Multiple sequence alignment - TraesCS4A01G226600

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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 TraesCS4A01G226600 chr4A 100.000 3138 0 0 1 3138 534792913 534789776 0.000000e+00 5795.0
1 TraesCS4A01G226600 chr4B 91.458 1756 70 36 747 2457 91327243 91328963 0.000000e+00 2338.0
2 TraesCS4A01G226600 chr4B 94.672 732 36 3 1425 2155 91227971 91228700 0.000000e+00 1133.0
3 TraesCS4A01G226600 chr4B 85.510 1049 63 33 406 1403 91190149 91191159 0.000000e+00 1013.0
4 TraesCS4A01G226600 chr4B 93.511 524 21 3 2456 2969 91328996 91329516 0.000000e+00 767.0
5 TraesCS4A01G226600 chr4B 100.000 28 0 0 2986 3013 91329520 91329547 6.000000e-03 52.8
6 TraesCS4A01G226600 chr4D 91.088 1728 85 32 772 2457 61595126 61593426 0.000000e+00 2274.0
7 TraesCS4A01G226600 chr4D 88.215 577 48 4 2456 3015 61593389 61592816 0.000000e+00 671.0
8 TraesCS4A01G226600 chr4D 91.667 336 22 4 1 336 61595857 61595528 7.930000e-126 460.0
9 TraesCS4A01G226600 chr4D 98.529 68 1 0 3034 3101 61592827 61592760 1.530000e-23 121.0
10 TraesCS4A01G226600 chr6D 92.571 175 13 0 1761 1935 358216793 358216619 5.200000e-63 252.0
11 TraesCS4A01G226600 chrUn 92.398 171 13 0 1765 1935 209272496 209272326 8.690000e-61 244.0
12 TraesCS4A01G226600 chr7B 92.398 171 13 0 1765 1935 642232629 642232459 8.690000e-61 244.0
13 TraesCS4A01G226600 chr7B 87.179 78 10 0 1500 1577 730809815 730809892 4.310000e-14 89.8
14 TraesCS4A01G226600 chr7B 90.769 65 6 0 343 407 33626900 33626964 1.550000e-13 87.9
15 TraesCS4A01G226600 chr7B 90.769 65 6 0 343 407 144686274 144686338 1.550000e-13 87.9
16 TraesCS4A01G226600 chr7B 97.297 37 1 0 343 379 370272719 370272683 2.610000e-06 63.9
17 TraesCS4A01G226600 chr7B 100.000 30 0 0 343 372 211697017 211697046 4.370000e-04 56.5
18 TraesCS4A01G226600 chr7D 84.946 93 14 0 1500 1592 628219389 628219297 9.270000e-16 95.3
19 TraesCS4A01G226600 chr7D 90.909 66 5 1 343 407 15859495 15859560 1.550000e-13 87.9
20 TraesCS4A01G226600 chr7D 82.292 96 11 6 1500 1592 628223630 628223538 9.330000e-11 78.7
21 TraesCS4A01G226600 chr2A 86.905 84 7 2 330 409 446062790 446062707 1.200000e-14 91.6
22 TraesCS4A01G226600 chr2A 90.625 64 5 1 344 407 738275286 738275224 2.010000e-12 84.2
23 TraesCS4A01G226600 chr7A 87.838 74 9 0 1500 1573 724947557 724947630 1.550000e-13 87.9
24 TraesCS4A01G226600 chr7A 85.897 78 11 0 1500 1577 724951590 724951667 2.010000e-12 84.2
25 TraesCS4A01G226600 chr2B 89.231 65 7 0 343 407 772635003 772635067 7.210000e-12 82.4
26 TraesCS4A01G226600 chr5B 85.915 71 9 1 342 411 411804018 411803948 1.210000e-09 75.0


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 TraesCS4A01G226600 chr4A 534789776 534792913 3137 True 5795.0 5795 100.000000 1 3138 1 chr4A.!!$R1 3137
1 TraesCS4A01G226600 chr4B 91227971 91228700 729 False 1133.0 1133 94.672000 1425 2155 1 chr4B.!!$F2 730
2 TraesCS4A01G226600 chr4B 91327243 91329547 2304 False 1052.6 2338 94.989667 747 3013 3 chr4B.!!$F3 2266
3 TraesCS4A01G226600 chr4B 91190149 91191159 1010 False 1013.0 1013 85.510000 406 1403 1 chr4B.!!$F1 997
4 TraesCS4A01G226600 chr4D 61592760 61595857 3097 True 881.5 2274 92.374750 1 3101 4 chr4D.!!$R1 3100

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
451 452 0.037590 TTTTGCATGGCCTACTCGGT 59.962 50.0 3.32 0.0 34.25 4.69 F
483 484 0.817654 CGGTATCAGTCTGCCTCACA 59.182 55.0 0.00 0.0 0.00 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2113 2202 1.625508 GGGTAAGGGTCTGTCCAGGAT 60.626 57.143 0.0 0.0 38.11 3.24 R
2301 2404 4.612264 TTCAGTACACACCCCTTTAGTC 57.388 45.455 0.0 0.0 0.00 2.59 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
63 64 9.971922 AAAAACATTGAAAACCAACATTGAAAA 57.028 22.222 0.00 0.00 37.63 2.29
71 72 6.507958 AAACCAACATTGAAAACCAAAAGG 57.492 33.333 0.00 0.00 38.43 3.11
105 106 6.605471 ACTGAGAAAACCAAAGAAAAACCT 57.395 33.333 0.00 0.00 0.00 3.50
160 161 6.541969 CAAGAAAAACCAATGAAACCAACAC 58.458 36.000 0.00 0.00 0.00 3.32
173 174 3.080300 ACCAACACAGAAAACAGACCA 57.920 42.857 0.00 0.00 0.00 4.02
214 215 3.051081 GCTCCTGCGAGAATCCATATT 57.949 47.619 0.00 0.00 38.52 1.28
225 226 2.142292 ATCCATATTGGGCCGGCTCC 62.142 60.000 26.97 24.50 38.32 4.70
240 241 1.757699 GGCTCCCTCGACTAGAACAAT 59.242 52.381 0.00 0.00 0.00 2.71
258 259 0.107459 ATCTTTGGGCGAGAGGAAGC 60.107 55.000 0.00 0.00 0.00 3.86
337 338 7.086230 TCTCGAGAAGACTAACAAATACTCC 57.914 40.000 14.01 0.00 0.00 3.85
338 339 6.095160 TCTCGAGAAGACTAACAAATACTCCC 59.905 42.308 14.01 0.00 0.00 4.30
339 340 5.950549 TCGAGAAGACTAACAAATACTCCCT 59.049 40.000 0.00 0.00 0.00 4.20
340 341 6.095160 TCGAGAAGACTAACAAATACTCCCTC 59.905 42.308 0.00 0.00 0.00 4.30
341 342 6.547930 AGAAGACTAACAAATACTCCCTCC 57.452 41.667 0.00 0.00 0.00 4.30
342 343 5.127356 AGAAGACTAACAAATACTCCCTCCG 59.873 44.000 0.00 0.00 0.00 4.63
343 344 4.351127 AGACTAACAAATACTCCCTCCGT 58.649 43.478 0.00 0.00 0.00 4.69
344 345 5.513233 AGACTAACAAATACTCCCTCCGTA 58.487 41.667 0.00 0.00 0.00 4.02
345 346 5.954150 AGACTAACAAATACTCCCTCCGTAA 59.046 40.000 0.00 0.00 0.00 3.18
346 347 6.096564 AGACTAACAAATACTCCCTCCGTAAG 59.903 42.308 0.00 0.00 0.00 2.34
347 348 5.954150 ACTAACAAATACTCCCTCCGTAAGA 59.046 40.000 0.00 0.00 43.02 2.10
348 349 4.732672 ACAAATACTCCCTCCGTAAGAC 57.267 45.455 0.00 0.00 43.02 3.01
349 350 3.129988 ACAAATACTCCCTCCGTAAGACG 59.870 47.826 0.00 0.00 42.11 4.18
350 351 2.725221 ATACTCCCTCCGTAAGACGT 57.275 50.000 0.00 0.00 40.58 4.34
351 352 2.496899 TACTCCCTCCGTAAGACGTT 57.503 50.000 0.00 0.00 40.58 3.99
352 353 1.625511 ACTCCCTCCGTAAGACGTTT 58.374 50.000 0.00 0.00 40.58 3.60
353 354 1.966354 ACTCCCTCCGTAAGACGTTTT 59.034 47.619 0.00 0.00 40.58 2.43
354 355 2.366590 ACTCCCTCCGTAAGACGTTTTT 59.633 45.455 0.00 0.00 40.58 1.94
376 377 8.780846 TTTTTGACTTTAGTGTAGTGTCAGAA 57.219 30.769 0.00 0.00 38.60 3.02
377 378 8.780846 TTTTGACTTTAGTGTAGTGTCAGAAA 57.219 30.769 0.00 0.00 38.60 2.52
378 379 8.780846 TTTGACTTTAGTGTAGTGTCAGAAAA 57.219 30.769 0.00 0.00 38.60 2.29
379 380 7.766219 TGACTTTAGTGTAGTGTCAGAAAAC 57.234 36.000 0.00 0.00 33.45 2.43
380 381 6.474427 TGACTTTAGTGTAGTGTCAGAAAACG 59.526 38.462 0.00 0.00 33.45 3.60
381 382 5.233689 ACTTTAGTGTAGTGTCAGAAAACGC 59.766 40.000 0.00 0.00 0.00 4.84
382 383 2.480845 AGTGTAGTGTCAGAAAACGCC 58.519 47.619 0.00 0.00 0.00 5.68
383 384 2.102588 AGTGTAGTGTCAGAAAACGCCT 59.897 45.455 0.00 0.00 0.00 5.52
384 385 2.870411 GTGTAGTGTCAGAAAACGCCTT 59.130 45.455 0.00 0.00 0.00 4.35
385 386 4.053295 GTGTAGTGTCAGAAAACGCCTTA 58.947 43.478 0.00 0.00 0.00 2.69
386 387 4.053295 TGTAGTGTCAGAAAACGCCTTAC 58.947 43.478 0.00 0.00 0.00 2.34
387 388 3.188159 AGTGTCAGAAAACGCCTTACA 57.812 42.857 0.00 0.00 0.00 2.41
388 389 3.740115 AGTGTCAGAAAACGCCTTACAT 58.260 40.909 0.00 0.00 0.00 2.29
389 390 4.134563 AGTGTCAGAAAACGCCTTACATT 58.865 39.130 0.00 0.00 0.00 2.71
390 391 5.302360 AGTGTCAGAAAACGCCTTACATTA 58.698 37.500 0.00 0.00 0.00 1.90
391 392 5.938125 AGTGTCAGAAAACGCCTTACATTAT 59.062 36.000 0.00 0.00 0.00 1.28
392 393 6.021596 GTGTCAGAAAACGCCTTACATTATG 58.978 40.000 0.00 0.00 0.00 1.90
393 394 5.935206 TGTCAGAAAACGCCTTACATTATGA 59.065 36.000 0.00 0.00 0.00 2.15
394 395 6.428465 TGTCAGAAAACGCCTTACATTATGAA 59.572 34.615 0.00 0.00 0.00 2.57
395 396 7.041030 TGTCAGAAAACGCCTTACATTATGAAA 60.041 33.333 0.00 0.00 0.00 2.69
396 397 7.270579 GTCAGAAAACGCCTTACATTATGAAAC 59.729 37.037 0.00 0.00 0.00 2.78
397 398 7.041030 TCAGAAAACGCCTTACATTATGAAACA 60.041 33.333 0.00 0.00 0.00 2.83
398 399 7.271223 CAGAAAACGCCTTACATTATGAAACAG 59.729 37.037 0.00 0.00 0.00 3.16
399 400 6.811253 AAACGCCTTACATTATGAAACAGA 57.189 33.333 0.00 0.00 0.00 3.41
400 401 6.422776 AACGCCTTACATTATGAAACAGAG 57.577 37.500 0.00 0.00 0.00 3.35
401 402 4.876107 ACGCCTTACATTATGAAACAGAGG 59.124 41.667 0.00 0.00 0.00 3.69
402 403 4.273480 CGCCTTACATTATGAAACAGAGGG 59.727 45.833 0.00 0.00 0.00 4.30
403 404 5.437060 GCCTTACATTATGAAACAGAGGGA 58.563 41.667 0.00 0.00 0.00 4.20
404 405 5.529060 GCCTTACATTATGAAACAGAGGGAG 59.471 44.000 0.00 0.00 0.00 4.30
421 422 5.132144 AGAGGGAGTAGAACAAAAGACCAAA 59.868 40.000 0.00 0.00 0.00 3.28
424 425 5.826208 GGGAGTAGAACAAAAGACCAAAGAA 59.174 40.000 0.00 0.00 0.00 2.52
435 436 9.733556 ACAAAAGACCAAAGAAAAATAGGTTTT 57.266 25.926 0.00 0.00 42.28 2.43
445 446 5.483583 AGAAAAATAGGTTTTGCATGGCCTA 59.516 36.000 3.32 11.45 39.60 3.93
451 452 0.037590 TTTTGCATGGCCTACTCGGT 59.962 50.000 3.32 0.00 34.25 4.69
454 455 3.077519 GCATGGCCTACTCGGTCGT 62.078 63.158 3.32 0.00 41.63 4.34
473 474 2.423898 CGTGAGGCCCGGTATCAGT 61.424 63.158 0.00 0.00 0.00 3.41
483 484 0.817654 CGGTATCAGTCTGCCTCACA 59.182 55.000 0.00 0.00 0.00 3.58
510 511 9.691362 TGGAAAGCTTAACATGAATTTCTTAAC 57.309 29.630 0.00 0.00 0.00 2.01
541 542 3.740044 ATCCAAGAACAAACGTATGCG 57.260 42.857 0.19 0.19 44.93 4.73
565 566 5.335504 GCTCCAACTTCTTCATTTCTTCAGG 60.336 44.000 0.00 0.00 0.00 3.86
570 571 7.201857 CCAACTTCTTCATTTCTTCAGGTTTCT 60.202 37.037 0.00 0.00 0.00 2.52
576 577 4.889409 TCATTTCTTCAGGTTTCTGCAGTT 59.111 37.500 14.67 0.00 40.69 3.16
646 653 9.608617 TTGTTTTGGTTTTTCGTTTTTATTTCC 57.391 25.926 0.00 0.00 0.00 3.13
647 654 8.780249 TGTTTTGGTTTTTCGTTTTTATTTCCA 58.220 25.926 0.00 0.00 0.00 3.53
695 702 6.739331 TTAATTTCCTTTTCCATGTGTGGT 57.261 33.333 0.00 0.00 46.16 4.16
701 708 5.640147 TCCTTTTCCATGTGTGGTTTCTAT 58.360 37.500 0.00 0.00 46.16 1.98
703 710 6.657541 TCCTTTTCCATGTGTGGTTTCTATAC 59.342 38.462 0.00 0.00 46.16 1.47
708 715 4.386312 CCATGTGTGGTTTCTATACCCCAT 60.386 45.833 0.00 0.00 40.83 4.00
723 730 3.894759 ACCCCATCAGATCTTCATTGTG 58.105 45.455 0.00 0.00 0.00 3.33
733 740 5.066117 CAGATCTTCATTGTGTTCCCATGAG 59.934 44.000 0.00 0.00 0.00 2.90
744 751 4.009675 TGTTCCCATGAGCATTACTTGAC 58.990 43.478 0.00 0.00 0.00 3.18
750 786 7.217200 TCCCATGAGCATTACTTGACTAATAC 58.783 38.462 0.00 0.00 0.00 1.89
764 800 8.643324 ACTTGACTAATACTAATCAGATCCCAC 58.357 37.037 0.00 0.00 0.00 4.61
766 802 7.002276 TGACTAATACTAATCAGATCCCACGA 58.998 38.462 0.00 0.00 0.00 4.35
768 804 8.246430 ACTAATACTAATCAGATCCCACGAAA 57.754 34.615 0.00 0.00 0.00 3.46
769 805 8.142551 ACTAATACTAATCAGATCCCACGAAAC 58.857 37.037 0.00 0.00 0.00 2.78
770 806 6.732896 ATACTAATCAGATCCCACGAAACT 57.267 37.500 0.00 0.00 0.00 2.66
771 807 5.422214 ACTAATCAGATCCCACGAAACTT 57.578 39.130 0.00 0.00 0.00 2.66
772 808 6.540438 ACTAATCAGATCCCACGAAACTTA 57.460 37.500 0.00 0.00 0.00 2.24
773 809 6.574350 ACTAATCAGATCCCACGAAACTTAG 58.426 40.000 0.00 0.00 0.00 2.18
777 823 3.100671 AGATCCCACGAAACTTAGAGCT 58.899 45.455 0.00 0.00 0.00 4.09
785 831 5.403246 CACGAAACTTAGAGCTACAGACAT 58.597 41.667 0.00 0.00 0.00 3.06
790 836 3.315749 ACTTAGAGCTACAGACATACGGC 59.684 47.826 0.00 0.00 0.00 5.68
797 843 2.315925 ACAGACATACGGCTTGGATG 57.684 50.000 0.81 0.81 0.00 3.51
806 852 2.511600 GCTTGGATGGTCGACGGG 60.512 66.667 9.92 0.00 0.00 5.28
819 865 1.794222 GACGGGCGTCCAAGATTTG 59.206 57.895 6.96 0.00 39.08 2.32
836 882 1.368345 TTGCATCGCCTGTCCGATTG 61.368 55.000 0.00 0.00 44.85 2.67
905 958 1.273886 TGTACGTGCAACTCCAGCATA 59.726 47.619 3.02 0.00 44.79 3.14
906 959 2.289133 TGTACGTGCAACTCCAGCATAA 60.289 45.455 3.02 0.00 44.79 1.90
907 960 2.113860 ACGTGCAACTCCAGCATAAT 57.886 45.000 0.00 0.00 44.79 1.28
908 961 3.260475 ACGTGCAACTCCAGCATAATA 57.740 42.857 0.00 0.00 44.79 0.98
909 962 3.808728 ACGTGCAACTCCAGCATAATAT 58.191 40.909 0.00 0.00 44.79 1.28
910 963 4.956085 ACGTGCAACTCCAGCATAATATA 58.044 39.130 0.00 0.00 44.79 0.86
911 964 4.991056 ACGTGCAACTCCAGCATAATATAG 59.009 41.667 0.00 0.00 44.79 1.31
912 965 4.991056 CGTGCAACTCCAGCATAATATAGT 59.009 41.667 0.00 0.00 44.79 2.12
913 966 5.107337 CGTGCAACTCCAGCATAATATAGTG 60.107 44.000 0.00 0.00 44.79 2.74
914 967 5.180117 GTGCAACTCCAGCATAATATAGTGG 59.820 44.000 0.00 0.00 44.79 4.00
915 968 5.163205 TGCAACTCCAGCATAATATAGTGGT 60.163 40.000 0.00 0.00 37.02 4.16
916 969 5.180117 GCAACTCCAGCATAATATAGTGGTG 59.820 44.000 10.77 10.77 41.98 4.17
917 970 6.524734 CAACTCCAGCATAATATAGTGGTGA 58.475 40.000 16.61 6.36 44.30 4.02
918 971 6.102897 ACTCCAGCATAATATAGTGGTGAC 57.897 41.667 16.61 0.00 44.30 3.67
919 972 5.012148 ACTCCAGCATAATATAGTGGTGACC 59.988 44.000 16.61 0.00 44.30 4.02
920 973 4.904853 TCCAGCATAATATAGTGGTGACCA 59.095 41.667 16.61 0.00 44.30 4.02
921 974 5.012046 TCCAGCATAATATAGTGGTGACCAG 59.988 44.000 3.58 0.00 44.30 4.00
922 975 4.692625 CAGCATAATATAGTGGTGACCAGC 59.307 45.833 3.58 0.86 44.30 4.85
923 976 3.679980 GCATAATATAGTGGTGACCAGCG 59.320 47.826 3.58 0.00 32.34 5.18
973 1035 4.636648 CCCGTCATAGTCTTATAGATCGCT 59.363 45.833 0.00 0.00 0.00 4.93
1059 1136 1.739562 GTTCCTCCTCGTGCTGCTG 60.740 63.158 0.00 0.00 0.00 4.41
1195 1284 1.437986 GTCCACCGAGAATCCGAGG 59.562 63.158 0.00 0.00 0.00 4.63
1204 1293 4.208686 AATCCGAGGAGCCGTCGC 62.209 66.667 10.52 0.00 36.06 5.19
1264 1353 2.105128 CCGACCTCGAGATGGTGC 59.895 66.667 15.71 0.00 43.02 5.01
1527 1616 1.672356 CAAGAGGTTCCTGCACCCG 60.672 63.158 0.00 0.00 37.58 5.28
1533 1622 4.308458 TTCCTGCACCCGGACGTG 62.308 66.667 0.73 4.39 36.80 4.49
1612 1701 2.276493 CGCTCGTGTACCTCGACG 60.276 66.667 6.23 10.34 36.91 5.12
1613 1702 2.576317 GCTCGTGTACCTCGACGC 60.576 66.667 6.23 9.74 35.53 5.19
1619 1708 2.099831 GTACCTCGACGCCGTCAG 59.900 66.667 18.40 12.94 37.05 3.51
1623 1712 3.125573 CTCGACGCCGTCAGGAGA 61.126 66.667 18.40 5.25 39.96 3.71
1784 1873 3.343788 GAGGTGGAGAGTGCGACGG 62.344 68.421 0.00 0.00 0.00 4.79
1989 2078 2.682494 TACGTCCTCCACAGGGGC 60.682 66.667 0.00 0.00 40.80 5.80
2060 2149 3.754530 TGAGGCGGCGATCGTTCA 61.755 61.111 17.81 10.08 41.72 3.18
2151 2240 2.103736 GTAGCCGGCGACCACTAC 59.896 66.667 27.35 16.21 0.00 2.73
2197 2295 6.287589 AGCTAGCTTTGAAGTGTACATACT 57.712 37.500 12.68 0.00 0.00 2.12
2198 2296 7.406031 AGCTAGCTTTGAAGTGTACATACTA 57.594 36.000 12.68 0.00 0.00 1.82
2199 2297 7.837863 AGCTAGCTTTGAAGTGTACATACTAA 58.162 34.615 12.68 0.00 0.00 2.24
2200 2298 7.760340 AGCTAGCTTTGAAGTGTACATACTAAC 59.240 37.037 12.68 0.00 0.00 2.34
2201 2299 7.544566 GCTAGCTTTGAAGTGTACATACTAACA 59.455 37.037 7.70 0.00 0.00 2.41
2202 2300 9.587772 CTAGCTTTGAAGTGTACATACTAACAT 57.412 33.333 0.00 0.00 0.00 2.71
2204 2302 9.367444 AGCTTTGAAGTGTACATACTAACATAC 57.633 33.333 0.00 0.00 0.00 2.39
2228 2326 8.642935 ACATGATACATATACTGTCTAGTGCT 57.357 34.615 0.00 0.00 39.39 4.40
2229 2327 9.740710 ACATGATACATATACTGTCTAGTGCTA 57.259 33.333 0.00 0.00 39.39 3.49
2301 2404 8.015087 TCTTATTAACAGAAAGTTGCGACAATG 58.985 33.333 6.90 1.84 41.50 2.82
2457 2560 7.850492 GGCAAATCAAAATGTTCTGTAAACAAC 59.150 33.333 0.00 0.00 33.42 3.32
2464 2567 9.687717 CAAAATGTTCTGTAAACAACAATCAAC 57.312 29.630 0.00 0.00 37.74 3.18
2465 2568 9.651913 AAAATGTTCTGTAAACAACAATCAACT 57.348 25.926 0.00 0.00 37.74 3.16
2500 2638 3.591196 TTCTGAAATTTGCATTCCCGG 57.409 42.857 0.00 0.00 0.00 5.73
2517 2655 1.822990 CCGGCCACAGTTCTTCTACTA 59.177 52.381 2.24 0.00 0.00 1.82
2537 2675 5.191426 ACTATGAGCTCTACCAAGTCGTTA 58.809 41.667 16.19 0.00 0.00 3.18
2538 2676 4.640789 ATGAGCTCTACCAAGTCGTTAG 57.359 45.455 16.19 0.00 0.00 2.34
2773 2911 1.068588 TGAAGTTGTGAGGTGAGACGG 59.931 52.381 0.00 0.00 0.00 4.79
2782 2920 0.035458 AGGTGAGACGGCCAAAAGAG 59.965 55.000 2.24 0.00 0.00 2.85
2818 2956 4.261197 GGATTACGATCAATGCACCTTTCC 60.261 45.833 0.00 0.00 33.77 3.13
2876 3014 1.003355 ATGACAACCTGGTGCTCCG 60.003 57.895 0.00 0.00 36.30 4.63
2882 3020 2.997315 CCTGGTGCTCCGGACTCA 60.997 66.667 15.38 0.00 42.46 3.41
2886 3024 2.716017 GGTGCTCCGGACTCAGAGG 61.716 68.421 0.00 0.00 0.00 3.69
2895 3033 1.606531 GACTCAGAGGCCCTGCAAT 59.393 57.895 14.49 4.50 42.62 3.56
2924 3062 3.287312 AGGTCAATCACACAAAATGCG 57.713 42.857 0.00 0.00 0.00 4.73
2969 3124 8.514136 CATCTACTAGATGTAAGCTAAGTTGC 57.486 38.462 15.51 0.00 45.33 4.17
2970 3125 7.640597 TCTACTAGATGTAAGCTAAGTTGCA 57.359 36.000 0.00 0.00 32.49 4.08
3016 3171 9.995957 ACCAAAATTAATTTAACAAAACAGTGC 57.004 25.926 13.68 0.00 0.00 4.40
3017 3172 9.444534 CCAAAATTAATTTAACAAAACAGTGCC 57.555 29.630 13.68 0.00 0.00 5.01
3018 3173 9.444534 CAAAATTAATTTAACAAAACAGTGCCC 57.555 29.630 13.68 0.00 0.00 5.36
3019 3174 8.972458 AAATTAATTTAACAAAACAGTGCCCT 57.028 26.923 11.76 0.00 0.00 5.19
3020 3175 8.972458 AATTAATTTAACAAAACAGTGCCCTT 57.028 26.923 0.00 0.00 0.00 3.95
3021 3176 8.972458 ATTAATTTAACAAAACAGTGCCCTTT 57.028 26.923 0.00 0.00 0.00 3.11
3022 3177 8.794335 TTAATTTAACAAAACAGTGCCCTTTT 57.206 26.923 0.00 0.00 0.00 2.27
3023 3178 7.695480 AATTTAACAAAACAGTGCCCTTTTT 57.305 28.000 0.00 0.00 0.00 1.94
3090 3245 0.037232 GAACGCTTCAGTGTAGGGCT 60.037 55.000 12.82 1.83 37.87 5.19
3101 3256 1.067071 GTGTAGGGCTGTAAACGAGCT 60.067 52.381 0.00 0.00 36.63 4.09
3102 3257 2.165030 GTGTAGGGCTGTAAACGAGCTA 59.835 50.000 0.00 0.00 36.63 3.32
3103 3258 2.165030 TGTAGGGCTGTAAACGAGCTAC 59.835 50.000 0.00 0.00 36.63 3.58
3104 3259 1.263356 AGGGCTGTAAACGAGCTACA 58.737 50.000 0.00 0.00 36.63 2.74
3105 3260 1.831736 AGGGCTGTAAACGAGCTACAT 59.168 47.619 0.00 0.00 36.63 2.29
3106 3261 2.159085 AGGGCTGTAAACGAGCTACATC 60.159 50.000 0.00 0.00 36.63 3.06
3107 3262 2.202566 GGCTGTAAACGAGCTACATCC 58.797 52.381 0.00 0.00 36.63 3.51
3108 3263 2.202566 GCTGTAAACGAGCTACATCCC 58.797 52.381 0.00 0.00 33.37 3.85
3109 3264 2.418197 GCTGTAAACGAGCTACATCCCA 60.418 50.000 0.00 0.00 33.37 4.37
3110 3265 3.448686 CTGTAAACGAGCTACATCCCAG 58.551 50.000 0.00 0.00 0.00 4.45
3111 3266 2.202566 GTAAACGAGCTACATCCCAGC 58.797 52.381 0.00 0.00 39.41 4.85
3115 3270 3.543537 AGCTACATCCCAGCTCGG 58.456 61.111 0.00 0.00 46.37 4.63
3116 3271 2.280457 GCTACATCCCAGCTCGGC 60.280 66.667 0.00 0.00 36.07 5.54
3117 3272 2.423446 CTACATCCCAGCTCGGCC 59.577 66.667 0.00 0.00 0.00 6.13
3118 3273 3.161450 TACATCCCAGCTCGGCCC 61.161 66.667 0.00 0.00 0.00 5.80
3129 3284 3.074281 TCGGCCCGAGGTCAATTT 58.926 55.556 0.00 0.00 0.00 1.82
3130 3285 2.288834 TCGGCCCGAGGTCAATTTA 58.711 52.632 0.00 0.00 0.00 1.40
3131 3286 0.108041 TCGGCCCGAGGTCAATTTAC 60.108 55.000 0.00 0.00 0.00 2.01
3132 3287 0.391927 CGGCCCGAGGTCAATTTACA 60.392 55.000 0.00 0.00 0.00 2.41
3133 3288 1.092348 GGCCCGAGGTCAATTTACAC 58.908 55.000 0.00 0.00 0.00 2.90
3134 3289 1.339727 GGCCCGAGGTCAATTTACACT 60.340 52.381 0.00 0.00 0.00 3.55
3135 3290 2.433436 GCCCGAGGTCAATTTACACTT 58.567 47.619 0.00 0.00 0.00 3.16
3136 3291 2.817844 GCCCGAGGTCAATTTACACTTT 59.182 45.455 0.00 0.00 0.00 2.66
3137 3292 3.365969 GCCCGAGGTCAATTTACACTTTG 60.366 47.826 0.00 0.00 0.00 2.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 9.823647 ATGTTTTTCTTTTTGGTTTTGGTTTTT 57.176 22.222 0.00 0.00 0.00 1.94
21 22 8.633561 TCAATGTTTTTCTTTTTGGTTTTGGTT 58.366 25.926 0.00 0.00 0.00 3.67
23 24 9.468532 TTTCAATGTTTTTCTTTTTGGTTTTGG 57.531 25.926 0.00 0.00 0.00 3.28
26 27 9.469807 GGTTTTCAATGTTTTTCTTTTTGGTTT 57.530 25.926 0.00 0.00 0.00 3.27
27 28 8.633561 TGGTTTTCAATGTTTTTCTTTTTGGTT 58.366 25.926 0.00 0.00 0.00 3.67
28 29 8.171164 TGGTTTTCAATGTTTTTCTTTTTGGT 57.829 26.923 0.00 0.00 0.00 3.67
29 30 8.910666 GTTGGTTTTCAATGTTTTTCTTTTTGG 58.089 29.630 0.00 0.00 37.73 3.28
30 31 9.455847 TGTTGGTTTTCAATGTTTTTCTTTTTG 57.544 25.926 0.00 0.00 37.73 2.44
33 34 9.623350 CAATGTTGGTTTTCAATGTTTTTCTTT 57.377 25.926 0.00 0.00 37.73 2.52
36 37 9.617975 TTTCAATGTTGGTTTTCAATGTTTTTC 57.382 25.926 0.00 0.00 37.73 2.29
122 123 2.785713 TTCTTGCGGTTGTTTTAGCC 57.214 45.000 0.00 0.00 0.00 3.93
126 127 3.665190 TGGTTTTTCTTGCGGTTGTTTT 58.335 36.364 0.00 0.00 0.00 2.43
160 161 6.484643 TCTCTCATTCTTTGGTCTGTTTTCTG 59.515 38.462 0.00 0.00 0.00 3.02
199 200 1.545428 GGCCCAATATGGATTCTCGCA 60.545 52.381 0.00 0.00 40.96 5.10
202 203 1.826385 CCGGCCCAATATGGATTCTC 58.174 55.000 0.00 0.00 40.96 2.87
204 205 0.251341 AGCCGGCCCAATATGGATTC 60.251 55.000 26.15 0.00 40.96 2.52
225 226 4.184629 CCCAAAGATTGTTCTAGTCGAGG 58.815 47.826 0.00 0.00 0.00 4.63
232 233 3.369471 CCTCTCGCCCAAAGATTGTTCTA 60.369 47.826 0.00 0.00 0.00 2.10
240 241 1.194781 AGCTTCCTCTCGCCCAAAGA 61.195 55.000 0.00 0.00 0.00 2.52
258 259 4.343526 CCAGGGCTATATATCACCTGCTAG 59.656 50.000 18.18 7.30 45.65 3.42
302 303 2.147958 CTTCTCGAGACCTCCTATCCG 58.852 57.143 16.36 0.00 0.00 4.18
351 352 8.780846 TTCTGACACTACACTAAAGTCAAAAA 57.219 30.769 0.00 0.00 38.58 1.94
352 353 8.780846 TTTCTGACACTACACTAAAGTCAAAA 57.219 30.769 0.00 0.00 38.58 2.44
353 354 8.662141 GTTTTCTGACACTACACTAAAGTCAAA 58.338 33.333 0.00 0.00 38.58 2.69
354 355 7.009815 CGTTTTCTGACACTACACTAAAGTCAA 59.990 37.037 0.00 0.00 38.58 3.18
355 356 6.474427 CGTTTTCTGACACTACACTAAAGTCA 59.526 38.462 0.00 0.00 37.61 3.41
356 357 6.561717 GCGTTTTCTGACACTACACTAAAGTC 60.562 42.308 0.00 0.00 0.00 3.01
357 358 5.233689 GCGTTTTCTGACACTACACTAAAGT 59.766 40.000 0.00 0.00 0.00 2.66
358 359 5.333111 GGCGTTTTCTGACACTACACTAAAG 60.333 44.000 0.00 0.00 0.00 1.85
359 360 4.508861 GGCGTTTTCTGACACTACACTAAA 59.491 41.667 0.00 0.00 0.00 1.85
360 361 4.053295 GGCGTTTTCTGACACTACACTAA 58.947 43.478 0.00 0.00 0.00 2.24
361 362 3.319972 AGGCGTTTTCTGACACTACACTA 59.680 43.478 0.00 0.00 0.00 2.74
362 363 2.102588 AGGCGTTTTCTGACACTACACT 59.897 45.455 0.00 0.00 0.00 3.55
363 364 2.480845 AGGCGTTTTCTGACACTACAC 58.519 47.619 0.00 0.00 0.00 2.90
364 365 2.902705 AGGCGTTTTCTGACACTACA 57.097 45.000 0.00 0.00 0.00 2.74
365 366 4.053295 TGTAAGGCGTTTTCTGACACTAC 58.947 43.478 0.00 0.00 0.00 2.73
366 367 4.325028 TGTAAGGCGTTTTCTGACACTA 57.675 40.909 0.00 0.00 0.00 2.74
367 368 3.188159 TGTAAGGCGTTTTCTGACACT 57.812 42.857 0.00 0.00 0.00 3.55
368 369 4.483476 AATGTAAGGCGTTTTCTGACAC 57.517 40.909 0.00 0.00 29.14 3.67
369 370 5.935206 TCATAATGTAAGGCGTTTTCTGACA 59.065 36.000 0.00 0.00 30.83 3.58
370 371 6.417191 TCATAATGTAAGGCGTTTTCTGAC 57.583 37.500 0.00 0.00 0.00 3.51
371 372 7.041030 TGTTTCATAATGTAAGGCGTTTTCTGA 60.041 33.333 0.00 0.00 0.00 3.27
372 373 7.081349 TGTTTCATAATGTAAGGCGTTTTCTG 58.919 34.615 0.00 0.00 0.00 3.02
373 374 7.174253 TCTGTTTCATAATGTAAGGCGTTTTCT 59.826 33.333 0.00 0.00 0.00 2.52
374 375 7.302524 TCTGTTTCATAATGTAAGGCGTTTTC 58.697 34.615 0.00 0.00 0.00 2.29
375 376 7.209471 TCTGTTTCATAATGTAAGGCGTTTT 57.791 32.000 0.00 0.00 0.00 2.43
376 377 6.128007 CCTCTGTTTCATAATGTAAGGCGTTT 60.128 38.462 0.00 0.00 0.00 3.60
377 378 5.354234 CCTCTGTTTCATAATGTAAGGCGTT 59.646 40.000 0.00 0.00 0.00 4.84
378 379 4.876107 CCTCTGTTTCATAATGTAAGGCGT 59.124 41.667 0.00 0.00 0.00 5.68
379 380 4.273480 CCCTCTGTTTCATAATGTAAGGCG 59.727 45.833 0.00 0.00 0.00 5.52
380 381 5.437060 TCCCTCTGTTTCATAATGTAAGGC 58.563 41.667 0.00 0.00 0.00 4.35
381 382 6.653989 ACTCCCTCTGTTTCATAATGTAAGG 58.346 40.000 0.00 0.00 0.00 2.69
382 383 8.696374 TCTACTCCCTCTGTTTCATAATGTAAG 58.304 37.037 0.00 0.00 0.00 2.34
383 384 8.603898 TCTACTCCCTCTGTTTCATAATGTAA 57.396 34.615 0.00 0.00 0.00 2.41
384 385 8.475639 GTTCTACTCCCTCTGTTTCATAATGTA 58.524 37.037 0.00 0.00 0.00 2.29
385 386 7.038302 TGTTCTACTCCCTCTGTTTCATAATGT 60.038 37.037 0.00 0.00 0.00 2.71
386 387 7.331026 TGTTCTACTCCCTCTGTTTCATAATG 58.669 38.462 0.00 0.00 0.00 1.90
387 388 7.496346 TGTTCTACTCCCTCTGTTTCATAAT 57.504 36.000 0.00 0.00 0.00 1.28
388 389 6.928348 TGTTCTACTCCCTCTGTTTCATAA 57.072 37.500 0.00 0.00 0.00 1.90
389 390 6.928348 TTGTTCTACTCCCTCTGTTTCATA 57.072 37.500 0.00 0.00 0.00 2.15
390 391 5.825593 TTGTTCTACTCCCTCTGTTTCAT 57.174 39.130 0.00 0.00 0.00 2.57
391 392 5.623956 TTTGTTCTACTCCCTCTGTTTCA 57.376 39.130 0.00 0.00 0.00 2.69
392 393 6.203145 GTCTTTTGTTCTACTCCCTCTGTTTC 59.797 42.308 0.00 0.00 0.00 2.78
393 394 6.056236 GTCTTTTGTTCTACTCCCTCTGTTT 58.944 40.000 0.00 0.00 0.00 2.83
394 395 5.454897 GGTCTTTTGTTCTACTCCCTCTGTT 60.455 44.000 0.00 0.00 0.00 3.16
395 396 4.040584 GGTCTTTTGTTCTACTCCCTCTGT 59.959 45.833 0.00 0.00 0.00 3.41
396 397 4.040461 TGGTCTTTTGTTCTACTCCCTCTG 59.960 45.833 0.00 0.00 0.00 3.35
397 398 4.232091 TGGTCTTTTGTTCTACTCCCTCT 58.768 43.478 0.00 0.00 0.00 3.69
398 399 4.618920 TGGTCTTTTGTTCTACTCCCTC 57.381 45.455 0.00 0.00 0.00 4.30
399 400 5.132144 TCTTTGGTCTTTTGTTCTACTCCCT 59.868 40.000 0.00 0.00 0.00 4.20
400 401 5.374071 TCTTTGGTCTTTTGTTCTACTCCC 58.626 41.667 0.00 0.00 0.00 4.30
401 402 6.937436 TTCTTTGGTCTTTTGTTCTACTCC 57.063 37.500 0.00 0.00 0.00 3.85
402 403 9.803315 ATTTTTCTTTGGTCTTTTGTTCTACTC 57.197 29.630 0.00 0.00 0.00 2.59
421 422 4.286808 AGGCCATGCAAAACCTATTTTTCT 59.713 37.500 5.01 0.00 35.79 2.52
424 425 4.777366 AGTAGGCCATGCAAAACCTATTTT 59.223 37.500 5.01 3.07 38.61 1.82
431 432 0.451783 CCGAGTAGGCCATGCAAAAC 59.548 55.000 5.01 0.00 0.00 2.43
435 436 2.900273 GACCGAGTAGGCCATGCA 59.100 61.111 5.01 0.00 46.52 3.96
445 446 3.735029 GCCTCACGACGACCGAGT 61.735 66.667 0.00 0.00 41.76 4.18
451 452 4.720902 TACCGGGCCTCACGACGA 62.721 66.667 6.32 0.00 0.00 4.20
454 455 2.043752 TGATACCGGGCCTCACGA 60.044 61.111 6.32 0.00 0.00 4.35
473 474 0.694771 AGCTTTCCATGTGAGGCAGA 59.305 50.000 0.00 0.00 0.00 4.26
523 524 1.196808 AGCGCATACGTTTGTTCTTGG 59.803 47.619 11.47 0.00 42.83 3.61
534 535 1.324736 GAAGAAGTTGGAGCGCATACG 59.675 52.381 11.47 0.00 44.07 3.06
541 542 5.335504 CCTGAAGAAATGAAGAAGTTGGAGC 60.336 44.000 0.00 0.00 0.00 4.70
565 566 6.968131 AAAAGAAAAGGAAACTGCAGAAAC 57.032 33.333 23.35 10.28 42.68 2.78
570 571 7.836842 AGAAAGTAAAAGAAAAGGAAACTGCA 58.163 30.769 0.00 0.00 42.68 4.41
633 640 9.372369 ACAACTGAAAATTGGAAATAAAAACGA 57.628 25.926 0.00 0.00 0.00 3.85
634 641 9.980780 AACAACTGAAAATTGGAAATAAAAACG 57.019 25.926 0.00 0.00 0.00 3.60
695 702 7.878621 ATGAAGATCTGATGGGGTATAGAAA 57.121 36.000 0.00 0.00 0.00 2.52
701 708 4.474651 ACACAATGAAGATCTGATGGGGTA 59.525 41.667 0.00 0.00 0.00 3.69
703 710 3.894759 ACACAATGAAGATCTGATGGGG 58.105 45.455 0.00 0.00 0.00 4.96
708 715 4.639078 TGGGAACACAATGAAGATCTGA 57.361 40.909 0.00 0.00 33.40 3.27
723 730 4.265073 AGTCAAGTAATGCTCATGGGAAC 58.735 43.478 0.00 0.00 0.00 3.62
744 751 8.361139 AGTTTCGTGGGATCTGATTAGTATTAG 58.639 37.037 0.00 0.00 0.00 1.73
750 786 6.806751 TCTAAGTTTCGTGGGATCTGATTAG 58.193 40.000 0.00 0.00 0.00 1.73
761 797 4.167268 GTCTGTAGCTCTAAGTTTCGTGG 58.833 47.826 0.00 0.00 0.00 4.94
764 800 5.677612 CGTATGTCTGTAGCTCTAAGTTTCG 59.322 44.000 0.00 0.00 0.00 3.46
766 802 5.679127 GCCGTATGTCTGTAGCTCTAAGTTT 60.679 44.000 0.00 0.00 0.00 2.66
768 804 3.315749 GCCGTATGTCTGTAGCTCTAAGT 59.684 47.826 0.00 0.00 0.00 2.24
769 805 3.566322 AGCCGTATGTCTGTAGCTCTAAG 59.434 47.826 0.00 0.00 0.00 2.18
770 806 3.552875 AGCCGTATGTCTGTAGCTCTAA 58.447 45.455 0.00 0.00 0.00 2.10
771 807 3.210232 AGCCGTATGTCTGTAGCTCTA 57.790 47.619 0.00 0.00 0.00 2.43
772 808 2.060050 AGCCGTATGTCTGTAGCTCT 57.940 50.000 0.00 0.00 0.00 4.09
773 809 2.464865 CAAGCCGTATGTCTGTAGCTC 58.535 52.381 0.00 0.00 0.00 4.09
777 823 2.102420 CCATCCAAGCCGTATGTCTGTA 59.898 50.000 0.00 0.00 0.00 2.74
785 831 1.514087 GTCGACCATCCAAGCCGTA 59.486 57.895 3.51 0.00 0.00 4.02
790 836 2.511600 GCCCGTCGACCATCCAAG 60.512 66.667 10.58 0.00 0.00 3.61
806 852 0.863119 GCGATGCAAATCTTGGACGC 60.863 55.000 0.00 0.00 41.13 5.19
812 858 1.098050 GGACAGGCGATGCAAATCTT 58.902 50.000 0.00 0.00 0.00 2.40
819 865 3.017323 CAATCGGACAGGCGATGC 58.983 61.111 0.00 0.00 0.00 3.91
852 898 1.670949 GATCTGCAGTCGGCTCTGGA 61.671 60.000 14.67 5.04 45.15 3.86
853 899 1.227205 GATCTGCAGTCGGCTCTGG 60.227 63.158 14.67 0.00 45.15 3.86
854 900 0.528033 CTGATCTGCAGTCGGCTCTG 60.528 60.000 14.67 4.89 45.15 3.35
855 901 1.815196 CTGATCTGCAGTCGGCTCT 59.185 57.895 14.67 0.00 45.15 4.09
856 902 4.416533 CTGATCTGCAGTCGGCTC 57.583 61.111 14.67 5.02 45.15 4.70
905 958 7.661536 ATATATCGCTGGTCACCACTATATT 57.338 36.000 0.00 0.00 0.00 1.28
906 959 7.040340 GCTATATATCGCTGGTCACCACTATAT 60.040 40.741 0.00 0.00 0.00 0.86
907 960 6.262496 GCTATATATCGCTGGTCACCACTATA 59.738 42.308 0.00 0.00 0.00 1.31
908 961 5.067936 GCTATATATCGCTGGTCACCACTAT 59.932 44.000 0.00 0.00 0.00 2.12
909 962 4.398358 GCTATATATCGCTGGTCACCACTA 59.602 45.833 0.00 0.00 0.00 2.74
910 963 3.193691 GCTATATATCGCTGGTCACCACT 59.806 47.826 0.00 0.00 0.00 4.00
911 964 3.056821 TGCTATATATCGCTGGTCACCAC 60.057 47.826 10.28 0.00 0.00 4.16
912 965 3.056821 GTGCTATATATCGCTGGTCACCA 60.057 47.826 10.28 0.00 0.00 4.17
913 966 3.512680 GTGCTATATATCGCTGGTCACC 58.487 50.000 10.28 0.00 0.00 4.02
914 967 3.056821 TGGTGCTATATATCGCTGGTCAC 60.057 47.826 10.28 0.53 0.00 3.67
915 968 3.161866 TGGTGCTATATATCGCTGGTCA 58.838 45.455 10.28 1.92 0.00 4.02
916 969 3.775202 CTGGTGCTATATATCGCTGGTC 58.225 50.000 10.28 0.16 0.00 4.02
917 970 2.093973 GCTGGTGCTATATATCGCTGGT 60.094 50.000 10.28 0.00 36.03 4.00
918 971 2.094026 TGCTGGTGCTATATATCGCTGG 60.094 50.000 10.28 0.65 40.48 4.85
919 972 2.926200 GTGCTGGTGCTATATATCGCTG 59.074 50.000 10.28 0.91 40.48 5.18
920 973 2.562738 TGTGCTGGTGCTATATATCGCT 59.437 45.455 10.28 0.00 40.48 4.93
921 974 2.959516 TGTGCTGGTGCTATATATCGC 58.040 47.619 2.33 2.33 40.48 4.58
922 975 3.369147 GCTTGTGCTGGTGCTATATATCG 59.631 47.826 0.00 0.00 40.48 2.92
923 976 4.935885 GCTTGTGCTGGTGCTATATATC 57.064 45.455 0.00 0.00 40.48 1.63
1600 1689 2.202401 GACGGCGTCGAGGTACAC 60.202 66.667 25.42 0.00 40.11 2.90
1601 1690 2.669229 TGACGGCGTCGAGGTACA 60.669 61.111 31.90 13.14 40.11 2.90
1612 1701 2.896443 CCCTTCTCTCCTGACGGC 59.104 66.667 0.00 0.00 0.00 5.68
1613 1702 1.671901 GAGCCCTTCTCTCCTGACGG 61.672 65.000 0.00 0.00 38.78 4.79
1619 1708 2.279935 TATCTCGAGCCCTTCTCTCC 57.720 55.000 7.81 0.00 39.70 3.71
2060 2149 4.375272 CTGTTGAATATCTGCATCTCGGT 58.625 43.478 0.00 0.00 0.00 4.69
2113 2202 1.625508 GGGTAAGGGTCTGTCCAGGAT 60.626 57.143 0.00 0.00 38.11 3.24
2202 2300 9.740710 AGCACTAGACAGTATATGTATCATGTA 57.259 33.333 0.00 0.00 44.17 2.29
2203 2301 8.642935 AGCACTAGACAGTATATGTATCATGT 57.357 34.615 0.00 0.00 44.17 3.21
2204 2302 9.995957 GTAGCACTAGACAGTATATGTATCATG 57.004 37.037 0.00 0.00 44.17 3.07
2215 2313 6.775594 ACAATGATGTAGCACTAGACAGTA 57.224 37.500 0.00 0.00 38.24 2.74
2220 2318 7.836842 TGTTCTAACAATGATGTAGCACTAGA 58.163 34.615 0.00 0.00 39.40 2.43
2301 2404 4.612264 TTCAGTACACACCCCTTTAGTC 57.388 45.455 0.00 0.00 0.00 2.59
2339 2442 9.773328 TTCTTGATGATAGTTGCTTTTATTTCG 57.227 29.630 0.00 0.00 0.00 3.46
2457 2560 7.661847 AGAAAACTGAAGGGTAGTAGTTGATTG 59.338 37.037 0.00 0.00 33.95 2.67
2459 2562 7.016268 TCAGAAAACTGAAGGGTAGTAGTTGAT 59.984 37.037 0.00 0.00 33.95 2.57
2460 2563 6.325545 TCAGAAAACTGAAGGGTAGTAGTTGA 59.674 38.462 0.00 0.00 33.95 3.18
2461 2564 6.522054 TCAGAAAACTGAAGGGTAGTAGTTG 58.478 40.000 0.00 0.00 33.95 3.16
2464 2567 8.622948 AATTTCAGAAAACTGAAGGGTAGTAG 57.377 34.615 11.49 0.00 43.21 2.57
2465 2568 8.846211 CAAATTTCAGAAAACTGAAGGGTAGTA 58.154 33.333 11.49 0.00 43.21 1.82
2500 2638 4.116238 GCTCATAGTAGAAGAACTGTGGC 58.884 47.826 1.69 1.34 38.66 5.01
2517 2655 3.381908 CCTAACGACTTGGTAGAGCTCAT 59.618 47.826 17.77 3.63 0.00 2.90
2537 2675 1.098050 GATGGCTGCATTTTCGTCCT 58.902 50.000 0.50 0.00 0.00 3.85
2538 2676 1.098050 AGATGGCTGCATTTTCGTCC 58.902 50.000 0.50 0.00 0.00 4.79
2574 2712 2.433318 GCTGTGACCTCGCCTGAC 60.433 66.667 0.00 0.00 0.00 3.51
2734 2872 3.213506 TCATCCGATTTGGCGATTTCAT 58.786 40.909 0.00 0.00 37.80 2.57
2735 2873 2.637947 TCATCCGATTTGGCGATTTCA 58.362 42.857 0.00 0.00 37.80 2.69
2773 2911 7.246171 TCCCTATGTAGATATCTCTTTTGGC 57.754 40.000 8.95 0.00 32.66 4.52
2818 2956 8.118607 GCTGGAAAACTGAAAAATCAAAAAGAG 58.881 33.333 0.00 0.00 0.00 2.85
2876 3014 1.919600 ATTGCAGGGCCTCTGAGTCC 61.920 60.000 21.37 0.00 46.18 3.85
2882 3020 2.291800 ACATGTAAATTGCAGGGCCTCT 60.292 45.455 0.95 0.00 0.00 3.69
2886 3024 3.023832 ACCTACATGTAAATTGCAGGGC 58.976 45.455 7.06 0.00 32.72 5.19
2895 3033 7.809546 TTTGTGTGATTGACCTACATGTAAA 57.190 32.000 7.06 0.00 0.00 2.01
2969 3124 5.011431 TGGTAGTATTCTCCTGCATCATCTG 59.989 44.000 0.00 0.00 0.00 2.90
2970 3125 5.150715 TGGTAGTATTCTCCTGCATCATCT 58.849 41.667 0.00 0.00 0.00 2.90
3022 3177 3.056035 ACTGTTTTGTTACCCCGCAAAAA 60.056 39.130 4.36 0.00 43.37 1.94
3023 3178 2.496470 ACTGTTTTGTTACCCCGCAAAA 59.504 40.909 0.00 0.00 40.78 2.44
3024 3179 2.100989 ACTGTTTTGTTACCCCGCAAA 58.899 42.857 0.00 0.00 33.40 3.68
3025 3180 1.765230 ACTGTTTTGTTACCCCGCAA 58.235 45.000 0.00 0.00 0.00 4.85
3026 3181 2.158784 AGTACTGTTTTGTTACCCCGCA 60.159 45.455 0.00 0.00 0.00 5.69
3027 3182 2.497138 AGTACTGTTTTGTTACCCCGC 58.503 47.619 0.00 0.00 0.00 6.13
3028 3183 4.336153 ACAAAGTACTGTTTTGTTACCCCG 59.664 41.667 5.74 0.00 44.04 5.73
3029 3184 5.221106 GGACAAAGTACTGTTTTGTTACCCC 60.221 44.000 11.69 5.96 45.82 4.95
3030 3185 5.357596 TGGACAAAGTACTGTTTTGTTACCC 59.642 40.000 11.69 9.44 45.82 3.69
3031 3186 6.439675 TGGACAAAGTACTGTTTTGTTACC 57.560 37.500 11.69 10.00 45.82 2.85
3032 3187 8.024865 AGTTTGGACAAAGTACTGTTTTGTTAC 58.975 33.333 11.69 9.17 45.82 2.50
3090 3245 2.418197 GCTGGGATGTAGCTCGTTTACA 60.418 50.000 0.00 0.00 38.14 2.41
3101 3256 3.161450 GGGCCGAGCTGGGATGTA 61.161 66.667 20.35 0.00 38.63 2.29
3112 3267 0.108041 GTAAATTGACCTCGGGCCGA 60.108 55.000 29.14 29.14 0.00 5.54
3113 3268 0.391927 TGTAAATTGACCTCGGGCCG 60.392 55.000 22.51 22.51 0.00 6.13
3114 3269 1.092348 GTGTAAATTGACCTCGGGCC 58.908 55.000 0.00 0.00 0.00 5.80
3115 3270 2.109425 AGTGTAAATTGACCTCGGGC 57.891 50.000 0.00 0.00 0.00 6.13
3116 3271 4.419522 CAAAGTGTAAATTGACCTCGGG 57.580 45.455 0.00 0.00 0.00 5.14


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

AutoCloner maintained by Alex Coulton.