Multiple sequence alignment - TraesCS1D01G172600

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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 TraesCS1D01G172600 chr1D 100.000 8920 0 0 1 8920 246653235 246644316 0.000000e+00 16473.0
1 TraesCS1D01G172600 chr1D 92.949 156 10 1 3102 3256 156133338 156133493 9.010000e-55 226.0
2 TraesCS1D01G172600 chr1D 91.304 161 12 2 3095 3255 7349697 7349855 1.510000e-52 219.0
3 TraesCS1D01G172600 chr1D 94.737 38 2 0 4828 4865 246648016 246648053 9.670000e-05 60.2
4 TraesCS1D01G172600 chr1D 94.737 38 2 0 5183 5220 246648371 246648408 9.670000e-05 60.2
5 TraesCS1D01G172600 chr1A 96.301 2190 70 5 1001 3179 307707523 307705334 0.000000e+00 3585.0
6 TraesCS1D01G172600 chr1A 96.198 1841 51 10 5218 7053 307703656 307701830 0.000000e+00 2994.0
7 TraesCS1D01G172600 chr1A 97.924 1638 30 3 3192 4829 307705287 307703654 0.000000e+00 2833.0
8 TraesCS1D01G172600 chr1A 95.683 1112 33 4 7248 8347 307701544 307700436 0.000000e+00 1773.0
9 TraesCS1D01G172600 chr1A 92.262 504 36 2 1 503 307709749 307709248 0.000000e+00 712.0
10 TraesCS1D01G172600 chr1A 96.682 211 4 2 7050 7260 307701769 307701562 1.840000e-91 348.0
11 TraesCS1D01G172600 chr1A 92.982 171 10 2 5821 5989 39439008 39438838 1.920000e-61 248.0
12 TraesCS1D01G172600 chr1A 85.024 207 7 3 8345 8549 307700143 307699959 1.180000e-43 189.0
13 TraesCS1D01G172600 chr1A 92.157 102 8 0 4828 4929 525067775 525067876 2.600000e-30 145.0
14 TraesCS1D01G172600 chr1A 91.176 102 9 0 4828 4929 523071587 523071486 1.210000e-28 139.0
15 TraesCS1D01G172600 chr1A 90.361 83 6 2 8683 8763 307699724 307699642 3.410000e-19 108.0
16 TraesCS1D01G172600 chr1A 97.143 35 1 0 5188 5222 523071555 523071589 9.670000e-05 60.2
17 TraesCS1D01G172600 chr1A 97.143 35 1 0 5188 5222 525067807 525067773 9.670000e-05 60.2
18 TraesCS1D01G172600 chr1B 93.679 2294 96 17 5988 8259 331421798 331424064 0.000000e+00 3387.0
19 TraesCS1D01G172600 chr1B 95.681 2084 66 7 1080 3143 331416990 331419069 0.000000e+00 3328.0
20 TraesCS1D01G172600 chr1B 96.823 1637 43 5 3192 4827 331419507 331421135 0.000000e+00 2726.0
21 TraesCS1D01G172600 chr1B 97.006 668 20 0 1 668 331415483 331416150 0.000000e+00 1123.0
22 TraesCS1D01G172600 chr1B 96.214 449 13 1 5220 5664 331421137 331421585 0.000000e+00 732.0
23 TraesCS1D01G172600 chr1B 93.298 373 5 7 727 1085 331416203 331416569 4.740000e-147 532.0
24 TraesCS1D01G172600 chr1B 91.111 90 6 1 8408 8497 331424154 331424241 4.370000e-23 121.0
25 TraesCS1D01G172600 chr1B 86.842 76 5 2 8297 8367 331424066 331424141 7.420000e-11 80.5
26 TraesCS1D01G172600 chr5B 96.717 396 13 0 4827 5222 252280877 252281272 0.000000e+00 660.0
27 TraesCS1D01G172600 chr5B 96.474 397 13 1 4828 5224 252280716 252280321 0.000000e+00 654.0
28 TraesCS1D01G172600 chr5B 94.737 38 2 0 5183 5220 252280915 252280878 9.670000e-05 60.2
29 TraesCS1D01G172600 chrUn 95.109 184 9 0 5039 5222 335352631 335352448 3.150000e-74 291.0
30 TraesCS1D01G172600 chrUn 92.405 158 11 1 3103 3260 126680478 126680634 3.240000e-54 224.0
31 TraesCS1D01G172600 chrUn 94.737 38 2 0 4828 4865 335352450 335352487 9.670000e-05 60.2
32 TraesCS1D01G172600 chr4B 95.109 184 9 0 5039 5222 639736440 639736257 3.150000e-74 291.0
33 TraesCS1D01G172600 chr4B 93.827 162 9 1 5834 5994 406389451 406389290 8.950000e-60 243.0
34 TraesCS1D01G172600 chr4B 92.308 169 12 1 5822 5989 406391219 406391051 1.160000e-58 239.0
35 TraesCS1D01G172600 chr4B 92.308 169 12 1 5822 5989 406391429 406391261 1.160000e-58 239.0
36 TraesCS1D01G172600 chr2B 95.513 156 7 0 5834 5989 265432164 265432009 5.350000e-62 250.0
37 TraesCS1D01G172600 chr6B 92.814 167 11 1 5825 5990 481857847 481858013 3.220000e-59 241.0
38 TraesCS1D01G172600 chr4D 92.308 169 12 1 5822 5989 326382616 326382448 1.160000e-58 239.0
39 TraesCS1D01G172600 chr4D 92.453 159 10 2 3103 3260 74079504 74079347 9.010000e-55 226.0
40 TraesCS1D01G172600 chr2D 90.449 178 14 3 5828 6004 387193857 387193682 1.940000e-56 231.0
41 TraesCS1D01G172600 chr2D 92.903 155 11 0 3101 3255 79056321 79056167 9.010000e-55 226.0
42 TraesCS1D01G172600 chr7B 90.286 175 12 4 3094 3266 78552421 78552592 3.240000e-54 224.0
43 TraesCS1D01G172600 chr3D 92.903 155 10 1 3103 3256 288550458 288550612 3.240000e-54 224.0
44 TraesCS1D01G172600 chr3D 92.308 52 4 0 4828 4879 585041947 585041998 3.450000e-09 75.0
45 TraesCS1D01G172600 chr3A 92.810 153 11 0 3103 3255 582283367 582283215 1.170000e-53 222.0
46 TraesCS1D01G172600 chr4A 85.556 90 11 1 4838 4927 686990427 686990340 9.540000e-15 93.5
47 TraesCS1D01G172600 chr5D 91.489 47 0 1 4828 4870 447435364 447435410 2.690000e-05 62.1


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 TraesCS1D01G172600 chr1D 246644316 246653235 8919 True 16473.000000 16473 100.000000 1 8920 1 chr1D.!!$R1 8919
1 TraesCS1D01G172600 chr1A 307699642 307709749 10107 True 1567.750000 3585 93.804375 1 8763 8 chr1A.!!$R4 8762
2 TraesCS1D01G172600 chr1B 331415483 331424241 8758 False 1503.687500 3387 93.831750 1 8497 8 chr1B.!!$F1 8496
3 TraesCS1D01G172600 chr5B 252280321 252280915 594 True 357.100000 654 95.605500 4828 5224 2 chr5B.!!$R1 396
4 TraesCS1D01G172600 chr4B 406389290 406391429 2139 True 240.333333 243 92.814333 5822 5994 3 chr4B.!!$R2 172

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
799 1741 4.934797 ATCATTTGAGGAGTTTCCCAGA 57.065 40.909 0.00 0.00 37.19 3.86 F
1149 2862 0.105709 CCTCTTCCTCCTCCTCCTCC 60.106 65.000 0.00 0.00 0.00 4.30 F
2143 3856 0.313043 GCAGTGAGCAACAGCAATGT 59.687 50.000 0.00 0.00 44.79 2.71 F
3557 5691 0.509499 GCATTGTGTTGTGTGCATGC 59.491 50.000 11.82 11.82 37.52 4.06 F
4198 6332 0.179129 GTCCATTGCGCATTTCCTGG 60.179 55.000 12.75 13.54 0.00 4.45 F
5024 7159 0.038343 GCATGCAAATGTGAACGGGT 60.038 50.000 14.21 0.00 0.00 5.28 F
5126 7261 0.955178 ATCGCTGATAGGTGGAGACG 59.045 55.000 0.00 0.00 0.00 4.18 F
5711 7902 1.067295 TCACTTCACATTGGCCTCCT 58.933 50.000 3.32 0.00 0.00 3.69 F
6183 8655 1.067565 ACGGATGCTACATATGAGCCG 60.068 52.381 15.01 15.01 39.30 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2213 3926 0.663153 GTGACGACCTGCTTGCTTTT 59.337 50.000 0.00 0.00 0.00 2.27 R
3083 4822 2.561478 ACCGTACAAGCCTCAATGTT 57.439 45.000 0.00 0.00 0.00 2.71 R
3648 5782 2.094130 GCCTACACAGAACAGAGGGTAC 60.094 54.545 0.00 0.00 0.00 3.34 R
5024 7159 0.401738 ACCAAAAGGAGCTGCTAGCA 59.598 50.000 18.22 18.22 45.56 3.49 R
6183 8655 0.039527 AATTGTTTGACCGCTTCGCC 60.040 50.000 0.00 0.00 0.00 5.54 R
6664 9239 0.674895 AGCATGCCAAGAGGAACGAC 60.675 55.000 15.66 0.00 36.89 4.34 R
6736 9311 8.164733 TCACCATTCAAGTAATTTAGGGTTACA 58.835 33.333 0.00 0.00 35.11 2.41 R
7653 10332 1.068281 AGTCTCGCCATACTCTGCATG 59.932 52.381 0.00 0.00 0.00 4.06 R
8094 10773 2.210116 ACAACGACGAAGCAAATCACT 58.790 42.857 0.00 0.00 0.00 3.41 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
43 44 5.105756 GCTTAGGGACAATGTTTGCACTAAT 60.106 40.000 0.00 0.00 34.54 1.73
306 307 8.409358 AACAAATAACTAGCACCAATTTCTCT 57.591 30.769 0.00 0.00 0.00 3.10
474 476 5.013704 TGTGGTCCTATTACTGTTTGGACAT 59.986 40.000 12.81 0.00 46.37 3.06
582 632 6.126409 TCCACAGGAAAACTATGTCAAAGTT 58.874 36.000 0.00 0.00 38.82 2.66
799 1741 4.934797 ATCATTTGAGGAGTTTCCCAGA 57.065 40.909 0.00 0.00 37.19 3.86
864 1816 8.863049 CGGGAAAATGAGAATAAATTGTTGAAG 58.137 33.333 0.00 0.00 0.00 3.02
865 1817 8.659491 GGGAAAATGAGAATAAATTGTTGAAGC 58.341 33.333 0.00 0.00 0.00 3.86
866 1818 8.659491 GGAAAATGAGAATAAATTGTTGAAGCC 58.341 33.333 0.00 0.00 0.00 4.35
867 1819 9.206870 GAAAATGAGAATAAATTGTTGAAGCCA 57.793 29.630 0.00 0.00 0.00 4.75
869 1821 8.767478 AATGAGAATAAATTGTTGAAGCCAAG 57.233 30.769 0.00 0.00 32.06 3.61
1147 2860 0.933700 CTCCTCTTCCTCCTCCTCCT 59.066 60.000 0.00 0.00 0.00 3.69
1148 2861 0.930726 TCCTCTTCCTCCTCCTCCTC 59.069 60.000 0.00 0.00 0.00 3.71
1149 2862 0.105709 CCTCTTCCTCCTCCTCCTCC 60.106 65.000 0.00 0.00 0.00 4.30
1476 3189 1.300620 CAAGTCGCCCGTCAAGTCA 60.301 57.895 0.00 0.00 0.00 3.41
2143 3856 0.313043 GCAGTGAGCAACAGCAATGT 59.687 50.000 0.00 0.00 44.79 2.71
2158 3871 4.386652 CAGCAATGTGGTTTGAGCATAAAC 59.613 41.667 7.15 7.15 39.28 2.01
2168 3881 5.574443 GGTTTGAGCATAAACTGATTGCTTC 59.426 40.000 13.31 0.00 46.21 3.86
2169 3882 5.963176 TTGAGCATAAACTGATTGCTTCA 57.037 34.783 0.00 0.00 46.21 3.02
2213 3926 1.152376 TGATTTGGGGCTTGTGGCA 60.152 52.632 0.00 0.00 44.01 4.92
2291 4004 2.066262 CGTGTGCTTGATACCTTTCGT 58.934 47.619 0.00 0.00 0.00 3.85
2353 4068 7.454260 AGCTAAAGAGTCATTTTAACCCTTG 57.546 36.000 0.00 0.00 0.00 3.61
2383 4098 8.751242 TGGCTTGATATTCTCAAAATGAAATGA 58.249 29.630 0.00 0.00 43.20 2.57
2566 4285 7.665561 AGACAGTCAAGATAAGAAAAGAAGC 57.334 36.000 2.66 0.00 0.00 3.86
2608 4327 0.947244 CTGCAACAGACTGTGAACCC 59.053 55.000 9.33 0.00 32.44 4.11
2834 4556 4.301628 CAATCACCTTTTGAAGAGGTTGC 58.698 43.478 4.44 0.00 45.06 4.17
2848 4570 4.006319 AGAGGTTGCTGCACTTATTTCTC 58.994 43.478 0.00 2.30 0.00 2.87
2910 4632 7.278868 GGATAGGTGTTGAACTCTTATTGTCTG 59.721 40.741 4.01 0.00 0.00 3.51
3121 4860 3.409570 GGTACTCCCTCCTTTCACAAAC 58.590 50.000 0.00 0.00 0.00 2.93
3122 4861 2.658807 ACTCCCTCCTTTCACAAACC 57.341 50.000 0.00 0.00 0.00 3.27
3262 5396 2.109425 ACGGAAGGAGTATGTTTGGC 57.891 50.000 0.00 0.00 0.00 4.52
3370 5504 5.520376 AACCTTGACCAAAAGATTCACTG 57.480 39.130 0.00 0.00 0.00 3.66
3557 5691 0.509499 GCATTGTGTTGTGTGCATGC 59.491 50.000 11.82 11.82 37.52 4.06
3625 5759 5.876651 AATCTGTGCATGGATACTGACTA 57.123 39.130 0.00 0.00 37.61 2.59
3670 5804 0.250513 CCCTCTGTTCTGTGTAGGCC 59.749 60.000 0.00 0.00 0.00 5.19
3838 5972 7.306515 GCAACGAAATCTGTCTCAGAGATTATC 60.307 40.741 2.64 0.00 44.08 1.75
3928 6062 4.566488 GCAAGCCTCATGGGTATTAGCTAT 60.566 45.833 0.00 0.00 44.35 2.97
4198 6332 0.179129 GTCCATTGCGCATTTCCTGG 60.179 55.000 12.75 13.54 0.00 4.45
4316 6450 2.809119 TGCTTATGACCGCGAAAAGAAA 59.191 40.909 8.23 0.00 0.00 2.52
4381 6515 5.426689 TGAGTAAGCTCACTTCCATTGAT 57.573 39.130 0.00 0.00 45.94 2.57
4632 6767 7.334421 TCAGTCTGTACTTTTGGCTTTGATATC 59.666 37.037 0.00 0.00 31.97 1.63
4826 6961 9.325150 CTTTTGTTACACCATATTTGTTAGTCG 57.675 33.333 0.00 0.00 0.00 4.18
4827 6962 7.966246 TTGTTACACCATATTTGTTAGTCGT 57.034 32.000 0.00 0.00 0.00 4.34
4828 6963 9.486497 TTTGTTACACCATATTTGTTAGTCGTA 57.514 29.630 0.00 0.00 0.00 3.43
4829 6964 8.464770 TGTTACACCATATTTGTTAGTCGTAC 57.535 34.615 0.00 0.00 0.00 3.67
4830 6965 8.306038 TGTTACACCATATTTGTTAGTCGTACT 58.694 33.333 0.00 0.00 0.00 2.73
4831 6966 8.801913 GTTACACCATATTTGTTAGTCGTACTC 58.198 37.037 0.00 0.00 0.00 2.59
4836 6971 4.732672 ATTTGTTAGTCGTACTCCCTCC 57.267 45.455 0.00 0.00 0.00 4.30
4938 7073 3.553105 GCTAATTAATTGCAACAGCTGGC 59.447 43.478 19.93 13.39 0.00 4.85
5024 7159 0.038343 GCATGCAAATGTGAACGGGT 60.038 50.000 14.21 0.00 0.00 5.28
5030 7165 1.135689 CAAATGTGAACGGGTGCTAGC 60.136 52.381 8.10 8.10 0.00 3.42
5082 7217 1.337167 GGTTGCCAGCCTTAAAAGCAG 60.337 52.381 0.00 0.00 34.45 4.24
5126 7261 0.955178 ATCGCTGATAGGTGGAGACG 59.045 55.000 0.00 0.00 0.00 4.18
5132 7267 2.544686 CTGATAGGTGGAGACGTACGAG 59.455 54.545 24.41 0.00 0.00 4.18
5148 7283 1.746220 ACGAGAAGAGGAGATGGAACG 59.254 52.381 0.00 0.00 0.00 3.95
5162 7297 4.406003 AGATGGAACGTAGCCAGTAGAAAT 59.594 41.667 14.43 0.00 39.11 2.17
5199 7334 1.178276 CGATTCCTAGCGAGCCCTAT 58.822 55.000 0.00 0.00 34.48 2.57
5239 7374 6.348540 GGAGTAGTGTTTTACTTGAGCCATTG 60.349 42.308 0.00 0.00 40.89 2.82
5303 7438 5.126067 ACATGTATATCCACAGAAACTGGC 58.874 41.667 0.00 0.00 35.51 4.85
5594 7729 7.998964 ACTTTACCATTAGCCAGCTTATATGTT 59.001 33.333 0.00 0.00 0.00 2.71
5711 7902 1.067295 TCACTTCACATTGGCCTCCT 58.933 50.000 3.32 0.00 0.00 3.69
5933 8124 9.938670 CTCTAAACTATGTCTATATACATCCGC 57.061 37.037 7.00 0.00 40.52 5.54
6077 8269 6.435428 GGTTTATTATCAATGCTAACCACCG 58.565 40.000 0.00 0.00 34.98 4.94
6183 8655 1.067565 ACGGATGCTACATATGAGCCG 60.068 52.381 15.01 15.01 39.30 5.52
6900 9478 7.362920 GGTGATACATTAATTGACCAGCTTGTT 60.363 37.037 0.00 0.00 0.00 2.83
6938 9519 7.581213 TTTATTAATATCCTGCCCTGTTGTG 57.419 36.000 0.00 0.00 0.00 3.33
6940 9521 3.737559 AATATCCTGCCCTGTTGTGAA 57.262 42.857 0.00 0.00 0.00 3.18
7218 9867 7.516198 AGCAACTTCAGAGTGAACATATTTT 57.484 32.000 0.00 0.00 35.91 1.82
7320 9999 5.317808 TCCCATTTATTTTGAAGTCACGGA 58.682 37.500 0.00 0.00 0.00 4.69
7324 10003 7.362920 CCCATTTATTTTGAAGTCACGGAATCT 60.363 37.037 0.00 0.00 0.00 2.40
7360 10039 6.536224 TGTGTCAGTTCATGTATAGCAATGAG 59.464 38.462 0.00 0.00 0.00 2.90
7522 10201 9.545105 TGTTTGCAAATCTAATCATTTTTCACT 57.455 25.926 16.21 0.00 0.00 3.41
7668 10347 3.871006 TCTAAAACATGCAGAGTATGGCG 59.129 43.478 0.00 0.00 0.00 5.69
7678 10357 3.376540 CAGAGTATGGCGAGACTAAAGC 58.623 50.000 0.00 0.00 0.00 3.51
7688 10367 4.154195 GGCGAGACTAAAGCTTGAATTGAA 59.846 41.667 0.00 0.00 0.00 2.69
7696 10375 5.813513 AAAGCTTGAATTGAAATCAGGGT 57.186 34.783 0.00 0.00 36.35 4.34
7779 10458 2.225019 CCACAGCTGAGCAAGTAAGTTG 59.775 50.000 23.35 2.92 39.41 3.16
7840 10519 6.924111 AGAGTTTTCATGCGGATTTGTATTT 58.076 32.000 0.00 0.00 0.00 1.40
7922 10601 6.079336 AGAAGATGAGGATGATGACTGAGAT 58.921 40.000 0.00 0.00 0.00 2.75
8094 10773 2.583024 TGGTCAAGAATGCATGTCCA 57.417 45.000 0.00 0.00 33.35 4.02
8189 10883 7.090953 TGTTTTCTGGTTTTAGTGACGAAAT 57.909 32.000 0.00 0.00 0.00 2.17
8248 10942 7.500141 AGGAAAATTGAATAGTTGCAAAGTGT 58.500 30.769 0.00 0.00 0.00 3.55
8275 10969 3.255642 ACACAACCCAAAGATGTGCATAC 59.744 43.478 5.14 0.00 46.42 2.39
8370 11359 2.756042 TTGTGCACAGGCCTCAGGT 61.756 57.895 20.59 0.00 40.13 4.00
8377 11366 2.086869 CACAGGCCTCAGGTGTTTATG 58.913 52.381 0.00 0.00 0.00 1.90
8416 11405 1.873591 GCCATTCTACCAACATAGCGG 59.126 52.381 0.00 0.00 0.00 5.52
8417 11406 2.484770 GCCATTCTACCAACATAGCGGA 60.485 50.000 0.00 0.00 0.00 5.54
8419 11408 3.748048 CCATTCTACCAACATAGCGGATG 59.252 47.826 0.57 0.57 41.79 3.51
8554 11606 5.232838 GCATCATTAAATACCAAGCTTGTGC 59.767 40.000 24.35 17.79 40.05 4.57
8556 11608 4.159506 TCATTAAATACCAAGCTTGTGCCC 59.840 41.667 24.35 0.00 40.80 5.36
8583 11635 0.753479 GCGAGGGAGAGGAGATGACA 60.753 60.000 0.00 0.00 0.00 3.58
8585 11637 1.409521 CGAGGGAGAGGAGATGACAGT 60.410 57.143 0.00 0.00 0.00 3.55
8590 11642 1.520342 GAGGAGATGACAGTGGCGC 60.520 63.158 0.00 0.00 0.00 6.53
8592 11644 3.558411 GAGATGACAGTGGCGCGC 61.558 66.667 25.94 25.94 0.00 6.86
8601 11659 4.645921 GTGGCGCGCCTTGCTTTT 62.646 61.111 45.79 0.00 43.27 2.27
8608 11666 1.846541 GCGCCTTGCTTTTGTGTTTA 58.153 45.000 0.00 0.00 41.73 2.01
8618 11676 6.366315 TGCTTTTGTGTTTATAGTCGTTGT 57.634 33.333 0.00 0.00 0.00 3.32
8659 11717 8.665643 TTTGGATGCAATTCATTATCATTTCC 57.334 30.769 0.00 0.00 35.05 3.13
8660 11718 7.606135 TGGATGCAATTCATTATCATTTCCT 57.394 32.000 0.00 0.00 35.05 3.36
8668 11726 5.484173 TCATTATCATTTCCTGTGTTCGC 57.516 39.130 0.00 0.00 0.00 4.70
8673 11731 3.064207 TCATTTCCTGTGTTCGCTGTAC 58.936 45.455 0.00 0.00 0.00 2.90
8675 11733 4.021807 TCATTTCCTGTGTTCGCTGTACTA 60.022 41.667 0.00 0.00 0.00 1.82
8687 11745 6.816140 TGTTCGCTGTACTATCATGATTGAAA 59.184 34.615 21.64 8.16 34.96 2.69
8748 11842 2.611473 CCTTCACTACAGCTGGTGTCAG 60.611 54.545 19.93 15.56 40.94 3.51
8752 11846 0.108424 CTACAGCTGGTGTCAGGCTC 60.108 60.000 19.93 0.00 40.94 4.70
8763 11857 0.750850 GTCAGGCTCGGGCTATTACA 59.249 55.000 7.48 0.00 36.44 2.41
8764 11858 1.138266 GTCAGGCTCGGGCTATTACAA 59.862 52.381 7.48 0.00 36.44 2.41
8765 11859 1.834896 TCAGGCTCGGGCTATTACAAA 59.165 47.619 7.48 0.00 36.44 2.83
8766 11860 2.158957 TCAGGCTCGGGCTATTACAAAG 60.159 50.000 7.48 0.00 36.44 2.77
8768 11862 1.475213 GGCTCGGGCTATTACAAAGCT 60.475 52.381 7.48 0.00 39.97 3.74
8769 11863 2.224209 GGCTCGGGCTATTACAAAGCTA 60.224 50.000 7.48 0.00 39.97 3.32
8772 11866 4.561734 GCTCGGGCTATTACAAAGCTATCT 60.562 45.833 0.00 0.00 39.97 1.98
8774 11868 5.539048 TCGGGCTATTACAAAGCTATCTTC 58.461 41.667 0.00 0.00 39.97 2.87
8775 11869 4.386049 CGGGCTATTACAAAGCTATCTTCG 59.614 45.833 0.00 0.00 39.97 3.79
8776 11870 4.152580 GGGCTATTACAAAGCTATCTTCGC 59.847 45.833 0.00 0.00 39.97 4.70
8777 11871 4.152580 GGCTATTACAAAGCTATCTTCGCC 59.847 45.833 0.00 0.00 39.97 5.54
8778 11872 4.143305 GCTATTACAAAGCTATCTTCGCCG 60.143 45.833 0.00 0.00 37.01 6.46
8779 11873 3.513680 TTACAAAGCTATCTTCGCCGA 57.486 42.857 0.00 0.00 0.00 5.54
8780 11874 2.604046 ACAAAGCTATCTTCGCCGAT 57.396 45.000 0.00 0.00 0.00 4.18
8781 11875 2.906354 ACAAAGCTATCTTCGCCGATT 58.094 42.857 0.00 0.00 0.00 3.34
8782 11876 4.054780 ACAAAGCTATCTTCGCCGATTA 57.945 40.909 0.00 0.00 0.00 1.75
8783 11877 4.051922 ACAAAGCTATCTTCGCCGATTAG 58.948 43.478 0.00 0.00 0.00 1.73
8784 11878 3.305398 AAGCTATCTTCGCCGATTAGG 57.695 47.619 0.00 0.00 44.97 2.69
8785 11879 1.546476 AGCTATCTTCGCCGATTAGGG 59.454 52.381 0.00 0.00 41.48 3.53
8794 11888 2.053618 CCGATTAGGGCTCTGGAGG 58.946 63.158 0.00 0.00 35.97 4.30
8795 11889 1.476007 CCGATTAGGGCTCTGGAGGG 61.476 65.000 0.00 0.00 35.97 4.30
8796 11890 1.757949 GATTAGGGCTCTGGAGGGC 59.242 63.158 0.00 0.00 0.00 5.19
8797 11891 2.105806 GATTAGGGCTCTGGAGGGCG 62.106 65.000 0.00 0.00 0.00 6.13
8798 11892 4.860881 TAGGGCTCTGGAGGGCGG 62.861 72.222 0.00 0.00 0.00 6.13
8802 11896 3.474570 GCTCTGGAGGGCGGACAT 61.475 66.667 0.00 0.00 0.00 3.06
8803 11897 2.503061 CTCTGGAGGGCGGACATG 59.497 66.667 0.00 0.00 0.00 3.21
8804 11898 2.284625 TCTGGAGGGCGGACATGT 60.285 61.111 0.00 0.00 0.00 3.21
8805 11899 1.903877 CTCTGGAGGGCGGACATGTT 61.904 60.000 0.00 0.00 0.00 2.71
8806 11900 1.002134 CTGGAGGGCGGACATGTTT 60.002 57.895 0.00 0.00 0.00 2.83
8807 11901 0.251916 CTGGAGGGCGGACATGTTTA 59.748 55.000 0.00 0.00 0.00 2.01
8808 11902 0.035820 TGGAGGGCGGACATGTTTAC 60.036 55.000 0.00 0.00 0.00 2.01
8809 11903 0.252197 GGAGGGCGGACATGTTTACT 59.748 55.000 0.00 0.00 0.00 2.24
8810 11904 1.369625 GAGGGCGGACATGTTTACTG 58.630 55.000 0.00 0.00 0.00 2.74
8811 11905 0.690762 AGGGCGGACATGTTTACTGT 59.309 50.000 0.00 0.00 0.00 3.55
8812 11906 1.084289 GGGCGGACATGTTTACTGTC 58.916 55.000 0.00 0.00 41.83 3.51
8813 11907 0.719465 GGCGGACATGTTTACTGTCG 59.281 55.000 0.00 0.00 43.16 4.35
8814 11908 1.425412 GCGGACATGTTTACTGTCGT 58.575 50.000 0.00 0.00 43.16 4.34
8815 11909 2.598589 GCGGACATGTTTACTGTCGTA 58.401 47.619 0.00 0.00 43.16 3.43
8816 11910 3.184541 GCGGACATGTTTACTGTCGTAT 58.815 45.455 0.00 0.00 43.16 3.06
8817 11911 3.615496 GCGGACATGTTTACTGTCGTATT 59.385 43.478 0.00 0.00 43.16 1.89
8818 11912 4.259690 GCGGACATGTTTACTGTCGTATTC 60.260 45.833 0.00 0.00 43.16 1.75
8819 11913 5.100259 CGGACATGTTTACTGTCGTATTCT 58.900 41.667 0.00 0.00 43.16 2.40
8820 11914 5.575606 CGGACATGTTTACTGTCGTATTCTT 59.424 40.000 0.00 0.00 43.16 2.52
8821 11915 6.237490 CGGACATGTTTACTGTCGTATTCTTC 60.237 42.308 0.00 0.00 43.16 2.87
8822 11916 6.237490 GGACATGTTTACTGTCGTATTCTTCG 60.237 42.308 0.00 0.00 43.16 3.79
8823 11917 5.061808 ACATGTTTACTGTCGTATTCTTCGC 59.938 40.000 0.00 0.00 0.00 4.70
8824 11918 3.922240 TGTTTACTGTCGTATTCTTCGCC 59.078 43.478 0.00 0.00 0.00 5.54
8825 11919 2.857592 TACTGTCGTATTCTTCGCCC 57.142 50.000 0.00 0.00 0.00 6.13
8828 11922 1.134367 CTGTCGTATTCTTCGCCCAGA 59.866 52.381 0.00 0.00 32.83 3.86
8829 11923 1.135199 TGTCGTATTCTTCGCCCAGAC 60.135 52.381 0.00 0.00 0.00 3.51
8830 11924 1.134560 GTCGTATTCTTCGCCCAGACT 59.865 52.381 0.00 0.00 0.00 3.24
8832 11926 2.357009 TCGTATTCTTCGCCCAGACTAC 59.643 50.000 0.00 0.00 0.00 2.73
8834 11928 0.460311 ATTCTTCGCCCAGACTACCG 59.540 55.000 0.00 0.00 0.00 4.02
8835 11929 2.202756 CTTCGCCCAGACTACCGC 60.203 66.667 0.00 0.00 0.00 5.68
8837 11931 4.753662 TCGCCCAGACTACCGCCT 62.754 66.667 0.00 0.00 0.00 5.52
8839 11933 3.075005 GCCCAGACTACCGCCTCA 61.075 66.667 0.00 0.00 0.00 3.86
8841 11935 2.490217 CCAGACTACCGCCTCACG 59.510 66.667 0.00 0.00 43.15 4.35
8855 11949 3.573558 CACGGTAGTGCGCCATTT 58.426 55.556 4.18 0.00 41.94 2.32
8856 11950 1.423845 CACGGTAGTGCGCCATTTC 59.576 57.895 4.18 0.00 41.94 2.17
8857 11951 1.743995 ACGGTAGTGCGCCATTTCC 60.744 57.895 4.18 0.00 0.00 3.13
8858 11952 1.743623 CGGTAGTGCGCCATTTCCA 60.744 57.895 4.18 0.00 0.00 3.53
8859 11953 1.705337 CGGTAGTGCGCCATTTCCAG 61.705 60.000 4.18 0.00 0.00 3.86
8860 11954 1.429423 GTAGTGCGCCATTTCCAGC 59.571 57.895 4.18 0.00 0.00 4.85
8861 11955 1.026718 GTAGTGCGCCATTTCCAGCT 61.027 55.000 4.18 0.00 0.00 4.24
8863 11957 2.751436 TGCGCCATTTCCAGCTCC 60.751 61.111 4.18 0.00 0.00 4.70
8865 11959 2.476320 GCGCCATTTCCAGCTCCTC 61.476 63.158 0.00 0.00 0.00 3.71
8869 11963 1.615384 GCCATTTCCAGCTCCTCTGTT 60.615 52.381 0.00 0.00 41.25 3.16
8870 11964 2.363683 CCATTTCCAGCTCCTCTGTTC 58.636 52.381 0.00 0.00 41.25 3.18
8872 11966 0.321671 TTTCCAGCTCCTCTGTTCCG 59.678 55.000 0.00 0.00 41.25 4.30
8874 11968 2.125350 CAGCTCCTCTGTTCCGCC 60.125 66.667 0.00 0.00 38.02 6.13
8875 11969 2.604686 AGCTCCTCTGTTCCGCCA 60.605 61.111 0.00 0.00 0.00 5.69
8876 11970 2.125350 GCTCCTCTGTTCCGCCAG 60.125 66.667 0.00 0.00 0.00 4.85
8877 11971 2.125350 CTCCTCTGTTCCGCCAGC 60.125 66.667 0.00 0.00 32.32 4.85
8878 11972 3.997064 CTCCTCTGTTCCGCCAGCG 62.997 68.421 4.75 4.75 39.44 5.18
8879 11973 4.379243 CCTCTGTTCCGCCAGCGT 62.379 66.667 11.55 0.00 37.81 5.07
8880 11974 2.357517 CTCTGTTCCGCCAGCGTT 60.358 61.111 11.55 0.00 37.81 4.84
8881 11975 2.664851 TCTGTTCCGCCAGCGTTG 60.665 61.111 11.55 0.00 37.81 4.10
8882 11976 2.972505 CTGTTCCGCCAGCGTTGT 60.973 61.111 11.55 0.00 37.81 3.32
8883 11977 2.954753 CTGTTCCGCCAGCGTTGTC 61.955 63.158 11.55 0.00 37.81 3.18
8884 11978 2.665185 GTTCCGCCAGCGTTGTCT 60.665 61.111 11.55 0.00 37.81 3.41
8887 11981 3.777925 CCGCCAGCGTTGTCTTCG 61.778 66.667 11.55 0.00 37.81 3.79
8888 11982 3.036084 CGCCAGCGTTGTCTTCGT 61.036 61.111 3.35 0.00 34.35 3.85
8889 11983 2.853914 GCCAGCGTTGTCTTCGTC 59.146 61.111 0.00 0.00 0.00 4.20
8890 11984 1.664965 GCCAGCGTTGTCTTCGTCT 60.665 57.895 0.00 0.00 0.00 4.18
8891 11985 1.222115 GCCAGCGTTGTCTTCGTCTT 61.222 55.000 0.00 0.00 0.00 3.01
8893 11987 2.400399 CCAGCGTTGTCTTCGTCTTAA 58.600 47.619 0.00 0.00 0.00 1.85
8894 11988 2.408704 CCAGCGTTGTCTTCGTCTTAAG 59.591 50.000 0.00 0.00 0.00 1.85
8895 11989 3.305964 CAGCGTTGTCTTCGTCTTAAGA 58.694 45.455 0.00 0.00 33.10 2.10
8896 11990 3.362237 CAGCGTTGTCTTCGTCTTAAGAG 59.638 47.826 5.12 0.59 36.19 2.85
8897 11991 2.090812 GCGTTGTCTTCGTCTTAAGAGC 59.909 50.000 5.12 0.00 36.19 4.09
8900 11994 4.030753 CGTTGTCTTCGTCTTAAGAGCATC 59.969 45.833 5.12 0.00 36.19 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 7.836685 TCCATTGTTACCTTAATTATGGCTTGA 59.163 33.333 15.54 1.75 34.31 3.02
306 307 8.470805 TGGTGCTAGTTATTTGTTTTCTTTTGA 58.529 29.630 0.00 0.00 0.00 2.69
353 355 4.196193 TCCGACTTGAATTCAAACACACT 58.804 39.130 20.82 0.99 35.15 3.55
451 453 4.901868 TGTCCAAACAGTAATAGGACCAC 58.098 43.478 7.37 0.00 46.29 4.16
561 611 9.131791 ACATTAACTTTGACATAGTTTTCCTGT 57.868 29.630 15.17 10.99 37.12 4.00
582 632 4.420522 TGATACTGCTGCATCCACATTA 57.579 40.909 1.31 0.00 0.00 1.90
667 1574 6.893583 TCTCAATTCAATTCAACCCCAAAAA 58.106 32.000 0.00 0.00 0.00 1.94
668 1575 6.099557 ACTCTCAATTCAATTCAACCCCAAAA 59.900 34.615 0.00 0.00 0.00 2.44
669 1576 5.602145 ACTCTCAATTCAATTCAACCCCAAA 59.398 36.000 0.00 0.00 0.00 3.28
670 1577 5.147032 ACTCTCAATTCAATTCAACCCCAA 58.853 37.500 0.00 0.00 0.00 4.12
671 1578 4.739793 ACTCTCAATTCAATTCAACCCCA 58.260 39.130 0.00 0.00 0.00 4.96
672 1579 5.728637 AACTCTCAATTCAATTCAACCCC 57.271 39.130 0.00 0.00 0.00 4.95
673 1580 6.646653 GGAAAACTCTCAATTCAATTCAACCC 59.353 38.462 0.00 0.00 0.00 4.11
674 1581 6.646653 GGGAAAACTCTCAATTCAATTCAACC 59.353 38.462 0.00 0.00 0.00 3.77
675 1582 7.209475 TGGGAAAACTCTCAATTCAATTCAAC 58.791 34.615 0.00 0.00 0.00 3.18
676 1583 7.358770 TGGGAAAACTCTCAATTCAATTCAA 57.641 32.000 0.00 0.00 0.00 2.69
677 1584 6.975196 TGGGAAAACTCTCAATTCAATTCA 57.025 33.333 0.00 0.00 0.00 2.57
678 1585 8.551205 GTTTTGGGAAAACTCTCAATTCAATTC 58.449 33.333 4.96 0.00 45.55 2.17
679 1586 8.437360 GTTTTGGGAAAACTCTCAATTCAATT 57.563 30.769 4.96 0.00 45.55 2.32
799 1741 1.617947 GGCAGTCCATCCTCGGTCTT 61.618 60.000 0.00 0.00 0.00 3.01
864 1816 2.346541 GCAGGGAGAAAGCCTTGGC 61.347 63.158 2.97 2.97 35.70 4.52
865 1817 1.680314 GGCAGGGAGAAAGCCTTGG 60.680 63.158 0.00 0.00 44.92 3.61
866 1818 4.009015 GGCAGGGAGAAAGCCTTG 57.991 61.111 0.00 0.00 44.92 3.61
991 1944 1.214992 GGGAGGAACATGAAGGGGGT 61.215 60.000 0.00 0.00 0.00 4.95
992 1945 0.921256 AGGGAGGAACATGAAGGGGG 60.921 60.000 0.00 0.00 0.00 5.40
997 1950 0.537188 GCTCGAGGGAGGAACATGAA 59.463 55.000 15.58 0.00 40.80 2.57
1134 2847 2.690452 CGGGAGGAGGAGGAGGAA 59.310 66.667 0.00 0.00 0.00 3.36
1162 2875 2.746277 GGATTTGACGGCGGCAGT 60.746 61.111 17.88 9.34 0.00 4.40
1427 3140 2.741211 GTTTCTCGTCCACCGCCC 60.741 66.667 0.00 0.00 36.19 6.13
2143 3856 4.523943 AGCAATCAGTTTATGCTCAAACCA 59.476 37.500 9.28 0.00 46.98 3.67
2158 3871 3.681417 TGACGAAGACATGAAGCAATCAG 59.319 43.478 0.00 0.00 42.53 2.90
2168 3881 3.850122 TCCTACAGTGACGAAGACATG 57.150 47.619 0.00 0.00 33.41 3.21
2169 3882 5.171476 CAATTCCTACAGTGACGAAGACAT 58.829 41.667 0.00 0.00 33.41 3.06
2213 3926 0.663153 GTGACGACCTGCTTGCTTTT 59.337 50.000 0.00 0.00 0.00 2.27
2291 4004 6.935741 AAGCATATTACCTTTGCGATTGTA 57.064 33.333 0.00 0.00 41.22 2.41
2566 4285 5.416952 AGCAACAAGAAGTCCTTTGATATGG 59.583 40.000 0.00 0.00 31.42 2.74
2608 4327 7.926555 ACCTGAAGAAGTCGTATAATGTATTGG 59.073 37.037 0.00 0.00 0.00 3.16
2872 4594 6.530120 TCAACACCTATCCGCACAAATATAT 58.470 36.000 0.00 0.00 0.00 0.86
3018 4752 7.288810 AGGTAGCAAGATATTCTGAGAGAAG 57.711 40.000 0.00 0.00 37.69 2.85
3077 4816 4.213270 CGTACAAGCCTCAATGTTTTCAGA 59.787 41.667 0.00 0.00 0.00 3.27
3083 4822 2.561478 ACCGTACAAGCCTCAATGTT 57.439 45.000 0.00 0.00 0.00 2.71
3084 4823 2.565834 AGTACCGTACAAGCCTCAATGT 59.434 45.455 11.26 0.00 0.00 2.71
3262 5396 9.304731 CCAATTAATTGATAACATTGTCACCAG 57.695 33.333 26.32 2.90 40.14 4.00
3330 5464 2.104963 GGTTTTGCCACCCCATGTTTTA 59.895 45.455 0.00 0.00 37.17 1.52
3535 5669 3.239254 CATGCACACAACACAATGCTAG 58.761 45.455 0.00 0.00 38.90 3.42
3648 5782 2.094130 GCCTACACAGAACAGAGGGTAC 60.094 54.545 0.00 0.00 0.00 3.34
4198 6332 7.334421 TGTTAATTCTCAGAATTAGGAGTGCAC 59.666 37.037 17.48 9.40 32.93 4.57
4507 6642 4.820897 CATCCTTACAACTAGCAGTGACA 58.179 43.478 0.00 0.00 0.00 3.58
4632 6767 5.264395 AGAGGTTTCCCATTGATGTAAAGG 58.736 41.667 0.00 0.00 0.00 3.11
4836 6971 1.803366 GAGCCCTATACACCGGACCG 61.803 65.000 9.46 6.99 0.00 4.79
4877 7012 3.365969 GGCCTTATTTCTGTGGTGTTTCG 60.366 47.826 0.00 0.00 0.00 3.46
4938 7073 4.200283 GTGCGGGGAGAGAGAGCG 62.200 72.222 0.00 0.00 0.00 5.03
5024 7159 0.401738 ACCAAAAGGAGCTGCTAGCA 59.598 50.000 18.22 18.22 45.56 3.49
5030 7165 2.278330 GGCCCACCAAAAGGAGCTG 61.278 63.158 0.00 0.00 35.26 4.24
5126 7261 3.242804 CGTTCCATCTCCTCTTCTCGTAC 60.243 52.174 0.00 0.00 0.00 3.67
5132 7267 2.223852 GGCTACGTTCCATCTCCTCTTC 60.224 54.545 0.00 0.00 0.00 2.87
5148 7283 4.192317 CAAGGTGGATTTCTACTGGCTAC 58.808 47.826 0.00 0.00 0.00 3.58
5162 7297 4.680237 CAGCGCGACCAAGGTGGA 62.680 66.667 12.10 0.00 40.96 4.02
5332 7467 3.004024 GTGCAACCACATCACTTTCTG 57.996 47.619 0.00 0.00 41.67 3.02
5594 7729 1.555075 AGGAAAGCTCATCGGTAGCAA 59.445 47.619 7.20 0.00 42.62 3.91
5671 7862 4.916831 TGAAGCAAACAATAGAATGCGTTG 59.083 37.500 0.00 0.00 43.39 4.10
5799 7990 7.227711 TGCTACAGTTAACACTTGCTTATTTGA 59.772 33.333 8.61 0.00 0.00 2.69
5933 8124 9.072375 TCTAGAGATTTCAGTATGGACTACATG 57.928 37.037 0.00 0.00 40.82 3.21
6027 8219 4.034626 TCACAACACAGTTCCATGTAAACG 59.965 41.667 0.00 0.00 0.00 3.60
6077 8269 3.961477 AAAATGGCAAAAGAAAACGGC 57.039 38.095 0.00 0.00 0.00 5.68
6183 8655 0.039527 AATTGTTTGACCGCTTCGCC 60.040 50.000 0.00 0.00 0.00 5.54
6352 8824 6.996282 TCATGTCACAGCATAAATGATGAGAT 59.004 34.615 14.66 5.86 46.44 2.75
6455 8927 5.406175 CACCATTGGCAGAACAAAATGTTAG 59.594 40.000 1.54 0.00 41.28 2.34
6456 8928 5.163364 ACACCATTGGCAGAACAAAATGTTA 60.163 36.000 1.54 0.00 41.28 2.41
6457 8929 4.128643 CACCATTGGCAGAACAAAATGTT 58.871 39.130 1.54 0.00 44.37 2.71
6664 9239 0.674895 AGCATGCCAAGAGGAACGAC 60.675 55.000 15.66 0.00 36.89 4.34
6735 9310 8.798402 CACCATTCAAGTAATTTAGGGTTACAA 58.202 33.333 0.00 0.00 35.11 2.41
6736 9311 8.164733 TCACCATTCAAGTAATTTAGGGTTACA 58.835 33.333 0.00 0.00 35.11 2.41
7218 9867 4.640201 GCACATGGCCTTAAGAACATAGAA 59.360 41.667 3.32 0.00 36.11 2.10
7251 9900 9.857957 AAGTTCTTTCCTTATTAGTTACTCGAG 57.142 33.333 11.84 11.84 0.00 4.04
7284 9963 9.300681 CAAAATAAATGGGAGGCAAGATATAGA 57.699 33.333 0.00 0.00 0.00 1.98
7320 9999 7.229306 TGAACTGACACAGCAAGAAAATAGATT 59.771 33.333 0.00 0.00 34.37 2.40
7324 10003 6.262944 ACATGAACTGACACAGCAAGAAAATA 59.737 34.615 0.00 0.00 34.37 1.40
7360 10039 3.955771 TTCACCTTAAACGCACTGTTC 57.044 42.857 0.00 0.00 40.84 3.18
7522 10201 1.200760 CCTCCCACACCTGATGACCA 61.201 60.000 0.00 0.00 0.00 4.02
7612 10291 8.912988 GGATGAGGAAATCAAATAACATTACCA 58.087 33.333 0.00 0.00 42.53 3.25
7653 10332 1.068281 AGTCTCGCCATACTCTGCATG 59.932 52.381 0.00 0.00 0.00 4.06
7668 10347 7.967303 CCTGATTTCAATTCAAGCTTTAGTCTC 59.033 37.037 0.00 0.00 0.00 3.36
7678 10357 7.992033 AGAGAGATACCCTGATTTCAATTCAAG 59.008 37.037 0.00 0.00 0.00 3.02
7688 10367 8.016054 AGGAAATCTTAGAGAGATACCCTGATT 58.984 37.037 7.77 0.00 44.41 2.57
7696 10375 8.294954 ACAAACGAGGAAATCTTAGAGAGATA 57.705 34.615 0.00 0.00 44.41 1.98
7811 10490 6.016276 ACAAATCCGCATGAAAACTCTAAACT 60.016 34.615 0.00 0.00 0.00 2.66
7828 10507 7.107639 ACCTGGGAATTTAAATACAAATCCG 57.892 36.000 0.01 0.00 0.00 4.18
7840 10519 3.517296 TGTCAGCAACCTGGGAATTTA 57.483 42.857 0.00 0.00 39.61 1.40
7922 10601 5.495926 AATGCACATAAAAATGGGGTCAA 57.504 34.783 0.00 0.00 0.00 3.18
8094 10773 2.210116 ACAACGACGAAGCAAATCACT 58.790 42.857 0.00 0.00 0.00 3.41
8189 10883 6.542005 CACCACCTGAATAGCATGTATTACAA 59.458 38.462 0.00 0.00 0.00 2.41
8248 10942 4.517453 GCACATCTTTGGGTTGTGTTAGTA 59.483 41.667 4.44 0.00 43.65 1.82
8275 10969 1.802715 CGCCAAATGAAAGCTGCCG 60.803 57.895 0.00 0.00 0.00 5.69
8370 11359 5.071250 ACCACTCACTAAGGTGTCATAAACA 59.929 40.000 0.00 0.00 43.41 2.83
8377 11366 2.143925 GCAACCACTCACTAAGGTGTC 58.856 52.381 0.00 0.00 43.41 3.67
8565 11617 1.317613 CTGTCATCTCCTCTCCCTCG 58.682 60.000 0.00 0.00 0.00 4.63
8566 11618 2.031120 CACTGTCATCTCCTCTCCCTC 58.969 57.143 0.00 0.00 0.00 4.30
8573 11625 2.581354 GCGCCACTGTCATCTCCT 59.419 61.111 0.00 0.00 0.00 3.69
8590 11642 4.794169 ACTATAAACACAAAAGCAAGGCG 58.206 39.130 0.00 0.00 0.00 5.52
8592 11644 5.997385 ACGACTATAAACACAAAAGCAAGG 58.003 37.500 0.00 0.00 0.00 3.61
8601 11659 7.380536 ACCATCTAACAACGACTATAAACACA 58.619 34.615 0.00 0.00 0.00 3.72
8608 11666 7.818997 TCATAGACCATCTAACAACGACTAT 57.181 36.000 0.00 0.00 31.96 2.12
8618 11676 7.289310 TGCATCCAAATTCATAGACCATCTAA 58.711 34.615 0.00 0.00 31.96 2.10
8648 11706 4.943705 ACAGCGAACACAGGAAATGATAAT 59.056 37.500 0.00 0.00 0.00 1.28
8659 11717 4.672409 TCATGATAGTACAGCGAACACAG 58.328 43.478 0.00 0.00 0.00 3.66
8660 11718 4.712122 TCATGATAGTACAGCGAACACA 57.288 40.909 0.00 0.00 0.00 3.72
8748 11842 0.945099 GCTTTGTAATAGCCCGAGCC 59.055 55.000 0.00 0.00 41.25 4.70
8752 11846 4.386049 CGAAGATAGCTTTGTAATAGCCCG 59.614 45.833 0.00 0.00 39.47 6.13
8763 11857 3.555168 CCCTAATCGGCGAAGATAGCTTT 60.555 47.826 15.93 3.18 33.61 3.51
8764 11858 2.028930 CCCTAATCGGCGAAGATAGCTT 60.029 50.000 15.93 4.02 36.96 3.74
8765 11859 1.546476 CCCTAATCGGCGAAGATAGCT 59.454 52.381 15.93 0.00 34.52 3.32
8766 11860 1.997669 CCCTAATCGGCGAAGATAGC 58.002 55.000 15.93 0.00 0.00 2.97
8776 11870 1.476007 CCCTCCAGAGCCCTAATCGG 61.476 65.000 0.00 0.00 0.00 4.18
8777 11871 2.053618 CCCTCCAGAGCCCTAATCG 58.946 63.158 0.00 0.00 0.00 3.34
8778 11872 1.757949 GCCCTCCAGAGCCCTAATC 59.242 63.158 0.00 0.00 0.00 1.75
8779 11873 2.143419 CGCCCTCCAGAGCCCTAAT 61.143 63.158 0.00 0.00 0.00 1.73
8780 11874 2.764128 CGCCCTCCAGAGCCCTAA 60.764 66.667 0.00 0.00 0.00 2.69
8781 11875 4.860881 CCGCCCTCCAGAGCCCTA 62.861 72.222 0.00 0.00 0.00 3.53
8785 11879 3.474570 ATGTCCGCCCTCCAGAGC 61.475 66.667 0.00 0.00 0.00 4.09
8786 11880 1.903877 AACATGTCCGCCCTCCAGAG 61.904 60.000 0.00 0.00 0.00 3.35
8790 11884 0.252197 AGTAAACATGTCCGCCCTCC 59.748 55.000 0.00 0.00 0.00 4.30
8794 11888 0.719465 CGACAGTAAACATGTCCGCC 59.281 55.000 0.00 0.00 43.36 6.13
8795 11889 1.425412 ACGACAGTAAACATGTCCGC 58.575 50.000 0.00 0.00 43.36 5.54
8796 11890 5.100259 AGAATACGACAGTAAACATGTCCG 58.900 41.667 0.00 0.00 43.36 4.79
8797 11891 6.237490 CGAAGAATACGACAGTAAACATGTCC 60.237 42.308 0.00 0.00 43.36 4.02
8798 11892 6.683883 CGAAGAATACGACAGTAAACATGTC 58.316 40.000 0.00 0.00 42.94 3.06
8800 11894 5.481472 GCGAAGAATACGACAGTAAACATG 58.519 41.667 0.00 0.00 36.29 3.21
8801 11895 4.565564 GGCGAAGAATACGACAGTAAACAT 59.434 41.667 0.00 0.00 38.75 2.71
8802 11896 3.922240 GGCGAAGAATACGACAGTAAACA 59.078 43.478 0.00 0.00 38.75 2.83
8803 11897 3.305361 GGGCGAAGAATACGACAGTAAAC 59.695 47.826 0.00 0.00 40.86 2.01
8804 11898 3.056678 TGGGCGAAGAATACGACAGTAAA 60.057 43.478 0.00 0.00 40.86 2.01
8805 11899 2.492881 TGGGCGAAGAATACGACAGTAA 59.507 45.455 0.00 0.00 40.86 2.24
8806 11900 2.093890 TGGGCGAAGAATACGACAGTA 58.906 47.619 0.00 0.00 40.86 2.74
8807 11901 0.892755 TGGGCGAAGAATACGACAGT 59.107 50.000 0.00 0.00 40.86 3.55
8808 11902 1.134367 TCTGGGCGAAGAATACGACAG 59.866 52.381 0.00 0.00 40.86 3.51
8809 11903 1.135199 GTCTGGGCGAAGAATACGACA 60.135 52.381 0.00 0.00 40.86 4.35
8810 11904 1.134560 AGTCTGGGCGAAGAATACGAC 59.865 52.381 0.00 0.00 38.12 4.34
8811 11905 1.471119 AGTCTGGGCGAAGAATACGA 58.529 50.000 0.00 0.00 0.00 3.43
8812 11906 2.543238 GGTAGTCTGGGCGAAGAATACG 60.543 54.545 15.60 0.00 44.69 3.06
8813 11907 2.543238 CGGTAGTCTGGGCGAAGAATAC 60.543 54.545 14.44 14.44 43.61 1.89
8814 11908 1.679680 CGGTAGTCTGGGCGAAGAATA 59.320 52.381 0.00 0.00 0.00 1.75
8815 11909 0.460311 CGGTAGTCTGGGCGAAGAAT 59.540 55.000 0.00 0.00 0.00 2.40
8816 11910 1.888018 CGGTAGTCTGGGCGAAGAA 59.112 57.895 0.00 0.00 0.00 2.52
8817 11911 2.707849 GCGGTAGTCTGGGCGAAGA 61.708 63.158 0.00 0.00 0.00 2.87
8818 11912 2.202756 GCGGTAGTCTGGGCGAAG 60.203 66.667 0.00 0.00 0.00 3.79
8819 11913 3.766691 GGCGGTAGTCTGGGCGAA 61.767 66.667 0.00 0.00 0.00 4.70
8820 11914 4.753662 AGGCGGTAGTCTGGGCGA 62.754 66.667 0.00 0.00 0.00 5.54
8821 11915 4.208686 GAGGCGGTAGTCTGGGCG 62.209 72.222 0.00 0.00 28.74 6.13
8822 11916 3.075005 TGAGGCGGTAGTCTGGGC 61.075 66.667 0.00 0.00 28.74 5.36
8823 11917 2.893398 GTGAGGCGGTAGTCTGGG 59.107 66.667 0.00 0.00 28.74 4.45
8824 11918 2.490217 CGTGAGGCGGTAGTCTGG 59.510 66.667 0.00 0.00 36.85 3.86
8837 11931 1.004320 AAATGGCGCACTACCGTGA 60.004 52.632 10.83 0.00 43.97 4.35
8839 11933 1.743995 GGAAATGGCGCACTACCGT 60.744 57.895 10.83 0.00 0.00 4.83
8841 11935 1.993369 GCTGGAAATGGCGCACTACC 61.993 60.000 10.83 6.32 0.00 3.18
8842 11936 1.026718 AGCTGGAAATGGCGCACTAC 61.027 55.000 10.83 0.00 0.00 2.73
8843 11937 0.744414 GAGCTGGAAATGGCGCACTA 60.744 55.000 10.83 0.00 0.00 2.74
8845 11939 2.486966 GAGCTGGAAATGGCGCAC 59.513 61.111 10.83 0.00 0.00 5.34
8847 11941 2.439156 AGGAGCTGGAAATGGCGC 60.439 61.111 0.00 0.00 0.00 6.53
8848 11942 1.094073 CAGAGGAGCTGGAAATGGCG 61.094 60.000 0.00 0.00 41.07 5.69
8858 11952 2.604686 TGGCGGAACAGAGGAGCT 60.605 61.111 0.00 0.00 0.00 4.09
8859 11953 2.125350 CTGGCGGAACAGAGGAGC 60.125 66.667 0.00 0.00 40.97 4.70
8860 11954 2.125350 GCTGGCGGAACAGAGGAG 60.125 66.667 0.00 0.00 40.97 3.69
8861 11955 4.069232 CGCTGGCGGAACAGAGGA 62.069 66.667 7.12 0.00 40.97 3.71
8863 11957 2.357517 AACGCTGGCGGAACAGAG 60.358 61.111 18.99 0.00 44.69 3.35
8865 11959 2.954753 GACAACGCTGGCGGAACAG 61.955 63.158 18.99 6.42 44.69 3.16
8869 11963 2.357034 GAAGACAACGCTGGCGGA 60.357 61.111 18.99 0.00 44.69 5.54
8870 11964 3.777925 CGAAGACAACGCTGGCGG 61.778 66.667 18.99 4.93 44.69 6.13
8872 11966 1.222115 AAGACGAAGACAACGCTGGC 61.222 55.000 0.00 0.00 0.00 4.85
8874 11968 3.305964 TCTTAAGACGAAGACAACGCTG 58.694 45.455 0.00 0.00 30.36 5.18
8875 11969 3.566523 CTCTTAAGACGAAGACAACGCT 58.433 45.455 0.00 0.00 32.05 5.07
8876 11970 2.090812 GCTCTTAAGACGAAGACAACGC 59.909 50.000 0.00 0.00 32.05 4.84
8877 11971 3.305964 TGCTCTTAAGACGAAGACAACG 58.694 45.455 0.00 0.00 32.05 4.10
8878 11972 5.164954 AGATGCTCTTAAGACGAAGACAAC 58.835 41.667 0.00 0.00 32.05 3.32
8879 11973 5.392767 AGATGCTCTTAAGACGAAGACAA 57.607 39.130 0.00 0.00 32.05 3.18
8880 11974 4.142359 GGAGATGCTCTTAAGACGAAGACA 60.142 45.833 0.00 0.00 32.05 3.41
8881 11975 4.142359 TGGAGATGCTCTTAAGACGAAGAC 60.142 45.833 0.00 0.00 32.05 3.01
8882 11976 4.017126 TGGAGATGCTCTTAAGACGAAGA 58.983 43.478 0.00 0.00 34.30 2.87
8883 11977 4.358851 CTGGAGATGCTCTTAAGACGAAG 58.641 47.826 0.00 0.00 0.00 3.79
8884 11978 3.429547 GCTGGAGATGCTCTTAAGACGAA 60.430 47.826 0.00 0.00 0.00 3.85
8887 11981 3.118811 ACAGCTGGAGATGCTCTTAAGAC 60.119 47.826 19.93 0.00 38.92 3.01
8888 11982 3.102972 ACAGCTGGAGATGCTCTTAAGA 58.897 45.455 19.93 4.81 38.92 2.10
8889 11983 3.540314 ACAGCTGGAGATGCTCTTAAG 57.460 47.619 19.93 0.00 38.92 1.85
8890 11984 3.603532 CAACAGCTGGAGATGCTCTTAA 58.396 45.455 19.93 0.00 38.92 1.85
8891 11985 3.257469 CAACAGCTGGAGATGCTCTTA 57.743 47.619 19.93 0.00 38.92 2.10
8893 11987 3.857217 CAACAGCTGGAGATGCTCT 57.143 52.632 19.93 0.00 38.92 4.09


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

AutoCloner maintained by Alex Coulton.