Multiple sequence alignment - TraesCS5D01G149000

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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 TraesCS5D01G149000 chr5D 100.000 5101 0 0 1 5101 238122020 238116920 0.000000e+00 9420
1 TraesCS5D01G149000 chr5D 94.954 654 24 6 1 648 70400637 70401287 0.000000e+00 1016
2 TraesCS5D01G149000 chr5D 94.100 661 30 8 1 654 430918615 430917957 0.000000e+00 996
3 TraesCS5D01G149000 chr5A 92.717 2032 100 23 3104 5101 317233106 317235123 0.000000e+00 2889
4 TraesCS5D01G149000 chr5A 92.209 1399 85 9 747 2124 317230685 317232080 0.000000e+00 1958
5 TraesCS5D01G149000 chr5A 91.513 919 65 9 2153 3065 317232196 317233107 0.000000e+00 1253
6 TraesCS5D01G149000 chr5B 94.615 1727 72 12 3104 4821 267754789 267756503 0.000000e+00 2654
7 TraesCS5D01G149000 chr5B 89.245 1497 111 16 650 2124 267752299 267753767 0.000000e+00 1827
8 TraesCS5D01G149000 chr5B 91.077 919 65 14 2153 3065 267753883 267754790 0.000000e+00 1227
9 TraesCS5D01G149000 chr5B 88.235 272 17 2 4830 5101 267756808 267757064 1.380000e-80 311
10 TraesCS5D01G149000 chr2D 96.031 655 21 4 1 650 388078484 388079138 0.000000e+00 1061
11 TraesCS5D01G149000 chr2D 95.859 652 22 4 1 647 417191354 417190703 0.000000e+00 1050
12 TraesCS5D01G149000 chr2D 95.859 652 22 4 1 647 634063215 634063866 0.000000e+00 1050
13 TraesCS5D01G149000 chr7D 95.712 653 22 5 1 648 116648049 116647398 0.000000e+00 1046
14 TraesCS5D01G149000 chr3D 95.566 654 24 4 1 649 478120080 478119427 0.000000e+00 1042
15 TraesCS5D01G149000 chr3D 95.559 653 24 4 1 648 542834540 542833888 0.000000e+00 1040
16 TraesCS5D01G149000 chr4D 95.413 654 23 6 1 648 479372871 479373523 0.000000e+00 1035
17 TraesCS5D01G149000 chr4D 78.912 735 122 18 3187 3897 106683165 106682440 7.730000e-128 468
18 TraesCS5D01G149000 chr4B 78.804 736 121 20 3187 3897 169928922 169929647 3.600000e-126 462
19 TraesCS5D01G149000 chr4A 78.367 735 126 19 3187 3897 469242071 469242796 3.620000e-121 446


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 TraesCS5D01G149000 chr5D 238116920 238122020 5100 True 9420.000000 9420 100.000000 1 5101 1 chr5D.!!$R1 5100
1 TraesCS5D01G149000 chr5D 70400637 70401287 650 False 1016.000000 1016 94.954000 1 648 1 chr5D.!!$F1 647
2 TraesCS5D01G149000 chr5D 430917957 430918615 658 True 996.000000 996 94.100000 1 654 1 chr5D.!!$R2 653
3 TraesCS5D01G149000 chr5A 317230685 317235123 4438 False 2033.333333 2889 92.146333 747 5101 3 chr5A.!!$F1 4354
4 TraesCS5D01G149000 chr5B 267752299 267757064 4765 False 1504.750000 2654 90.793000 650 5101 4 chr5B.!!$F1 4451
5 TraesCS5D01G149000 chr2D 388078484 388079138 654 False 1061.000000 1061 96.031000 1 650 1 chr2D.!!$F1 649
6 TraesCS5D01G149000 chr2D 417190703 417191354 651 True 1050.000000 1050 95.859000 1 647 1 chr2D.!!$R1 646
7 TraesCS5D01G149000 chr2D 634063215 634063866 651 False 1050.000000 1050 95.859000 1 647 1 chr2D.!!$F2 646
8 TraesCS5D01G149000 chr7D 116647398 116648049 651 True 1046.000000 1046 95.712000 1 648 1 chr7D.!!$R1 647
9 TraesCS5D01G149000 chr3D 478119427 478120080 653 True 1042.000000 1042 95.566000 1 649 1 chr3D.!!$R1 648
10 TraesCS5D01G149000 chr3D 542833888 542834540 652 True 1040.000000 1040 95.559000 1 648 1 chr3D.!!$R2 647
11 TraesCS5D01G149000 chr4D 479372871 479373523 652 False 1035.000000 1035 95.413000 1 648 1 chr4D.!!$F1 647
12 TraesCS5D01G149000 chr4D 106682440 106683165 725 True 468.000000 468 78.912000 3187 3897 1 chr4D.!!$R1 710
13 TraesCS5D01G149000 chr4B 169928922 169929647 725 False 462.000000 462 78.804000 3187 3897 1 chr4B.!!$F1 710
14 TraesCS5D01G149000 chr4A 469242071 469242796 725 False 446.000000 446 78.367000 3187 3897 1 chr4A.!!$F1 710

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
943 952 2.094597 CGATTTCTGCAGCAATTTCCCA 60.095 45.455 12.94 0.0 0.00 4.37 F
1356 1369 0.733150 GCCTACAAGTTGATTCCGCC 59.267 55.000 10.54 0.0 0.00 6.13 F
1880 1904 0.749454 CTTGTATGCAGGCCACTCCC 60.749 60.000 5.01 0.0 34.51 4.30 F
3104 3253 0.327576 CCCCTCCACCCCTCACTTAT 60.328 60.000 0.00 0.0 0.00 1.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2460 2603 1.059584 TTGACCAGCCACCTTCCTCA 61.060 55.0 0.00 0.0 0.00 3.86 R
3085 3234 0.327576 ATAAGTGAGGGGTGGAGGGG 60.328 60.0 0.00 0.0 0.00 4.79 R
3240 3391 1.078759 CTTCGTCGTCTGACATGGCC 61.079 60.0 8.73 0.0 45.80 5.36 R
4894 5395 1.089112 TGTCGCATCAGCAAGGAATG 58.911 50.0 0.00 0.0 42.27 2.67 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
583 587 2.546494 GCCGCACAGTGAAAGCAGT 61.546 57.895 4.15 0.00 0.00 4.40
665 673 2.280592 AACAAGGCCGGACACGTC 60.281 61.111 11.69 0.00 38.78 4.34
873 882 2.439104 AATCCGAGCTGCCCTCTCC 61.439 63.158 0.00 0.00 38.49 3.71
891 900 3.654876 CCCCCTGAGGTAAGATCCA 57.345 57.895 0.00 0.00 0.00 3.41
943 952 2.094597 CGATTTCTGCAGCAATTTCCCA 60.095 45.455 12.94 0.00 0.00 4.37
963 972 7.411486 TCCCACAATTTTGTCTGACTTTTTA 57.589 32.000 9.51 0.00 39.91 1.52
1134 1144 2.363680 AGTAGCTGAGCGCACTATGATT 59.636 45.455 11.47 0.00 42.61 2.57
1146 1157 2.735663 CACTATGATTCGCATCTCTGCC 59.264 50.000 0.00 0.00 46.07 4.85
1185 1196 4.455877 CGTTCTTGTAAAGCTGGAGGAATT 59.544 41.667 0.00 0.00 45.70 2.17
1189 1200 7.448748 TCTTGTAAAGCTGGAGGAATTTTAC 57.551 36.000 0.00 0.00 45.70 2.01
1205 1216 5.921962 ATTTTACCCTGGAATTCTGCTTC 57.078 39.130 5.23 0.00 0.00 3.86
1207 1218 0.984230 ACCCTGGAATTCTGCTTCGA 59.016 50.000 5.23 0.00 0.00 3.71
1268 1281 3.558505 GGCGTAATGACATGATTCATGC 58.441 45.455 23.43 16.92 44.80 4.06
1300 1313 6.723298 TTTCATGAAAGTGGTACCATGTTT 57.277 33.333 19.72 19.81 38.00 2.83
1353 1366 7.272978 TCAGTATAAGCCTACAAGTTGATTCC 58.727 38.462 10.54 0.00 0.00 3.01
1355 1368 1.739067 AGCCTACAAGTTGATTCCGC 58.261 50.000 10.54 3.71 0.00 5.54
1356 1369 0.733150 GCCTACAAGTTGATTCCGCC 59.267 55.000 10.54 0.00 0.00 6.13
1357 1370 1.948611 GCCTACAAGTTGATTCCGCCA 60.949 52.381 10.54 0.00 0.00 5.69
1400 1420 0.992695 AAGGCCTCTCACCTTTACCC 59.007 55.000 5.23 0.00 45.39 3.69
1452 1472 3.057315 ACGTTTCATTGGAAGGCAATCAG 60.057 43.478 0.00 0.00 33.82 2.90
1476 1496 7.605691 CAGGATGTTACCTCAAGATTGATATCC 59.394 40.741 0.00 0.00 38.32 2.59
1673 1693 4.268359 CGGAGTGTAGAGTAGGGTAGTTT 58.732 47.826 0.00 0.00 0.00 2.66
1689 1709 6.844388 AGGGTAGTTTGAAGAAAATTTTCCCT 59.156 34.615 24.01 17.40 36.68 4.20
1695 1715 9.201989 AGTTTGAAGAAAATTTTCCCTACTTCT 57.798 29.630 24.01 13.27 37.92 2.85
1697 1717 8.760980 TTGAAGAAAATTTTCCCTACTTCTGA 57.239 30.769 24.01 12.25 37.92 3.27
1699 1719 8.850156 TGAAGAAAATTTTCCCTACTTCTGAAG 58.150 33.333 24.01 15.59 37.92 3.02
1700 1720 7.220741 AGAAAATTTTCCCTACTTCTGAAGC 57.779 36.000 24.01 0.00 37.92 3.86
1721 1741 1.478288 GGAAGGCTGGAGGATTGATGG 60.478 57.143 0.00 0.00 0.00 3.51
1763 1787 4.396166 ACTCTACATAGCCACACATTTTGC 59.604 41.667 0.00 0.00 0.00 3.68
1766 1790 2.162208 ACATAGCCACACATTTTGCTCG 59.838 45.455 0.00 0.00 35.34 5.03
1818 1842 3.584733 ATAAACCCTGGATGAAGGAGC 57.415 47.619 0.00 0.00 40.02 4.70
1838 1862 3.997021 AGCGACAGAACAGAGTTTATTGG 59.003 43.478 0.00 0.00 0.00 3.16
1880 1904 0.749454 CTTGTATGCAGGCCACTCCC 60.749 60.000 5.01 0.00 34.51 4.30
1884 1908 1.410850 TATGCAGGCCACTCCCTAGC 61.411 60.000 5.01 0.00 32.78 3.42
1891 1915 1.908483 CCACTCCCTAGCCCTGTTC 59.092 63.158 0.00 0.00 0.00 3.18
1898 1922 3.186283 TCCCTAGCCCTGTTCACATTAA 58.814 45.455 0.00 0.00 0.00 1.40
1973 2012 2.655090 TTGGCTTCTGTCCAATCACA 57.345 45.000 0.00 0.00 38.57 3.58
1982 2021 1.140652 TGTCCAATCACACTGTCTGCA 59.859 47.619 0.00 0.00 0.00 4.41
1990 2029 6.384224 CAATCACACTGTCTGCACATATTTT 58.616 36.000 0.00 0.00 0.00 1.82
1998 2037 8.124823 CACTGTCTGCACATATTTTTATACCTG 58.875 37.037 0.00 0.00 0.00 4.00
2001 2040 8.673711 TGTCTGCACATATTTTTATACCTGAAC 58.326 33.333 0.00 0.00 0.00 3.18
2029 2068 8.571336 AGAAACATGTAGTTCCATTTTTCTCTG 58.429 33.333 0.00 0.00 43.31 3.35
2051 2090 5.624159 TGATTTCTTGTGGAATGTCTCTGT 58.376 37.500 0.00 0.00 33.53 3.41
2060 2099 2.494073 GGAATGTCTCTGTCCTCGAAGT 59.506 50.000 0.00 0.00 0.00 3.01
2062 2101 3.859411 ATGTCTCTGTCCTCGAAGTTC 57.141 47.619 0.00 0.00 0.00 3.01
2065 2104 3.383505 TGTCTCTGTCCTCGAAGTTCAAA 59.616 43.478 3.32 0.00 0.00 2.69
2090 2129 5.728637 AACTTGAAACCCTGATTTCCATC 57.271 39.130 0.00 0.00 37.72 3.51
2103 2142 6.445357 TGATTTCCATCAGACATGACATTG 57.555 37.500 0.00 0.00 38.57 2.82
2111 2150 2.681848 CAGACATGACATTGGCCTTCTC 59.318 50.000 3.32 0.00 0.00 2.87
2143 2283 8.768501 TGTATCTCATACATCTCCAGTAACTT 57.231 34.615 0.00 0.00 40.60 2.66
2144 2284 9.862149 TGTATCTCATACATCTCCAGTAACTTA 57.138 33.333 0.00 0.00 40.60 2.24
2146 2286 7.825331 TCTCATACATCTCCAGTAACTTAGG 57.175 40.000 0.00 0.00 0.00 2.69
2147 2287 7.355101 TCTCATACATCTCCAGTAACTTAGGT 58.645 38.462 0.00 0.00 0.00 3.08
2148 2288 7.502895 TCTCATACATCTCCAGTAACTTAGGTC 59.497 40.741 0.00 0.00 0.00 3.85
2149 2289 7.123383 TCATACATCTCCAGTAACTTAGGTCA 58.877 38.462 0.00 0.00 0.00 4.02
2150 2290 5.662674 ACATCTCCAGTAACTTAGGTCAC 57.337 43.478 0.00 0.00 0.00 3.67
2151 2291 5.084519 ACATCTCCAGTAACTTAGGTCACA 58.915 41.667 0.00 0.00 0.00 3.58
2152 2292 5.721960 ACATCTCCAGTAACTTAGGTCACAT 59.278 40.000 0.00 0.00 0.00 3.21
2156 2296 5.547465 TCCAGTAACTTAGGTCACATGTTG 58.453 41.667 0.00 0.00 0.00 3.33
2184 2324 3.814842 TGTTGTTCTTAGTGCAGGTGATG 59.185 43.478 0.00 0.00 0.00 3.07
2217 2359 3.242867 TCTCTGGTGTTCCTGATCAGTT 58.757 45.455 21.11 0.00 40.11 3.16
2251 2393 4.966965 TTTTTGGTTGCTCGTTGACTAA 57.033 36.364 0.00 0.00 0.00 2.24
2273 2415 9.313118 ACTAATTCCAAGTTTTCATTTTGTGAC 57.687 29.630 0.00 0.00 36.32 3.67
2286 2429 8.828688 TTCATTTTGTGACATTTATGCATTCA 57.171 26.923 3.54 0.00 36.32 2.57
2358 2501 4.337555 TGTCGTCCTTCCAGTAATAGTAGC 59.662 45.833 0.00 0.00 0.00 3.58
2388 2531 9.429359 CATAACATTACCATTATCTCCAGACTC 57.571 37.037 0.00 0.00 0.00 3.36
2402 2545 1.905215 CAGACTCAGTCCCAATGAGGT 59.095 52.381 0.00 0.00 46.89 3.85
2442 2585 2.026822 TCAGACAATCTCCCCAAAGAGC 60.027 50.000 0.00 0.00 33.66 4.09
2460 2603 5.419239 AGAGCTTAGCTGATTCTGTTCTT 57.581 39.130 13.01 0.00 39.88 2.52
2482 2625 1.179174 GGAAGGTGGCTGGTCAAACC 61.179 60.000 0.00 0.00 39.22 3.27
2505 2648 1.913419 GTGGTGAGTTCCCCTCCAATA 59.087 52.381 0.00 0.00 39.65 1.90
2530 2674 6.754193 TCCCAATTGGAATTTAAGTTGACAC 58.246 36.000 26.60 0.00 41.40 3.67
2557 2701 7.869429 CCAGCTTTATTGAAATGTGAGTTCTTT 59.131 33.333 0.00 0.00 0.00 2.52
2600 2744 5.995055 ACACACAATGTTTTGGTTTTGTTG 58.005 33.333 0.00 0.00 38.98 3.33
2634 2778 4.593956 AGGATGGTCCTCAAAAGAATGTC 58.406 43.478 0.00 0.00 45.66 3.06
2646 2790 4.410492 AAAGAATGTCGATGTTGCAGTC 57.590 40.909 0.00 0.00 0.00 3.51
2668 2812 6.490381 AGTCCTTTTTCTTGGATCAAAGGTAC 59.510 38.462 10.05 10.60 43.96 3.34
2692 2841 8.677148 ACTTCACTACATCAATTTGTTACTGT 57.323 30.769 0.00 0.37 0.00 3.55
2734 2883 4.581868 TCTTTTGGGTATTCACCGGTTAG 58.418 43.478 2.97 0.00 46.86 2.34
2739 2888 3.701040 TGGGTATTCACCGGTTAGACTAC 59.299 47.826 2.97 9.09 46.86 2.73
2745 2894 3.638860 TCACCGGTTAGACTACATCCAT 58.361 45.455 2.97 0.00 0.00 3.41
2838 2987 3.073274 AGCTGTTATTGGTCAAGTCCC 57.927 47.619 0.00 0.00 0.00 4.46
2918 3067 6.749923 AATCTTCAGCCTAGAATGTTTGAC 57.250 37.500 0.00 0.00 0.00 3.18
2922 3071 5.142061 TCAGCCTAGAATGTTTGACGTTA 57.858 39.130 0.00 0.00 0.00 3.18
2930 3079 5.699839 AGAATGTTTGACGTTAAAGATGCC 58.300 37.500 14.83 10.49 0.00 4.40
2937 3086 4.832248 TGACGTTAAAGATGCCATCTCTT 58.168 39.130 7.84 7.39 39.08 2.85
2940 3089 5.942872 ACGTTAAAGATGCCATCTCTTTTG 58.057 37.500 7.84 1.51 41.78 2.44
2942 3091 6.016276 ACGTTAAAGATGCCATCTCTTTTGTT 60.016 34.615 7.84 0.00 41.78 2.83
2943 3092 6.306356 CGTTAAAGATGCCATCTCTTTTGTTG 59.694 38.462 7.84 0.00 41.78 3.33
2944 3093 3.863142 AGATGCCATCTCTTTTGTTGC 57.137 42.857 0.08 0.00 33.42 4.17
2945 3094 3.428532 AGATGCCATCTCTTTTGTTGCT 58.571 40.909 0.08 0.00 33.42 3.91
2946 3095 3.830755 AGATGCCATCTCTTTTGTTGCTT 59.169 39.130 0.08 0.00 33.42 3.91
2947 3096 3.648339 TGCCATCTCTTTTGTTGCTTC 57.352 42.857 0.00 0.00 0.00 3.86
2948 3097 2.957680 TGCCATCTCTTTTGTTGCTTCA 59.042 40.909 0.00 0.00 0.00 3.02
2983 3132 7.336396 ACTAACCAGTGACTAATATTGTTCCC 58.664 38.462 0.00 0.00 32.25 3.97
3029 3178 8.063200 TCTCTAAAGATAAACAAGTCGATCCA 57.937 34.615 0.00 0.00 0.00 3.41
3065 3214 8.135382 ACATACTAAAGGTAGTCACAGTCATT 57.865 34.615 0.00 0.00 41.06 2.57
3066 3215 8.251721 ACATACTAAAGGTAGTCACAGTCATTC 58.748 37.037 0.00 0.00 41.06 2.67
3067 3216 6.919775 ACTAAAGGTAGTCACAGTCATTCT 57.080 37.500 0.00 0.00 35.55 2.40
3068 3217 7.304497 ACTAAAGGTAGTCACAGTCATTCTT 57.696 36.000 0.00 0.00 35.55 2.52
3069 3218 7.155328 ACTAAAGGTAGTCACAGTCATTCTTG 58.845 38.462 0.00 0.00 35.55 3.02
3070 3219 5.552870 AAGGTAGTCACAGTCATTCTTGT 57.447 39.130 0.00 0.00 0.00 3.16
3071 3220 6.665992 AAGGTAGTCACAGTCATTCTTGTA 57.334 37.500 0.00 0.00 0.00 2.41
3072 3221 6.859112 AGGTAGTCACAGTCATTCTTGTAT 57.141 37.500 0.00 0.00 0.00 2.29
3073 3222 7.246171 AGGTAGTCACAGTCATTCTTGTATT 57.754 36.000 0.00 0.00 0.00 1.89
3074 3223 7.680730 AGGTAGTCACAGTCATTCTTGTATTT 58.319 34.615 0.00 0.00 0.00 1.40
3075 3224 8.157476 AGGTAGTCACAGTCATTCTTGTATTTT 58.843 33.333 0.00 0.00 0.00 1.82
3076 3225 8.230486 GGTAGTCACAGTCATTCTTGTATTTTG 58.770 37.037 0.00 0.00 0.00 2.44
3077 3226 8.988934 GTAGTCACAGTCATTCTTGTATTTTGA 58.011 33.333 0.00 0.00 0.00 2.69
3078 3227 7.865707 AGTCACAGTCATTCTTGTATTTTGAC 58.134 34.615 0.00 0.00 37.54 3.18
3079 3228 7.041098 AGTCACAGTCATTCTTGTATTTTGACC 60.041 37.037 0.00 0.00 37.91 4.02
3080 3229 6.206634 TCACAGTCATTCTTGTATTTTGACCC 59.793 38.462 0.00 0.00 37.91 4.46
3081 3230 5.476945 ACAGTCATTCTTGTATTTTGACCCC 59.523 40.000 0.00 0.00 37.91 4.95
3082 3231 5.016831 AGTCATTCTTGTATTTTGACCCCC 58.983 41.667 0.00 0.00 37.91 5.40
3101 3250 4.354943 CCCCCTCCACCCCTCACT 62.355 72.222 0.00 0.00 0.00 3.41
3102 3251 2.204151 CCCCTCCACCCCTCACTT 60.204 66.667 0.00 0.00 0.00 3.16
3103 3252 1.082206 CCCCTCCACCCCTCACTTA 59.918 63.158 0.00 0.00 0.00 2.24
3104 3253 0.327576 CCCCTCCACCCCTCACTTAT 60.328 60.000 0.00 0.00 0.00 1.73
3105 3254 1.132500 CCCTCCACCCCTCACTTATC 58.868 60.000 0.00 0.00 0.00 1.75
3118 3267 7.572861 ACCCCTCACTTATCTATATGGTTTTCT 59.427 37.037 0.00 0.00 0.00 2.52
3155 3306 8.901793 TCTGTTGTCATATAATTGCAAGCATAA 58.098 29.630 4.94 0.00 0.00 1.90
3169 3320 9.757859 ATTGCAAGCATAAAATAATTTCAAACG 57.242 25.926 4.94 0.00 0.00 3.60
3240 3391 2.948115 TCCATGGCATTCCCTTATGTG 58.052 47.619 6.96 0.00 0.00 3.21
3330 3481 4.752101 GGTTCTGGAGGAAATCATATCACG 59.248 45.833 0.00 0.00 35.51 4.35
3541 3697 4.142730 CCAACTGAGCTAATTGTCTTCTGC 60.143 45.833 0.00 0.00 0.00 4.26
3569 3731 5.994668 GGTGGTTTCAAGGATAATGCAAAAA 59.005 36.000 0.00 0.00 0.00 1.94
3655 3827 3.971305 TGTTCCACTTCCTTACTTCAGGA 59.029 43.478 0.00 0.00 41.60 3.86
3700 3872 0.843309 TTCTTGACAAGTCTGGGGCA 59.157 50.000 14.75 0.00 0.00 5.36
3907 4082 6.215845 GCACTCTGTTTTGTGTATTCCAAAT 58.784 36.000 0.00 0.00 36.63 2.32
3998 4173 9.153721 TCCTTGCATAATTCATTCACATTTTTC 57.846 29.630 0.00 0.00 0.00 2.29
3999 4174 9.158233 CCTTGCATAATTCATTCACATTTTTCT 57.842 29.630 0.00 0.00 0.00 2.52
4101 4276 1.213296 TGAGGCTCCCCAGGATTAAC 58.787 55.000 12.86 0.00 0.00 2.01
4180 4355 5.509840 CGCAGTGGATATAGTTAGCTTCCTT 60.510 44.000 0.00 0.00 0.00 3.36
4222 4398 7.575414 TGTGTATTTTCTAAGCCAAACTTCA 57.425 32.000 0.00 0.00 39.97 3.02
4224 4400 6.582672 GTGTATTTTCTAAGCCAAACTTCAGC 59.417 38.462 0.00 0.00 39.97 4.26
4225 4401 4.584327 TTTTCTAAGCCAAACTTCAGCC 57.416 40.909 0.00 0.00 39.97 4.85
4277 4454 3.279434 GCATTCTAAACCCACGGAGATT 58.721 45.455 0.00 0.00 0.00 2.40
4311 4490 1.754803 ACTACTACATGCGCAAGGCTA 59.245 47.619 17.11 0.00 44.05 3.93
4334 4513 8.175716 GCTAATGTTGTACTATCAAACCAGAAC 58.824 37.037 0.00 0.00 0.00 3.01
4360 4539 6.486657 TGTTTCCAGTTTTCTCTGTGAATAGG 59.513 38.462 0.00 0.00 34.24 2.57
4383 4562 4.343239 GCTGGAATTCAGGAAGCCAATAAT 59.657 41.667 7.93 0.00 43.54 1.28
4385 4564 6.040842 GCTGGAATTCAGGAAGCCAATAATAA 59.959 38.462 7.93 0.00 43.54 1.40
4416 4595 9.982651 GCACTACTGTCCATCTAATAAAATCTA 57.017 33.333 0.00 0.00 0.00 1.98
4530 4710 1.359848 CACCGCTGAGGATGTGTAAC 58.640 55.000 3.87 0.00 45.00 2.50
4623 4803 5.756347 TCATTTAAAACGATGGATAGTCGGG 59.244 40.000 0.00 0.00 43.06 5.14
4627 4807 1.996798 ACGATGGATAGTCGGGTGAT 58.003 50.000 0.00 0.00 43.06 3.06
4722 4905 5.129634 TCAAGTGAGTAGAAAATTGTGGCA 58.870 37.500 0.00 0.00 0.00 4.92
4744 4927 9.084533 TGGCAATCCCTTTATATATGGTTTAAC 57.915 33.333 0.00 0.00 0.00 2.01
4750 4933 6.203338 CCCTTTATATATGGTTTAACGCGTGT 59.797 38.462 14.98 5.77 0.00 4.49
4752 4935 8.763356 CCTTTATATATGGTTTAACGCGTGTTA 58.237 33.333 14.98 17.24 39.54 2.41
4770 4953 7.006742 CGCGTGTTACATTTTGTCCTTTATAAC 59.993 37.037 0.00 0.00 0.00 1.89
4812 4996 4.590400 ATTTCGCGAGCATATAGATTGC 57.410 40.909 9.59 0.00 39.70 3.56
4838 5318 5.682049 GCGTTATATCGCGTTTCATATCT 57.318 39.130 12.05 0.00 46.31 1.98
4894 5395 5.811399 TGTATATTGCTTACTGTTGTGCC 57.189 39.130 0.00 0.00 0.00 5.01
4901 5402 2.558359 GCTTACTGTTGTGCCATTCCTT 59.442 45.455 0.00 0.00 0.00 3.36
4924 5425 3.605486 GCTGATGCGACATTTTTGTTCTC 59.395 43.478 0.00 0.00 0.00 2.87
4929 5430 2.223377 GCGACATTTTTGTTCTCGACCT 59.777 45.455 0.00 0.00 0.00 3.85
4931 5432 4.665897 GCGACATTTTTGTTCTCGACCTAC 60.666 45.833 0.00 0.00 0.00 3.18
4932 5433 4.446385 CGACATTTTTGTTCTCGACCTACA 59.554 41.667 0.00 0.00 0.00 2.74
4933 5434 5.120208 CGACATTTTTGTTCTCGACCTACAT 59.880 40.000 0.00 0.00 0.00 2.29
4934 5435 6.309494 CGACATTTTTGTTCTCGACCTACATA 59.691 38.462 0.00 0.00 0.00 2.29
4935 5436 7.010183 CGACATTTTTGTTCTCGACCTACATAT 59.990 37.037 0.00 0.00 0.00 1.78
4954 5458 2.437085 TTCTCATAGTCAGGCCGAGA 57.563 50.000 0.00 0.00 0.00 4.04
4975 5479 4.438346 GCGTCATTGCGTATCCCT 57.562 55.556 3.22 0.00 0.00 4.20
5082 5586 2.036733 GCGAAGTACTGGCCCATACATA 59.963 50.000 14.23 0.00 0.00 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
243 245 2.279451 CGCATCTTCATCGGCCGA 60.279 61.111 33.12 33.12 0.00 5.54
540 544 1.144969 TCGCACGGAACTTAAAGCAG 58.855 50.000 0.00 0.00 0.00 4.24
583 587 0.684805 AAAGTGGCCCGTTTGGTTGA 60.685 50.000 0.00 0.00 36.04 3.18
623 627 2.902846 TTTGGTTGTCCACGGCCG 60.903 61.111 26.86 26.86 44.22 6.13
628 632 1.065109 GGCGTGTTTGGTTGTCCAC 59.935 57.895 0.00 0.00 44.22 4.02
632 640 1.251527 TGTTGGGCGTGTTTGGTTGT 61.252 50.000 0.00 0.00 0.00 3.32
665 673 1.804372 GCATTAGAGGCAGTGTCTCGG 60.804 57.143 18.73 10.96 39.53 4.63
794 803 2.128035 GATACCGATTTCTGCTGGTCG 58.872 52.381 0.00 6.87 35.93 4.79
836 845 2.264480 GGGATTTGGGGTTTGCGC 59.736 61.111 0.00 0.00 0.00 6.09
873 882 2.124560 ATGGATCTTACCTCAGGGGG 57.875 55.000 0.00 0.00 40.03 5.40
905 914 2.364972 TCGATCTGGAGTATCTGGCA 57.635 50.000 0.00 0.00 33.73 4.92
943 952 7.145323 CCCGATAAAAAGTCAGACAAAATTGT 58.855 34.615 2.66 0.00 45.65 2.71
1134 1144 0.179137 CTAACACGGCAGAGATGCGA 60.179 55.000 0.00 0.00 35.24 5.10
1146 1157 5.571741 ACAAGAACGTATCACATCTAACACG 59.428 40.000 0.00 0.00 35.62 4.49
1185 1196 3.008594 TCGAAGCAGAATTCCAGGGTAAA 59.991 43.478 0.65 0.00 0.00 2.01
1189 1200 2.158842 AGATCGAAGCAGAATTCCAGGG 60.159 50.000 0.65 0.00 0.00 4.45
1205 1216 5.106555 ACCAACTTGCAATAGTTTCAGATCG 60.107 40.000 0.00 0.00 36.24 3.69
1207 1218 5.047802 CCACCAACTTGCAATAGTTTCAGAT 60.048 40.000 0.00 0.00 36.24 2.90
1300 1313 7.330262 TCATGTCAGAATAGTTGTATGAAGCA 58.670 34.615 0.00 0.00 0.00 3.91
1353 1366 2.002586 CATACTTGAGGTGACTTGGCG 58.997 52.381 0.00 0.00 44.43 5.69
1355 1368 5.794894 AGTAACATACTTGAGGTGACTTGG 58.205 41.667 0.00 0.00 36.69 3.61
1399 1419 5.233225 CACAGCATACAGATACACCATAGG 58.767 45.833 0.00 0.00 0.00 2.57
1400 1420 5.011023 TCCACAGCATACAGATACACCATAG 59.989 44.000 0.00 0.00 0.00 2.23
1452 1472 7.389053 GTGGATATCAATCTTGAGGTAACATCC 59.611 40.741 4.83 0.00 41.08 3.51
1509 1529 6.758416 TGCAGATGACATAAATCTACTGTGAC 59.242 38.462 0.00 0.00 33.03 3.67
1529 1549 3.726557 ATGGTTGGAGAGAAATGCAGA 57.273 42.857 0.00 0.00 0.00 4.26
1673 1693 8.760980 TTCAGAAGTAGGGAAAATTTTCTTCA 57.239 30.769 25.86 11.44 37.35 3.02
1689 1709 3.834732 GCCTTCCGCTTCAGAAGTA 57.165 52.632 11.94 0.00 39.29 2.24
1699 1719 1.821332 CAATCCTCCAGCCTTCCGC 60.821 63.158 0.00 0.00 37.98 5.54
1700 1720 0.471617 ATCAATCCTCCAGCCTTCCG 59.528 55.000 0.00 0.00 0.00 4.30
1721 1741 4.080863 AGAGTGGGTTTCATCACCAGATAC 60.081 45.833 0.00 0.00 38.79 2.24
1763 1787 8.645730 TCACTATTCTTAGTAGTCTACACGAG 57.354 38.462 12.54 6.83 36.50 4.18
1795 1819 4.103311 GCTCCTTCATCCAGGGTTTATACT 59.897 45.833 0.00 0.00 34.24 2.12
1806 1830 1.066858 GTTCTGTCGCTCCTTCATCCA 60.067 52.381 0.00 0.00 0.00 3.41
1818 1842 4.152402 CCACCAATAAACTCTGTTCTGTCG 59.848 45.833 0.00 0.00 0.00 4.35
1880 1904 5.344743 TCTCTTAATGTGAACAGGGCTAG 57.655 43.478 0.00 0.00 0.00 3.42
1884 1908 3.937706 CTGCTCTCTTAATGTGAACAGGG 59.062 47.826 0.00 0.00 32.10 4.45
1887 1911 4.633126 GCATCTGCTCTCTTAATGTGAACA 59.367 41.667 0.00 0.00 38.21 3.18
1957 1996 2.481952 GACAGTGTGATTGGACAGAAGC 59.518 50.000 0.00 0.00 0.00 3.86
1973 2012 8.046708 TCAGGTATAAAAATATGTGCAGACAGT 58.953 33.333 0.00 0.00 34.87 3.55
2019 2058 8.645110 ACATTCCACAAGAAATCAGAGAAAAAT 58.355 29.630 0.00 0.00 38.21 1.82
2029 2068 5.123027 GGACAGAGACATTCCACAAGAAATC 59.877 44.000 0.00 0.00 38.21 2.17
2051 2090 5.424757 TCAAGTTTCTTTGAACTTCGAGGA 58.575 37.500 0.00 0.00 45.44 3.71
2060 2099 6.790232 ATCAGGGTTTCAAGTTTCTTTGAA 57.210 33.333 0.00 0.00 43.32 2.69
2062 2101 6.479990 GGAAATCAGGGTTTCAAGTTTCTTTG 59.520 38.462 7.28 0.00 39.33 2.77
2065 2104 5.208121 TGGAAATCAGGGTTTCAAGTTTCT 58.792 37.500 7.28 0.00 39.33 2.52
2090 2129 2.681848 GAGAAGGCCAATGTCATGTCTG 59.318 50.000 5.01 0.00 0.00 3.51
2094 2133 2.022195 CAGGAGAAGGCCAATGTCATG 58.978 52.381 5.01 5.69 0.00 3.07
2101 2140 1.661463 ACATCTCAGGAGAAGGCCAA 58.339 50.000 5.01 0.00 41.36 4.52
2103 2142 3.238597 AGATACATCTCAGGAGAAGGCC 58.761 50.000 2.68 0.00 41.36 5.19
2139 2279 3.073062 AGGAGCAACATGTGACCTAAGTT 59.927 43.478 0.00 0.00 34.98 2.66
2140 2280 2.639839 AGGAGCAACATGTGACCTAAGT 59.360 45.455 0.00 0.00 34.98 2.24
2141 2281 3.340814 AGGAGCAACATGTGACCTAAG 57.659 47.619 0.00 0.00 34.98 2.18
2142 2282 3.181445 ACAAGGAGCAACATGTGACCTAA 60.181 43.478 0.00 0.00 35.45 2.69
2143 2283 2.371841 ACAAGGAGCAACATGTGACCTA 59.628 45.455 0.00 0.00 35.45 3.08
2144 2284 1.143684 ACAAGGAGCAACATGTGACCT 59.856 47.619 0.00 3.33 37.22 3.85
2145 2285 1.609208 ACAAGGAGCAACATGTGACC 58.391 50.000 0.00 0.80 0.00 4.02
2146 2286 2.358898 ACAACAAGGAGCAACATGTGAC 59.641 45.455 0.00 0.00 0.00 3.67
2147 2287 2.653726 ACAACAAGGAGCAACATGTGA 58.346 42.857 0.00 0.00 0.00 3.58
2148 2288 3.067180 AGAACAACAAGGAGCAACATGTG 59.933 43.478 0.00 0.00 0.00 3.21
2149 2289 3.290710 AGAACAACAAGGAGCAACATGT 58.709 40.909 0.00 0.00 0.00 3.21
2150 2290 3.996150 AGAACAACAAGGAGCAACATG 57.004 42.857 0.00 0.00 0.00 3.21
2151 2291 5.009010 CACTAAGAACAACAAGGAGCAACAT 59.991 40.000 0.00 0.00 0.00 2.71
2152 2292 4.335315 CACTAAGAACAACAAGGAGCAACA 59.665 41.667 0.00 0.00 0.00 3.33
2156 2296 2.878406 TGCACTAAGAACAACAAGGAGC 59.122 45.455 0.00 0.00 0.00 4.70
2184 2324 4.244425 ACACCAGAGATGTACGATATGC 57.756 45.455 0.00 0.00 0.00 3.14
2190 2330 2.492088 TCAGGAACACCAGAGATGTACG 59.508 50.000 0.00 0.00 0.00 3.67
2191 2331 4.160439 TGATCAGGAACACCAGAGATGTAC 59.840 45.833 0.00 0.00 0.00 2.90
2196 2336 2.894731 ACTGATCAGGAACACCAGAGA 58.105 47.619 26.08 0.00 0.00 3.10
2197 2337 3.692257 AACTGATCAGGAACACCAGAG 57.308 47.619 26.08 0.00 0.00 3.35
2234 2376 3.071479 GGAATTAGTCAACGAGCAACCA 58.929 45.455 0.00 0.00 0.00 3.67
2239 2381 5.358298 AAACTTGGAATTAGTCAACGAGC 57.642 39.130 0.00 0.00 0.00 5.03
2242 2384 8.574196 AAATGAAAACTTGGAATTAGTCAACG 57.426 30.769 0.00 0.00 0.00 4.10
2251 2393 8.735692 AATGTCACAAAATGAAAACTTGGAAT 57.264 26.923 0.00 0.00 39.72 3.01
2337 2480 4.789807 AGCTACTATTACTGGAAGGACGA 58.210 43.478 0.00 0.00 39.30 4.20
2374 2517 4.271807 TGGGACTGAGTCTGGAGATAAT 57.728 45.455 12.92 0.00 32.47 1.28
2388 2531 5.316987 ACTTCTTTAACCTCATTGGGACTG 58.683 41.667 0.00 0.00 41.11 3.51
2402 2545 8.645814 TGTCTGATAGTGGACTACTTCTTTAA 57.354 34.615 0.00 0.00 40.89 1.52
2442 2585 5.728471 TCCTCAAGAACAGAATCAGCTAAG 58.272 41.667 0.00 0.00 0.00 2.18
2460 2603 1.059584 TTGACCAGCCACCTTCCTCA 61.060 55.000 0.00 0.00 0.00 3.86
2482 2625 1.679898 GAGGGGAACTCACCACCAG 59.320 63.158 0.00 0.00 45.85 4.00
2518 2661 6.547880 TCAATAAAGCTGGGTGTCAACTTAAA 59.452 34.615 0.00 0.00 31.19 1.52
2530 2674 5.649782 ACTCACATTTCAATAAAGCTGGG 57.350 39.130 0.00 0.00 0.00 4.45
2557 2701 6.415280 GTGTGTCGTTTAAATTTGTGCATACA 59.585 34.615 0.00 0.00 34.31 2.29
2574 2718 3.859411 AACCAAAACATTGTGTGTCGT 57.141 38.095 0.00 0.00 41.14 4.34
2576 2720 5.854431 ACAAAACCAAAACATTGTGTGTC 57.146 34.783 0.00 0.00 41.14 3.67
2577 2721 5.529060 ACAACAAAACCAAAACATTGTGTGT 59.471 32.000 0.00 0.00 44.84 3.72
2600 2744 2.814336 GGACCATCCTTTGAACACTGAC 59.186 50.000 0.00 0.00 32.53 3.51
2634 2778 3.904136 AGAAAAAGGACTGCAACATCG 57.096 42.857 0.00 0.00 0.00 3.84
2668 2812 9.950680 AAACAGTAACAAATTGATGTAGTGAAG 57.049 29.630 0.00 0.00 32.02 3.02
2721 2870 5.202765 TGGATGTAGTCTAACCGGTGAATA 58.797 41.667 8.52 2.32 0.00 1.75
2728 2877 6.387041 TCAAGTATGGATGTAGTCTAACCG 57.613 41.667 0.00 0.00 0.00 4.44
2745 2894 2.176045 TGAGACCGCTTCCATCAAGTA 58.824 47.619 0.00 0.00 34.13 2.24
2800 2949 3.251972 CAGCTAGCTGAGATATCACGACA 59.748 47.826 36.47 0.00 46.30 4.35
2861 3010 1.425066 ACAGACTGAAGCATGGGGAAA 59.575 47.619 10.08 0.00 0.00 3.13
2865 3014 1.162698 CACACAGACTGAAGCATGGG 58.837 55.000 10.08 0.00 0.00 4.00
2896 3045 4.872691 CGTCAAACATTCTAGGCTGAAGAT 59.127 41.667 0.00 0.00 0.00 2.40
2897 3046 4.245660 CGTCAAACATTCTAGGCTGAAGA 58.754 43.478 0.00 0.00 0.00 2.87
2900 3049 3.678056 ACGTCAAACATTCTAGGCTGA 57.322 42.857 0.00 0.00 0.00 4.26
2912 3061 5.122396 AGAGATGGCATCTTTAACGTCAAAC 59.878 40.000 29.35 12.89 40.38 2.93
2916 3065 5.803020 AAAGAGATGGCATCTTTAACGTC 57.197 39.130 29.35 15.62 43.44 4.34
2918 3067 5.942872 ACAAAAGAGATGGCATCTTTAACG 58.057 37.500 29.35 19.74 44.25 3.18
2922 3071 4.282703 AGCAACAAAAGAGATGGCATCTTT 59.717 37.500 29.35 21.97 46.37 2.52
2930 3079 6.444633 ACTGAATGAAGCAACAAAAGAGATG 58.555 36.000 0.00 0.00 0.00 2.90
2968 3117 6.817184 TGTAGCTGAGGGAACAATATTAGTC 58.183 40.000 0.00 0.00 0.00 2.59
2983 3132 5.845103 AGATGTCTGATGATTGTAGCTGAG 58.155 41.667 0.00 0.00 0.00 3.35
3029 3178 4.161754 ACCTTTAGTATGTCCGCTAAAGCT 59.838 41.667 14.89 3.40 46.14 3.74
3084 3233 2.486410 TAAGTGAGGGGTGGAGGGGG 62.486 65.000 0.00 0.00 0.00 5.40
3085 3234 0.327576 ATAAGTGAGGGGTGGAGGGG 60.328 60.000 0.00 0.00 0.00 4.79
3086 3235 1.132500 GATAAGTGAGGGGTGGAGGG 58.868 60.000 0.00 0.00 0.00 4.30
3087 3236 2.182516 AGATAAGTGAGGGGTGGAGG 57.817 55.000 0.00 0.00 0.00 4.30
3088 3237 5.423610 CCATATAGATAAGTGAGGGGTGGAG 59.576 48.000 0.00 0.00 0.00 3.86
3089 3238 5.162760 ACCATATAGATAAGTGAGGGGTGGA 60.163 44.000 0.00 0.00 0.00 4.02
3090 3239 5.094387 ACCATATAGATAAGTGAGGGGTGG 58.906 45.833 0.00 0.00 0.00 4.61
3091 3240 6.688073 AACCATATAGATAAGTGAGGGGTG 57.312 41.667 0.00 0.00 0.00 4.61
3092 3241 7.572861 AGAAAACCATATAGATAAGTGAGGGGT 59.427 37.037 0.00 0.00 0.00 4.95
3093 3242 7.978925 AGAAAACCATATAGATAAGTGAGGGG 58.021 38.462 0.00 0.00 0.00 4.79
3147 3298 7.737395 TGGCGTTTGAAATTATTTTATGCTTG 58.263 30.769 0.00 0.00 0.00 4.01
3198 3349 1.859302 ACTCGGAGCTTGAGAAGGAT 58.141 50.000 20.11 0.00 36.93 3.24
3240 3391 1.078759 CTTCGTCGTCTGACATGGCC 61.079 60.000 8.73 0.00 45.80 5.36
3455 3611 5.008019 CCTGGAATGTATGTGCTGTCAATAC 59.992 44.000 0.00 0.00 0.00 1.89
3514 3670 3.327757 AGACAATTAGCTCAGTTGGTCCA 59.672 43.478 0.00 0.00 0.00 4.02
3541 3697 2.107950 TATCCTTGAAACCACCGCTG 57.892 50.000 0.00 0.00 0.00 5.18
3569 3731 5.641789 AGTTACTTTACCCAACCTTCTGT 57.358 39.130 0.00 0.00 0.00 3.41
3655 3827 2.949447 ACCAGATCCAAAAGCAACTGT 58.051 42.857 0.00 0.00 0.00 3.55
3700 3872 7.225931 TGAGAAGCGTAAAGAACTGTGTATTTT 59.774 33.333 0.00 0.00 0.00 1.82
3907 4082 1.349688 AGGACAAACTCCACGGCATAA 59.650 47.619 0.00 0.00 42.46 1.90
3998 4173 3.525537 CACTACACCCTGCAGATTACAG 58.474 50.000 17.39 9.04 34.82 2.74
3999 4174 2.354704 GCACTACACCCTGCAGATTACA 60.355 50.000 17.39 0.00 33.31 2.41
4101 4276 4.589216 TTGCTTCAAAATCAGACCAAGG 57.411 40.909 0.00 0.00 0.00 3.61
4180 4355 1.830477 ACAAGCAAGGCACCTTTGAAA 59.170 42.857 0.00 0.00 33.42 2.69
4250 4426 5.197451 TCCGTGGGTTTAGAATGCAATAAT 58.803 37.500 0.00 0.00 0.00 1.28
4251 4427 4.590918 TCCGTGGGTTTAGAATGCAATAA 58.409 39.130 0.00 0.00 0.00 1.40
4252 4428 4.080807 TCTCCGTGGGTTTAGAATGCAATA 60.081 41.667 0.00 0.00 0.00 1.90
4262 4439 2.617021 GGCTCAAATCTCCGTGGGTTTA 60.617 50.000 0.00 0.00 0.00 2.01
4277 4454 4.456535 TGTAGTAGTTTGCAAAGGCTCAA 58.543 39.130 13.26 0.94 41.91 3.02
4311 4490 7.719633 ACAGTTCTGGTTTGATAGTACAACATT 59.280 33.333 4.82 0.00 0.00 2.71
4360 4539 1.549203 TTGGCTTCCTGAATTCCAGC 58.451 50.000 2.27 5.36 41.57 4.85
4383 4562 4.672587 GATGGACAGTAGTGCCATCTTA 57.327 45.455 28.57 7.94 45.05 2.10
4623 4803 4.775236 AGGAAAAGATACTGGAGCATCAC 58.225 43.478 0.00 0.00 36.25 3.06
4627 4807 4.287067 ACAAGAGGAAAAGATACTGGAGCA 59.713 41.667 0.00 0.00 0.00 4.26
4722 4905 7.662669 ACGCGTTAAACCATATATAAAGGGATT 59.337 33.333 5.58 4.99 0.00 3.01
4744 4927 2.961522 AGGACAAAATGTAACACGCG 57.038 45.000 3.53 3.53 0.00 6.01
4750 4933 9.400638 CTTTGCGTTATAAAGGACAAAATGTAA 57.599 29.630 0.52 0.00 32.78 2.41
4752 4935 7.867445 CTTTGCGTTATAAAGGACAAAATGT 57.133 32.000 0.52 0.00 32.78 2.71
4770 4953 2.842208 TCAGTTGTGTTTCCTTTGCG 57.158 45.000 0.00 0.00 0.00 4.85
4782 4966 1.601903 TGCTCGCGAAATTTCAGTTGT 59.398 42.857 17.99 0.00 0.00 3.32
4863 5343 8.391075 ACAGTAAGCAATATACAACAACAACT 57.609 30.769 0.00 0.00 0.00 3.16
4894 5395 1.089112 TGTCGCATCAGCAAGGAATG 58.911 50.000 0.00 0.00 42.27 2.67
4901 5402 3.004629 AGAACAAAAATGTCGCATCAGCA 59.995 39.130 0.00 0.00 42.27 4.41
4924 5425 6.623986 GCCTGACTATGAGAATATGTAGGTCG 60.624 46.154 0.00 0.00 0.00 4.79
4929 5430 5.321927 TCGGCCTGACTATGAGAATATGTA 58.678 41.667 0.00 0.00 0.00 2.29
4931 5432 4.460731 TCTCGGCCTGACTATGAGAATATG 59.539 45.833 0.00 0.00 33.07 1.78
4932 5433 4.461081 GTCTCGGCCTGACTATGAGAATAT 59.539 45.833 15.70 0.00 37.43 1.28
4933 5434 3.821600 GTCTCGGCCTGACTATGAGAATA 59.178 47.826 15.70 0.00 37.43 1.75
4934 5435 2.625790 GTCTCGGCCTGACTATGAGAAT 59.374 50.000 15.70 0.00 37.43 2.40
4935 5436 2.025155 GTCTCGGCCTGACTATGAGAA 58.975 52.381 15.70 0.00 37.43 2.87
4968 5472 3.054802 GTCATCATGGGGATCAGGGATAC 60.055 52.174 0.00 0.00 32.57 2.24
4975 5479 3.657610 ACTACTGTCATCATGGGGATCA 58.342 45.455 0.00 0.00 32.57 2.92
5082 5586 2.282040 GCACTGACTTGGCAGCCT 60.282 61.111 14.15 0.00 39.51 4.58


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

AutoCloner maintained by Alex Coulton.