Multiple sequence alignment - TraesCS3D01G514400

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 TraesCS3D01G514400 chr3D 100.000 3395 0 0 1 3395 598059797 598063191 0.000000e+00 6270.0
1 TraesCS3D01G514400 chr3D 86.292 1583 171 31 708 2278 598049588 598048040 0.000000e+00 1679.0
2 TraesCS3D01G514400 chr3D 83.532 838 79 23 2512 3323 47355896 47356700 0.000000e+00 728.0
3 TraesCS3D01G514400 chr3D 88.889 63 4 2 707 767 598057948 598057887 1.310000e-09 75.0
4 TraesCS3D01G514400 chr3A 95.528 1297 58 0 1022 2318 728056517 728057813 0.000000e+00 2074.0
5 TraesCS3D01G514400 chr3A 86.557 1458 168 23 838 2278 729690400 729691846 0.000000e+00 1581.0
6 TraesCS3D01G514400 chr3A 86.389 1462 167 25 838 2278 728018870 728017420 0.000000e+00 1568.0
7 TraesCS3D01G514400 chr3A 87.255 1224 134 18 1088 2294 728384618 728385836 0.000000e+00 1376.0
8 TraesCS3D01G514400 chr3A 89.906 1060 107 0 1219 2278 728033570 728032511 0.000000e+00 1365.0
9 TraesCS3D01G514400 chr3A 85.061 1225 164 14 1088 2297 728458187 728456967 0.000000e+00 1230.0
10 TraesCS3D01G514400 chr3A 95.691 673 29 0 1 673 728051388 728052060 0.000000e+00 1083.0
11 TraesCS3D01G514400 chr3A 87.188 320 21 8 689 1002 728054250 728054555 2.510000e-91 346.0
12 TraesCS3D01G514400 chr3A 86.869 198 10 7 707 901 728049526 728049342 1.230000e-49 207.0
13 TraesCS3D01G514400 chr3A 87.845 181 9 6 2327 2507 728069574 728069741 2.070000e-47 200.0
14 TraesCS3D01G514400 chr3A 72.423 388 82 22 2778 3149 118450200 118449822 2.160000e-17 100.0
15 TraesCS3D01G514400 chr3B 85.679 1613 175 34 708 2302 805005018 805003444 0.000000e+00 1648.0
16 TraesCS3D01G514400 chr3B 85.224 1225 162 15 1088 2297 805425853 805424633 0.000000e+00 1242.0
17 TraesCS3D01G514400 chr3B 83.981 206 24 5 3 200 804977788 804977992 4.470000e-44 189.0
18 TraesCS3D01G514400 chr6D 84.493 877 94 27 2515 3385 57902553 57901713 0.000000e+00 828.0
19 TraesCS3D01G514400 chr6D 74.247 365 66 22 2756 3109 345312045 345312392 9.890000e-26 128.0
20 TraesCS3D01G514400 chr6D 75.728 206 37 12 2910 3109 93758535 93758733 1.300000e-14 91.6
21 TraesCS3D01G514400 chr2A 83.630 898 93 29 2514 3385 164610182 164609313 0.000000e+00 795.0
22 TraesCS3D01G514400 chr7B 82.735 863 100 32 2514 3369 12191564 12190744 0.000000e+00 723.0
23 TraesCS3D01G514400 chr7B 75.000 348 67 17 2823 3158 547748252 547748591 3.530000e-30 143.0
24 TraesCS3D01G514400 chr7B 73.791 393 65 37 2792 3163 547748119 547748494 1.650000e-23 121.0
25 TraesCS3D01G514400 chr2B 79.724 725 115 25 2592 3297 219298843 219298132 2.350000e-136 496.0
26 TraesCS3D01G514400 chr2B 85.000 80 11 1 2783 2862 217265559 217265481 2.810000e-11 80.5
27 TraesCS3D01G514400 chrUn 85.747 442 47 7 1088 1515 42058261 42057822 1.440000e-123 453.0
28 TraesCS3D01G514400 chr4D 75.000 384 69 24 2742 3108 282027254 282027627 5.870000e-33 152.0
29 TraesCS3D01G514400 chr1D 77.917 240 36 16 2797 3026 462150113 462150345 2.130000e-27 134.0
30 TraesCS3D01G514400 chr7D 76.585 205 31 13 2969 3168 386051410 386051218 2.790000e-16 97.1


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3D01G514400 chr3D 598059797 598063191 3394 False 6270.000000 6270 100.000000 1 3395 1 chr3D.!!$F2 3394
1 TraesCS3D01G514400 chr3D 598048040 598049588 1548 True 1679.000000 1679 86.292000 708 2278 1 chr3D.!!$R1 1570
2 TraesCS3D01G514400 chr3D 47355896 47356700 804 False 728.000000 728 83.532000 2512 3323 1 chr3D.!!$F1 811
3 TraesCS3D01G514400 chr3A 729690400 729691846 1446 False 1581.000000 1581 86.557000 838 2278 1 chr3A.!!$F3 1440
4 TraesCS3D01G514400 chr3A 728017420 728018870 1450 True 1568.000000 1568 86.389000 838 2278 1 chr3A.!!$R2 1440
5 TraesCS3D01G514400 chr3A 728384618 728385836 1218 False 1376.000000 1376 87.255000 1088 2294 1 chr3A.!!$F2 1206
6 TraesCS3D01G514400 chr3A 728032511 728033570 1059 True 1365.000000 1365 89.906000 1219 2278 1 chr3A.!!$R3 1059
7 TraesCS3D01G514400 chr3A 728456967 728458187 1220 True 1230.000000 1230 85.061000 1088 2297 1 chr3A.!!$R5 1209
8 TraesCS3D01G514400 chr3A 728051388 728057813 6425 False 1167.666667 2074 92.802333 1 2318 3 chr3A.!!$F4 2317
9 TraesCS3D01G514400 chr3B 805003444 805005018 1574 True 1648.000000 1648 85.679000 708 2302 1 chr3B.!!$R1 1594
10 TraesCS3D01G514400 chr3B 805424633 805425853 1220 True 1242.000000 1242 85.224000 1088 2297 1 chr3B.!!$R2 1209
11 TraesCS3D01G514400 chr6D 57901713 57902553 840 True 828.000000 828 84.493000 2515 3385 1 chr6D.!!$R1 870
12 TraesCS3D01G514400 chr2A 164609313 164610182 869 True 795.000000 795 83.630000 2514 3385 1 chr2A.!!$R1 871
13 TraesCS3D01G514400 chr7B 12190744 12191564 820 True 723.000000 723 82.735000 2514 3369 1 chr7B.!!$R1 855
14 TraesCS3D01G514400 chr2B 219298132 219298843 711 True 496.000000 496 79.724000 2592 3297 1 chr2B.!!$R2 705

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
642 643 0.108567 GGTGGGAAAGAGAGAGCGTC 60.109 60.0 0.0 0.0 0.00 5.19 F
1668 5850 0.323908 CCTCTTGGACGAGGTCTCCT 60.324 60.0 0.0 0.0 44.49 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2346 6528 0.036732 TGTTACCTTCTGCAGCCCTG 59.963 55.0 9.47 0.0 0.0 4.45 R
2481 6663 0.110823 AATTCGTTCGTTCGCTGTGC 60.111 50.0 0.00 0.0 0.0 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 6.986817 CCATTTAGATGAGACGTGTTTCCTAT 59.013 38.462 0.00 0.00 35.16 2.57
105 106 6.206634 TGGACTTGTTTGGAATATGACTGAAC 59.793 38.462 0.00 0.00 0.00 3.18
178 179 6.090129 GGCACGTAATGTCATTTATGTTTGT 58.910 36.000 2.79 0.00 30.68 2.83
200 201 5.874810 TGTAGAGTTGCAACATACTTCATCC 59.125 40.000 30.11 11.06 0.00 3.51
203 204 5.948162 AGAGTTGCAACATACTTCATCCATT 59.052 36.000 30.11 5.13 0.00 3.16
295 296 2.427095 GGACATGCAATTAGGTTGGGAC 59.573 50.000 0.00 0.00 38.29 4.46
298 299 0.693622 TGCAATTAGGTTGGGACGGA 59.306 50.000 0.00 0.00 38.29 4.69
320 321 3.935203 AGCAAATTACATGTCGAGAGTGG 59.065 43.478 0.00 0.00 0.00 4.00
329 330 1.069978 TGTCGAGAGTGGATGTGCAAA 59.930 47.619 0.00 0.00 0.00 3.68
519 520 5.003160 CAGATCGATCCTAGATCACTCACT 58.997 45.833 21.66 0.00 45.05 3.41
520 521 5.003160 AGATCGATCCTAGATCACTCACTG 58.997 45.833 21.66 0.00 45.05 3.66
550 551 2.362397 TGTCCTACCATCTCTTCATCGC 59.638 50.000 0.00 0.00 0.00 4.58
569 570 1.213094 CGTGAACAAGAGCGAACCGT 61.213 55.000 0.00 0.00 0.00 4.83
601 602 5.421056 CCCTTTATACTCACCACACACTCTA 59.579 44.000 0.00 0.00 0.00 2.43
604 605 6.510879 TTATACTCACCACACACTCTACTG 57.489 41.667 0.00 0.00 0.00 2.74
642 643 0.108567 GGTGGGAAAGAGAGAGCGTC 60.109 60.000 0.00 0.00 0.00 5.19
645 646 0.526662 GGGAAAGAGAGAGCGTCGAA 59.473 55.000 0.00 0.00 0.00 3.71
650 651 0.394488 AGAGAGAGCGTCGAATGGGA 60.394 55.000 0.00 0.00 0.00 4.37
662 663 4.436050 CGTCGAATGGGAGTGAAAAGAATG 60.436 45.833 0.00 0.00 0.00 2.67
695 2870 3.565482 TGAGTTGACTCTTCCAACAATGC 59.435 43.478 12.00 0.00 44.54 3.56
769 2954 2.257894 CAGAAAAACAACAACAGCGCA 58.742 42.857 11.47 0.00 0.00 6.09
770 2955 2.859538 CAGAAAAACAACAACAGCGCAT 59.140 40.909 11.47 0.00 0.00 4.73
801 2986 1.669795 CCAAATGGCCACGAAAGAAGC 60.670 52.381 8.16 0.00 0.00 3.86
802 2987 1.270550 CAAATGGCCACGAAAGAAGCT 59.729 47.619 8.16 0.00 34.10 3.74
829 3015 1.066914 GCAGCACTTCTCGAGTTGAG 58.933 55.000 13.13 11.38 46.72 3.02
838 3024 7.916450 AGCACTTCTCGAGTTGAGTAATATTAC 59.084 37.037 16.44 16.44 45.46 1.89
898 3088 6.384258 TCTGTTGCTAGCTAGTCTATCTTG 57.616 41.667 21.62 5.86 0.00 3.02
903 3093 6.775594 TGCTAGCTAGTCTATCTTGTTTCA 57.224 37.500 21.62 3.92 0.00 2.69
923 3125 5.142061 TCAAGTAAATTGCTGGTCTACGA 57.858 39.130 0.00 0.00 38.89 3.43
924 3126 4.927425 TCAAGTAAATTGCTGGTCTACGAC 59.073 41.667 0.00 0.00 38.89 4.34
925 3127 3.508762 AGTAAATTGCTGGTCTACGACG 58.491 45.455 0.00 0.00 32.65 5.12
926 3128 2.450609 AAATTGCTGGTCTACGACGT 57.549 45.000 5.52 5.52 32.65 4.34
951 3153 1.131826 GCGTCATTGCACACGTACC 59.868 57.895 12.26 0.00 38.32 3.34
964 3167 2.223829 ACACGTACCAGCTCATCATAGC 60.224 50.000 0.00 0.00 43.11 2.97
966 3169 1.615883 CGTACCAGCTCATCATAGCCT 59.384 52.381 0.00 0.00 43.86 4.58
1051 5208 1.888215 CTTCTCCTTGCTGCTTCACA 58.112 50.000 0.00 0.00 0.00 3.58
1232 5403 3.203442 GTGGACATACTCCCGCGA 58.797 61.111 8.23 0.00 38.49 5.87
1235 5406 1.065928 GGACATACTCCCGCGACAG 59.934 63.158 8.23 4.99 31.83 3.51
1332 5511 2.125952 CCGTCACGCATCTGCAGA 60.126 61.111 20.79 20.79 42.21 4.26
1668 5850 0.323908 CCTCTTGGACGAGGTCTCCT 60.324 60.000 0.00 0.00 44.49 3.69
1697 5879 4.681978 GCCGTCAGCTGGTCCGTT 62.682 66.667 15.13 0.00 38.99 4.44
1893 6075 3.453070 GAGATCTGGGCTGCCGTCC 62.453 68.421 13.40 0.00 34.70 4.79
2017 6199 1.651770 AGGGTATGAGGGAGAGGACAA 59.348 52.381 0.00 0.00 0.00 3.18
2055 6237 4.883354 CCATGGCGGGGAAGGAGC 62.883 72.222 0.00 0.00 0.00 4.70
2091 6273 2.454336 TCTCCGGGAGAATGAGCTTA 57.546 50.000 24.17 0.00 35.59 3.09
2318 6500 9.775539 ATCTAGTCCCATGCTATAATCTAGAAA 57.224 33.333 0.00 0.00 37.03 2.52
2319 6501 9.601810 TCTAGTCCCATGCTATAATCTAGAAAA 57.398 33.333 0.00 0.00 32.68 2.29
2322 6504 8.938883 AGTCCCATGCTATAATCTAGAAAAAGA 58.061 33.333 0.00 0.00 0.00 2.52
2323 6505 9.561069 GTCCCATGCTATAATCTAGAAAAAGAA 57.439 33.333 0.00 0.00 0.00 2.52
2341 6523 9.331106 GAAAAAGAAAAAGAATAAGCTAGGACG 57.669 33.333 0.00 0.00 0.00 4.79
2342 6524 6.986904 AAGAAAAAGAATAAGCTAGGACGG 57.013 37.500 0.00 0.00 0.00 4.79
2343 6525 4.876679 AGAAAAAGAATAAGCTAGGACGGC 59.123 41.667 0.00 0.00 0.00 5.68
2344 6526 2.510768 AAGAATAAGCTAGGACGGCG 57.489 50.000 4.80 4.80 34.52 6.46
2345 6527 0.674534 AGAATAAGCTAGGACGGCGG 59.325 55.000 13.24 0.00 34.52 6.13
2346 6528 0.944788 GAATAAGCTAGGACGGCGGC 60.945 60.000 13.24 8.60 34.52 6.53
2347 6529 1.682451 AATAAGCTAGGACGGCGGCA 61.682 55.000 17.61 0.00 34.52 5.69
2348 6530 2.088674 ATAAGCTAGGACGGCGGCAG 62.089 60.000 17.61 5.13 34.52 4.85
2364 6546 2.859992 CAGGGCTGCAGAAGGTAAC 58.140 57.895 20.43 0.00 0.00 2.50
2365 6547 0.036732 CAGGGCTGCAGAAGGTAACA 59.963 55.000 20.43 0.00 41.41 2.41
2366 6548 0.995024 AGGGCTGCAGAAGGTAACAT 59.005 50.000 20.43 0.00 41.41 2.71
2367 6549 1.098050 GGGCTGCAGAAGGTAACATG 58.902 55.000 20.43 0.00 41.41 3.21
2368 6550 1.098050 GGCTGCAGAAGGTAACATGG 58.902 55.000 20.43 0.00 41.41 3.66
2369 6551 1.614317 GGCTGCAGAAGGTAACATGGT 60.614 52.381 20.43 0.00 41.41 3.55
2370 6552 2.162681 GCTGCAGAAGGTAACATGGTT 58.837 47.619 20.43 0.00 41.41 3.67
2371 6553 2.095059 GCTGCAGAAGGTAACATGGTTG 60.095 50.000 20.43 0.00 41.41 3.77
2372 6554 1.885887 TGCAGAAGGTAACATGGTTGC 59.114 47.619 0.00 0.00 41.41 4.17
2373 6555 2.162681 GCAGAAGGTAACATGGTTGCT 58.837 47.619 0.00 0.00 41.41 3.91
2374 6556 2.162408 GCAGAAGGTAACATGGTTGCTC 59.838 50.000 0.00 0.00 41.41 4.26
2375 6557 2.416547 CAGAAGGTAACATGGTTGCTCG 59.583 50.000 0.00 0.00 41.41 5.03
2376 6558 1.737793 GAAGGTAACATGGTTGCTCGG 59.262 52.381 0.00 0.00 41.41 4.63
2377 6559 0.981183 AGGTAACATGGTTGCTCGGA 59.019 50.000 0.00 0.00 41.41 4.55
2378 6560 1.349688 AGGTAACATGGTTGCTCGGAA 59.650 47.619 0.00 0.00 41.41 4.30
2379 6561 1.467342 GGTAACATGGTTGCTCGGAAC 59.533 52.381 0.00 0.00 0.00 3.62
2394 6576 2.005971 GGAACGTGACCTATTTCGCT 57.994 50.000 0.00 0.00 0.00 4.93
2395 6577 2.344025 GGAACGTGACCTATTTCGCTT 58.656 47.619 0.00 0.00 0.00 4.68
2396 6578 2.740447 GGAACGTGACCTATTTCGCTTT 59.260 45.455 0.00 0.00 0.00 3.51
2397 6579 3.181523 GGAACGTGACCTATTTCGCTTTC 60.182 47.826 0.00 0.00 34.91 2.62
2398 6580 1.990563 ACGTGACCTATTTCGCTTTCG 59.009 47.619 0.00 0.00 0.00 3.46
2399 6581 1.266891 CGTGACCTATTTCGCTTTCGC 60.267 52.381 0.00 0.00 35.26 4.70
2414 6596 5.830900 GCTTTCGCGTCAATCTTATATCT 57.169 39.130 5.77 0.00 0.00 1.98
2415 6597 5.838127 GCTTTCGCGTCAATCTTATATCTC 58.162 41.667 5.77 0.00 0.00 2.75
2416 6598 5.631512 GCTTTCGCGTCAATCTTATATCTCT 59.368 40.000 5.77 0.00 0.00 3.10
2417 6599 6.183359 GCTTTCGCGTCAATCTTATATCTCTC 60.183 42.308 5.77 0.00 0.00 3.20
2418 6600 5.298197 TCGCGTCAATCTTATATCTCTCC 57.702 43.478 5.77 0.00 0.00 3.71
2419 6601 4.760204 TCGCGTCAATCTTATATCTCTCCA 59.240 41.667 5.77 0.00 0.00 3.86
2420 6602 5.416013 TCGCGTCAATCTTATATCTCTCCAT 59.584 40.000 5.77 0.00 0.00 3.41
2421 6603 5.741510 CGCGTCAATCTTATATCTCTCCATC 59.258 44.000 0.00 0.00 0.00 3.51
2422 6604 6.039616 GCGTCAATCTTATATCTCTCCATCC 58.960 44.000 0.00 0.00 0.00 3.51
2423 6605 6.261859 CGTCAATCTTATATCTCTCCATCCG 58.738 44.000 0.00 0.00 0.00 4.18
2424 6606 6.127869 CGTCAATCTTATATCTCTCCATCCGT 60.128 42.308 0.00 0.00 0.00 4.69
2425 6607 7.575909 CGTCAATCTTATATCTCTCCATCCGTT 60.576 40.741 0.00 0.00 0.00 4.44
2426 6608 8.091449 GTCAATCTTATATCTCTCCATCCGTTT 58.909 37.037 0.00 0.00 0.00 3.60
2427 6609 8.651389 TCAATCTTATATCTCTCCATCCGTTTT 58.349 33.333 0.00 0.00 0.00 2.43
2428 6610 8.930760 CAATCTTATATCTCTCCATCCGTTTTC 58.069 37.037 0.00 0.00 0.00 2.29
2429 6611 6.678878 TCTTATATCTCTCCATCCGTTTTCG 58.321 40.000 0.00 0.00 43.67 3.46
2430 6612 4.939052 ATATCTCTCCATCCGTTTTCGT 57.061 40.909 0.00 0.00 42.35 3.85
2431 6613 7.446319 TCTTATATCTCTCCATCCGTTTTCGTA 59.554 37.037 0.00 0.00 42.35 3.43
2432 6614 4.939052 ATCTCTCCATCCGTTTTCGTAT 57.061 40.909 0.00 0.00 42.35 3.06
2433 6615 7.698506 ATATCTCTCCATCCGTTTTCGTATA 57.301 36.000 0.00 0.00 42.35 1.47
2434 6616 5.179045 TCTCTCCATCCGTTTTCGTATAC 57.821 43.478 0.00 0.00 42.35 1.47
2435 6617 3.956233 TCTCCATCCGTTTTCGTATACG 58.044 45.455 19.23 19.23 42.35 3.06
2436 6618 3.378112 TCTCCATCCGTTTTCGTATACGT 59.622 43.478 23.67 0.00 42.35 3.57
2437 6619 3.694734 TCCATCCGTTTTCGTATACGTC 58.305 45.455 23.67 12.21 42.35 4.34
2438 6620 2.465109 CCATCCGTTTTCGTATACGTCG 59.535 50.000 23.67 20.79 42.35 5.12
2439 6621 2.172593 TCCGTTTTCGTATACGTCGG 57.827 50.000 28.36 28.36 42.35 4.79
2440 6622 1.466950 TCCGTTTTCGTATACGTCGGT 59.533 47.619 30.27 0.00 42.35 4.69
2441 6623 1.840141 CCGTTTTCGTATACGTCGGTC 59.160 52.381 27.18 16.25 42.35 4.79
2442 6624 2.476185 CCGTTTTCGTATACGTCGGTCT 60.476 50.000 27.18 0.00 42.35 3.85
2443 6625 3.163594 CGTTTTCGTATACGTCGGTCTT 58.836 45.455 23.67 0.00 40.80 3.01
2444 6626 3.236078 CGTTTTCGTATACGTCGGTCTTC 59.764 47.826 23.67 7.73 40.80 2.87
2445 6627 3.405170 TTTCGTATACGTCGGTCTTCC 57.595 47.619 23.67 0.00 40.80 3.46
2447 6629 2.399133 TCGTATACGTCGGTCTTCCGG 61.399 57.143 23.67 0.00 46.49 5.14
2457 6639 1.997669 GGTCTTCCGGCATCGATATC 58.002 55.000 0.00 0.00 39.00 1.63
2458 6640 1.272490 GGTCTTCCGGCATCGATATCA 59.728 52.381 0.00 0.00 39.00 2.15
2459 6641 2.329379 GTCTTCCGGCATCGATATCAC 58.671 52.381 0.00 0.00 39.00 3.06
2460 6642 1.068541 TCTTCCGGCATCGATATCACG 60.069 52.381 0.00 0.28 39.00 4.35
2461 6643 0.955905 TTCCGGCATCGATATCACGA 59.044 50.000 0.00 0.00 46.04 4.35
2462 6644 0.955905 TCCGGCATCGATATCACGAA 59.044 50.000 0.00 0.00 45.16 3.85
2463 6645 1.060713 CCGGCATCGATATCACGAAC 58.939 55.000 0.00 0.00 45.16 3.95
2464 6646 1.335964 CCGGCATCGATATCACGAACT 60.336 52.381 0.00 0.00 45.16 3.01
2465 6647 2.095415 CCGGCATCGATATCACGAACTA 60.095 50.000 0.00 0.00 45.16 2.24
2466 6648 2.909244 CGGCATCGATATCACGAACTAC 59.091 50.000 0.00 0.00 45.16 2.73
2467 6649 3.608474 CGGCATCGATATCACGAACTACA 60.608 47.826 0.00 0.00 45.16 2.74
2468 6650 3.669122 GGCATCGATATCACGAACTACAC 59.331 47.826 0.00 0.00 45.16 2.90
2469 6651 3.358115 GCATCGATATCACGAACTACACG 59.642 47.826 0.00 0.00 45.16 4.49
2470 6652 4.524749 CATCGATATCACGAACTACACGT 58.475 43.478 0.00 0.00 45.16 4.49
2471 6653 5.673029 CATCGATATCACGAACTACACGTA 58.327 41.667 0.00 0.00 45.16 3.57
2472 6654 5.070720 TCGATATCACGAACTACACGTAC 57.929 43.478 3.12 0.00 42.07 3.67
2473 6655 3.890821 CGATATCACGAACTACACGTACG 59.109 47.826 15.01 15.01 42.07 3.67
2474 6656 1.887320 ATCACGAACTACACGTACGC 58.113 50.000 16.72 0.00 42.07 4.42
2475 6657 0.867746 TCACGAACTACACGTACGCT 59.132 50.000 16.72 2.91 42.07 5.07
2476 6658 1.136252 TCACGAACTACACGTACGCTC 60.136 52.381 16.72 1.85 42.07 5.03
2477 6659 0.179240 ACGAACTACACGTACGCTCG 60.179 55.000 16.72 15.35 42.17 5.03
2478 6660 1.451307 CGAACTACACGTACGCTCGC 61.451 60.000 16.72 0.00 0.00 5.03
2479 6661 0.179205 GAACTACACGTACGCTCGCT 60.179 55.000 16.72 0.00 0.00 4.93
2480 6662 0.179205 AACTACACGTACGCTCGCTC 60.179 55.000 16.72 0.00 0.00 5.03
2481 6663 1.647577 CTACACGTACGCTCGCTCG 60.648 63.158 16.72 0.00 0.00 5.03
2482 6664 3.707156 TACACGTACGCTCGCTCGC 62.707 63.158 16.72 0.00 0.00 5.03
2486 6668 3.241059 GTACGCTCGCTCGCACAG 61.241 66.667 0.00 0.00 0.00 3.66
2498 6680 2.925352 GCACAGCGAACGAACGAA 59.075 55.556 9.67 0.00 35.09 3.85
2499 6681 1.491563 GCACAGCGAACGAACGAAT 59.508 52.632 9.67 0.00 35.09 3.34
2500 6682 0.110823 GCACAGCGAACGAACGAATT 60.111 50.000 9.67 0.00 35.09 2.17
2501 6683 1.580439 CACAGCGAACGAACGAATTG 58.420 50.000 9.67 6.97 35.09 2.32
2502 6684 1.191425 CACAGCGAACGAACGAATTGA 59.809 47.619 9.67 0.00 35.09 2.57
2503 6685 1.455786 ACAGCGAACGAACGAATTGAG 59.544 47.619 9.67 0.00 35.09 3.02
2504 6686 1.068474 AGCGAACGAACGAATTGAGG 58.932 50.000 9.67 0.00 35.09 3.86
2505 6687 0.788391 GCGAACGAACGAATTGAGGT 59.212 50.000 9.67 0.00 35.09 3.85
2506 6688 1.987770 GCGAACGAACGAATTGAGGTA 59.012 47.619 9.67 0.00 35.09 3.08
2507 6689 2.222442 GCGAACGAACGAATTGAGGTAC 60.222 50.000 9.67 0.00 35.09 3.34
2508 6690 2.981805 CGAACGAACGAATTGAGGTACA 59.018 45.455 0.14 0.00 35.09 2.90
2509 6691 3.611113 CGAACGAACGAATTGAGGTACAT 59.389 43.478 0.14 0.00 35.09 2.29
2510 6692 4.490319 CGAACGAACGAATTGAGGTACATG 60.490 45.833 0.14 0.00 35.09 3.21
2641 6831 9.971922 AGTTCAGTGATTTTGATAAAAAGAAGG 57.028 29.630 0.00 0.00 33.47 3.46
2661 6851 4.860072 AGGTCACGAATTTGAAAAAGAGC 58.140 39.130 0.00 0.00 0.00 4.09
2712 6904 7.221838 TGGTTCTGAAAAATGTTCAACGATTTC 59.778 33.333 0.00 5.85 0.00 2.17
3128 7363 6.019779 TCATGTATTTTGGAAAAGGGTTCG 57.980 37.500 0.00 0.00 0.00 3.95
3189 7424 4.039124 TCCAGGCATTGAAGGAAAAAGAAC 59.961 41.667 0.00 0.00 0.00 3.01
3347 7610 2.584608 CCCTGAGATCGCGGGTTT 59.415 61.111 21.34 0.00 33.16 3.27
3354 7617 2.828549 ATCGCGGGTTTGATGCCC 60.829 61.111 6.13 0.00 42.68 5.36
3355 7618 3.344137 ATCGCGGGTTTGATGCCCT 62.344 57.895 6.13 0.00 43.92 5.19
3363 7626 1.273327 GGTTTGATGCCCTTGTTCTGG 59.727 52.381 0.00 0.00 0.00 3.86
3369 7632 3.010027 TGATGCCCTTGTTCTGGACATTA 59.990 43.478 0.00 0.00 38.26 1.90
3375 7638 5.639082 GCCCTTGTTCTGGACATTATTTTTG 59.361 40.000 0.00 0.00 38.26 2.44
3376 7639 6.518200 GCCCTTGTTCTGGACATTATTTTTGA 60.518 38.462 0.00 0.00 38.26 2.69
3385 7648 9.567776 TCTGGACATTATTTTTGAGAGTTTACA 57.432 29.630 0.00 0.00 0.00 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 8.038351 TCATATGAAAATAGGAAACACGTCTCA 58.962 33.333 1.98 0.00 0.00 3.27
69 70 4.454161 CCAAACAAGTCCACGTATGATGAA 59.546 41.667 0.00 0.00 0.00 2.57
178 179 6.048732 TGGATGAAGTATGTTGCAACTCTA 57.951 37.500 28.61 17.50 0.00 2.43
185 186 9.638239 TTTTCTAAAATGGATGAAGTATGTTGC 57.362 29.630 0.00 0.00 0.00 4.17
200 201 7.765360 TCCTAGCCATGCAATTTTTCTAAAATG 59.235 33.333 0.00 0.00 0.00 2.32
203 204 6.849085 TCCTAGCCATGCAATTTTTCTAAA 57.151 33.333 0.00 0.00 0.00 1.85
250 251 1.067364 CACAACATGCAACTTGCCTCA 59.933 47.619 11.29 0.00 44.23 3.86
268 269 3.290710 ACCTAATTGCATGTCCATCCAC 58.709 45.455 0.00 0.00 0.00 4.02
295 296 3.186909 TCTCGACATGTAATTTGCTCCG 58.813 45.455 0.00 0.00 0.00 4.63
298 299 3.935203 CCACTCTCGACATGTAATTTGCT 59.065 43.478 0.00 0.00 0.00 3.91
320 321 3.466836 TCATCCGACCTATTTGCACATC 58.533 45.455 0.00 0.00 0.00 3.06
329 330 5.068636 ACACGTATAGTTCATCCGACCTAT 58.931 41.667 0.00 0.00 0.00 2.57
519 520 0.687920 TGGTAGGACAAACGGATGCA 59.312 50.000 0.00 0.00 0.00 3.96
520 521 1.940613 GATGGTAGGACAAACGGATGC 59.059 52.381 0.00 0.00 0.00 3.91
550 551 1.213094 ACGGTTCGCTCTTGTTCACG 61.213 55.000 0.00 0.00 0.00 4.35
565 566 1.553706 ATAAAGGGAGTCGACACGGT 58.446 50.000 19.50 0.00 0.00 4.83
569 570 3.698040 GGTGAGTATAAAGGGAGTCGACA 59.302 47.826 19.50 0.00 0.00 4.35
601 602 4.284178 CCTCATTCCATTTTCCATCCAGT 58.716 43.478 0.00 0.00 0.00 4.00
604 605 3.385755 CACCCTCATTCCATTTTCCATCC 59.614 47.826 0.00 0.00 0.00 3.51
642 643 3.191162 TGCATTCTTTTCACTCCCATTCG 59.809 43.478 0.00 0.00 0.00 3.34
645 646 4.559300 CGTTTGCATTCTTTTCACTCCCAT 60.559 41.667 0.00 0.00 0.00 4.00
650 651 4.576463 ACTCTCGTTTGCATTCTTTTCACT 59.424 37.500 0.00 0.00 0.00 3.41
662 663 2.473235 GAGTCAACTCACTCTCGTTTGC 59.527 50.000 5.28 0.00 42.42 3.68
673 674 3.565482 GCATTGTTGGAAGAGTCAACTCA 59.435 43.478 12.43 0.00 45.21 3.41
674 675 3.057946 GGCATTGTTGGAAGAGTCAACTC 60.058 47.826 1.79 1.79 43.36 3.01
675 676 2.887152 GGCATTGTTGGAAGAGTCAACT 59.113 45.455 8.17 0.00 43.36 3.16
676 677 2.350772 CGGCATTGTTGGAAGAGTCAAC 60.351 50.000 0.00 0.00 43.29 3.18
677 678 1.879380 CGGCATTGTTGGAAGAGTCAA 59.121 47.619 0.00 0.00 0.00 3.18
680 681 1.244019 GCCGGCATTGTTGGAAGAGT 61.244 55.000 24.80 0.00 0.00 3.24
681 682 1.508088 GCCGGCATTGTTGGAAGAG 59.492 57.895 24.80 0.00 0.00 2.85
682 683 1.976474 GGCCGGCATTGTTGGAAGA 60.976 57.895 30.85 0.00 0.00 2.87
726 2902 1.611977 TCAGATCCACGTGTTTCTCGT 59.388 47.619 15.65 0.00 42.33 4.18
728 2904 2.737252 GGTTCAGATCCACGTGTTTCTC 59.263 50.000 15.65 5.38 0.00 2.87
798 2983 0.532862 AGTGCTGCGTGTGTTAGCTT 60.533 50.000 0.00 0.00 38.25 3.74
801 2986 1.457303 GAGAAGTGCTGCGTGTGTTAG 59.543 52.381 0.00 0.00 0.00 2.34
802 2987 1.497991 GAGAAGTGCTGCGTGTGTTA 58.502 50.000 0.00 0.00 0.00 2.41
838 3024 5.163513 GGTGGCAAGATTAATCAACAACAG 58.836 41.667 17.56 0.89 0.00 3.16
898 3088 6.073440 TCGTAGACCAGCAATTTACTTGAAAC 60.073 38.462 0.00 0.00 36.97 2.78
939 3141 0.034756 ATGAGCTGGTACGTGTGCAA 59.965 50.000 0.00 0.00 0.00 4.08
951 3153 7.570140 CGTTTTATACAAGGCTATGATGAGCTG 60.570 40.741 0.00 0.00 42.43 4.24
964 3167 6.574350 AGGACTCTGATCGTTTTATACAAGG 58.426 40.000 0.00 0.00 0.00 3.61
966 3169 6.570692 GGAGGACTCTGATCGTTTTATACAA 58.429 40.000 0.00 0.00 0.00 2.41
1655 5837 3.827898 CGGCAGGAGACCTCGTCC 61.828 72.222 0.00 0.00 32.18 4.79
1893 6075 0.871722 TCGTTCTTTGCCAACGGATG 59.128 50.000 5.23 0.00 45.40 3.51
2091 6273 0.323816 TCCTGGAGCTCAGTCGTGAT 60.324 55.000 17.19 0.00 41.83 3.06
2318 6500 6.127980 GCCGTCCTAGCTTATTCTTTTTCTTT 60.128 38.462 0.00 0.00 0.00 2.52
2319 6501 5.354513 GCCGTCCTAGCTTATTCTTTTTCTT 59.645 40.000 0.00 0.00 0.00 2.52
2320 6502 4.876679 GCCGTCCTAGCTTATTCTTTTTCT 59.123 41.667 0.00 0.00 0.00 2.52
2321 6503 4.260253 CGCCGTCCTAGCTTATTCTTTTTC 60.260 45.833 0.00 0.00 0.00 2.29
2322 6504 3.621715 CGCCGTCCTAGCTTATTCTTTTT 59.378 43.478 0.00 0.00 0.00 1.94
2323 6505 3.195661 CGCCGTCCTAGCTTATTCTTTT 58.804 45.455 0.00 0.00 0.00 2.27
2324 6506 2.483188 CCGCCGTCCTAGCTTATTCTTT 60.483 50.000 0.00 0.00 0.00 2.52
2325 6507 1.068741 CCGCCGTCCTAGCTTATTCTT 59.931 52.381 0.00 0.00 0.00 2.52
2326 6508 0.674534 CCGCCGTCCTAGCTTATTCT 59.325 55.000 0.00 0.00 0.00 2.40
2327 6509 0.944788 GCCGCCGTCCTAGCTTATTC 60.945 60.000 0.00 0.00 0.00 1.75
2328 6510 1.069258 GCCGCCGTCCTAGCTTATT 59.931 57.895 0.00 0.00 0.00 1.40
2329 6511 2.088674 CTGCCGCCGTCCTAGCTTAT 62.089 60.000 0.00 0.00 0.00 1.73
2330 6512 2.756691 TGCCGCCGTCCTAGCTTA 60.757 61.111 0.00 0.00 0.00 3.09
2331 6513 4.148825 CTGCCGCCGTCCTAGCTT 62.149 66.667 0.00 0.00 0.00 3.74
2346 6528 0.036732 TGTTACCTTCTGCAGCCCTG 59.963 55.000 9.47 0.00 0.00 4.45
2347 6529 0.995024 ATGTTACCTTCTGCAGCCCT 59.005 50.000 9.47 0.00 0.00 5.19
2348 6530 1.098050 CATGTTACCTTCTGCAGCCC 58.902 55.000 9.47 0.00 0.00 5.19
2349 6531 1.098050 CCATGTTACCTTCTGCAGCC 58.902 55.000 9.47 0.00 0.00 4.85
2350 6532 1.826385 ACCATGTTACCTTCTGCAGC 58.174 50.000 9.47 0.00 0.00 5.25
2351 6533 2.095059 GCAACCATGTTACCTTCTGCAG 60.095 50.000 7.63 7.63 0.00 4.41
2352 6534 1.885887 GCAACCATGTTACCTTCTGCA 59.114 47.619 0.00 0.00 0.00 4.41
2353 6535 2.162408 GAGCAACCATGTTACCTTCTGC 59.838 50.000 0.00 0.00 0.00 4.26
2354 6536 2.416547 CGAGCAACCATGTTACCTTCTG 59.583 50.000 0.00 0.00 0.00 3.02
2355 6537 2.615493 CCGAGCAACCATGTTACCTTCT 60.615 50.000 0.00 0.00 0.00 2.85
2356 6538 1.737793 CCGAGCAACCATGTTACCTTC 59.262 52.381 0.00 0.00 0.00 3.46
2357 6539 1.349688 TCCGAGCAACCATGTTACCTT 59.650 47.619 0.00 0.00 0.00 3.50
2358 6540 0.981183 TCCGAGCAACCATGTTACCT 59.019 50.000 0.00 0.00 0.00 3.08
2359 6541 1.467342 GTTCCGAGCAACCATGTTACC 59.533 52.381 0.00 0.00 0.00 2.85
2360 6542 1.127951 CGTTCCGAGCAACCATGTTAC 59.872 52.381 0.00 0.00 0.00 2.50
2361 6543 1.270412 ACGTTCCGAGCAACCATGTTA 60.270 47.619 0.00 0.00 0.00 2.41
2362 6544 0.534203 ACGTTCCGAGCAACCATGTT 60.534 50.000 0.00 0.00 0.00 2.71
2363 6545 1.070786 ACGTTCCGAGCAACCATGT 59.929 52.632 0.00 0.00 0.00 3.21
2364 6546 0.948623 TCACGTTCCGAGCAACCATG 60.949 55.000 0.00 0.00 0.00 3.66
2365 6547 0.949105 GTCACGTTCCGAGCAACCAT 60.949 55.000 0.00 0.00 0.00 3.55
2366 6548 1.593209 GTCACGTTCCGAGCAACCA 60.593 57.895 0.00 0.00 0.00 3.67
2367 6549 2.315386 GGTCACGTTCCGAGCAACC 61.315 63.158 0.00 0.00 0.00 3.77
2368 6550 0.038892 TAGGTCACGTTCCGAGCAAC 60.039 55.000 6.38 0.00 33.29 4.17
2369 6551 0.892755 ATAGGTCACGTTCCGAGCAA 59.107 50.000 6.38 0.00 33.29 3.91
2370 6552 0.892755 AATAGGTCACGTTCCGAGCA 59.107 50.000 6.38 0.00 33.29 4.26
2371 6553 1.925185 GAAATAGGTCACGTTCCGAGC 59.075 52.381 0.00 0.00 0.00 5.03
2372 6554 2.182825 CGAAATAGGTCACGTTCCGAG 58.817 52.381 0.00 0.00 0.00 4.63
2373 6555 1.733389 GCGAAATAGGTCACGTTCCGA 60.733 52.381 0.00 0.00 0.00 4.55
2374 6556 0.643820 GCGAAATAGGTCACGTTCCG 59.356 55.000 0.00 0.00 0.00 4.30
2375 6557 2.005971 AGCGAAATAGGTCACGTTCC 57.994 50.000 0.00 0.00 0.00 3.62
2376 6558 3.481467 CGAAAGCGAAATAGGTCACGTTC 60.481 47.826 0.00 0.00 40.82 3.95
2377 6559 2.410730 CGAAAGCGAAATAGGTCACGTT 59.589 45.455 0.00 0.00 40.82 3.99
2378 6560 1.990563 CGAAAGCGAAATAGGTCACGT 59.009 47.619 0.00 0.00 40.82 4.49
2379 6561 2.696076 CGAAAGCGAAATAGGTCACG 57.304 50.000 0.00 0.00 40.82 4.35
2393 6575 6.306837 GGAGAGATATAAGATTGACGCGAAAG 59.693 42.308 15.93 0.00 0.00 2.62
2394 6576 6.150318 GGAGAGATATAAGATTGACGCGAAA 58.850 40.000 15.93 7.38 0.00 3.46
2395 6577 5.240844 TGGAGAGATATAAGATTGACGCGAA 59.759 40.000 15.93 0.00 0.00 4.70
2396 6578 4.760204 TGGAGAGATATAAGATTGACGCGA 59.240 41.667 15.93 0.00 0.00 5.87
2397 6579 5.048153 TGGAGAGATATAAGATTGACGCG 57.952 43.478 3.53 3.53 0.00 6.01
2398 6580 6.039616 GGATGGAGAGATATAAGATTGACGC 58.960 44.000 0.00 0.00 0.00 5.19
2399 6581 6.127869 ACGGATGGAGAGATATAAGATTGACG 60.128 42.308 0.00 0.00 0.00 4.35
2400 6582 7.164230 ACGGATGGAGAGATATAAGATTGAC 57.836 40.000 0.00 0.00 0.00 3.18
2401 6583 7.782897 AACGGATGGAGAGATATAAGATTGA 57.217 36.000 0.00 0.00 0.00 2.57
2402 6584 8.839310 AAAACGGATGGAGAGATATAAGATTG 57.161 34.615 0.00 0.00 0.00 2.67
2403 6585 7.815068 CGAAAACGGATGGAGAGATATAAGATT 59.185 37.037 0.00 0.00 0.00 2.40
2404 6586 7.039644 ACGAAAACGGATGGAGAGATATAAGAT 60.040 37.037 0.00 0.00 0.00 2.40
2405 6587 6.264744 ACGAAAACGGATGGAGAGATATAAGA 59.735 38.462 0.00 0.00 0.00 2.10
2406 6588 6.448006 ACGAAAACGGATGGAGAGATATAAG 58.552 40.000 0.00 0.00 0.00 1.73
2407 6589 6.401047 ACGAAAACGGATGGAGAGATATAA 57.599 37.500 0.00 0.00 0.00 0.98
2408 6590 7.698506 ATACGAAAACGGATGGAGAGATATA 57.301 36.000 0.00 0.00 0.00 0.86
2409 6591 4.939052 ACGAAAACGGATGGAGAGATAT 57.061 40.909 0.00 0.00 0.00 1.63
2410 6592 6.347969 CGTATACGAAAACGGATGGAGAGATA 60.348 42.308 20.58 0.00 43.02 1.98
2411 6593 4.939052 ATACGAAAACGGATGGAGAGAT 57.061 40.909 0.00 0.00 0.00 2.75
2412 6594 4.260907 CGTATACGAAAACGGATGGAGAGA 60.261 45.833 20.58 0.00 43.02 3.10
2413 6595 3.973135 CGTATACGAAAACGGATGGAGAG 59.027 47.826 20.58 0.00 43.02 3.20
2414 6596 3.378112 ACGTATACGAAAACGGATGGAGA 59.622 43.478 30.77 0.00 43.25 3.71
2415 6597 3.699067 ACGTATACGAAAACGGATGGAG 58.301 45.455 30.77 0.00 43.25 3.86
2416 6598 3.694734 GACGTATACGAAAACGGATGGA 58.305 45.455 30.77 0.00 43.25 3.41
2417 6599 2.465109 CGACGTATACGAAAACGGATGG 59.535 50.000 30.77 4.20 43.25 3.51
2418 6600 2.465109 CCGACGTATACGAAAACGGATG 59.535 50.000 31.23 17.27 43.25 3.51
2419 6601 2.097466 ACCGACGTATACGAAAACGGAT 59.903 45.455 35.88 26.08 43.25 4.18
2420 6602 1.466950 ACCGACGTATACGAAAACGGA 59.533 47.619 35.88 0.00 43.25 4.69
2421 6603 1.840141 GACCGACGTATACGAAAACGG 59.160 52.381 32.02 32.02 43.25 4.44
2422 6604 2.774007 AGACCGACGTATACGAAAACG 58.226 47.619 30.77 24.76 44.47 3.60
2423 6605 3.543889 GGAAGACCGACGTATACGAAAAC 59.456 47.826 30.77 16.54 43.02 2.43
2424 6606 3.758300 GGAAGACCGACGTATACGAAAA 58.242 45.455 30.77 0.00 43.02 2.29
2425 6607 3.405170 GGAAGACCGACGTATACGAAA 57.595 47.619 30.77 0.00 43.02 3.46
2438 6620 1.272490 TGATATCGATGCCGGAAGACC 59.728 52.381 5.05 0.00 36.24 3.85
2439 6621 2.329379 GTGATATCGATGCCGGAAGAC 58.671 52.381 5.05 0.00 36.24 3.01
2440 6622 1.068541 CGTGATATCGATGCCGGAAGA 60.069 52.381 5.05 0.00 36.24 2.87
2441 6623 1.068541 TCGTGATATCGATGCCGGAAG 60.069 52.381 5.05 0.00 34.85 3.46
2442 6624 0.955905 TCGTGATATCGATGCCGGAA 59.044 50.000 5.05 0.00 34.85 4.30
2443 6625 0.955905 TTCGTGATATCGATGCCGGA 59.044 50.000 5.05 0.00 39.57 5.14
2444 6626 1.060713 GTTCGTGATATCGATGCCGG 58.939 55.000 8.54 0.00 39.57 6.13
2445 6627 2.051879 AGTTCGTGATATCGATGCCG 57.948 50.000 8.54 4.92 39.57 5.69
2446 6628 3.669122 GTGTAGTTCGTGATATCGATGCC 59.331 47.826 8.54 0.00 39.57 4.40
2447 6629 3.358115 CGTGTAGTTCGTGATATCGATGC 59.642 47.826 8.54 0.27 39.57 3.91
2448 6630 4.524749 ACGTGTAGTTCGTGATATCGATG 58.475 43.478 8.54 0.00 40.07 3.84
2449 6631 4.808077 ACGTGTAGTTCGTGATATCGAT 57.192 40.909 2.16 2.16 40.07 3.59
2450 6632 4.317348 CGTACGTGTAGTTCGTGATATCGA 60.317 45.833 7.22 0.00 41.62 3.59
2451 6633 3.890821 CGTACGTGTAGTTCGTGATATCG 59.109 47.826 7.22 0.00 41.62 2.92
2452 6634 3.656719 GCGTACGTGTAGTTCGTGATATC 59.343 47.826 17.90 0.00 44.00 1.63
2453 6635 3.310774 AGCGTACGTGTAGTTCGTGATAT 59.689 43.478 17.90 0.00 44.00 1.63
2454 6636 2.672874 AGCGTACGTGTAGTTCGTGATA 59.327 45.455 17.90 0.00 44.00 2.15
2455 6637 1.466167 AGCGTACGTGTAGTTCGTGAT 59.534 47.619 17.90 0.00 44.00 3.06
2456 6638 0.867746 AGCGTACGTGTAGTTCGTGA 59.132 50.000 17.90 0.00 44.00 4.35
2457 6639 1.245224 GAGCGTACGTGTAGTTCGTG 58.755 55.000 17.90 0.00 44.00 4.35
2458 6640 0.179240 CGAGCGTACGTGTAGTTCGT 60.179 55.000 17.90 0.00 44.00 3.85
2459 6641 1.451307 GCGAGCGTACGTGTAGTTCG 61.451 60.000 17.90 15.96 44.76 3.95
2460 6642 0.179205 AGCGAGCGTACGTGTAGTTC 60.179 55.000 17.90 4.82 35.59 3.01
2461 6643 0.179205 GAGCGAGCGTACGTGTAGTT 60.179 55.000 17.90 3.14 35.59 2.24
2462 6644 1.423056 GAGCGAGCGTACGTGTAGT 59.577 57.895 17.90 0.00 35.59 2.73
2463 6645 1.647577 CGAGCGAGCGTACGTGTAG 60.648 63.158 17.90 6.34 35.59 2.74
2464 6646 2.396861 CGAGCGAGCGTACGTGTA 59.603 61.111 17.90 0.00 35.59 2.90
2469 6651 3.241059 CTGTGCGAGCGAGCGTAC 61.241 66.667 10.59 10.59 45.19 3.67
2481 6663 0.110823 AATTCGTTCGTTCGCTGTGC 60.111 50.000 0.00 0.00 0.00 4.57
2482 6664 1.191425 TCAATTCGTTCGTTCGCTGTG 59.809 47.619 0.00 0.00 0.00 3.66
2483 6665 1.455786 CTCAATTCGTTCGTTCGCTGT 59.544 47.619 0.00 0.00 0.00 4.40
2484 6666 1.201812 CCTCAATTCGTTCGTTCGCTG 60.202 52.381 0.00 0.00 0.00 5.18
2485 6667 1.068474 CCTCAATTCGTTCGTTCGCT 58.932 50.000 0.00 0.00 0.00 4.93
2486 6668 0.788391 ACCTCAATTCGTTCGTTCGC 59.212 50.000 0.00 0.00 0.00 4.70
2487 6669 2.981805 TGTACCTCAATTCGTTCGTTCG 59.018 45.455 0.00 0.00 0.00 3.95
2488 6670 4.624024 TCATGTACCTCAATTCGTTCGTTC 59.376 41.667 0.00 0.00 0.00 3.95
2489 6671 4.387862 GTCATGTACCTCAATTCGTTCGTT 59.612 41.667 0.00 0.00 0.00 3.85
2490 6672 3.924686 GTCATGTACCTCAATTCGTTCGT 59.075 43.478 0.00 0.00 0.00 3.85
2491 6673 3.001070 CGTCATGTACCTCAATTCGTTCG 60.001 47.826 0.00 0.00 0.00 3.95
2492 6674 3.924686 ACGTCATGTACCTCAATTCGTTC 59.075 43.478 0.00 0.00 0.00 3.95
2493 6675 3.921677 ACGTCATGTACCTCAATTCGTT 58.078 40.909 0.00 0.00 0.00 3.85
2494 6676 3.587797 ACGTCATGTACCTCAATTCGT 57.412 42.857 0.00 0.00 0.00 3.85
2495 6677 3.924073 TGAACGTCATGTACCTCAATTCG 59.076 43.478 0.00 0.00 0.00 3.34
2496 6678 6.978659 TCTATGAACGTCATGTACCTCAATTC 59.021 38.462 9.77 0.00 37.70 2.17
2497 6679 6.873997 TCTATGAACGTCATGTACCTCAATT 58.126 36.000 9.77 0.00 37.70 2.32
2498 6680 6.465439 TCTATGAACGTCATGTACCTCAAT 57.535 37.500 9.77 0.00 37.70 2.57
2499 6681 5.907866 TCTATGAACGTCATGTACCTCAA 57.092 39.130 9.77 0.00 37.70 3.02
2500 6682 6.465439 AATCTATGAACGTCATGTACCTCA 57.535 37.500 9.77 0.00 37.70 3.86
2501 6683 7.872881 TCTAATCTATGAACGTCATGTACCTC 58.127 38.462 9.77 0.00 37.70 3.85
2502 6684 7.818997 TCTAATCTATGAACGTCATGTACCT 57.181 36.000 9.77 0.00 37.70 3.08
2503 6685 8.867112 TTTCTAATCTATGAACGTCATGTACC 57.133 34.615 9.77 0.00 37.70 3.34
2505 6687 9.863845 TGTTTTCTAATCTATGAACGTCATGTA 57.136 29.630 9.77 0.79 37.70 2.29
2506 6688 8.771920 TGTTTTCTAATCTATGAACGTCATGT 57.228 30.769 9.77 0.00 37.70 3.21
2637 6827 5.399596 GCTCTTTTTCAAATTCGTGACCTTC 59.600 40.000 0.00 0.00 0.00 3.46
2641 6831 5.510671 TGAGCTCTTTTTCAAATTCGTGAC 58.489 37.500 16.19 0.00 0.00 3.67
2723 6915 8.138074 TCCATGAACAAATTTGATTTTCACGTA 58.862 29.630 24.64 9.58 0.00 3.57
2862 7062 8.819974 GTTGTGAACTTTGTCAAAATTGATGAT 58.180 29.630 0.00 0.00 39.73 2.45
2879 7083 8.776376 ATTCAACATTTTTCAAGTTGTGAACT 57.224 26.923 2.11 0.00 46.09 3.01
2974 7198 8.641499 TTTTGCGTATTCAATGAACTTTCTTT 57.359 26.923 0.00 0.00 0.00 2.52
2977 7201 8.061125 ACTTTTTGCGTATTCAATGAACTTTC 57.939 30.769 0.00 0.00 0.00 2.62
2993 7217 4.225984 TCAAATCCGATGAACTTTTTGCG 58.774 39.130 0.00 0.00 0.00 4.85
3059 7293 9.883142 AACTTTTTCCAAATTTGTGAACATCTA 57.117 25.926 16.73 2.97 0.00 1.98
3122 7357 6.533723 ACTTTTTCTTCAAAATCAACGAACCC 59.466 34.615 0.00 0.00 33.73 4.11
3170 7405 4.751600 CCTTGTTCTTTTTCCTTCAATGCC 59.248 41.667 0.00 0.00 0.00 4.40
3230 7489 6.319048 TCTTCCATTCCTGAGCTCTTTTAT 57.681 37.500 16.19 0.83 0.00 1.40
3269 7531 6.707161 ACCTGATGTCAACCAATTGATTTTTG 59.293 34.615 7.12 5.03 46.43 2.44
3270 7532 6.707161 CACCTGATGTCAACCAATTGATTTTT 59.293 34.615 7.12 0.00 46.43 1.94
3285 7548 0.249073 ACGCTATCGCACCTGATGTC 60.249 55.000 0.00 0.00 39.84 3.06
3313 7576 2.098607 CAGGGTACGTATGAAAGAGCGA 59.901 50.000 0.00 0.00 0.00 4.93
3347 7610 0.770499 TGTCCAGAACAAGGGCATCA 59.230 50.000 0.00 0.00 35.45 3.07
3354 7617 8.571336 ACTCTCAAAAATAATGTCCAGAACAAG 58.429 33.333 0.00 0.00 42.37 3.16
3355 7618 8.463930 ACTCTCAAAAATAATGTCCAGAACAA 57.536 30.769 0.00 0.00 42.37 2.83


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

AutoCloner maintained by Alex Coulton.