Multiple sequence alignment - TraesCS1D01G058100

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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 TraesCS1D01G058100 chr1D 100.000 3179 0 0 1 3179 38293129 38296307 0.000000e+00 5871.0
1 TraesCS1D01G058100 chr1D 96.290 1644 42 12 107 1745 38249484 38251113 0.000000e+00 2680.0
2 TraesCS1D01G058100 chr1D 91.903 988 57 13 1773 2738 38251110 38252096 0.000000e+00 1360.0
3 TraesCS1D01G058100 chr1D 79.094 1325 243 24 948 2258 38655210 38656514 0.000000e+00 881.0
4 TraesCS1D01G058100 chr1D 79.026 1273 241 13 1041 2304 39651489 39652744 0.000000e+00 848.0
5 TraesCS1D01G058100 chr1D 99.099 111 1 0 1 111 148665885 148665775 1.930000e-47 200.0
6 TraesCS1D01G058100 chr1D 96.522 115 4 0 1 115 467112502 467112388 1.160000e-44 191.0
7 TraesCS1D01G058100 chr1D 80.000 225 25 9 2817 3028 38554425 38554642 7.100000e-32 148.0
8 TraesCS1D01G058100 chr1B 93.727 2152 109 14 612 2742 57782313 57784459 0.000000e+00 3203.0
9 TraesCS1D01G058100 chr1B 90.162 1484 133 7 807 2289 58031333 58032804 0.000000e+00 1919.0
10 TraesCS1D01G058100 chr1B 80.081 1235 220 13 965 2195 58752941 58754153 0.000000e+00 894.0
11 TraesCS1D01G058100 chr1B 78.555 1329 236 33 948 2258 58540115 58541412 0.000000e+00 830.0
12 TraesCS1D01G058100 chr1B 86.872 716 81 8 810 1523 58107641 58108345 0.000000e+00 789.0
13 TraesCS1D01G058100 chr1B 92.248 516 31 7 104 613 57781715 57782227 0.000000e+00 723.0
14 TraesCS1D01G058100 chr1B 86.306 628 73 7 807 1432 58080198 58080814 0.000000e+00 671.0
15 TraesCS1D01G058100 chr1B 86.431 339 24 14 2750 3070 57784883 57785217 5.050000e-93 351.0
16 TraesCS1D01G058100 chr1B 89.224 232 24 1 2058 2289 58082250 58082480 4.010000e-74 289.0
17 TraesCS1D01G058100 chr1B 88.793 232 25 1 2058 2289 58108338 58108568 1.870000e-72 283.0
18 TraesCS1D01G058100 chr1B 87.671 73 6 3 666 737 58080073 58080143 7.310000e-12 82.4
19 TraesCS1D01G058100 chr1B 84.932 73 8 3 666 737 58031208 58031278 1.580000e-08 71.3
20 TraesCS1D01G058100 chr1B 97.368 38 1 0 2502 2539 58754462 58754499 7.360000e-07 65.8
21 TraesCS1D01G058100 chr1A 88.992 2362 173 43 145 2438 37465762 37468104 0.000000e+00 2841.0
22 TraesCS1D01G058100 chr1A 81.392 790 118 23 948 1725 38359213 38359985 4.510000e-173 617.0
23 TraesCS1D01G058100 chr1A 80.000 225 25 12 2817 3028 37499853 37500070 7.100000e-32 148.0
24 TraesCS1D01G058100 chr6B 96.639 119 4 0 1 119 92255133 92255251 6.960000e-47 198.0
25 TraesCS1D01G058100 chr6B 80.709 254 32 11 2794 3040 78262222 78261979 7.000000e-42 182.0
26 TraesCS1D01G058100 chr6B 80.315 254 33 11 2794 3040 78306680 78306437 3.260000e-40 176.0
27 TraesCS1D01G058100 chr2D 98.198 111 2 0 1 111 8330455 8330345 9.000000e-46 195.0
28 TraesCS1D01G058100 chr3D 97.368 114 2 1 1 113 598899654 598899541 3.240000e-45 193.0
29 TraesCS1D01G058100 chr5D 95.763 118 4 1 1 117 444786194 444786311 4.190000e-44 189.0
30 TraesCS1D01G058100 chr5A 96.522 115 3 1 3 116 574341190 574341076 4.190000e-44 189.0
31 TraesCS1D01G058100 chr4A 96.522 115 3 1 1 115 12608717 12608830 4.190000e-44 189.0
32 TraesCS1D01G058100 chr4A 95.000 120 5 1 1 120 153048250 153048368 1.510000e-43 187.0
33 TraesCS1D01G058100 chr2A 87.156 109 4 4 3072 3179 765517038 765516939 7.210000e-22 115.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1D01G058100 chr1D 38293129 38296307 3178 False 5871.000000 5871 100.000000 1 3179 1 chr1D.!!$F1 3178
1 TraesCS1D01G058100 chr1D 38249484 38252096 2612 False 2020.000000 2680 94.096500 107 2738 2 chr1D.!!$F5 2631
2 TraesCS1D01G058100 chr1D 38655210 38656514 1304 False 881.000000 881 79.094000 948 2258 1 chr1D.!!$F3 1310
3 TraesCS1D01G058100 chr1D 39651489 39652744 1255 False 848.000000 848 79.026000 1041 2304 1 chr1D.!!$F4 1263
4 TraesCS1D01G058100 chr1B 57781715 57785217 3502 False 1425.666667 3203 90.802000 104 3070 3 chr1B.!!$F2 2966
5 TraesCS1D01G058100 chr1B 58031208 58032804 1596 False 995.150000 1919 87.547000 666 2289 2 chr1B.!!$F3 1623
6 TraesCS1D01G058100 chr1B 58540115 58541412 1297 False 830.000000 830 78.555000 948 2258 1 chr1B.!!$F1 1310
7 TraesCS1D01G058100 chr1B 58107641 58108568 927 False 536.000000 789 87.832500 810 2289 2 chr1B.!!$F5 1479
8 TraesCS1D01G058100 chr1B 58752941 58754499 1558 False 479.900000 894 88.724500 965 2539 2 chr1B.!!$F6 1574
9 TraesCS1D01G058100 chr1B 58080073 58082480 2407 False 347.466667 671 87.733667 666 2289 3 chr1B.!!$F4 1623
10 TraesCS1D01G058100 chr1A 37465762 37468104 2342 False 2841.000000 2841 88.992000 145 2438 1 chr1A.!!$F1 2293
11 TraesCS1D01G058100 chr1A 38359213 38359985 772 False 617.000000 617 81.392000 948 1725 1 chr1A.!!$F3 777

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
27 28 0.179108 GGTCAAAGGACGAGGGATCG 60.179 60.0 0.00 0.00 45.28 3.69 F
476 515 0.322816 TCCCTGCAGGTCTGATTTGC 60.323 55.0 30.63 8.77 38.30 3.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1608 3122 0.179174 CAAATAAGTGCGTTCGCCCC 60.179 55.0 14.44 5.42 0.0 5.80 R
2415 3967 0.385390 CACAACCACAAACAGAGCCC 59.615 55.0 0.00 0.00 0.0 5.19 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
17 18 3.388841 GGAGGCGAGGTCAAAGGA 58.611 61.111 0.00 0.00 0.00 3.36
18 19 1.079057 GGAGGCGAGGTCAAAGGAC 60.079 63.158 0.00 0.00 43.55 3.85
19 20 1.446272 GAGGCGAGGTCAAAGGACG 60.446 63.158 0.00 0.00 45.28 4.79
20 21 1.874345 GAGGCGAGGTCAAAGGACGA 61.874 60.000 0.00 0.00 45.28 4.20
21 22 1.446272 GGCGAGGTCAAAGGACGAG 60.446 63.158 0.00 0.00 45.28 4.18
22 23 1.446272 GCGAGGTCAAAGGACGAGG 60.446 63.158 0.00 0.00 45.28 4.63
23 24 1.215647 CGAGGTCAAAGGACGAGGG 59.784 63.158 0.00 0.00 45.28 4.30
24 25 1.248785 CGAGGTCAAAGGACGAGGGA 61.249 60.000 0.00 0.00 45.28 4.20
25 26 1.196012 GAGGTCAAAGGACGAGGGAT 58.804 55.000 0.00 0.00 45.28 3.85
26 27 1.137282 GAGGTCAAAGGACGAGGGATC 59.863 57.143 0.00 0.00 45.28 3.36
27 28 0.179108 GGTCAAAGGACGAGGGATCG 60.179 60.000 0.00 0.00 45.28 3.69
34 35 4.749323 ACGAGGGATCGTGTGGTA 57.251 55.556 2.00 0.00 45.30 3.25
35 36 2.187073 ACGAGGGATCGTGTGGTAC 58.813 57.895 2.00 0.00 45.30 3.34
36 37 0.323178 ACGAGGGATCGTGTGGTACT 60.323 55.000 2.00 0.00 45.30 2.73
37 38 0.815734 CGAGGGATCGTGTGGTACTT 59.184 55.000 0.00 0.00 0.00 2.24
38 39 1.203994 CGAGGGATCGTGTGGTACTTT 59.796 52.381 0.00 0.00 0.00 2.66
39 40 2.424601 CGAGGGATCGTGTGGTACTTTA 59.575 50.000 0.00 0.00 0.00 1.85
40 41 3.119388 CGAGGGATCGTGTGGTACTTTAA 60.119 47.826 0.00 0.00 0.00 1.52
41 42 4.618927 CGAGGGATCGTGTGGTACTTTAAA 60.619 45.833 0.00 0.00 0.00 1.52
42 43 5.231702 AGGGATCGTGTGGTACTTTAAAA 57.768 39.130 0.00 0.00 0.00 1.52
43 44 5.812286 AGGGATCGTGTGGTACTTTAAAAT 58.188 37.500 0.00 0.00 0.00 1.82
44 45 5.646360 AGGGATCGTGTGGTACTTTAAAATG 59.354 40.000 0.00 0.00 0.00 2.32
45 46 5.644636 GGGATCGTGTGGTACTTTAAAATGA 59.355 40.000 0.00 0.00 0.00 2.57
46 47 6.149807 GGGATCGTGTGGTACTTTAAAATGAA 59.850 38.462 0.00 0.00 0.00 2.57
47 48 7.308710 GGGATCGTGTGGTACTTTAAAATGAAA 60.309 37.037 0.00 0.00 0.00 2.69
48 49 7.749126 GGATCGTGTGGTACTTTAAAATGAAAG 59.251 37.037 0.00 0.00 41.38 2.62
49 50 7.789273 TCGTGTGGTACTTTAAAATGAAAGA 57.211 32.000 3.04 0.00 38.48 2.52
50 51 8.211116 TCGTGTGGTACTTTAAAATGAAAGAA 57.789 30.769 3.04 0.00 38.48 2.52
51 52 8.339714 TCGTGTGGTACTTTAAAATGAAAGAAG 58.660 33.333 3.04 0.00 38.48 2.85
52 53 8.126700 CGTGTGGTACTTTAAAATGAAAGAAGT 58.873 33.333 3.04 0.00 38.48 3.01
60 61 9.628500 ACTTTAAAATGAAAGAAGTAGAGGTGT 57.372 29.630 3.04 0.00 38.48 4.16
61 62 9.884465 CTTTAAAATGAAAGAAGTAGAGGTGTG 57.116 33.333 0.00 0.00 38.48 3.82
62 63 6.884280 AAAATGAAAGAAGTAGAGGTGTGG 57.116 37.500 0.00 0.00 0.00 4.17
63 64 3.402628 TGAAAGAAGTAGAGGTGTGGC 57.597 47.619 0.00 0.00 0.00 5.01
64 65 2.703536 TGAAAGAAGTAGAGGTGTGGCA 59.296 45.455 0.00 0.00 0.00 4.92
65 66 3.244215 TGAAAGAAGTAGAGGTGTGGCAG 60.244 47.826 0.00 0.00 0.00 4.85
66 67 2.016905 AGAAGTAGAGGTGTGGCAGT 57.983 50.000 0.00 0.00 0.00 4.40
67 68 2.330216 AGAAGTAGAGGTGTGGCAGTT 58.670 47.619 0.00 0.00 0.00 3.16
68 69 2.706190 AGAAGTAGAGGTGTGGCAGTTT 59.294 45.455 0.00 0.00 0.00 2.66
69 70 3.136626 AGAAGTAGAGGTGTGGCAGTTTT 59.863 43.478 0.00 0.00 0.00 2.43
70 71 2.851195 AGTAGAGGTGTGGCAGTTTTG 58.149 47.619 0.00 0.00 0.00 2.44
83 84 4.108699 GCAGTTTTGCTTATATGGCACA 57.891 40.909 0.00 0.00 46.95 4.57
84 85 3.859386 GCAGTTTTGCTTATATGGCACAC 59.141 43.478 0.00 5.66 45.13 3.82
85 86 5.483052 GCAGTTTTGCTTATATGGCACACG 61.483 45.833 0.00 0.00 45.13 4.49
86 87 7.826339 GCAGTTTTGCTTATATGGCACACGT 62.826 44.000 0.00 0.00 45.13 4.49
100 101 2.850321 CACACGTGTGCCAAATATCAC 58.150 47.619 33.52 0.00 39.39 3.06
101 102 2.225255 CACACGTGTGCCAAATATCACA 59.775 45.455 33.52 0.00 40.50 3.58
102 103 2.483877 ACACGTGTGCCAAATATCACAG 59.516 45.455 22.71 0.00 43.01 3.66
222 231 0.616111 AGAAGAGACAGGGGCACGAT 60.616 55.000 0.00 0.00 0.00 3.73
372 381 2.171725 GGATACAAGCCGCACCGTC 61.172 63.158 0.00 0.00 0.00 4.79
400 409 2.023673 CATCCTTCGCCTTGCCATTAA 58.976 47.619 0.00 0.00 0.00 1.40
476 515 0.322816 TCCCTGCAGGTCTGATTTGC 60.323 55.000 30.63 8.77 38.30 3.68
529 569 6.918892 TGATTTTCATCCATACGGTTAGTG 57.081 37.500 0.00 0.00 0.00 2.74
597 643 2.611518 ACAGAAATTTCGAGCCGAGAG 58.388 47.619 12.42 0.00 37.14 3.20
656 789 5.979517 ACCAGAAATTTCGAGCTTGAAAAAG 59.020 36.000 28.54 17.20 40.90 2.27
1550 3064 4.922206 ACCAGCAAACTTGAGATATTCCA 58.078 39.130 0.00 0.00 0.00 3.53
1572 3086 2.413453 GTCTGAAAGTTCGACATGGCTC 59.587 50.000 0.00 0.00 33.81 4.70
1608 3122 7.817962 ACCTTGGACCGAGATATAAATATTTCG 59.182 37.037 10.67 13.24 43.12 3.46
1617 3134 5.579511 AGATATAAATATTTCGGGGCGAACG 59.420 40.000 3.39 0.00 45.64 3.95
1839 3360 2.995466 ATGGTCGCTCAATTGTTGTG 57.005 45.000 5.13 6.85 0.00 3.33
1997 3527 2.096218 GGAACTGCGATTATCGGATTGC 60.096 50.000 16.59 6.33 40.01 3.56
2019 3549 3.274601 CCTCGACTTGGAGAGAGGT 57.725 57.895 12.55 0.00 43.82 3.85
2020 3550 1.551452 CCTCGACTTGGAGAGAGGTT 58.449 55.000 12.55 0.00 43.82 3.50
2117 3647 2.198304 GACGCCTTTGGGTGGGATCT 62.198 60.000 0.00 0.00 46.67 2.75
2147 3677 3.003482 GTCTACGTACCATGCTACTCAGG 59.997 52.174 0.00 0.00 0.00 3.86
2284 3825 1.825474 CCGTGTGACTAGTCCAGGAAT 59.175 52.381 23.88 0.00 0.00 3.01
2356 3905 7.112779 CCTAAAACTCTTCACCATGTTCCTAT 58.887 38.462 0.00 0.00 0.00 2.57
2415 3967 5.710513 TGGAAGATTTGATGTGTTCCTTG 57.289 39.130 4.09 0.00 39.18 3.61
2441 3993 2.755655 CTGTTTGTGGTTGTGGTGGTTA 59.244 45.455 0.00 0.00 0.00 2.85
2455 4007 4.260985 TGGTGGTTATACATCAGCACTTG 58.739 43.478 5.89 0.00 40.54 3.16
2478 4030 7.377766 TGCTTATTTCTGTTTGTGGATAGAC 57.622 36.000 0.00 0.00 0.00 2.59
2542 4113 5.480772 CCCTACATTACACCTGGACCTATAG 59.519 48.000 0.00 0.00 0.00 1.31
2549 4120 8.701895 CATTACACCTGGACCTATAGAAACTTA 58.298 37.037 0.00 0.00 0.00 2.24
2619 4190 4.334203 AGAGACGTGTAGTGAGACATGATC 59.666 45.833 0.00 0.00 38.41 2.92
2635 4206 6.789457 AGACATGATCTTAATCCTATGGACCA 59.211 38.462 0.00 0.00 31.62 4.02
2660 4245 2.470983 ATTGCAAAACGATTTGGGGG 57.529 45.000 18.31 0.00 44.93 5.40
2661 4246 1.123928 TTGCAAAACGATTTGGGGGT 58.876 45.000 18.31 0.00 44.93 4.95
2662 4247 1.996798 TGCAAAACGATTTGGGGGTA 58.003 45.000 18.31 0.00 44.93 3.69
2663 4248 2.530701 TGCAAAACGATTTGGGGGTAT 58.469 42.857 18.31 0.00 44.93 2.73
2664 4249 2.494073 TGCAAAACGATTTGGGGGTATC 59.506 45.455 18.31 2.26 44.93 2.24
2666 4251 3.194755 GCAAAACGATTTGGGGGTATCTT 59.805 43.478 18.31 0.00 44.93 2.40
2677 4262 0.250338 GGGTATCTTCCCATGTCGCC 60.250 60.000 0.00 0.00 46.30 5.54
2699 4284 5.694405 GCCCAAATGGTACCAGGGATATTTA 60.694 44.000 32.36 2.94 42.25 1.40
2704 4289 6.947376 ATGGTACCAGGGATATTTACCTAC 57.053 41.667 21.41 0.00 34.71 3.18
2706 4291 4.221482 GGTACCAGGGATATTTACCTACCG 59.779 50.000 7.15 0.00 34.71 4.02
2708 4293 4.301205 ACCAGGGATATTTACCTACCGTT 58.699 43.478 0.00 0.00 34.71 4.44
2731 4316 1.150081 GGGATCCCATGAGCACAGG 59.850 63.158 26.95 0.00 35.81 4.00
2738 4323 3.321039 TCCCATGAGCACAGGAATATCT 58.679 45.455 0.00 0.00 0.00 1.98
2741 4326 3.558746 CCATGAGCACAGGAATATCTCCC 60.559 52.174 0.00 0.00 46.81 4.30
2742 4327 3.051940 TGAGCACAGGAATATCTCCCT 57.948 47.619 0.00 0.00 46.81 4.20
2780 4779 2.116556 TTTTCCCTCCCCGGCAAC 59.883 61.111 0.00 0.00 0.00 4.17
2796 4795 2.171003 GCAACCAAATGAGCCCTAAGT 58.829 47.619 0.00 0.00 0.00 2.24
2835 4836 6.260936 TCTTCTTTAGTTGGCAGAGTTTCTTG 59.739 38.462 0.00 0.00 0.00 3.02
2839 4840 3.070018 AGTTGGCAGAGTTTCTTGATCG 58.930 45.455 0.00 0.00 0.00 3.69
2912 4915 9.768662 AAAGAGATAAATTTGCATGACTTTTGT 57.231 25.926 0.00 0.00 0.00 2.83
2914 4917 7.330208 AGAGATAAATTTGCATGACTTTTGTGC 59.670 33.333 0.00 0.00 39.26 4.57
2915 4918 7.156673 AGATAAATTTGCATGACTTTTGTGCT 58.843 30.769 0.00 0.00 39.52 4.40
2917 4920 8.830201 ATAAATTTGCATGACTTTTGTGCTAA 57.170 26.923 0.00 0.00 39.52 3.09
2920 4923 9.439500 AAATTTGCATGACTTTTGTGCTAATAT 57.561 25.926 0.00 0.00 41.18 1.28
2923 4926 8.464770 TTGCATGACTTTTGTGCTAATATTTC 57.535 30.769 0.00 0.00 39.52 2.17
2924 4927 7.829725 TGCATGACTTTTGTGCTAATATTTCT 58.170 30.769 0.00 0.00 39.52 2.52
2936 4951 9.528489 TGTGCTAATATTTCTTAGTTTTTCCCT 57.472 29.630 0.00 0.00 32.39 4.20
2972 4987 1.585006 CGCTACTCCTTGGTGTCGT 59.415 57.895 0.00 0.00 0.00 4.34
2973 4988 0.732880 CGCTACTCCTTGGTGTCGTG 60.733 60.000 0.00 0.00 0.00 4.35
2974 4989 0.317479 GCTACTCCTTGGTGTCGTGT 59.683 55.000 0.00 0.00 0.00 4.49
2975 4990 1.669211 GCTACTCCTTGGTGTCGTGTC 60.669 57.143 0.00 0.00 0.00 3.67
2976 4991 1.611977 CTACTCCTTGGTGTCGTGTCA 59.388 52.381 0.00 0.00 0.00 3.58
2997 5012 9.788960 GTGTCATTCTCCTTTTATGTAAAATCC 57.211 33.333 0.00 0.00 34.95 3.01
2998 5013 9.753674 TGTCATTCTCCTTTTATGTAAAATCCT 57.246 29.630 0.00 0.00 34.95 3.24
3028 5043 4.370364 ACTTGCTGAAATTTGAACGTGT 57.630 36.364 0.00 0.00 0.00 4.49
3042 5059 2.806608 ACGTGTGTAGTTGGTACCAG 57.193 50.000 15.65 2.44 0.00 4.00
3044 5061 2.223876 ACGTGTGTAGTTGGTACCAGTG 60.224 50.000 15.65 1.36 0.00 3.66
3050 5067 5.105106 TGTGTAGTTGGTACCAGTGATATGG 60.105 44.000 15.65 0.00 46.47 2.74
3064 5081 8.328758 ACCAGTGATATGGAGAAAAGTTCATTA 58.671 33.333 0.00 0.00 43.57 1.90
3070 5087 8.970859 ATATGGAGAAAAGTTCATTACTCCTG 57.029 34.615 0.00 0.00 41.38 3.86
3071 5088 5.560724 TGGAGAAAAGTTCATTACTCCTGG 58.439 41.667 0.00 0.00 41.38 4.45
3072 5089 4.944317 GGAGAAAAGTTCATTACTCCTGGG 59.056 45.833 0.00 0.00 39.50 4.45
3073 5090 5.280521 GGAGAAAAGTTCATTACTCCTGGGA 60.281 44.000 0.00 0.00 39.50 4.37
3074 5091 6.200878 AGAAAAGTTCATTACTCCTGGGAA 57.799 37.500 0.00 0.00 35.54 3.97
3075 5092 6.241645 AGAAAAGTTCATTACTCCTGGGAAG 58.758 40.000 0.00 0.00 35.54 3.46
3076 5093 3.636153 AGTTCATTACTCCTGGGAAGC 57.364 47.619 0.00 0.00 28.23 3.86
3077 5094 2.093447 AGTTCATTACTCCTGGGAAGCG 60.093 50.000 0.00 0.00 28.23 4.68
3078 5095 0.830648 TCATTACTCCTGGGAAGCGG 59.169 55.000 0.00 0.00 0.00 5.52
3079 5096 0.830648 CATTACTCCTGGGAAGCGGA 59.169 55.000 0.00 0.00 0.00 5.54
3080 5097 1.417890 CATTACTCCTGGGAAGCGGAT 59.582 52.381 0.00 0.00 0.00 4.18
3081 5098 1.580059 TTACTCCTGGGAAGCGGATT 58.420 50.000 0.00 0.00 0.00 3.01
3082 5099 2.464796 TACTCCTGGGAAGCGGATTA 57.535 50.000 0.00 0.00 0.00 1.75
3083 5100 1.123928 ACTCCTGGGAAGCGGATTAG 58.876 55.000 0.00 0.00 0.00 1.73
3084 5101 0.394565 CTCCTGGGAAGCGGATTAGG 59.605 60.000 0.00 0.00 0.00 2.69
3085 5102 0.031515 TCCTGGGAAGCGGATTAGGA 60.032 55.000 0.00 0.00 32.25 2.94
3086 5103 0.394565 CCTGGGAAGCGGATTAGGAG 59.605 60.000 0.00 0.00 0.00 3.69
3087 5104 1.123928 CTGGGAAGCGGATTAGGAGT 58.876 55.000 0.00 0.00 0.00 3.85
3088 5105 2.317040 CTGGGAAGCGGATTAGGAGTA 58.683 52.381 0.00 0.00 0.00 2.59
3089 5106 2.036089 CTGGGAAGCGGATTAGGAGTAC 59.964 54.545 0.00 0.00 0.00 2.73
3090 5107 2.317973 GGGAAGCGGATTAGGAGTACT 58.682 52.381 0.00 0.00 0.00 2.73
3091 5108 2.296752 GGGAAGCGGATTAGGAGTACTC 59.703 54.545 14.87 14.87 0.00 2.59
3092 5109 2.957006 GGAAGCGGATTAGGAGTACTCA 59.043 50.000 23.91 4.49 0.00 3.41
3093 5110 3.004944 GGAAGCGGATTAGGAGTACTCAG 59.995 52.174 23.91 7.24 0.00 3.35
3094 5111 2.588620 AGCGGATTAGGAGTACTCAGG 58.411 52.381 23.91 6.04 0.00 3.86
3095 5112 2.091775 AGCGGATTAGGAGTACTCAGGT 60.092 50.000 23.91 10.55 0.00 4.00
3096 5113 2.034812 GCGGATTAGGAGTACTCAGGTG 59.965 54.545 23.91 8.01 0.00 4.00
3097 5114 2.034812 CGGATTAGGAGTACTCAGGTGC 59.965 54.545 23.91 10.82 0.00 5.01
3098 5115 3.301274 GGATTAGGAGTACTCAGGTGCT 58.699 50.000 23.91 13.46 40.96 4.40
3114 5131 3.409026 GTGCTCCACCCTCCTATATTG 57.591 52.381 0.00 0.00 0.00 1.90
3115 5132 2.972713 GTGCTCCACCCTCCTATATTGA 59.027 50.000 0.00 0.00 0.00 2.57
3116 5133 3.391296 GTGCTCCACCCTCCTATATTGAA 59.609 47.826 0.00 0.00 0.00 2.69
3117 5134 4.044308 TGCTCCACCCTCCTATATTGAAA 58.956 43.478 0.00 0.00 0.00 2.69
3118 5135 4.476846 TGCTCCACCCTCCTATATTGAAAA 59.523 41.667 0.00 0.00 0.00 2.29
3119 5136 5.044476 TGCTCCACCCTCCTATATTGAAAAA 60.044 40.000 0.00 0.00 0.00 1.94
3120 5137 6.071320 GCTCCACCCTCCTATATTGAAAAAT 58.929 40.000 0.00 0.00 0.00 1.82
3121 5138 7.147213 TGCTCCACCCTCCTATATTGAAAAATA 60.147 37.037 0.00 0.00 0.00 1.40
3122 5139 7.724061 GCTCCACCCTCCTATATTGAAAAATAA 59.276 37.037 0.00 0.00 0.00 1.40
3123 5140 9.289782 CTCCACCCTCCTATATTGAAAAATAAG 57.710 37.037 0.00 0.00 0.00 1.73
3124 5141 8.787818 TCCACCCTCCTATATTGAAAAATAAGT 58.212 33.333 0.00 0.00 0.00 2.24
3125 5142 9.421399 CCACCCTCCTATATTGAAAAATAAGTT 57.579 33.333 0.00 0.00 0.00 2.66
3156 5173 9.933723 ATTCAAAAAGAAGTCAATAAATCCCAG 57.066 29.630 0.00 0.00 40.15 4.45
3157 5174 8.704849 TCAAAAAGAAGTCAATAAATCCCAGA 57.295 30.769 0.00 0.00 0.00 3.86
3158 5175 9.142014 TCAAAAAGAAGTCAATAAATCCCAGAA 57.858 29.630 0.00 0.00 0.00 3.02
3159 5176 9.762933 CAAAAAGAAGTCAATAAATCCCAGAAA 57.237 29.630 0.00 0.00 0.00 2.52
3161 5178 9.987272 AAAAGAAGTCAATAAATCCCAGAAAAG 57.013 29.630 0.00 0.00 0.00 2.27
3162 5179 8.712228 AAGAAGTCAATAAATCCCAGAAAAGT 57.288 30.769 0.00 0.00 0.00 2.66
3163 5180 8.712228 AGAAGTCAATAAATCCCAGAAAAGTT 57.288 30.769 0.00 0.00 0.00 2.66
3164 5181 9.147732 AGAAGTCAATAAATCCCAGAAAAGTTT 57.852 29.630 0.00 0.00 0.00 2.66
3165 5182 9.764363 GAAGTCAATAAATCCCAGAAAAGTTTT 57.236 29.630 0.00 0.00 0.00 2.43
3167 5184 9.546428 AGTCAATAAATCCCAGAAAAGTTTTTG 57.454 29.630 1.64 3.43 0.00 2.44
3168 5185 9.541143 GTCAATAAATCCCAGAAAAGTTTTTGA 57.459 29.630 1.64 0.00 0.00 2.69
3174 5191 9.460019 AAATCCCAGAAAAGTTTTTGAATCAAA 57.540 25.926 4.03 4.03 0.00 2.69
3175 5192 9.631257 AATCCCAGAAAAGTTTTTGAATCAAAT 57.369 25.926 9.41 0.00 33.19 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.079057 GTCCTTTGACCTCGCCTCC 60.079 63.158 0.00 0.00 35.34 4.30
1 2 1.446272 CGTCCTTTGACCTCGCCTC 60.446 63.158 0.00 0.00 38.32 4.70
2 3 1.878656 CTCGTCCTTTGACCTCGCCT 61.879 60.000 0.00 0.00 38.32 5.52
3 4 1.446272 CTCGTCCTTTGACCTCGCC 60.446 63.158 0.00 0.00 38.32 5.54
4 5 1.446272 CCTCGTCCTTTGACCTCGC 60.446 63.158 0.00 0.00 38.32 5.03
6 7 1.137282 GATCCCTCGTCCTTTGACCTC 59.863 57.143 0.00 0.00 38.32 3.85
7 8 1.196012 GATCCCTCGTCCTTTGACCT 58.804 55.000 0.00 0.00 38.32 3.85
8 9 0.179108 CGATCCCTCGTCCTTTGACC 60.179 60.000 0.00 0.00 40.07 4.02
9 10 3.347411 CGATCCCTCGTCCTTTGAC 57.653 57.895 0.00 0.00 40.07 3.18
19 20 4.460948 TTAAAGTACCACACGATCCCTC 57.539 45.455 0.00 0.00 0.00 4.30
20 21 4.895668 TTTAAAGTACCACACGATCCCT 57.104 40.909 0.00 0.00 0.00 4.20
21 22 5.644636 TCATTTTAAAGTACCACACGATCCC 59.355 40.000 0.00 0.00 0.00 3.85
22 23 6.730960 TCATTTTAAAGTACCACACGATCC 57.269 37.500 0.00 0.00 0.00 3.36
23 24 8.500773 TCTTTCATTTTAAAGTACCACACGATC 58.499 33.333 0.00 0.00 37.65 3.69
24 25 8.385898 TCTTTCATTTTAAAGTACCACACGAT 57.614 30.769 0.00 0.00 37.65 3.73
25 26 7.789273 TCTTTCATTTTAAAGTACCACACGA 57.211 32.000 0.00 0.00 37.65 4.35
26 27 8.126700 ACTTCTTTCATTTTAAAGTACCACACG 58.873 33.333 0.00 0.00 37.65 4.49
34 35 9.628500 ACACCTCTACTTCTTTCATTTTAAAGT 57.372 29.630 0.00 0.00 37.65 2.66
35 36 9.884465 CACACCTCTACTTCTTTCATTTTAAAG 57.116 33.333 0.00 0.00 37.73 1.85
36 37 8.846211 CCACACCTCTACTTCTTTCATTTTAAA 58.154 33.333 0.00 0.00 0.00 1.52
37 38 7.040686 GCCACACCTCTACTTCTTTCATTTTAA 60.041 37.037 0.00 0.00 0.00 1.52
38 39 6.430000 GCCACACCTCTACTTCTTTCATTTTA 59.570 38.462 0.00 0.00 0.00 1.52
39 40 5.241728 GCCACACCTCTACTTCTTTCATTTT 59.758 40.000 0.00 0.00 0.00 1.82
40 41 4.762251 GCCACACCTCTACTTCTTTCATTT 59.238 41.667 0.00 0.00 0.00 2.32
41 42 4.202461 TGCCACACCTCTACTTCTTTCATT 60.202 41.667 0.00 0.00 0.00 2.57
42 43 3.327757 TGCCACACCTCTACTTCTTTCAT 59.672 43.478 0.00 0.00 0.00 2.57
43 44 2.703536 TGCCACACCTCTACTTCTTTCA 59.296 45.455 0.00 0.00 0.00 2.69
44 45 3.244249 ACTGCCACACCTCTACTTCTTTC 60.244 47.826 0.00 0.00 0.00 2.62
45 46 2.706190 ACTGCCACACCTCTACTTCTTT 59.294 45.455 0.00 0.00 0.00 2.52
46 47 2.330216 ACTGCCACACCTCTACTTCTT 58.670 47.619 0.00 0.00 0.00 2.52
47 48 2.016905 ACTGCCACACCTCTACTTCT 57.983 50.000 0.00 0.00 0.00 2.85
48 49 2.841442 AACTGCCACACCTCTACTTC 57.159 50.000 0.00 0.00 0.00 3.01
49 50 3.214328 CAAAACTGCCACACCTCTACTT 58.786 45.455 0.00 0.00 0.00 2.24
50 51 2.851195 CAAAACTGCCACACCTCTACT 58.149 47.619 0.00 0.00 0.00 2.57
51 52 1.266989 GCAAAACTGCCACACCTCTAC 59.733 52.381 0.00 0.00 0.00 2.59
52 53 1.142870 AGCAAAACTGCCACACCTCTA 59.857 47.619 0.00 0.00 34.90 2.43
53 54 0.106519 AGCAAAACTGCCACACCTCT 60.107 50.000 0.00 0.00 34.90 3.69
54 55 0.746659 AAGCAAAACTGCCACACCTC 59.253 50.000 0.00 0.00 34.90 3.85
55 56 2.065899 TAAGCAAAACTGCCACACCT 57.934 45.000 0.00 0.00 34.90 4.00
56 57 4.423732 CATATAAGCAAAACTGCCACACC 58.576 43.478 0.00 0.00 34.90 4.16
57 58 4.423732 CCATATAAGCAAAACTGCCACAC 58.576 43.478 0.00 0.00 34.90 3.82
58 59 3.119173 GCCATATAAGCAAAACTGCCACA 60.119 43.478 0.00 0.00 34.90 4.17
59 60 3.119173 TGCCATATAAGCAAAACTGCCAC 60.119 43.478 0.00 0.00 37.28 5.01
60 61 3.095332 TGCCATATAAGCAAAACTGCCA 58.905 40.909 0.00 0.00 37.28 4.92
61 62 3.119173 TGTGCCATATAAGCAAAACTGCC 60.119 43.478 2.62 0.00 43.02 4.85
62 63 3.859386 GTGTGCCATATAAGCAAAACTGC 59.141 43.478 2.62 0.00 43.02 4.40
63 64 4.097714 CGTGTGCCATATAAGCAAAACTG 58.902 43.478 2.62 0.27 43.02 3.16
64 65 3.756434 ACGTGTGCCATATAAGCAAAACT 59.244 39.130 2.62 0.00 43.02 2.66
65 66 3.851403 CACGTGTGCCATATAAGCAAAAC 59.149 43.478 7.58 4.43 43.02 2.43
66 67 3.504134 ACACGTGTGCCATATAAGCAAAA 59.496 39.130 22.71 0.00 43.02 2.44
67 68 3.078097 ACACGTGTGCCATATAAGCAAA 58.922 40.909 22.71 0.00 43.02 3.68
68 69 2.418280 CACACGTGTGCCATATAAGCAA 59.582 45.455 33.52 0.00 43.02 3.91
69 70 2.006169 CACACGTGTGCCATATAAGCA 58.994 47.619 33.52 0.00 39.39 3.91
70 71 2.737467 CACACGTGTGCCATATAAGC 57.263 50.000 33.52 0.00 39.39 3.09
81 82 2.483877 CTGTGATATTTGGCACACGTGT 59.516 45.455 17.22 17.22 39.86 4.49
82 83 2.483877 ACTGTGATATTTGGCACACGTG 59.516 45.455 15.48 15.48 39.86 4.49
83 84 2.742053 GACTGTGATATTTGGCACACGT 59.258 45.455 0.00 0.00 39.86 4.49
84 85 2.095853 GGACTGTGATATTTGGCACACG 59.904 50.000 0.00 0.00 39.86 4.49
85 86 3.081061 TGGACTGTGATATTTGGCACAC 58.919 45.455 0.00 0.00 39.86 3.82
86 87 3.431673 TGGACTGTGATATTTGGCACA 57.568 42.857 0.00 0.00 42.25 4.57
87 88 6.449635 TTTATGGACTGTGATATTTGGCAC 57.550 37.500 0.00 0.00 35.63 5.01
88 89 8.759481 TTATTTATGGACTGTGATATTTGGCA 57.241 30.769 0.00 0.00 0.00 4.92
190 192 1.079819 TCTTCTTTGCTCGCTCGGG 60.080 57.895 0.00 0.00 0.00 5.14
192 194 0.988439 GTCTCTTCTTTGCTCGCTCG 59.012 55.000 0.00 0.00 0.00 5.03
194 196 1.337635 CCTGTCTCTTCTTTGCTCGCT 60.338 52.381 0.00 0.00 0.00 4.93
222 231 1.002624 GTGGCCTTGTTGGGATCGA 60.003 57.895 3.32 0.00 36.00 3.59
372 381 1.880340 GGCGAAGGATGAGCGACTG 60.880 63.158 0.00 0.00 0.00 3.51
425 435 1.734655 ATATGGCGTGGAGGAGGAAT 58.265 50.000 0.00 0.00 0.00 3.01
426 436 2.248248 CTATATGGCGTGGAGGAGGAA 58.752 52.381 0.00 0.00 0.00 3.36
476 515 1.134280 AGGAAGCAGGACATTCATCGG 60.134 52.381 0.00 0.00 0.00 4.18
597 643 8.097038 TCCATTCAATCTAGGTAGCATATGTTC 58.903 37.037 4.29 0.00 0.00 3.18
887 1043 7.744087 AGAACTTTGCTACACAAATGTATCA 57.256 32.000 0.00 0.00 46.90 2.15
1505 3019 4.079253 ACCAAGTATCAAACCATGGACAC 58.921 43.478 21.47 6.40 37.64 3.67
1550 3064 2.037772 AGCCATGTCGAACTTTCAGACT 59.962 45.455 12.14 0.00 34.32 3.24
1572 3086 1.000163 CGGTCCAAGGTATCATCCTCG 60.000 57.143 0.00 0.00 36.74 4.63
1608 3122 0.179174 CAAATAAGTGCGTTCGCCCC 60.179 55.000 14.44 5.42 0.00 5.80
1617 3134 8.532977 ACAACATTCCATTAACAAATAAGTGC 57.467 30.769 0.00 0.00 0.00 4.40
1839 3360 4.220382 TGACCAAAATCATCCAATGTCCAC 59.780 41.667 0.00 0.00 0.00 4.02
1997 3527 0.677098 TCTCTCCAAGTCGAGGTCGG 60.677 60.000 0.00 0.00 40.29 4.79
2019 3549 4.541705 TCTGGTCATGGAGGAAAACAAAA 58.458 39.130 0.00 0.00 0.00 2.44
2020 3550 4.177537 TCTGGTCATGGAGGAAAACAAA 57.822 40.909 0.00 0.00 0.00 2.83
2117 3647 8.316946 AGTAGCATGGTACGTAGACATAGTATA 58.683 37.037 25.02 2.43 0.00 1.47
2229 3761 8.263854 ACTAGCATAATATACAAGGTGGTTCT 57.736 34.615 0.00 0.00 0.00 3.01
2284 3825 4.138290 TCGACAAAGTAAAAATGGCAGGA 58.862 39.130 0.00 0.00 0.00 3.86
2390 3939 5.824421 AGGAACACATCAAATCTTCCATCT 58.176 37.500 0.00 0.00 34.01 2.90
2391 3940 6.327934 CAAGGAACACATCAAATCTTCCATC 58.672 40.000 0.00 0.00 34.01 3.51
2395 3944 4.619160 GCCCAAGGAACACATCAAATCTTC 60.619 45.833 0.00 0.00 0.00 2.87
2415 3967 0.385390 CACAACCACAAACAGAGCCC 59.615 55.000 0.00 0.00 0.00 5.19
2455 4007 7.377766 TGTCTATCCACAAACAGAAATAAGC 57.622 36.000 0.00 0.00 0.00 3.09
2542 4113 7.269316 CCTGGAGGTATTCTTCTCTAAGTTTC 58.731 42.308 0.00 0.00 34.13 2.78
2601 4172 6.638873 GGATTAAGATCATGTCTCACTACACG 59.361 42.308 0.00 0.00 35.67 4.49
2619 4190 7.094463 GCAATTCTCATGGTCCATAGGATTAAG 60.094 40.741 3.38 1.19 32.73 1.85
2635 4206 4.931002 CCCAAATCGTTTTGCAATTCTCAT 59.069 37.500 12.51 0.00 40.77 2.90
2660 4245 0.468226 TGGGCGACATGGGAAGATAC 59.532 55.000 0.00 0.00 0.00 2.24
2661 4246 1.208706 TTGGGCGACATGGGAAGATA 58.791 50.000 0.00 0.00 0.00 1.98
2662 4247 0.331278 TTTGGGCGACATGGGAAGAT 59.669 50.000 0.00 0.00 0.00 2.40
2663 4248 0.331278 ATTTGGGCGACATGGGAAGA 59.669 50.000 0.00 0.00 0.00 2.87
2664 4249 0.457035 CATTTGGGCGACATGGGAAG 59.543 55.000 0.00 0.00 0.00 3.46
2666 4251 1.379710 CCATTTGGGCGACATGGGA 60.380 57.895 6.77 0.00 34.80 4.37
2674 4259 1.752694 CCCTGGTACCATTTGGGCG 60.753 63.158 21.50 6.44 42.05 6.13
2677 4262 5.773176 GGTAAATATCCCTGGTACCATTTGG 59.227 44.000 16.75 16.13 42.17 3.28
2699 4284 1.133231 GGATCCCCTCTAACGGTAGGT 60.133 57.143 7.84 0.00 0.00 3.08
2704 4289 0.687354 CATGGGATCCCCTCTAACGG 59.313 60.000 28.58 1.21 45.70 4.44
2706 4291 1.349357 GCTCATGGGATCCCCTCTAAC 59.651 57.143 28.58 9.57 45.70 2.34
2708 4293 0.567687 TGCTCATGGGATCCCCTCTA 59.432 55.000 28.58 9.93 45.70 2.43
2724 4309 2.053244 CCAGGGAGATATTCCTGTGCT 58.947 52.381 13.77 0.00 46.75 4.40
2769 4768 1.304052 TCATTTGGTTGCCGGGGAG 60.304 57.895 2.18 0.00 0.00 4.30
2775 4774 1.478105 CTTAGGGCTCATTTGGTTGCC 59.522 52.381 0.00 0.00 44.22 4.52
2835 4836 4.258702 ACATATGCAAGAGTACCCGATC 57.741 45.455 1.58 0.00 0.00 3.69
2896 4899 9.439500 AAATATTAGCACAAAAGTCATGCAAAT 57.561 25.926 0.00 0.00 41.97 2.32
2910 4913 9.528489 AGGGAAAAACTAAGAAATATTAGCACA 57.472 29.630 0.00 0.00 36.42 4.57
2911 4914 9.788960 CAGGGAAAAACTAAGAAATATTAGCAC 57.211 33.333 0.00 0.00 36.42 4.40
2912 4915 8.466798 GCAGGGAAAAACTAAGAAATATTAGCA 58.533 33.333 0.00 0.00 36.42 3.49
2917 4920 8.422577 AGTTGCAGGGAAAAACTAAGAAATAT 57.577 30.769 0.00 0.00 32.48 1.28
2920 4923 6.379988 AGAAGTTGCAGGGAAAAACTAAGAAA 59.620 34.615 0.00 0.00 33.09 2.52
2923 4926 5.523369 CAGAAGTTGCAGGGAAAAACTAAG 58.477 41.667 0.00 0.00 33.09 2.18
2924 4927 5.514274 CAGAAGTTGCAGGGAAAAACTAA 57.486 39.130 0.00 0.00 33.09 2.24
2951 4966 2.509336 CACCAAGGAGTAGCGCCG 60.509 66.667 2.29 0.00 0.00 6.46
2955 4970 0.317479 ACACGACACCAAGGAGTAGC 59.683 55.000 0.00 0.00 0.00 3.58
2957 4972 1.694844 TGACACGACACCAAGGAGTA 58.305 50.000 0.00 0.00 0.00 2.59
2972 4987 9.753674 AGGATTTTACATAAAAGGAGAATGACA 57.246 29.630 3.42 0.00 38.42 3.58
2997 5012 9.897744 TTCAAATTTCAGCAAGTAAATCTGTAG 57.102 29.630 0.00 0.00 0.00 2.74
2998 5013 9.677567 GTTCAAATTTCAGCAAGTAAATCTGTA 57.322 29.630 0.00 0.00 0.00 2.74
2999 5014 7.379529 CGTTCAAATTTCAGCAAGTAAATCTGT 59.620 33.333 0.00 0.00 0.00 3.41
3000 5015 7.379529 ACGTTCAAATTTCAGCAAGTAAATCTG 59.620 33.333 0.00 0.00 0.00 2.90
3028 5043 5.274015 TCCATATCACTGGTACCAACTACA 58.726 41.667 17.11 1.76 37.57 2.74
3042 5059 8.831550 GGAGTAATGAACTTTTCTCCATATCAC 58.168 37.037 15.61 0.00 39.07 3.06
3044 5061 9.050601 CAGGAGTAATGAACTTTTCTCCATATC 57.949 37.037 19.63 2.81 39.07 1.63
3050 5067 5.805728 TCCCAGGAGTAATGAACTTTTCTC 58.194 41.667 0.00 0.00 39.07 2.87
3064 5081 1.123928 CTAATCCGCTTCCCAGGAGT 58.876 55.000 0.00 0.00 40.26 3.85
3070 5087 2.296752 GAGTACTCCTAATCCGCTTCCC 59.703 54.545 12.13 0.00 0.00 3.97
3071 5088 2.957006 TGAGTACTCCTAATCCGCTTCC 59.043 50.000 20.11 0.00 0.00 3.46
3072 5089 3.004944 CCTGAGTACTCCTAATCCGCTTC 59.995 52.174 20.11 0.00 0.00 3.86
3073 5090 2.959707 CCTGAGTACTCCTAATCCGCTT 59.040 50.000 20.11 0.00 0.00 4.68
3074 5091 2.091775 ACCTGAGTACTCCTAATCCGCT 60.092 50.000 20.11 0.00 0.00 5.52
3075 5092 2.034812 CACCTGAGTACTCCTAATCCGC 59.965 54.545 20.11 0.00 0.00 5.54
3076 5093 2.034812 GCACCTGAGTACTCCTAATCCG 59.965 54.545 20.11 3.77 0.00 4.18
3077 5094 3.301274 AGCACCTGAGTACTCCTAATCC 58.699 50.000 20.11 4.67 0.00 3.01
3078 5095 4.577834 GAGCACCTGAGTACTCCTAATC 57.422 50.000 20.11 7.19 31.10 1.75
3094 5111 2.972713 TCAATATAGGAGGGTGGAGCAC 59.027 50.000 0.00 0.00 0.00 4.40
3095 5112 3.344535 TCAATATAGGAGGGTGGAGCA 57.655 47.619 0.00 0.00 0.00 4.26
3096 5113 4.706842 TTTCAATATAGGAGGGTGGAGC 57.293 45.455 0.00 0.00 0.00 4.70
3097 5114 9.289782 CTTATTTTTCAATATAGGAGGGTGGAG 57.710 37.037 0.00 0.00 0.00 3.86
3098 5115 8.787818 ACTTATTTTTCAATATAGGAGGGTGGA 58.212 33.333 0.00 0.00 0.00 4.02
3099 5116 8.996651 ACTTATTTTTCAATATAGGAGGGTGG 57.003 34.615 0.00 0.00 0.00 4.61
3130 5147 9.933723 CTGGGATTTATTGACTTCTTTTTGAAT 57.066 29.630 0.00 0.00 33.71 2.57
3131 5148 9.142014 TCTGGGATTTATTGACTTCTTTTTGAA 57.858 29.630 0.00 0.00 0.00 2.69
3132 5149 8.704849 TCTGGGATTTATTGACTTCTTTTTGA 57.295 30.769 0.00 0.00 0.00 2.69
3133 5150 9.762933 TTTCTGGGATTTATTGACTTCTTTTTG 57.237 29.630 0.00 0.00 0.00 2.44
3135 5152 9.987272 CTTTTCTGGGATTTATTGACTTCTTTT 57.013 29.630 0.00 0.00 0.00 2.27
3136 5153 9.147732 ACTTTTCTGGGATTTATTGACTTCTTT 57.852 29.630 0.00 0.00 0.00 2.52
3137 5154 8.712228 ACTTTTCTGGGATTTATTGACTTCTT 57.288 30.769 0.00 0.00 0.00 2.52
3138 5155 8.712228 AACTTTTCTGGGATTTATTGACTTCT 57.288 30.769 0.00 0.00 0.00 2.85
3139 5156 9.764363 AAAACTTTTCTGGGATTTATTGACTTC 57.236 29.630 0.00 0.00 0.00 3.01
3141 5158 9.546428 CAAAAACTTTTCTGGGATTTATTGACT 57.454 29.630 0.00 0.00 0.00 3.41
3142 5159 9.541143 TCAAAAACTTTTCTGGGATTTATTGAC 57.459 29.630 0.00 0.00 0.00 3.18
3148 5165 9.460019 TTTGATTCAAAAACTTTTCTGGGATTT 57.540 25.926 9.36 0.00 29.89 2.17
3149 5166 9.631257 ATTTGATTCAAAAACTTTTCTGGGATT 57.369 25.926 15.34 0.00 36.90 3.01


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

AutoCloner maintained by Alex Coulton.