Multiple sequence alignment - TraesCS7A01G085700

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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 TraesCS7A01G085700 chr7A 100.000 3875 0 0 1 3875 49992369 49996243 0.000000e+00 7156.0
1 TraesCS7A01G085700 chr7A 82.479 1210 185 14 1678 2883 50136706 50137892 0.000000e+00 1035.0
2 TraesCS7A01G085700 chr7A 86.289 547 62 7 945 1486 50136024 50136562 2.010000e-162 582.0
3 TraesCS7A01G085700 chr7A 87.681 138 14 3 1 136 352181907 352182043 1.440000e-34 158.0
4 TraesCS7A01G085700 chr4A 89.163 3202 247 52 14 3166 662230797 662233947 0.000000e+00 3899.0
5 TraesCS7A01G085700 chr4A 83.110 1196 184 11 1678 2868 662567038 662568220 0.000000e+00 1074.0
6 TraesCS7A01G085700 chr4A 87.413 572 58 8 921 1486 662566322 662566885 0.000000e+00 645.0
7 TraesCS7A01G085700 chr4A 84.513 452 58 6 1043 1485 621806461 621806013 1.650000e-118 436.0
8 TraesCS7A01G085700 chr4A 76.214 597 128 10 3282 3875 707439550 707438965 1.750000e-78 303.0
9 TraesCS7A01G085700 chr4A 86.842 76 9 1 768 843 662203121 662203195 2.480000e-12 84.2
10 TraesCS7A01G085700 chr7D 92.883 2445 132 22 743 3166 47450458 47448035 0.000000e+00 3513.0
11 TraesCS7A01G085700 chr7D 82.285 1208 187 18 1680 2883 47482374 47483558 0.000000e+00 1020.0
12 TraesCS7A01G085700 chr7D 86.438 730 61 15 1 729 47451967 47451275 0.000000e+00 765.0
13 TraesCS7A01G085700 chr7D 87.215 571 61 7 921 1486 47481659 47482222 1.170000e-179 640.0
14 TraesCS7A01G085700 chr7D 92.035 113 8 1 3171 3282 47447295 47447183 1.440000e-34 158.0
15 TraesCS7A01G085700 chrUn 82.548 1209 193 12 1680 2883 264862642 264861447 0.000000e+00 1048.0
16 TraesCS7A01G085700 chrUn 82.733 1193 190 10 1680 2868 299069163 299070343 0.000000e+00 1048.0
17 TraesCS7A01G085700 chrUn 87.257 565 60 7 927 1486 264863292 264862735 5.460000e-178 634.0
18 TraesCS7A01G085700 chrUn 87.040 571 62 7 921 1486 299068507 299069070 5.460000e-178 634.0
19 TraesCS7A01G085700 chrUn 87.050 139 13 4 1 135 216518675 216518812 6.710000e-33 152.0
20 TraesCS7A01G085700 chrUn 72.967 418 92 14 3464 3875 36605121 36604719 4.060000e-25 126.0
21 TraesCS7A01G085700 chrUn 72.967 418 92 14 3464 3875 269195575 269195173 4.060000e-25 126.0
22 TraesCS7A01G085700 chr2A 91.005 378 28 5 3501 3875 39594875 39595249 4.470000e-139 505.0
23 TraesCS7A01G085700 chr2A 88.660 291 31 1 3587 3875 39775622 39775332 1.710000e-93 353.0
24 TraesCS7A01G085700 chr2A 87.967 241 26 3 3586 3826 39818857 39818620 8.200000e-72 281.0
25 TraesCS7A01G085700 chr2A 95.122 82 3 1 3501 3582 39819511 39819431 1.130000e-25 128.0
26 TraesCS7A01G085700 chr2A 94.805 77 3 1 3501 3576 39818350 39818274 6.800000e-23 119.0
27 TraesCS7A01G085700 chr5B 84.071 452 66 3 1040 1485 690102710 690103161 7.690000e-117 431.0
28 TraesCS7A01G085700 chr5B 87.500 136 12 4 1 132 538681808 538681942 6.710000e-33 152.0
29 TraesCS7A01G085700 chr3A 91.096 292 25 1 3584 3875 483994239 483994529 1.010000e-105 394.0
30 TraesCS7A01G085700 chr3A 91.579 285 23 1 3591 3875 483954549 483954832 3.630000e-105 392.0
31 TraesCS7A01G085700 chr3A 76.573 572 113 16 2306 2871 742871805 742871249 1.050000e-75 294.0
32 TraesCS7A01G085700 chr2B 77.058 571 117 9 3308 3875 91480505 91479946 2.250000e-82 316.0
33 TraesCS7A01G085700 chr1D 76.628 599 122 10 3282 3875 294423 293838 8.080000e-82 315.0
34 TraesCS7A01G085700 chr4B 76.047 597 129 10 3282 3875 4561385 4560800 8.140000e-77 298.0
35 TraesCS7A01G085700 chr3D 76.720 567 113 14 2306 2867 609006095 609006647 8.140000e-77 298.0
36 TraesCS7A01G085700 chr4D 87.591 137 12 4 7 139 19928496 19928361 1.860000e-33 154.0
37 TraesCS7A01G085700 chr5D 87.050 139 13 4 1 135 345940372 345940509 6.710000e-33 152.0
38 TraesCS7A01G085700 chr6D 86.765 136 13 4 4 135 168251462 168251328 3.120000e-31 147.0
39 TraesCS7A01G085700 chr6D 86.331 139 14 4 1 135 168251837 168251974 3.120000e-31 147.0


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 TraesCS7A01G085700 chr7A 49992369 49996243 3874 False 7156.000000 7156 100.0000 1 3875 1 chr7A.!!$F1 3874
1 TraesCS7A01G085700 chr7A 50136024 50137892 1868 False 808.500000 1035 84.3840 945 2883 2 chr7A.!!$F3 1938
2 TraesCS7A01G085700 chr4A 662230797 662233947 3150 False 3899.000000 3899 89.1630 14 3166 1 chr4A.!!$F2 3152
3 TraesCS7A01G085700 chr4A 662566322 662568220 1898 False 859.500000 1074 85.2615 921 2868 2 chr4A.!!$F3 1947
4 TraesCS7A01G085700 chr4A 707438965 707439550 585 True 303.000000 303 76.2140 3282 3875 1 chr4A.!!$R2 593
5 TraesCS7A01G085700 chr7D 47447183 47451967 4784 True 1478.666667 3513 90.4520 1 3282 3 chr7D.!!$R1 3281
6 TraesCS7A01G085700 chr7D 47481659 47483558 1899 False 830.000000 1020 84.7500 921 2883 2 chr7D.!!$F1 1962
7 TraesCS7A01G085700 chrUn 264861447 264863292 1845 True 841.000000 1048 84.9025 927 2883 2 chrUn.!!$R3 1956
8 TraesCS7A01G085700 chrUn 299068507 299070343 1836 False 841.000000 1048 84.8865 921 2868 2 chrUn.!!$F2 1947
9 TraesCS7A01G085700 chr3A 742871249 742871805 556 True 294.000000 294 76.5730 2306 2871 1 chr3A.!!$R1 565
10 TraesCS7A01G085700 chr2B 91479946 91480505 559 True 316.000000 316 77.0580 3308 3875 1 chr2B.!!$R1 567
11 TraesCS7A01G085700 chr1D 293838 294423 585 True 315.000000 315 76.6280 3282 3875 1 chr1D.!!$R1 593
12 TraesCS7A01G085700 chr4B 4560800 4561385 585 True 298.000000 298 76.0470 3282 3875 1 chr4B.!!$R1 593
13 TraesCS7A01G085700 chr3D 609006095 609006647 552 False 298.000000 298 76.7200 2306 2867 1 chr3D.!!$F1 561

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
712 740 0.038159 GTCCTCACTCCACGAACCTG 60.038 60.000 0.0 0.0 0.0 4.00 F
814 1645 1.234821 GCACGGTTGTCATTCTCCAA 58.765 50.000 0.0 0.0 0.0 3.53 F
1524 2374 1.276138 TGTCACATGCCTACTCACCAG 59.724 52.381 0.0 0.0 0.0 4.00 F
2382 3335 0.618680 TCAGGGATGTGGTGGGAGAG 60.619 60.000 0.0 0.0 0.0 3.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1627 2575 0.165944 CATCAACGGACGCAAAGGTC 59.834 55.0 0.0 0.0 36.18 3.85 R
1968 2916 0.742281 GCTGCAAGAAGATCCGCTCA 60.742 55.0 0.0 0.0 34.07 4.26 R
2593 3546 0.771755 GGGTTGAACTCCTCTGGGTT 59.228 55.0 0.0 0.0 0.00 4.11 R
3582 5274 0.032403 TTGCACAAAGTCATGCCTGC 59.968 50.0 0.0 0.0 41.33 4.85 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
23 24 5.625568 AACAGTGGTAACTAAGACACCTT 57.374 39.130 0.00 0.00 33.79 3.50
42 43 3.181439 CCTTGGGAAATAGGGATGTCTCC 60.181 52.174 0.00 0.00 41.26 3.71
48 49 5.280215 GGGAAATAGGGATGTCTCCATACAG 60.280 48.000 0.00 0.00 40.44 2.74
56 57 4.262635 GGATGTCTCCATACAGTACCCATG 60.263 50.000 0.00 0.00 41.64 3.66
64 65 5.248248 TCCATACAGTACCCATGATATGTGG 59.752 44.000 0.00 0.00 36.47 4.17
172 175 5.365619 TGGAACTGAGGTCTTCTAAAACAC 58.634 41.667 0.00 0.00 0.00 3.32
199 221 2.431954 AGGGGAATACGTTCTCTCGA 57.568 50.000 0.00 0.00 35.09 4.04
261 287 4.404394 TGACAAACTATCTATCTTCCGGCA 59.596 41.667 0.00 0.00 0.00 5.69
290 316 2.034879 CACCGCTAGCCACACCAAG 61.035 63.158 9.66 0.00 0.00 3.61
306 332 2.232941 ACCAAGCATCATTTTGGAGCAG 59.767 45.455 10.00 0.00 45.32 4.24
332 359 2.887152 ACGATGACGAGATGATGGATGA 59.113 45.455 0.00 0.00 42.66 2.92
368 395 1.514087 CAATGCAGGTGGTGGATGC 59.486 57.895 0.00 0.00 37.28 3.91
369 396 1.683365 AATGCAGGTGGTGGATGCC 60.683 57.895 0.00 0.00 37.28 4.40
370 397 2.159101 AATGCAGGTGGTGGATGCCT 62.159 55.000 0.00 0.00 37.28 4.75
372 399 2.044650 CAGGTGGTGGATGCCTGG 60.045 66.667 0.00 0.00 44.36 4.45
373 400 2.204136 AGGTGGTGGATGCCTGGA 60.204 61.111 0.00 0.00 0.00 3.86
374 401 1.620589 AGGTGGTGGATGCCTGGAT 60.621 57.895 0.00 0.00 0.00 3.41
375 402 1.454479 GGTGGTGGATGCCTGGATG 60.454 63.158 0.00 0.00 0.00 3.51
383 410 2.687418 GATGCCTGGATGGTGCCGAT 62.687 60.000 0.00 0.00 38.35 4.18
388 415 0.179037 CTGGATGGTGCCGATGATGT 60.179 55.000 0.00 0.00 0.00 3.06
412 440 1.380302 GGTGGAGATGGTGGTTGCT 59.620 57.895 0.00 0.00 0.00 3.91
475 503 1.119574 ACTACCCTGTGCGTGAACCT 61.120 55.000 0.00 0.00 0.00 3.50
539 567 4.941263 GCCACTGAAGTTGGTATGTTATCA 59.059 41.667 0.00 0.00 0.00 2.15
582 610 4.709886 TCTCAATCTGATGGTCCGACTTTA 59.290 41.667 0.00 0.00 0.00 1.85
585 613 3.179443 TCTGATGGTCCGACTTTATGC 57.821 47.619 0.00 0.00 0.00 3.14
588 616 3.205338 TGATGGTCCGACTTTATGCATG 58.795 45.455 10.16 0.00 0.00 4.06
596 624 2.863740 CGACTTTATGCATGCCTTACGA 59.136 45.455 16.68 0.00 0.00 3.43
620 648 8.788813 CGAATTGTTAATTTGCTTGTATGACTC 58.211 33.333 0.00 0.00 0.00 3.36
621 649 9.846248 GAATTGTTAATTTGCTTGTATGACTCT 57.154 29.630 0.00 0.00 0.00 3.24
712 740 0.038159 GTCCTCACTCCACGAACCTG 60.038 60.000 0.00 0.00 0.00 4.00
735 763 5.599999 CCTACTGAAAGGCATGTAGTACT 57.400 43.478 0.00 0.00 39.30 2.73
739 1570 6.852420 ACTGAAAGGCATGTAGTACTTAGA 57.148 37.500 0.00 0.00 39.30 2.10
741 1572 7.324178 ACTGAAAGGCATGTAGTACTTAGAAG 58.676 38.462 0.00 0.00 39.30 2.85
746 1577 8.591114 AAGGCATGTAGTACTTAGAAGTTAGA 57.409 34.615 0.00 0.00 40.37 2.10
765 1596 8.950208 AGTTAGAACTTAGACAAATATGGCTC 57.050 34.615 0.00 0.00 46.32 4.70
814 1645 1.234821 GCACGGTTGTCATTCTCCAA 58.765 50.000 0.00 0.00 0.00 3.53
815 1646 1.606668 GCACGGTTGTCATTCTCCAAA 59.393 47.619 0.00 0.00 0.00 3.28
816 1647 2.604614 GCACGGTTGTCATTCTCCAAAC 60.605 50.000 0.00 0.00 0.00 2.93
817 1648 2.616376 CACGGTTGTCATTCTCCAAACA 59.384 45.455 0.00 0.00 0.00 2.83
818 1649 2.616842 ACGGTTGTCATTCTCCAAACAC 59.383 45.455 0.00 0.00 0.00 3.32
819 1650 2.616376 CGGTTGTCATTCTCCAAACACA 59.384 45.455 0.00 0.00 0.00 3.72
820 1651 3.066064 CGGTTGTCATTCTCCAAACACAA 59.934 43.478 0.00 0.00 0.00 3.33
823 1654 3.286353 TGTCATTCTCCAAACACAAGCA 58.714 40.909 0.00 0.00 0.00 3.91
861 1692 3.733960 GACCGGGCCGTTTCAAGC 61.734 66.667 26.32 1.67 0.00 4.01
877 1708 5.662674 TTCAAGCCCTTCTAGTAGACTTC 57.337 43.478 0.00 0.00 0.00 3.01
900 1731 3.629855 AGAGTACAGTGACGATGAGATGG 59.370 47.826 0.00 0.00 0.00 3.51
912 1743 5.491070 ACGATGAGATGGTCAGATTTTTCA 58.509 37.500 0.00 0.00 39.07 2.69
914 1745 6.259608 ACGATGAGATGGTCAGATTTTTCATC 59.740 38.462 0.00 0.00 39.07 2.92
919 1759 6.351711 AGATGGTCAGATTTTTCATCGATCA 58.648 36.000 0.00 0.00 39.17 2.92
1035 1876 2.757508 TCGCTGCTCCTCTCCCTG 60.758 66.667 0.00 0.00 0.00 4.45
1086 1927 2.158755 ACTTGTCACTGTCCTTTCCCTG 60.159 50.000 0.00 0.00 0.00 4.45
1524 2374 1.276138 TGTCACATGCCTACTCACCAG 59.724 52.381 0.00 0.00 0.00 4.00
1563 2511 7.548097 TGTGCTGAAATAGTCTTCCTAGTTAG 58.452 38.462 0.00 0.00 34.26 2.34
1639 2587 2.626780 GGCCTTGACCTTTGCGTCC 61.627 63.158 0.00 0.00 31.35 4.79
1661 2609 5.645929 TCCGTTGATGCACACAACTATTTAT 59.354 36.000 25.38 0.00 43.40 1.40
1663 2611 7.497579 TCCGTTGATGCACACAACTATTTATAT 59.502 33.333 25.38 0.00 43.40 0.86
1664 2612 8.769891 CCGTTGATGCACACAACTATTTATATA 58.230 33.333 25.38 0.00 43.40 0.86
1932 2880 2.186903 CCAATAGCTGTCGGCCGT 59.813 61.111 27.15 7.91 43.05 5.68
2049 2997 1.225376 CTAACCGCGTGTTGCCTGAA 61.225 55.000 19.07 2.00 42.08 3.02
2093 3041 4.142071 TGTCCTCATCGATCTTTGGAAGAG 60.142 45.833 0.00 0.00 41.61 2.85
2118 3066 2.029244 GCGTGGTACATTCATCTTCACG 59.971 50.000 10.01 10.01 44.52 4.35
2142 3090 2.158871 GGACCACGTCAAGGCCATAATA 60.159 50.000 5.01 0.00 33.68 0.98
2171 3121 8.941977 TGTATGTCAATAATTCCACACTTACAC 58.058 33.333 0.00 0.00 0.00 2.90
2178 3128 8.522830 CAATAATTCCACACTTACACTCCATTT 58.477 33.333 0.00 0.00 0.00 2.32
2370 3323 1.765314 GTGCAGGACAGTATCAGGGAT 59.235 52.381 0.00 0.00 0.00 3.85
2382 3335 0.618680 TCAGGGATGTGGTGGGAGAG 60.619 60.000 0.00 0.00 0.00 3.20
2529 3482 1.769716 TTGGTGGGTATGACGTGCCA 61.770 55.000 0.00 0.00 33.61 4.92
2593 3546 2.662596 CGGTAAGCTGGCCTGACA 59.337 61.111 14.77 0.00 0.00 3.58
2754 3707 2.079158 CTCGCCAATCTGCTCTTCAAA 58.921 47.619 0.00 0.00 0.00 2.69
2850 3803 0.108804 GCAAGACGCCACTAGTGCTA 60.109 55.000 17.86 0.00 32.94 3.49
2868 3821 3.268334 TGCTAGTTCCCAAACCATACCAT 59.732 43.478 0.00 0.00 35.92 3.55
2874 3827 2.916269 TCCCAAACCATACCATCACTGA 59.084 45.455 0.00 0.00 0.00 3.41
2968 3922 5.385617 CAGCAGGACAAAAAGAATTACTCG 58.614 41.667 0.00 0.00 0.00 4.18
2975 3929 6.741358 GGACAAAAAGAATTACTCGTGTATGC 59.259 38.462 0.00 0.00 0.00 3.14
3060 4014 9.549509 GTATTGCTCGTGTAAAATGTAATGAAA 57.450 29.630 0.00 0.00 0.00 2.69
3166 4120 7.427989 AATGATTTGGCTATGTGGATCTTTT 57.572 32.000 0.00 0.00 0.00 2.27
3167 4121 6.855763 TGATTTGGCTATGTGGATCTTTTT 57.144 33.333 0.00 0.00 0.00 1.94
3168 4122 6.632909 TGATTTGGCTATGTGGATCTTTTTG 58.367 36.000 0.00 0.00 0.00 2.44
3169 4123 6.211184 TGATTTGGCTATGTGGATCTTTTTGT 59.789 34.615 0.00 0.00 0.00 2.83
3170 4124 7.395772 TGATTTGGCTATGTGGATCTTTTTGTA 59.604 33.333 0.00 0.00 0.00 2.41
3171 4125 7.531857 TTTGGCTATGTGGATCTTTTTGTAA 57.468 32.000 0.00 0.00 0.00 2.41
3176 4866 7.864379 GGCTATGTGGATCTTTTTGTAATGATG 59.136 37.037 0.00 0.00 30.68 3.07
3185 4875 6.085573 TCTTTTTGTAATGATGCGACACATG 58.914 36.000 0.00 0.00 39.84 3.21
3187 4877 3.258971 TGTAATGATGCGACACATGGA 57.741 42.857 0.00 0.00 39.84 3.41
3188 4878 3.807553 TGTAATGATGCGACACATGGAT 58.192 40.909 0.00 0.00 39.84 3.41
3192 4882 1.077572 ATGCGACACATGGATGGCA 60.078 52.632 9.90 9.90 37.70 4.92
3242 4932 7.114388 CACTTTTCACTAAAACGGGAATAAAGC 59.886 37.037 0.00 0.00 31.37 3.51
3250 4940 5.381174 AAACGGGAATAAAGCAAACCTAC 57.619 39.130 0.00 0.00 0.00 3.18
3304 4994 8.435982 CCTCAAGAGGTCCTATTTTCTATCAAT 58.564 37.037 7.98 0.00 43.61 2.57
3305 4995 9.844257 CTCAAGAGGTCCTATTTTCTATCAATT 57.156 33.333 0.00 0.00 0.00 2.32
3306 4996 9.838339 TCAAGAGGTCCTATTTTCTATCAATTC 57.162 33.333 0.00 0.00 0.00 2.17
3313 5003 8.686334 GTCCTATTTTCTATCAATTCAAGGCAA 58.314 33.333 0.00 0.00 0.00 4.52
3319 5009 8.593945 TTTCTATCAATTCAAGGCAAATACCT 57.406 30.769 0.00 0.00 43.91 3.08
3321 5011 4.454728 TCAATTCAAGGCAAATACCTGC 57.545 40.909 0.00 0.00 39.93 4.85
3322 5012 3.831333 TCAATTCAAGGCAAATACCTGCA 59.169 39.130 0.00 0.00 44.52 4.41
3325 5015 3.370840 TCAAGGCAAATACCTGCAGAT 57.629 42.857 17.39 0.00 44.52 2.90
3334 5024 5.585390 CAAATACCTGCAGATTGGAATGAC 58.415 41.667 17.39 0.00 0.00 3.06
3337 5027 2.040813 ACCTGCAGATTGGAATGACACT 59.959 45.455 17.39 0.00 0.00 3.55
3363 5054 7.657336 TCATTGTTCTTATTCCCAAAGTTGAC 58.343 34.615 0.00 0.00 0.00 3.18
3366 5057 5.768164 TGTTCTTATTCCCAAAGTTGACTCC 59.232 40.000 0.00 0.00 0.00 3.85
3372 5063 1.271597 CCCAAAGTTGACTCCCCTGAG 60.272 57.143 0.00 0.00 44.62 3.35
3438 5129 9.809096 TTGTACAAAACAATTTCAAAGATGCTA 57.191 25.926 5.64 0.00 43.22 3.49
3443 5134 4.741342 ACAATTTCAAAGATGCTAGCTGC 58.259 39.130 17.23 7.78 43.25 5.25
3449 5140 3.448660 TCAAAGATGCTAGCTGCTAGACA 59.551 43.478 34.43 29.14 43.37 3.41
3450 5141 4.100653 TCAAAGATGCTAGCTGCTAGACAT 59.899 41.667 34.43 31.56 43.37 3.06
3456 5147 2.028567 GCTAGCTGCTAGACATAAGGGG 60.029 54.545 34.43 10.30 36.26 4.79
3459 5150 3.321950 AGCTGCTAGACATAAGGGGATT 58.678 45.455 0.00 0.00 0.00 3.01
3460 5151 3.718956 AGCTGCTAGACATAAGGGGATTT 59.281 43.478 0.00 0.00 0.00 2.17
3468 5159 6.848562 AGACATAAGGGGATTTTACCTGAT 57.151 37.500 0.00 0.00 37.13 2.90
3474 5165 9.401058 CATAAGGGGATTTTACCTGATATCATC 57.599 37.037 5.72 0.00 37.13 2.92
3477 5168 7.028131 AGGGGATTTTACCTGATATCATCTCT 58.972 38.462 5.72 0.00 35.30 3.10
3480 5171 7.038017 GGGATTTTACCTGATATCATCTCTCCA 60.038 40.741 5.72 0.00 0.00 3.86
3481 5172 8.378565 GGATTTTACCTGATATCATCTCTCCAA 58.621 37.037 5.72 0.00 0.00 3.53
3492 5183 2.001076 TCTCTCCAACTCAGAGTGCA 57.999 50.000 3.05 0.00 38.87 4.57
3503 5195 1.699083 TCAGAGTGCATTTGTCCTGGA 59.301 47.619 0.00 0.00 0.00 3.86
3509 5201 2.485814 GTGCATTTGTCCTGGAAGACTC 59.514 50.000 0.00 0.00 37.66 3.36
3511 5203 3.149196 GCATTTGTCCTGGAAGACTCAA 58.851 45.455 0.00 0.00 37.66 3.02
3515 5207 2.398588 TGTCCTGGAAGACTCAACACT 58.601 47.619 0.00 0.00 37.66 3.55
3518 5210 2.365617 TCCTGGAAGACTCAACACTGAC 59.634 50.000 0.00 0.00 34.07 3.51
3527 5219 6.161855 AGACTCAACACTGACAATGTTCTA 57.838 37.500 0.00 0.00 38.22 2.10
3573 5265 3.414759 TCAAGAATACTAGGGCAGGGA 57.585 47.619 0.00 0.00 0.00 4.20
3574 5266 3.731431 TCAAGAATACTAGGGCAGGGAA 58.269 45.455 0.00 0.00 0.00 3.97
3575 5267 3.711704 TCAAGAATACTAGGGCAGGGAAG 59.288 47.826 0.00 0.00 0.00 3.46
3576 5268 2.695585 AGAATACTAGGGCAGGGAAGG 58.304 52.381 0.00 0.00 0.00 3.46
3577 5269 1.700186 GAATACTAGGGCAGGGAAGGG 59.300 57.143 0.00 0.00 0.00 3.95
3578 5270 0.768609 ATACTAGGGCAGGGAAGGGC 60.769 60.000 0.00 0.00 0.00 5.19
3579 5271 2.189558 TACTAGGGCAGGGAAGGGCA 62.190 60.000 0.00 0.00 0.00 5.36
3580 5272 2.692368 TAGGGCAGGGAAGGGCAG 60.692 66.667 0.00 0.00 0.00 4.85
3589 5281 4.453892 GAAGGGCAGGGCAGGCAT 62.454 66.667 0.00 0.00 35.46 4.40
3594 5286 2.362120 GCAGGGCAGGCATGACTT 60.362 61.111 13.63 0.00 33.55 3.01
3601 5293 0.032403 GCAGGCATGACTTTGTGCAA 59.968 50.000 0.00 0.00 43.00 4.08
3607 5299 3.553508 GGCATGACTTTGTGCAATCAAGT 60.554 43.478 0.00 6.20 43.00 3.16
3609 5301 4.084745 GCATGACTTTGTGCAATCAAGTTG 60.085 41.667 0.00 0.00 40.94 3.16
3624 5316 5.052693 TCAAGTTGGATATGCATAAGGCT 57.947 39.130 11.13 2.54 45.15 4.58
3627 5319 6.712095 TCAAGTTGGATATGCATAAGGCTTAG 59.288 38.462 11.13 6.28 45.15 2.18
3630 5322 5.165961 TGGATATGCATAAGGCTTAGGAC 57.834 43.478 21.97 13.30 45.15 3.85
3633 5325 1.200519 TGCATAAGGCTTAGGACCGT 58.799 50.000 21.97 0.00 45.15 4.83
3639 5331 1.218316 GGCTTAGGACCGTGTGGAG 59.782 63.158 0.00 0.00 39.21 3.86
3645 5337 0.836400 AGGACCGTGTGGAGTGGATT 60.836 55.000 0.00 0.00 39.21 3.01
3647 5339 1.156736 GACCGTGTGGAGTGGATTTG 58.843 55.000 0.00 0.00 39.21 2.32
3648 5340 0.889186 ACCGTGTGGAGTGGATTTGC 60.889 55.000 0.00 0.00 39.21 3.68
3649 5341 0.606401 CCGTGTGGAGTGGATTTGCT 60.606 55.000 0.00 0.00 37.49 3.91
3651 5343 1.069022 CGTGTGGAGTGGATTTGCTTG 60.069 52.381 0.00 0.00 0.00 4.01
3654 5346 2.106338 TGTGGAGTGGATTTGCTTGAGA 59.894 45.455 0.00 0.00 0.00 3.27
3672 5364 4.965814 TGAGAAGCATGACAGAGAAACTT 58.034 39.130 0.00 0.00 0.00 2.66
3675 5367 3.777106 AGCATGACAGAGAAACTTGGA 57.223 42.857 0.00 0.00 0.00 3.53
3679 5371 5.182760 AGCATGACAGAGAAACTTGGATTTC 59.817 40.000 0.00 0.00 38.62 2.17
3681 5373 6.349944 GCATGACAGAGAAACTTGGATTTCAT 60.350 38.462 0.00 0.00 40.43 2.57
3683 5375 7.912056 TGACAGAGAAACTTGGATTTCATAG 57.088 36.000 1.47 0.00 40.43 2.23
3684 5376 6.372659 TGACAGAGAAACTTGGATTTCATAGC 59.627 38.462 1.47 0.00 40.43 2.97
3686 5378 5.884792 CAGAGAAACTTGGATTTCATAGCCT 59.115 40.000 1.47 0.00 40.43 4.58
3687 5379 6.376581 CAGAGAAACTTGGATTTCATAGCCTT 59.623 38.462 1.47 0.00 40.43 4.35
3693 5385 5.960202 ACTTGGATTTCATAGCCTTTGGATT 59.040 36.000 0.00 0.00 0.00 3.01
3698 5390 7.784073 TGGATTTCATAGCCTTTGGATTGATAA 59.216 33.333 0.00 0.00 0.00 1.75
3714 5406 6.015688 GGATTGATAAGATCATGGCATGTGTT 60.016 38.462 25.62 18.64 39.39 3.32
3717 5409 5.887035 TGATAAGATCATGGCATGTGTTTCA 59.113 36.000 25.62 17.94 33.59 2.69
3720 5412 4.533815 AGATCATGGCATGTGTTTCATCT 58.466 39.130 25.62 20.67 34.09 2.90
3723 5415 3.191791 TCATGGCATGTGTTTCATCTGTG 59.808 43.478 25.62 0.00 34.09 3.66
3732 5424 7.573656 GCATGTGTTTCATCTGTGAGATACAAA 60.574 37.037 0.00 0.00 41.53 2.83
3735 5427 8.147704 TGTGTTTCATCTGTGAGATACAAAGTA 58.852 33.333 0.00 0.00 37.54 2.24
3771 5463 7.898636 TCCCATGAAACTAACATTTTTATCCCT 59.101 33.333 0.00 0.00 0.00 4.20
3789 5481 1.202698 CCTTCTAGGGGAATTCGGCAG 60.203 57.143 0.00 0.00 33.01 4.85
3792 5484 1.003704 TAGGGGAATTCGGCAGGGA 59.996 57.895 0.00 0.00 0.00 4.20
3795 5487 1.153147 GGGAATTCGGCAGGGAGAC 60.153 63.158 0.00 0.00 0.00 3.36
3796 5488 1.627297 GGGAATTCGGCAGGGAGACT 61.627 60.000 0.00 0.00 0.00 3.24
3820 5512 5.136220 TCCCTCTCTCCATATCTGTTCCTTA 59.864 44.000 0.00 0.00 0.00 2.69
3829 5521 7.744733 TCCATATCTGTTCCTTATATGTGCAA 58.255 34.615 0.00 0.00 33.58 4.08
3834 5526 6.245408 TCTGTTCCTTATATGTGCAAAAGGT 58.755 36.000 10.87 0.00 39.62 3.50
3835 5527 6.374333 TCTGTTCCTTATATGTGCAAAAGGTC 59.626 38.462 10.87 7.73 39.62 3.85
3837 5529 6.150976 TGTTCCTTATATGTGCAAAAGGTCTG 59.849 38.462 10.87 0.00 39.62 3.51
3840 5532 5.882557 CCTTATATGTGCAAAAGGTCTGTCT 59.117 40.000 0.00 0.00 34.92 3.41
3851 5543 3.784701 AGGTCTGTCTAGTATGTTGCG 57.215 47.619 0.00 0.00 0.00 4.85
3854 5546 3.436496 GTCTGTCTAGTATGTTGCGGTC 58.564 50.000 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 3.326880 CCCAAGGTGTCTTAGTTACCACT 59.673 47.826 9.45 0.00 36.94 4.00
7 8 4.628963 TTCCCAAGGTGTCTTAGTTACC 57.371 45.455 0.00 0.00 34.68 2.85
12 13 4.473559 TCCCTATTTCCCAAGGTGTCTTAG 59.526 45.833 0.00 0.00 0.00 2.18
23 24 3.144068 TGGAGACATCCCTATTTCCCA 57.856 47.619 0.00 0.00 46.04 4.37
42 43 6.358974 TCCACATATCATGGGTACTGTATG 57.641 41.667 0.00 0.00 37.85 2.39
48 49 7.387948 GTCAATACTTCCACATATCATGGGTAC 59.612 40.741 0.00 0.00 37.85 3.34
96 97 8.072567 GGCTTATGTTCTTCATGTAGCATTTAG 58.927 37.037 13.97 0.00 42.20 1.85
151 154 5.287226 TCGTGTTTTAGAAGACCTCAGTTC 58.713 41.667 0.00 0.00 0.00 3.01
157 160 6.649557 CCTAATGTTCGTGTTTTAGAAGACCT 59.350 38.462 0.00 0.00 0.00 3.85
172 175 4.690122 AGAACGTATTCCCCTAATGTTCG 58.310 43.478 0.00 0.00 36.39 3.95
273 299 2.347490 CTTGGTGTGGCTAGCGGT 59.653 61.111 9.00 0.00 0.00 5.68
275 301 1.709147 GATGCTTGGTGTGGCTAGCG 61.709 60.000 9.00 0.00 36.43 4.26
290 316 2.097825 AGTCCTGCTCCAAAATGATGC 58.902 47.619 0.00 0.00 0.00 3.91
306 332 3.365465 CCATCATCTCGTCATCGTAGTCC 60.365 52.174 0.00 0.00 38.33 3.85
345 372 1.588082 CACCACCTGCATTGCTTCC 59.412 57.895 10.49 0.00 0.00 3.46
368 395 0.887836 CATCATCGGCACCATCCAGG 60.888 60.000 0.00 0.00 45.67 4.45
369 396 0.179037 ACATCATCGGCACCATCCAG 60.179 55.000 0.00 0.00 0.00 3.86
370 397 1.070601 CTACATCATCGGCACCATCCA 59.929 52.381 0.00 0.00 0.00 3.41
371 398 1.609061 CCTACATCATCGGCACCATCC 60.609 57.143 0.00 0.00 0.00 3.51
372 399 1.609061 CCCTACATCATCGGCACCATC 60.609 57.143 0.00 0.00 0.00 3.51
373 400 0.397941 CCCTACATCATCGGCACCAT 59.602 55.000 0.00 0.00 0.00 3.55
374 401 1.829456 CCCTACATCATCGGCACCA 59.171 57.895 0.00 0.00 0.00 4.17
375 402 1.598130 GCCCTACATCATCGGCACC 60.598 63.158 0.00 0.00 41.25 5.01
383 410 0.398522 ATCTCCACCGCCCTACATCA 60.399 55.000 0.00 0.00 0.00 3.07
388 415 2.063979 CACCATCTCCACCGCCCTA 61.064 63.158 0.00 0.00 0.00 3.53
418 446 2.335712 GGCTATAATGCCGGGCTGC 61.336 63.158 21.46 13.48 43.74 5.25
475 503 4.569023 CGTGCTGAGCGGCGGATA 62.569 66.667 9.78 0.00 34.52 2.59
549 577 7.040961 GGACCATCAGATTGAGACTACTAGTAC 60.041 44.444 0.00 0.00 0.00 2.73
566 594 2.905075 TGCATAAAGTCGGACCATCAG 58.095 47.619 4.14 0.00 0.00 2.90
582 610 5.574891 TTAACAATTCGTAAGGCATGCAT 57.425 34.783 21.36 10.32 38.47 3.96
585 613 6.531240 AGCAAATTAACAATTCGTAAGGCATG 59.469 34.615 0.00 0.00 38.47 4.06
588 616 6.364976 ACAAGCAAATTAACAATTCGTAAGGC 59.635 34.615 0.00 0.00 38.47 4.35
617 645 7.381323 TGCATTGATCGATATCACAATAGAGT 58.619 34.615 14.82 0.00 41.87 3.24
620 648 7.908601 CCATTGCATTGATCGATATCACAATAG 59.091 37.037 10.14 11.82 41.87 1.73
621 649 7.391275 ACCATTGCATTGATCGATATCACAATA 59.609 33.333 10.14 5.62 41.87 1.90
627 655 9.069078 CATAAAACCATTGCATTGATCGATATC 57.931 33.333 10.14 0.00 0.00 1.63
672 700 9.530633 GAGGACGAAACAAATACTAGACATATT 57.469 33.333 0.00 0.00 0.00 1.28
692 720 1.080705 GGTTCGTGGAGTGAGGACG 60.081 63.158 0.00 0.00 34.38 4.79
741 1572 8.950208 AGAGCCATATTTGTCTAAGTTCTAAC 57.050 34.615 0.00 0.00 0.00 2.34
746 1577 6.378280 CCCAAAGAGCCATATTTGTCTAAGTT 59.622 38.462 0.00 0.00 36.16 2.66
750 1581 5.045213 TCACCCAAAGAGCCATATTTGTCTA 60.045 40.000 0.00 0.00 36.16 2.59
755 1586 4.322057 AGTCACCCAAAGAGCCATATTT 57.678 40.909 0.00 0.00 0.00 1.40
759 1590 2.242043 CAAAGTCACCCAAAGAGCCAT 58.758 47.619 0.00 0.00 0.00 4.40
763 1594 1.002468 CACGCAAAGTCACCCAAAGAG 60.002 52.381 0.00 0.00 0.00 2.85
765 1596 1.002468 CTCACGCAAAGTCACCCAAAG 60.002 52.381 0.00 0.00 0.00 2.77
797 1628 2.616842 GTGTTTGGAGAATGACAACCGT 59.383 45.455 0.00 0.00 0.00 4.83
814 1645 1.425412 GGTCGACGTATGCTTGTGTT 58.575 50.000 9.92 0.00 0.00 3.32
815 1646 0.731514 CGGTCGACGTATGCTTGTGT 60.732 55.000 9.92 0.00 37.93 3.72
816 1647 1.410737 CCGGTCGACGTATGCTTGTG 61.411 60.000 9.92 0.00 42.24 3.33
817 1648 1.153901 CCGGTCGACGTATGCTTGT 60.154 57.895 9.92 0.00 42.24 3.16
818 1649 2.514013 GCCGGTCGACGTATGCTTG 61.514 63.158 9.92 0.00 42.24 4.01
819 1650 2.202703 GCCGGTCGACGTATGCTT 60.203 61.111 9.92 0.00 42.24 3.91
820 1651 3.411418 CTGCCGGTCGACGTATGCT 62.411 63.158 9.92 0.00 42.24 3.79
823 1654 2.438975 TCCTGCCGGTCGACGTAT 60.439 61.111 9.92 0.00 42.24 3.06
861 1692 6.416415 TGTACTCTGAAGTCTACTAGAAGGG 58.584 44.000 0.00 0.00 36.92 3.95
877 1708 4.497173 CCATCTCATCGTCACTGTACTCTG 60.497 50.000 0.00 0.00 0.00 3.35
900 1731 6.971184 AGCAAATGATCGATGAAAAATCTGAC 59.029 34.615 0.54 0.00 0.00 3.51
1086 1927 0.250467 TTCTCCTGGTCAACAGCAGC 60.250 55.000 0.00 0.00 45.40 5.25
1514 2364 1.827344 TGAGCCATGTCTGGTGAGTAG 59.173 52.381 0.00 0.00 45.10 2.57
1516 2366 1.065636 CATGAGCCATGTCTGGTGAGT 60.066 52.381 6.93 0.00 45.10 3.41
1621 2569 2.626780 GGACGCAAAGGTCAAGGCC 61.627 63.158 0.00 0.00 38.70 5.19
1623 2571 1.164041 AACGGACGCAAAGGTCAAGG 61.164 55.000 0.00 0.00 38.70 3.61
1625 2573 0.462225 TCAACGGACGCAAAGGTCAA 60.462 50.000 0.00 0.00 38.70 3.18
1627 2575 0.165944 CATCAACGGACGCAAAGGTC 59.834 55.000 0.00 0.00 36.18 3.85
1628 2576 1.852067 GCATCAACGGACGCAAAGGT 61.852 55.000 0.00 0.00 31.24 3.50
1694 2642 5.351740 GTGCTTATGAGTTTCTCCACCTAAC 59.648 44.000 0.00 0.00 0.00 2.34
1932 2880 1.769098 CGGTAAGGCGATCGACGAGA 61.769 60.000 21.57 3.48 45.77 4.04
1968 2916 0.742281 GCTGCAAGAAGATCCGCTCA 60.742 55.000 0.00 0.00 34.07 4.26
2049 2997 1.378514 AATGAGGTCGCCGCCATTT 60.379 52.632 10.92 0.00 31.52 2.32
2082 3030 2.047274 CGCGGCCTCTTCCAAAGA 60.047 61.111 0.00 0.00 35.87 2.52
2093 3041 1.772063 GATGAATGTACCACGCGGCC 61.772 60.000 12.47 0.00 34.57 6.13
2118 3066 1.671379 GGCCTTGACGTGGTCCTTC 60.671 63.158 0.00 0.00 0.00 3.46
2233 3186 5.457799 GCACATCATAAATGCAACTCATGAC 59.542 40.000 0.00 0.00 39.23 3.06
2370 3323 2.241176 ACTTTTGTTCTCTCCCACCACA 59.759 45.455 0.00 0.00 0.00 4.17
2382 3335 5.400485 GTCATCTGATTGCACACTTTTGTTC 59.600 40.000 0.00 0.00 31.66 3.18
2529 3482 3.258372 TCACGTAGATCTTTGTCTTGGCT 59.742 43.478 0.00 0.00 0.00 4.75
2572 3525 2.933834 AGGCCAGCTTACCGGGTT 60.934 61.111 4.31 0.00 0.00 4.11
2593 3546 0.771755 GGGTTGAACTCCTCTGGGTT 59.228 55.000 0.00 0.00 0.00 4.11
2754 3707 1.153823 CGGAAGCGTCCACTCGAAT 60.154 57.895 19.13 0.00 45.26 3.34
2850 3803 3.333680 AGTGATGGTATGGTTTGGGAACT 59.666 43.478 0.00 0.00 36.03 3.01
2868 3821 5.758296 ACTCGCTTTTTATTCAAGTCAGTGA 59.242 36.000 0.00 0.00 0.00 3.41
2874 3827 6.801539 TGATCACTCGCTTTTTATTCAAGT 57.198 33.333 0.00 0.00 0.00 3.16
2968 3922 6.256321 CCTCCAAATTTATTTGCTGCATACAC 59.744 38.462 1.84 0.00 44.32 2.90
2975 3929 6.703165 GGATTAGCCTCCAAATTTATTTGCTG 59.297 38.462 9.22 4.80 44.32 4.41
3166 4120 3.604582 TCCATGTGTCGCATCATTACAA 58.395 40.909 0.00 0.00 35.19 2.41
3167 4121 3.258971 TCCATGTGTCGCATCATTACA 57.741 42.857 0.00 0.00 35.19 2.41
3168 4122 3.058708 CCATCCATGTGTCGCATCATTAC 60.059 47.826 0.00 0.00 35.19 1.89
3169 4123 3.140623 CCATCCATGTGTCGCATCATTA 58.859 45.455 0.00 0.00 35.19 1.90
3170 4124 1.951602 CCATCCATGTGTCGCATCATT 59.048 47.619 0.00 0.00 35.19 2.57
3171 4125 1.601166 CCATCCATGTGTCGCATCAT 58.399 50.000 0.00 0.00 35.19 2.45
3176 4866 1.434622 CTCTGCCATCCATGTGTCGC 61.435 60.000 0.00 0.00 0.00 5.19
3185 4875 1.236628 GATGATGCACTCTGCCATCC 58.763 55.000 0.00 0.00 44.23 3.51
3187 4877 1.164662 GCGATGATGCACTCTGCCAT 61.165 55.000 0.00 0.00 44.23 4.40
3188 4878 1.816679 GCGATGATGCACTCTGCCA 60.817 57.895 0.00 0.00 44.23 4.92
3192 4882 1.825090 TTTTGGCGATGATGCACTCT 58.175 45.000 0.00 0.00 36.28 3.24
3286 4976 7.285401 TGCCTTGAATTGATAGAAAATAGGACC 59.715 37.037 0.00 0.00 0.00 4.46
3292 4982 9.822185 GGTATTTGCCTTGAATTGATAGAAAAT 57.178 29.630 0.00 0.00 0.00 1.82
3296 4986 6.039717 GCAGGTATTTGCCTTGAATTGATAGA 59.960 38.462 0.00 0.00 38.13 1.98
3301 4991 4.082081 TCTGCAGGTATTTGCCTTGAATTG 60.082 41.667 15.13 0.00 43.43 2.32
3304 4994 3.153369 TCTGCAGGTATTTGCCTTGAA 57.847 42.857 15.13 0.00 43.43 2.69
3305 4995 2.877097 TCTGCAGGTATTTGCCTTGA 57.123 45.000 15.13 0.00 43.43 3.02
3306 4996 3.429822 CCAATCTGCAGGTATTTGCCTTG 60.430 47.826 15.13 0.00 43.43 3.61
3313 5003 4.641989 GTGTCATTCCAATCTGCAGGTATT 59.358 41.667 15.13 4.17 0.00 1.89
3316 5006 2.040813 AGTGTCATTCCAATCTGCAGGT 59.959 45.455 15.13 2.68 0.00 4.00
3319 5009 3.753815 TGAAGTGTCATTCCAATCTGCA 58.246 40.909 0.00 0.00 0.00 4.41
3334 5024 7.661040 ACTTTGGGAATAAGAACAATGAAGTG 58.339 34.615 0.00 0.00 0.00 3.16
3337 5027 8.141268 GTCAACTTTGGGAATAAGAACAATGAA 58.859 33.333 0.00 0.00 0.00 2.57
3345 5036 4.263771 GGGGAGTCAACTTTGGGAATAAGA 60.264 45.833 0.00 0.00 0.00 2.10
3348 5039 3.010138 CAGGGGAGTCAACTTTGGGAATA 59.990 47.826 0.00 0.00 0.00 1.75
3363 5054 4.884668 TTGTGTACTTAACTCAGGGGAG 57.115 45.455 0.00 0.00 46.96 4.30
3366 5057 8.142551 GGTCTATATTGTGTACTTAACTCAGGG 58.857 40.741 0.00 0.00 33.39 4.45
3417 5108 7.507304 CAGCTAGCATCTTTGAAATTGTTTTG 58.493 34.615 18.83 0.00 0.00 2.44
3436 5127 3.501349 TCCCCTTATGTCTAGCAGCTAG 58.499 50.000 21.97 21.97 35.57 3.42
3438 5129 2.478872 TCCCCTTATGTCTAGCAGCT 57.521 50.000 0.00 0.00 0.00 4.24
3443 5134 7.374975 TCAGGTAAAATCCCCTTATGTCTAG 57.625 40.000 0.00 0.00 0.00 2.43
3449 5140 9.356649 AGATGATATCAGGTAAAATCCCCTTAT 57.643 33.333 11.78 0.00 0.00 1.73
3450 5141 8.757307 AGATGATATCAGGTAAAATCCCCTTA 57.243 34.615 11.78 0.00 0.00 2.69
3456 5147 9.213799 GTTGGAGAGATGATATCAGGTAAAATC 57.786 37.037 11.78 1.99 0.00 2.17
3459 5150 7.565029 TGAGTTGGAGAGATGATATCAGGTAAA 59.435 37.037 11.78 0.00 0.00 2.01
3460 5151 7.069344 TGAGTTGGAGAGATGATATCAGGTAA 58.931 38.462 11.78 0.00 0.00 2.85
3468 5159 4.340666 GCACTCTGAGTTGGAGAGATGATA 59.659 45.833 7.77 0.00 39.58 2.15
3474 5165 3.331478 AATGCACTCTGAGTTGGAGAG 57.669 47.619 7.77 0.00 42.41 3.20
3477 5168 3.141398 GACAAATGCACTCTGAGTTGGA 58.859 45.455 7.77 5.81 0.00 3.53
3480 5171 3.144506 CAGGACAAATGCACTCTGAGTT 58.855 45.455 7.77 0.00 0.00 3.01
3481 5172 2.551721 CCAGGACAAATGCACTCTGAGT 60.552 50.000 4.06 4.06 0.00 3.41
3492 5183 4.137543 GTGTTGAGTCTTCCAGGACAAAT 58.862 43.478 0.00 0.00 38.57 2.32
3503 5195 5.431765 AGAACATTGTCAGTGTTGAGTCTT 58.568 37.500 17.47 0.00 39.72 3.01
3509 5201 5.630680 GGCAATTAGAACATTGTCAGTGTTG 59.369 40.000 17.47 5.07 39.72 3.33
3511 5203 5.072741 AGGCAATTAGAACATTGTCAGTGT 58.927 37.500 0.00 0.00 40.63 3.55
3515 5207 7.936496 TTCATAGGCAATTAGAACATTGTCA 57.064 32.000 1.21 0.00 40.63 3.58
3518 5210 8.192774 ACACATTCATAGGCAATTAGAACATTG 58.807 33.333 0.00 0.00 37.23 2.82
3563 5255 2.692368 CTGCCCTTCCCTGCCCTA 60.692 66.667 0.00 0.00 0.00 3.53
3573 5265 4.772231 CATGCCTGCCCTGCCCTT 62.772 66.667 0.00 0.00 0.00 3.95
3576 5268 3.951769 AAGTCATGCCTGCCCTGCC 62.952 63.158 0.00 0.00 0.00 4.85
3577 5269 1.980772 AAAGTCATGCCTGCCCTGC 60.981 57.895 0.00 0.00 0.00 4.85
3578 5270 0.896940 ACAAAGTCATGCCTGCCCTG 60.897 55.000 0.00 0.00 0.00 4.45
3579 5271 0.896940 CACAAAGTCATGCCTGCCCT 60.897 55.000 0.00 0.00 0.00 5.19
3580 5272 1.588082 CACAAAGTCATGCCTGCCC 59.412 57.895 0.00 0.00 0.00 5.36
3581 5273 1.080298 GCACAAAGTCATGCCTGCC 60.080 57.895 0.00 0.00 35.73 4.85
3582 5274 0.032403 TTGCACAAAGTCATGCCTGC 59.968 50.000 0.00 0.00 41.33 4.85
3583 5275 2.029739 TGATTGCACAAAGTCATGCCTG 60.030 45.455 0.00 0.00 41.33 4.85
3584 5276 2.241160 TGATTGCACAAAGTCATGCCT 58.759 42.857 0.00 0.00 41.33 4.75
3588 5280 4.341806 TCCAACTTGATTGCACAAAGTCAT 59.658 37.500 7.98 0.00 36.93 3.06
3589 5281 3.698539 TCCAACTTGATTGCACAAAGTCA 59.301 39.130 7.98 0.00 36.93 3.41
3591 5283 4.942761 ATCCAACTTGATTGCACAAAGT 57.057 36.364 2.74 2.74 36.93 2.66
3594 5286 4.220163 TGCATATCCAACTTGATTGCACAA 59.780 37.500 0.00 0.00 35.66 3.33
3601 5293 5.638133 AGCCTTATGCATATCCAACTTGAT 58.362 37.500 7.36 0.00 44.83 2.57
3607 5299 5.514834 GGTCCTAAGCCTTATGCATATCCAA 60.515 44.000 7.36 0.00 44.83 3.53
3609 5301 4.518249 GGTCCTAAGCCTTATGCATATCC 58.482 47.826 7.36 0.00 44.83 2.59
3624 5316 0.178955 TCCACTCCACACGGTCCTAA 60.179 55.000 0.00 0.00 0.00 2.69
3627 5319 0.036306 AAATCCACTCCACACGGTCC 59.964 55.000 0.00 0.00 0.00 4.46
3630 5322 0.606401 AGCAAATCCACTCCACACGG 60.606 55.000 0.00 0.00 0.00 4.94
3633 5325 2.106338 TCTCAAGCAAATCCACTCCACA 59.894 45.455 0.00 0.00 0.00 4.17
3648 5340 4.996122 AGTTTCTCTGTCATGCTTCTCAAG 59.004 41.667 0.00 0.00 0.00 3.02
3649 5341 4.965814 AGTTTCTCTGTCATGCTTCTCAA 58.034 39.130 0.00 0.00 0.00 3.02
3651 5343 4.153835 CCAAGTTTCTCTGTCATGCTTCTC 59.846 45.833 0.00 0.00 0.00 2.87
3654 5346 4.090761 TCCAAGTTTCTCTGTCATGCTT 57.909 40.909 0.00 0.00 0.00 3.91
3657 5349 6.564709 TGAAATCCAAGTTTCTCTGTCATG 57.435 37.500 0.00 0.00 38.58 3.07
3662 5354 5.884792 AGGCTATGAAATCCAAGTTTCTCTG 59.115 40.000 0.00 0.00 38.58 3.35
3663 5355 6.072199 AGGCTATGAAATCCAAGTTTCTCT 57.928 37.500 0.00 0.00 38.58 3.10
3672 5364 5.517924 TCAATCCAAAGGCTATGAAATCCA 58.482 37.500 0.00 0.00 0.00 3.41
3675 5367 9.597681 ATCTTATCAATCCAAAGGCTATGAAAT 57.402 29.630 0.00 0.00 0.00 2.17
3679 5371 7.991084 TGATCTTATCAATCCAAAGGCTATG 57.009 36.000 0.00 0.00 36.11 2.23
3681 5373 6.944290 CCATGATCTTATCAATCCAAAGGCTA 59.056 38.462 0.00 0.00 43.50 3.93
3683 5375 5.566230 GCCATGATCTTATCAATCCAAAGGC 60.566 44.000 0.00 0.00 43.50 4.35
3684 5376 5.537295 TGCCATGATCTTATCAATCCAAAGG 59.463 40.000 0.00 0.00 43.50 3.11
3686 5378 6.551975 ACATGCCATGATCTTATCAATCCAAA 59.448 34.615 12.53 0.00 43.50 3.28
3687 5379 6.015772 CACATGCCATGATCTTATCAATCCAA 60.016 38.462 12.53 0.00 43.50 3.53
3693 5385 5.887035 TGAAACACATGCCATGATCTTATCA 59.113 36.000 12.53 5.31 44.55 2.15
3698 5390 4.338400 CAGATGAAACACATGCCATGATCT 59.662 41.667 12.53 5.14 39.56 2.75
3747 5439 9.586435 GAAGGGATAAAAATGTTAGTTTCATGG 57.414 33.333 0.00 0.00 0.00 3.66
3771 5463 0.837272 CCTGCCGAATTCCCCTAGAA 59.163 55.000 0.00 0.00 39.32 2.10
3774 5466 1.003704 TCCCTGCCGAATTCCCCTA 59.996 57.895 0.00 0.00 0.00 3.53
3780 5472 1.908483 GGAGTCTCCCTGCCGAATT 59.092 57.895 7.78 0.00 0.00 2.17
3792 5484 3.726859 ACAGATATGGAGAGAGGGAGTCT 59.273 47.826 0.00 0.00 38.71 3.24
3795 5487 3.831911 GGAACAGATATGGAGAGAGGGAG 59.168 52.174 0.00 0.00 0.00 4.30
3796 5488 3.469006 AGGAACAGATATGGAGAGAGGGA 59.531 47.826 0.00 0.00 0.00 4.20
3807 5499 9.071276 CCTTTTGCACATATAAGGAACAGATAT 57.929 33.333 0.00 0.00 39.60 1.63
3811 5503 6.375455 AGACCTTTTGCACATATAAGGAACAG 59.625 38.462 14.24 0.00 39.60 3.16
3820 5512 6.054860 ACTAGACAGACCTTTTGCACATAT 57.945 37.500 0.00 0.00 0.00 1.78
3829 5521 4.495422 CGCAACATACTAGACAGACCTTT 58.505 43.478 0.00 0.00 0.00 3.11
3834 5526 3.128764 CAGACCGCAACATACTAGACAGA 59.871 47.826 0.00 0.00 0.00 3.41
3835 5527 3.128764 TCAGACCGCAACATACTAGACAG 59.871 47.826 0.00 0.00 0.00 3.51
3837 5529 3.777465 TCAGACCGCAACATACTAGAC 57.223 47.619 0.00 0.00 0.00 2.59
3840 5532 4.461431 TCTTCTTCAGACCGCAACATACTA 59.539 41.667 0.00 0.00 0.00 1.82
3851 5543 3.142174 CCACCAACTTCTTCTTCAGACC 58.858 50.000 0.00 0.00 0.00 3.85
3854 5546 2.575532 TGCCACCAACTTCTTCTTCAG 58.424 47.619 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.