2.41
3313 3424 7.186804 CAGGTCGTATCATCAACCATTTTAAC 58.813 38.462 0.00 0.00 34.09 2.01
3314 3425 6.317642 CCAGGTCGTATCATCAACCATTTTAA 59.682 38.462 0.00 0.00 34.09 1.52
3315 3426 5.820423 CCAGGTCGTATCATCAACCATTTTA 59.180 40.000 0.00 0.00 34.09 1.52
3316 3427 4.640201 CCAGGTCGTATCATCAACCATTTT 59.360 41.667 0.00 0.00 34.09 1.82
3317 3428 4.199310 CCAGGTCGTATCATCAACCATTT 58.801 43.478 0.00 0.00 34.09 2.32
3318 3429 3.433598 CCCAGGTCGTATCATCAACCATT 60.434 47.826 0.00 0.00 34.09 3.16
3319 3430 2.104792 CCCAGGTCGTATCATCAACCAT 59.895 50.000 0.00 0.00 34.09 3.55
3320 3431 1.484653 CCCAGGTCGTATCATCAACCA 59.515 52.381 0.00 0.00 34.09 3.67
3321 3432 1.760613 TCCCAGGTCGTATCATCAACC 59.239 52.381 0.00 0.00 0.00 3.77
3322 3433 2.693591 TCTCCCAGGTCGTATCATCAAC 59.306 50.000 0.00 0.00 0.00 3.18
3323 3434 3.026707 TCTCCCAGGTCGTATCATCAA 57.973 47.619 0.00 0.00 0.00 2.57
3324 3435 2.693591 GTTCTCCCAGGTCGTATCATCA 59.306 50.000 0.00 0.00 0.00 3.07
3325 3436 2.693591 TGTTCTCCCAGGTCGTATCATC 59.306 50.000 0.00 0.00 0.00 2.92
3326 3437 2.695666 CTGTTCTCCCAGGTCGTATCAT 59.304 50.000 0.00 0.00 0.00 2.45
3327 3438 2.100197 CTGTTCTCCCAGGTCGTATCA 58.900 52.381 0.00 0.00 0.00 2.15
3328 3439 2.100989 ACTGTTCTCCCAGGTCGTATC 58.899 52.381 0.00 0.00 36.75 2.24
3329 3440 2.233305 ACTGTTCTCCCAGGTCGTAT 57.767 50.000 0.00 0.00 36.75 3.06
3330 3441 2.619849 CCTACTGTTCTCCCAGGTCGTA 60.620 54.545 0.00 0.00 36.75 3.43
3331 3442 1.546961 CTACTGTTCTCCCAGGTCGT 58.453 55.000 0.00 0.00 36.75 4.34
3332 3443 0.818296 CCTACTGTTCTCCCAGGTCG 59.182 60.000 0.00 0.00 36.75 4.79
3333 3444 2.233305 TCCTACTGTTCTCCCAGGTC 57.767 55.000 0.00 0.00 36.75 3.85
3334 3445 2.541466 CTTCCTACTGTTCTCCCAGGT 58.459 52.381 0.00 0.00 36.75 4.00
3335 3446 1.834263 CCTTCCTACTGTTCTCCCAGG 59.166 57.143 0.00 0.00 36.75 4.45
3336 3447 2.541466 ACCTTCCTACTGTTCTCCCAG 58.459 52.381 0.00 0.00 38.45 4.45
3337 3448 2.715763 ACCTTCCTACTGTTCTCCCA 57.284 50.000 0.00 0.00 0.00 4.37
3338 3449 3.197333 GGTTACCTTCCTACTGTTCTCCC 59.803 52.174 0.00 0.00 0.00 4.30
3339 3450 3.197333 GGGTTACCTTCCTACTGTTCTCC 59.803 52.174 0.00 0.00 0.00 3.71
3340 3451 3.119209 CGGGTTACCTTCCTACTGTTCTC 60.119 52.174 0.00 0.00 33.28 2.87
3341 3452 2.830321 CGGGTTACCTTCCTACTGTTCT 59.170 50.000 0.00 0.00 33.28 3.01
3342 3453 2.564504 ACGGGTTACCTTCCTACTGTTC 59.435 50.000 0.00 0.00 33.28 3.18
3410 3523 2.995574 AGGTCCGGTCCGAACCAG 60.996 66.667 22.94 0.00 46.86 4.00
3414 3527 2.203669 TTCCAGGTCCGGTCCGAA 60.204 61.111 14.39 7.91 0.00 4.30
3508 3956 3.077914 AGGTTACGGGTTACCTGCT 57.922 52.632 10.61 0.44 40.68 4.24
3524 3972 2.490509 TCAATTCAGCATGCAAGACAGG 59.509 45.455 21.98 8.74 34.76 4.00
3539 3989 5.220854 CCAACCTTCCATACGTCATCAATTC 60.221 44.000 0.00 0.00 0.00 2.17
3554 4004 2.160853 AGGTCCCACCCAACCTTCC 61.161 63.158 0.00 0.00 43.45 3.46
3661 4212 3.121030 GCCTGGCGCAGTACACAG 61.121 66.667 10.83 5.86 37.47 3.66


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

AutoCloner maintained by Alex Coulton.