Multiple sequence alignment - TraesCS1D01G139400

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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 TraesCS1D01G139400 chr1D 100.000 3394 0 0 1 3394 191858924 191862317 0.000000e+00 6268.0
1 TraesCS1D01G139400 chr1B 90.905 2243 96 42 989 3196 265647024 265649193 0.000000e+00 2913.0
2 TraesCS1D01G139400 chr1B 79.352 988 74 55 2 961 265646142 265647027 2.940000e-160 575.0
3 TraesCS1D01G139400 chr1A 91.074 1927 94 36 845 2742 237744592 237746469 0.000000e+00 2534.0
4 TraesCS1D01G139400 chr1A 89.159 618 37 12 2739 3341 237746783 237747385 0.000000e+00 743.0
5 TraesCS1D01G139400 chr1A 80.132 760 55 37 71 803 237735864 237736554 2.370000e-131 479.0
6 TraesCS1D01G139400 chr5B 94.444 54 3 0 2341 2394 708961337 708961284 2.170000e-12 84.2
7 TraesCS1D01G139400 chr5B 97.674 43 1 0 2353 2395 345138980 345139022 1.310000e-09 75.0
8 TraesCS1D01G139400 chr4A 94.444 54 3 0 2341 2394 606346176 606346123 2.170000e-12 84.2
9 TraesCS1D01G139400 chr5D 97.674 43 1 0 2353 2395 302105400 302105442 1.310000e-09 75.0
10 TraesCS1D01G139400 chr5D 97.368 38 1 0 2345 2382 562062909 562062872 7.860000e-07 65.8
11 TraesCS1D01G139400 chr5A 97.674 43 1 0 2353 2395 395805163 395805121 1.310000e-09 75.0
12 TraesCS1D01G139400 chr2B 100.000 37 0 0 2356 2392 42264781 42264817 6.080000e-08 69.4


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 TraesCS1D01G139400 chr1D 191858924 191862317 3393 False 6268.0 6268 100.0000 1 3394 1 chr1D.!!$F1 3393
1 TraesCS1D01G139400 chr1B 265646142 265649193 3051 False 1744.0 2913 85.1285 2 3196 2 chr1B.!!$F1 3194
2 TraesCS1D01G139400 chr1A 237744592 237747385 2793 False 1638.5 2534 90.1165 845 3341 2 chr1A.!!$F2 2496
3 TraesCS1D01G139400 chr1A 237735864 237736554 690 False 479.0 479 80.1320 71 803 1 chr1A.!!$F1 732

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
325 340 0.320374 TCCAAACCGCTCCTACAGTG 59.680 55.0 0.0 0.0 0.00 3.66 F
331 346 0.377554 CCGCTCCTACAGTGAGTACG 59.622 60.0 0.0 0.0 34.07 3.67 F
332 347 0.377554 CGCTCCTACAGTGAGTACGG 59.622 60.0 0.0 0.0 34.07 4.02 F
688 742 0.398318 GTCCCAGTCAGCAACCTTCT 59.602 55.0 0.0 0.0 0.00 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1180 1255 0.175989 GTAAGGAGGCGGAGACCAAG 59.824 60.000 0.00 0.0 31.70 3.61 R
1699 1804 0.393944 AGCGTCACCGTCTCCTGATA 60.394 55.000 0.00 0.0 36.15 2.15 R
1710 1815 1.086634 GCCTGATCTTGAGCGTCACC 61.087 60.000 0.00 0.0 0.00 4.02 R
2661 2781 1.206578 CGGCCATGACAACAACGAC 59.793 57.895 2.24 0.0 0.00 4.34 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
40 41 5.532032 AGCATTTGAAATTTTTGGTTCCCAG 59.468 36.000 0.00 0.00 33.81 4.45
42 43 6.293571 GCATTTGAAATTTTTGGTTCCCAGAG 60.294 38.462 0.00 0.00 33.81 3.35
46 47 4.937201 AATTTTTGGTTCCCAGAGTGTC 57.063 40.909 0.00 0.00 33.81 3.67
58 59 3.343788 GAGTGTCCAGCGACGAGGG 62.344 68.421 0.00 0.00 42.37 4.30
67 68 4.180946 CGACGAGGGCGAGGAGTG 62.181 72.222 0.00 0.00 41.64 3.51
68 69 3.063084 GACGAGGGCGAGGAGTGT 61.063 66.667 0.00 0.00 41.64 3.55
69 70 3.343788 GACGAGGGCGAGGAGTGTG 62.344 68.421 0.00 0.00 41.64 3.82
204 205 4.273480 GCACCCAGCAGTAGTATTTGTATG 59.727 45.833 0.00 0.00 44.79 2.39
325 340 0.320374 TCCAAACCGCTCCTACAGTG 59.680 55.000 0.00 0.00 0.00 3.66
326 341 0.320374 CCAAACCGCTCCTACAGTGA 59.680 55.000 0.00 0.00 34.07 3.41
327 342 1.673033 CCAAACCGCTCCTACAGTGAG 60.673 57.143 0.00 0.00 34.07 3.51
328 343 1.000955 CAAACCGCTCCTACAGTGAGT 59.999 52.381 0.00 0.00 34.07 3.41
329 344 2.211250 AACCGCTCCTACAGTGAGTA 57.789 50.000 0.00 0.00 34.07 2.59
331 346 0.377554 CCGCTCCTACAGTGAGTACG 59.622 60.000 0.00 0.00 34.07 3.67
332 347 0.377554 CGCTCCTACAGTGAGTACGG 59.622 60.000 0.00 0.00 34.07 4.02
333 348 1.461559 GCTCCTACAGTGAGTACGGT 58.538 55.000 0.00 0.00 38.73 4.83
335 350 2.159407 GCTCCTACAGTGAGTACGGTTC 60.159 54.545 0.00 0.00 36.59 3.62
336 351 3.079578 CTCCTACAGTGAGTACGGTTCA 58.920 50.000 0.00 0.00 36.59 3.18
337 352 3.489355 TCCTACAGTGAGTACGGTTCAA 58.511 45.455 0.00 0.00 36.59 2.69
338 353 3.254166 TCCTACAGTGAGTACGGTTCAAC 59.746 47.826 0.00 0.00 36.59 3.18
339 354 3.255149 CCTACAGTGAGTACGGTTCAACT 59.745 47.826 0.00 0.00 36.59 3.16
341 356 5.125097 CCTACAGTGAGTACGGTTCAACTAT 59.875 44.000 0.00 0.00 36.59 2.12
342 357 4.806330 ACAGTGAGTACGGTTCAACTATG 58.194 43.478 0.00 0.00 30.85 2.23
343 358 4.174009 CAGTGAGTACGGTTCAACTATGG 58.826 47.826 0.00 0.00 0.00 2.74
344 359 4.082408 CAGTGAGTACGGTTCAACTATGGA 60.082 45.833 0.00 0.00 0.00 3.41
346 361 4.082354 GTGAGTACGGTTCAACTATGGACT 60.082 45.833 0.00 0.00 35.21 3.85
347 362 4.082408 TGAGTACGGTTCAACTATGGACTG 60.082 45.833 0.00 0.00 45.62 3.51
348 363 2.094762 ACGGTTCAACTATGGACTGC 57.905 50.000 0.00 0.00 44.21 4.40
349 364 1.623811 ACGGTTCAACTATGGACTGCT 59.376 47.619 0.00 0.00 44.21 4.24
356 371 5.584253 TCAACTATGGACTGCTAGAGAAC 57.416 43.478 0.00 0.00 0.00 3.01
357 372 4.096532 TCAACTATGGACTGCTAGAGAACG 59.903 45.833 0.00 0.00 0.00 3.95
408 447 1.233285 CCTCACTCCAACAGCACAGC 61.233 60.000 0.00 0.00 0.00 4.40
409 448 0.533531 CTCACTCCAACAGCACAGCA 60.534 55.000 0.00 0.00 0.00 4.41
410 449 0.815213 TCACTCCAACAGCACAGCAC 60.815 55.000 0.00 0.00 0.00 4.40
411 450 1.096967 CACTCCAACAGCACAGCACA 61.097 55.000 0.00 0.00 0.00 4.57
412 451 0.816825 ACTCCAACAGCACAGCACAG 60.817 55.000 0.00 0.00 0.00 3.66
455 494 1.427020 GTTCGCAGGAAGCAGCATC 59.573 57.895 0.00 0.00 46.13 3.91
457 496 1.022982 TTCGCAGGAAGCAGCATCAG 61.023 55.000 0.00 0.00 46.13 2.90
458 497 2.799371 GCAGGAAGCAGCATCAGC 59.201 61.111 0.00 0.00 44.79 4.26
518 559 1.766143 GCAGGCTGAATTACGCTCCG 61.766 60.000 20.86 0.00 0.00 4.63
526 567 2.756760 TGAATTACGCTCCGTCCTAGTT 59.243 45.455 0.00 0.00 41.54 2.24
539 580 4.201861 CCGTCCTAGTTTAGTCTACGGTTC 60.202 50.000 0.00 0.00 38.64 3.62
587 634 3.802139 ACGTGGAAATCGTAGTATGCATG 59.198 43.478 10.16 0.00 39.78 4.06
588 635 3.362986 CGTGGAAATCGTAGTATGCATGC 60.363 47.826 11.82 11.82 0.00 4.06
589 636 3.559655 GTGGAAATCGTAGTATGCATGCA 59.440 43.478 25.04 25.04 0.00 3.96
590 637 4.035091 GTGGAAATCGTAGTATGCATGCAA 59.965 41.667 26.68 11.45 0.00 4.08
591 638 4.035091 TGGAAATCGTAGTATGCATGCAAC 59.965 41.667 26.68 22.00 0.00 4.17
688 742 0.398318 GTCCCAGTCAGCAACCTTCT 59.602 55.000 0.00 0.00 0.00 2.85
711 765 2.361610 GGTCTACACCCGACCGGA 60.362 66.667 9.46 0.00 41.29 5.14
760 819 1.615392 GCCATTGCCACTCAAACTCTT 59.385 47.619 0.00 0.00 38.34 2.85
764 823 0.884704 TGCCACTCAAACTCTTCGCC 60.885 55.000 0.00 0.00 0.00 5.54
767 826 1.543429 CCACTCAAACTCTTCGCCCTT 60.543 52.381 0.00 0.00 0.00 3.95
796 855 1.528309 CCCACCCACCTCACACAAC 60.528 63.158 0.00 0.00 0.00 3.32
803 862 1.202290 CCACCTCACACAACTTGTTGC 60.202 52.381 12.76 0.00 35.67 4.17
805 864 1.472480 ACCTCACACAACTTGTTGCAC 59.528 47.619 12.76 0.00 35.67 4.57
818 877 4.202141 ACTTGTTGCACTTGTACGGTACTA 60.202 41.667 18.32 10.62 0.00 1.82
819 878 3.641648 TGTTGCACTTGTACGGTACTAC 58.358 45.455 18.32 5.12 0.00 2.73
820 879 3.318839 TGTTGCACTTGTACGGTACTACT 59.681 43.478 18.32 0.00 0.00 2.57
823 882 4.578871 TGCACTTGTACGGTACTACTCTA 58.421 43.478 18.32 0.00 0.00 2.43
835 899 2.137702 ACTACTCTACTCCCTCCTCCC 58.862 57.143 0.00 0.00 0.00 4.30
836 900 1.072648 CTACTCTACTCCCTCCTCCCG 59.927 61.905 0.00 0.00 0.00 5.14
837 901 0.920271 ACTCTACTCCCTCCTCCCGT 60.920 60.000 0.00 0.00 0.00 5.28
838 902 1.138568 CTCTACTCCCTCCTCCCGTA 58.861 60.000 0.00 0.00 0.00 4.02
839 903 1.072648 CTCTACTCCCTCCTCCCGTAG 59.927 61.905 0.00 0.00 0.00 3.51
840 904 0.845337 CTACTCCCTCCTCCCGTAGT 59.155 60.000 0.00 0.00 0.00 2.73
841 905 2.053244 CTACTCCCTCCTCCCGTAGTA 58.947 57.143 0.00 0.00 0.00 1.82
842 906 0.550432 ACTCCCTCCTCCCGTAGTAC 59.450 60.000 0.00 0.00 0.00 2.73
843 907 0.845337 CTCCCTCCTCCCGTAGTACT 59.155 60.000 0.00 0.00 0.00 2.73
878 942 2.608988 CACCCCACCTCTCCTGCT 60.609 66.667 0.00 0.00 0.00 4.24
949 1024 1.549170 CACGCACTAACTACCTCCCTT 59.451 52.381 0.00 0.00 0.00 3.95
971 1046 3.894947 GGAGCTCGGCGGAGAGAC 61.895 72.222 24.11 13.20 43.27 3.36
972 1047 3.134792 GAGCTCGGCGGAGAGACA 61.135 66.667 24.11 0.00 43.27 3.41
973 1048 2.676822 AGCTCGGCGGAGAGACAA 60.677 61.111 24.11 0.00 43.27 3.18
974 1049 2.202676 GCTCGGCGGAGAGACAAG 60.203 66.667 24.11 0.00 43.27 3.16
975 1050 2.701780 GCTCGGCGGAGAGACAAGA 61.702 63.158 24.11 0.00 43.27 3.02
976 1051 1.883732 CTCGGCGGAGAGACAAGAA 59.116 57.895 15.82 0.00 43.27 2.52
1180 1255 2.751806 CCTGCCTCTTCCTTTCATTCAC 59.248 50.000 0.00 0.00 0.00 3.18
1183 1258 3.822735 TGCCTCTTCCTTTCATTCACTTG 59.177 43.478 0.00 0.00 0.00 3.16
1184 1259 3.192212 GCCTCTTCCTTTCATTCACTTGG 59.808 47.826 0.00 0.00 0.00 3.61
1185 1260 4.401925 CCTCTTCCTTTCATTCACTTGGT 58.598 43.478 0.00 0.00 0.00 3.67
1186 1261 4.457257 CCTCTTCCTTTCATTCACTTGGTC 59.543 45.833 0.00 0.00 0.00 4.02
1190 1265 2.744202 CCTTTCATTCACTTGGTCTCCG 59.256 50.000 0.00 0.00 0.00 4.63
1220 1300 2.159707 CGGTTCCATTCTTTGTGCTACG 60.160 50.000 0.00 0.00 0.00 3.51
1254 1342 0.668535 GTTTGCCTTTGCTTCTCCGT 59.331 50.000 0.00 0.00 38.71 4.69
1429 1517 4.455606 ACAAGGAGAAAGACAAGGACAAG 58.544 43.478 0.00 0.00 0.00 3.16
1433 1521 3.500299 GGAGAAAGACAAGGACAAGAAGC 59.500 47.826 0.00 0.00 0.00 3.86
1588 1676 1.539157 CAAAGGAGCCCAAAGAGGTC 58.461 55.000 0.00 0.00 34.66 3.85
1598 1686 2.593956 AAAGAGGTCCGTCCCTGGC 61.594 63.158 0.00 0.00 34.03 4.85
1599 1687 3.547787 AAGAGGTCCGTCCCTGGCT 62.548 63.158 0.00 0.00 34.03 4.75
1600 1688 3.462678 GAGGTCCGTCCCTGGCTC 61.463 72.222 0.00 0.00 34.03 4.70
1612 1717 1.581954 CTGGCTCGACGACTCTGTT 59.418 57.895 0.00 0.00 0.00 3.16
1618 1723 3.556513 GCTCGACGACTCTGTTATATGG 58.443 50.000 0.00 0.00 0.00 2.74
1619 1724 3.250280 GCTCGACGACTCTGTTATATGGA 59.750 47.826 0.00 0.00 0.00 3.41
1620 1725 4.611807 GCTCGACGACTCTGTTATATGGAG 60.612 50.000 0.00 0.00 0.00 3.86
1621 1726 4.449131 TCGACGACTCTGTTATATGGAGT 58.551 43.478 0.00 0.00 42.15 3.85
1638 1743 4.817517 TGGAGTAGTTAGTTACTTGCAGC 58.182 43.478 0.00 0.00 38.33 5.25
1639 1744 4.182339 GGAGTAGTTAGTTACTTGCAGCC 58.818 47.826 0.00 0.00 38.33 4.85
1640 1745 4.081586 GGAGTAGTTAGTTACTTGCAGCCT 60.082 45.833 0.00 0.00 38.33 4.58
1641 1746 4.822026 AGTAGTTAGTTACTTGCAGCCTG 58.178 43.478 0.00 0.00 38.33 4.85
1642 1747 2.427506 AGTTAGTTACTTGCAGCCTGC 58.572 47.619 10.45 10.45 45.29 4.85
1699 1804 4.482990 TCTTGCCCTTTTTCCTTGATTCT 58.517 39.130 0.00 0.00 0.00 2.40
1710 1815 5.521906 TTCCTTGATTCTATCAGGAGACG 57.478 43.478 0.88 0.00 40.94 4.18
1787 1892 2.411547 GCGTCAACAAGATCAAAGGTCG 60.412 50.000 0.00 0.00 0.00 4.79
1803 1908 4.152284 AGGTCGGTTTTCTGTTTCTTCT 57.848 40.909 0.00 0.00 0.00 2.85
1881 1986 2.158813 TGGAAACTGACTGACACCTTCC 60.159 50.000 7.89 7.89 35.95 3.46
1882 1987 2.104963 GGAAACTGACTGACACCTTCCT 59.895 50.000 7.68 0.00 34.16 3.36
1883 1988 3.433740 GGAAACTGACTGACACCTTCCTT 60.434 47.826 7.68 0.00 34.16 3.36
1884 1989 3.477210 AACTGACTGACACCTTCCTTC 57.523 47.619 0.00 0.00 0.00 3.46
2066 2171 1.615107 GCGACAAGAAAGACGACGGG 61.615 60.000 0.00 0.00 0.00 5.28
2261 2372 3.909285 GTCGGCTACTACGGCCCC 61.909 72.222 0.00 0.00 46.24 5.80
2401 2512 2.393768 CCGTCATGTGAGCAGCCAC 61.394 63.158 6.98 6.98 37.55 5.01
2628 2743 0.174845 TGTTCCACGATCCATCCGAC 59.825 55.000 0.00 0.00 0.00 4.79
2657 2772 2.949644 GGCCCTGCACTCGTTAATTATT 59.050 45.455 0.00 0.00 0.00 1.40
2661 2781 5.277345 GCCCTGCACTCGTTAATTATTACAG 60.277 44.000 0.00 0.00 0.00 2.74
2680 2800 2.126888 CGTTGTTGTCATGGCCGC 60.127 61.111 0.00 0.00 0.00 6.53
2709 2829 0.725117 GTGCTCCATTAACGGTTCCG 59.275 55.000 9.81 9.81 0.00 4.30
2767 3204 1.201954 CGACGTTGATCAGTGGCAATG 60.202 52.381 8.96 8.96 37.12 2.82
2768 3205 1.131126 GACGTTGATCAGTGGCAATGG 59.869 52.381 15.62 0.00 35.79 3.16
2769 3206 0.179156 CGTTGATCAGTGGCAATGGC 60.179 55.000 15.62 8.31 40.13 4.40
2770 3207 0.889994 GTTGATCAGTGGCAATGGCA 59.110 50.000 15.62 5.05 43.71 4.92
2771 3208 1.273048 GTTGATCAGTGGCAATGGCAA 59.727 47.619 15.62 15.90 43.71 4.52
2772 3209 1.855295 TGATCAGTGGCAATGGCAAT 58.145 45.000 15.62 7.70 43.71 3.56
2828 3265 0.949105 TCTTGCGTCGGCCTTCTTTC 60.949 55.000 0.00 0.00 38.85 2.62
2880 3317 3.740397 CGGGTCGTCAGTGCGGTA 61.740 66.667 7.03 0.00 0.00 4.02
2948 3388 3.065648 ACTGTCACGGCGTGTTTTATTTT 59.934 39.130 35.65 13.10 34.79 1.82
2967 3407 0.955905 TATATGCGGTGCTAGCGTGA 59.044 50.000 10.77 0.00 41.74 4.35
2996 3436 7.879677 TGGTGTGGCTAATTAATCATATCTCTG 59.120 37.037 0.00 0.00 0.00 3.35
2997 3437 7.880195 GGTGTGGCTAATTAATCATATCTCTGT 59.120 37.037 0.00 0.00 0.00 3.41
3013 3453 2.076100 TCTGTCCATTGTTTAGCGCTG 58.924 47.619 22.90 1.02 0.00 5.18
3041 3481 2.412870 CTGTCATGTTCTTGCGTGGTA 58.587 47.619 0.00 0.00 0.00 3.25
3092 3532 2.666317 TCTCTGTGGAGTTCAGTGACA 58.334 47.619 0.00 0.00 40.29 3.58
3119 3559 9.797556 GGGATGTTCAAGTTATTTTAACCATAC 57.202 33.333 0.00 0.00 0.00 2.39
3178 3632 0.322456 TGCTTGTAGGCGGATTTGCT 60.322 50.000 0.00 0.00 34.52 3.91
3196 3650 5.765576 TTGCTAGTAGGGATGGTGTTTTA 57.234 39.130 0.00 0.00 0.00 1.52
3235 3689 2.644078 CTGCGAGTTTCTGAAACAAGC 58.356 47.619 29.19 29.19 43.79 4.01
3237 3691 1.604278 GCGAGTTTCTGAAACAAGCCT 59.396 47.619 28.99 12.66 43.79 4.58
3253 3707 1.621672 GCCTGTGCCTAGGAGCTTCT 61.622 60.000 14.75 0.00 40.42 2.85
3265 3722 5.774690 CCTAGGAGCTTCTGAGATTGATAGT 59.225 44.000 4.19 0.00 0.00 2.12
3267 3724 5.916318 AGGAGCTTCTGAGATTGATAGTTG 58.084 41.667 0.00 0.00 0.00 3.16
3279 3736 6.109359 AGATTGATAGTTGTACAAGTGGCTC 58.891 40.000 23.41 16.93 0.00 4.70
3280 3737 4.882842 TGATAGTTGTACAAGTGGCTCA 57.117 40.909 23.41 18.83 0.00 4.26
3281 3738 5.222079 TGATAGTTGTACAAGTGGCTCAA 57.778 39.130 23.41 5.13 0.00 3.02
3282 3739 5.237815 TGATAGTTGTACAAGTGGCTCAAG 58.762 41.667 23.41 0.00 0.00 3.02
3283 3740 2.851195 AGTTGTACAAGTGGCTCAAGG 58.149 47.619 15.17 0.00 0.00 3.61
3284 3741 1.880027 GTTGTACAAGTGGCTCAAGGG 59.120 52.381 8.98 0.00 0.00 3.95
3285 3742 0.250727 TGTACAAGTGGCTCAAGGGC 60.251 55.000 0.00 0.00 41.27 5.19
3286 3743 1.003839 TACAAGTGGCTCAAGGGCG 60.004 57.895 0.00 0.00 44.11 6.13
3291 3748 2.992689 TGGCTCAAGGGCGTACGA 60.993 61.111 21.65 0.00 44.11 3.43
3310 3767 2.344025 GACATGTGTAGGAAACCGGTC 58.656 52.381 8.04 0.00 0.00 4.79
3313 3770 1.259609 TGTGTAGGAAACCGGTCGAT 58.740 50.000 8.04 0.00 0.00 3.59
3314 3771 1.203052 TGTGTAGGAAACCGGTCGATC 59.797 52.381 8.04 7.03 0.00 3.69
3317 3774 1.019673 TAGGAAACCGGTCGATCTCG 58.980 55.000 8.04 0.00 41.45 4.04
3341 3798 1.939934 ACACAATGAGACAACACACGG 59.060 47.619 0.00 0.00 0.00 4.94
3342 3799 0.944386 ACAATGAGACAACACACGGC 59.056 50.000 0.00 0.00 0.00 5.68
3343 3800 0.943673 CAATGAGACAACACACGGCA 59.056 50.000 0.00 0.00 0.00 5.69
3344 3801 1.536766 CAATGAGACAACACACGGCAT 59.463 47.619 0.00 0.00 0.00 4.40
3345 3802 1.896220 ATGAGACAACACACGGCATT 58.104 45.000 0.00 0.00 0.00 3.56
3346 3803 1.225855 TGAGACAACACACGGCATTC 58.774 50.000 0.00 0.00 0.00 2.67
3347 3804 0.517316 GAGACAACACACGGCATTCC 59.483 55.000 0.00 0.00 0.00 3.01
3348 3805 0.179032 AGACAACACACGGCATTCCA 60.179 50.000 0.00 0.00 0.00 3.53
3349 3806 0.665835 GACAACACACGGCATTCCAA 59.334 50.000 0.00 0.00 0.00 3.53
3350 3807 0.383949 ACAACACACGGCATTCCAAC 59.616 50.000 0.00 0.00 0.00 3.77
3351 3808 0.383590 CAACACACGGCATTCCAACA 59.616 50.000 0.00 0.00 0.00 3.33
3352 3809 0.383949 AACACACGGCATTCCAACAC 59.616 50.000 0.00 0.00 0.00 3.32
3353 3810 0.749818 ACACACGGCATTCCAACACA 60.750 50.000 0.00 0.00 0.00 3.72
3354 3811 0.317770 CACACGGCATTCCAACACAC 60.318 55.000 0.00 0.00 0.00 3.82
3355 3812 1.082169 CACGGCATTCCAACACACG 60.082 57.895 0.00 0.00 0.00 4.49
3356 3813 1.227704 ACGGCATTCCAACACACGA 60.228 52.632 0.00 0.00 0.00 4.35
3357 3814 0.816018 ACGGCATTCCAACACACGAA 60.816 50.000 0.00 0.00 0.00 3.85
3358 3815 0.521291 CGGCATTCCAACACACGAAT 59.479 50.000 0.00 0.00 0.00 3.34
3359 3816 1.735018 CGGCATTCCAACACACGAATA 59.265 47.619 0.00 0.00 0.00 1.75
3360 3817 2.223021 CGGCATTCCAACACACGAATAG 60.223 50.000 0.00 0.00 0.00 1.73
3361 3818 3.006940 GGCATTCCAACACACGAATAGA 58.993 45.455 0.00 0.00 0.00 1.98
3362 3819 3.627577 GGCATTCCAACACACGAATAGAT 59.372 43.478 0.00 0.00 0.00 1.98
3363 3820 4.096382 GGCATTCCAACACACGAATAGATT 59.904 41.667 0.00 0.00 0.00 2.40
3364 3821 5.295787 GGCATTCCAACACACGAATAGATTA 59.704 40.000 0.00 0.00 0.00 1.75
3365 3822 6.017109 GGCATTCCAACACACGAATAGATTAT 60.017 38.462 0.00 0.00 0.00 1.28
3366 3823 6.852853 GCATTCCAACACACGAATAGATTATG 59.147 38.462 0.00 0.00 0.00 1.90
3367 3824 7.467267 GCATTCCAACACACGAATAGATTATGT 60.467 37.037 0.00 0.00 0.00 2.29
3368 3825 7.915293 TTCCAACACACGAATAGATTATGTT 57.085 32.000 0.00 0.00 0.00 2.71
3369 3826 9.607988 ATTCCAACACACGAATAGATTATGTTA 57.392 29.630 0.00 0.00 0.00 2.41
3370 3827 9.438228 TTCCAACACACGAATAGATTATGTTAA 57.562 29.630 0.00 0.00 0.00 2.01
3371 3828 9.438228 TCCAACACACGAATAGATTATGTTAAA 57.562 29.630 0.00 0.00 0.00 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 0.827507 AAATGCTTTGCCCCGAGTGT 60.828 50.000 0.00 0.00 0.00 3.55
4 5 0.388907 CAAATGCTTTGCCCCGAGTG 60.389 55.000 0.00 0.00 33.36 3.51
5 6 0.539438 TCAAATGCTTTGCCCCGAGT 60.539 50.000 4.38 0.00 40.43 4.18
6 7 0.602562 TTCAAATGCTTTGCCCCGAG 59.397 50.000 4.38 0.00 40.43 4.63
7 8 1.043816 TTTCAAATGCTTTGCCCCGA 58.956 45.000 4.38 0.00 40.43 5.14
8 9 2.097680 ATTTCAAATGCTTTGCCCCG 57.902 45.000 4.38 0.00 40.43 5.73
11 12 5.590145 ACCAAAAATTTCAAATGCTTTGCC 58.410 33.333 10.52 0.00 40.43 4.52
12 13 6.198778 GGAACCAAAAATTTCAAATGCTTTGC 59.801 34.615 10.52 0.00 40.43 3.68
13 14 7.682593 GGAACCAAAAATTTCAAATGCTTTG 57.317 32.000 9.54 9.54 41.96 2.77
40 41 2.179517 CCTCGTCGCTGGACACTC 59.820 66.667 0.00 0.00 43.61 3.51
58 59 3.406361 CGTGTGCACACTCCTCGC 61.406 66.667 38.81 18.01 44.34 5.03
59 60 2.027605 ACGTGTGCACACTCCTCG 59.972 61.111 38.81 29.93 44.34 4.63
62 63 2.108157 TCCACGTGTGCACACTCC 59.892 61.111 38.81 20.08 44.34 3.85
63 64 2.244651 GGTCCACGTGTGCACACTC 61.245 63.158 38.81 24.83 44.34 3.51
64 65 2.203015 GGTCCACGTGTGCACACT 60.203 61.111 38.81 26.32 44.34 3.55
65 66 3.276846 GGGTCCACGTGTGCACAC 61.277 66.667 35.04 35.04 43.15 3.82
66 67 4.555709 GGGGTCCACGTGTGCACA 62.556 66.667 17.42 17.42 0.00 4.57
81 82 2.444895 AGGAGGCTAGCTTCCGGG 60.445 66.667 33.02 0.00 45.53 5.73
180 181 2.017049 CAAATACTACTGCTGGGTGCC 58.983 52.381 0.00 0.00 42.00 5.01
191 192 6.636705 TGAGGTGGACACATACAAATACTAC 58.363 40.000 4.69 0.00 0.00 2.73
204 205 0.465460 TGGCTGTTTGAGGTGGACAC 60.465 55.000 0.00 0.00 0.00 3.67
325 340 4.421948 CAGTCCATAGTTGAACCGTACTC 58.578 47.826 0.00 0.00 0.00 2.59
326 341 3.368116 GCAGTCCATAGTTGAACCGTACT 60.368 47.826 0.00 0.00 0.00 2.73
327 342 2.928116 GCAGTCCATAGTTGAACCGTAC 59.072 50.000 0.00 0.00 0.00 3.67
328 343 2.829720 AGCAGTCCATAGTTGAACCGTA 59.170 45.455 0.00 0.00 0.00 4.02
329 344 1.623811 AGCAGTCCATAGTTGAACCGT 59.376 47.619 0.00 0.00 0.00 4.83
331 346 4.402793 TCTCTAGCAGTCCATAGTTGAACC 59.597 45.833 0.00 0.00 0.00 3.62
332 347 5.584253 TCTCTAGCAGTCCATAGTTGAAC 57.416 43.478 0.00 0.00 0.00 3.18
333 348 5.393135 CGTTCTCTAGCAGTCCATAGTTGAA 60.393 44.000 0.00 0.00 0.00 2.69
335 350 4.355437 CGTTCTCTAGCAGTCCATAGTTG 58.645 47.826 0.00 0.00 0.00 3.16
336 351 3.381908 CCGTTCTCTAGCAGTCCATAGTT 59.618 47.826 0.00 0.00 0.00 2.24
337 352 2.952978 CCGTTCTCTAGCAGTCCATAGT 59.047 50.000 0.00 0.00 0.00 2.12
338 353 3.215151 TCCGTTCTCTAGCAGTCCATAG 58.785 50.000 0.00 0.00 0.00 2.23
339 354 3.118000 TCTCCGTTCTCTAGCAGTCCATA 60.118 47.826 0.00 0.00 0.00 2.74
341 356 1.004394 TCTCCGTTCTCTAGCAGTCCA 59.996 52.381 0.00 0.00 0.00 4.02
342 357 1.402613 GTCTCCGTTCTCTAGCAGTCC 59.597 57.143 0.00 0.00 0.00 3.85
343 358 1.402613 GGTCTCCGTTCTCTAGCAGTC 59.597 57.143 0.00 0.00 0.00 3.51
344 359 1.004979 AGGTCTCCGTTCTCTAGCAGT 59.995 52.381 0.00 0.00 0.00 4.40
346 361 2.239150 AGTAGGTCTCCGTTCTCTAGCA 59.761 50.000 0.00 0.00 0.00 3.49
347 362 2.921821 AGTAGGTCTCCGTTCTCTAGC 58.078 52.381 0.00 0.00 0.00 3.42
348 363 5.163632 GGAAAAGTAGGTCTCCGTTCTCTAG 60.164 48.000 0.00 0.00 0.00 2.43
349 364 4.704057 GGAAAAGTAGGTCTCCGTTCTCTA 59.296 45.833 0.00 0.00 0.00 2.43
356 371 1.403780 CGGTGGAAAAGTAGGTCTCCG 60.404 57.143 0.00 0.00 0.00 4.63
357 372 1.622312 ACGGTGGAAAAGTAGGTCTCC 59.378 52.381 0.00 0.00 0.00 3.71
408 447 2.791560 GTCTACATATCTGCGTGCTGTG 59.208 50.000 0.00 0.00 0.00 3.66
409 448 2.223829 GGTCTACATATCTGCGTGCTGT 60.224 50.000 0.00 0.00 0.00 4.40
410 449 2.398498 GGTCTACATATCTGCGTGCTG 58.602 52.381 0.00 0.00 0.00 4.41
411 450 1.341531 GGGTCTACATATCTGCGTGCT 59.658 52.381 0.00 0.00 0.00 4.40
412 451 1.784525 GGGTCTACATATCTGCGTGC 58.215 55.000 0.00 0.00 0.00 5.34
455 494 1.719117 GGAGAGAGAGACGACGCTG 59.281 63.158 0.00 0.00 0.00 5.18
457 496 2.704616 CGGAGAGAGAGACGACGC 59.295 66.667 0.00 0.00 0.00 5.19
458 497 1.149361 CTCCGGAGAGAGAGACGACG 61.149 65.000 28.21 0.00 43.39 5.12
459 498 0.176219 TCTCCGGAGAGAGAGACGAC 59.824 60.000 30.49 0.00 44.42 4.34
460 499 2.593128 TCTCCGGAGAGAGAGACGA 58.407 57.895 30.49 4.98 44.42 4.20
518 559 4.729170 GCGAACCGTAGACTAAACTAGGAC 60.729 50.000 0.00 0.00 32.24 3.85
526 567 0.729116 CGGAGCGAACCGTAGACTAA 59.271 55.000 11.54 0.00 46.70 2.24
539 580 0.738975 TGATGACTAGGAACGGAGCG 59.261 55.000 0.00 0.00 0.00 5.03
545 586 1.559682 TGGCCCTTGATGACTAGGAAC 59.440 52.381 0.00 0.00 40.51 3.62
587 634 3.093449 GCTGCTTCGTTGCGTTGC 61.093 61.111 0.00 0.00 35.36 4.17
588 635 2.427410 GGCTGCTTCGTTGCGTTG 60.427 61.111 0.00 0.00 35.36 4.10
589 636 2.896801 CTGGCTGCTTCGTTGCGTT 61.897 57.895 0.00 0.00 35.36 4.84
590 637 3.349006 CTGGCTGCTTCGTTGCGT 61.349 61.111 0.00 0.00 35.36 5.24
591 638 4.093952 CCTGGCTGCTTCGTTGCG 62.094 66.667 0.00 0.00 35.36 4.85
652 700 4.463879 CTGCTGACCCGGCTGAGG 62.464 72.222 0.00 0.00 36.94 3.86
707 761 4.710167 GGTGGGAAACGGGTCCGG 62.710 72.222 14.25 0.00 44.69 5.14
709 763 2.864378 GATCGGTGGGAAACGGGTCC 62.864 65.000 0.00 0.00 34.07 4.46
710 764 1.449070 GATCGGTGGGAAACGGGTC 60.449 63.158 0.00 0.00 32.74 4.46
711 765 2.666812 GATCGGTGGGAAACGGGT 59.333 61.111 0.00 0.00 0.00 5.28
760 819 2.970639 CGGAGTGAAGAAGGGCGA 59.029 61.111 0.00 0.00 0.00 5.54
764 823 1.376037 GTGGGCGGAGTGAAGAAGG 60.376 63.158 0.00 0.00 0.00 3.46
767 826 3.319198 GGGTGGGCGGAGTGAAGA 61.319 66.667 0.00 0.00 0.00 2.87
796 855 3.128349 AGTACCGTACAAGTGCAACAAG 58.872 45.455 11.26 0.00 41.43 3.16
803 862 5.293079 GGAGTAGAGTAGTACCGTACAAGTG 59.707 48.000 11.26 0.00 0.00 3.16
805 864 4.813697 GGGAGTAGAGTAGTACCGTACAAG 59.186 50.000 11.26 0.00 0.00 3.16
818 877 0.920271 ACGGGAGGAGGGAGTAGAGT 60.920 60.000 0.00 0.00 0.00 3.24
819 878 1.072648 CTACGGGAGGAGGGAGTAGAG 59.927 61.905 0.00 0.00 37.07 2.43
820 879 1.138568 CTACGGGAGGAGGGAGTAGA 58.861 60.000 0.00 0.00 37.07 2.59
835 899 4.972440 GGCGGTGTTAAATAGAGTACTACG 59.028 45.833 0.00 0.00 0.00 3.51
836 900 5.284864 GGGCGGTGTTAAATAGAGTACTAC 58.715 45.833 0.00 0.00 0.00 2.73
837 901 4.342092 GGGGCGGTGTTAAATAGAGTACTA 59.658 45.833 0.00 0.00 0.00 1.82
838 902 3.133542 GGGGCGGTGTTAAATAGAGTACT 59.866 47.826 0.00 0.00 0.00 2.73
839 903 3.461061 GGGGCGGTGTTAAATAGAGTAC 58.539 50.000 0.00 0.00 0.00 2.73
840 904 2.435437 GGGGGCGGTGTTAAATAGAGTA 59.565 50.000 0.00 0.00 0.00 2.59
841 905 1.211212 GGGGGCGGTGTTAAATAGAGT 59.789 52.381 0.00 0.00 0.00 3.24
842 906 1.210967 TGGGGGCGGTGTTAAATAGAG 59.789 52.381 0.00 0.00 0.00 2.43
843 907 1.065272 GTGGGGGCGGTGTTAAATAGA 60.065 52.381 0.00 0.00 0.00 1.98
878 942 1.547675 GGTGGTGCTTGGAATGAAGGA 60.548 52.381 0.00 0.00 0.00 3.36
961 1036 1.448717 GGCTTCTTGTCTCTCCGCC 60.449 63.158 0.00 0.00 0.00 6.13
963 1038 1.719600 CTTGGCTTCTTGTCTCTCCG 58.280 55.000 0.00 0.00 0.00 4.63
964 1039 1.447945 GCTTGGCTTCTTGTCTCTCC 58.552 55.000 0.00 0.00 0.00 3.71
965 1040 1.271054 TGGCTTGGCTTCTTGTCTCTC 60.271 52.381 0.00 0.00 0.00 3.20
967 1042 0.877743 GTGGCTTGGCTTCTTGTCTC 59.122 55.000 0.00 0.00 0.00 3.36
968 1043 0.538287 GGTGGCTTGGCTTCTTGTCT 60.538 55.000 0.00 0.00 0.00 3.41
969 1044 1.856265 CGGTGGCTTGGCTTCTTGTC 61.856 60.000 0.00 0.00 0.00 3.18
970 1045 1.898574 CGGTGGCTTGGCTTCTTGT 60.899 57.895 0.00 0.00 0.00 3.16
971 1046 2.956987 CGGTGGCTTGGCTTCTTG 59.043 61.111 0.00 0.00 0.00 3.02
972 1047 2.985847 GCGGTGGCTTGGCTTCTT 60.986 61.111 0.00 0.00 35.83 2.52
1164 1239 5.312079 AGACCAAGTGAATGAAAGGAAGAG 58.688 41.667 0.00 0.00 0.00 2.85
1180 1255 0.175989 GTAAGGAGGCGGAGACCAAG 59.824 60.000 0.00 0.00 31.70 3.61
1183 1258 2.806237 CGTAAGGAGGCGGAGACC 59.194 66.667 0.00 0.00 31.70 3.85
1220 1300 2.095718 GGCAAACGGTCAGAAATCAGTC 60.096 50.000 0.00 0.00 0.00 3.51
1254 1342 0.813184 CTTAACCGACTCCACGCCTA 59.187 55.000 0.00 0.00 0.00 3.93
1598 1686 4.512198 ACTCCATATAACAGAGTCGTCGAG 59.488 45.833 0.00 0.00 36.06 4.04
1599 1687 4.449131 ACTCCATATAACAGAGTCGTCGA 58.551 43.478 0.00 0.00 36.06 4.20
1600 1688 4.815040 ACTCCATATAACAGAGTCGTCG 57.185 45.455 0.00 0.00 36.06 5.12
1601 1689 6.864360 ACTACTCCATATAACAGAGTCGTC 57.136 41.667 6.08 0.00 41.09 4.20
1602 1690 7.992033 ACTAACTACTCCATATAACAGAGTCGT 59.008 37.037 6.08 4.48 41.09 4.34
1612 1717 8.358148 GCTGCAAGTAACTAACTACTCCATATA 58.642 37.037 0.00 0.00 37.50 0.86
1618 1723 4.865365 CAGGCTGCAAGTAACTAACTACTC 59.135 45.833 0.00 0.00 37.50 2.59
1619 1724 4.822026 CAGGCTGCAAGTAACTAACTACT 58.178 43.478 0.00 0.00 37.50 2.57
1620 1725 3.371285 GCAGGCTGCAAGTAACTAACTAC 59.629 47.826 33.33 0.00 44.26 2.73
1621 1726 3.596214 GCAGGCTGCAAGTAACTAACTA 58.404 45.455 33.33 0.00 44.26 2.24
1638 1743 2.408271 TCATTTAGAGCACCTGCAGG 57.592 50.000 31.60 31.60 45.16 4.85
1639 1744 3.603532 TCTTCATTTAGAGCACCTGCAG 58.396 45.455 6.78 6.78 45.16 4.41
1640 1745 3.701205 TCTTCATTTAGAGCACCTGCA 57.299 42.857 0.00 0.00 45.16 4.41
1641 1746 5.338365 CAAATCTTCATTTAGAGCACCTGC 58.662 41.667 0.00 0.00 34.33 4.85
1642 1747 5.416952 ACCAAATCTTCATTTAGAGCACCTG 59.583 40.000 0.00 0.00 30.51 4.00
1643 1748 5.574188 ACCAAATCTTCATTTAGAGCACCT 58.426 37.500 0.00 0.00 30.51 4.00
1644 1749 5.649831 AGACCAAATCTTCATTTAGAGCACC 59.350 40.000 0.00 0.00 31.62 5.01
1699 1804 0.393944 AGCGTCACCGTCTCCTGATA 60.394 55.000 0.00 0.00 36.15 2.15
1710 1815 1.086634 GCCTGATCTTGAGCGTCACC 61.087 60.000 0.00 0.00 0.00 4.02
1764 1869 1.595609 CTTTGATCTTGTTGACGCGC 58.404 50.000 5.73 0.00 0.00 6.86
1787 1892 5.064707 GGCCAAAAAGAAGAAACAGAAAACC 59.935 40.000 0.00 0.00 0.00 3.27
1803 1908 2.353605 GGAATGAATCTGCGGCCAAAAA 60.354 45.455 2.24 0.00 0.00 1.94
1832 1937 8.521176 CAAGATTCAACTGAATGATTCCTTCTT 58.479 33.333 9.63 2.94 44.14 2.52
1881 1986 6.629252 GCGTAGAAACAAAACAAGAGAAGAAG 59.371 38.462 0.00 0.00 0.00 2.85
1882 1987 6.092944 TGCGTAGAAACAAAACAAGAGAAGAA 59.907 34.615 0.00 0.00 0.00 2.52
1883 1988 5.583061 TGCGTAGAAACAAAACAAGAGAAGA 59.417 36.000 0.00 0.00 0.00 2.87
1884 1989 5.806286 TGCGTAGAAACAAAACAAGAGAAG 58.194 37.500 0.00 0.00 0.00 2.85
2066 2171 2.616765 GCCCTTGTCCTTCTTCTTCTCC 60.617 54.545 0.00 0.00 0.00 3.71
2096 2207 1.502190 CTTCTTCTTTTCGCCGCCC 59.498 57.895 0.00 0.00 0.00 6.13
2464 2575 3.125316 CCGTGCTTCTCTGGTTTGATAAC 59.875 47.826 0.00 0.00 0.00 1.89
2465 2576 3.334691 CCGTGCTTCTCTGGTTTGATAA 58.665 45.455 0.00 0.00 0.00 1.75
2628 2743 1.799544 GAGTGCAGGGCCAAAATTTG 58.200 50.000 6.18 0.00 0.00 2.32
2657 2772 2.139917 GCCATGACAACAACGACTGTA 58.860 47.619 0.00 0.00 37.23 2.74
2661 2781 1.206578 CGGCCATGACAACAACGAC 59.793 57.895 2.24 0.00 0.00 4.34
2680 2800 1.683943 AATGGAGCACCGATTCATGG 58.316 50.000 0.00 0.00 39.42 3.66
2709 2829 3.712881 GACGCGCCACCAGTTCAC 61.713 66.667 5.73 0.00 0.00 3.18
2768 3205 2.262211 GGAAGACGAAAATGGCATTGC 58.738 47.619 14.47 8.29 0.00 3.56
2835 3272 4.076394 TCGAGATAAAACAAACCCTTGGG 58.924 43.478 3.77 3.77 36.82 4.12
2880 3317 2.287069 CCTCGTCTCACGCTAATCGATT 60.287 50.000 16.15 16.15 42.21 3.34
2948 3388 0.955905 TCACGCTAGCACCGCATATA 59.044 50.000 16.45 0.00 0.00 0.86
2967 3407 8.609483 AGATATGATTAATTAGCCACACCATCT 58.391 33.333 0.00 0.00 0.00 2.90
2996 3436 2.032178 GGATCAGCGCTAAACAATGGAC 59.968 50.000 10.99 0.00 0.00 4.02
2997 3437 2.288666 GGATCAGCGCTAAACAATGGA 58.711 47.619 10.99 0.00 0.00 3.41
3013 3453 0.179000 AGAACATGACAGGGCGGATC 59.821 55.000 0.00 0.00 0.00 3.36
3019 3459 0.518636 CACGCAAGAACATGACAGGG 59.481 55.000 0.00 1.86 43.62 4.45
3021 3461 1.229428 ACCACGCAAGAACATGACAG 58.771 50.000 0.00 0.00 43.62 3.51
3092 3532 8.664669 ATGGTTAAAATAACTTGAACATCCCT 57.335 30.769 0.80 0.00 0.00 4.20
3119 3559 1.136529 CGCTGTCAGATGAAACACACG 60.137 52.381 3.32 0.00 0.00 4.49
3178 3632 7.634210 GCACATAGTAAAACACCATCCCTACTA 60.634 40.741 0.00 0.00 0.00 1.82
3196 3650 1.586154 GCCGCAAACCAGCACATAGT 61.586 55.000 0.00 0.00 0.00 2.12
3235 3689 0.177604 CAGAAGCTCCTAGGCACAGG 59.822 60.000 2.96 0.00 37.00 4.00
3237 3691 1.189752 CTCAGAAGCTCCTAGGCACA 58.810 55.000 2.96 0.00 34.17 4.57
3253 3707 5.874810 GCCACTTGTACAACTATCAATCTCA 59.125 40.000 3.59 0.00 0.00 3.27
3265 3722 1.817740 GCCCTTGAGCCACTTGTACAA 60.818 52.381 8.28 8.28 0.00 2.41
3267 3724 1.298859 CGCCCTTGAGCCACTTGTAC 61.299 60.000 0.00 0.00 0.00 2.90
3279 3736 0.669318 ACACATGTCGTACGCCCTTG 60.669 55.000 11.24 13.47 0.00 3.61
3280 3737 0.889994 TACACATGTCGTACGCCCTT 59.110 50.000 11.24 0.00 0.00 3.95
3281 3738 0.454600 CTACACATGTCGTACGCCCT 59.545 55.000 11.24 0.00 0.00 5.19
3282 3739 0.526954 CCTACACATGTCGTACGCCC 60.527 60.000 11.24 4.00 0.00 6.13
3283 3740 0.452987 TCCTACACATGTCGTACGCC 59.547 55.000 11.24 0.00 0.00 5.68
3284 3741 2.267188 TTCCTACACATGTCGTACGC 57.733 50.000 11.24 6.57 0.00 4.42
3285 3742 2.919229 GGTTTCCTACACATGTCGTACG 59.081 50.000 9.53 9.53 0.00 3.67
3286 3743 2.919229 CGGTTTCCTACACATGTCGTAC 59.081 50.000 0.00 0.00 0.00 3.67
3291 3748 1.337447 CGACCGGTTTCCTACACATGT 60.337 52.381 9.42 0.00 0.00 3.21
3310 3767 2.159379 TCTCATTGTGTGTCCGAGATCG 60.159 50.000 0.00 0.00 39.44 3.69
3313 3770 1.960689 TGTCTCATTGTGTGTCCGAGA 59.039 47.619 0.00 0.00 0.00 4.04
3314 3771 2.438868 TGTCTCATTGTGTGTCCGAG 57.561 50.000 0.00 0.00 0.00 4.63
3317 3774 2.942376 TGTGTTGTCTCATTGTGTGTCC 59.058 45.455 0.00 0.00 0.00 4.02
3341 3798 4.882671 ATCTATTCGTGTGTTGGAATGC 57.117 40.909 0.00 0.00 34.82 3.56
3342 3799 7.919690 ACATAATCTATTCGTGTGTTGGAATG 58.080 34.615 0.00 0.00 34.82 2.67
3343 3800 8.506168 AACATAATCTATTCGTGTGTTGGAAT 57.494 30.769 0.00 0.00 36.82 3.01
3344 3801 7.915293 AACATAATCTATTCGTGTGTTGGAA 57.085 32.000 0.00 0.00 0.00 3.53
3345 3802 9.438228 TTTAACATAATCTATTCGTGTGTTGGA 57.562 29.630 0.00 0.00 31.57 3.53


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

AutoCloner maintained by Alex Coulton.