Multiple sequence alignment - TraesCS4A01G282500

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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 TraesCS4A01G282500 chr4A 100.000 5251 0 0 1 5251 590087220 590092470 0.000000e+00 9697.0
1 TraesCS4A01G282500 chr4A 96.875 96 3 0 2599 2694 736402150 736402245 1.510000e-35 161.0
2 TraesCS4A01G282500 chr4A 92.857 56 2 2 1192 1245 477880081 477880026 4.360000e-11 80.5
3 TraesCS4A01G282500 chr4B 93.051 1439 65 14 1192 2606 22902702 22901275 0.000000e+00 2071.0
4 TraesCS4A01G282500 chr4B 93.619 1097 45 13 3495 4566 22900433 22899337 0.000000e+00 1615.0
5 TraesCS4A01G282500 chr4B 95.849 819 27 5 2684 3498 22901280 22900465 0.000000e+00 1317.0
6 TraesCS4A01G282500 chr4B 90.625 640 50 3 549 1184 22903518 22902885 0.000000e+00 841.0
7 TraesCS4A01G282500 chr4B 86.980 553 40 18 15 546 22904118 22903577 1.260000e-165 593.0
8 TraesCS4A01G282500 chr4B 94.700 283 11 1 4969 5251 22899046 22898768 2.250000e-118 436.0
9 TraesCS4A01G282500 chr4B 93.333 60 2 2 1188 1245 139763315 139763256 2.600000e-13 87.9
10 TraesCS4A01G282500 chr4D 93.678 1392 54 14 3270 4652 12545831 12544465 0.000000e+00 2052.0
11 TraesCS4A01G282500 chr4D 92.564 1439 81 14 1186 2608 12547933 12546505 0.000000e+00 2041.0
12 TraesCS4A01G282500 chr4D 93.878 588 31 2 4669 5251 12535376 12534789 0.000000e+00 881.0
13 TraesCS4A01G282500 chr4D 89.296 710 44 16 2684 3384 12546512 12545826 0.000000e+00 861.0
14 TraesCS4A01G282500 chr4D 90.812 653 40 8 544 1184 12548676 12548032 0.000000e+00 856.0
15 TraesCS4A01G282500 chr4D 92.893 591 28 6 4668 5251 12544088 12543505 0.000000e+00 846.0
16 TraesCS4A01G282500 chr4D 87.052 502 38 9 64 546 12549232 12548739 4.630000e-150 542.0
17 TraesCS4A01G282500 chr4D 92.857 56 2 2 1192 1245 98451621 98451676 4.360000e-11 80.5
18 TraesCS4A01G282500 chrUn 94.857 350 18 0 4902 5251 357650703 357651052 9.940000e-152 547.0
19 TraesCS4A01G282500 chrUn 88.542 96 6 1 4799 4889 451988363 451988458 1.550000e-20 111.0
20 TraesCS4A01G282500 chr1A 97.826 92 2 0 2605 2696 366288297 366288206 5.440000e-35 159.0
21 TraesCS4A01G282500 chr7D 93.458 107 5 2 2592 2696 481573740 481573846 1.960000e-34 158.0
22 TraesCS4A01G282500 chr7D 94.949 99 3 2 2605 2702 124168132 124168229 2.530000e-33 154.0
23 TraesCS4A01G282500 chr6A 93.458 107 5 2 2601 2707 542602784 542602888 1.960000e-34 158.0
24 TraesCS4A01G282500 chr5B 96.809 94 3 0 2597 2690 105774002 105774095 1.960000e-34 158.0
25 TraesCS4A01G282500 chr5B 93.269 104 5 2 2589 2692 664669398 664669499 9.110000e-33 152.0
26 TraesCS4A01G282500 chr7B 96.774 93 3 0 2600 2692 616553237 616553145 7.040000e-34 156.0
27 TraesCS4A01G282500 chr5D 88.983 118 10 3 2601 2716 456610344 456610460 5.480000e-30 143.0
28 TraesCS4A01G282500 chr2D 93.333 60 2 2 1188 1245 311551677 311551736 2.600000e-13 87.9
29 TraesCS4A01G282500 chr2D 91.667 60 3 2 1188 1245 615126585 615126526 1.210000e-11 82.4
30 TraesCS4A01G282500 chr2B 88.158 76 5 4 1188 1260 749661625 749661551 2.600000e-13 87.9
31 TraesCS4A01G282500 chr3D 91.667 60 3 2 1188 1245 581349950 581350009 1.210000e-11 82.4


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 TraesCS4A01G282500 chr4A 590087220 590092470 5250 False 9697.000000 9697 100.000000 1 5251 1 chr4A.!!$F1 5250
1 TraesCS4A01G282500 chr4B 22898768 22904118 5350 True 1145.500000 2071 92.470667 15 5251 6 chr4B.!!$R2 5236
2 TraesCS4A01G282500 chr4D 12543505 12549232 5727 True 1199.666667 2052 91.049167 64 5251 6 chr4D.!!$R2 5187
3 TraesCS4A01G282500 chr4D 12534789 12535376 587 True 881.000000 881 93.878000 4669 5251 1 chr4D.!!$R1 582

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
93 96 0.035458 GCCATCGCTATGCCTAACCT 59.965 55.000 0.00 0.00 0.00 3.50 F
782 909 0.401395 AGGGTTCTCAACTGACCCCA 60.401 55.000 7.15 0.00 41.41 4.96 F
1353 1655 0.109504 GCAATTTGTTTCGCGGGCTA 60.110 50.000 6.13 0.00 0.00 3.93 F
1354 1656 1.667467 GCAATTTGTTTCGCGGGCTAA 60.667 47.619 6.13 0.46 0.00 3.09 F
2265 2579 1.470494 GTAGCTTTGCTGAAAGGAGCC 59.530 52.381 0.00 0.00 40.10 4.70 F
2272 2586 0.178068 GCTGAAAGGAGCCGTCCATA 59.822 55.000 0.00 0.00 46.80 2.74 F
3708 4192 2.007113 TTGGTGTGCTGTGCTGCTTG 62.007 55.000 0.00 0.00 0.00 4.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1027 1154 0.537653 GGAGCTGGTCCAGGTTCTAC 59.462 60.000 24.13 11.49 46.10 2.59 R
1909 2223 0.961753 GACCAAAGTCTGCCCAAAGG 59.038 55.000 0.00 0.00 40.10 3.11 R
2256 2570 1.202545 GGAGTATGGACGGCTCCTTTC 60.203 57.143 0.00 0.00 43.93 2.62 R
2272 2586 2.290960 GGTACAAGCCTTCCATTGGAGT 60.291 50.000 5.36 2.06 31.21 3.85 R
3956 4440 1.805428 GCAGCCACGAACCACCAAAT 61.805 55.000 0.00 0.00 0.00 2.32 R
4112 4602 5.740290 ATCTTTTCCGGTACTCTTTCTCA 57.260 39.130 0.00 0.00 0.00 3.27 R
4851 5722 1.558294 AGCAAGCAGATGGTGAGATGA 59.442 47.619 0.00 0.00 0.00 2.92 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
77 80 0.965439 CCCCTTGAAAAACATCGCCA 59.035 50.000 0.00 0.00 0.00 5.69
93 96 0.035458 GCCATCGCTATGCCTAACCT 59.965 55.000 0.00 0.00 0.00 3.50
96 99 3.214328 CCATCGCTATGCCTAACCTTTT 58.786 45.455 0.00 0.00 0.00 2.27
100 103 3.438781 TCGCTATGCCTAACCTTTTTGTG 59.561 43.478 0.00 0.00 0.00 3.33
122 129 1.103398 CGTCATCCTTTCCCATGGGC 61.103 60.000 27.41 7.56 34.68 5.36
160 171 2.743928 GGTCTGCACGCCCTGAAG 60.744 66.667 0.00 0.00 0.00 3.02
168 179 1.002366 CACGCCCTGAAGATCGAAAG 58.998 55.000 0.00 0.00 0.00 2.62
313 324 1.136110 GCCTCTTCTTCTTCCTCCTCG 59.864 57.143 0.00 0.00 0.00 4.63
314 325 1.754226 CCTCTTCTTCTTCCTCCTCGG 59.246 57.143 0.00 0.00 0.00 4.63
317 328 2.202810 CTTCTTCCTCCTCGGCGC 60.203 66.667 0.00 0.00 0.00 6.53
546 596 1.588932 GTGATCTGCGCGAATCCGA 60.589 57.895 12.10 0.00 38.22 4.55
601 716 2.814269 TCGTCTGCAGCATTCTGTATC 58.186 47.619 9.47 0.00 42.29 2.24
602 717 2.428530 TCGTCTGCAGCATTCTGTATCT 59.571 45.455 9.47 0.00 42.29 1.98
633 753 2.114670 GTGGCGGATGGATGTGGTG 61.115 63.158 0.00 0.00 0.00 4.17
660 780 4.923281 GCTAATGCAATCCTTTGTTCGTTT 59.077 37.500 0.00 0.00 39.41 3.60
670 790 5.529791 TCCTTTGTTCGTTTGTTTGTTTGA 58.470 33.333 0.00 0.00 0.00 2.69
672 792 6.309251 TCCTTTGTTCGTTTGTTTGTTTGATC 59.691 34.615 0.00 0.00 0.00 2.92
708 832 5.149976 CCCCATTTTCCATTCATAGGATGT 58.850 41.667 0.00 0.00 34.56 3.06
733 860 7.853929 GTGCATTGTATTTAATACTACCCGTTG 59.146 37.037 15.05 5.13 36.70 4.10
747 874 1.608590 CCCGTTGATGTCAGCAAGTTT 59.391 47.619 3.20 0.00 0.00 2.66
768 895 1.273886 GTTCTCGAGCTTCTGAGGGTT 59.726 52.381 7.81 0.00 33.00 4.11
769 896 1.178276 TCTCGAGCTTCTGAGGGTTC 58.822 55.000 7.81 0.00 33.00 3.62
782 909 0.401395 AGGGTTCTCAACTGACCCCA 60.401 55.000 7.15 0.00 41.41 4.96
798 925 2.440796 CATCCATGCCCAACGCCT 60.441 61.111 0.00 0.00 36.24 5.52
802 929 3.202001 CATGCCCAACGCCTACCG 61.202 66.667 0.00 0.00 44.21 4.02
822 949 2.158900 CGGGTGGAGAGATATTGCTTGT 60.159 50.000 0.00 0.00 0.00 3.16
869 996 4.614946 AGCTTGATTTTTGTTCAGACTGC 58.385 39.130 0.00 0.00 0.00 4.40
881 1008 4.219944 TGTTCAGACTGCGTTAGTAGGATT 59.780 41.667 0.00 0.00 40.53 3.01
905 1032 8.662781 TTGCTCAATAACCTTCATACATCTAC 57.337 34.615 0.00 0.00 0.00 2.59
1027 1154 2.544685 AGAAGAAAGATGCCGATGACG 58.455 47.619 0.00 0.00 39.43 4.35
1080 1207 7.309744 CCTGTGGACAGATTTGGCTTTATAAAA 60.310 37.037 8.41 0.00 46.59 1.52
1098 1225 8.865590 TTATAAAAACAGAACAAAGCAACTCC 57.134 30.769 0.00 0.00 0.00 3.85
1101 1228 1.215423 ACAGAACAAAGCAACTCCCCT 59.785 47.619 0.00 0.00 0.00 4.79
1134 1261 1.901591 AAAGCAGACCCACACATGAG 58.098 50.000 0.00 0.00 0.00 2.90
1137 1264 1.004560 CAGACCCACACATGAGCGT 60.005 57.895 0.00 0.00 0.00 5.07
1181 1308 6.097839 TCTCCTGTTTGTTGTACTTACAGTCT 59.902 38.462 0.00 0.00 37.52 3.24
1184 1311 5.045215 TGTTTGTTGTACTTACAGTCTCCG 58.955 41.667 0.00 0.00 37.52 4.63
1186 1313 4.233123 TGTTGTACTTACAGTCTCCGTG 57.767 45.455 0.00 0.00 37.52 4.94
1187 1314 3.005050 TGTTGTACTTACAGTCTCCGTGG 59.995 47.826 0.00 0.00 37.52 4.94
1188 1315 2.867624 TGTACTTACAGTCTCCGTGGT 58.132 47.619 0.00 0.00 0.00 4.16
1210 1512 7.872483 GTGGTCATGGTTTTAGTCAATTTGAAT 59.128 33.333 4.61 4.61 0.00 2.57
1237 1539 4.200874 ACCACGACAAGTATTTTGGAACA 58.799 39.130 0.00 0.00 0.00 3.18
1238 1540 4.274950 ACCACGACAAGTATTTTGGAACAG 59.725 41.667 0.00 0.00 42.39 3.16
1239 1541 4.513692 CCACGACAAGTATTTTGGAACAGA 59.486 41.667 0.00 0.00 42.39 3.41
1240 1542 5.334105 CCACGACAAGTATTTTGGAACAGAG 60.334 44.000 0.00 0.00 42.39 3.35
1288 1590 2.884639 GTTACTCTGGCACCATGTTGTT 59.115 45.455 0.00 0.00 0.00 2.83
1292 1594 3.084039 CTCTGGCACCATGTTGTTACAT 58.916 45.455 0.00 0.00 45.81 2.29
1353 1655 0.109504 GCAATTTGTTTCGCGGGCTA 60.110 50.000 6.13 0.00 0.00 3.93
1354 1656 1.667467 GCAATTTGTTTCGCGGGCTAA 60.667 47.619 6.13 0.46 0.00 3.09
1646 1948 4.654262 TGGGGTTCTCTTATAGTGATGACC 59.346 45.833 0.00 0.00 0.00 4.02
1717 2019 3.744660 ACATCATAGAATTCCTTCGCCC 58.255 45.455 0.65 0.00 36.45 6.13
1744 2046 8.103948 ACCTTATATATTGTGCTGCTTTCATC 57.896 34.615 0.00 0.00 0.00 2.92
1754 2056 7.395190 TGTGCTGCTTTCATCATAATTTACT 57.605 32.000 0.00 0.00 0.00 2.24
1777 2079 5.255397 TGTGTTGGAGGAAAACAGGATAT 57.745 39.130 0.00 0.00 38.17 1.63
1785 2087 7.182060 TGGAGGAAAACAGGATATTTAAGCTT 58.818 34.615 3.48 3.48 0.00 3.74
1846 2159 7.019774 TCATACTCATAATTTGCTGCACTTC 57.980 36.000 0.00 0.00 0.00 3.01
1847 2160 4.708726 ACTCATAATTTGCTGCACTTCC 57.291 40.909 0.00 0.00 0.00 3.46
1855 2168 3.414700 CTGCACTTCCCGCACGTC 61.415 66.667 0.00 0.00 35.08 4.34
1866 2179 1.883084 CGCACGTCCCTCTATTGCC 60.883 63.158 0.00 0.00 0.00 4.52
1873 2186 3.458487 ACGTCCCTCTATTGCCCTTATTT 59.542 43.478 0.00 0.00 0.00 1.40
1886 2199 3.691609 GCCCTTATTTCAGACTTGACTGG 59.308 47.826 0.00 0.00 38.31 4.00
1991 2305 6.807230 GTGATATATCGCGTACATTTCCTTCT 59.193 38.462 10.39 0.00 0.00 2.85
2036 2350 2.119495 GGCCCAGGTCAAAGATCTCTA 58.881 52.381 0.00 0.00 0.00 2.43
2039 2353 4.262678 GGCCCAGGTCAAAGATCTCTATAC 60.263 50.000 0.00 0.00 0.00 1.47
2119 2433 4.629634 TGTTCAGCCTGTCAACGTATTATG 59.370 41.667 0.00 0.00 0.00 1.90
2128 2442 6.040209 TGTCAACGTATTATGTAGGGTTGT 57.960 37.500 0.00 0.00 36.88 3.32
2153 2467 5.771666 ACATATTCCCTGGATTAACATGCTG 59.228 40.000 0.00 0.00 0.00 4.41
2165 2479 3.708563 AACATGCTGTTACTTTTGCGT 57.291 38.095 0.00 0.00 39.09 5.24
2200 2514 3.092301 GGAATGGGATTTATAGCTGGGC 58.908 50.000 0.00 0.00 0.00 5.36
2256 2570 7.009540 GCATTTTGGTTAATAGTAGCTTTGCTG 59.990 37.037 0.00 0.00 40.10 4.41
2265 2579 1.470494 GTAGCTTTGCTGAAAGGAGCC 59.530 52.381 0.00 0.00 40.10 4.70
2272 2586 0.178068 GCTGAAAGGAGCCGTCCATA 59.822 55.000 0.00 0.00 46.80 2.74
2292 2606 3.073274 ACTCCAATGGAAGGCTTGTAC 57.927 47.619 3.46 0.00 0.00 2.90
2311 2636 3.312736 ACCAGGTGATTGAACTTTGGT 57.687 42.857 0.00 0.00 34.97 3.67
2319 2644 6.762661 AGGTGATTGAACTTTGGTGATTTTTG 59.237 34.615 0.00 0.00 0.00 2.44
2320 2645 6.538381 GGTGATTGAACTTTGGTGATTTTTGT 59.462 34.615 0.00 0.00 0.00 2.83
2327 2652 6.983474 ACTTTGGTGATTTTTGTTTTCCAG 57.017 33.333 0.00 0.00 0.00 3.86
2334 2659 5.232838 GTGATTTTTGTTTTCCAGTGAGCAG 59.767 40.000 0.00 0.00 0.00 4.24
2336 2661 5.596836 TTTTTGTTTTCCAGTGAGCAGAT 57.403 34.783 0.00 0.00 0.00 2.90
2349 2674 5.873712 CAGTGAGCAGATAACTCAAATCACT 59.126 40.000 0.00 0.00 45.32 3.41
2350 2675 6.370994 CAGTGAGCAGATAACTCAAATCACTT 59.629 38.462 1.97 0.00 45.32 3.16
2352 2677 8.097038 AGTGAGCAGATAACTCAAATCACTTTA 58.903 33.333 0.00 0.00 45.32 1.85
2353 2678 8.887717 GTGAGCAGATAACTCAAATCACTTTAT 58.112 33.333 0.00 0.00 45.32 1.40
2384 2709 6.762333 TGAACTTCAGAGTGATGAATGAGAA 58.238 36.000 0.00 0.00 38.47 2.87
2428 2754 8.877864 TGGTTCAATAATTCCAGAGTATTTGT 57.122 30.769 0.00 0.00 0.00 2.83
2572 2898 9.029882 TTGGAACACATGCAACACTAAAGTGAT 62.030 37.037 16.74 1.89 44.04 3.06
2610 2936 7.992754 AATCTGCATATTCTGAATTACTCCC 57.007 36.000 8.38 0.00 0.00 4.30
2611 2937 6.753913 TCTGCATATTCTGAATTACTCCCT 57.246 37.500 8.38 0.00 0.00 4.20
2612 2938 6.763355 TCTGCATATTCTGAATTACTCCCTC 58.237 40.000 8.38 0.00 0.00 4.30
2613 2939 5.869579 TGCATATTCTGAATTACTCCCTCC 58.130 41.667 8.38 0.00 0.00 4.30
2614 2940 4.932200 GCATATTCTGAATTACTCCCTCCG 59.068 45.833 8.38 0.00 0.00 4.63
2615 2941 5.511545 GCATATTCTGAATTACTCCCTCCGT 60.512 44.000 8.38 0.00 0.00 4.69
2616 2942 6.295123 GCATATTCTGAATTACTCCCTCCGTA 60.295 42.308 8.38 0.00 0.00 4.02
2617 2943 7.667557 CATATTCTGAATTACTCCCTCCGTAA 58.332 38.462 8.38 0.00 0.00 3.18
2618 2944 6.555463 ATTCTGAATTACTCCCTCCGTAAA 57.445 37.500 0.00 0.00 31.36 2.01
2619 2945 5.334724 TCTGAATTACTCCCTCCGTAAAC 57.665 43.478 0.00 0.00 31.36 2.01
2620 2946 5.021458 TCTGAATTACTCCCTCCGTAAACT 58.979 41.667 0.00 0.00 31.36 2.66
2621 2947 6.189859 TCTGAATTACTCCCTCCGTAAACTA 58.810 40.000 0.00 0.00 31.36 2.24
2622 2948 6.664816 TCTGAATTACTCCCTCCGTAAACTAA 59.335 38.462 0.00 0.00 31.36 2.24
2623 2949 7.343833 TCTGAATTACTCCCTCCGTAAACTAAT 59.656 37.037 0.00 0.00 31.36 1.73
2624 2950 8.537728 TGAATTACTCCCTCCGTAAACTAATA 57.462 34.615 0.00 0.00 31.36 0.98
2625 2951 9.151177 TGAATTACTCCCTCCGTAAACTAATAT 57.849 33.333 0.00 0.00 31.36 1.28
2629 2955 9.866655 TTACTCCCTCCGTAAACTAATATAAGA 57.133 33.333 0.00 0.00 0.00 2.10
2630 2956 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
2631 2957 7.039853 ACTCCCTCCGTAAACTAATATAAGAGC 60.040 40.741 0.00 0.00 0.00 4.09
2632 2958 6.072286 TCCCTCCGTAAACTAATATAAGAGCG 60.072 42.308 0.00 0.00 0.00 5.03
2633 2959 6.294397 CCCTCCGTAAACTAATATAAGAGCGT 60.294 42.308 0.00 0.00 0.00 5.07
2634 2960 7.144000 CCTCCGTAAACTAATATAAGAGCGTT 58.856 38.462 0.00 0.00 0.00 4.84
2635 2961 7.650903 CCTCCGTAAACTAATATAAGAGCGTTT 59.349 37.037 0.00 0.00 0.00 3.60
2636 2962 9.669353 CTCCGTAAACTAATATAAGAGCGTTTA 57.331 33.333 0.00 0.00 0.00 2.01
2637 2963 9.669353 TCCGTAAACTAATATAAGAGCGTTTAG 57.331 33.333 0.00 0.00 30.36 1.85
2638 2964 9.669353 CCGTAAACTAATATAAGAGCGTTTAGA 57.331 33.333 0.00 0.00 30.36 2.10
2650 2976 9.953697 ATAAGAGCGTTTAGATCACTACTTTAG 57.046 33.333 0.00 0.00 37.82 1.85
2651 2977 7.393841 AGAGCGTTTAGATCACTACTTTAGT 57.606 36.000 0.00 0.00 37.82 2.24
2652 2978 8.503458 AGAGCGTTTAGATCACTACTTTAGTA 57.497 34.615 0.00 0.00 37.82 1.82
2653 2979 9.122779 AGAGCGTTTAGATCACTACTTTAGTAT 57.877 33.333 0.00 0.00 37.82 2.12
2654 2980 9.733219 GAGCGTTTAGATCACTACTTTAGTATT 57.267 33.333 0.00 0.00 37.23 1.89
2655 2981 9.733219 AGCGTTTAGATCACTACTTTAGTATTC 57.267 33.333 0.00 0.00 37.23 1.75
2656 2982 9.733219 GCGTTTAGATCACTACTTTAGTATTCT 57.267 33.333 0.00 0.00 37.23 2.40
2662 2988 9.733219 AGATCACTACTTTAGTATTCTAAACGC 57.267 33.333 0.76 0.00 40.05 4.84
2663 2989 9.733219 GATCACTACTTTAGTATTCTAAACGCT 57.267 33.333 0.76 0.00 40.05 5.07
2664 2990 9.733219 ATCACTACTTTAGTATTCTAAACGCTC 57.267 33.333 0.76 0.00 40.05 5.03
2665 2991 8.954350 TCACTACTTTAGTATTCTAAACGCTCT 58.046 33.333 0.76 0.00 40.05 4.09
2666 2992 9.570488 CACTACTTTAGTATTCTAAACGCTCTT 57.430 33.333 0.76 0.00 40.05 2.85
2680 3006 9.669353 TCTAAACGCTCTTATATTAGTTTACGG 57.331 33.333 0.00 0.00 34.29 4.02
2681 3007 9.669353 CTAAACGCTCTTATATTAGTTTACGGA 57.331 33.333 0.00 0.00 34.29 4.69
2682 3008 8.571461 AAACGCTCTTATATTAGTTTACGGAG 57.429 34.615 0.00 0.00 31.14 4.63
2683 3009 6.675987 ACGCTCTTATATTAGTTTACGGAGG 58.324 40.000 0.00 0.00 0.00 4.30
2684 3010 6.488006 ACGCTCTTATATTAGTTTACGGAGGA 59.512 38.462 0.00 0.00 0.00 3.71
2685 3011 7.013655 ACGCTCTTATATTAGTTTACGGAGGAA 59.986 37.037 0.00 0.00 0.00 3.36
2686 3012 7.537991 CGCTCTTATATTAGTTTACGGAGGAAG 59.462 40.741 0.00 0.00 0.00 3.46
2861 3187 3.164268 TGCAAGCCAATGGTTTATCACT 58.836 40.909 0.00 0.00 0.00 3.41
2937 3263 7.770897 TCTTCCTTTATGAGGTAAGAATCTTGC 59.229 37.037 5.64 3.92 46.39 4.01
2977 3310 3.462483 TCGTGTTTACCTGAGCTTGAA 57.538 42.857 0.00 0.00 0.00 2.69
3219 3553 9.794685 GTGGAGTATGATGTACATGTATAGATG 57.205 37.037 14.43 8.27 39.77 2.90
3469 3915 6.294843 GGTCCTACTCATCTAGTTTCCATAGC 60.295 46.154 0.00 0.00 39.80 2.97
3502 3984 4.813027 AGCTTGTGTTGCCATTTCATAAG 58.187 39.130 0.00 0.00 34.85 1.73
3663 4147 7.282585 CAAGTTGGATTGGGTCTATTGAGATA 58.717 38.462 0.00 0.00 33.14 1.98
3708 4192 2.007113 TTGGTGTGCTGTGCTGCTTG 62.007 55.000 0.00 0.00 0.00 4.01
3862 4346 7.415653 CCACTTGCCTTCTCATTTAAGGTAATC 60.416 40.741 5.96 0.00 44.41 1.75
4049 4538 4.936891 ACTTGAAATTTGCAGTCCAAGAC 58.063 39.130 17.26 0.00 36.03 3.01
4064 4553 7.904558 AGTCCAAGACTGATACTGATAATCA 57.095 36.000 0.00 0.00 41.76 2.57
4112 4602 2.500392 ACAGTAGTCTCGAGGAGCTT 57.500 50.000 13.56 0.00 0.00 3.74
4318 4812 4.670227 TGTATAGAGCGATCATCACTCG 57.330 45.455 2.38 0.00 39.11 4.18
4333 4831 2.216940 TCACTCGTCGCTTTGTTTTACG 59.783 45.455 0.00 0.00 34.99 3.18
4349 4847 8.839947 TTGTTTTACGTTTTCTAAGTTAAGCC 57.160 30.769 0.00 0.00 0.00 4.35
4353 4853 3.059393 ACGTTTTCTAAGTTAAGCCGTGC 60.059 43.478 0.00 0.00 0.00 5.34
4559 5067 8.659925 TGAATTCTGTGTGTAATTGCAAAAAT 57.340 26.923 1.71 0.00 0.00 1.82
4566 5074 9.838975 CTGTGTGTAATTGCAAAAATATGACTA 57.161 29.630 1.71 0.00 0.00 2.59
4619 5127 3.635510 GGGAACCGCTCTCTCCAT 58.364 61.111 0.00 0.00 40.86 3.41
4631 5139 3.389329 GCTCTCTCCATGGAAACCATCTA 59.611 47.826 17.00 0.00 43.15 1.98
4633 5141 5.549347 CTCTCTCCATGGAAACCATCTATG 58.451 45.833 17.00 0.00 43.15 2.23
4661 5169 9.643735 AAGGTATAATATATTCTACTCCCTCCG 57.356 37.037 16.32 0.00 0.00 4.63
4662 5170 8.789782 AGGTATAATATATTCTACTCCCTCCGT 58.210 37.037 16.32 0.00 0.00 4.69
4665 5173 6.854091 AATATATTCTACTCCCTCCGTTCC 57.146 41.667 0.00 0.00 0.00 3.62
4666 5174 1.790818 ATTCTACTCCCTCCGTTCCC 58.209 55.000 0.00 0.00 0.00 3.97
4692 5563 8.365210 CGTGTTATTGTGAAATTATTGACAAGC 58.635 33.333 8.23 3.75 44.09 4.01
4724 5595 3.894782 TCACCACATGAAACATTGACG 57.105 42.857 0.00 0.00 33.02 4.35
4725 5596 2.551887 TCACCACATGAAACATTGACGG 59.448 45.455 0.00 0.00 33.02 4.79
4734 5605 6.313905 ACATGAAACATTGACGGTTAGATCTC 59.686 38.462 0.00 0.00 0.00 2.75
4743 5614 2.523412 TTAGATCTCCCCCGGCGG 60.523 66.667 21.46 21.46 0.00 6.13
4764 5635 1.130678 GCCTAGGGATCCCTTCCTGG 61.131 65.000 38.13 30.25 45.70 4.45
4831 5702 2.292828 ATCAGGGTCAAGGTTTGTGG 57.707 50.000 0.00 0.00 0.00 4.17
4833 5704 1.780309 TCAGGGTCAAGGTTTGTGGAT 59.220 47.619 0.00 0.00 0.00 3.41
4851 5722 2.706190 GGATTATACTCCACCACTGCCT 59.294 50.000 4.29 0.00 35.24 4.75
4875 5751 0.401356 TCACCATCTGCTTGCTTCCA 59.599 50.000 0.00 0.00 0.00 3.53
4937 5813 7.147880 TGGATGATTTGAATGTTATCATGCACA 60.148 33.333 12.46 0.00 45.79 4.57
5025 6036 7.792374 AACATTTACTACATGCATACTCCTG 57.208 36.000 0.00 0.00 0.00 3.86
5058 6069 8.114290 CACTTTGAAGATCAAAATATGCAATGC 58.886 33.333 0.00 0.00 44.69 3.56
5064 6075 6.798482 AGATCAAAATATGCAATGCTTTCGA 58.202 32.000 6.82 0.00 0.00 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 9.450807 AAATTAACAAGATTTCATAGTATGCGC 57.549 29.630 0.00 0.00 0.00 6.09
48 49 6.491714 TGTTTTTCAAGGGGATTCATCAAA 57.508 33.333 0.00 0.00 0.00 2.69
54 55 3.511699 GCGATGTTTTTCAAGGGGATTC 58.488 45.455 0.00 0.00 0.00 2.52
55 56 2.233676 GGCGATGTTTTTCAAGGGGATT 59.766 45.455 0.00 0.00 0.00 3.01
57 58 1.253100 GGCGATGTTTTTCAAGGGGA 58.747 50.000 0.00 0.00 0.00 4.81
77 80 4.096382 CACAAAAAGGTTAGGCATAGCGAT 59.904 41.667 0.00 0.00 0.00 4.58
93 96 0.665835 AAGGATGACGCGCACAAAAA 59.334 45.000 5.73 0.00 0.00 1.94
96 99 1.573829 GGAAAGGATGACGCGCACAA 61.574 55.000 5.73 0.00 0.00 3.33
100 103 1.819632 ATGGGAAAGGATGACGCGC 60.820 57.895 5.73 0.00 0.00 6.86
122 129 4.156622 CATGCACGCACGAGCCTG 62.157 66.667 9.87 6.67 37.52 4.85
183 194 0.040781 GCGCGCTCACAAAAGGTAAA 60.041 50.000 26.67 0.00 0.00 2.01
184 195 1.160946 TGCGCGCTCACAAAAGGTAA 61.161 50.000 33.29 3.26 0.00 2.85
185 196 1.565156 CTGCGCGCTCACAAAAGGTA 61.565 55.000 33.29 5.84 0.00 3.08
186 197 2.896801 CTGCGCGCTCACAAAAGGT 61.897 57.895 33.29 0.00 0.00 3.50
317 328 4.087892 CAGCTGTGGAGGGGACGG 62.088 72.222 5.25 0.00 0.00 4.79
486 536 3.064324 AATGAACCCTGCGCTGGC 61.064 61.111 26.55 14.27 40.52 4.85
546 596 1.288037 GCCAGGGGAATTCCTTACCTT 59.712 52.381 23.63 0.79 35.44 3.50
601 716 0.729116 CGCCACCTTATTGCTCACAG 59.271 55.000 0.00 0.00 0.00 3.66
602 717 0.676466 CCGCCACCTTATTGCTCACA 60.676 55.000 0.00 0.00 0.00 3.58
660 780 3.659786 ACCGAGATCGATCAAACAAACA 58.340 40.909 26.47 0.00 43.02 2.83
670 790 0.686441 TGGGGTCAACCGAGATCGAT 60.686 55.000 0.00 0.00 43.02 3.59
672 792 0.178068 AATGGGGTCAACCGAGATCG 59.822 55.000 0.00 0.00 41.60 3.69
708 832 7.769507 TCAACGGGTAGTATTAAATACAATGCA 59.230 33.333 0.00 0.00 38.21 3.96
733 860 3.494626 TCGAGAACAAACTTGCTGACATC 59.505 43.478 0.00 0.00 0.00 3.06
747 874 0.891373 CCCTCAGAAGCTCGAGAACA 59.109 55.000 18.75 0.00 0.00 3.18
768 895 1.561076 CATGGATGGGGTCAGTTGAGA 59.439 52.381 0.00 0.00 0.00 3.27
769 896 2.020694 GCATGGATGGGGTCAGTTGAG 61.021 57.143 0.00 0.00 0.00 3.02
782 909 1.152963 GTAGGCGTTGGGCATGGAT 60.153 57.895 0.00 0.00 46.16 3.41
798 925 1.968493 GCAATATCTCTCCACCCGGTA 59.032 52.381 0.00 0.00 0.00 4.02
802 929 3.209410 CACAAGCAATATCTCTCCACCC 58.791 50.000 0.00 0.00 0.00 4.61
869 996 6.281405 AGGTTATTGAGCAATCCTACTAACG 58.719 40.000 0.00 0.00 32.50 3.18
881 1008 7.928167 CAGTAGATGTATGAAGGTTATTGAGCA 59.072 37.037 0.00 0.00 0.00 4.26
905 1032 3.587797 ATCAAATGCTCAGCCAAACAG 57.412 42.857 0.00 0.00 0.00 3.16
911 1038 4.060900 TCGAGAATATCAAATGCTCAGCC 58.939 43.478 0.00 0.00 0.00 4.85
945 1072 6.835488 ACATTGCAAGAAATATACCAGGTCAT 59.165 34.615 4.94 0.00 0.00 3.06
950 1077 8.437360 TCACTACATTGCAAGAAATATACCAG 57.563 34.615 4.94 0.00 0.00 4.00
1019 1146 1.100510 TCCAGGTTCTACGTCATCGG 58.899 55.000 0.00 0.00 41.85 4.18
1027 1154 0.537653 GGAGCTGGTCCAGGTTCTAC 59.462 60.000 24.13 11.49 46.10 2.59
1080 1207 2.031870 GGGGAGTTGCTTTGTTCTGTT 58.968 47.619 0.00 0.00 0.00 3.16
1101 1228 0.850100 TGCTTTTCAGAACCCCCTCA 59.150 50.000 0.00 0.00 0.00 3.86
1134 1261 1.541233 CCCTGATCATACCTTCCACGC 60.541 57.143 0.00 0.00 0.00 5.34
1137 1264 2.022035 AGACCCCTGATCATACCTTCCA 60.022 50.000 0.00 0.00 0.00 3.53
1181 1308 2.369203 TGACTAAAACCATGACCACGGA 59.631 45.455 0.00 0.00 0.00 4.69
1184 1311 6.744112 TCAAATTGACTAAAACCATGACCAC 58.256 36.000 0.00 0.00 0.00 4.16
1186 1313 8.831715 AATTCAAATTGACTAAAACCATGACC 57.168 30.769 0.00 0.00 0.00 4.02
1210 1512 7.330900 TCCAAAATACTTGTCGTGGTTTTAA 57.669 32.000 0.00 0.00 0.00 1.52
1237 1539 3.786213 AACAAGATACTCCCTCCCTCT 57.214 47.619 0.00 0.00 0.00 3.69
1238 1540 5.602978 TCATAAACAAGATACTCCCTCCCTC 59.397 44.000 0.00 0.00 0.00 4.30
1239 1541 5.367060 GTCATAAACAAGATACTCCCTCCCT 59.633 44.000 0.00 0.00 0.00 4.20
1240 1542 5.367060 AGTCATAAACAAGATACTCCCTCCC 59.633 44.000 0.00 0.00 0.00 4.30
1604 1906 1.068895 CAACAAGGCCACAGAAATGCA 59.931 47.619 5.01 0.00 0.00 3.96
1669 1971 7.726291 TCCCCTTCAGATCACTACTAGATTAAG 59.274 40.741 0.00 0.00 0.00 1.85
1717 2019 8.607441 TGAAAGCAGCACAATATATAAGGTAG 57.393 34.615 0.00 0.00 0.00 3.18
1744 2046 9.191995 GTTTTCCTCCAACACAAGTAAATTATG 57.808 33.333 0.00 0.00 0.00 1.90
1754 2056 3.374042 TCCTGTTTTCCTCCAACACAA 57.626 42.857 0.00 0.00 30.83 3.33
1815 2122 7.451429 CAGCAAATTATGAGTATGATCTACGC 58.549 38.462 0.00 0.00 0.00 4.42
1846 2159 1.227263 CAATAGAGGGACGTGCGGG 60.227 63.158 0.00 0.00 0.00 6.13
1847 2160 1.883084 GCAATAGAGGGACGTGCGG 60.883 63.158 0.00 0.00 0.00 5.69
1855 2168 5.066593 GTCTGAAATAAGGGCAATAGAGGG 58.933 45.833 0.00 0.00 0.00 4.30
1866 2179 6.884280 AAACCAGTCAAGTCTGAAATAAGG 57.116 37.500 0.00 0.00 37.61 2.69
1893 2207 7.129425 TGCCCAAAGGAAACATAGGTTATATT 58.871 34.615 0.00 0.00 35.82 1.28
1909 2223 0.961753 GACCAAAGTCTGCCCAAAGG 59.038 55.000 0.00 0.00 40.10 3.11
1916 2230 4.740695 GTCTCGTATATGACCAAAGTCTGC 59.259 45.833 0.00 0.00 43.91 4.26
1991 2305 7.337689 CCATGTCTCTGTTGGAAGAAAATATGA 59.662 37.037 0.00 0.00 31.94 2.15
2036 2350 8.780249 ACAGAGTATGCTTTTAAAACGTTGTAT 58.220 29.630 0.00 0.00 0.00 2.29
2039 2353 7.908193 AACAGAGTATGCTTTTAAAACGTTG 57.092 32.000 0.00 0.00 0.00 4.10
2069 2383 2.882761 CTGCACATATCCAACATCCCTG 59.117 50.000 0.00 0.00 0.00 4.45
2128 2442 6.942005 CAGCATGTTAATCCAGGGAATATGTA 59.058 38.462 0.00 0.00 0.00 2.29
2153 2467 3.955771 TCAAGACCACGCAAAAGTAAC 57.044 42.857 0.00 0.00 0.00 2.50
2165 2479 1.341285 CCATTCCCTGCATCAAGACCA 60.341 52.381 0.00 0.00 0.00 4.02
2200 2514 4.053983 TCGCTCATATAAAGAAGCAGCAG 58.946 43.478 0.00 0.00 0.00 4.24
2256 2570 1.202545 GGAGTATGGACGGCTCCTTTC 60.203 57.143 0.00 0.00 43.93 2.62
2272 2586 2.290960 GGTACAAGCCTTCCATTGGAGT 60.291 50.000 5.36 2.06 31.21 3.85
2292 2606 3.221771 TCACCAAAGTTCAATCACCTGG 58.778 45.455 0.00 0.00 0.00 4.45
2311 2636 5.126869 TCTGCTCACTGGAAAACAAAAATCA 59.873 36.000 0.00 0.00 0.00 2.57
2319 2644 4.997395 TGAGTTATCTGCTCACTGGAAAAC 59.003 41.667 0.00 0.00 37.98 2.43
2320 2645 5.227569 TGAGTTATCTGCTCACTGGAAAA 57.772 39.130 0.00 0.00 37.98 2.29
2327 2652 6.734104 AAGTGATTTGAGTTATCTGCTCAC 57.266 37.500 0.00 0.00 42.00 3.51
2336 2661 9.567776 TCAGGTTTCATAAAGTGATTTGAGTTA 57.432 29.630 0.00 0.00 36.54 2.24
2349 2674 7.279615 TCACTCTGAAGTTCAGGTTTCATAAA 58.720 34.615 28.33 8.63 44.39 1.40
2350 2675 6.826668 TCACTCTGAAGTTCAGGTTTCATAA 58.173 36.000 28.33 9.28 44.39 1.90
2352 2677 5.296151 TCACTCTGAAGTTCAGGTTTCAT 57.704 39.130 28.33 8.77 44.39 2.57
2353 2678 4.753516 TCACTCTGAAGTTCAGGTTTCA 57.246 40.909 28.33 11.26 44.39 2.69
2423 2749 5.593095 AGCTGATGATAAGCATGACACAAAT 59.407 36.000 4.29 0.00 43.37 2.32
2428 2754 5.032327 AGAAGCTGATGATAAGCATGACA 57.968 39.130 4.29 0.00 43.37 3.58
2606 2932 7.314393 GCTCTTATATTAGTTTACGGAGGGAG 58.686 42.308 0.00 0.00 0.00 4.30
2607 2933 6.072286 CGCTCTTATATTAGTTTACGGAGGGA 60.072 42.308 0.00 0.00 34.63 4.20
2608 2934 6.091437 CGCTCTTATATTAGTTTACGGAGGG 58.909 44.000 0.00 0.00 0.00 4.30
2609 2935 6.675987 ACGCTCTTATATTAGTTTACGGAGG 58.324 40.000 0.00 0.00 0.00 4.30
2610 2936 8.571461 AAACGCTCTTATATTAGTTTACGGAG 57.429 34.615 0.00 0.00 31.14 4.63
2611 2937 9.669353 CTAAACGCTCTTATATTAGTTTACGGA 57.331 33.333 0.00 0.00 34.29 4.69
2612 2938 9.669353 TCTAAACGCTCTTATATTAGTTTACGG 57.331 33.333 0.00 0.00 34.29 4.02
2624 2950 9.953697 CTAAAGTAGTGATCTAAACGCTCTTAT 57.046 33.333 0.00 0.00 0.00 1.73
2625 2951 8.954350 ACTAAAGTAGTGATCTAAACGCTCTTA 58.046 33.333 0.00 0.00 37.69 2.10
2626 2952 7.828712 ACTAAAGTAGTGATCTAAACGCTCTT 58.171 34.615 0.00 0.00 37.69 2.85
2627 2953 7.393841 ACTAAAGTAGTGATCTAAACGCTCT 57.606 36.000 0.00 0.00 37.69 4.09
2628 2954 9.733219 AATACTAAAGTAGTGATCTAAACGCTC 57.267 33.333 0.00 0.00 39.81 5.03
2629 2955 9.733219 GAATACTAAAGTAGTGATCTAAACGCT 57.267 33.333 0.00 0.00 39.81 5.07
2630 2956 9.733219 AGAATACTAAAGTAGTGATCTAAACGC 57.267 33.333 0.00 0.00 39.81 4.84
2636 2962 9.733219 GCGTTTAGAATACTAAAGTAGTGATCT 57.267 33.333 0.00 4.67 45.42 2.75
2637 2963 9.733219 AGCGTTTAGAATACTAAAGTAGTGATC 57.267 33.333 0.00 0.00 45.42 2.92
2638 2964 9.733219 GAGCGTTTAGAATACTAAAGTAGTGAT 57.267 33.333 0.00 0.00 45.42 3.06
2639 2965 8.954350 AGAGCGTTTAGAATACTAAAGTAGTGA 58.046 33.333 0.00 0.00 45.42 3.41
2640 2966 9.570488 AAGAGCGTTTAGAATACTAAAGTAGTG 57.430 33.333 0.00 0.00 45.42 2.74
2654 2980 9.669353 CCGTAAACTAATATAAGAGCGTTTAGA 57.331 33.333 0.00 0.00 30.36 2.10
2655 2981 9.669353 TCCGTAAACTAATATAAGAGCGTTTAG 57.331 33.333 0.00 0.00 30.36 1.85
2656 2982 9.669353 CTCCGTAAACTAATATAAGAGCGTTTA 57.331 33.333 0.00 0.00 0.00 2.01
2657 2983 7.650903 CCTCCGTAAACTAATATAAGAGCGTTT 59.349 37.037 0.00 0.00 0.00 3.60
2658 2984 7.013655 TCCTCCGTAAACTAATATAAGAGCGTT 59.986 37.037 0.00 0.00 0.00 4.84
2659 2985 6.488006 TCCTCCGTAAACTAATATAAGAGCGT 59.512 38.462 0.00 0.00 0.00 5.07
2660 2986 6.906659 TCCTCCGTAAACTAATATAAGAGCG 58.093 40.000 0.00 0.00 0.00 5.03
2661 2987 8.358895 ACTTCCTCCGTAAACTAATATAAGAGC 58.641 37.037 0.00 0.00 0.00 4.09
2672 2998 8.806146 TGTTAAATAGTACTTCCTCCGTAAACT 58.194 33.333 0.00 0.00 0.00 2.66
2673 2999 8.986477 TGTTAAATAGTACTTCCTCCGTAAAC 57.014 34.615 0.00 0.00 0.00 2.01
2674 3000 9.995003 TTTGTTAAATAGTACTTCCTCCGTAAA 57.005 29.630 0.00 0.00 0.00 2.01
2676 3002 9.807649 GATTTGTTAAATAGTACTTCCTCCGTA 57.192 33.333 0.00 0.00 0.00 4.02
2677 3003 8.537858 AGATTTGTTAAATAGTACTTCCTCCGT 58.462 33.333 0.00 0.00 0.00 4.69
2678 3004 8.943909 AGATTTGTTAAATAGTACTTCCTCCG 57.056 34.615 0.00 0.00 0.00 4.63
2861 3187 4.627284 TGGGAAGGAATACGAGAAAACA 57.373 40.909 0.00 0.00 0.00 2.83
2948 3279 5.849604 GCTCAGGTAAACACGAAACATAAAC 59.150 40.000 0.00 0.00 0.00 2.01
2977 3310 6.445357 ACTCGGTAAAACACAACTCAAAAT 57.555 33.333 0.00 0.00 0.00 1.82
3071 3405 7.391833 ACTGCCCTTAATAAAGTTCTTCTGAAG 59.608 37.037 11.18 11.18 32.15 3.02
3502 3984 2.276472 TATGAAAAAGCCATGCGCAC 57.724 45.000 14.90 0.00 41.38 5.34
3544 4028 9.988350 CAGTCAGTTGTTTTAATACATGGATAC 57.012 33.333 0.00 0.00 0.00 2.24
3551 4035 9.990360 TCAGATACAGTCAGTTGTTTTAATACA 57.010 29.630 0.00 0.00 32.56 2.29
3862 4346 8.644619 CATCTCATTTGCTTCATAAAACAGTTG 58.355 33.333 0.00 0.00 0.00 3.16
3905 4389 5.359576 ACAAGCAAGAACTCACAAAACCATA 59.640 36.000 0.00 0.00 0.00 2.74
3946 4430 6.972328 CCACGAACCACCAAATAATAGAAATG 59.028 38.462 0.00 0.00 0.00 2.32
3956 4440 1.805428 GCAGCCACGAACCACCAAAT 61.805 55.000 0.00 0.00 0.00 2.32
4064 4553 5.865085 TGCAAGTAAGATCAAGTGTACCTT 58.135 37.500 0.00 0.00 0.00 3.50
4112 4602 5.740290 ATCTTTTCCGGTACTCTTTCTCA 57.260 39.130 0.00 0.00 0.00 3.27
4318 4812 6.684131 ACTTAGAAAACGTAAAACAAAGCGAC 59.316 34.615 0.00 0.00 0.00 5.19
4333 4831 4.744136 AGCACGGCTTAACTTAGAAAAC 57.256 40.909 0.00 0.00 33.89 2.43
4349 4847 3.236816 CCTTTGCAGTTATGAAAGCACG 58.763 45.455 0.00 0.00 36.62 5.34
4353 4853 4.771590 TGAGCCTTTGCAGTTATGAAAG 57.228 40.909 0.00 0.00 41.13 2.62
4566 5074 7.657354 TGCGCTTTGATATAACTCTCAACATAT 59.343 33.333 9.73 0.00 31.41 1.78
4580 5088 5.355071 CCCACATATGTATGCGCTTTGATAT 59.645 40.000 8.32 5.07 37.19 1.63
4582 5090 3.503363 CCCACATATGTATGCGCTTTGAT 59.497 43.478 8.32 0.00 37.19 2.57
4583 5091 2.877786 CCCACATATGTATGCGCTTTGA 59.122 45.455 8.32 0.00 37.19 2.69
4584 5092 2.877786 TCCCACATATGTATGCGCTTTG 59.122 45.455 8.32 0.00 37.19 2.77
4611 5119 4.349048 CCATAGATGGTTTCCATGGAGAGA 59.651 45.833 15.53 2.37 45.26 3.10
4612 5120 4.349048 TCCATAGATGGTTTCCATGGAGAG 59.651 45.833 15.53 0.00 45.26 3.20
4616 5124 4.147321 CCTTCCATAGATGGTTTCCATGG 58.853 47.826 4.97 4.97 45.26 3.66
4619 5127 7.699709 TTATACCTTCCATAGATGGTTTCCA 57.300 36.000 8.40 0.00 45.81 3.53
4640 5148 7.564292 GGGAACGGAGGGAGTAGAATATATTAT 59.436 40.741 0.00 0.00 0.00 1.28
4661 5169 8.024285 TCAATAATTTCACAATAACACGGGAAC 58.976 33.333 0.00 0.00 0.00 3.62
4662 5170 8.024285 GTCAATAATTTCACAATAACACGGGAA 58.976 33.333 0.00 0.00 0.00 3.97
4665 5173 8.735303 TTGTCAATAATTTCACAATAACACGG 57.265 30.769 0.00 0.00 0.00 4.94
4666 5174 8.365210 GCTTGTCAATAATTTCACAATAACACG 58.635 33.333 0.00 0.00 0.00 4.49
4692 5563 1.608055 TGTGGTGATTGAGCTGGTTG 58.392 50.000 0.00 0.00 0.00 3.77
4724 5595 2.868986 CGCCGGGGGAGATCTAACC 61.869 68.421 11.42 0.62 0.00 2.85
4725 5596 2.735237 CGCCGGGGGAGATCTAAC 59.265 66.667 11.42 0.00 0.00 2.34
4764 5635 2.414559 CGTGTGCAATGGAGTTTGGATC 60.415 50.000 0.00 0.00 29.37 3.36
4831 5702 3.388024 TGAGGCAGTGGTGGAGTATAATC 59.612 47.826 0.00 0.00 0.00 1.75
4833 5704 2.827755 TGAGGCAGTGGTGGAGTATAA 58.172 47.619 0.00 0.00 0.00 0.98
4851 5722 1.558294 AGCAAGCAGATGGTGAGATGA 59.442 47.619 0.00 0.00 0.00 2.92
4889 5765 1.872388 TGAAACGTTGATCGGCTGAA 58.128 45.000 0.00 0.00 44.69 3.02
4900 5776 7.656948 ACATTCAAATCATCCAAATGAAACGTT 59.343 29.630 0.00 0.00 44.85 3.99
5003 6014 6.763135 ACACAGGAGTATGCATGTAGTAAATG 59.237 38.462 10.16 0.00 0.00 2.32
5058 6069 7.008440 TGAATGAAATAGCTGATGTCGAAAG 57.992 36.000 0.00 0.00 0.00 2.62
5064 6075 6.096001 GGGAAGTTGAATGAAATAGCTGATGT 59.904 38.462 0.00 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.