Multiple sequence alignment - TraesCS6B01G460300

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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 TraesCS6B01G460300 chr6B 100.000 3529 0 0 1 3529 714066788 714063260 0.000000e+00 6517.0
1 TraesCS6B01G460300 chr6B 84.439 392 46 9 970 1351 714080681 714080295 4.300000e-99 372.0
2 TraesCS6B01G460300 chr6B 75.388 516 59 30 210 693 714081378 714080899 1.670000e-43 187.0
3 TraesCS6B01G460300 chr6A 87.992 3431 274 75 3 3340 614010364 614006979 0.000000e+00 3927.0
4 TraesCS6B01G460300 chr6A 87.854 247 21 5 1114 1351 614083194 614082948 7.460000e-72 281.0
5 TraesCS6B01G460300 chr6A 75.425 647 87 40 433 1043 614083836 614083226 7.560000e-62 248.0
6 TraesCS6B01G460300 chr6A 78.626 393 39 20 406 784 614024485 614024124 5.930000e-53 219.0
7 TraesCS6B01G460300 chr6A 85.135 74 5 3 199 272 614084015 614083948 1.760000e-08 71.3
8 TraesCS6B01G460300 chr6D 85.380 3461 333 82 3 3340 467934768 467931358 0.000000e+00 3428.0
9 TraesCS6B01G460300 chr6D 84.887 397 42 10 971 1351 467977663 467977269 5.530000e-103 385.0
10 TraesCS6B01G460300 chr6D 76.937 568 72 32 149 693 467979551 467979020 5.810000e-68 268.0
11 TraesCS6B01G460300 chr5B 95.789 95 1 2 3341 3433 685971157 685971250 2.190000e-32 150.0
12 TraesCS6B01G460300 chr5B 90.722 97 1 1 3433 3529 685971362 685971450 4.780000e-24 122.0
13 TraesCS6B01G460300 chr2B 92.632 95 3 3 3341 3433 557998608 557998700 2.210000e-27 134.0
14 TraesCS6B01G460300 chr2B 90.722 97 1 1 3433 3529 557998812 557998900 4.780000e-24 122.0
15 TraesCS6B01G460300 chr2B 90.426 94 8 1 3341 3433 775526293 775526386 4.780000e-24 122.0
16 TraesCS6B01G460300 chr5A 91.753 97 4 3 3341 3433 372504764 372504860 7.950000e-27 132.0
17 TraesCS6B01G460300 chr5A 89.474 95 2 2 3433 3527 372504972 372505058 2.880000e-21 113.0
18 TraesCS6B01G460300 chr3D 92.553 94 3 3 3341 3431 196386406 196386498 7.950000e-27 132.0
19 TraesCS6B01G460300 chr3D 87.629 97 4 2 3433 3529 597052366 597052278 4.820000e-19 106.0
20 TraesCS6B01G460300 chr1D 90.625 96 6 2 3341 3433 121868911 121869006 1.330000e-24 124.0
21 TraesCS6B01G460300 chr1D 89.899 99 4 4 3340 3433 125786527 125786624 4.780000e-24 122.0
22 TraesCS6B01G460300 chr1D 88.043 92 3 2 3438 3529 125786733 125786816 6.230000e-18 102.0
23 TraesCS6B01G460300 chr1A 88.542 96 8 2 3341 3433 322661707 322661802 2.880000e-21 113.0
24 TraesCS6B01G460300 chr1A 95.918 49 2 0 3433 3481 322661914 322661962 2.920000e-11 80.5
25 TraesCS6B01G460300 chr4A 88.172 93 11 0 3341 3433 571120212 571120304 1.040000e-20 111.0
26 TraesCS6B01G460300 chr4A 83.505 97 8 2 3433 3529 571120416 571120504 2.260000e-12 84.2


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 TraesCS6B01G460300 chr6B 714063260 714066788 3528 True 6517.0 6517 100.000000 1 3529 1 chr6B.!!$R1 3528
1 TraesCS6B01G460300 chr6B 714080295 714081378 1083 True 279.5 372 79.913500 210 1351 2 chr6B.!!$R2 1141
2 TraesCS6B01G460300 chr6A 614006979 614010364 3385 True 3927.0 3927 87.992000 3 3340 1 chr6A.!!$R1 3337
3 TraesCS6B01G460300 chr6A 614082948 614084015 1067 True 200.1 281 82.804667 199 1351 3 chr6A.!!$R3 1152
4 TraesCS6B01G460300 chr6D 467931358 467934768 3410 True 3428.0 3428 85.380000 3 3340 1 chr6D.!!$R1 3337
5 TraesCS6B01G460300 chr6D 467977269 467979551 2282 True 326.5 385 80.912000 149 1351 2 chr6D.!!$R2 1202

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
785 853 0.038455 CCCTCCCTCTATCCGATCGT 59.962 60.0 15.09 0.0 0.0 3.73 F
1519 2865 0.252197 ATAGTTCTTGCGTGGGGGAC 59.748 55.0 0.00 0.0 0.0 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1702 3049 0.035739 TGAAAGTTCAGGTACCCGCC 59.964 55.0 8.74 0.0 32.50 6.13 R
3424 4827 0.029300 CTGCTGTGGGTGAAACAACG 59.971 55.0 0.00 0.0 39.98 4.10 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
24 25 4.863131 CACCGACTATGACTAAAACACTCC 59.137 45.833 0.00 0.00 0.00 3.85
25 26 4.771054 ACCGACTATGACTAAAACACTCCT 59.229 41.667 0.00 0.00 0.00 3.69
26 27 5.103000 CCGACTATGACTAAAACACTCCTG 58.897 45.833 0.00 0.00 0.00 3.86
32 33 4.973168 TGACTAAAACACTCCTGCTCAAT 58.027 39.130 0.00 0.00 0.00 2.57
42 43 2.746362 CTCCTGCTCAATTCAGTTGACC 59.254 50.000 0.00 0.00 41.79 4.02
43 44 2.106338 TCCTGCTCAATTCAGTTGACCA 59.894 45.455 0.00 0.00 41.79 4.02
54 55 0.532862 AGTTGACCAAGCCGTCACTG 60.533 55.000 0.00 0.00 42.37 3.66
58 59 1.222115 GACCAAGCCGTCACTGACAC 61.222 60.000 9.84 0.95 32.74 3.67
69 70 2.358737 CTGACACGTGGGCCCTTC 60.359 66.667 25.70 15.26 0.00 3.46
77 78 4.299796 TGGGCCCTTCCACAAGCC 62.300 66.667 25.70 0.00 44.99 4.35
87 88 4.424566 CACAAGCCGGCCACATGC 62.425 66.667 26.15 0.00 40.16 4.06
99 100 0.677731 CCACATGCCACTGACCGAAT 60.678 55.000 0.00 0.00 0.00 3.34
134 135 3.061797 CGTAAGTCAGATCACGCGAAATC 60.062 47.826 15.93 15.12 0.00 2.17
135 136 1.550065 AGTCAGATCACGCGAAATCG 58.450 50.000 15.93 11.18 43.27 3.34
190 194 0.740868 CATATATCCCCGCTGCCACG 60.741 60.000 0.00 0.00 0.00 4.94
235 246 1.858091 GGTTGCTCGTCGATCATCAT 58.142 50.000 0.00 0.00 0.00 2.45
238 249 2.412421 TGCTCGTCGATCATCATCTG 57.588 50.000 0.00 0.00 0.00 2.90
239 250 1.949525 TGCTCGTCGATCATCATCTGA 59.050 47.619 0.00 0.00 38.53 3.27
240 251 2.287248 TGCTCGTCGATCATCATCTGAC 60.287 50.000 0.00 0.00 36.48 3.51
241 252 2.287248 GCTCGTCGATCATCATCTGACA 60.287 50.000 0.00 0.00 36.48 3.58
291 302 1.006805 CGGATCTCACATCGGGAGC 60.007 63.158 0.00 0.00 32.38 4.70
340 359 2.223112 GCACACATCATCCGTAGCAAAG 60.223 50.000 0.00 0.00 0.00 2.77
341 360 2.352651 CACACATCATCCGTAGCAAAGG 59.647 50.000 0.00 0.00 0.00 3.11
342 361 2.027192 ACACATCATCCGTAGCAAAGGT 60.027 45.455 0.00 0.00 0.00 3.50
373 402 2.746277 GTGTGCCCGATTCGCCTT 60.746 61.111 0.00 0.00 0.00 4.35
422 451 3.798954 CTGCCTGGCCGCTAGCTAC 62.799 68.421 17.53 4.11 43.05 3.58
425 454 2.731374 CTGGCCGCTAGCTACCTC 59.269 66.667 19.93 4.48 43.05 3.85
464 499 4.128925 TCACATGGAGCAGTTAAGCTAG 57.871 45.455 0.00 0.00 46.75 3.42
491 527 2.151202 AGTGGTGCATTTGTTACGGAG 58.849 47.619 0.00 0.00 0.00 4.63
492 528 0.878416 TGGTGCATTTGTTACGGAGC 59.122 50.000 0.00 0.00 0.00 4.70
493 529 0.179200 GGTGCATTTGTTACGGAGCG 60.179 55.000 0.00 0.00 0.00 5.03
494 530 0.793104 GTGCATTTGTTACGGAGCGC 60.793 55.000 0.00 0.00 0.00 5.92
522 558 3.406361 GTGTGGACAGCAGCGACG 61.406 66.667 0.00 0.00 0.00 5.12
565 601 1.141881 CACTGCCCGCGAATCTACT 59.858 57.895 8.23 0.00 0.00 2.57
571 607 1.067582 CCGCGAATCTACTCCCACC 59.932 63.158 8.23 0.00 0.00 4.61
613 664 4.196778 TTGGCGCCACCTCCACAA 62.197 61.111 32.95 9.33 40.22 3.33
646 710 1.002087 TCGTGCTTCTTCTTCTTCCCC 59.998 52.381 0.00 0.00 0.00 4.81
675 739 1.506262 CGGCACCCAATTTTCCTCG 59.494 57.895 0.00 0.00 0.00 4.63
694 758 1.036707 GTCTCCTAGCTAGCCACCTG 58.963 60.000 15.74 0.59 0.00 4.00
729 797 5.066764 TGTGTGTCTGCATGGATAAATCATG 59.933 40.000 0.00 0.00 43.39 3.07
784 852 0.681564 CCCCTCCCTCTATCCGATCG 60.682 65.000 8.51 8.51 0.00 3.69
785 853 0.038455 CCCTCCCTCTATCCGATCGT 59.962 60.000 15.09 0.00 0.00 3.73
786 854 1.455248 CCTCCCTCTATCCGATCGTC 58.545 60.000 15.09 0.00 0.00 4.20
787 855 1.271434 CCTCCCTCTATCCGATCGTCA 60.271 57.143 15.09 0.00 0.00 4.35
788 856 1.807742 CTCCCTCTATCCGATCGTCAC 59.192 57.143 15.09 0.00 0.00 3.67
789 857 0.882474 CCCTCTATCCGATCGTCACC 59.118 60.000 15.09 0.00 0.00 4.02
828 897 1.424302 CTCCCTATCCACCGTCTCCTA 59.576 57.143 0.00 0.00 0.00 2.94
830 899 1.618487 CCTATCCACCGTCTCCTACC 58.382 60.000 0.00 0.00 0.00 3.18
831 900 1.145325 CCTATCCACCGTCTCCTACCT 59.855 57.143 0.00 0.00 0.00 3.08
832 901 2.374504 CCTATCCACCGTCTCCTACCTA 59.625 54.545 0.00 0.00 0.00 3.08
833 902 3.181436 CCTATCCACCGTCTCCTACCTAA 60.181 52.174 0.00 0.00 0.00 2.69
834 903 2.431954 TCCACCGTCTCCTACCTAAG 57.568 55.000 0.00 0.00 0.00 2.18
836 905 1.685491 CCACCGTCTCCTACCTAAGCT 60.685 57.143 0.00 0.00 0.00 3.74
837 906 2.422519 CCACCGTCTCCTACCTAAGCTA 60.423 54.545 0.00 0.00 0.00 3.32
838 907 3.285484 CACCGTCTCCTACCTAAGCTAA 58.715 50.000 0.00 0.00 0.00 3.09
949 1093 2.552585 TTCTTGCCCGGTCGATCGAC 62.553 60.000 34.70 34.70 43.87 4.20
992 2283 2.951745 CGTGCGAGCGATCTGGTC 60.952 66.667 0.00 6.67 41.76 4.02
1007 2304 2.029380 TCTGGTCGCGAAAGATGAAGAA 60.029 45.455 12.06 0.00 0.00 2.52
1008 2305 2.337583 TGGTCGCGAAAGATGAAGAAG 58.662 47.619 12.06 0.00 0.00 2.85
1081 2378 2.510691 CCGCCACCATGGTACGTC 60.511 66.667 28.03 14.01 40.46 4.34
1269 2603 2.879462 GCGGTGGAGTACTTCGCG 60.879 66.667 8.63 0.00 37.12 5.87
1464 2801 3.480470 CAGGTAATCAATTCATCGGCCT 58.520 45.455 0.00 0.00 0.00 5.19
1467 2804 4.102524 AGGTAATCAATTCATCGGCCTGTA 59.897 41.667 0.00 0.00 0.00 2.74
1470 2807 3.342377 TCAATTCATCGGCCTGTAACA 57.658 42.857 0.00 0.00 0.00 2.41
1471 2808 3.884895 TCAATTCATCGGCCTGTAACAT 58.115 40.909 0.00 0.00 0.00 2.71
1472 2809 3.876914 TCAATTCATCGGCCTGTAACATC 59.123 43.478 0.00 0.00 0.00 3.06
1474 2811 3.558931 TTCATCGGCCTGTAACATCAT 57.441 42.857 0.00 0.00 0.00 2.45
1476 2813 2.146342 CATCGGCCTGTAACATCATCC 58.854 52.381 0.00 0.00 0.00 3.51
1477 2814 1.199615 TCGGCCTGTAACATCATCCA 58.800 50.000 0.00 0.00 0.00 3.41
1479 2816 1.134401 CGGCCTGTAACATCATCCACT 60.134 52.381 0.00 0.00 0.00 4.00
1480 2817 2.565841 GGCCTGTAACATCATCCACTC 58.434 52.381 0.00 0.00 0.00 3.51
1481 2818 2.171448 GGCCTGTAACATCATCCACTCT 59.829 50.000 0.00 0.00 0.00 3.24
1488 2834 1.967066 ACATCATCCACTCTCCGATCC 59.033 52.381 0.00 0.00 0.00 3.36
1496 2842 1.274728 CACTCTCCGATCCATCCATCC 59.725 57.143 0.00 0.00 0.00 3.51
1497 2843 1.133041 ACTCTCCGATCCATCCATCCA 60.133 52.381 0.00 0.00 0.00 3.41
1498 2844 1.274728 CTCTCCGATCCATCCATCCAC 59.725 57.143 0.00 0.00 0.00 4.02
1499 2845 0.322975 CTCCGATCCATCCATCCACC 59.677 60.000 0.00 0.00 0.00 4.61
1511 2857 1.942657 CCATCCACCATAGTTCTTGCG 59.057 52.381 0.00 0.00 0.00 4.85
1517 2863 0.748005 CCATAGTTCTTGCGTGGGGG 60.748 60.000 0.00 0.00 0.00 5.40
1519 2865 0.252197 ATAGTTCTTGCGTGGGGGAC 59.748 55.000 0.00 0.00 0.00 4.46
1520 2866 0.834687 TAGTTCTTGCGTGGGGGACT 60.835 55.000 0.00 0.00 0.00 3.85
1521 2867 1.671379 GTTCTTGCGTGGGGGACTC 60.671 63.158 0.00 0.00 0.00 3.36
1522 2868 3.234630 TTCTTGCGTGGGGGACTCG 62.235 63.158 0.00 0.00 0.00 4.18
1533 2879 1.025041 GGGGACTCGCCATTGATTTC 58.975 55.000 7.27 0.00 38.95 2.17
1536 2882 3.541632 GGGACTCGCCATTGATTTCTTA 58.458 45.455 0.00 0.00 38.95 2.10
1537 2883 3.561725 GGGACTCGCCATTGATTTCTTAG 59.438 47.826 0.00 0.00 38.95 2.18
1539 2885 4.034510 GGACTCGCCATTGATTTCTTAGTG 59.965 45.833 0.00 0.00 36.34 2.74
1540 2886 4.832248 ACTCGCCATTGATTTCTTAGTGA 58.168 39.130 0.00 0.00 0.00 3.41
1541 2887 5.431765 ACTCGCCATTGATTTCTTAGTGAT 58.568 37.500 0.00 0.00 0.00 3.06
1542 2888 5.295292 ACTCGCCATTGATTTCTTAGTGATG 59.705 40.000 0.00 0.00 0.00 3.07
1543 2889 4.035558 TCGCCATTGATTTCTTAGTGATGC 59.964 41.667 0.00 0.00 0.00 3.91
1572 2919 2.184322 GGCAGCGAGACGGATTCA 59.816 61.111 0.00 0.00 0.00 2.57
1623 2970 3.151022 GGCTCAGGGTCCTCCTCG 61.151 72.222 0.00 0.00 46.12 4.63
1775 3122 1.302033 CGCTGGCTCACAAGGTTCT 60.302 57.895 0.00 0.00 0.00 3.01
1776 3123 1.294659 CGCTGGCTCACAAGGTTCTC 61.295 60.000 0.00 0.00 0.00 2.87
1782 3129 2.079925 GCTCACAAGGTTCTCATCCAC 58.920 52.381 0.00 0.00 0.00 4.02
1797 3144 2.753966 CCACGGCCATCTTTGCTCG 61.754 63.158 2.24 0.00 0.00 5.03
1798 3145 3.127533 ACGGCCATCTTTGCTCGC 61.128 61.111 2.24 0.00 0.00 5.03
1803 3150 2.464459 CCATCTTTGCTCGCCGGTC 61.464 63.158 1.90 0.00 0.00 4.79
1831 3178 1.818674 GTTGGCCGGTGATTCTGATTT 59.181 47.619 1.90 0.00 0.00 2.17
1834 3181 3.691575 TGGCCGGTGATTCTGATTTTTA 58.308 40.909 1.90 0.00 0.00 1.52
1836 3183 4.524714 TGGCCGGTGATTCTGATTTTTAAA 59.475 37.500 1.90 0.00 0.00 1.52
1837 3184 5.186797 TGGCCGGTGATTCTGATTTTTAAAT 59.813 36.000 1.90 0.00 0.00 1.40
1838 3185 5.519927 GGCCGGTGATTCTGATTTTTAAATG 59.480 40.000 1.90 0.00 0.00 2.32
1966 3313 7.476540 AATTAACTAACCCACTTGGATTTCC 57.523 36.000 0.00 0.00 37.39 3.13
1975 3322 2.420022 CACTTGGATTTCCGACATCACC 59.580 50.000 0.00 0.00 39.43 4.02
1978 3325 0.254747 GGATTTCCGACATCACCCCA 59.745 55.000 0.00 0.00 0.00 4.96
2004 3351 5.047590 TGTTCTCTACTTATTTGCTGGTCGA 60.048 40.000 0.00 0.00 0.00 4.20
2007 3354 4.607955 TCTACTTATTTGCTGGTCGATCG 58.392 43.478 9.36 9.36 0.00 3.69
2049 3396 6.206243 GCATTATCTTGCTGAGGTATGAATGT 59.794 38.462 0.00 0.00 39.57 2.71
2053 3400 3.354948 TGCTGAGGTATGAATGTTGCT 57.645 42.857 0.00 0.00 0.00 3.91
2085 3432 9.369904 ACAAATCAACATTGACTTATTTATGGC 57.630 29.630 0.00 0.00 40.49 4.40
2195 3542 7.369551 TCGGTCTTCCAAGGTACATATTTAT 57.630 36.000 0.00 0.00 0.00 1.40
2254 3601 3.961480 TCTTCCACCATGTCAGTGTAG 57.039 47.619 0.00 0.00 33.20 2.74
2287 3645 5.178797 AGTAATTCTGATGCTAACAAGCGT 58.821 37.500 0.00 0.00 37.69 5.07
2298 3656 3.182972 GCTAACAAGCGTCGTTGTTTCTA 59.817 43.478 22.05 10.44 46.26 2.10
2311 3669 2.833794 TGTTTCTACACCTGCAGACAC 58.166 47.619 17.39 0.00 0.00 3.67
2329 3687 1.374252 CCATACATAGCGGACCGGC 60.374 63.158 17.22 8.14 0.00 6.13
2393 3751 1.202336 GCAACATACAGGATGCAAGGC 60.202 52.381 0.00 0.00 42.53 4.35
2399 3757 1.264749 ACAGGATGCAAGGCGACCTA 61.265 55.000 0.00 0.00 42.53 3.08
2516 3874 5.296151 ACTTCACCTTCTTCACATCTTCA 57.704 39.130 0.00 0.00 0.00 3.02
2532 3890 1.990563 CTTCACACCGTCGATAACACC 59.009 52.381 0.00 0.00 0.00 4.16
2533 3891 0.960286 TCACACCGTCGATAACACCA 59.040 50.000 0.00 0.00 0.00 4.17
2542 3900 1.017177 CGATAACACCACACCCCGTG 61.017 60.000 0.00 0.00 45.92 4.94
2552 3910 1.078426 CACCCCGTGGATTCCTCAC 60.078 63.158 3.95 0.00 34.81 3.51
2592 3950 1.881973 CCGGGCAATGTGAAGATATGG 59.118 52.381 0.00 0.00 0.00 2.74
2638 3996 7.439157 TTTGATAGAACAACATGAACTGGAG 57.561 36.000 0.00 0.00 0.00 3.86
2773 4133 3.859443 AGCTGCAACACAACATTTTCAA 58.141 36.364 1.02 0.00 0.00 2.69
2787 4147 4.992951 ACATTTTCAAAGAATTGCAGCTCC 59.007 37.500 0.00 0.00 36.45 4.70
2823 4183 9.407380 ACCTCAATGCATATAGTTTAACAATCA 57.593 29.630 0.00 0.00 0.00 2.57
2889 4288 6.455647 TCAGCAACCTGTACATATATAGCAC 58.544 40.000 0.00 0.00 40.09 4.40
2990 4389 3.309682 AGTCATGCGTTGTATTGGATTCG 59.690 43.478 0.00 0.00 0.00 3.34
3026 4425 1.466855 GATTTCGCATACGCAAAGGC 58.533 50.000 0.00 0.00 39.84 4.35
3094 4493 7.799090 ACCTAGGTGGGAAGTGGGATACTTT 62.799 48.000 15.42 0.00 42.94 2.66
3118 4520 9.597170 TTTTGAATTTTGATCTGTCACATTGAA 57.403 25.926 0.00 0.00 33.11 2.69
3128 4530 5.311265 TCTGTCACATTGAAATCTCAAGCT 58.689 37.500 0.00 0.00 44.68 3.74
3212 4614 0.988145 TCCGATTGCCCTGGATTCCT 60.988 55.000 3.95 0.00 0.00 3.36
3331 4734 1.668826 ACCAAGAGACCATTAGGCCA 58.331 50.000 5.01 0.00 39.06 5.36
3340 4743 5.045286 AGAGACCATTAGGCCATCCATTATC 60.045 44.000 5.01 0.00 39.06 1.75
3341 4744 4.603171 AGACCATTAGGCCATCCATTATCA 59.397 41.667 5.01 0.00 39.06 2.15
3342 4745 4.666512 ACCATTAGGCCATCCATTATCAC 58.333 43.478 5.01 0.00 39.06 3.06
3343 4746 4.354987 ACCATTAGGCCATCCATTATCACT 59.645 41.667 5.01 0.00 39.06 3.41
3344 4747 5.551583 ACCATTAGGCCATCCATTATCACTA 59.448 40.000 5.01 0.00 39.06 2.74
3345 4748 5.882557 CCATTAGGCCATCCATTATCACTAC 59.117 44.000 5.01 0.00 33.74 2.73
3346 4749 6.475504 CATTAGGCCATCCATTATCACTACA 58.524 40.000 5.01 0.00 33.74 2.74
3347 4750 6.508030 TTAGGCCATCCATTATCACTACAA 57.492 37.500 5.01 0.00 33.74 2.41
3348 4751 4.718961 AGGCCATCCATTATCACTACAAC 58.281 43.478 5.01 0.00 33.74 3.32
3349 4752 4.165950 AGGCCATCCATTATCACTACAACA 59.834 41.667 5.01 0.00 33.74 3.33
3350 4753 4.887071 GGCCATCCATTATCACTACAACAA 59.113 41.667 0.00 0.00 0.00 2.83
3351 4754 5.009010 GGCCATCCATTATCACTACAACAAG 59.991 44.000 0.00 0.00 0.00 3.16
3352 4755 5.822519 GCCATCCATTATCACTACAACAAGA 59.177 40.000 0.00 0.00 0.00 3.02
3353 4756 6.318648 GCCATCCATTATCACTACAACAAGAA 59.681 38.462 0.00 0.00 0.00 2.52
3354 4757 7.679638 GCCATCCATTATCACTACAACAAGAAC 60.680 40.741 0.00 0.00 0.00 3.01
3355 4758 7.201732 CCATCCATTATCACTACAACAAGAACC 60.202 40.741 0.00 0.00 0.00 3.62
3356 4759 6.177610 TCCATTATCACTACAACAAGAACCC 58.822 40.000 0.00 0.00 0.00 4.11
3357 4760 5.357032 CCATTATCACTACAACAAGAACCCC 59.643 44.000 0.00 0.00 0.00 4.95
3358 4761 2.943036 TCACTACAACAAGAACCCCC 57.057 50.000 0.00 0.00 0.00 5.40
3375 4778 3.672767 CCCCCTATACCAACGTATGTC 57.327 52.381 0.00 0.00 35.88 3.06
3376 4779 3.236896 CCCCCTATACCAACGTATGTCT 58.763 50.000 0.00 0.00 35.88 3.41
3377 4780 4.410099 CCCCCTATACCAACGTATGTCTA 58.590 47.826 0.00 0.00 35.88 2.59
3378 4781 4.461781 CCCCCTATACCAACGTATGTCTAG 59.538 50.000 0.00 0.00 35.88 2.43
3379 4782 4.082354 CCCCTATACCAACGTATGTCTAGC 60.082 50.000 0.00 0.00 35.88 3.42
3380 4783 4.521639 CCCTATACCAACGTATGTCTAGCA 59.478 45.833 0.00 0.00 35.88 3.49
3381 4784 5.010314 CCCTATACCAACGTATGTCTAGCAA 59.990 44.000 0.00 0.00 35.88 3.91
3382 4785 5.919141 CCTATACCAACGTATGTCTAGCAAC 59.081 44.000 0.00 0.00 35.88 4.17
3383 4786 2.602878 ACCAACGTATGTCTAGCAACG 58.397 47.619 0.00 14.02 37.50 4.10
3384 4787 2.229543 ACCAACGTATGTCTAGCAACGA 59.770 45.455 18.42 0.00 36.34 3.85
3385 4788 3.119245 ACCAACGTATGTCTAGCAACGAT 60.119 43.478 18.42 10.63 36.34 3.73
3386 4789 4.096833 ACCAACGTATGTCTAGCAACGATA 59.903 41.667 18.42 1.98 36.34 2.92
3387 4790 5.220381 CCAACGTATGTCTAGCAACGATAT 58.780 41.667 18.42 0.00 36.34 1.63
3388 4791 6.016860 ACCAACGTATGTCTAGCAACGATATA 60.017 38.462 18.42 0.00 36.34 0.86
3389 4792 6.859508 CCAACGTATGTCTAGCAACGATATAA 59.140 38.462 18.42 0.00 36.34 0.98
3390 4793 7.149015 CCAACGTATGTCTAGCAACGATATAAC 60.149 40.741 18.42 0.00 36.34 1.89
3391 4794 6.962686 ACGTATGTCTAGCAACGATATAACA 58.037 36.000 18.42 3.65 36.34 2.41
3392 4795 7.076362 ACGTATGTCTAGCAACGATATAACAG 58.924 38.462 18.42 0.00 36.34 3.16
3393 4796 6.523546 CGTATGTCTAGCAACGATATAACAGG 59.476 42.308 0.00 0.00 35.32 4.00
3394 4797 6.650427 ATGTCTAGCAACGATATAACAGGA 57.350 37.500 0.00 0.00 0.00 3.86
3395 4798 6.650427 TGTCTAGCAACGATATAACAGGAT 57.350 37.500 0.00 0.00 0.00 3.24
3396 4799 6.447162 TGTCTAGCAACGATATAACAGGATG 58.553 40.000 0.00 0.00 46.00 3.51
3408 4811 2.946947 CAGGATGTGTTGTCACCCC 58.053 57.895 0.00 0.00 43.26 4.95
3409 4812 0.955428 CAGGATGTGTTGTCACCCCG 60.955 60.000 0.00 0.00 43.26 5.73
3410 4813 1.674322 GGATGTGTTGTCACCCCGG 60.674 63.158 0.00 0.00 43.26 5.73
3411 4814 1.373435 GATGTGTTGTCACCCCGGA 59.627 57.895 0.73 0.00 43.26 5.14
3412 4815 0.250553 GATGTGTTGTCACCCCGGAA 60.251 55.000 0.73 0.00 43.26 4.30
3413 4816 0.183971 ATGTGTTGTCACCCCGGAAA 59.816 50.000 0.73 0.00 43.26 3.13
3414 4817 0.034380 TGTGTTGTCACCCCGGAAAA 60.034 50.000 0.73 0.00 43.26 2.29
3415 4818 1.104630 GTGTTGTCACCCCGGAAAAA 58.895 50.000 0.73 0.00 38.51 1.94
3436 4839 2.723124 AATGATGCGTTGTTTCACCC 57.277 45.000 0.00 0.00 0.00 4.61
3437 4840 1.614996 ATGATGCGTTGTTTCACCCA 58.385 45.000 0.00 0.00 0.00 4.51
3438 4841 0.665835 TGATGCGTTGTTTCACCCAC 59.334 50.000 0.00 0.00 0.00 4.61
3439 4842 0.665835 GATGCGTTGTTTCACCCACA 59.334 50.000 0.00 0.00 0.00 4.17
3440 4843 0.667993 ATGCGTTGTTTCACCCACAG 59.332 50.000 0.00 0.00 0.00 3.66
3441 4844 1.299089 GCGTTGTTTCACCCACAGC 60.299 57.895 0.00 0.00 0.00 4.40
3442 4845 1.999071 GCGTTGTTTCACCCACAGCA 61.999 55.000 0.00 0.00 0.00 4.41
3443 4846 0.029300 CGTTGTTTCACCCACAGCAG 59.971 55.000 0.00 0.00 0.00 4.24
3444 4847 0.249031 GTTGTTTCACCCACAGCAGC 60.249 55.000 0.00 0.00 0.00 5.25
3445 4848 0.395586 TTGTTTCACCCACAGCAGCT 60.396 50.000 0.00 0.00 0.00 4.24
3446 4849 0.472044 TGTTTCACCCACAGCAGCTA 59.528 50.000 0.00 0.00 0.00 3.32
3447 4850 1.160137 GTTTCACCCACAGCAGCTAG 58.840 55.000 0.00 0.00 0.00 3.42
3448 4851 0.036732 TTTCACCCACAGCAGCTAGG 59.963 55.000 0.00 0.00 0.00 3.02
3449 4852 1.841302 TTCACCCACAGCAGCTAGGG 61.841 60.000 24.39 24.39 46.96 3.53
3451 4854 3.081554 CCCACAGCAGCTAGGGTT 58.918 61.111 19.81 0.00 36.52 4.11
3452 4855 1.078143 CCCACAGCAGCTAGGGTTC 60.078 63.158 19.81 0.00 36.52 3.62
3453 4856 1.078143 CCACAGCAGCTAGGGTTCC 60.078 63.158 0.00 0.00 0.00 3.62
3454 4857 1.679311 CACAGCAGCTAGGGTTCCA 59.321 57.895 0.00 0.00 0.00 3.53
3455 4858 0.036732 CACAGCAGCTAGGGTTCCAA 59.963 55.000 0.00 0.00 0.00 3.53
3456 4859 0.036875 ACAGCAGCTAGGGTTCCAAC 59.963 55.000 0.00 0.00 0.00 3.77
3466 4869 3.351416 GTTCCAACCACCGCCGTC 61.351 66.667 0.00 0.00 0.00 4.79
3467 4870 4.629523 TTCCAACCACCGCCGTCC 62.630 66.667 0.00 0.00 0.00 4.79
3469 4872 4.636435 CCAACCACCGCCGTCCTT 62.636 66.667 0.00 0.00 0.00 3.36
3470 4873 2.593436 CAACCACCGCCGTCCTTT 60.593 61.111 0.00 0.00 0.00 3.11
3471 4874 2.593436 AACCACCGCCGTCCTTTG 60.593 61.111 0.00 0.00 0.00 2.77
3477 4880 3.737172 CGCCGTCCTTTGCCCTTG 61.737 66.667 0.00 0.00 0.00 3.61
3478 4881 2.282180 GCCGTCCTTTGCCCTTGA 60.282 61.111 0.00 0.00 0.00 3.02
3479 4882 2.335712 GCCGTCCTTTGCCCTTGAG 61.336 63.158 0.00 0.00 0.00 3.02
3480 4883 1.675641 CCGTCCTTTGCCCTTGAGG 60.676 63.158 0.00 0.00 39.47 3.86
3489 4892 2.581354 CCCTTGAGGCCTCGACTG 59.419 66.667 27.43 16.52 0.00 3.51
3490 4893 2.125350 CCTTGAGGCCTCGACTGC 60.125 66.667 27.43 3.88 0.00 4.40
3498 4901 3.465403 CCTCGACTGCCTCCCCTG 61.465 72.222 0.00 0.00 0.00 4.45
3499 4902 2.681778 CTCGACTGCCTCCCCTGT 60.682 66.667 0.00 0.00 0.00 4.00
3500 4903 2.203788 TCGACTGCCTCCCCTGTT 60.204 61.111 0.00 0.00 0.00 3.16
3501 4904 2.232298 CTCGACTGCCTCCCCTGTTC 62.232 65.000 0.00 0.00 0.00 3.18
3502 4905 2.671682 GACTGCCTCCCCTGTTCC 59.328 66.667 0.00 0.00 0.00 3.62
3503 4906 2.936032 ACTGCCTCCCCTGTTCCC 60.936 66.667 0.00 0.00 0.00 3.97
3504 4907 2.612115 CTGCCTCCCCTGTTCCCT 60.612 66.667 0.00 0.00 0.00 4.20
3505 4908 2.610859 TGCCTCCCCTGTTCCCTC 60.611 66.667 0.00 0.00 0.00 4.30
3506 4909 3.787001 GCCTCCCCTGTTCCCTCG 61.787 72.222 0.00 0.00 0.00 4.63
3507 4910 3.083997 CCTCCCCTGTTCCCTCGG 61.084 72.222 0.00 0.00 0.00 4.63
3508 4911 2.284699 CTCCCCTGTTCCCTCGGT 60.285 66.667 0.00 0.00 0.00 4.69
3509 4912 1.918800 CTCCCCTGTTCCCTCGGTT 60.919 63.158 0.00 0.00 0.00 4.44
3510 4913 1.900545 CTCCCCTGTTCCCTCGGTTC 61.901 65.000 0.00 0.00 0.00 3.62
3511 4914 2.264794 CCCTGTTCCCTCGGTTCG 59.735 66.667 0.00 0.00 0.00 3.95
3512 4915 2.580601 CCCTGTTCCCTCGGTTCGT 61.581 63.158 0.00 0.00 0.00 3.85
3513 4916 1.370064 CCTGTTCCCTCGGTTCGTT 59.630 57.895 0.00 0.00 0.00 3.85
3514 4917 0.669625 CCTGTTCCCTCGGTTCGTTC 60.670 60.000 0.00 0.00 0.00 3.95
3515 4918 0.032952 CTGTTCCCTCGGTTCGTTCA 59.967 55.000 0.00 0.00 0.00 3.18
3516 4919 0.464870 TGTTCCCTCGGTTCGTTCAA 59.535 50.000 0.00 0.00 0.00 2.69
3517 4920 1.145803 GTTCCCTCGGTTCGTTCAAG 58.854 55.000 0.00 0.00 0.00 3.02
3518 4921 1.042229 TTCCCTCGGTTCGTTCAAGA 58.958 50.000 0.00 0.00 0.00 3.02
3519 4922 0.601558 TCCCTCGGTTCGTTCAAGAG 59.398 55.000 0.00 0.00 0.00 2.85
3520 4923 1.014564 CCCTCGGTTCGTTCAAGAGC 61.015 60.000 0.00 0.00 0.00 4.09
3521 4924 1.014564 CCTCGGTTCGTTCAAGAGCC 61.015 60.000 0.00 0.00 38.03 4.70
3522 4925 0.038159 CTCGGTTCGTTCAAGAGCCT 60.038 55.000 0.00 0.00 39.06 4.58
3523 4926 0.038526 TCGGTTCGTTCAAGAGCCTC 60.039 55.000 0.00 0.00 39.06 4.70
3524 4927 1.014564 CGGTTCGTTCAAGAGCCTCC 61.015 60.000 0.00 0.00 39.06 4.30
3525 4928 1.014564 GGTTCGTTCAAGAGCCTCCG 61.015 60.000 0.00 0.00 38.32 4.63
3526 4929 1.374252 TTCGTTCAAGAGCCTCCGC 60.374 57.895 0.00 0.00 0.00 5.54
3527 4930 2.781595 TTCGTTCAAGAGCCTCCGCC 62.782 60.000 0.00 0.00 34.57 6.13
3528 4931 2.347490 GTTCAAGAGCCTCCGCCA 59.653 61.111 0.00 0.00 34.57 5.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.817517 AGTGTTTTAGTCATAGTCGGTGG 58.182 43.478 0.00 0.00 0.00 4.61
1 2 4.863131 GGAGTGTTTTAGTCATAGTCGGTG 59.137 45.833 0.00 0.00 0.00 4.94
7 8 5.724328 TGAGCAGGAGTGTTTTAGTCATAG 58.276 41.667 0.00 0.00 0.00 2.23
9 10 4.623932 TGAGCAGGAGTGTTTTAGTCAT 57.376 40.909 0.00 0.00 0.00 3.06
19 20 3.405831 TCAACTGAATTGAGCAGGAGTG 58.594 45.455 0.00 0.00 42.62 3.51
32 33 0.179234 TGACGGCTTGGTCAACTGAA 59.821 50.000 0.00 0.00 43.55 3.02
42 43 1.591594 ACGTGTCAGTGACGGCTTG 60.592 57.895 18.17 8.33 41.21 4.01
43 44 1.591594 CACGTGTCAGTGACGGCTT 60.592 57.895 18.17 4.98 44.43 4.35
54 55 3.948719 TGGAAGGGCCCACGTGTC 61.949 66.667 27.56 12.54 34.97 3.67
69 70 3.751246 CATGTGGCCGGCTTGTGG 61.751 66.667 28.56 10.04 0.00 4.17
99 100 4.213906 TCTGACTTACGTAATGTGACGACA 59.786 41.667 8.76 2.17 45.82 4.35
103 104 5.227391 CGTGATCTGACTTACGTAATGTGAC 59.773 44.000 8.76 0.00 0.00 3.67
113 114 3.061797 CGATTTCGCGTGATCTGACTTAC 60.062 47.826 5.77 0.00 0.00 2.34
169 173 1.064003 TGGCAGCGGGGATATATGTT 58.936 50.000 0.00 0.00 0.00 2.71
170 174 0.324943 GTGGCAGCGGGGATATATGT 59.675 55.000 0.00 0.00 0.00 2.29
208 219 0.161024 CGACGAGCAACCGAAAAGTC 59.839 55.000 0.00 0.00 0.00 3.01
235 246 5.261216 GGAAAGGGTTTTGGATATGTCAGA 58.739 41.667 0.00 0.00 0.00 3.27
238 249 4.610333 AGGGAAAGGGTTTTGGATATGTC 58.390 43.478 0.00 0.00 0.00 3.06
239 250 4.692523 AGGGAAAGGGTTTTGGATATGT 57.307 40.909 0.00 0.00 0.00 2.29
240 251 5.721480 AGAAAGGGAAAGGGTTTTGGATATG 59.279 40.000 0.00 0.00 0.00 1.78
241 252 5.915628 AGAAAGGGAAAGGGTTTTGGATAT 58.084 37.500 0.00 0.00 0.00 1.63
291 302 1.068474 CTAAGCCGGTTCGAACAGTG 58.932 55.000 28.24 18.46 0.00 3.66
373 402 3.057969 AGAATTTCTGCGTGTGGATGA 57.942 42.857 0.00 0.00 0.00 2.92
422 451 2.656002 TGTAGTACTGGCTAGCTGAGG 58.344 52.381 15.72 5.07 0.00 3.86
425 454 3.381590 TGTGATGTAGTACTGGCTAGCTG 59.618 47.826 15.72 10.51 0.00 4.24
464 499 0.527565 CAAATGCACCACTACTGGCC 59.472 55.000 0.00 0.00 42.08 5.36
571 607 2.821366 GACTCATGGCTGTGGGCG 60.821 66.667 0.00 0.00 42.94 6.13
615 666 2.079158 AGAAGCACGACCATGTCAATG 58.921 47.619 0.00 0.00 32.09 2.82
630 682 0.321653 TGCGGGGAAGAAGAAGAAGC 60.322 55.000 0.00 0.00 0.00 3.86
646 710 2.126502 GGTGCCGGTTGATTTGCG 60.127 61.111 1.90 0.00 0.00 4.85
675 739 1.036707 CAGGTGGCTAGCTAGGAGAC 58.963 60.000 22.10 1.30 32.36 3.36
694 758 1.598130 GACACACACACCCAGAGGC 60.598 63.158 0.00 0.00 36.11 4.70
729 797 3.611057 GCATCGAATCCAGCAATCCATTC 60.611 47.826 0.00 0.00 0.00 2.67
787 855 4.798682 CTAGGGGAGCGGTGGGGT 62.799 72.222 0.00 0.00 0.00 4.95
809 878 1.144503 GTAGGAGACGGTGGATAGGGA 59.855 57.143 0.00 0.00 0.00 4.20
810 879 1.618487 GTAGGAGACGGTGGATAGGG 58.382 60.000 0.00 0.00 0.00 3.53
836 905 8.719175 ACTTTCTAGTGGTGCTAGCTAGCTTTA 61.719 40.741 38.07 24.16 45.22 1.85
837 906 7.981517 ACTTTCTAGTGGTGCTAGCTAGCTTT 61.982 42.308 38.07 23.36 45.22 3.51
838 907 6.565976 ACTTTCTAGTGGTGCTAGCTAGCTT 61.566 44.000 38.07 23.08 45.22 3.74
866 937 9.900710 CTGAAATAGCAATCGATACTAGTAGTT 57.099 33.333 8.40 0.00 0.00 2.24
899 1043 3.032265 TGGATCGAGATTGGGAGAGAA 57.968 47.619 0.00 0.00 0.00 2.87
990 2281 2.028643 GCTCTTCTTCATCTTTCGCGAC 59.971 50.000 9.15 0.00 0.00 5.19
992 2283 1.995484 TGCTCTTCTTCATCTTTCGCG 59.005 47.619 0.00 0.00 0.00 5.87
995 2286 7.043458 CGAGATTACTGCTCTTCTTCATCTTTC 60.043 40.741 0.00 0.00 0.00 2.62
1007 2304 1.036707 GGCCTCGAGATTACTGCTCT 58.963 55.000 15.71 0.00 0.00 4.09
1008 2305 1.036707 AGGCCTCGAGATTACTGCTC 58.963 55.000 15.71 2.11 0.00 4.26
1081 2378 6.591834 GGTTTGTAAGGATAGATGGATCGATG 59.408 42.308 0.54 0.00 0.00 3.84
1269 2603 2.680352 TCCCAGAGGTCGGACAGC 60.680 66.667 10.76 0.90 0.00 4.40
1456 2793 2.146342 GGATGATGTTACAGGCCGATG 58.854 52.381 0.00 0.00 0.00 3.84
1464 2801 3.361786 TCGGAGAGTGGATGATGTTACA 58.638 45.455 0.00 0.00 0.00 2.41
1467 2804 2.366916 GGATCGGAGAGTGGATGATGTT 59.633 50.000 0.00 0.00 43.63 2.71
1470 2807 2.388526 TGGATCGGAGAGTGGATGAT 57.611 50.000 0.00 0.00 43.63 2.45
1471 2808 2.242926 GATGGATCGGAGAGTGGATGA 58.757 52.381 0.00 0.00 43.63 2.92
1472 2809 1.274728 GGATGGATCGGAGAGTGGATG 59.725 57.143 0.00 0.00 43.63 3.51
1474 2811 0.261696 TGGATGGATCGGAGAGTGGA 59.738 55.000 0.00 0.00 43.63 4.02
1476 2813 1.274728 GGATGGATGGATCGGAGAGTG 59.725 57.143 0.00 0.00 43.63 3.51
1477 2814 1.133041 TGGATGGATGGATCGGAGAGT 60.133 52.381 0.00 0.00 43.63 3.24
1479 2816 1.342074 GTGGATGGATGGATCGGAGA 58.658 55.000 0.00 0.00 45.75 3.71
1480 2817 0.322975 GGTGGATGGATGGATCGGAG 59.677 60.000 0.00 0.00 0.00 4.63
1481 2818 0.399806 TGGTGGATGGATGGATCGGA 60.400 55.000 0.00 0.00 0.00 4.55
1488 2834 3.567164 GCAAGAACTATGGTGGATGGATG 59.433 47.826 0.00 0.00 0.00 3.51
1496 2842 1.086696 CCCACGCAAGAACTATGGTG 58.913 55.000 0.00 0.00 43.62 4.17
1497 2843 0.035439 CCCCACGCAAGAACTATGGT 60.035 55.000 0.00 0.00 43.62 3.55
1498 2844 0.748005 CCCCCACGCAAGAACTATGG 60.748 60.000 0.00 0.00 43.62 2.74
1499 2845 0.251916 TCCCCCACGCAAGAACTATG 59.748 55.000 0.00 0.00 43.62 2.23
1511 2857 2.270874 ATCAATGGCGAGTCCCCCAC 62.271 60.000 0.00 0.00 33.17 4.61
1517 2863 4.870426 TCACTAAGAAATCAATGGCGAGTC 59.130 41.667 0.00 0.00 0.00 3.36
1519 2865 5.745514 CATCACTAAGAAATCAATGGCGAG 58.254 41.667 0.00 0.00 0.00 5.03
1520 2866 4.035558 GCATCACTAAGAAATCAATGGCGA 59.964 41.667 0.00 0.00 0.00 5.54
1521 2867 4.285292 GCATCACTAAGAAATCAATGGCG 58.715 43.478 0.00 0.00 0.00 5.69
1522 2868 4.285292 CGCATCACTAAGAAATCAATGGC 58.715 43.478 0.00 0.00 0.00 4.40
1533 2879 0.460811 TGCTCCTGCGCATCACTAAG 60.461 55.000 12.24 3.49 43.34 2.18
1557 2904 0.103026 TCCATGAATCCGTCTCGCTG 59.897 55.000 0.00 0.00 0.00 5.18
1680 3027 3.620300 CTTCGCTGACACGCCGGTA 62.620 63.158 1.90 0.00 0.00 4.02
1702 3049 0.035739 TGAAAGTTCAGGTACCCGCC 59.964 55.000 8.74 0.00 32.50 6.13
1775 3122 1.031571 GCAAAGATGGCCGTGGATGA 61.032 55.000 0.00 0.00 0.00 2.92
1776 3123 1.033746 AGCAAAGATGGCCGTGGATG 61.034 55.000 0.00 0.00 0.00 3.51
1782 3129 3.880846 GGCGAGCAAAGATGGCCG 61.881 66.667 0.00 0.00 33.58 6.13
1816 3163 7.043192 GCATCATTTAAAAATCAGAATCACCGG 60.043 37.037 0.00 0.00 0.00 5.28
1831 3178 3.444742 CCACCTGCTCAGCATCATTTAAA 59.555 43.478 0.00 0.00 38.13 1.52
1834 3181 1.471119 CCACCTGCTCAGCATCATTT 58.529 50.000 0.00 0.00 38.13 2.32
1836 3183 1.453379 GCCACCTGCTCAGCATCAT 60.453 57.895 0.00 0.00 38.13 2.45
1837 3184 2.045634 GCCACCTGCTCAGCATCA 60.046 61.111 0.00 0.00 38.13 3.07
1838 3185 3.200593 CGCCACCTGCTCAGCATC 61.201 66.667 0.00 0.00 38.13 3.91
1915 3262 2.512515 GCCACGGACATCCAGCTC 60.513 66.667 0.00 0.00 35.14 4.09
1966 3313 0.321671 AGAACAGTGGGGTGATGTCG 59.678 55.000 0.00 0.00 0.00 4.35
1975 3322 5.352569 CAGCAAATAAGTAGAGAACAGTGGG 59.647 44.000 0.00 0.00 0.00 4.61
1978 3325 6.115448 ACCAGCAAATAAGTAGAGAACAGT 57.885 37.500 0.00 0.00 0.00 3.55
2004 3351 6.932356 ATGCTAACAAAATGATGTCTCGAT 57.068 33.333 0.00 0.00 31.81 3.59
2049 3396 7.763528 AGTCAATGTTGATTTGTTAAACAGCAA 59.236 29.630 0.00 0.00 39.73 3.91
2195 3542 1.277842 ACCAATGTACGTGGCAGATGA 59.722 47.619 13.87 0.00 40.02 2.92
2231 3578 4.478206 ACACTGACATGGTGGAAGATAG 57.522 45.455 0.00 0.00 38.83 2.08
2233 3580 3.840666 ACTACACTGACATGGTGGAAGAT 59.159 43.478 0.00 0.00 38.83 2.40
2254 3601 5.819901 AGCATCAGAATTACTTGCTTCCTAC 59.180 40.000 0.00 0.00 38.93 3.18
2298 3656 1.055849 TGTATGGTGTCTGCAGGTGT 58.944 50.000 15.13 0.00 0.00 4.16
2311 3669 1.374252 GCCGGTCCGCTATGTATGG 60.374 63.158 5.50 0.00 0.00 2.74
2329 3687 1.135046 GATCTCACCATCATCGTGCG 58.865 55.000 0.00 0.00 0.00 5.34
2378 3736 0.179045 GGTCGCCTTGCATCCTGTAT 60.179 55.000 0.00 0.00 0.00 2.29
2393 3751 1.683917 CCTGGTCTCTTCCATAGGTCG 59.316 57.143 0.00 0.00 36.84 4.79
2399 3757 2.122768 GATGACCCTGGTCTCTTCCAT 58.877 52.381 16.81 2.09 44.80 3.41
2483 3841 2.814835 GGTGAAGTCGGGGTGGTGT 61.815 63.158 0.00 0.00 0.00 4.16
2516 3874 0.675083 TGTGGTGTTATCGACGGTGT 59.325 50.000 0.00 0.00 0.00 4.16
2533 3891 1.537889 TGAGGAATCCACGGGGTGT 60.538 57.895 2.12 0.00 34.93 4.16
2542 3900 2.074547 TCGAAACACGTGAGGAATCC 57.925 50.000 25.01 0.00 43.13 3.01
2552 3910 0.109827 TGCAATGCCATCGAAACACG 60.110 50.000 1.53 0.00 44.09 4.49
2592 3950 4.846779 TCCTACATGAAGTTTTTGGTGC 57.153 40.909 0.00 0.00 0.00 5.01
2638 3996 6.555315 TCTTGCAAGTTCAGAAAGAAGAAAC 58.445 36.000 25.19 0.00 36.78 2.78
2735 4095 1.137513 GCTATAACATGCCCGTCGAC 58.862 55.000 5.18 5.18 0.00 4.20
2773 4133 3.830755 ACATTTCAGGAGCTGCAATTCTT 59.169 39.130 8.35 0.00 25.88 2.52
2787 4147 4.713824 ATGCATTGAGGTCACATTTCAG 57.286 40.909 0.00 0.00 0.00 3.02
2855 4225 2.037251 ACAGGTTGCTGAGTGTCGTTAT 59.963 45.455 0.00 0.00 0.00 1.89
2889 4288 7.950496 GCAGACTGAATAAAAACTGTACTTACG 59.050 37.037 6.65 0.00 0.00 3.18
2990 4389 5.329493 CGAAATCCAACGGAAAATTACTCC 58.671 41.667 0.00 0.00 34.34 3.85
3026 4425 6.013898 ACAGAGGTATGGATATCTTGTCATGG 60.014 42.308 2.05 0.00 0.00 3.66
3094 4493 9.767228 ATTTCAATGTGACAGATCAAAATTCAA 57.233 25.926 0.00 0.00 36.31 2.69
3118 4520 4.141824 GCCTACTAAGTGGAGCTTGAGATT 60.142 45.833 0.00 0.00 38.05 2.40
3128 4530 2.193993 GGGGAAAGCCTACTAAGTGGA 58.806 52.381 0.00 0.00 0.00 4.02
3212 4614 0.876777 ATCGTGCGGTGTCGTTTTCA 60.877 50.000 0.00 0.00 38.89 2.69
3331 4734 6.828785 GGGTTCTTGTTGTAGTGATAATGGAT 59.171 38.462 0.00 0.00 0.00 3.41
3355 4758 3.236896 AGACATACGTTGGTATAGGGGG 58.763 50.000 0.00 0.00 37.24 5.40
3356 4759 4.082354 GCTAGACATACGTTGGTATAGGGG 60.082 50.000 17.24 1.06 37.24 4.79
3357 4760 4.521639 TGCTAGACATACGTTGGTATAGGG 59.478 45.833 17.24 1.58 37.24 3.53
3358 4761 5.700722 TGCTAGACATACGTTGGTATAGG 57.299 43.478 17.24 5.29 37.24 2.57
3359 4762 5.624081 CGTTGCTAGACATACGTTGGTATAG 59.376 44.000 13.47 13.47 37.24 1.31
3360 4763 5.296531 TCGTTGCTAGACATACGTTGGTATA 59.703 40.000 0.00 0.00 37.24 1.47
3361 4764 4.096833 TCGTTGCTAGACATACGTTGGTAT 59.903 41.667 0.00 0.00 39.96 2.73
3362 4765 3.439825 TCGTTGCTAGACATACGTTGGTA 59.560 43.478 0.00 0.00 35.59 3.25
3363 4766 2.229543 TCGTTGCTAGACATACGTTGGT 59.770 45.455 0.00 0.00 35.59 3.67
3364 4767 2.871133 TCGTTGCTAGACATACGTTGG 58.129 47.619 0.00 0.00 35.59 3.77
3365 4768 7.377662 TGTTATATCGTTGCTAGACATACGTTG 59.622 37.037 0.00 0.00 35.59 4.10
3366 4769 7.420002 TGTTATATCGTTGCTAGACATACGTT 58.580 34.615 0.00 3.29 35.59 3.99
3367 4770 6.962686 TGTTATATCGTTGCTAGACATACGT 58.037 36.000 0.00 0.00 35.59 3.57
3368 4771 6.523546 CCTGTTATATCGTTGCTAGACATACG 59.476 42.308 0.00 5.05 35.49 3.06
3369 4772 7.591165 TCCTGTTATATCGTTGCTAGACATAC 58.409 38.462 0.00 0.00 0.00 2.39
3370 4773 7.754851 TCCTGTTATATCGTTGCTAGACATA 57.245 36.000 0.00 0.00 0.00 2.29
3371 4774 6.650427 TCCTGTTATATCGTTGCTAGACAT 57.350 37.500 0.00 0.00 0.00 3.06
3372 4775 6.040504 ACATCCTGTTATATCGTTGCTAGACA 59.959 38.462 0.00 0.00 0.00 3.41
3373 4776 6.363626 CACATCCTGTTATATCGTTGCTAGAC 59.636 42.308 0.00 0.00 0.00 2.59
3374 4777 6.040504 ACACATCCTGTTATATCGTTGCTAGA 59.959 38.462 0.00 0.00 0.00 2.43
3375 4778 6.216569 ACACATCCTGTTATATCGTTGCTAG 58.783 40.000 0.00 0.00 0.00 3.42
3376 4779 6.156748 ACACATCCTGTTATATCGTTGCTA 57.843 37.500 0.00 0.00 0.00 3.49
3377 4780 5.023533 ACACATCCTGTTATATCGTTGCT 57.976 39.130 0.00 0.00 0.00 3.91
3378 4781 5.064707 ACAACACATCCTGTTATATCGTTGC 59.935 40.000 0.00 0.00 41.50 4.17
3379 4782 6.312672 TGACAACACATCCTGTTATATCGTTG 59.687 38.462 0.00 0.00 41.50 4.10
3380 4783 6.312918 GTGACAACACATCCTGTTATATCGTT 59.687 38.462 0.00 0.00 41.50 3.85
3381 4784 5.810587 GTGACAACACATCCTGTTATATCGT 59.189 40.000 0.00 0.00 41.50 3.73
3382 4785 6.274001 GTGACAACACATCCTGTTATATCG 57.726 41.667 0.00 0.00 41.50 2.92
3396 4799 1.104630 TTTTTCCGGGGTGACAACAC 58.895 50.000 0.00 0.00 45.27 3.32
3397 4800 3.590643 TTTTTCCGGGGTGACAACA 57.409 47.368 0.00 0.00 0.00 3.33
3414 4817 3.807071 GGGTGAAACAACGCATCATTTTT 59.193 39.130 0.00 0.00 39.98 1.94
3415 4818 3.181471 TGGGTGAAACAACGCATCATTTT 60.181 39.130 0.00 0.00 39.98 1.82
3416 4819 2.363680 TGGGTGAAACAACGCATCATTT 59.636 40.909 0.00 0.00 39.98 2.32
3417 4820 1.959985 TGGGTGAAACAACGCATCATT 59.040 42.857 0.00 0.00 39.98 2.57
3418 4821 1.269448 GTGGGTGAAACAACGCATCAT 59.731 47.619 0.00 0.00 43.79 2.45
3419 4822 0.665835 GTGGGTGAAACAACGCATCA 59.334 50.000 0.00 0.00 43.79 3.07
3420 4823 0.665835 TGTGGGTGAAACAACGCATC 59.334 50.000 0.00 0.00 43.79 3.91
3421 4824 0.667993 CTGTGGGTGAAACAACGCAT 59.332 50.000 0.00 0.00 43.79 4.73
3422 4825 1.999071 GCTGTGGGTGAAACAACGCA 61.999 55.000 0.00 0.00 39.98 5.24
3423 4826 1.299089 GCTGTGGGTGAAACAACGC 60.299 57.895 0.00 0.00 39.98 4.84
3424 4827 0.029300 CTGCTGTGGGTGAAACAACG 59.971 55.000 0.00 0.00 39.98 4.10
3425 4828 0.249031 GCTGCTGTGGGTGAAACAAC 60.249 55.000 0.00 0.00 39.98 3.32
3426 4829 0.395586 AGCTGCTGTGGGTGAAACAA 60.396 50.000 0.00 0.00 39.98 2.83
3427 4830 0.472044 TAGCTGCTGTGGGTGAAACA 59.528 50.000 13.43 0.00 39.98 2.83
3428 4831 1.160137 CTAGCTGCTGTGGGTGAAAC 58.840 55.000 13.43 0.00 0.00 2.78
3429 4832 0.036732 CCTAGCTGCTGTGGGTGAAA 59.963 55.000 13.43 0.00 0.00 2.69
3430 4833 1.679311 CCTAGCTGCTGTGGGTGAA 59.321 57.895 13.43 0.00 0.00 3.18
3431 4834 2.293318 CCCTAGCTGCTGTGGGTGA 61.293 63.158 25.10 0.86 35.13 4.02
3432 4835 2.270205 CCCTAGCTGCTGTGGGTG 59.730 66.667 25.10 8.95 35.13 4.61
3434 4837 1.078143 GAACCCTAGCTGCTGTGGG 60.078 63.158 29.00 29.00 44.89 4.61
3435 4838 1.078143 GGAACCCTAGCTGCTGTGG 60.078 63.158 13.43 14.52 0.00 4.17
3436 4839 0.036732 TTGGAACCCTAGCTGCTGTG 59.963 55.000 13.43 4.96 0.00 3.66
3437 4840 0.036875 GTTGGAACCCTAGCTGCTGT 59.963 55.000 13.43 0.00 0.00 4.40
3438 4841 0.678048 GGTTGGAACCCTAGCTGCTG 60.678 60.000 13.43 2.21 43.43 4.41
3439 4842 1.685820 GGTTGGAACCCTAGCTGCT 59.314 57.895 7.57 7.57 43.43 4.24
3440 4843 4.320910 GGTTGGAACCCTAGCTGC 57.679 61.111 0.00 0.00 43.43 5.25
3449 4852 3.351416 GACGGCGGTGGTTGGAAC 61.351 66.667 13.24 0.00 0.00 3.62
3450 4853 4.629523 GGACGGCGGTGGTTGGAA 62.630 66.667 13.24 0.00 0.00 3.53
3452 4855 4.636435 AAGGACGGCGGTGGTTGG 62.636 66.667 13.24 0.00 0.00 3.77
3453 4856 2.593436 AAAGGACGGCGGTGGTTG 60.593 61.111 13.24 0.00 0.00 3.77
3454 4857 2.593436 CAAAGGACGGCGGTGGTT 60.593 61.111 13.24 0.00 0.00 3.67
3460 4863 3.737172 CAAGGGCAAAGGACGGCG 61.737 66.667 4.80 4.80 0.00 6.46
3461 4864 2.282180 TCAAGGGCAAAGGACGGC 60.282 61.111 0.00 0.00 0.00 5.68
3462 4865 1.675641 CCTCAAGGGCAAAGGACGG 60.676 63.158 0.00 0.00 31.44 4.79
3463 4866 3.987404 CCTCAAGGGCAAAGGACG 58.013 61.111 0.00 0.00 31.44 4.79
3472 4875 2.581354 CAGTCGAGGCCTCAAGGG 59.419 66.667 31.67 15.86 35.18 3.95
3473 4876 2.125350 GCAGTCGAGGCCTCAAGG 60.125 66.667 31.67 18.21 38.53 3.61
3481 4884 3.465403 CAGGGGAGGCAGTCGAGG 61.465 72.222 0.00 0.00 0.00 4.63
3482 4885 2.232298 GAACAGGGGAGGCAGTCGAG 62.232 65.000 0.00 0.00 0.00 4.04
3483 4886 2.203788 AACAGGGGAGGCAGTCGA 60.204 61.111 0.00 0.00 0.00 4.20
3484 4887 2.266055 GAACAGGGGAGGCAGTCG 59.734 66.667 0.00 0.00 0.00 4.18
3485 4888 2.671682 GGAACAGGGGAGGCAGTC 59.328 66.667 0.00 0.00 0.00 3.51
3486 4889 2.936032 GGGAACAGGGGAGGCAGT 60.936 66.667 0.00 0.00 0.00 4.40
3487 4890 2.612115 AGGGAACAGGGGAGGCAG 60.612 66.667 0.00 0.00 0.00 4.85
3488 4891 2.610859 GAGGGAACAGGGGAGGCA 60.611 66.667 0.00 0.00 0.00 4.75
3489 4892 3.787001 CGAGGGAACAGGGGAGGC 61.787 72.222 0.00 0.00 0.00 4.70
3490 4893 3.083997 CCGAGGGAACAGGGGAGG 61.084 72.222 0.00 0.00 0.00 4.30
3491 4894 1.900545 GAACCGAGGGAACAGGGGAG 61.901 65.000 0.00 0.00 35.08 4.30
3492 4895 1.916777 GAACCGAGGGAACAGGGGA 60.917 63.158 0.00 0.00 35.08 4.81
3493 4896 2.669240 GAACCGAGGGAACAGGGG 59.331 66.667 0.00 0.00 35.08 4.79
3494 4897 2.108278 AACGAACCGAGGGAACAGGG 62.108 60.000 0.00 0.00 35.08 4.45
3495 4898 0.669625 GAACGAACCGAGGGAACAGG 60.670 60.000 0.00 0.00 36.59 4.00
3496 4899 0.032952 TGAACGAACCGAGGGAACAG 59.967 55.000 0.00 0.00 0.00 3.16
3497 4900 0.464870 TTGAACGAACCGAGGGAACA 59.535 50.000 0.00 0.00 0.00 3.18
3498 4901 1.145803 CTTGAACGAACCGAGGGAAC 58.854 55.000 0.00 0.00 0.00 3.62
3499 4902 1.000506 CTCTTGAACGAACCGAGGGAA 59.999 52.381 0.00 0.00 0.00 3.97
3500 4903 0.601558 CTCTTGAACGAACCGAGGGA 59.398 55.000 0.00 0.00 0.00 4.20
3501 4904 1.014564 GCTCTTGAACGAACCGAGGG 61.015 60.000 0.00 0.00 0.00 4.30
3502 4905 1.014564 GGCTCTTGAACGAACCGAGG 61.015 60.000 0.00 0.00 0.00 4.63
3503 4906 0.038159 AGGCTCTTGAACGAACCGAG 60.038 55.000 0.00 0.00 0.00 4.63
3504 4907 0.038526 GAGGCTCTTGAACGAACCGA 60.039 55.000 7.40 0.00 0.00 4.69
3505 4908 1.014564 GGAGGCTCTTGAACGAACCG 61.015 60.000 15.23 0.00 0.00 4.44
3506 4909 1.014564 CGGAGGCTCTTGAACGAACC 61.015 60.000 15.23 0.00 0.00 3.62
3507 4910 1.627550 GCGGAGGCTCTTGAACGAAC 61.628 60.000 15.23 0.00 35.83 3.95
3508 4911 1.374252 GCGGAGGCTCTTGAACGAA 60.374 57.895 15.23 0.00 35.83 3.85
3509 4912 2.261671 GCGGAGGCTCTTGAACGA 59.738 61.111 15.23 0.00 35.83 3.85


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

AutoCloner maintained by Alex Coulton.