Multiple sequence alignment - TraesCS5A01G393200

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS5A01G393200 chr5A 100.000 3805 0 0 1 3805 589063401 589059597 0.000000e+00 7027.0
1 TraesCS5A01G393200 chr5A 83.951 81 13 0 1346 1426 702504757 702504677 1.130000e-10 78.7
2 TraesCS5A01G393200 chr5A 75.000 168 37 5 1346 1509 702459604 702459770 5.270000e-09 73.1
3 TraesCS5A01G393200 chr5D 90.108 1759 69 46 698 2421 468842138 468840450 0.000000e+00 2187.0
4 TraesCS5A01G393200 chr5D 89.370 762 45 13 2419 3162 468840419 468839676 0.000000e+00 926.0
5 TraesCS5A01G393200 chr5D 92.424 396 22 5 3237 3624 468839568 468839173 3.320000e-155 558.0
6 TraesCS5A01G393200 chr5D 86.214 457 56 6 2 453 468842715 468842261 4.420000e-134 488.0
7 TraesCS5A01G393200 chr5D 91.414 198 14 1 3611 3805 468837528 468837331 6.270000e-68 268.0
8 TraesCS5A01G393200 chr5B 88.993 1608 78 38 827 2421 575631548 575630027 0.000000e+00 1897.0
9 TraesCS5A01G393200 chr5B 88.085 940 49 26 997 1920 576523432 576524324 0.000000e+00 1057.0
10 TraesCS5A01G393200 chr5B 86.713 715 45 16 2420 3112 575629997 575629311 0.000000e+00 749.0
11 TraesCS5A01G393200 chr5B 83.218 864 68 31 1420 2251 104906226 104905408 0.000000e+00 721.0
12 TraesCS5A01G393200 chr5B 89.178 499 36 10 1925 2418 576524633 576525118 1.170000e-169 606.0
13 TraesCS5A01G393200 chr5B 86.219 566 45 13 3249 3805 575629312 575628771 1.970000e-162 582.0
14 TraesCS5A01G393200 chr5B 92.457 411 23 5 1997 2401 576447891 576448299 7.090000e-162 580.0
15 TraesCS5A01G393200 chr5B 84.749 459 54 8 2 453 576522021 576522470 2.700000e-121 446.0
16 TraesCS5A01G393200 chr5B 83.493 418 48 10 2 414 575632388 575631987 1.670000e-98 370.0
17 TraesCS5A01G393200 chr5B 93.431 137 6 1 2417 2550 576448376 576448512 2.320000e-47 200.0
18 TraesCS5A01G393200 chr5B 91.275 149 9 2 645 793 576522917 576523061 2.320000e-47 200.0
19 TraesCS5A01G393200 chr5B 94.444 108 6 0 1854 1961 576447445 576447552 2.350000e-37 167.0
20 TraesCS5A01G393200 chr5B 86.250 160 9 8 657 814 575631783 575631635 1.090000e-35 161.0
21 TraesCS5A01G393200 chr5B 86.538 104 6 2 528 631 576522836 576522931 1.450000e-19 108.0
22 TraesCS5A01G393200 chr7B 85.393 890 56 23 1388 2247 421243672 421244517 0.000000e+00 856.0
23 TraesCS5A01G393200 chr7B 83.333 444 31 15 1420 1860 728162639 728163042 1.670000e-98 370.0
24 TraesCS5A01G393200 chr3B 85.140 895 57 33 1388 2251 454137317 454138166 0.000000e+00 846.0
25 TraesCS5A01G393200 chr3B 84.804 895 60 33 1388 2251 454344588 454345437 0.000000e+00 830.0
26 TraesCS5A01G393200 chr3B 82.658 444 33 13 1420 1860 196634334 196634736 1.680000e-93 353.0
27 TraesCS5A01G393200 chr3B 82.207 444 35 13 1420 1860 197090229 197090631 3.640000e-90 342.0
28 TraesCS5A01G393200 chr4A 83.742 775 51 32 1503 2245 651457161 651457892 0.000000e+00 664.0
29 TraesCS5A01G393200 chr7A 82.883 444 32 18 1420 1860 578922546 578922144 3.610000e-95 359.0
30 TraesCS5A01G393200 chr7A 82.883 444 32 18 1420 1860 578926246 578925844 3.610000e-95 359.0
31 TraesCS5A01G393200 chr3A 82.579 442 33 15 1422 1860 750368761 750369161 2.180000e-92 350.0
32 TraesCS5A01G393200 chr4D 78.235 170 28 8 1346 1509 506217040 506216874 2.420000e-17 100.0
33 TraesCS5A01G393200 chr4B 77.515 169 31 7 1346 1509 662409321 662409155 1.130000e-15 95.3


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 TraesCS5A01G393200 chr5A 589059597 589063401 3804 True 7027.000000 7027 100.0000 1 3805 1 chr5A.!!$R1 3804
1 TraesCS5A01G393200 chr5D 468837331 468842715 5384 True 885.400000 2187 89.9060 2 3805 5 chr5D.!!$R1 3803
2 TraesCS5A01G393200 chr5B 575628771 575632388 3617 True 751.800000 1897 86.3336 2 3805 5 chr5B.!!$R2 3803
3 TraesCS5A01G393200 chr5B 104905408 104906226 818 True 721.000000 721 83.2180 1420 2251 1 chr5B.!!$R1 831
4 TraesCS5A01G393200 chr5B 576522021 576525118 3097 False 483.400000 1057 87.9650 2 2418 5 chr5B.!!$F2 2416
5 TraesCS5A01G393200 chr5B 576447445 576448512 1067 False 315.666667 580 93.4440 1854 2550 3 chr5B.!!$F1 696
6 TraesCS5A01G393200 chr7B 421243672 421244517 845 False 856.000000 856 85.3930 1388 2247 1 chr7B.!!$F1 859
7 TraesCS5A01G393200 chr3B 454137317 454138166 849 False 846.000000 846 85.1400 1388 2251 1 chr3B.!!$F3 863
8 TraesCS5A01G393200 chr3B 454344588 454345437 849 False 830.000000 830 84.8040 1388 2251 1 chr3B.!!$F4 863
9 TraesCS5A01G393200 chr4A 651457161 651457892 731 False 664.000000 664 83.7420 1503 2245 1 chr4A.!!$F1 742
10 TraesCS5A01G393200 chr7A 578922144 578926246 4102 True 359.000000 359 82.8830 1420 1860 2 chr7A.!!$R1 440

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
454 500 0.107165 AGCTAGATTTTGGACGGGCC 60.107 55.0 0.0 0.0 37.1 5.80 F
525 917 0.398381 GGGCTCCCTCAGAGATCACT 60.398 60.0 0.0 0.0 46.5 3.41 F
1620 2396 0.908180 TTCCTCCGTCCTTTCCTCCC 60.908 60.0 0.0 0.0 0.0 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1619 2395 0.401395 TGGGGCTGTAGGGATTAGGG 60.401 60.0 0.00 0.0 0.00 3.53 R
1623 2399 0.474184 CGATTGGGGCTGTAGGGATT 59.526 55.0 0.00 0.0 0.00 3.01 R
3568 7595 0.391661 TCTCGACAAATGGAGCTGCC 60.392 55.0 1.53 0.0 31.03 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
102 105 8.047310 TGAATAAAGTTAGCTCTCTTTAAGGGG 58.953 37.037 19.77 0.00 38.84 4.79
138 141 4.067972 AGAAAAAGCTCTTGGACACGTA 57.932 40.909 0.00 0.00 0.00 3.57
143 146 2.960819 AGCTCTTGGACACGTATGAAC 58.039 47.619 0.00 0.00 0.00 3.18
190 193 5.452356 CCATTCAACTGCCCCTCATAATTTC 60.452 44.000 0.00 0.00 0.00 2.17
193 196 2.217776 ACTGCCCCTCATAATTTCCCT 58.782 47.619 0.00 0.00 0.00 4.20
194 197 2.091665 ACTGCCCCTCATAATTTCCCTG 60.092 50.000 0.00 0.00 0.00 4.45
205 208 5.893255 TCATAATTTCCCTGATTTGTCTGGG 59.107 40.000 12.64 12.64 46.51 4.45
281 294 1.458777 TCTCCTTCACACACCGGGT 60.459 57.895 6.32 0.00 0.00 5.28
304 317 1.831389 CTGTTTGACAGTCCGCGGTG 61.831 60.000 27.15 19.88 41.19 4.94
338 351 2.981909 AGGTTCGGCGAGACGACA 60.982 61.111 10.46 0.00 43.37 4.35
404 421 1.153249 GGGAATGCGATGTTCCGGA 60.153 57.895 0.00 0.00 44.87 5.14
409 426 0.179084 ATGCGATGTTCCGGACGAAT 60.179 50.000 15.60 8.04 31.67 3.34
415 461 0.819582 TGTTCCGGACGAATAGGGTC 59.180 55.000 1.83 0.00 31.67 4.46
451 497 1.927174 CGTCAGCTAGATTTTGGACGG 59.073 52.381 9.90 0.00 42.97 4.79
452 498 2.280628 GTCAGCTAGATTTTGGACGGG 58.719 52.381 0.00 0.00 0.00 5.28
453 499 1.017387 CAGCTAGATTTTGGACGGGC 58.983 55.000 0.00 0.00 0.00 6.13
454 500 0.107165 AGCTAGATTTTGGACGGGCC 60.107 55.000 0.00 0.00 37.10 5.80
455 501 0.107165 GCTAGATTTTGGACGGGCCT 60.107 55.000 0.84 0.00 37.63 5.19
456 502 1.140252 GCTAGATTTTGGACGGGCCTA 59.860 52.381 0.84 0.00 37.63 3.93
457 503 2.807108 GCTAGATTTTGGACGGGCCTAG 60.807 54.545 0.84 0.00 37.63 3.02
458 504 1.580059 AGATTTTGGACGGGCCTAGA 58.420 50.000 0.84 0.00 37.63 2.43
474 520 3.137360 GCCTAGAGATTTTGGATGGGTCT 59.863 47.826 0.00 0.00 0.00 3.85
476 522 4.410228 CCTAGAGATTTTGGATGGGTCTGA 59.590 45.833 0.00 0.00 0.00 3.27
478 524 5.261040 AGAGATTTTGGATGGGTCTGAAA 57.739 39.130 0.00 0.00 0.00 2.69
485 876 1.668419 GATGGGTCTGAAATGTCGGG 58.332 55.000 0.00 0.00 0.00 5.14
487 878 1.002624 GGGTCTGAAATGTCGGGCA 60.003 57.895 0.00 0.00 36.37 5.36
509 901 3.725754 ACATAATGGATGTCCGGGC 57.274 52.632 0.00 0.00 46.33 6.13
510 902 1.140312 ACATAATGGATGTCCGGGCT 58.860 50.000 7.97 0.00 46.33 5.19
511 903 1.072331 ACATAATGGATGTCCGGGCTC 59.928 52.381 7.97 1.82 46.33 4.70
512 904 0.693049 ATAATGGATGTCCGGGCTCC 59.307 55.000 7.97 12.59 39.43 4.70
513 905 1.415672 TAATGGATGTCCGGGCTCCC 61.416 60.000 18.23 14.36 39.43 4.30
514 906 3.721172 ATGGATGTCCGGGCTCCCT 62.721 63.158 18.23 8.74 39.43 4.20
515 907 3.551407 GGATGTCCGGGCTCCCTC 61.551 72.222 7.97 0.00 0.00 4.30
516 908 2.764128 GATGTCCGGGCTCCCTCA 60.764 66.667 7.97 0.71 0.00 3.86
517 909 2.765807 ATGTCCGGGCTCCCTCAG 60.766 66.667 7.97 0.00 0.00 3.35
518 910 3.317436 ATGTCCGGGCTCCCTCAGA 62.317 63.158 7.97 0.00 0.00 3.27
519 911 3.151022 GTCCGGGCTCCCTCAGAG 61.151 72.222 0.00 0.00 46.29 3.35
520 912 3.347590 TCCGGGCTCCCTCAGAGA 61.348 66.667 0.00 0.00 46.50 3.10
521 913 2.123077 CCGGGCTCCCTCAGAGAT 60.123 66.667 0.00 0.00 46.50 2.75
522 914 2.206536 CCGGGCTCCCTCAGAGATC 61.207 68.421 0.00 0.00 46.50 2.75
523 915 1.456518 CGGGCTCCCTCAGAGATCA 60.457 63.158 0.00 0.00 46.50 2.92
524 916 1.743321 CGGGCTCCCTCAGAGATCAC 61.743 65.000 0.00 0.00 46.50 3.06
525 917 0.398381 GGGCTCCCTCAGAGATCACT 60.398 60.000 0.00 0.00 46.50 3.41
526 918 1.494960 GGCTCCCTCAGAGATCACTT 58.505 55.000 0.00 0.00 46.50 3.16
527 919 1.412343 GGCTCCCTCAGAGATCACTTC 59.588 57.143 0.00 0.00 46.50 3.01
528 920 2.106566 GCTCCCTCAGAGATCACTTCA 58.893 52.381 0.00 0.00 46.50 3.02
529 921 2.699846 GCTCCCTCAGAGATCACTTCAT 59.300 50.000 0.00 0.00 46.50 2.57
530 922 3.894427 GCTCCCTCAGAGATCACTTCATA 59.106 47.826 0.00 0.00 46.50 2.15
531 923 4.343526 GCTCCCTCAGAGATCACTTCATAA 59.656 45.833 0.00 0.00 46.50 1.90
532 924 5.011943 GCTCCCTCAGAGATCACTTCATAAT 59.988 44.000 0.00 0.00 46.50 1.28
533 925 6.416631 TCCCTCAGAGATCACTTCATAATG 57.583 41.667 0.00 0.00 0.00 1.90
534 926 5.306419 TCCCTCAGAGATCACTTCATAATGG 59.694 44.000 0.00 0.00 0.00 3.16
535 927 5.306419 CCCTCAGAGATCACTTCATAATGGA 59.694 44.000 0.00 0.00 0.00 3.41
536 928 6.013553 CCCTCAGAGATCACTTCATAATGGAT 60.014 42.308 0.00 0.00 0.00 3.41
547 939 1.072173 CATAATGGATGTCCGGGCTCA 59.928 52.381 7.97 3.42 39.43 4.26
585 977 2.106683 GGTTTGGGATCGGTCTGCG 61.107 63.158 0.00 0.00 0.00 5.18
586 978 2.106683 GTTTGGGATCGGTCTGCGG 61.107 63.158 0.00 0.00 0.00 5.69
587 979 3.323758 TTTGGGATCGGTCTGCGGG 62.324 63.158 0.00 0.00 0.00 6.13
591 983 4.899239 GATCGGTCTGCGGGGCTG 62.899 72.222 0.00 0.00 0.00 4.85
626 1018 4.219725 CGATCCAACCCAAAATAAAGGTGT 59.780 41.667 0.00 0.00 33.05 4.16
631 1023 7.445945 TCCAACCCAAAATAAAGGTGTTATTG 58.554 34.615 0.00 0.00 33.05 1.90
632 1024 7.071321 TCCAACCCAAAATAAAGGTGTTATTGT 59.929 33.333 0.00 0.00 33.05 2.71
635 1027 9.688091 AACCCAAAATAAAGGTGTTATTGTTTT 57.312 25.926 0.00 0.00 32.37 2.43
636 1028 9.688091 ACCCAAAATAAAGGTGTTATTGTTTTT 57.312 25.926 0.00 0.00 30.58 1.94
823 1219 4.039357 CTGCTGCTGTGCTGTGCC 62.039 66.667 0.00 0.00 0.00 5.01
845 1314 3.123620 CTGCGGCTGAACTGGAGC 61.124 66.667 0.00 0.00 36.18 4.70
864 1333 4.437587 GTGGCTCCCCATGCTGCT 62.438 66.667 0.00 0.00 44.51 4.24
865 1334 4.435970 TGGCTCCCCATGCTGCTG 62.436 66.667 0.00 0.00 35.79 4.41
867 1336 4.816984 GCTCCCCATGCTGCTGCT 62.817 66.667 17.00 0.00 40.48 4.24
881 1356 2.426183 CTGCTACGCGACACACGAC 61.426 63.158 15.93 0.00 45.77 4.34
882 1357 3.170585 GCTACGCGACACACGACC 61.171 66.667 15.93 0.00 45.77 4.79
883 1358 2.503375 CTACGCGACACACGACCC 60.503 66.667 15.93 0.00 45.77 4.46
884 1359 4.388080 TACGCGACACACGACCCG 62.388 66.667 15.93 0.00 45.77 5.28
1019 1765 4.488136 CAGGCCAGGGCACGCATA 62.488 66.667 16.94 0.00 44.11 3.14
1020 1766 4.489771 AGGCCAGGGCACGCATAC 62.490 66.667 16.94 0.00 44.11 2.39
1059 1805 3.625897 CTCTGACGCCACCCCACA 61.626 66.667 0.00 0.00 0.00 4.17
1077 1823 2.593436 CACACCACACCGGGGAAC 60.593 66.667 12.96 0.00 43.25 3.62
1201 1947 2.288025 GGTACGCCCTCACTCCCAA 61.288 63.158 0.00 0.00 0.00 4.12
1209 1955 1.203050 CCCTCACTCCCAACCACATTT 60.203 52.381 0.00 0.00 0.00 2.32
1211 1957 1.806542 CTCACTCCCAACCACATTTCG 59.193 52.381 0.00 0.00 0.00 3.46
1219 1965 3.073678 CCAACCACATTTCGTCATCTCA 58.926 45.455 0.00 0.00 0.00 3.27
1311 2057 2.159462 GGCTTACTGCTGTTCTTGATGC 60.159 50.000 0.09 0.00 42.39 3.91
1312 2058 2.485426 GCTTACTGCTGTTCTTGATGCA 59.515 45.455 0.09 0.00 38.95 3.96
1313 2059 3.128242 GCTTACTGCTGTTCTTGATGCAT 59.872 43.478 0.00 0.00 38.95 3.96
1314 2060 4.659088 CTTACTGCTGTTCTTGATGCATG 58.341 43.478 2.46 0.00 34.79 4.06
1329 2075 4.175337 ATGGCCGTGGGACGATGG 62.175 66.667 0.00 0.00 46.05 3.51
1333 2079 4.175337 CCGTGGGACGATGGGCAT 62.175 66.667 0.00 0.00 46.05 4.40
1338 2084 1.056125 TGGGACGATGGGCATCAGAT 61.056 55.000 0.00 0.00 37.69 2.90
1447 2199 4.738998 CCATCCAGCCCAACGCCA 62.739 66.667 0.00 0.00 38.78 5.69
1547 2299 2.048222 CGCCTGCGTCTTCTCCAA 60.048 61.111 2.83 0.00 34.35 3.53
1618 2394 1.672145 CGTTTCCTCCGTCCTTTCCTC 60.672 57.143 0.00 0.00 0.00 3.71
1619 2395 0.981943 TTTCCTCCGTCCTTTCCTCC 59.018 55.000 0.00 0.00 0.00 4.30
1620 2396 0.908180 TTCCTCCGTCCTTTCCTCCC 60.908 60.000 0.00 0.00 0.00 4.30
1621 2397 2.368011 CCTCCGTCCTTTCCTCCCC 61.368 68.421 0.00 0.00 0.00 4.81
1622 2398 1.306226 CTCCGTCCTTTCCTCCCCT 60.306 63.158 0.00 0.00 0.00 4.79
1623 2399 0.032416 CTCCGTCCTTTCCTCCCCTA 60.032 60.000 0.00 0.00 0.00 3.53
1624 2400 0.414629 TCCGTCCTTTCCTCCCCTAA 59.585 55.000 0.00 0.00 0.00 2.69
1652 2430 1.926511 GCCCCAATCGCACAGTTCAG 61.927 60.000 0.00 0.00 0.00 3.02
1747 2525 1.364626 GCACCTCGTTGCTGATCTGG 61.365 60.000 1.46 0.00 39.59 3.86
1751 2529 1.204704 CCTCGTTGCTGATCTGGTACA 59.795 52.381 1.46 0.00 0.00 2.90
1988 3106 1.267882 GCGATGTCACATGCACATCTG 60.268 52.381 25.13 20.75 45.50 2.90
2099 3544 1.907807 GGGTGTCATTGCCTTGCCA 60.908 57.895 0.00 0.00 0.00 4.92
2129 3574 5.335127 GTCATTGACCAGCAATAATCACAC 58.665 41.667 5.44 0.00 45.23 3.82
2278 3724 0.693049 AACTGGTGTCATCCTGGACC 59.307 55.000 0.00 0.00 36.97 4.46
2316 5018 6.335777 TCCTATACGCTCCTTTTGAAACTAC 58.664 40.000 0.00 0.00 0.00 2.73
2350 5850 1.098050 CAGGCCATTAGGTGTGAAGC 58.902 55.000 5.01 0.00 37.19 3.86
2401 5901 3.746940 TGGTCCCTTTTACAGCAGTAAC 58.253 45.455 0.55 0.00 39.80 2.50
2440 6034 1.679139 TGTTTGTTCAGTGCTCCTGG 58.321 50.000 4.47 0.00 41.83 4.45
2567 6440 4.774503 GCCTGCTGCTCGCTCCTT 62.775 66.667 0.00 0.00 40.11 3.36
2577 6450 1.388547 CTCGCTCCTTGCTCTCTACT 58.611 55.000 0.00 0.00 40.11 2.57
2582 6455 3.316588 CGCTCCTTGCTCTCTACTTCATA 59.683 47.826 0.00 0.00 40.11 2.15
2725 6657 2.770164 ATTCCGTTCTGGTGGAAGAG 57.230 50.000 0.00 0.00 46.73 2.85
2867 6805 3.457610 CCATGTTTGGTTGTCTTTGCT 57.542 42.857 0.00 0.00 38.30 3.91
2868 6806 3.795877 CCATGTTTGGTTGTCTTTGCTT 58.204 40.909 0.00 0.00 38.30 3.91
2869 6807 3.556775 CCATGTTTGGTTGTCTTTGCTTG 59.443 43.478 0.00 0.00 38.30 4.01
2870 6808 3.951775 TGTTTGGTTGTCTTTGCTTGT 57.048 38.095 0.00 0.00 0.00 3.16
2871 6809 3.843999 TGTTTGGTTGTCTTTGCTTGTC 58.156 40.909 0.00 0.00 0.00 3.18
2872 6810 3.509575 TGTTTGGTTGTCTTTGCTTGTCT 59.490 39.130 0.00 0.00 0.00 3.41
2877 6815 3.119137 GGTTGTCTTTGCTTGTCTGGTTT 60.119 43.478 0.00 0.00 0.00 3.27
2878 6816 4.105486 GTTGTCTTTGCTTGTCTGGTTTC 58.895 43.478 0.00 0.00 0.00 2.78
2908 6847 2.042686 TCAGGGAAATTGGCAGATCG 57.957 50.000 0.00 0.00 0.00 3.69
2935 6880 1.673400 TGCAGCTTGCTGTACGAAAAA 59.327 42.857 21.55 0.00 45.31 1.94
2982 6927 4.082136 ACTGTTCTATGTCTTCCCTTCGTC 60.082 45.833 0.00 0.00 0.00 4.20
2983 6928 3.830178 TGTTCTATGTCTTCCCTTCGTCA 59.170 43.478 0.00 0.00 0.00 4.35
2984 6929 4.282449 TGTTCTATGTCTTCCCTTCGTCAA 59.718 41.667 0.00 0.00 0.00 3.18
2985 6930 5.221561 TGTTCTATGTCTTCCCTTCGTCAAA 60.222 40.000 0.00 0.00 0.00 2.69
2986 6931 5.073311 TCTATGTCTTCCCTTCGTCAAAG 57.927 43.478 0.00 0.00 34.52 2.77
3007 6952 1.424493 CTCAAAGCGATGCCTCGTCC 61.424 60.000 13.00 0.00 46.71 4.79
3025 6970 6.092259 CCTCGTCCCTTGTCAAAATTTAGTAG 59.908 42.308 0.00 0.00 0.00 2.57
3031 6976 6.652062 CCCTTGTCAAAATTTAGTAGGTACGT 59.348 38.462 0.00 0.00 0.00 3.57
3038 6983 5.627499 AATTTAGTAGGTACGTCGTGTCA 57.373 39.130 8.47 0.00 0.00 3.58
3041 6986 2.703416 AGTAGGTACGTCGTGTCATCA 58.297 47.619 8.47 0.00 0.00 3.07
3065 7010 0.037232 ACAACCAGCGAGCCTAAGAC 60.037 55.000 0.00 0.00 0.00 3.01
3066 7011 0.741221 CAACCAGCGAGCCTAAGACC 60.741 60.000 0.00 0.00 0.00 3.85
3067 7012 2.105128 CCAGCGAGCCTAAGACCG 59.895 66.667 0.00 0.00 0.00 4.79
3068 7013 2.105128 CAGCGAGCCTAAGACCGG 59.895 66.667 0.00 0.00 0.00 5.28
3070 7015 2.122167 AGCGAGCCTAAGACCGGAG 61.122 63.158 9.46 0.00 0.00 4.63
3072 7017 1.457009 GCGAGCCTAAGACCGGAGAT 61.457 60.000 9.46 0.00 0.00 2.75
3073 7018 1.033574 CGAGCCTAAGACCGGAGATT 58.966 55.000 9.46 1.59 0.00 2.40
3074 7019 1.269309 CGAGCCTAAGACCGGAGATTG 60.269 57.143 9.46 0.00 0.00 2.67
3080 7035 3.933332 CCTAAGACCGGAGATTGTGAAAC 59.067 47.826 9.46 0.00 37.35 2.78
3112 7067 6.676237 AATTGTTCTGGCATTTTTCGTTTT 57.324 29.167 0.00 0.00 0.00 2.43
3157 7112 4.142816 GCTCAGAATGTTGTGGTACATGTC 60.143 45.833 0.00 0.00 38.69 3.06
3162 7117 1.001520 TGTTGTGGTACATGTCCCTCG 59.998 52.381 9.11 0.00 44.52 4.63
3164 7119 1.261938 TGTGGTACATGTCCCTCGGG 61.262 60.000 9.11 0.00 44.52 5.14
3165 7120 0.974010 GTGGTACATGTCCCTCGGGA 60.974 60.000 9.11 0.00 44.52 5.14
3168 7123 5.611825 GTGGTACATGTCCCTCGGGATTC 62.612 56.522 9.11 0.00 44.37 2.52
3339 7352 4.703575 CAGCATGAAGGAATCTTCCAAAGA 59.296 41.667 11.41 0.00 46.61 2.52
3340 7353 5.184479 CAGCATGAAGGAATCTTCCAAAGAA 59.816 40.000 11.41 0.00 46.61 2.52
3351 7364 5.418310 TCTTCCAAAGAAAACAAGCTACG 57.582 39.130 0.00 0.00 33.83 3.51
3356 7369 0.234884 AGAAAACAAGCTACGCACGC 59.765 50.000 0.00 0.00 0.00 5.34
3372 7387 3.539563 CGCACGCATTATGTCTCAAAAAG 59.460 43.478 0.00 0.00 0.00 2.27
3455 7477 1.436195 GCTGAACTGCAACACGGTCA 61.436 55.000 0.00 0.00 36.64 4.02
3464 7486 1.889105 AACACGGTCACTGCAGCAG 60.889 57.895 21.54 21.54 37.52 4.24
3483 7505 1.350351 AGATATCCCTCATGCTGCACC 59.650 52.381 3.57 0.00 0.00 5.01
3564 7591 1.610363 GCTAGGCAAAATAGGGGAGC 58.390 55.000 0.00 0.00 0.00 4.70
3568 7595 1.025041 GGCAAAATAGGGGAGCTTCG 58.975 55.000 0.00 0.00 0.00 3.79
3685 9371 4.154375 TCATATGTCGAGAGGCGTTATCTC 59.846 45.833 1.90 4.25 39.79 2.75
3690 9376 1.874231 CGAGAGGCGTTATCTCTAGCA 59.126 52.381 10.52 0.00 41.23 3.49
3700 9386 4.023536 CGTTATCTCTAGCAGAAGACCTCC 60.024 50.000 0.00 0.00 33.62 4.30
3740 9427 2.079925 AGCTTCTGATTCGAAACAGGC 58.920 47.619 28.46 24.50 35.20 4.85
3759 9446 0.865111 CGGTGAGCGACATCAACAAA 59.135 50.000 0.00 0.00 36.67 2.83
3760 9447 1.136252 CGGTGAGCGACATCAACAAAG 60.136 52.381 0.00 0.00 36.67 2.77
3776 9467 2.168936 ACAAAGGTAACGGCGATATGGA 59.831 45.455 16.62 0.00 46.39 3.41
3778 9469 3.764237 AAGGTAACGGCGATATGGATT 57.236 42.857 16.62 0.00 46.39 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.742882 GCTTCAAAGGCCATTTTGAACTC 59.257 43.478 22.48 15.56 46.50 3.01
46 47 8.705594 ACAACCTAAGCAGTGTACATATAGAAT 58.294 33.333 0.00 0.00 0.00 2.40
97 100 3.970640 TCTTTTGGCAAATTGTACCCCTT 59.029 39.130 14.29 0.00 0.00 3.95
102 105 7.011389 AGAGCTTTTTCTTTTGGCAAATTGTAC 59.989 33.333 14.29 0.00 0.00 2.90
193 196 1.556911 GAGAGGAGCCCAGACAAATCA 59.443 52.381 0.00 0.00 0.00 2.57
194 197 1.836802 AGAGAGGAGCCCAGACAAATC 59.163 52.381 0.00 0.00 0.00 2.17
259 272 1.472662 CGGTGTGTGAAGGAGAGGGT 61.473 60.000 0.00 0.00 0.00 4.34
325 338 2.049802 GGTTTGTCGTCTCGCCGA 60.050 61.111 0.00 0.00 33.79 5.54
338 351 0.482446 TGGAGCCCATCACAAGGTTT 59.518 50.000 0.00 0.00 0.00 3.27
385 402 2.534019 CCGGAACATCGCATTCCCG 61.534 63.158 0.00 0.00 42.39 5.14
391 408 0.456628 TATTCGTCCGGAACATCGCA 59.543 50.000 5.23 0.00 37.50 5.10
409 426 3.739519 GCTCGTCTACTTCTACGACCCTA 60.740 52.174 0.00 0.00 42.74 3.53
415 461 1.657594 TGACGCTCGTCTACTTCTACG 59.342 52.381 20.92 0.00 44.80 3.51
419 465 0.448593 AGCTGACGCTCGTCTACTTC 59.551 55.000 20.92 7.58 45.15 3.01
439 485 1.486726 CTCTAGGCCCGTCCAAAATCT 59.513 52.381 0.00 0.00 37.29 2.40
440 486 1.485066 TCTCTAGGCCCGTCCAAAATC 59.515 52.381 0.00 0.00 37.29 2.17
441 487 1.580059 TCTCTAGGCCCGTCCAAAAT 58.420 50.000 0.00 0.00 37.29 1.82
442 488 1.580059 ATCTCTAGGCCCGTCCAAAA 58.420 50.000 0.00 0.00 37.29 2.44
443 489 1.580059 AATCTCTAGGCCCGTCCAAA 58.420 50.000 0.00 0.00 37.29 3.28
444 490 1.580059 AAATCTCTAGGCCCGTCCAA 58.420 50.000 0.00 0.00 37.29 3.53
445 491 1.209504 CAAAATCTCTAGGCCCGTCCA 59.790 52.381 0.00 0.00 37.29 4.02
446 492 1.475213 CCAAAATCTCTAGGCCCGTCC 60.475 57.143 0.00 0.00 0.00 4.79
447 493 1.485066 TCCAAAATCTCTAGGCCCGTC 59.515 52.381 0.00 0.00 0.00 4.79
448 494 1.580059 TCCAAAATCTCTAGGCCCGT 58.420 50.000 0.00 0.00 0.00 5.28
449 495 2.498167 CATCCAAAATCTCTAGGCCCG 58.502 52.381 0.00 0.00 0.00 6.13
450 496 2.489802 CCCATCCAAAATCTCTAGGCCC 60.490 54.545 0.00 0.00 0.00 5.80
451 497 2.175715 ACCCATCCAAAATCTCTAGGCC 59.824 50.000 0.00 0.00 0.00 5.19
452 498 3.137360 AGACCCATCCAAAATCTCTAGGC 59.863 47.826 0.00 0.00 0.00 3.93
453 499 4.410228 TCAGACCCATCCAAAATCTCTAGG 59.590 45.833 0.00 0.00 0.00 3.02
454 500 5.620738 TCAGACCCATCCAAAATCTCTAG 57.379 43.478 0.00 0.00 0.00 2.43
455 501 6.387192 TTTCAGACCCATCCAAAATCTCTA 57.613 37.500 0.00 0.00 0.00 2.43
456 502 4.934797 TTCAGACCCATCCAAAATCTCT 57.065 40.909 0.00 0.00 0.00 3.10
457 503 5.420104 ACATTTCAGACCCATCCAAAATCTC 59.580 40.000 0.00 0.00 0.00 2.75
458 504 5.336102 ACATTTCAGACCCATCCAAAATCT 58.664 37.500 0.00 0.00 0.00 2.40
474 520 0.466372 TGTTGGTGCCCGACATTTCA 60.466 50.000 9.54 0.00 42.43 2.69
476 522 4.589046 TGTTGGTGCCCGACATTT 57.411 50.000 9.54 0.00 42.43 2.32
501 893 3.965026 CTCTGAGGGAGCCCGGACA 62.965 68.421 0.73 1.92 41.95 4.02
502 894 2.937959 ATCTCTGAGGGAGCCCGGAC 62.938 65.000 0.73 0.00 41.60 4.79
503 895 2.648613 GATCTCTGAGGGAGCCCGGA 62.649 65.000 0.73 0.00 41.60 5.14
504 896 2.123077 ATCTCTGAGGGAGCCCGG 60.123 66.667 4.59 0.00 41.60 5.73
505 897 1.456518 TGATCTCTGAGGGAGCCCG 60.457 63.158 4.59 0.00 41.60 6.13
506 898 0.398381 AGTGATCTCTGAGGGAGCCC 60.398 60.000 4.59 0.00 41.60 5.19
507 899 1.412343 GAAGTGATCTCTGAGGGAGCC 59.588 57.143 4.59 0.00 41.60 4.70
508 900 2.106566 TGAAGTGATCTCTGAGGGAGC 58.893 52.381 4.59 0.00 41.60 4.70
509 901 6.457355 CATTATGAAGTGATCTCTGAGGGAG 58.543 44.000 4.59 0.00 43.12 4.30
510 902 5.306419 CCATTATGAAGTGATCTCTGAGGGA 59.694 44.000 4.59 0.00 0.00 4.20
511 903 5.306419 TCCATTATGAAGTGATCTCTGAGGG 59.694 44.000 4.59 0.00 0.00 4.30
512 904 6.416631 TCCATTATGAAGTGATCTCTGAGG 57.583 41.667 4.59 0.00 0.00 3.86
513 905 7.443477 ACATCCATTATGAAGTGATCTCTGAG 58.557 38.462 0.00 0.00 39.07 3.35
514 906 7.370905 ACATCCATTATGAAGTGATCTCTGA 57.629 36.000 0.00 0.00 39.07 3.27
515 907 6.649973 GGACATCCATTATGAAGTGATCTCTG 59.350 42.308 0.00 0.00 39.07 3.35
516 908 6.518032 CGGACATCCATTATGAAGTGATCTCT 60.518 42.308 0.00 0.00 39.07 3.10
517 909 5.636965 CGGACATCCATTATGAAGTGATCTC 59.363 44.000 0.00 0.00 39.07 2.75
518 910 5.512060 CCGGACATCCATTATGAAGTGATCT 60.512 44.000 0.00 0.00 39.07 2.75
519 911 4.692625 CCGGACATCCATTATGAAGTGATC 59.307 45.833 0.00 0.00 39.07 2.92
520 912 4.505566 CCCGGACATCCATTATGAAGTGAT 60.506 45.833 0.73 0.00 39.07 3.06
521 913 3.181455 CCCGGACATCCATTATGAAGTGA 60.181 47.826 0.73 0.00 39.07 3.41
522 914 3.141398 CCCGGACATCCATTATGAAGTG 58.859 50.000 0.73 0.00 39.07 3.16
523 915 2.487265 GCCCGGACATCCATTATGAAGT 60.487 50.000 0.73 0.00 39.07 3.01
524 916 2.154462 GCCCGGACATCCATTATGAAG 58.846 52.381 0.73 0.00 39.07 3.02
525 917 1.774254 AGCCCGGACATCCATTATGAA 59.226 47.619 0.73 0.00 39.07 2.57
526 918 1.347707 GAGCCCGGACATCCATTATGA 59.652 52.381 0.73 0.00 39.07 2.15
527 919 1.072173 TGAGCCCGGACATCCATTATG 59.928 52.381 0.73 0.00 41.74 1.90
528 920 1.072331 GTGAGCCCGGACATCCATTAT 59.928 52.381 0.73 0.00 35.14 1.28
529 921 0.468226 GTGAGCCCGGACATCCATTA 59.532 55.000 0.73 0.00 35.14 1.90
530 922 1.224592 GTGAGCCCGGACATCCATT 59.775 57.895 0.73 0.00 35.14 3.16
531 923 1.690219 GAGTGAGCCCGGACATCCAT 61.690 60.000 0.73 0.00 35.14 3.41
532 924 2.284625 AGTGAGCCCGGACATCCA 60.285 61.111 0.73 0.00 35.14 3.41
533 925 2.303549 CTGAGTGAGCCCGGACATCC 62.304 65.000 0.73 0.00 0.00 3.51
534 926 1.142748 CTGAGTGAGCCCGGACATC 59.857 63.158 0.73 0.00 0.00 3.06
535 927 1.305297 TCTGAGTGAGCCCGGACAT 60.305 57.895 0.73 0.00 0.00 3.06
536 928 1.979155 CTCTGAGTGAGCCCGGACA 60.979 63.158 0.73 0.00 35.84 4.02
547 939 2.101783 CAGGATCAGTGAGCTCTGAGT 58.898 52.381 16.19 0.00 45.70 3.41
585 977 0.804989 CGATGAAACTTCACAGCCCC 59.195 55.000 0.00 0.00 40.49 5.80
586 978 1.808411 TCGATGAAACTTCACAGCCC 58.192 50.000 0.00 0.00 40.49 5.19
587 979 2.352960 GGATCGATGAAACTTCACAGCC 59.647 50.000 0.54 0.00 40.49 4.85
588 980 3.002791 TGGATCGATGAAACTTCACAGC 58.997 45.455 0.54 0.00 40.49 4.40
589 981 4.142816 GGTTGGATCGATGAAACTTCACAG 60.143 45.833 0.54 0.00 40.49 3.66
590 982 3.751175 GGTTGGATCGATGAAACTTCACA 59.249 43.478 0.54 0.00 40.49 3.58
591 983 3.127030 GGGTTGGATCGATGAAACTTCAC 59.873 47.826 0.54 0.00 40.49 3.18
592 984 3.244735 TGGGTTGGATCGATGAAACTTCA 60.245 43.478 0.54 7.32 42.14 3.02
638 1030 9.639563 TCATCAAATGGCACCTTTATTCTATAA 57.360 29.630 0.00 0.00 0.00 0.98
639 1031 9.288576 CTCATCAAATGGCACCTTTATTCTATA 57.711 33.333 0.00 0.00 0.00 1.31
641 1033 6.039717 GCTCATCAAATGGCACCTTTATTCTA 59.960 38.462 0.00 0.00 0.00 2.10
644 1036 4.440525 CGCTCATCAAATGGCACCTTTATT 60.441 41.667 0.00 0.00 0.00 1.40
645 1037 3.067180 CGCTCATCAAATGGCACCTTTAT 59.933 43.478 0.00 0.00 0.00 1.40
646 1038 2.423185 CGCTCATCAAATGGCACCTTTA 59.577 45.455 0.00 0.00 0.00 1.85
647 1039 1.203052 CGCTCATCAAATGGCACCTTT 59.797 47.619 0.00 0.00 0.00 3.11
648 1040 0.813184 CGCTCATCAAATGGCACCTT 59.187 50.000 0.00 0.00 0.00 3.50
649 1041 1.660560 GCGCTCATCAAATGGCACCT 61.661 55.000 0.00 0.00 0.00 4.00
651 1043 1.584483 CGCGCTCATCAAATGGCAC 60.584 57.895 5.56 0.00 0.00 5.01
652 1044 1.585267 AACGCGCTCATCAAATGGCA 61.585 50.000 5.73 0.00 0.00 4.92
653 1045 0.456653 AAACGCGCTCATCAAATGGC 60.457 50.000 5.73 0.00 0.00 4.40
654 1046 1.135717 TCAAACGCGCTCATCAAATGG 60.136 47.619 5.73 0.00 0.00 3.16
655 1047 2.159667 TCTCAAACGCGCTCATCAAATG 60.160 45.455 5.73 0.00 0.00 2.32
722 1114 1.152631 CCACGGGGTGAAAAGGGTT 60.153 57.895 0.00 0.00 35.23 4.11
723 1115 2.064242 CTCCACGGGGTGAAAAGGGT 62.064 60.000 2.12 0.00 35.23 4.34
724 1116 1.303317 CTCCACGGGGTGAAAAGGG 60.303 63.158 2.12 0.00 35.23 3.95
725 1117 0.889186 CACTCCACGGGGTGAAAAGG 60.889 60.000 13.81 0.00 35.23 3.11
726 1118 0.889186 CCACTCCACGGGGTGAAAAG 60.889 60.000 17.98 0.00 35.23 2.27
727 1119 1.149627 CCACTCCACGGGGTGAAAA 59.850 57.895 17.98 0.00 35.23 2.29
823 1219 2.667536 AGTTCAGCCGCAGCACAG 60.668 61.111 0.00 0.00 43.56 3.66
866 1335 2.503375 GGGTCGTGTGTCGCGTAG 60.503 66.667 5.77 0.00 38.57 3.51
867 1336 4.388080 CGGGTCGTGTGTCGCGTA 62.388 66.667 5.77 0.00 38.57 4.42
1059 1805 3.091190 TTCCCCGGTGTGGTGTGT 61.091 61.111 0.00 0.00 35.15 3.72
1077 1823 2.165998 CCTTCCTTGCTTCTTCCTTGG 58.834 52.381 0.00 0.00 0.00 3.61
1078 1824 3.146104 TCCTTCCTTGCTTCTTCCTTG 57.854 47.619 0.00 0.00 0.00 3.61
1083 1829 2.868899 CAGGTTCCTTCCTTGCTTCTT 58.131 47.619 0.00 0.00 35.37 2.52
1084 1830 1.546548 GCAGGTTCCTTCCTTGCTTCT 60.547 52.381 0.00 0.00 35.37 2.85
1085 1831 0.884514 GCAGGTTCCTTCCTTGCTTC 59.115 55.000 0.00 0.00 35.37 3.86
1086 1832 0.480252 AGCAGGTTCCTTCCTTGCTT 59.520 50.000 0.00 0.00 38.10 3.91
1087 1833 0.037447 GAGCAGGTTCCTTCCTTGCT 59.963 55.000 2.87 2.87 41.18 3.91
1088 1834 0.962855 GGAGCAGGTTCCTTCCTTGC 60.963 60.000 3.13 0.00 35.37 4.01
1089 1835 0.674895 CGGAGCAGGTTCCTTCCTTG 60.675 60.000 7.67 0.00 35.37 3.61
1194 1940 1.142060 TGACGAAATGTGGTTGGGAGT 59.858 47.619 0.00 0.00 0.00 3.85
1195 1941 1.890876 TGACGAAATGTGGTTGGGAG 58.109 50.000 0.00 0.00 0.00 4.30
1196 1942 2.039746 AGATGACGAAATGTGGTTGGGA 59.960 45.455 0.00 0.00 0.00 4.37
1199 1945 4.633126 AGATGAGATGACGAAATGTGGTTG 59.367 41.667 0.00 0.00 0.00 3.77
1201 1947 4.478206 AGATGAGATGACGAAATGTGGT 57.522 40.909 0.00 0.00 0.00 4.16
1209 1955 4.952957 AGGAAGAAGAAGATGAGATGACGA 59.047 41.667 0.00 0.00 0.00 4.20
1211 1957 7.920160 AAAAGGAAGAAGAAGATGAGATGAC 57.080 36.000 0.00 0.00 0.00 3.06
1219 1965 5.705400 TGGGTGAAAAAGGAAGAAGAAGAT 58.295 37.500 0.00 0.00 0.00 2.40
1311 2057 2.896854 CATCGTCCCACGGCCATG 60.897 66.667 2.24 0.00 42.81 3.66
1312 2058 4.175337 CCATCGTCCCACGGCCAT 62.175 66.667 2.24 0.00 42.81 4.40
1329 2075 2.903855 CACGCCCCATCTGATGCC 60.904 66.667 12.17 2.23 0.00 4.40
1333 2079 4.408821 GCACCACGCCCCATCTGA 62.409 66.667 0.00 0.00 32.94 3.27
1547 2299 2.680352 AGGAGATCACGGCGGTGT 60.680 61.111 22.05 10.99 44.68 4.16
1618 2394 1.134438 GGGGCTGTAGGGATTAGGGG 61.134 65.000 0.00 0.00 0.00 4.79
1619 2395 0.401395 TGGGGCTGTAGGGATTAGGG 60.401 60.000 0.00 0.00 0.00 3.53
1620 2396 1.518367 TTGGGGCTGTAGGGATTAGG 58.482 55.000 0.00 0.00 0.00 2.69
1621 2397 2.289694 CGATTGGGGCTGTAGGGATTAG 60.290 54.545 0.00 0.00 0.00 1.73
1622 2398 1.697432 CGATTGGGGCTGTAGGGATTA 59.303 52.381 0.00 0.00 0.00 1.75
1623 2399 0.474184 CGATTGGGGCTGTAGGGATT 59.526 55.000 0.00 0.00 0.00 3.01
1624 2400 2.056906 GCGATTGGGGCTGTAGGGAT 62.057 60.000 0.00 0.00 0.00 3.85
1652 2430 1.212616 CGGAGCATCGTCAGAAATCC 58.787 55.000 0.00 0.00 34.37 3.01
1747 2525 6.955963 CGATGAACTCTGCAAAATAGTTGTAC 59.044 38.462 7.82 0.00 33.72 2.90
1751 2529 5.122396 GGACGATGAACTCTGCAAAATAGTT 59.878 40.000 0.00 3.78 36.20 2.24
1988 3106 8.611654 TGGACCAGAGTTGTAAGTAATAAAAC 57.388 34.615 0.00 0.00 32.65 2.43
2129 3574 2.095567 GCAGCAGCCACCAAATATATCG 60.096 50.000 0.00 0.00 33.58 2.92
2218 3663 2.907458 ATGTGGGAAAAGAGGGGAAG 57.093 50.000 0.00 0.00 0.00 3.46
2278 3724 4.642429 CGTATAGGATTCCCCTCAAAAGG 58.358 47.826 0.00 0.00 43.31 3.11
2316 5018 1.218230 GCCTGCTAATTCGCGAGGAG 61.218 60.000 9.59 8.34 33.09 3.69
2350 5850 0.736325 ATCGAAACGGCTGGAACTCG 60.736 55.000 0.00 0.00 0.00 4.18
2401 5901 9.581099 ACAAACAAAACATTTACAAGGAGTTAG 57.419 29.630 0.00 0.00 0.00 2.34
2567 6440 3.065510 GTCACGCTATGAAGTAGAGAGCA 59.934 47.826 0.00 0.00 39.72 4.26
2577 6450 1.751351 CTCCTCTGGTCACGCTATGAA 59.249 52.381 0.00 0.00 39.72 2.57
2582 6455 1.228583 TGTCTCCTCTGGTCACGCT 60.229 57.895 0.00 0.00 0.00 5.07
2725 6657 4.862018 GTCTCACTGACAAGCTATCTTCAC 59.138 45.833 0.00 0.00 44.73 3.18
2863 6801 2.426738 CACCAAGAAACCAGACAAGCAA 59.573 45.455 0.00 0.00 0.00 3.91
2864 6802 2.023673 CACCAAGAAACCAGACAAGCA 58.976 47.619 0.00 0.00 0.00 3.91
2865 6803 1.269257 GCACCAAGAAACCAGACAAGC 60.269 52.381 0.00 0.00 0.00 4.01
2866 6804 2.023673 TGCACCAAGAAACCAGACAAG 58.976 47.619 0.00 0.00 0.00 3.16
2867 6805 2.023673 CTGCACCAAGAAACCAGACAA 58.976 47.619 0.00 0.00 0.00 3.18
2868 6806 1.211703 TCTGCACCAAGAAACCAGACA 59.788 47.619 0.00 0.00 0.00 3.41
2869 6807 1.967319 TCTGCACCAAGAAACCAGAC 58.033 50.000 0.00 0.00 0.00 3.51
2870 6808 2.106338 TGATCTGCACCAAGAAACCAGA 59.894 45.455 0.00 0.00 37.01 3.86
2871 6809 2.486982 CTGATCTGCACCAAGAAACCAG 59.513 50.000 0.00 0.00 0.00 4.00
2872 6810 2.507484 CTGATCTGCACCAAGAAACCA 58.493 47.619 0.00 0.00 0.00 3.67
2877 6815 1.361204 TTCCCTGATCTGCACCAAGA 58.639 50.000 0.00 0.00 0.00 3.02
2878 6816 2.205022 TTTCCCTGATCTGCACCAAG 57.795 50.000 0.00 0.00 0.00 3.61
2935 6880 1.935199 CACTGTTTCAACGTTACCGGT 59.065 47.619 13.98 13.98 38.78 5.28
2982 6927 0.457337 GGCATCGCTTTGAGCCTTTG 60.457 55.000 0.00 0.00 43.70 2.77
2983 6928 1.885871 GGCATCGCTTTGAGCCTTT 59.114 52.632 0.00 0.00 43.70 3.11
2984 6929 3.595819 GGCATCGCTTTGAGCCTT 58.404 55.556 0.00 0.00 43.70 4.35
2987 6932 2.705826 CGAGGCATCGCTTTGAGC 59.294 61.111 8.22 0.00 42.97 4.26
3007 6952 7.411157 CGACGTACCTACTAAATTTTGACAAGG 60.411 40.741 6.63 11.24 0.00 3.61
3025 6970 1.133598 TCCATGATGACACGACGTACC 59.866 52.381 0.00 0.00 0.00 3.34
3031 6976 2.224402 TGGTTGTTCCATGATGACACGA 60.224 45.455 0.00 0.00 41.93 4.35
3038 6983 1.742761 CTCGCTGGTTGTTCCATGAT 58.257 50.000 0.00 0.00 46.12 2.45
3041 6986 1.675641 GGCTCGCTGGTTGTTCCAT 60.676 57.895 0.00 0.00 46.12 3.41
3058 7003 3.887621 TTCACAATCTCCGGTCTTAGG 57.112 47.619 0.00 0.00 0.00 2.69
3082 7037 8.658609 CGAAAAATGCCAGAACAATTTATGAAT 58.341 29.630 0.00 0.00 0.00 2.57
3097 7052 7.441890 TCAGTATCTAAAACGAAAAATGCCA 57.558 32.000 0.00 0.00 0.00 4.92
3128 7083 2.159421 CCACAACATTCTGAGCATCTGC 60.159 50.000 0.00 0.00 42.49 4.26
3140 7095 3.686016 GAGGGACATGTACCACAACATT 58.314 45.455 29.17 6.14 38.01 2.71
3229 7184 4.892433 TGAATTTGGCATTTGGGTAACTG 58.108 39.130 0.00 0.00 0.00 3.16
3235 7190 1.679640 GGGCTGAATTTGGCATTTGGG 60.680 52.381 0.00 0.00 0.00 4.12
3278 7291 1.947456 GGAAATAGATTCGTGGCCCAC 59.053 52.381 2.98 2.98 39.05 4.61
3287 7300 5.510430 ACCCAAAGGACTGGAAATAGATTC 58.490 41.667 0.00 0.00 38.96 2.52
3292 7305 4.540099 AGATGACCCAAAGGACTGGAAATA 59.460 41.667 0.00 0.00 38.96 1.40
3351 7364 4.722194 TCTTTTTGAGACATAATGCGTGC 58.278 39.130 0.00 0.00 0.00 5.34
3356 7369 9.897744 TGTAGCTTTTCTTTTTGAGACATAATG 57.102 29.630 0.00 0.00 33.02 1.90
3372 7387 3.628017 ACAAATGCGTGTGTAGCTTTTC 58.372 40.909 0.00 0.00 39.08 2.29
3455 7477 1.798626 TGAGGGATATCTGCTGCAGT 58.201 50.000 27.24 17.41 32.61 4.40
3464 7486 1.818642 GGTGCAGCATGAGGGATATC 58.181 55.000 11.86 0.00 39.69 1.63
3483 7505 3.566523 GGAGCCTTACGTCTGATATTCG 58.433 50.000 0.00 0.00 0.00 3.34
3564 7591 0.449388 GACAAATGGAGCTGCCGAAG 59.551 55.000 1.53 0.00 40.66 3.79
3568 7595 0.391661 TCTCGACAAATGGAGCTGCC 60.392 55.000 1.53 0.00 31.03 4.85
3575 7602 3.426695 GCCAGTTTCATCTCGACAAATGG 60.427 47.826 0.00 0.00 35.15 3.16
3577 7604 3.411446 TGCCAGTTTCATCTCGACAAAT 58.589 40.909 0.00 0.00 0.00 2.32
3578 7605 2.844946 TGCCAGTTTCATCTCGACAAA 58.155 42.857 0.00 0.00 0.00 2.83
3685 9371 6.539173 TCTAGATAAGGAGGTCTTCTGCTAG 58.461 44.000 0.00 0.00 43.70 3.42
3690 9376 7.415086 TGAAGTTCTAGATAAGGAGGTCTTCT 58.585 38.462 4.17 0.00 36.93 2.85
3740 9427 0.865111 TTTGTTGATGTCGCTCACCG 59.135 50.000 0.00 0.00 38.61 4.94
3759 9446 3.764237 AAATCCATATCGCCGTTACCT 57.236 42.857 0.00 0.00 0.00 3.08
3760 9447 7.781548 ATAATAAATCCATATCGCCGTTACC 57.218 36.000 0.00 0.00 0.00 2.85


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

AutoCloner maintained by Alex Coulton.