Multiple sequence alignment - TraesCS2D01G092200

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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 TraesCS2D01G092200 chr2D 100.000 2855 0 0 1 2855 43951068 43953922 0.000000e+00 5273.0
1 TraesCS2D01G092200 chr2D 87.068 897 57 27 910 1758 43963942 43964827 0.000000e+00 959.0
2 TraesCS2D01G092200 chr2D 95.955 445 16 2 1955 2399 43966573 43967015 0.000000e+00 721.0
3 TraesCS2D01G092200 chr2D 95.726 117 4 1 2740 2855 331495874 331495990 1.350000e-43 187.0
4 TraesCS2D01G092200 chr2D 93.496 123 6 2 2733 2855 144137525 144137405 6.280000e-42 182.0
5 TraesCS2D01G092200 chr2D 85.119 168 6 8 1793 1956 43966388 43966540 1.370000e-33 154.0
6 TraesCS2D01G092200 chr2D 83.893 149 24 0 391 539 493617515 493617367 2.970000e-30 143.0
7 TraesCS2D01G092200 chr2B 87.705 976 45 34 842 1786 68585755 68584824 0.000000e+00 1068.0
8 TraesCS2D01G092200 chr2B 87.217 751 62 16 846 1571 68756408 68757149 0.000000e+00 824.0
9 TraesCS2D01G092200 chr2B 89.776 626 23 10 1189 1783 68722568 68723183 0.000000e+00 763.0
10 TraesCS2D01G092200 chr2B 85.993 614 61 14 2144 2749 68817583 68818179 4.010000e-178 634.0
11 TraesCS2D01G092200 chr2B 88.222 433 38 7 2325 2749 68758438 68758865 3.280000e-139 505.0
12 TraesCS2D01G092200 chr2B 88.194 432 17 7 1381 1783 68816612 68817038 4.280000e-133 484.0
13 TraesCS2D01G092200 chr2B 92.258 310 18 2 1951 2257 68757698 68758004 4.370000e-118 435.0
14 TraesCS2D01G092200 chr2B 85.459 392 22 11 1575 1936 68757260 68757646 2.690000e-100 375.0
15 TraesCS2D01G092200 chr2B 87.234 282 26 5 1125 1402 68816246 68816521 2.140000e-81 313.0
16 TraesCS2D01G092200 chr2B 92.308 117 9 0 586 702 68791832 68791948 1.760000e-37 167.0
17 TraesCS2D01G092200 chr2B 91.453 117 10 0 586 702 68722300 68722416 8.190000e-36 161.0
18 TraesCS2D01G092200 chr2B 78.829 222 40 5 325 543 154524849 154524632 2.970000e-30 143.0
19 TraesCS2D01G092200 chr2B 94.737 76 4 0 750 825 68585818 68585743 5.000000e-23 119.0
20 TraesCS2D01G092200 chr2B 87.952 83 5 3 770 849 68792088 68792168 3.030000e-15 93.5
21 TraesCS2D01G092200 chr2B 86.420 81 9 2 1463 1542 678088513 678088434 1.410000e-13 87.9
22 TraesCS2D01G092200 chr2B 93.333 45 2 1 2284 2328 68758001 68758044 6.600000e-07 65.8
23 TraesCS2D01G092200 chr2A 93.648 488 20 5 905 1386 47673154 47673636 0.000000e+00 719.0
24 TraesCS2D01G092200 chr2A 85.441 522 33 19 1465 1956 47673697 47674205 1.180000e-138 503.0
25 TraesCS2D01G092200 chr2A 87.671 438 41 6 2321 2749 47704837 47705270 5.490000e-137 497.0
26 TraesCS2D01G092200 chr2A 89.944 358 30 2 1970 2324 47690300 47690654 9.320000e-125 457.0
27 TraesCS2D01G092200 chr2A 94.737 133 7 0 750 882 47667150 47667282 1.040000e-49 207.0
28 TraesCS2D01G092200 chr2A 93.478 138 5 2 1955 2088 47674238 47674375 4.820000e-48 202.0
29 TraesCS2D01G092200 chr2A 89.831 59 4 1 644 702 47666979 47667035 1.100000e-09 75.0
30 TraesCS2D01G092200 chrUn 93.709 302 15 2 1 302 283159062 283159359 1.560000e-122 449.0
31 TraesCS2D01G092200 chrUn 91.379 232 19 1 310 541 283159458 283159688 1.650000e-82 316.0
32 TraesCS2D01G092200 chr7A 88.532 218 24 1 322 539 641377343 641377127 2.180000e-66 263.0
33 TraesCS2D01G092200 chr7A 84.472 161 23 2 391 550 218188470 218188629 1.060000e-34 158.0
34 TraesCS2D01G092200 chr5A 83.133 249 28 7 2508 2749 157237927 157237686 6.200000e-52 215.0
35 TraesCS2D01G092200 chr5A 84.564 149 23 0 391 539 564303821 564303969 6.370000e-32 148.0
36 TraesCS2D01G092200 chr4A 80.602 299 27 17 1951 2221 740861604 740861899 4.820000e-48 202.0
37 TraesCS2D01G092200 chr4A 87.500 168 14 3 1793 1956 740861416 740861580 1.350000e-43 187.0
38 TraesCS2D01G092200 chr4A 85.235 149 22 0 391 539 616985662 616985514 1.370000e-33 154.0
39 TraesCS2D01G092200 chr4D 84.058 207 25 7 308 510 13572328 13572126 2.900000e-45 193.0
40 TraesCS2D01G092200 chr4D 94.309 123 5 2 2733 2855 87018469 87018589 1.350000e-43 187.0
41 TraesCS2D01G092200 chr4D 97.273 110 3 0 2746 2855 217614272 217614163 1.350000e-43 187.0
42 TraesCS2D01G092200 chr4D 84.507 71 10 1 1 71 70221062 70221131 5.100000e-08 69.4
43 TraesCS2D01G092200 chr5D 95.798 119 4 1 2738 2855 94381878 94381760 1.040000e-44 191.0
44 TraesCS2D01G092200 chr5D 96.491 114 3 1 2742 2855 382843730 382843842 1.350000e-43 187.0
45 TraesCS2D01G092200 chr5D 95.041 121 3 3 2736 2855 429311053 429311171 1.350000e-43 187.0
46 TraesCS2D01G092200 chr5D 74.895 239 44 13 2505 2739 446552078 446551852 8.420000e-16 95.3
47 TraesCS2D01G092200 chr5D 87.324 71 8 1 1 71 369032301 369032232 2.360000e-11 80.5
48 TraesCS2D01G092200 chr6D 96.491 114 4 0 2742 2855 248347161 248347274 3.750000e-44 189.0
49 TraesCS2D01G092200 chr6D 92.188 128 8 2 2729 2855 243253289 243253163 2.260000e-41 180.0
50 TraesCS2D01G092200 chr6D 90.909 66 6 0 1473 1538 106049384 106049449 3.920000e-14 89.8
51 TraesCS2D01G092200 chr1B 80.556 252 38 7 2505 2749 564300454 564300701 1.750000e-42 183.0
52 TraesCS2D01G092200 chr1B 84.722 72 8 3 1 71 533185479 533185548 5.100000e-08 69.4
53 TraesCS2D01G092200 chr6B 81.277 235 32 9 2506 2734 436725956 436726184 2.260000e-41 180.0
54 TraesCS2D01G092200 chr6B 90.909 66 6 0 1473 1538 192738726 192738791 3.920000e-14 89.8
55 TraesCS2D01G092200 chr6B 88.525 61 7 0 1 61 654467414 654467354 1.100000e-09 75.0
56 TraesCS2D01G092200 chr5B 80.083 241 36 8 2508 2742 20733672 20733438 4.890000e-38 169.0
57 TraesCS2D01G092200 chr6A 85.430 151 22 0 391 541 590068185 590068335 1.060000e-34 158.0
58 TraesCS2D01G092200 chr3B 78.629 248 43 5 2508 2749 561596233 561595990 3.810000e-34 156.0
59 TraesCS2D01G092200 chr3B 92.063 63 5 0 1 63 17681507 17681445 3.920000e-14 89.8
60 TraesCS2D01G092200 chr3B 88.889 63 7 0 1 63 17667529 17667467 8.480000e-11 78.7
61 TraesCS2D01G092200 chr7D 82.418 182 20 5 2507 2681 420739265 420739089 6.370000e-32 148.0
62 TraesCS2D01G092200 chr7B 95.556 45 2 0 15 59 493505269 493505313 3.950000e-09 73.1
63 TraesCS2D01G092200 chr3A 91.837 49 3 1 17 65 646742887 646742934 1.840000e-07 67.6


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 TraesCS2D01G092200 chr2D 43951068 43953922 2854 False 5273.000000 5273 100.000000 1 2855 1 chr2D.!!$F1 2854
1 TraesCS2D01G092200 chr2D 43963942 43967015 3073 False 611.333333 959 89.380667 910 2399 3 chr2D.!!$F3 1489
2 TraesCS2D01G092200 chr2B 68584824 68585818 994 True 593.500000 1068 91.221000 750 1786 2 chr2B.!!$R3 1036
3 TraesCS2D01G092200 chr2B 68816246 68818179 1933 False 477.000000 634 87.140333 1125 2749 3 chr2B.!!$F4 1624
4 TraesCS2D01G092200 chr2B 68722300 68723183 883 False 462.000000 763 90.614500 586 1783 2 chr2B.!!$F1 1197
5 TraesCS2D01G092200 chr2B 68756408 68758865 2457 False 440.960000 824 89.297800 846 2749 5 chr2B.!!$F2 1903
6 TraesCS2D01G092200 chr2A 47673154 47674375 1221 False 474.666667 719 90.855667 905 2088 3 chr2A.!!$F4 1183
7 TraesCS2D01G092200 chrUn 283159062 283159688 626 False 382.500000 449 92.544000 1 541 2 chrUn.!!$F1 540

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
580 672 0.031721 GGAGTCGTCGAACCACAACT 59.968 55.0 12.83 0.0 0.0 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2207 4475 0.999406 GCAACACGATACATGCGTCT 59.001 50.0 0.0 0.0 40.44 4.18 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
81 82 1.033202 AGCGCAACATGATGCATGGA 61.033 50.000 25.23 0.00 46.76 3.41
111 112 6.172630 GGCCATTTGATTTTTAACTGATGGT 58.827 36.000 0.00 0.00 36.16 3.55
114 115 7.387397 GCCATTTGATTTTTAACTGATGGTCAA 59.613 33.333 0.00 0.00 36.16 3.18
157 158 4.127907 CTCTCTCAGTGTGCATGCATATT 58.872 43.478 25.64 15.73 0.00 1.28
175 176 8.404107 TGCATATTCATGAGAAATCACATCAT 57.596 30.769 0.00 0.00 37.29 2.45
206 207 2.166664 GAGAGAGCGGAAAGTATGTGGT 59.833 50.000 0.00 0.00 0.00 4.16
220 221 5.131784 AGTATGTGGTCTAGCACCTACTAC 58.868 45.833 21.13 12.55 46.98 2.73
228 229 2.526888 AGCACCTACTACTGCTGGTA 57.473 50.000 0.00 0.00 42.29 3.25
237 238 2.515996 TACTGCTGGTAGCCCGCAAC 62.516 60.000 5.81 0.00 41.51 4.17
238 239 3.899981 CTGCTGGTAGCCCGCAACA 62.900 63.158 5.81 0.00 41.51 3.33
239 240 2.438434 GCTGGTAGCCCGCAACAT 60.438 61.111 0.00 0.00 34.48 2.71
240 241 2.764314 GCTGGTAGCCCGCAACATG 61.764 63.158 0.00 0.00 34.48 3.21
246 247 4.438562 GCCCGCAACATGCATGCA 62.439 61.111 26.53 25.04 45.36 3.96
302 303 0.736325 CCTAGCGCGTGTTACTGCTT 60.736 55.000 8.43 0.00 38.82 3.91
304 305 0.242825 TAGCGCGTGTTACTGCTTCT 59.757 50.000 8.43 0.00 38.82 2.85
305 306 1.009389 AGCGCGTGTTACTGCTTCTC 61.009 55.000 8.43 0.00 32.89 2.87
306 307 1.282248 GCGCGTGTTACTGCTTCTCA 61.282 55.000 8.43 0.00 0.00 3.27
332 424 0.391597 GCTATAACTGCCTACCGCCA 59.608 55.000 0.00 0.00 36.24 5.69
383 475 0.319083 TAAACGGATGTGACGGTGCT 59.681 50.000 0.00 0.00 35.23 4.40
462 554 2.814336 CTCTGGCTGTAACAAAAGGGTC 59.186 50.000 0.00 0.00 0.00 4.46
467 559 3.826729 GGCTGTAACAAAAGGGTCAGATT 59.173 43.478 0.00 0.00 0.00 2.40
468 560 4.280929 GGCTGTAACAAAAGGGTCAGATTT 59.719 41.667 0.00 0.00 0.00 2.17
471 563 4.517453 TGTAACAAAAGGGTCAGATTTCGG 59.483 41.667 0.00 0.00 0.00 4.30
481 573 6.007703 AGGGTCAGATTTCGGAATTTTTACA 58.992 36.000 0.00 0.00 0.00 2.41
498 590 0.613777 ACAAACCGGGGTCAGATCTC 59.386 55.000 6.32 0.00 0.00 2.75
505 597 2.563179 CCGGGGTCAGATCTCGAATAAT 59.437 50.000 3.86 0.00 0.00 1.28
509 601 5.527582 CGGGGTCAGATCTCGAATAATTTTT 59.472 40.000 0.00 0.00 0.00 1.94
511 603 7.095607 CGGGGTCAGATCTCGAATAATTTTTAG 60.096 40.741 0.00 0.00 0.00 1.85
541 633 3.118592 TCAAAACACGAAAATTTGCCCCT 60.119 39.130 0.00 0.00 34.77 4.79
542 634 2.524569 AACACGAAAATTTGCCCCTG 57.475 45.000 0.00 0.00 0.00 4.45
543 635 1.408969 ACACGAAAATTTGCCCCTGT 58.591 45.000 0.00 0.00 0.00 4.00
544 636 2.588620 ACACGAAAATTTGCCCCTGTA 58.411 42.857 0.00 0.00 0.00 2.74
545 637 2.556622 ACACGAAAATTTGCCCCTGTAG 59.443 45.455 0.00 0.00 0.00 2.74
546 638 2.094752 CACGAAAATTTGCCCCTGTAGG 60.095 50.000 0.00 0.00 0.00 3.18
555 647 2.116383 CCCCTGTAGGCAGTAGACG 58.884 63.158 0.00 0.00 41.02 4.18
556 648 1.392710 CCCCTGTAGGCAGTAGACGG 61.393 65.000 0.00 0.00 41.02 4.79
557 649 1.437986 CCTGTAGGCAGTAGACGGC 59.562 63.158 0.00 0.00 41.02 5.68
563 655 2.900273 GCAGTAGACGGCCATGGA 59.100 61.111 18.40 0.00 0.00 3.41
564 656 1.227380 GCAGTAGACGGCCATGGAG 60.227 63.158 18.40 11.25 0.00 3.86
565 657 1.961180 GCAGTAGACGGCCATGGAGT 61.961 60.000 18.40 14.85 0.00 3.85
566 658 0.103208 CAGTAGACGGCCATGGAGTC 59.897 60.000 24.73 24.73 35.30 3.36
567 659 1.065928 GTAGACGGCCATGGAGTCG 59.934 63.158 25.29 21.44 39.65 4.18
568 660 1.379443 TAGACGGCCATGGAGTCGT 60.379 57.895 25.29 23.79 39.65 4.34
569 661 2.202756 GACGGCCATGGAGTCGTC 60.203 66.667 27.28 27.28 43.62 4.20
570 662 4.129737 ACGGCCATGGAGTCGTCG 62.130 66.667 18.40 10.77 0.00 5.12
571 663 3.822192 CGGCCATGGAGTCGTCGA 61.822 66.667 18.40 0.00 0.00 4.20
572 664 2.577059 GGCCATGGAGTCGTCGAA 59.423 61.111 18.40 0.00 0.00 3.71
573 665 1.810030 GGCCATGGAGTCGTCGAAC 60.810 63.158 18.40 0.00 0.00 3.95
574 666 1.810030 GCCATGGAGTCGTCGAACC 60.810 63.158 18.40 11.35 0.00 3.62
575 667 1.589630 CCATGGAGTCGTCGAACCA 59.410 57.895 19.77 19.77 36.83 3.67
576 668 0.736325 CCATGGAGTCGTCGAACCAC 60.736 60.000 19.85 0.00 35.19 4.16
577 669 0.038618 CATGGAGTCGTCGAACCACA 60.039 55.000 19.85 8.19 35.19 4.17
578 670 0.677288 ATGGAGTCGTCGAACCACAA 59.323 50.000 19.85 3.52 35.19 3.33
579 671 0.249155 TGGAGTCGTCGAACCACAAC 60.249 55.000 15.45 0.00 0.00 3.32
580 672 0.031721 GGAGTCGTCGAACCACAACT 59.968 55.000 12.83 0.00 0.00 3.16
581 673 1.406447 GAGTCGTCGAACCACAACTC 58.594 55.000 0.00 0.00 0.00 3.01
582 674 0.742505 AGTCGTCGAACCACAACTCA 59.257 50.000 0.00 0.00 0.00 3.41
583 675 1.340248 AGTCGTCGAACCACAACTCAT 59.660 47.619 0.00 0.00 0.00 2.90
584 676 1.719780 GTCGTCGAACCACAACTCATC 59.280 52.381 0.00 0.00 0.00 2.92
585 677 1.068474 CGTCGAACCACAACTCATCC 58.932 55.000 0.00 0.00 0.00 3.51
586 678 1.439679 GTCGAACCACAACTCATCCC 58.560 55.000 0.00 0.00 0.00 3.85
587 679 0.323629 TCGAACCACAACTCATCCCC 59.676 55.000 0.00 0.00 0.00 4.81
612 704 1.014564 GCGTCCCGAGGAACAAGAAG 61.015 60.000 0.00 0.00 31.38 2.85
627 719 0.179073 AGAAGTCGTTGCACTGCTGT 60.179 50.000 1.98 0.00 30.12 4.40
628 720 0.041839 GAAGTCGTTGCACTGCTGTG 60.042 55.000 18.54 18.54 46.37 3.66
639 731 1.080435 ACTGCTGTGTGATCGCGATG 61.080 55.000 29.09 12.10 0.00 3.84
644 736 0.459934 TGTGTGATCGCGATGATGCA 60.460 50.000 29.09 17.67 37.47 3.96
645 737 0.863799 GTGTGATCGCGATGATGCAT 59.136 50.000 29.09 0.00 37.47 3.96
650 742 1.848932 ATCGCGATGATGCATGTGCC 61.849 55.000 23.04 0.00 41.18 5.01
679 771 2.710902 CCGCCGATGGAGTGTGAGA 61.711 63.158 0.00 0.00 0.00 3.27
730 910 3.082548 GAGAGCATGCATGGCTTCATAT 58.917 45.455 27.34 9.98 42.78 1.78
731 911 3.497332 AGAGCATGCATGGCTTCATATT 58.503 40.909 27.34 3.10 42.78 1.28
732 912 4.659115 AGAGCATGCATGGCTTCATATTA 58.341 39.130 27.34 0.00 42.78 0.98
733 913 5.262009 AGAGCATGCATGGCTTCATATTAT 58.738 37.500 27.34 1.77 42.78 1.28
734 914 5.357314 AGAGCATGCATGGCTTCATATTATC 59.643 40.000 27.34 6.42 42.78 1.75
735 915 5.014202 AGCATGCATGGCTTCATATTATCA 58.986 37.500 27.34 0.00 38.81 2.15
736 916 5.656859 AGCATGCATGGCTTCATATTATCAT 59.343 36.000 27.34 0.00 38.81 2.45
737 917 6.831868 AGCATGCATGGCTTCATATTATCATA 59.168 34.615 27.34 0.00 38.81 2.15
738 918 7.505923 AGCATGCATGGCTTCATATTATCATAT 59.494 33.333 27.34 0.00 38.81 1.78
739 919 8.789762 GCATGCATGGCTTCATATTATCATATA 58.210 33.333 27.34 0.00 0.00 0.86
825 1005 2.738521 CAAGGTCGTCCACGCCAG 60.739 66.667 12.88 4.07 37.78 4.85
826 1006 4.003788 AAGGTCGTCCACGCCAGG 62.004 66.667 12.88 0.00 37.78 4.45
875 1055 7.573656 GCCATCCTTTCCAAATTTGACAATTTC 60.574 37.037 19.86 0.00 40.09 2.17
894 1074 3.247006 TCTCTCCAAAACTGTATCCGC 57.753 47.619 0.00 0.00 0.00 5.54
1053 1282 3.515630 GATGCAGATCTTCGTCAAGACA 58.484 45.455 9.41 0.00 41.64 3.41
1609 2132 2.181125 TGCCAATAACGTCCTACCTCA 58.819 47.619 0.00 0.00 0.00 3.86
1688 2211 4.189231 CAGGTTTACGAGGGAAATAGTGG 58.811 47.826 0.00 0.00 0.00 4.00
1736 2261 3.323774 AGGTGACCATAAGGACCGATA 57.676 47.619 3.63 0.00 36.99 2.92
1791 3827 3.917329 CATCTCCTGCTTGGCATAATG 57.083 47.619 0.00 0.00 38.13 1.90
1957 4083 4.707448 TCCAGCAAGTCAAGTGGTTAAAAA 59.293 37.500 0.00 0.00 0.00 1.94
2207 4475 1.277326 GATGCATCACGTCACGCTTA 58.723 50.000 21.92 0.00 34.16 3.09
2318 4586 3.127721 GCTCCTCCAAGTCATGCTAAAAC 59.872 47.826 0.00 0.00 0.00 2.43
2366 5031 4.970662 ACGGAGATGACAAAATGATTGG 57.029 40.909 0.00 0.00 0.00 3.16
2377 5042 5.296748 ACAAAATGATTGGAGGAAAAACCG 58.703 37.500 0.00 0.00 44.74 4.44
2410 5075 6.127703 GCACCTTCCCCTAAAGTTCTTTATTC 60.128 42.308 5.63 0.00 0.00 1.75
2475 5140 6.036470 TCTCACAAGATATTGCTTACACTCG 58.964 40.000 0.00 0.00 0.00 4.18
2572 5237 5.929992 GCATCAGGCAAATACAATGCATTAT 59.070 36.000 12.53 2.82 45.60 1.28
2573 5238 6.128661 GCATCAGGCAAATACAATGCATTATG 60.129 38.462 12.53 8.62 45.60 1.90
2629 5294 2.034558 ACACAGCCAAATCCAAAAGTCG 59.965 45.455 0.00 0.00 0.00 4.18
2703 5376 0.738975 CGTGCCTATGTCGAAGGAGA 59.261 55.000 5.80 0.00 36.08 3.71
2716 5389 4.039245 GTCGAAGGAGATGGTGGATCAATA 59.961 45.833 0.00 0.00 32.86 1.90
2742 5415 5.519183 AGGTTATGCTGCCATCCATATTA 57.481 39.130 0.00 0.00 32.85 0.98
2749 5422 6.395426 TGCTGCCATCCATATTAAGAAAAG 57.605 37.500 0.00 0.00 0.00 2.27
2750 5423 5.302568 TGCTGCCATCCATATTAAGAAAAGG 59.697 40.000 0.00 0.00 0.00 3.11
2751 5424 5.279156 GCTGCCATCCATATTAAGAAAAGGG 60.279 44.000 0.00 0.00 0.00 3.95
2752 5425 6.024563 TGCCATCCATATTAAGAAAAGGGA 57.975 37.500 0.00 0.00 0.00 4.20
2753 5426 6.623329 TGCCATCCATATTAAGAAAAGGGAT 58.377 36.000 0.00 0.00 34.13 3.85
2754 5427 7.764617 TGCCATCCATATTAAGAAAAGGGATA 58.235 34.615 0.00 0.00 32.66 2.59
2755 5428 8.231007 TGCCATCCATATTAAGAAAAGGGATAA 58.769 33.333 0.00 0.00 32.66 1.75
2756 5429 9.259832 GCCATCCATATTAAGAAAAGGGATAAT 57.740 33.333 0.00 0.00 32.66 1.28
2769 5442 9.314133 AGAAAAGGGATAATTAGATTTATGCCC 57.686 33.333 10.09 0.00 45.97 5.36
2770 5443 8.435931 AAAAGGGATAATTAGATTTATGCCCC 57.564 34.615 10.09 0.00 45.97 5.80
2771 5444 6.995081 AGGGATAATTAGATTTATGCCCCT 57.005 37.500 10.09 0.00 45.97 4.79
2772 5445 8.476829 AAGGGATAATTAGATTTATGCCCCTA 57.523 34.615 10.09 0.00 45.97 3.53
2773 5446 8.476829 AGGGATAATTAGATTTATGCCCCTAA 57.523 34.615 10.09 0.00 45.97 2.69
2774 5447 9.084920 AGGGATAATTAGATTTATGCCCCTAAT 57.915 33.333 10.09 0.00 45.97 1.73
2775 5448 9.715119 GGGATAATTAGATTTATGCCCCTAATT 57.285 33.333 0.00 0.00 41.63 1.40
2779 5452 8.782137 AATTAGATTTATGCCCCTAATTGTGT 57.218 30.769 0.00 0.00 39.17 3.72
2780 5453 7.817418 TTAGATTTATGCCCCTAATTGTGTC 57.183 36.000 0.00 0.00 0.00 3.67
2781 5454 5.140454 AGATTTATGCCCCTAATTGTGTCC 58.860 41.667 0.00 0.00 0.00 4.02
2782 5455 3.306472 TTATGCCCCTAATTGTGTCCC 57.694 47.619 0.00 0.00 0.00 4.46
2783 5456 1.006813 ATGCCCCTAATTGTGTCCCA 58.993 50.000 0.00 0.00 0.00 4.37
2784 5457 0.039035 TGCCCCTAATTGTGTCCCAC 59.961 55.000 0.00 0.00 34.56 4.61
2785 5458 0.331616 GCCCCTAATTGTGTCCCACT 59.668 55.000 0.00 0.00 35.11 4.00
2786 5459 1.272480 GCCCCTAATTGTGTCCCACTT 60.272 52.381 0.00 0.00 35.11 3.16
2787 5460 2.446435 CCCCTAATTGTGTCCCACTTG 58.554 52.381 0.00 0.00 35.11 3.16
2788 5461 2.225017 CCCCTAATTGTGTCCCACTTGT 60.225 50.000 0.00 0.00 35.11 3.16
2789 5462 3.081804 CCCTAATTGTGTCCCACTTGTC 58.918 50.000 0.00 0.00 35.11 3.18
2790 5463 3.244911 CCCTAATTGTGTCCCACTTGTCT 60.245 47.826 0.00 0.00 35.11 3.41
2791 5464 3.753272 CCTAATTGTGTCCCACTTGTCTG 59.247 47.826 0.00 0.00 35.11 3.51
2792 5465 3.297134 AATTGTGTCCCACTTGTCTGT 57.703 42.857 0.00 0.00 35.11 3.41
2793 5466 2.799126 TTGTGTCCCACTTGTCTGTT 57.201 45.000 0.00 0.00 35.11 3.16
2794 5467 2.799126 TGTGTCCCACTTGTCTGTTT 57.201 45.000 0.00 0.00 35.11 2.83
2795 5468 3.080300 TGTGTCCCACTTGTCTGTTTT 57.920 42.857 0.00 0.00 35.11 2.43
2796 5469 4.223556 TGTGTCCCACTTGTCTGTTTTA 57.776 40.909 0.00 0.00 35.11 1.52
2797 5470 3.942748 TGTGTCCCACTTGTCTGTTTTAC 59.057 43.478 0.00 0.00 35.11 2.01
2798 5471 3.314357 GTGTCCCACTTGTCTGTTTTACC 59.686 47.826 0.00 0.00 0.00 2.85
2799 5472 2.882761 GTCCCACTTGTCTGTTTTACCC 59.117 50.000 0.00 0.00 0.00 3.69
2800 5473 2.158579 TCCCACTTGTCTGTTTTACCCC 60.159 50.000 0.00 0.00 0.00 4.95
2801 5474 2.158519 CCCACTTGTCTGTTTTACCCCT 60.159 50.000 0.00 0.00 0.00 4.79
2802 5475 3.073356 CCCACTTGTCTGTTTTACCCCTA 59.927 47.826 0.00 0.00 0.00 3.53
2803 5476 4.446600 CCCACTTGTCTGTTTTACCCCTAA 60.447 45.833 0.00 0.00 0.00 2.69
2804 5477 5.321927 CCACTTGTCTGTTTTACCCCTAAT 58.678 41.667 0.00 0.00 0.00 1.73
2805 5478 5.773176 CCACTTGTCTGTTTTACCCCTAATT 59.227 40.000 0.00 0.00 0.00 1.40
2806 5479 6.072119 CCACTTGTCTGTTTTACCCCTAATTC 60.072 42.308 0.00 0.00 0.00 2.17
2807 5480 6.715264 CACTTGTCTGTTTTACCCCTAATTCT 59.285 38.462 0.00 0.00 0.00 2.40
2808 5481 6.940867 ACTTGTCTGTTTTACCCCTAATTCTC 59.059 38.462 0.00 0.00 0.00 2.87
2809 5482 6.442541 TGTCTGTTTTACCCCTAATTCTCA 57.557 37.500 0.00 0.00 0.00 3.27
2810 5483 6.843752 TGTCTGTTTTACCCCTAATTCTCAA 58.156 36.000 0.00 0.00 0.00 3.02
2811 5484 7.291566 TGTCTGTTTTACCCCTAATTCTCAAA 58.708 34.615 0.00 0.00 0.00 2.69
2812 5485 7.780745 TGTCTGTTTTACCCCTAATTCTCAAAA 59.219 33.333 0.00 0.00 0.00 2.44
2813 5486 8.297426 GTCTGTTTTACCCCTAATTCTCAAAAG 58.703 37.037 0.00 0.00 0.00 2.27
2814 5487 8.002459 TCTGTTTTACCCCTAATTCTCAAAAGT 58.998 33.333 0.00 0.00 0.00 2.66
2815 5488 8.173542 TGTTTTACCCCTAATTCTCAAAAGTC 57.826 34.615 0.00 0.00 0.00 3.01
2816 5489 7.780745 TGTTTTACCCCTAATTCTCAAAAGTCA 59.219 33.333 0.00 0.00 0.00 3.41
2817 5490 7.754851 TTTACCCCTAATTCTCAAAAGTCAC 57.245 36.000 0.00 0.00 0.00 3.67
2818 5491 4.663334 ACCCCTAATTCTCAAAAGTCACC 58.337 43.478 0.00 0.00 0.00 4.02
2819 5492 3.689649 CCCCTAATTCTCAAAAGTCACCG 59.310 47.826 0.00 0.00 0.00 4.94
2820 5493 3.689649 CCCTAATTCTCAAAAGTCACCGG 59.310 47.826 0.00 0.00 0.00 5.28
2821 5494 4.324267 CCTAATTCTCAAAAGTCACCGGT 58.676 43.478 0.00 0.00 0.00 5.28
2822 5495 4.760204 CCTAATTCTCAAAAGTCACCGGTT 59.240 41.667 2.97 0.00 0.00 4.44
2823 5496 4.830826 AATTCTCAAAAGTCACCGGTTC 57.169 40.909 2.97 0.32 0.00 3.62
2824 5497 3.553828 TTCTCAAAAGTCACCGGTTCT 57.446 42.857 2.97 3.30 0.00 3.01
2825 5498 2.833794 TCTCAAAAGTCACCGGTTCTG 58.166 47.619 2.97 0.00 0.00 3.02
2826 5499 2.169769 TCTCAAAAGTCACCGGTTCTGT 59.830 45.455 2.97 0.00 0.00 3.41
2827 5500 2.544267 CTCAAAAGTCACCGGTTCTGTC 59.456 50.000 2.97 0.00 0.00 3.51
2828 5501 1.602377 CAAAAGTCACCGGTTCTGTCC 59.398 52.381 2.97 0.00 0.00 4.02
2829 5502 0.834612 AAAGTCACCGGTTCTGTCCA 59.165 50.000 2.97 0.00 0.00 4.02
2830 5503 0.834612 AAGTCACCGGTTCTGTCCAA 59.165 50.000 2.97 0.00 0.00 3.53
2831 5504 0.834612 AGTCACCGGTTCTGTCCAAA 59.165 50.000 2.97 0.00 0.00 3.28
2832 5505 1.420138 AGTCACCGGTTCTGTCCAAAT 59.580 47.619 2.97 0.00 0.00 2.32
2833 5506 1.804748 GTCACCGGTTCTGTCCAAATC 59.195 52.381 2.97 0.00 0.00 2.17
2834 5507 1.418264 TCACCGGTTCTGTCCAAATCA 59.582 47.619 2.97 0.00 0.00 2.57
2835 5508 1.535462 CACCGGTTCTGTCCAAATCAC 59.465 52.381 2.97 0.00 0.00 3.06
2836 5509 1.420138 ACCGGTTCTGTCCAAATCACT 59.580 47.619 0.00 0.00 0.00 3.41
2837 5510 2.158667 ACCGGTTCTGTCCAAATCACTT 60.159 45.455 0.00 0.00 0.00 3.16
2838 5511 2.884639 CCGGTTCTGTCCAAATCACTTT 59.115 45.455 0.00 0.00 0.00 2.66
2839 5512 3.304659 CCGGTTCTGTCCAAATCACTTTG 60.305 47.826 0.00 0.00 41.22 2.77
2840 5513 3.642705 GGTTCTGTCCAAATCACTTTGC 58.357 45.455 0.00 0.00 40.39 3.68
2841 5514 3.319122 GGTTCTGTCCAAATCACTTTGCT 59.681 43.478 0.00 0.00 40.39 3.91
2842 5515 4.540824 GTTCTGTCCAAATCACTTTGCTC 58.459 43.478 0.00 0.00 40.39 4.26
2843 5516 3.149196 TCTGTCCAAATCACTTTGCTCC 58.851 45.455 0.00 0.00 40.39 4.70
2844 5517 3.152341 CTGTCCAAATCACTTTGCTCCT 58.848 45.455 0.00 0.00 40.39 3.69
2845 5518 3.149196 TGTCCAAATCACTTTGCTCCTC 58.851 45.455 0.00 0.00 40.39 3.71
2846 5519 3.181440 TGTCCAAATCACTTTGCTCCTCT 60.181 43.478 0.00 0.00 40.39 3.69
2847 5520 3.823304 GTCCAAATCACTTTGCTCCTCTT 59.177 43.478 0.00 0.00 40.39 2.85
2848 5521 5.003804 GTCCAAATCACTTTGCTCCTCTTA 58.996 41.667 0.00 0.00 40.39 2.10
2849 5522 5.649831 GTCCAAATCACTTTGCTCCTCTTAT 59.350 40.000 0.00 0.00 40.39 1.73
2850 5523 5.649395 TCCAAATCACTTTGCTCCTCTTATG 59.351 40.000 0.00 0.00 40.39 1.90
2851 5524 5.338365 CAAATCACTTTGCTCCTCTTATGC 58.662 41.667 0.00 0.00 35.69 3.14
2852 5525 3.988976 TCACTTTGCTCCTCTTATGCT 57.011 42.857 0.00 0.00 0.00 3.79
2853 5526 4.292186 TCACTTTGCTCCTCTTATGCTT 57.708 40.909 0.00 0.00 0.00 3.91
2854 5527 4.655963 TCACTTTGCTCCTCTTATGCTTT 58.344 39.130 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 0.616679 TAGCCTACCGCCAAAGACCT 60.617 55.000 0.00 0.00 38.78 3.85
14 15 0.746563 GTTGCATAGCCTACCGCCAA 60.747 55.000 0.00 0.00 38.78 4.52
63 64 0.868602 GTCCATGCATCATGTTGCGC 60.869 55.000 20.75 0.00 45.77 6.09
81 82 5.543790 AGTTAAAAATCAAATGGCCCAGAGT 59.456 36.000 0.00 0.00 0.00 3.24
111 112 3.582647 ACCGCATGGGATACTATCATTGA 59.417 43.478 12.02 0.00 40.75 2.57
114 115 2.355108 GCACCGCATGGGATACTATCAT 60.355 50.000 12.02 0.00 40.75 2.45
117 118 1.276421 GAGCACCGCATGGGATACTAT 59.724 52.381 12.02 0.00 40.75 2.12
175 176 1.527433 CCGCTCTCTCACTCCACACA 61.527 60.000 0.00 0.00 0.00 3.72
220 221 3.127533 GTTGCGGGCTACCAGCAG 61.128 66.667 11.18 0.00 44.75 4.24
291 292 2.150397 ACCGTGAGAAGCAGTAACAC 57.850 50.000 0.00 0.00 0.00 3.32
293 294 2.877335 CCTACCGTGAGAAGCAGTAAC 58.123 52.381 0.00 0.00 0.00 2.50
302 303 2.621998 GCAGTTATAGCCTACCGTGAGA 59.378 50.000 0.00 0.00 0.00 3.27
332 424 2.275418 CTACCGCCATGGCCCTTT 59.725 61.111 30.79 14.51 43.94 3.11
359 451 3.927758 CACCGTCACATCCGTTTAATGTA 59.072 43.478 0.00 0.00 35.62 2.29
368 460 2.220615 TACCAGCACCGTCACATCCG 62.221 60.000 0.00 0.00 0.00 4.18
369 461 0.036765 TTACCAGCACCGTCACATCC 60.037 55.000 0.00 0.00 0.00 3.51
414 506 1.137479 GCGGTAGGGTAGCACAACATA 59.863 52.381 0.00 0.00 0.00 2.29
416 508 1.294138 GCGGTAGGGTAGCACAACA 59.706 57.895 0.00 0.00 0.00 3.33
448 540 4.517453 CCGAAATCTGACCCTTTTGTTACA 59.483 41.667 0.00 0.00 0.00 2.41
452 544 3.502123 TCCGAAATCTGACCCTTTTGT 57.498 42.857 0.00 0.00 0.00 2.83
462 554 6.088883 CCGGTTTGTAAAAATTCCGAAATCTG 59.911 38.462 8.60 0.00 40.29 2.90
467 559 3.005578 CCCCGGTTTGTAAAAATTCCGAA 59.994 43.478 8.60 0.00 40.29 4.30
468 560 2.557490 CCCCGGTTTGTAAAAATTCCGA 59.443 45.455 8.60 0.00 40.29 4.55
471 563 4.278919 TCTGACCCCGGTTTGTAAAAATTC 59.721 41.667 0.00 0.00 0.00 2.17
481 573 0.613853 TCGAGATCTGACCCCGGTTT 60.614 55.000 0.00 0.00 0.00 3.27
505 597 6.921914 TCGTGTTTTGACCCTTTTCTAAAAA 58.078 32.000 0.00 0.00 0.00 1.94
509 601 6.512342 TTTTCGTGTTTTGACCCTTTTCTA 57.488 33.333 0.00 0.00 0.00 2.10
511 603 6.656314 AATTTTCGTGTTTTGACCCTTTTC 57.344 33.333 0.00 0.00 0.00 2.29
523 615 1.760029 ACAGGGGCAAATTTTCGTGTT 59.240 42.857 0.00 0.00 0.00 3.32
541 633 0.686441 ATGGCCGTCTACTGCCTACA 60.686 55.000 15.33 0.00 45.10 2.74
542 634 0.249489 CATGGCCGTCTACTGCCTAC 60.249 60.000 15.33 0.00 45.10 3.18
543 635 1.399744 CCATGGCCGTCTACTGCCTA 61.400 60.000 15.33 4.20 45.10 3.93
544 636 2.735772 CCATGGCCGTCTACTGCCT 61.736 63.158 15.33 0.60 45.10 4.75
545 637 2.203070 CCATGGCCGTCTACTGCC 60.203 66.667 0.00 8.46 45.09 4.85
546 638 1.227380 CTCCATGGCCGTCTACTGC 60.227 63.158 6.96 0.00 0.00 4.40
547 639 0.103208 GACTCCATGGCCGTCTACTG 59.897 60.000 20.41 0.00 0.00 2.74
548 640 1.384989 CGACTCCATGGCCGTCTACT 61.385 60.000 23.16 0.00 0.00 2.57
549 641 1.065928 CGACTCCATGGCCGTCTAC 59.934 63.158 23.16 6.73 0.00 2.59
550 642 1.379443 ACGACTCCATGGCCGTCTA 60.379 57.895 23.16 1.21 0.00 2.59
551 643 2.680352 ACGACTCCATGGCCGTCT 60.680 61.111 23.16 12.80 0.00 4.18
552 644 2.202756 GACGACTCCATGGCCGTC 60.203 66.667 26.29 26.29 43.28 4.79
553 645 4.129737 CGACGACTCCATGGCCGT 62.130 66.667 20.96 20.96 38.01 5.68
554 646 3.350909 TTCGACGACTCCATGGCCG 62.351 63.158 6.96 12.78 0.00 6.13
555 647 1.810030 GTTCGACGACTCCATGGCC 60.810 63.158 6.96 0.00 0.00 5.36
556 648 1.810030 GGTTCGACGACTCCATGGC 60.810 63.158 6.96 0.00 0.00 4.40
557 649 0.736325 GTGGTTCGACGACTCCATGG 60.736 60.000 19.36 4.97 32.45 3.66
558 650 0.038618 TGTGGTTCGACGACTCCATG 60.039 55.000 19.36 0.00 32.45 3.66
559 651 0.677288 TTGTGGTTCGACGACTCCAT 59.323 50.000 19.36 0.00 32.45 3.41
560 652 0.249155 GTTGTGGTTCGACGACTCCA 60.249 55.000 14.48 14.48 0.00 3.86
561 653 0.031721 AGTTGTGGTTCGACGACTCC 59.968 55.000 0.00 4.09 35.99 3.85
562 654 1.406447 GAGTTGTGGTTCGACGACTC 58.594 55.000 15.68 15.68 45.71 3.36
563 655 0.742505 TGAGTTGTGGTTCGACGACT 59.257 50.000 0.00 7.41 42.35 4.18
564 656 1.719780 GATGAGTTGTGGTTCGACGAC 59.280 52.381 0.00 0.00 35.69 4.34
565 657 1.336517 GGATGAGTTGTGGTTCGACGA 60.337 52.381 0.00 0.00 35.69 4.20
566 658 1.068474 GGATGAGTTGTGGTTCGACG 58.932 55.000 0.00 0.00 35.69 5.12
567 659 1.439679 GGGATGAGTTGTGGTTCGAC 58.560 55.000 0.00 0.00 0.00 4.20
568 660 0.323629 GGGGATGAGTTGTGGTTCGA 59.676 55.000 0.00 0.00 0.00 3.71
569 661 1.019278 CGGGGATGAGTTGTGGTTCG 61.019 60.000 0.00 0.00 0.00 3.95
570 662 1.305930 GCGGGGATGAGTTGTGGTTC 61.306 60.000 0.00 0.00 0.00 3.62
571 663 1.303317 GCGGGGATGAGTTGTGGTT 60.303 57.895 0.00 0.00 0.00 3.67
572 664 2.351276 GCGGGGATGAGTTGTGGT 59.649 61.111 0.00 0.00 0.00 4.16
573 665 2.438434 GGCGGGGATGAGTTGTGG 60.438 66.667 0.00 0.00 0.00 4.17
574 666 2.819595 CGGCGGGGATGAGTTGTG 60.820 66.667 0.00 0.00 0.00 3.33
575 667 4.778143 GCGGCGGGGATGAGTTGT 62.778 66.667 9.78 0.00 0.00 3.32
599 691 1.192534 GCAACGACTTCTTGTTCCTCG 59.807 52.381 0.00 0.00 0.00 4.63
627 719 0.863144 CATGCATCATCGCGATCACA 59.137 50.000 20.85 14.85 29.21 3.58
628 720 0.863799 ACATGCATCATCGCGATCAC 59.136 50.000 20.85 9.34 29.21 3.06
639 731 3.459378 CTTCGCCGGCACATGCATC 62.459 63.158 28.98 0.00 44.36 3.91
644 736 3.737172 GCAACTTCGCCGGCACAT 61.737 61.111 28.98 5.30 0.00 3.21
711 891 3.936372 AATATGAAGCCATGCATGCTC 57.064 42.857 21.69 16.14 38.34 4.26
712 892 5.014202 TGATAATATGAAGCCATGCATGCT 58.986 37.500 21.69 17.96 41.89 3.79
739 919 8.470805 GCACGGGCAAGCTCTATATATATATAT 58.529 37.037 17.37 17.37 40.72 0.86
740 920 7.361799 CGCACGGGCAAGCTCTATATATATATA 60.362 40.741 11.77 11.21 41.24 0.86
741 921 6.570571 CGCACGGGCAAGCTCTATATATATAT 60.571 42.308 11.77 10.10 41.24 0.86
742 922 5.278315 CGCACGGGCAAGCTCTATATATATA 60.278 44.000 11.77 2.49 41.24 0.86
743 923 4.499865 CGCACGGGCAAGCTCTATATATAT 60.500 45.833 11.77 0.00 41.24 0.86
744 924 3.181490 CGCACGGGCAAGCTCTATATATA 60.181 47.826 11.77 0.00 41.24 0.86
745 925 2.417379 CGCACGGGCAAGCTCTATATAT 60.417 50.000 11.77 0.00 41.24 0.86
746 926 1.067846 CGCACGGGCAAGCTCTATATA 60.068 52.381 11.77 0.00 41.24 0.86
747 927 0.319900 CGCACGGGCAAGCTCTATAT 60.320 55.000 11.77 0.00 41.24 0.86
748 928 1.067416 CGCACGGGCAAGCTCTATA 59.933 57.895 11.77 0.00 41.24 1.31
777 957 0.460311 GTCGTGGAGGGTGGTATCTG 59.540 60.000 0.00 0.00 0.00 2.90
778 958 1.035932 CGTCGTGGAGGGTGGTATCT 61.036 60.000 0.00 0.00 0.00 1.98
801 981 4.309950 GGACGACCTTGCCGTGGT 62.310 66.667 0.00 0.00 40.67 4.16
828 1008 4.444081 AGGACGTCCTCTCCCCCG 62.444 72.222 31.69 0.00 44.77 5.73
840 1020 4.514577 AAGGATGGCGCGAGGACG 62.515 66.667 12.10 0.00 42.93 4.79
841 1021 2.125106 AAAGGATGGCGCGAGGAC 60.125 61.111 12.10 0.00 0.00 3.85
842 1022 2.186903 GAAAGGATGGCGCGAGGA 59.813 61.111 12.10 0.00 0.00 3.71
843 1023 2.897350 GGAAAGGATGGCGCGAGG 60.897 66.667 12.10 0.00 0.00 4.63
844 1024 1.305219 TTTGGAAAGGATGGCGCGAG 61.305 55.000 12.10 0.00 0.00 5.03
875 1055 1.927174 CGCGGATACAGTTTTGGAGAG 59.073 52.381 0.00 0.00 0.00 3.20
916 1112 1.189403 GATCGCTACGAAACCGAGTG 58.811 55.000 0.00 0.00 39.99 3.51
970 1176 4.438472 CCGCGGAAGTAGGAAGTATATAGC 60.438 50.000 24.07 0.00 33.85 2.97
1053 1282 1.296715 GAGAGTGTGCCCGGTGATT 59.703 57.895 0.00 0.00 0.00 2.57
1288 1523 2.355445 TAGCAGCTTCGATGCCGGAG 62.355 60.000 18.70 8.57 44.97 4.63
1296 1531 0.178068 GATTGGGGTAGCAGCTTCGA 59.822 55.000 0.00 0.00 0.00 3.71
1407 1765 2.686915 ACCTATAGGCGTGTCTGTGTAC 59.313 50.000 19.25 0.00 39.32 2.90
1719 2242 7.344612 AGCATATATTATCGGTCCTTATGGTCA 59.655 37.037 0.00 0.00 34.23 4.02
1736 2261 3.245052 GGGTGCAGAGGGAAGCATATATT 60.245 47.826 0.00 0.00 43.44 1.28
1789 3825 4.006780 TGTACATCGGCATTATGAGCAT 57.993 40.909 0.00 0.00 0.00 3.79
1790 3826 3.467374 TGTACATCGGCATTATGAGCA 57.533 42.857 0.00 0.00 0.00 4.26
1791 3827 5.149273 CAATTGTACATCGGCATTATGAGC 58.851 41.667 0.00 0.00 0.00 4.26
1832 3911 4.331968 TGACAATGTCCTTGGAATGGTAC 58.668 43.478 11.24 0.00 39.30 3.34
1835 3914 6.097270 ACATTATGACAATGTCCTTGGAATGG 59.903 38.462 11.24 2.43 39.30 3.16
1869 3948 9.953825 GTAAAGTCATGTTGAGTAGAATAAACG 57.046 33.333 0.00 0.00 28.24 3.60
1877 3959 9.817365 CAGAATTTGTAAAGTCATGTTGAGTAG 57.183 33.333 7.43 0.00 35.60 2.57
1957 4083 7.011499 TGTGTGGAACTATAATTGTAGGTGT 57.989 36.000 13.13 0.00 38.04 4.16
2207 4475 0.999406 GCAACACGATACATGCGTCT 59.001 50.000 0.00 0.00 40.44 4.18
2213 4481 1.134401 CAGGAGGGCAACACGATACAT 60.134 52.381 0.00 0.00 39.74 2.29
2366 5031 1.537348 GCCAACAACCGGTTTTTCCTC 60.537 52.381 19.55 5.19 37.72 3.71
2377 5042 2.207229 GGGGAAGGTGCCAACAACC 61.207 63.158 0.00 0.00 32.04 3.77
2475 5140 8.348983 TCTTGCTAGTATATTCTAAAACGTGC 57.651 34.615 0.00 0.00 0.00 5.34
2557 5222 9.787532 GTGTTACTCACATAATGCATTGTATTT 57.212 29.630 22.27 0.00 45.51 1.40
2573 5238 1.067776 CAGAGGTCGGGTGTTACTCAC 60.068 57.143 0.00 0.00 45.47 3.51
2629 5294 7.816945 ATTTGTCGATTTTCATTTCATGTCC 57.183 32.000 0.00 0.00 0.00 4.02
2640 5313 5.649602 TTGTTGCCAATTTGTCGATTTTC 57.350 34.783 0.00 0.00 0.00 2.29
2654 5327 6.354130 GGTCTATAGGACTTTATTGTTGCCA 58.646 40.000 0.00 0.00 43.97 4.92
2681 5354 0.742505 CCTTCGACATAGGCACGGTA 59.257 55.000 0.00 0.00 0.00 4.02
2684 5357 0.738975 TCTCCTTCGACATAGGCACG 59.261 55.000 0.00 0.00 32.59 5.34
2703 5376 6.886459 GCATAACCTACATATTGATCCACCAT 59.114 38.462 0.00 0.00 0.00 3.55
2716 5389 2.442878 TGGATGGCAGCATAACCTACAT 59.557 45.455 4.64 0.00 0.00 2.29
2749 5422 9.715119 AATTAGGGGCATAAATCTAATTATCCC 57.285 33.333 0.00 0.00 39.31 3.85
2753 5426 9.875708 ACACAATTAGGGGCATAAATCTAATTA 57.124 29.630 0.00 0.00 39.16 1.40
2754 5427 8.782137 ACACAATTAGGGGCATAAATCTAATT 57.218 30.769 0.00 0.00 40.76 1.40
2755 5428 7.451566 GGACACAATTAGGGGCATAAATCTAAT 59.548 37.037 0.00 0.00 34.89 1.73
2756 5429 6.775629 GGACACAATTAGGGGCATAAATCTAA 59.224 38.462 0.00 0.00 0.00 2.10
2757 5430 6.303839 GGACACAATTAGGGGCATAAATCTA 58.696 40.000 0.00 0.00 0.00 1.98
2758 5431 5.140454 GGACACAATTAGGGGCATAAATCT 58.860 41.667 0.00 0.00 0.00 2.40
2759 5432 4.280929 GGGACACAATTAGGGGCATAAATC 59.719 45.833 0.00 0.00 0.00 2.17
2760 5433 4.223144 GGGACACAATTAGGGGCATAAAT 58.777 43.478 0.00 0.00 0.00 1.40
2761 5434 3.011821 TGGGACACAATTAGGGGCATAAA 59.988 43.478 0.00 0.00 0.00 1.40
2762 5435 2.583101 TGGGACACAATTAGGGGCATAA 59.417 45.455 0.00 0.00 0.00 1.90
2763 5436 2.209758 TGGGACACAATTAGGGGCATA 58.790 47.619 0.00 0.00 0.00 3.14
2764 5437 1.006813 TGGGACACAATTAGGGGCAT 58.993 50.000 0.00 0.00 0.00 4.40
2765 5438 2.480725 TGGGACACAATTAGGGGCA 58.519 52.632 0.00 0.00 0.00 5.36
2777 5450 3.547746 GGTAAAACAGACAAGTGGGACA 58.452 45.455 0.00 0.00 0.00 4.02
2778 5451 2.882761 GGGTAAAACAGACAAGTGGGAC 59.117 50.000 0.00 0.00 0.00 4.46
2779 5452 2.158579 GGGGTAAAACAGACAAGTGGGA 60.159 50.000 0.00 0.00 0.00 4.37
2780 5453 2.158519 AGGGGTAAAACAGACAAGTGGG 60.159 50.000 0.00 0.00 0.00 4.61
2781 5454 3.223674 AGGGGTAAAACAGACAAGTGG 57.776 47.619 0.00 0.00 0.00 4.00
2782 5455 6.715264 AGAATTAGGGGTAAAACAGACAAGTG 59.285 38.462 0.00 0.00 0.00 3.16
2783 5456 6.849151 AGAATTAGGGGTAAAACAGACAAGT 58.151 36.000 0.00 0.00 0.00 3.16
2784 5457 6.940298 TGAGAATTAGGGGTAAAACAGACAAG 59.060 38.462 0.00 0.00 0.00 3.16
2785 5458 6.843752 TGAGAATTAGGGGTAAAACAGACAA 58.156 36.000 0.00 0.00 0.00 3.18
2786 5459 6.442541 TGAGAATTAGGGGTAAAACAGACA 57.557 37.500 0.00 0.00 0.00 3.41
2787 5460 7.754851 TTTGAGAATTAGGGGTAAAACAGAC 57.245 36.000 0.00 0.00 0.00 3.51
2788 5461 8.002459 ACTTTTGAGAATTAGGGGTAAAACAGA 58.998 33.333 0.00 0.00 0.00 3.41
2789 5462 8.178313 ACTTTTGAGAATTAGGGGTAAAACAG 57.822 34.615 0.00 0.00 0.00 3.16
2790 5463 7.780745 TGACTTTTGAGAATTAGGGGTAAAACA 59.219 33.333 0.00 0.00 0.00 2.83
2791 5464 8.080417 GTGACTTTTGAGAATTAGGGGTAAAAC 58.920 37.037 0.00 0.00 0.00 2.43
2792 5465 7.231925 GGTGACTTTTGAGAATTAGGGGTAAAA 59.768 37.037 0.00 0.00 0.00 1.52
2793 5466 6.717997 GGTGACTTTTGAGAATTAGGGGTAAA 59.282 38.462 0.00 0.00 0.00 2.01
2794 5467 6.243148 GGTGACTTTTGAGAATTAGGGGTAA 58.757 40.000 0.00 0.00 0.00 2.85
2795 5468 5.570034 CGGTGACTTTTGAGAATTAGGGGTA 60.570 44.000 0.00 0.00 0.00 3.69
2796 5469 4.663334 GGTGACTTTTGAGAATTAGGGGT 58.337 43.478 0.00 0.00 0.00 4.95
2797 5470 3.689649 CGGTGACTTTTGAGAATTAGGGG 59.310 47.826 0.00 0.00 0.00 4.79
2798 5471 3.689649 CCGGTGACTTTTGAGAATTAGGG 59.310 47.826 0.00 0.00 0.00 3.53
2799 5472 4.324267 ACCGGTGACTTTTGAGAATTAGG 58.676 43.478 6.12 0.00 0.00 2.69
2800 5473 5.701290 AGAACCGGTGACTTTTGAGAATTAG 59.299 40.000 8.52 0.00 0.00 1.73
2801 5474 5.468746 CAGAACCGGTGACTTTTGAGAATTA 59.531 40.000 8.52 0.00 0.00 1.40
2802 5475 4.275936 CAGAACCGGTGACTTTTGAGAATT 59.724 41.667 8.52 0.00 0.00 2.17
2803 5476 3.815401 CAGAACCGGTGACTTTTGAGAAT 59.185 43.478 8.52 0.00 0.00 2.40
2804 5477 3.202906 CAGAACCGGTGACTTTTGAGAA 58.797 45.455 8.52 0.00 0.00 2.87
2805 5478 2.169769 ACAGAACCGGTGACTTTTGAGA 59.830 45.455 8.52 0.00 0.00 3.27
2806 5479 2.544267 GACAGAACCGGTGACTTTTGAG 59.456 50.000 8.52 1.40 0.00 3.02
2807 5480 2.557317 GACAGAACCGGTGACTTTTGA 58.443 47.619 8.52 0.00 0.00 2.69
2808 5481 1.602377 GGACAGAACCGGTGACTTTTG 59.398 52.381 8.52 0.00 0.00 2.44
2809 5482 1.210967 TGGACAGAACCGGTGACTTTT 59.789 47.619 8.52 0.01 0.00 2.27
2810 5483 0.834612 TGGACAGAACCGGTGACTTT 59.165 50.000 8.52 3.86 0.00 2.66
2811 5484 0.834612 TTGGACAGAACCGGTGACTT 59.165 50.000 8.52 0.00 0.00 3.01
2812 5485 0.834612 TTTGGACAGAACCGGTGACT 59.165 50.000 8.52 8.50 0.00 3.41
2813 5486 1.804748 GATTTGGACAGAACCGGTGAC 59.195 52.381 8.52 5.80 0.00 3.67
2814 5487 1.418264 TGATTTGGACAGAACCGGTGA 59.582 47.619 8.52 0.00 0.00 4.02
2815 5488 1.535462 GTGATTTGGACAGAACCGGTG 59.465 52.381 8.52 0.00 0.00 4.94
2816 5489 1.420138 AGTGATTTGGACAGAACCGGT 59.580 47.619 0.00 0.00 0.00 5.28
2817 5490 2.185004 AGTGATTTGGACAGAACCGG 57.815 50.000 0.00 0.00 0.00 5.28
2818 5491 3.853307 GCAAAGTGATTTGGACAGAACCG 60.853 47.826 3.17 0.00 32.78 4.44
2819 5492 3.319122 AGCAAAGTGATTTGGACAGAACC 59.681 43.478 3.17 0.00 32.78 3.62
2820 5493 4.540824 GAGCAAAGTGATTTGGACAGAAC 58.459 43.478 3.17 0.00 32.78 3.01
2821 5494 3.569701 GGAGCAAAGTGATTTGGACAGAA 59.430 43.478 3.17 0.00 32.78 3.02
2822 5495 3.149196 GGAGCAAAGTGATTTGGACAGA 58.851 45.455 3.17 0.00 32.78 3.41
2823 5496 3.152341 AGGAGCAAAGTGATTTGGACAG 58.848 45.455 3.17 0.00 32.78 3.51
2824 5497 3.149196 GAGGAGCAAAGTGATTTGGACA 58.851 45.455 3.17 0.00 32.78 4.02
2825 5498 3.416156 AGAGGAGCAAAGTGATTTGGAC 58.584 45.455 3.17 0.00 32.78 4.02
2826 5499 3.795688 AGAGGAGCAAAGTGATTTGGA 57.204 42.857 3.17 0.00 32.78 3.53
2827 5500 5.678107 GCATAAGAGGAGCAAAGTGATTTGG 60.678 44.000 3.17 0.00 32.78 3.28
2828 5501 5.125097 AGCATAAGAGGAGCAAAGTGATTTG 59.875 40.000 0.00 0.00 35.15 2.32
2829 5502 5.259632 AGCATAAGAGGAGCAAAGTGATTT 58.740 37.500 0.00 0.00 0.00 2.17
2830 5503 4.853007 AGCATAAGAGGAGCAAAGTGATT 58.147 39.130 0.00 0.00 0.00 2.57
2831 5504 4.500499 AGCATAAGAGGAGCAAAGTGAT 57.500 40.909 0.00 0.00 0.00 3.06
2832 5505 3.988976 AGCATAAGAGGAGCAAAGTGA 57.011 42.857 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.