Multiple sequence alignment - TraesCS4D01G315100

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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 TraesCS4D01G315100 chr4D 100.000 6037 0 0 1 6037 480970081 480976117 0.000000e+00 11149.0
1 TraesCS4D01G315100 chr4B 92.342 3369 196 36 2706 6037 609314921 609318264 0.000000e+00 4735.0
2 TraesCS4D01G315100 chr4B 95.462 1741 76 3 406 2146 609312681 609314418 0.000000e+00 2774.0
3 TraesCS4D01G315100 chr4B 89.759 498 39 9 2201 2689 609314441 609314935 1.430000e-175 627.0
4 TraesCS4D01G315100 chr5A 91.612 3076 193 36 2706 5744 662414750 662411703 0.000000e+00 4191.0
5 TraesCS4D01G315100 chr5A 94.943 1503 61 5 647 2146 662416745 662415255 0.000000e+00 2340.0
6 TraesCS4D01G315100 chr5A 88.710 620 40 4 3 606 662417348 662416743 0.000000e+00 730.0
7 TraesCS4D01G315100 chr5A 88.508 496 45 9 2204 2689 662415229 662414736 1.870000e-164 590.0
8 TraesCS4D01G315100 chr7A 84.512 2376 303 39 2741 5085 561890584 561888243 0.000000e+00 2289.0
9 TraesCS4D01G315100 chr7A 86.943 942 118 3 991 1928 561892286 561891346 0.000000e+00 1053.0
10 TraesCS4D01G315100 chr1B 73.626 1092 235 38 3160 4227 462875 461813 7.390000e-99 372.0
11 TraesCS4D01G315100 chr1A 78.182 605 111 15 3135 3723 2202713 2203312 3.440000e-97 366.0
12 TraesCS4D01G315100 chr1D 74.370 913 190 28 3123 4016 2686259 2687146 3.460000e-92 350.0
13 TraesCS4D01G315100 chr6D 80.645 155 28 2 1527 1680 5198297 5198144 1.060000e-22 119.0
14 TraesCS4D01G315100 chr6B 80.723 83 16 0 1573 1655 103671284 103671202 1.400000e-06 65.8
15 TraesCS4D01G315100 chrUn 100.000 30 0 0 1604 1633 271937210 271937239 8.450000e-04 56.5
16 TraesCS4D01G315100 chrUn 100.000 30 0 0 1604 1633 316617533 316617504 8.450000e-04 56.5


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 TraesCS4D01G315100 chr4D 480970081 480976117 6036 False 11149.00 11149 100.00000 1 6037 1 chr4D.!!$F1 6036
1 TraesCS4D01G315100 chr4B 609312681 609318264 5583 False 2712.00 4735 92.52100 406 6037 3 chr4B.!!$F1 5631
2 TraesCS4D01G315100 chr5A 662411703 662417348 5645 True 1962.75 4191 90.94325 3 5744 4 chr5A.!!$R1 5741
3 TraesCS4D01G315100 chr7A 561888243 561892286 4043 True 1671.00 2289 85.72750 991 5085 2 chr7A.!!$R1 4094
4 TraesCS4D01G315100 chr1B 461813 462875 1062 True 372.00 372 73.62600 3160 4227 1 chr1B.!!$R1 1067
5 TraesCS4D01G315100 chr1A 2202713 2203312 599 False 366.00 366 78.18200 3135 3723 1 chr1A.!!$F1 588
6 TraesCS4D01G315100 chr1D 2686259 2687146 887 False 350.00 350 74.37000 3123 4016 1 chr1D.!!$F1 893

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
242 243 0.392193 CGCTGAGGAGTGGCTTCAAT 60.392 55.000 0.00 0.0 31.64 2.57 F
1437 1457 0.824759 AGGTCGACATAGTTCCTGCC 59.175 55.000 18.91 0.0 0.00 4.85 F
1983 2008 0.613260 AGCATGTTCCTCGTAAGGCA 59.387 50.000 0.00 0.0 43.02 4.75 F
2344 2396 0.761187 GCTGCCCCTGTGATCATCTA 59.239 55.000 0.00 0.0 0.00 1.98 F
2697 2764 1.281867 CCAAGTGGATCTACCCTGCAA 59.718 52.381 5.47 0.0 37.39 4.08 F
3947 4053 1.629043 GCCGACTATCCCTCCATACA 58.371 55.000 0.00 0.0 0.00 2.29 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1506 1526 1.807573 GCTCTTCTCTTCGGTGCCG 60.808 63.158 3.94 3.94 41.35 5.69 R
2325 2376 0.761187 TAGATGATCACAGGGGCAGC 59.239 55.000 0.00 0.00 0.00 5.25 R
3654 3751 0.988832 TCACCCACCCACTTCCATAC 59.011 55.000 0.00 0.00 0.00 2.39 R
4035 4144 1.035139 AAGCTTGAAAGTGGTGGCAG 58.965 50.000 0.00 0.00 0.00 4.85 R
4376 4485 0.534412 CGGACAGATCAAGCAGGACT 59.466 55.000 0.00 0.00 0.00 3.85 R
5842 5992 0.465460 TGCACCAAGTCTTGTGACCC 60.465 55.000 11.61 0.00 43.91 4.46 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
26 27 8.408601 CCATAGTGATAAAATGGGAAGTCAAAG 58.591 37.037 0.00 0.00 37.17 2.77
49 50 5.240623 AGCATCGTTTTTGAGGAACACAATA 59.759 36.000 0.00 0.00 38.93 1.90
52 53 7.753132 GCATCGTTTTTGAGGAACACAATAATA 59.247 33.333 0.00 0.00 38.93 0.98
100 101 7.197071 CTTTATATATAAAGCAACCACCGCA 57.803 36.000 25.10 0.00 41.69 5.69
107 108 2.918345 GCAACCACCGCAGCATCAA 61.918 57.895 0.00 0.00 0.00 2.57
122 123 4.012374 AGCATCAATACAAGAGGTGTTGG 58.988 43.478 4.51 0.00 45.53 3.77
126 127 1.072266 ATACAAGAGGTGTTGGGCCA 58.928 50.000 0.00 0.00 41.98 5.36
185 186 2.359461 GGGGGCTATCCTAGGTAGATCC 60.359 59.091 17.59 16.16 35.33 3.36
207 208 0.465705 ATAGTGGATGTGGCGTCTGG 59.534 55.000 0.00 0.00 0.00 3.86
208 209 2.238847 TAGTGGATGTGGCGTCTGGC 62.239 60.000 0.00 0.00 42.51 4.85
209 210 3.321648 TGGATGTGGCGTCTGGCT 61.322 61.111 0.00 0.00 42.94 4.75
210 211 2.512515 GGATGTGGCGTCTGGCTC 60.513 66.667 0.00 0.00 42.94 4.70
211 212 2.887568 GATGTGGCGTCTGGCTCG 60.888 66.667 0.00 0.00 42.94 5.03
212 213 3.356639 GATGTGGCGTCTGGCTCGA 62.357 63.158 0.00 0.00 42.94 4.04
213 214 2.635229 GATGTGGCGTCTGGCTCGAT 62.635 60.000 0.00 0.00 42.94 3.59
214 215 2.125512 GTGGCGTCTGGCTCGATT 60.126 61.111 0.00 0.00 42.94 3.34
215 216 2.125552 TGGCGTCTGGCTCGATTG 60.126 61.111 0.00 0.00 42.94 2.67
216 217 2.892425 GGCGTCTGGCTCGATTGG 60.892 66.667 0.00 0.00 42.94 3.16
242 243 0.392193 CGCTGAGGAGTGGCTTCAAT 60.392 55.000 0.00 0.00 31.64 2.57
244 245 1.747709 CTGAGGAGTGGCTTCAATGG 58.252 55.000 0.00 0.00 31.64 3.16
247 248 2.027192 TGAGGAGTGGCTTCAATGGTAC 60.027 50.000 0.00 0.00 28.55 3.34
251 252 1.165270 GTGGCTTCAATGGTACGCTT 58.835 50.000 0.00 0.00 0.00 4.68
270 271 4.884247 GCTTCTACAAGGGCGAGTATATT 58.116 43.478 0.00 0.00 0.00 1.28
342 343 3.183793 CATGGAGAATGGATGACGACA 57.816 47.619 0.00 0.00 32.10 4.35
349 350 3.259374 AGAATGGATGACGACAGAAGTGT 59.741 43.478 0.00 0.00 40.71 3.55
376 377 1.548719 CCGTGTGTGTCTATGGGAAGA 59.451 52.381 0.00 0.00 0.00 2.87
398 399 1.374125 GGTTGTTTTGCGGGATGCC 60.374 57.895 0.00 0.00 45.60 4.40
571 588 2.355363 CGTGAGTGGTTTCCGCGA 60.355 61.111 8.23 0.00 39.30 5.87
596 613 1.741770 GTGCCTTGGCTGGTCGTAG 60.742 63.158 13.18 0.00 0.00 3.51
675 692 7.631717 ATCCTGAGGTTTTGATTTAGTTAGC 57.368 36.000 0.00 0.00 0.00 3.09
714 734 8.229253 ACGGTCTAACACTAATATGATGTACA 57.771 34.615 0.00 0.00 0.00 2.90
716 736 7.594015 CGGTCTAACACTAATATGATGTACACC 59.406 40.741 0.00 0.00 0.00 4.16
802 822 1.252904 TACTACCACCACGAGGGCAC 61.253 60.000 3.29 0.00 42.05 5.01
847 867 1.452110 CCACTTGATCACGGATGCAA 58.548 50.000 4.03 0.00 0.00 4.08
864 884 6.456853 CGGATGCAATTATTCATATACCACGG 60.457 42.308 0.00 0.00 0.00 4.94
901 921 1.330829 GTGCGTGCCCTCTATAAAAGC 59.669 52.381 0.00 0.00 0.00 3.51
1191 1211 1.592400 CCGACGTCCAGGTCAAGCTA 61.592 60.000 10.58 0.00 36.73 3.32
1437 1457 0.824759 AGGTCGACATAGTTCCTGCC 59.175 55.000 18.91 0.00 0.00 4.85
1560 1580 5.435291 GAGATGTTGAGAAAGGGTGATGAT 58.565 41.667 0.00 0.00 0.00 2.45
1568 1588 1.899437 AAGGGTGATGATGCGTCGGT 61.899 55.000 0.58 0.00 0.00 4.69
1746 1766 4.401022 TGCTCCATCAACTTGACAAGAAT 58.599 39.130 21.95 9.02 0.00 2.40
1805 1825 6.734104 AGCAGAACTCATTACTGAAATCAC 57.266 37.500 0.00 0.00 34.07 3.06
1939 1963 7.916914 AAGCTAGTATCGTAACCAACATTTT 57.083 32.000 0.00 0.00 0.00 1.82
1983 2008 0.613260 AGCATGTTCCTCGTAAGGCA 59.387 50.000 0.00 0.00 43.02 4.75
2140 2190 7.556733 AACGTCTATTTTGAACCTTTGTGTA 57.443 32.000 0.00 0.00 0.00 2.90
2173 2223 6.761099 ATAGTATTCATCGGCTACCTGTAG 57.239 41.667 0.00 0.00 36.29 2.74
2344 2396 0.761187 GCTGCCCCTGTGATCATCTA 59.239 55.000 0.00 0.00 0.00 1.98
2352 2404 7.754624 TGCCCCTGTGATCATCTATATTTTTA 58.245 34.615 0.00 0.00 0.00 1.52
2353 2405 7.884877 TGCCCCTGTGATCATCTATATTTTTAG 59.115 37.037 0.00 0.00 0.00 1.85
2486 2547 8.479313 AATGCTTTCGGAAATTTAAATTCTCC 57.521 30.769 13.68 18.17 0.00 3.71
2573 2634 8.907222 TTACCGAATTTTAGGTACAAGTCTTT 57.093 30.769 2.25 0.00 42.15 2.52
2586 2647 6.015265 GGTACAAGTCTTTCTCAAGTCTAGGT 60.015 42.308 0.00 0.00 29.33 3.08
2621 2683 6.455360 ACATGTGTTTCTGTTTCTCAACAT 57.545 33.333 0.00 0.00 42.21 2.71
2624 2689 7.489113 ACATGTGTTTCTGTTTCTCAACATTTC 59.511 33.333 0.00 0.00 42.21 2.17
2628 2693 6.806249 TGTTTCTGTTTCTCAACATTTCACAC 59.194 34.615 0.00 0.00 42.21 3.82
2641 2708 9.978044 TCAACATTTCACACAATTCATTGATTA 57.022 25.926 6.53 0.00 40.14 1.75
2674 2741 8.181573 GGTATGTCATGATGTGTCGTTAAATTT 58.818 33.333 0.00 0.00 0.00 1.82
2677 2744 8.942669 TGTCATGATGTGTCGTTAAATTTTAC 57.057 30.769 0.00 0.00 0.00 2.01
2680 2747 8.568794 TCATGATGTGTCGTTAAATTTTACCAA 58.431 29.630 0.00 0.00 0.00 3.67
2684 2751 6.496571 TGTGTCGTTAAATTTTACCAAGTGG 58.503 36.000 0.00 0.00 42.17 4.00
2685 2752 6.318144 TGTGTCGTTAAATTTTACCAAGTGGA 59.682 34.615 3.83 0.00 38.94 4.02
2689 2756 8.938906 GTCGTTAAATTTTACCAAGTGGATCTA 58.061 33.333 3.83 0.00 38.94 1.98
2690 2757 8.938906 TCGTTAAATTTTACCAAGTGGATCTAC 58.061 33.333 3.83 0.00 38.94 2.59
2691 2758 8.179615 CGTTAAATTTTACCAAGTGGATCTACC 58.820 37.037 5.47 0.00 38.94 3.18
2692 2759 8.464404 GTTAAATTTTACCAAGTGGATCTACCC 58.536 37.037 5.47 0.00 38.94 3.69
2694 2761 4.837093 TTTACCAAGTGGATCTACCCTG 57.163 45.455 5.47 3.93 38.94 4.45
2697 2764 1.281867 CCAAGTGGATCTACCCTGCAA 59.718 52.381 5.47 0.00 37.39 4.08
2698 2765 2.290896 CCAAGTGGATCTACCCTGCAAA 60.291 50.000 5.47 0.00 37.39 3.68
2700 2767 3.356529 AGTGGATCTACCCTGCAAAAG 57.643 47.619 5.47 0.00 38.00 2.27
2701 2768 2.912956 AGTGGATCTACCCTGCAAAAGA 59.087 45.455 5.47 0.00 38.00 2.52
2703 2770 4.079253 GTGGATCTACCCTGCAAAAGAAA 58.921 43.478 0.00 0.00 38.00 2.52
2704 2771 4.522789 GTGGATCTACCCTGCAAAAGAAAA 59.477 41.667 0.00 0.00 38.00 2.29
2733 2800 4.764172 AGTGGATCTTAGATGTGTCAAGC 58.236 43.478 0.00 0.00 0.00 4.01
2865 2935 7.999450 AAATTACGGGGTAAAATTAGTCACA 57.001 32.000 0.00 0.00 31.56 3.58
2870 2940 5.130350 CGGGGTAAAATTAGTCACATGGAT 58.870 41.667 0.00 0.00 0.00 3.41
2918 2988 4.225497 GGCACTTCTAAGCCGCAT 57.775 55.556 0.00 0.00 41.70 4.73
2956 3031 3.069016 CACTCCGTGCCCATAGTACATTA 59.931 47.826 0.00 0.00 0.00 1.90
3191 3276 7.067496 AGACGACATATGGGATAAATCTGTT 57.933 36.000 7.80 0.00 0.00 3.16
3317 3402 6.644347 TGAGATGAAACCTCTTTCTATCACC 58.356 40.000 0.00 0.00 37.30 4.02
3318 3403 6.213397 TGAGATGAAACCTCTTTCTATCACCA 59.787 38.462 0.00 0.00 37.30 4.17
3743 3840 7.761704 GGAGAGCAATATTTCGATGAGCTTATA 59.238 37.037 0.00 0.00 0.00 0.98
3781 3878 6.406370 TCCAGACAGTAAATAGTGAATGGTG 58.594 40.000 16.12 0.00 37.22 4.17
3873 3979 4.576053 TCACTTGTTTGTCACATGAAGAGG 59.424 41.667 0.00 0.00 34.43 3.69
3884 3990 6.313658 TGTCACATGAAGAGGATTTTATGACG 59.686 38.462 0.00 0.00 30.92 4.35
3947 4053 1.629043 GCCGACTATCCCTCCATACA 58.371 55.000 0.00 0.00 0.00 2.29
3984 4090 2.636830 CCAAGGTGCTCTCTACAATGG 58.363 52.381 0.00 0.00 0.00 3.16
4025 4134 6.355638 GTCACTTACAGTGTTCAAGAAATCG 58.644 40.000 11.86 0.00 46.03 3.34
4275 4384 4.989279 ACTTTTGAACAGTTGCATCAGT 57.011 36.364 0.00 0.00 0.00 3.41
4329 4438 5.843421 AGAGTACCATATGGCTCTGAGAATT 59.157 40.000 23.63 5.50 34.65 2.17
4340 4449 5.646793 TGGCTCTGAGAATTTGAAATCTCTG 59.353 40.000 9.28 9.00 42.07 3.35
4376 4485 3.679639 CGGTGATTGTCATGTCTCCATCA 60.680 47.826 0.00 0.00 0.00 3.07
4421 4530 1.004560 CGAGCTGAGGTGCCTTGAA 60.005 57.895 0.00 0.00 0.00 2.69
4604 4713 2.412937 GCACCGTATTGCATGGCC 59.587 61.111 0.00 0.00 42.49 5.36
4737 4846 2.031314 CGTCATCTCAACATGGATGTGC 59.969 50.000 0.00 0.00 41.61 4.57
4739 4848 2.011947 CATCTCAACATGGATGTGCGT 58.988 47.619 0.00 0.00 41.61 5.24
4874 4983 0.679002 GAGCCATGCAGAAGCTCCAA 60.679 55.000 19.52 0.00 45.83 3.53
4875 4984 0.680280 AGCCATGCAGAAGCTCCAAG 60.680 55.000 2.27 0.00 42.74 3.61
4898 5007 4.919653 GAGCTGCATCTCGGAACA 57.080 55.556 1.10 0.00 0.00 3.18
4929 5038 3.632643 TGCATCAGTCTGGCTATTTCA 57.367 42.857 0.00 0.00 0.00 2.69
4943 5052 3.258123 GCTATTTCAACTTGGGCTTGGAA 59.742 43.478 0.00 0.00 0.00 3.53
4969 5078 3.914312 TCTCTTCGCTTCAACAGGTAAG 58.086 45.455 0.00 0.00 0.00 2.34
4974 5083 3.766151 TCGCTTCAACAGGTAAGTATCG 58.234 45.455 0.00 0.00 0.00 2.92
4984 5093 7.494625 TCAACAGGTAAGTATCGATTTGGATTC 59.505 37.037 1.71 0.00 0.00 2.52
4998 5107 4.689612 TTGGATTCTTCTAAGGATCGGG 57.310 45.455 5.16 0.00 41.17 5.14
5007 5116 0.105658 TAAGGATCGGGTGGAGGAGG 60.106 60.000 0.00 0.00 0.00 4.30
5012 5121 2.471084 ATCGGGTGGAGGAGGTGGAA 62.471 60.000 0.00 0.00 0.00 3.53
5013 5122 2.221299 CGGGTGGAGGAGGTGGAAA 61.221 63.158 0.00 0.00 0.00 3.13
5034 5143 1.668151 GCGGAGGCTGTTCTTCGTT 60.668 57.895 0.00 0.00 38.01 3.85
5038 5147 2.609737 CGGAGGCTGTTCTTCGTTAAGT 60.610 50.000 0.00 0.00 34.13 2.24
5042 5151 2.096218 GGCTGTTCTTCGTTAAGTGCTG 60.096 50.000 0.00 0.00 34.13 4.41
5086 5195 2.874701 CGCTCTGCTTGCATAAGGTAAT 59.125 45.455 0.00 0.00 34.40 1.89
5088 5197 4.511454 CGCTCTGCTTGCATAAGGTAATTA 59.489 41.667 0.00 0.00 34.40 1.40
5090 5199 6.202226 GCTCTGCTTGCATAAGGTAATTAAC 58.798 40.000 0.00 0.00 34.40 2.01
5095 5204 8.662781 TGCTTGCATAAGGTAATTAACTCTAG 57.337 34.615 2.85 0.00 34.40 2.43
5111 5220 5.950758 ACTCTAGTACTATTGCTGATCCG 57.049 43.478 2.33 0.00 0.00 4.18
5112 5221 5.622180 ACTCTAGTACTATTGCTGATCCGA 58.378 41.667 2.33 0.00 0.00 4.55
5115 5224 7.094549 ACTCTAGTACTATTGCTGATCCGATTC 60.095 40.741 2.33 0.00 0.00 2.52
5116 5225 6.943146 TCTAGTACTATTGCTGATCCGATTCT 59.057 38.462 2.33 0.00 0.00 2.40
5117 5226 6.412362 AGTACTATTGCTGATCCGATTCTT 57.588 37.500 0.00 0.00 0.00 2.52
5118 5227 6.219473 AGTACTATTGCTGATCCGATTCTTG 58.781 40.000 0.00 0.00 0.00 3.02
5119 5228 5.282055 ACTATTGCTGATCCGATTCTTGA 57.718 39.130 0.00 0.00 0.00 3.02
5120 5229 5.295950 ACTATTGCTGATCCGATTCTTGAG 58.704 41.667 0.00 0.00 0.00 3.02
5121 5230 2.609427 TGCTGATCCGATTCTTGAGG 57.391 50.000 0.00 0.00 0.00 3.86
5123 5232 1.473965 GCTGATCCGATTCTTGAGGCA 60.474 52.381 0.00 0.00 0.00 4.75
5125 5234 3.474600 CTGATCCGATTCTTGAGGCAAT 58.525 45.455 0.00 0.00 0.00 3.56
5126 5235 3.208594 TGATCCGATTCTTGAGGCAATG 58.791 45.455 0.00 0.00 0.00 2.82
5128 5237 3.071874 TCCGATTCTTGAGGCAATGTT 57.928 42.857 0.00 0.00 0.00 2.71
5129 5238 2.749076 TCCGATTCTTGAGGCAATGTTG 59.251 45.455 0.00 0.00 0.00 3.33
5149 5258 5.912396 TGTTGCTTACGTCTTTGCTAATTTG 59.088 36.000 0.00 0.00 0.00 2.32
5150 5259 5.041951 TGCTTACGTCTTTGCTAATTTGG 57.958 39.130 0.00 0.00 0.00 3.28
5172 5291 7.786046 TGGTCTCTAGTTAATTACCTTGTGA 57.214 36.000 0.00 0.00 0.00 3.58
5174 5293 8.475639 TGGTCTCTAGTTAATTACCTTGTGATC 58.524 37.037 0.00 1.44 0.00 2.92
5175 5294 8.697292 GGTCTCTAGTTAATTACCTTGTGATCT 58.303 37.037 0.00 0.00 0.00 2.75
5193 5313 7.093354 TGTGATCTCTAGTACTTGCTTTGAAG 58.907 38.462 0.00 0.00 0.00 3.02
5201 5321 9.507329 TCTAGTACTTGCTTTGAAGATTTTCAT 57.493 29.630 0.00 0.00 42.60 2.57
5211 5331 9.578439 GCTTTGAAGATTTTCATAGTATTGCTT 57.422 29.630 14.86 0.00 42.60 3.91
5260 5392 9.570488 GTAATTACATACACTAGCAGTATAGGC 57.430 37.037 10.81 0.00 31.32 3.93
5330 5469 8.867112 TCTCTACCGTTTAGCTTTATTATGTG 57.133 34.615 0.00 0.00 0.00 3.21
5332 5471 9.477484 CTCTACCGTTTAGCTTTATTATGTGAT 57.523 33.333 0.00 0.00 0.00 3.06
5333 5472 9.826574 TCTACCGTTTAGCTTTATTATGTGATT 57.173 29.630 0.00 0.00 0.00 2.57
5334 5473 9.864034 CTACCGTTTAGCTTTATTATGTGATTG 57.136 33.333 0.00 0.00 0.00 2.67
5335 5474 8.276252 ACCGTTTAGCTTTATTATGTGATTGT 57.724 30.769 0.00 0.00 0.00 2.71
5336 5475 8.181573 ACCGTTTAGCTTTATTATGTGATTGTG 58.818 33.333 0.00 0.00 0.00 3.33
5337 5476 8.181573 CCGTTTAGCTTTATTATGTGATTGTGT 58.818 33.333 0.00 0.00 0.00 3.72
5338 5477 9.210426 CGTTTAGCTTTATTATGTGATTGTGTC 57.790 33.333 0.00 0.00 0.00 3.67
5361 5500 4.035112 ACCCGGTTGATTACTCATCCTTA 58.965 43.478 0.00 0.00 38.58 2.69
5362 5501 4.472108 ACCCGGTTGATTACTCATCCTTAA 59.528 41.667 0.00 0.00 38.58 1.85
5363 5502 5.045432 ACCCGGTTGATTACTCATCCTTAAA 60.045 40.000 0.00 0.00 38.58 1.52
5459 5598 1.935873 CTATCACCGAGGTGTGCAATG 59.064 52.381 20.35 4.65 45.55 2.82
5474 5613 2.302157 TGCAATGTTGGATTTGGCATCA 59.698 40.909 0.00 0.00 0.00 3.07
5565 5714 4.603535 AAGCTGGGTGGTGGTGGC 62.604 66.667 0.00 0.00 0.00 5.01
5618 5767 7.361438 TGGTTATTTCCTGGGATTTGATATGT 58.639 34.615 0.00 0.00 0.00 2.29
5827 5977 1.482365 GGGGTTGGTCTGGTTGGAAAT 60.482 52.381 0.00 0.00 0.00 2.17
5842 5992 7.108847 TGGTTGGAAATAATTAGCCCAAAATG 58.891 34.615 14.01 0.00 38.46 2.32
5859 6009 2.276732 ATGGGTCACAAGACTTGGTG 57.723 50.000 19.16 13.92 44.36 4.17
5910 6060 3.825014 ACTTTGCAGCACAGATCTTTCAT 59.175 39.130 15.69 0.00 0.00 2.57
5916 6066 7.812690 TGCAGCACAGATCTTTCATATTTAT 57.187 32.000 0.00 0.00 0.00 1.40
5940 6090 5.702865 TCTGCAAACAATGAAGATAACTGC 58.297 37.500 0.00 0.00 38.91 4.40
5941 6091 5.241285 TCTGCAAACAATGAAGATAACTGCA 59.759 36.000 0.00 0.00 38.91 4.41
5951 6101 6.673154 TGAAGATAACTGCACAATCAGATG 57.327 37.500 0.00 0.00 37.51 2.90
5955 6105 6.175471 AGATAACTGCACAATCAGATGAACA 58.825 36.000 0.00 0.00 37.51 3.18
5981 6132 3.819564 ATAGTTCATAGCGAGCAACCA 57.180 42.857 0.00 0.00 0.00 3.67
6032 6183 5.127356 GTCTGGCACCATCTTAGTAGTAAGT 59.873 44.000 15.43 2.78 37.50 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.880160 TTGACTTCCCATTTTATCACTATGG 57.120 36.000 0.00 0.00 38.82 2.74
1 2 7.917505 GCTTTGACTTCCCATTTTATCACTATG 59.082 37.037 0.00 0.00 0.00 2.23
26 27 3.347958 TGTGTTCCTCAAAAACGATGC 57.652 42.857 0.00 0.00 0.00 3.91
74 75 7.283580 TGCGGTGGTTGCTTTATATATAAAGTT 59.716 33.333 31.63 0.00 46.78 2.66
83 84 1.091537 GCTGCGGTGGTTGCTTTATA 58.908 50.000 0.00 0.00 0.00 0.98
92 93 0.035534 TGTATTGATGCTGCGGTGGT 60.036 50.000 0.00 0.00 0.00 4.16
97 98 2.031314 CACCTCTTGTATTGATGCTGCG 59.969 50.000 0.00 0.00 0.00 5.18
98 99 3.012518 ACACCTCTTGTATTGATGCTGC 58.987 45.455 0.00 0.00 36.32 5.25
99 100 4.142534 CCAACACCTCTTGTATTGATGCTG 60.143 45.833 0.00 0.00 37.51 4.41
100 101 4.012374 CCAACACCTCTTGTATTGATGCT 58.988 43.478 0.00 0.00 37.51 3.79
107 108 1.004745 CTGGCCCAACACCTCTTGTAT 59.995 52.381 0.00 0.00 37.51 2.29
169 170 7.128109 TCCACTATCTGGATCTACCTAGGATAG 59.872 44.444 17.98 13.25 44.99 2.08
185 186 1.410517 AGACGCCACATCCACTATCTG 59.589 52.381 0.00 0.00 0.00 2.90
207 208 0.179108 AGCGGTAAGACCAATCGAGC 60.179 55.000 0.00 0.00 38.47 5.03
208 209 1.134367 TCAGCGGTAAGACCAATCGAG 59.866 52.381 0.00 0.00 38.47 4.04
209 210 1.134367 CTCAGCGGTAAGACCAATCGA 59.866 52.381 0.00 0.00 38.47 3.59
210 211 1.560923 CTCAGCGGTAAGACCAATCG 58.439 55.000 0.00 0.00 38.47 3.34
211 212 1.480954 TCCTCAGCGGTAAGACCAATC 59.519 52.381 0.00 0.00 38.47 2.67
212 213 1.482593 CTCCTCAGCGGTAAGACCAAT 59.517 52.381 0.00 0.00 38.47 3.16
213 214 0.895530 CTCCTCAGCGGTAAGACCAA 59.104 55.000 0.00 0.00 38.47 3.67
214 215 0.251653 ACTCCTCAGCGGTAAGACCA 60.252 55.000 0.00 0.00 38.47 4.02
215 216 0.173708 CACTCCTCAGCGGTAAGACC 59.826 60.000 0.00 0.00 34.05 3.85
216 217 0.173708 CCACTCCTCAGCGGTAAGAC 59.826 60.000 0.00 0.00 0.00 3.01
242 243 0.248289 GCCCTTGTAGAAGCGTACCA 59.752 55.000 0.00 0.00 0.00 3.25
244 245 2.662150 CGCCCTTGTAGAAGCGTAC 58.338 57.895 0.00 0.00 43.45 3.67
270 271 0.869730 GACTTCGCTACCGCCAAAAA 59.130 50.000 0.00 0.00 0.00 1.94
287 288 3.345714 CAATGTTAGCAATTCTCGCGAC 58.654 45.455 3.71 0.00 0.00 5.19
297 298 4.027674 TGGAAGTAGGCAATGTTAGCAA 57.972 40.909 0.00 0.00 0.00 3.91
342 343 6.152323 AGACACACACGGTATATAACACTTCT 59.848 38.462 0.00 0.00 0.00 2.85
349 350 6.069994 TCCCATAGACACACACGGTATATAA 58.930 40.000 0.00 0.00 0.00 0.98
376 377 0.112412 ATCCCGCAAAACAACCTCCT 59.888 50.000 0.00 0.00 0.00 3.69
398 399 7.201679 CCTCAAAGCTGAATAATAGTGTTCCTG 60.202 40.741 0.00 0.00 0.00 3.86
571 588 1.526575 CCAGCCAAGGCACGAAACAT 61.527 55.000 14.40 0.00 44.88 2.71
675 692 2.548875 AGACCGTACTCGCTACTAGTG 58.451 52.381 5.39 0.00 35.54 2.74
697 714 6.485830 AGCTGGTGTACATCATATTAGTGT 57.514 37.500 9.77 0.00 0.00 3.55
698 718 9.494271 AATAAGCTGGTGTACATCATATTAGTG 57.506 33.333 9.77 0.00 0.00 2.74
714 734 4.402474 GGCACCTAAATTGAATAAGCTGGT 59.598 41.667 0.00 0.00 0.00 4.00
716 736 4.335315 TCGGCACCTAAATTGAATAAGCTG 59.665 41.667 0.00 0.00 0.00 4.24
802 822 1.705337 CTAATGCCCACTCGCCAACG 61.705 60.000 0.00 0.00 42.01 4.10
847 867 4.700213 GCAAGCCCGTGGTATATGAATAAT 59.300 41.667 0.00 0.00 0.00 1.28
864 884 0.179225 CACATCACGTAACGCAAGCC 60.179 55.000 0.00 0.00 45.62 4.35
901 921 0.242825 CAGCACAACATTGGCCTCAG 59.757 55.000 3.32 0.00 0.00 3.35
1191 1211 4.431131 CGCACCTCCTTGGCCCAT 62.431 66.667 0.00 0.00 40.22 4.00
1211 1231 2.278206 CGAGATCGTGCGACAGGG 60.278 66.667 0.00 0.00 34.11 4.45
1506 1526 1.807573 GCTCTTCTCTTCGGTGCCG 60.808 63.158 3.94 3.94 41.35 5.69
1560 1580 1.954146 GAGTTGCTTGACCGACGCA 60.954 57.895 0.00 0.00 0.00 5.24
1568 1588 3.326006 AGAGACCATCTTGAGTTGCTTGA 59.674 43.478 0.00 0.00 32.99 3.02
1725 1745 5.159209 CAATTCTTGTCAAGTTGATGGAGC 58.841 41.667 9.18 0.00 0.00 4.70
1746 1766 9.825109 TTTGACTCGTTGATATTATGATACCAA 57.175 29.630 0.00 0.00 0.00 3.67
1896 1920 5.952033 AGCTTACGTTTTAACCACAAACAA 58.048 33.333 0.00 0.00 34.33 2.83
1944 1968 9.231297 ACATGCTCACAATTAGTTGTAAGTAAT 57.769 29.630 2.99 0.05 46.49 1.89
2149 2199 7.159322 CTACAGGTAGCCGATGAATACTATT 57.841 40.000 0.00 0.00 0.00 1.73
2150 2200 6.761099 CTACAGGTAGCCGATGAATACTAT 57.239 41.667 0.00 0.00 0.00 2.12
2181 2231 8.385898 TGTTGTCCTGAAAAACTAATACGAAT 57.614 30.769 0.00 0.00 0.00 3.34
2182 2232 7.789273 TGTTGTCCTGAAAAACTAATACGAA 57.211 32.000 0.00 0.00 0.00 3.85
2304 2355 6.815142 GCAGCAAAATGGATGAACTAGAAAAT 59.185 34.615 0.00 0.00 0.00 1.82
2324 2375 1.225426 GATGATCACAGGGGCAGCA 59.775 57.895 0.00 0.00 0.00 4.41
2325 2376 0.761187 TAGATGATCACAGGGGCAGC 59.239 55.000 0.00 0.00 0.00 5.25
2493 2554 9.090692 CATTGTTTCAGTTTTGAAGATTTCACT 57.909 29.630 0.00 0.00 43.76 3.41
2550 2611 7.222161 AGAAAGACTTGTACCTAAAATTCGGT 58.778 34.615 0.00 0.00 37.31 4.69
2551 2612 7.386848 TGAGAAAGACTTGTACCTAAAATTCGG 59.613 37.037 0.00 0.00 0.00 4.30
2563 2624 7.598759 AACCTAGACTTGAGAAAGACTTGTA 57.401 36.000 0.00 0.00 0.00 2.41
2594 2656 8.465999 TGTTGAGAAACAGAAACACATGTATTT 58.534 29.630 0.73 0.73 0.00 1.40
2641 2708 6.870439 CGACACATCATGACATACCAGAATAT 59.130 38.462 0.00 0.00 0.00 1.28
2674 2741 2.504175 GCAGGGTAGATCCACTTGGTAA 59.496 50.000 0.00 0.00 38.11 2.85
2677 2744 0.911769 TGCAGGGTAGATCCACTTGG 59.088 55.000 0.00 0.00 38.11 3.61
2680 2747 2.912956 TCTTTTGCAGGGTAGATCCACT 59.087 45.455 0.00 0.00 38.11 4.00
2684 2751 7.093945 TGGTAATTTTCTTTTGCAGGGTAGATC 60.094 37.037 0.00 0.00 0.00 2.75
2685 2752 6.723977 TGGTAATTTTCTTTTGCAGGGTAGAT 59.276 34.615 0.00 0.00 0.00 1.98
2689 2756 5.130311 ACTTGGTAATTTTCTTTTGCAGGGT 59.870 36.000 0.00 0.00 0.00 4.34
2690 2757 5.466393 CACTTGGTAATTTTCTTTTGCAGGG 59.534 40.000 0.00 0.00 0.00 4.45
2691 2758 5.466393 CCACTTGGTAATTTTCTTTTGCAGG 59.534 40.000 0.00 0.00 0.00 4.85
2692 2759 6.279882 TCCACTTGGTAATTTTCTTTTGCAG 58.720 36.000 0.00 0.00 36.34 4.41
2694 2761 7.154656 AGATCCACTTGGTAATTTTCTTTTGC 58.845 34.615 0.00 0.00 36.34 3.68
2697 2764 9.807921 TCTAAGATCCACTTGGTAATTTTCTTT 57.192 29.630 0.00 0.00 39.38 2.52
2698 2765 9.981460 ATCTAAGATCCACTTGGTAATTTTCTT 57.019 29.630 0.00 0.00 39.38 2.52
2700 2767 9.178758 ACATCTAAGATCCACTTGGTAATTTTC 57.821 33.333 0.00 0.00 39.38 2.29
2701 2768 8.960591 CACATCTAAGATCCACTTGGTAATTTT 58.039 33.333 0.00 0.00 39.38 1.82
2703 2770 7.633789 ACACATCTAAGATCCACTTGGTAATT 58.366 34.615 0.00 0.00 39.38 1.40
2704 2771 7.092891 TGACACATCTAAGATCCACTTGGTAAT 60.093 37.037 0.00 0.00 39.38 1.89
2745 2815 6.895782 TCCTACATTTACCCTATTGAACCAG 58.104 40.000 0.00 0.00 0.00 4.00
2751 2821 9.167311 GCTCATTATCCTACATTTACCCTATTG 57.833 37.037 0.00 0.00 0.00 1.90
2753 2823 8.686739 AGCTCATTATCCTACATTTACCCTAT 57.313 34.615 0.00 0.00 0.00 2.57
2865 2935 3.144506 CGCAATAAGAGCCTTGATCCAT 58.855 45.455 0.00 0.00 0.00 3.41
2870 2940 1.086696 GCACGCAATAAGAGCCTTGA 58.913 50.000 0.00 0.00 0.00 3.02
2902 2972 1.086696 TTCATGCGGCTTAGAAGTGC 58.913 50.000 0.00 2.80 0.00 4.40
2956 3031 7.309438 GCCTTCACCACAGAAGAGAAAAATATT 60.309 37.037 5.34 0.00 46.18 1.28
3147 3232 9.909644 GTCGTCTATAACAATGATGTACCTATT 57.090 33.333 0.00 0.00 39.40 1.73
3488 3585 3.010696 TGCCCATTGATTGGTACACCTTA 59.989 43.478 0.00 0.00 44.83 2.69
3576 3673 3.361281 AATCTTGAGATGAGCAGGCAA 57.639 42.857 0.00 0.00 34.49 4.52
3654 3751 0.988832 TCACCCACCCACTTCCATAC 59.011 55.000 0.00 0.00 0.00 2.39
3743 3840 4.646492 ACTGTCTGGATCAAGCTTTTGTTT 59.354 37.500 0.00 0.00 0.00 2.83
3873 3979 6.537301 TGACCACCTAATGTCGTCATAAAATC 59.463 38.462 0.00 0.00 34.18 2.17
3884 3990 6.161855 TCATACTCATGACCACCTAATGTC 57.838 41.667 0.00 0.00 36.22 3.06
3900 4006 5.358442 TCTTTACTGGCAGAGACTCATACTC 59.642 44.000 23.66 0.00 34.95 2.59
3947 4053 1.624336 TGGCATCTTCTTGCTTGCTT 58.376 45.000 0.00 0.00 42.38 3.91
3984 4090 2.936993 GTGACCTCACATGGGACATGTC 60.937 54.545 17.91 17.91 45.75 3.06
4025 4134 1.136891 AGTGGTGGCAGCAAAGAAAAC 59.863 47.619 22.39 7.03 0.00 2.43
4035 4144 1.035139 AAGCTTGAAAGTGGTGGCAG 58.965 50.000 0.00 0.00 0.00 4.85
4269 4378 2.349580 CACGCAGATACACCAACTGATG 59.650 50.000 0.00 0.00 34.07 3.07
4270 4379 2.028112 ACACGCAGATACACCAACTGAT 60.028 45.455 0.00 0.00 34.07 2.90
4275 4384 5.726397 ACTATTAACACGCAGATACACCAA 58.274 37.500 0.00 0.00 0.00 3.67
4329 4438 6.698008 TTTCAACTCTTGCAGAGATTTCAA 57.302 33.333 16.81 2.07 45.07 2.69
4340 4449 4.161333 CAATCACCGATTTCAACTCTTGC 58.839 43.478 0.00 0.00 28.87 4.01
4376 4485 0.534412 CGGACAGATCAAGCAGGACT 59.466 55.000 0.00 0.00 0.00 3.85
4600 4709 1.125093 TCTTGGAACCGAAGAGGCCA 61.125 55.000 5.01 0.00 46.52 5.36
4737 4846 0.029700 TGTCGTGGTGTGTGTCTACG 59.970 55.000 0.00 0.00 36.20 3.51
4739 4848 1.607148 CTCTGTCGTGGTGTGTGTCTA 59.393 52.381 0.00 0.00 0.00 2.59
4898 5007 3.256879 CAGACTGATGCATAGTATCCCGT 59.743 47.826 0.00 0.00 0.00 5.28
4907 5016 5.294734 TGAAATAGCCAGACTGATGCATA 57.705 39.130 3.32 0.00 0.00 3.14
4929 5038 2.039418 GAGGTTTTCCAAGCCCAAGTT 58.961 47.619 0.00 0.00 43.73 2.66
4943 5052 3.134458 CTGTTGAAGCGAAGAGAGGTTT 58.866 45.455 0.00 0.00 0.00 3.27
4969 5078 9.145865 GATCCTTAGAAGAATCCAAATCGATAC 57.854 37.037 0.00 0.00 0.00 2.24
4974 5083 5.703130 CCCGATCCTTAGAAGAATCCAAATC 59.297 44.000 0.00 0.00 0.00 2.17
4984 5093 1.689273 CCTCCACCCGATCCTTAGAAG 59.311 57.143 0.00 0.00 0.00 2.85
4998 5107 0.606673 GCAGTTTCCACCTCCTCCAC 60.607 60.000 0.00 0.00 0.00 4.02
5007 5116 2.032681 AGCCTCCGCAGTTTCCAC 59.967 61.111 0.00 0.00 37.52 4.02
5012 5121 0.603975 GAAGAACAGCCTCCGCAGTT 60.604 55.000 0.00 0.00 46.27 3.16
5013 5122 1.004440 GAAGAACAGCCTCCGCAGT 60.004 57.895 0.00 0.00 36.06 4.40
5026 5135 3.462483 TGTCCAGCACTTAACGAAGAA 57.538 42.857 0.00 0.00 36.45 2.52
5027 5136 3.006430 TCATGTCCAGCACTTAACGAAGA 59.994 43.478 0.00 0.00 36.45 2.87
5034 5143 2.575735 TGGGATTCATGTCCAGCACTTA 59.424 45.455 4.85 0.00 40.17 2.24
5038 5147 1.075212 TGTTGGGATTCATGTCCAGCA 59.925 47.619 4.85 8.16 40.17 4.41
5042 5151 1.478105 GGCTTGTTGGGATTCATGTCC 59.522 52.381 0.00 0.00 37.56 4.02
5070 5179 8.265055 ACTAGAGTTAATTACCTTATGCAAGCA 58.735 33.333 0.00 0.00 0.00 3.91
5071 5180 8.664211 ACTAGAGTTAATTACCTTATGCAAGC 57.336 34.615 0.00 0.00 0.00 4.01
5086 5195 7.718314 TCGGATCAGCAATAGTACTAGAGTTAA 59.282 37.037 8.85 0.00 0.00 2.01
5088 5197 6.062749 TCGGATCAGCAATAGTACTAGAGTT 58.937 40.000 8.85 0.00 0.00 3.01
5090 5199 6.751514 ATCGGATCAGCAATAGTACTAGAG 57.248 41.667 8.85 4.53 0.00 2.43
5095 5204 6.216569 TCAAGAATCGGATCAGCAATAGTAC 58.783 40.000 0.00 0.00 0.00 2.73
5100 5209 3.474600 CCTCAAGAATCGGATCAGCAAT 58.525 45.455 0.00 0.00 0.00 3.56
5101 5210 2.910199 CCTCAAGAATCGGATCAGCAA 58.090 47.619 0.00 0.00 0.00 3.91
5102 5211 1.473965 GCCTCAAGAATCGGATCAGCA 60.474 52.381 0.00 0.00 0.00 4.41
5103 5212 1.224965 GCCTCAAGAATCGGATCAGC 58.775 55.000 0.00 0.00 0.00 4.26
5104 5213 2.609427 TGCCTCAAGAATCGGATCAG 57.391 50.000 0.00 0.00 0.00 2.90
5106 5215 3.209410 ACATTGCCTCAAGAATCGGATC 58.791 45.455 0.00 0.00 0.00 3.36
5107 5216 3.287867 ACATTGCCTCAAGAATCGGAT 57.712 42.857 0.00 0.00 0.00 4.18
5108 5217 2.749076 CAACATTGCCTCAAGAATCGGA 59.251 45.455 0.00 0.00 0.00 4.55
5109 5218 3.141002 CAACATTGCCTCAAGAATCGG 57.859 47.619 0.00 0.00 0.00 4.18
5123 5232 5.682943 TTAGCAAAGACGTAAGCAACATT 57.317 34.783 0.00 0.00 45.62 2.71
5125 5234 5.682943 AATTAGCAAAGACGTAAGCAACA 57.317 34.783 0.00 0.00 45.62 3.33
5126 5235 5.342259 CCAAATTAGCAAAGACGTAAGCAAC 59.658 40.000 0.00 0.00 45.62 4.17
5128 5237 4.517453 ACCAAATTAGCAAAGACGTAAGCA 59.483 37.500 0.00 0.00 45.62 3.91
5129 5238 5.043189 ACCAAATTAGCAAAGACGTAAGC 57.957 39.130 0.00 0.00 45.62 3.09
5133 5242 4.642429 AGAGACCAAATTAGCAAAGACGT 58.358 39.130 0.00 0.00 0.00 4.34
5134 5243 5.869888 ACTAGAGACCAAATTAGCAAAGACG 59.130 40.000 0.00 0.00 0.00 4.18
5135 5244 7.674471 AACTAGAGACCAAATTAGCAAAGAC 57.326 36.000 0.00 0.00 0.00 3.01
5136 5245 9.959721 ATTAACTAGAGACCAAATTAGCAAAGA 57.040 29.630 0.00 0.00 0.00 2.52
5140 5249 9.609346 GGTAATTAACTAGAGACCAAATTAGCA 57.391 33.333 0.00 0.00 37.30 3.49
5141 5250 9.833917 AGGTAATTAACTAGAGACCAAATTAGC 57.166 33.333 0.00 6.94 37.47 3.09
5149 5258 8.697292 AGATCACAAGGTAATTAACTAGAGACC 58.303 37.037 2.78 0.00 0.00 3.85
5150 5259 9.738832 GAGATCACAAGGTAATTAACTAGAGAC 57.261 37.037 2.78 2.53 0.00 3.36
5169 5288 7.316640 TCTTCAAAGCAAGTACTAGAGATCAC 58.683 38.462 0.00 0.00 0.00 3.06
5172 5291 9.732130 AAAATCTTCAAAGCAAGTACTAGAGAT 57.268 29.630 0.00 0.00 0.00 2.75
5174 5293 8.993121 TGAAAATCTTCAAAGCAAGTACTAGAG 58.007 33.333 0.00 0.00 38.65 2.43
5175 5294 8.902540 TGAAAATCTTCAAAGCAAGTACTAGA 57.097 30.769 0.00 0.00 38.65 2.43
5238 5370 7.002276 TCAGCCTATACTGCTAGTGTATGTAA 58.998 38.462 15.84 2.00 36.81 2.41
5249 5381 2.702478 TCATGCTTCAGCCTATACTGCT 59.298 45.455 0.00 0.00 41.18 4.24
5255 5387 2.915349 CTGTGTCATGCTTCAGCCTAT 58.085 47.619 0.00 0.00 41.18 2.57
5260 5392 3.332919 ACTTAGCTGTGTCATGCTTCAG 58.667 45.455 0.00 7.84 40.35 3.02
5330 5469 1.821216 ATCAACCGGGTGACACAATC 58.179 50.000 27.89 0.00 0.00 2.67
5332 5471 2.105134 AGTAATCAACCGGGTGACACAA 59.895 45.455 27.89 7.64 0.00 3.33
5333 5472 1.695242 AGTAATCAACCGGGTGACACA 59.305 47.619 27.89 10.16 0.00 3.72
5334 5473 2.289195 TGAGTAATCAACCGGGTGACAC 60.289 50.000 27.89 24.73 0.00 3.67
5335 5474 1.972075 TGAGTAATCAACCGGGTGACA 59.028 47.619 27.89 15.58 0.00 3.58
5336 5475 2.754946 TGAGTAATCAACCGGGTGAC 57.245 50.000 27.89 13.69 0.00 3.67
5337 5476 2.169769 GGATGAGTAATCAACCGGGTGA 59.830 50.000 27.46 27.46 36.98 4.02
5338 5477 2.170607 AGGATGAGTAATCAACCGGGTG 59.829 50.000 15.24 15.24 37.59 4.61
5339 5478 2.478292 AGGATGAGTAATCAACCGGGT 58.522 47.619 13.01 0.00 37.59 5.28
5340 5479 3.560636 AAGGATGAGTAATCAACCGGG 57.439 47.619 13.01 0.00 37.59 5.73
5392 5531 3.181479 CGCTATGCAAAGGGACACTAGTA 60.181 47.826 0.00 0.00 0.00 1.82
5393 5532 2.418746 CGCTATGCAAAGGGACACTAGT 60.419 50.000 0.00 0.00 0.00 2.57
5394 5533 2.205074 CGCTATGCAAAGGGACACTAG 58.795 52.381 0.00 0.00 0.00 2.57
5459 5598 0.798009 CGCGTGATGCCAAATCCAAC 60.798 55.000 0.00 0.00 42.08 3.77
5474 5613 2.223386 ACAATTGTAACACTTTGCGCGT 60.223 40.909 9.97 0.00 0.00 6.01
5788 5938 7.565029 CCAACCCCTTTCCATTAATCTCTAAAT 59.435 37.037 0.00 0.00 0.00 1.40
5799 5949 1.203174 CCAGACCAACCCCTTTCCATT 60.203 52.381 0.00 0.00 0.00 3.16
5842 5992 0.465460 TGCACCAAGTCTTGTGACCC 60.465 55.000 11.61 0.00 43.91 4.46
5859 6009 9.956720 ATATGAAGTTAAAGCAGAATTGTATGC 57.043 29.630 0.00 0.00 42.52 3.14
5890 6040 6.519679 AATATGAAAGATCTGTGCTGCAAA 57.480 33.333 2.77 0.00 0.00 3.68
5916 6066 6.151691 GCAGTTATCTTCATTGTTTGCAGAA 58.848 36.000 0.00 0.00 31.19 3.02
5951 6101 6.128956 GCTCGCTATGAACTATTCAGATGTTC 60.129 42.308 0.00 0.00 43.98 3.18
5955 6105 5.459536 TGCTCGCTATGAACTATTCAGAT 57.540 39.130 0.00 0.00 43.98 2.90
5973 6124 1.471684 CCTTGAAGCTGATGGTTGCTC 59.528 52.381 0.00 0.00 38.75 4.26
5981 6132 4.940046 CAGTCACATAACCTTGAAGCTGAT 59.060 41.667 0.00 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.