Multiple sequence alignment - TraesCS4B01G201100

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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 TraesCS4B01G201100 chr4B 100.000 8037 0 0 1 8037 429090298 429098334 0.000000e+00 14842
1 TraesCS4B01G201100 chr4B 88.128 219 25 1 123 340 511244505 511244723 8.000000e-65 259
2 TraesCS4B01G201100 chr3B 96.954 4465 126 7 341 4801 581343548 581339090 0.000000e+00 7483
3 TraesCS4B01G201100 chr3B 96.720 3079 68 8 4803 7868 581337648 581334590 0.000000e+00 5096
4 TraesCS4B01G201100 chr3B 86.469 303 40 1 7731 8032 597821061 597821363 1.670000e-86 331
5 TraesCS4B01G201100 chr3B 90.411 219 20 1 123 340 775311317 775311535 3.670000e-73 287
6 TraesCS4B01G201100 chr3B 88.991 218 23 1 123 339 775309472 775309255 1.330000e-67 268
7 TraesCS4B01G201100 chr3B 97.345 113 3 0 3097 3209 581344418 581344530 8.230000e-45 193
8 TraesCS4B01G201100 chr6A 95.927 4395 128 19 1 4361 466332609 466328232 0.000000e+00 7077
9 TraesCS4B01G201100 chr6A 94.816 3241 151 13 340 3574 466346680 466343451 0.000000e+00 5038
10 TraesCS4B01G201100 chr6A 93.990 3228 154 23 340 3564 466351492 466348302 0.000000e+00 4850
11 TraesCS4B01G201100 chr6A 93.489 3256 150 34 340 3564 466359889 466356665 0.000000e+00 4782
12 TraesCS4B01G201100 chr6A 94.526 2923 145 9 655 3569 466364393 466361478 0.000000e+00 4497
13 TraesCS4B01G201100 chr6A 96.152 2573 68 13 5144 7709 466325239 466322691 0.000000e+00 4174
14 TraesCS4B01G201100 chr6A 95.570 1264 44 7 4803 6061 466338237 466336981 0.000000e+00 2013
15 TraesCS4B01G201100 chr6A 95.976 994 36 2 3812 4801 466340674 466339681 0.000000e+00 1611
16 TraesCS4B01G201100 chr6A 93.387 877 52 4 336 1210 466165365 466164493 0.000000e+00 1293
17 TraesCS4B01G201100 chr6A 93.571 871 51 3 340 1210 466406997 466406132 0.000000e+00 1293
18 TraesCS4B01G201100 chr6A 99.020 408 4 0 4394 4801 466328233 466327826 0.000000e+00 732
19 TraesCS4B01G201100 chr6A 96.865 319 9 1 4803 5121 466325962 466325645 4.270000e-147 532
20 TraesCS4B01G201100 chr6A 92.169 166 11 2 7712 7876 454803271 454803435 4.850000e-57 233
21 TraesCS4B01G201100 chr4D 97.919 2980 47 8 1827 4801 349007112 349010081 0.000000e+00 5145
22 TraesCS4B01G201100 chr4D 95.202 2897 78 15 4803 7683 349011523 349014374 0.000000e+00 4523
23 TraesCS4B01G201100 chr4D 95.936 1501 50 4 340 1831 349003556 349005054 0.000000e+00 2423
24 TraesCS4B01G201100 chr4D 93.711 159 8 2 7711 7868 34816573 34816416 3.750000e-58 237
25 TraesCS4B01G201100 chr4A 95.815 2891 86 14 4803 7677 115914444 115911573 0.000000e+00 4636
26 TraesCS4B01G201100 chr4A 96.882 2341 62 7 383 2721 115920864 115918533 0.000000e+00 3908
27 TraesCS4B01G201100 chr4A 95.947 1283 32 8 2763 4042 115918121 115916856 0.000000e+00 2063
28 TraesCS4B01G201100 chr4A 97.641 763 17 1 4040 4801 115916615 115915853 0.000000e+00 1308
29 TraesCS4B01G201100 chr7B 86.687 323 42 1 7711 8032 60569407 60569729 2.760000e-94 357
30 TraesCS4B01G201100 chr7B 86.937 222 27 2 123 343 662902310 662902530 1.730000e-61 248
31 TraesCS4B01G201100 chr7D 84.810 316 41 7 7720 8032 52710449 52710760 2.180000e-80 311
32 TraesCS4B01G201100 chr7D 91.713 181 12 3 7852 8030 618492428 618492607 1.730000e-61 248
33 TraesCS4B01G201100 chr7D 86.239 218 28 2 123 339 587089866 587089650 1.350000e-57 235
34 TraesCS4B01G201100 chr3A 86.348 293 27 7 7753 8032 644663812 644664104 2.820000e-79 307
35 TraesCS4B01G201100 chr3D 88.938 226 23 2 116 339 554379784 554380009 2.210000e-70 278
36 TraesCS4B01G201100 chr3D 92.638 163 10 2 7704 7865 442969868 442970029 4.850000e-57 233
37 TraesCS4B01G201100 chr6B 95.210 167 8 0 7865 8031 29399881 29400047 1.720000e-66 265
38 TraesCS4B01G201100 chr6B 88.268 179 18 3 116 294 113773150 113772975 2.270000e-50 211
39 TraesCS4B01G201100 chr1B 95.181 166 8 0 7867 8032 639429465 639429630 6.190000e-66 263
40 TraesCS4B01G201100 chr1B 93.023 172 11 1 7865 8035 188456796 188456625 4.820000e-62 250
41 TraesCS4B01G201100 chr6D 95.122 164 8 0 7867 8030 445766386 445766549 8.000000e-65 259
42 TraesCS4B01G201100 chr6D 94.578 166 9 0 7867 8032 266773118 266773283 2.880000e-64 257
43 TraesCS4B01G201100 chr7A 87.111 225 28 1 116 339 28262622 28262846 3.720000e-63 254
44 TraesCS4B01G201100 chr5A 88.889 198 22 0 7712 7909 611541174 611541371 2.240000e-60 244
45 TraesCS4B01G201100 chr2B 89.231 130 12 2 211 339 610247033 610246905 2.320000e-35 161


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 TraesCS4B01G201100 chr4B 429090298 429098334 8036 False 14842.000000 14842 100.000000 1 8037 1 chr4B.!!$F1 8036
1 TraesCS4B01G201100 chr3B 581334590 581343548 8958 True 6289.500000 7483 96.837000 341 7868 2 chr3B.!!$R2 7527
2 TraesCS4B01G201100 chr6A 466356665 466364393 7728 True 4639.500000 4782 94.007500 340 3569 2 chr6A.!!$R5 3229
3 TraesCS4B01G201100 chr6A 466336981 466351492 14511 True 3378.000000 5038 95.088000 340 6061 4 chr6A.!!$R4 5721
4 TraesCS4B01G201100 chr6A 466322691 466332609 9918 True 3128.750000 7077 96.991000 1 7709 4 chr6A.!!$R3 7708
5 TraesCS4B01G201100 chr6A 466164493 466165365 872 True 1293.000000 1293 93.387000 336 1210 1 chr6A.!!$R1 874
6 TraesCS4B01G201100 chr6A 466406132 466406997 865 True 1293.000000 1293 93.571000 340 1210 1 chr6A.!!$R2 870
7 TraesCS4B01G201100 chr4D 349003556 349014374 10818 False 4030.333333 5145 96.352333 340 7683 3 chr4D.!!$F1 7343
8 TraesCS4B01G201100 chr4A 115911573 115920864 9291 True 2978.750000 4636 96.571250 383 7677 4 chr4A.!!$R1 7294

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
251 252 1.860326 GCAAATGAGCGTTGCTTTTGT 59.140 42.857 14.11 0.00 46.31 2.83 F
1287 10282 0.177141 GTATCAGGTTGGCCGCTGTA 59.823 55.000 0.00 0.00 40.50 2.74 F
1466 10462 1.426983 TGATGGTGACCAAATGGACCA 59.573 47.619 9.06 13.60 43.55 4.02 F
1528 10524 3.008594 TGGTGTTCATGAACGGTAGGATT 59.991 43.478 28.55 0.00 43.94 3.01 F
1935 12994 4.874966 CCTTTGGACTTCTCTATTCAGCTG 59.125 45.833 7.63 7.63 0.00 4.24 F
3571 15032 3.260884 ACACCTGATTATGTGGACTTCGT 59.739 43.478 0.00 0.00 36.80 3.85 F
4170 18422 2.689785 CGCGTTGCCATGTGACCAT 61.690 57.895 0.00 0.00 0.00 3.55 F
5260 21804 1.139226 GCACACACACTTGGTTTGCG 61.139 55.000 0.00 0.00 30.10 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1399 10395 0.539438 TTCTCCGCACAAAGGCCAAT 60.539 50.000 5.01 0.0 0.00 3.16 R
2981 14410 2.028130 TGCCAATGGAAAACAGAACGT 58.972 42.857 2.05 0.0 0.00 3.99 R
3501 14962 2.543653 GCTTCAAACATTTGGCTCACGT 60.544 45.455 4.58 0.0 38.66 4.49 R
3565 15026 8.035394 ACTTTGATGTTCATATCAGTACGAAGT 58.965 33.333 0.00 0.0 40.57 3.01 R
3682 15143 3.806949 ACTAATTGAGAAGGTTGGGCA 57.193 42.857 0.00 0.0 0.00 5.36 R
4391 18677 0.326618 TGAGGGGAGGAAGCCTAAGG 60.327 60.000 0.00 0.0 31.76 2.69 R
5569 22118 2.302445 AGCTCTCCATCAGATGCCATAC 59.698 50.000 4.68 0.0 0.00 2.39 R
7072 23621 1.089920 ATGGTGCAGTCGATCAAAGC 58.910 50.000 0.00 0.0 0.00 3.51 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
114 115 9.454859 AAGATAAGATGAACAAAAGAACTAGGG 57.545 33.333 0.00 0.00 0.00 3.53
120 121 4.578928 TGAACAAAAGAACTAGGGCAACTC 59.421 41.667 0.00 0.00 0.00 3.01
121 122 3.139077 ACAAAAGAACTAGGGCAACTCG 58.861 45.455 0.00 0.00 0.00 4.18
251 252 1.860326 GCAAATGAGCGTTGCTTTTGT 59.140 42.857 14.11 0.00 46.31 2.83
474 9461 6.649973 ACTTATGCAGCAGATGAGTATTGATC 59.350 38.462 9.75 0.00 0.00 2.92
590 9577 8.502738 AGAAGAAAACATAGATATGCCCCTTAA 58.497 33.333 0.00 0.00 37.19 1.85
646 9633 4.621068 TGCGCTAAATTCTTTCCATCAG 57.379 40.909 9.73 0.00 0.00 2.90
662 9649 4.458989 TCCATCAGCTGTTTGGATAACAAC 59.541 41.667 26.79 0.00 39.19 3.32
681 9668 3.185246 ACGTCCTAAGCAATCTGGATG 57.815 47.619 0.00 0.00 40.40 3.51
812 9806 9.160496 CTCAGCTATATGGAAATTGATACTTCC 57.840 37.037 0.00 0.00 41.37 3.46
1048 10043 4.373116 GCCCGTCTGTCGCCAAGA 62.373 66.667 0.00 0.00 38.35 3.02
1094 10089 2.575993 CAGTAGCTCAGGCGCTGT 59.424 61.111 7.64 0.00 44.37 4.40
1146 10141 3.075005 GCCAGCGGACTCTACCCA 61.075 66.667 0.00 0.00 0.00 4.51
1287 10282 0.177141 GTATCAGGTTGGCCGCTGTA 59.823 55.000 0.00 0.00 40.50 2.74
1362 10358 9.239002 CTACTGTATGCTTTGAGAGTTACATAC 57.761 37.037 0.00 0.00 40.00 2.39
1399 10395 2.241430 TCTCCTGTCTTCGGTGGATAGA 59.759 50.000 0.00 0.00 0.00 1.98
1466 10462 1.426983 TGATGGTGACCAAATGGACCA 59.573 47.619 9.06 13.60 43.55 4.02
1528 10524 3.008594 TGGTGTTCATGAACGGTAGGATT 59.991 43.478 28.55 0.00 43.94 3.01
1731 10728 6.148811 TCGGCAATTTACCTTTCTGTTCTTAG 59.851 38.462 0.00 0.00 0.00 2.18
1760 10757 6.476706 CAGAAATCCTTTTGACAAGGTGAAAC 59.523 38.462 0.00 0.00 38.55 2.78
1765 10762 6.891388 TCCTTTTGACAAGGTGAAACTACTA 58.109 36.000 0.00 0.00 38.55 1.82
1841 12900 5.473846 AGAAGGATGCATCTAATCATGCTTG 59.526 40.000 25.28 0.00 46.49 4.01
1842 12901 5.241064 GAAGGATGCATCTAATCATGCTTGT 59.759 40.000 25.28 0.00 46.49 3.16
1935 12994 4.874966 CCTTTGGACTTCTCTATTCAGCTG 59.125 45.833 7.63 7.63 0.00 4.24
2064 13123 9.436957 TCTAAGAAGATCATAAAAACTGACACC 57.563 33.333 0.00 0.00 0.00 4.16
2673 13732 5.885230 TTAAATCTGCACTTGATGGTCTG 57.115 39.130 0.00 0.00 0.00 3.51
3266 14698 9.045223 TCAGTCGTATGGAATTTGAGAATATTG 57.955 33.333 0.00 0.00 0.00 1.90
3565 15026 9.035890 CCTATAAGATACACCTGATTATGTGGA 57.964 37.037 0.00 0.00 36.80 4.02
3571 15032 3.260884 ACACCTGATTATGTGGACTTCGT 59.739 43.478 0.00 0.00 36.80 3.85
3578 15039 7.255486 CCTGATTATGTGGACTTCGTACTGATA 60.255 40.741 0.00 0.00 0.00 2.15
3667 15128 5.061721 ACAAAAGATGGTACCTCCTGTTT 57.938 39.130 14.36 6.27 37.07 2.83
3682 15143 6.273965 ACCTCCTGTTTAAGTATACCTGGTTT 59.726 38.462 3.84 0.00 0.00 3.27
3794 15255 8.491331 ACAAAGTGCAAGTCAATAAAACAAAT 57.509 26.923 0.00 0.00 0.00 2.32
3843 17845 4.453136 TGGCGAGTACAAATTTGAGTTACC 59.547 41.667 24.64 16.67 0.00 2.85
4058 18306 7.225931 TGTCAATGTAAGACTAAAACCACAGTC 59.774 37.037 0.00 0.00 41.25 3.51
4167 18419 4.759096 GCCGCGTTGCCATGTGAC 62.759 66.667 4.92 0.00 0.00 3.67
4170 18422 2.689785 CGCGTTGCCATGTGACCAT 61.690 57.895 0.00 0.00 0.00 3.55
4382 18668 6.724893 TTCCGAGAATAGTGGAATACATCA 57.275 37.500 0.00 0.00 36.87 3.07
4383 18669 6.332735 TCCGAGAATAGTGGAATACATCAG 57.667 41.667 0.00 0.00 0.00 2.90
4384 18670 6.068670 TCCGAGAATAGTGGAATACATCAGA 58.931 40.000 0.00 0.00 0.00 3.27
4385 18671 6.721668 TCCGAGAATAGTGGAATACATCAGAT 59.278 38.462 0.00 0.00 0.00 2.90
4386 18672 7.032580 CCGAGAATAGTGGAATACATCAGATC 58.967 42.308 0.00 0.00 0.00 2.75
4387 18673 7.309438 CCGAGAATAGTGGAATACATCAGATCA 60.309 40.741 0.00 0.00 0.00 2.92
4388 18674 8.084684 CGAGAATAGTGGAATACATCAGATCAA 58.915 37.037 0.00 0.00 0.00 2.57
4389 18675 9.770097 GAGAATAGTGGAATACATCAGATCAAA 57.230 33.333 0.00 0.00 0.00 2.69
4390 18676 9.775854 AGAATAGTGGAATACATCAGATCAAAG 57.224 33.333 0.00 0.00 0.00 2.77
4391 18677 7.976135 ATAGTGGAATACATCAGATCAAAGC 57.024 36.000 0.00 0.00 0.00 3.51
4392 18678 5.128919 AGTGGAATACATCAGATCAAAGCC 58.871 41.667 0.00 0.00 0.00 4.35
4393 18679 5.104193 AGTGGAATACATCAGATCAAAGCCT 60.104 40.000 0.00 0.00 0.00 4.58
4394 18680 5.591877 GTGGAATACATCAGATCAAAGCCTT 59.408 40.000 0.00 0.00 0.00 4.35
4612 18898 9.739276 TCTTTTTCCAAATATCTCTTTAGCTGA 57.261 29.630 0.00 0.00 0.00 4.26
4801 19087 6.767902 GGAATGTGAATAGCCAAGTCTATCAA 59.232 38.462 0.00 0.00 0.00 2.57
4813 20970 6.879458 GCCAAGTCTATCAAGTAAGGAGAAAA 59.121 38.462 0.00 0.00 0.00 2.29
4816 20973 8.436200 CAAGTCTATCAAGTAAGGAGAAAAACG 58.564 37.037 0.00 0.00 0.00 3.60
4845 21002 2.682594 TGCTCATAGCCTCATACACCT 58.317 47.619 0.00 0.00 41.51 4.00
4947 21108 6.543831 GTGAGGAACATGCCTACATTATTCTT 59.456 38.462 0.00 0.00 38.73 2.52
5037 21198 7.894753 ACACTACTAGTTTAGGGATCTTACC 57.105 40.000 0.00 0.00 0.00 2.85
5142 21686 5.625311 GCACACGTAATTTCCTTTCTCTTTG 59.375 40.000 0.00 0.00 0.00 2.77
5260 21804 1.139226 GCACACACACTTGGTTTGCG 61.139 55.000 0.00 0.00 30.10 4.85
5792 22341 2.548057 TCGTCAAGTTGGAATGCAGTTC 59.452 45.455 2.34 0.00 36.04 3.01
5896 22445 5.296035 AGGTAGAAACGACTGGAAAAACAAG 59.704 40.000 0.00 0.00 0.00 3.16
5905 22454 5.500645 ACTGGAAAAACAAGCAAGTACTC 57.499 39.130 0.00 0.00 0.00 2.59
5931 22480 4.180817 TGAAGTCGTGATAATGCAATCGT 58.819 39.130 0.00 0.00 0.00 3.73
5934 22483 3.551890 AGTCGTGATAATGCAATCGTCAC 59.448 43.478 12.25 12.25 37.30 3.67
6697 23246 7.522721 CATATGTTTATGGATTACCCGTGGGG 61.523 46.154 10.28 2.83 39.18 4.96
6938 23487 0.535335 TATCGGCACTCACCAGGAAC 59.465 55.000 0.00 0.00 0.00 3.62
7072 23621 0.169672 CAAGTTCTTCAGCATGCCCG 59.830 55.000 15.66 6.18 34.76 6.13
7132 23681 5.063204 TGGGATCAAGTAATATGCGAAAGG 58.937 41.667 0.00 0.00 0.00 3.11
7393 23943 3.131709 AGATGTGTTGCTGTTGCTAGT 57.868 42.857 0.00 0.00 40.48 2.57
7401 23951 5.178623 GTGTTGCTGTTGCTAGTGTATGTTA 59.821 40.000 0.00 0.00 40.48 2.41
7403 23953 6.261158 TGTTGCTGTTGCTAGTGTATGTTAAA 59.739 34.615 0.00 0.00 40.48 1.52
7406 23956 7.881142 TGCTGTTGCTAGTGTATGTTAAATTT 58.119 30.769 0.00 0.00 40.48 1.82
7490 24040 2.191400 TGAGGCTGCTGAATTAGAGGT 58.809 47.619 0.00 0.00 0.00 3.85
7618 24178 4.972591 GCATGACAGCGGCTTTTT 57.027 50.000 0.00 0.00 0.00 1.94
7668 24228 0.038526 CGAAAGTACCGCTGGTGTCT 60.039 55.000 10.01 6.12 36.19 3.41
7669 24229 1.429463 GAAAGTACCGCTGGTGTCTG 58.571 55.000 10.01 0.00 36.19 3.51
7670 24230 0.756903 AAAGTACCGCTGGTGTCTGT 59.243 50.000 10.01 2.33 36.19 3.41
7744 24307 3.094484 TCGGTTTATGGGGCTCAAATT 57.906 42.857 0.00 0.00 0.00 1.82
7746 24309 3.835395 TCGGTTTATGGGGCTCAAATTTT 59.165 39.130 0.00 0.00 0.00 1.82
7795 24358 4.579340 TGAGTGGAGGAATGTATCTCGTAC 59.421 45.833 0.00 0.00 0.00 3.67
7800 24363 6.916932 GTGGAGGAATGTATCTCGTACTTTAC 59.083 42.308 0.00 0.00 33.52 2.01
7804 24367 9.362539 GAGGAATGTATCTCGTACTTTACAAAA 57.637 33.333 0.00 0.00 35.00 2.44
7805 24368 9.148104 AGGAATGTATCTCGTACTTTACAAAAC 57.852 33.333 0.00 0.00 35.00 2.43
7806 24369 9.148104 GGAATGTATCTCGTACTTTACAAAACT 57.852 33.333 0.00 0.00 33.54 2.66
7868 24431 1.860676 CATGCATGCTTGGCCATTAC 58.139 50.000 22.49 0.00 0.00 1.89
7869 24432 1.411246 CATGCATGCTTGGCCATTACT 59.589 47.619 22.49 0.00 0.00 2.24
7870 24433 1.105457 TGCATGCTTGGCCATTACTC 58.895 50.000 20.33 0.00 0.00 2.59
7871 24434 0.386838 GCATGCTTGGCCATTACTCC 59.613 55.000 6.09 0.00 0.00 3.85
7872 24435 1.035139 CATGCTTGGCCATTACTCCC 58.965 55.000 6.09 0.00 0.00 4.30
7873 24436 0.929244 ATGCTTGGCCATTACTCCCT 59.071 50.000 6.09 0.00 0.00 4.20
7874 24437 0.255890 TGCTTGGCCATTACTCCCTC 59.744 55.000 6.09 0.00 0.00 4.30
7875 24438 0.466372 GCTTGGCCATTACTCCCTCC 60.466 60.000 6.09 0.00 0.00 4.30
7876 24439 0.179045 CTTGGCCATTACTCCCTCCG 60.179 60.000 6.09 0.00 0.00 4.63
7877 24440 0.912487 TTGGCCATTACTCCCTCCGT 60.912 55.000 6.09 0.00 0.00 4.69
7878 24441 0.912487 TGGCCATTACTCCCTCCGTT 60.912 55.000 0.00 0.00 0.00 4.44
7879 24442 0.179054 GGCCATTACTCCCTCCGTTC 60.179 60.000 0.00 0.00 0.00 3.95
7880 24443 0.179054 GCCATTACTCCCTCCGTTCC 60.179 60.000 0.00 0.00 0.00 3.62
7881 24444 0.468648 CCATTACTCCCTCCGTTCCC 59.531 60.000 0.00 0.00 0.00 3.97
7882 24445 1.200519 CATTACTCCCTCCGTTCCCA 58.799 55.000 0.00 0.00 0.00 4.37
7883 24446 1.557832 CATTACTCCCTCCGTTCCCAA 59.442 52.381 0.00 0.00 0.00 4.12
7884 24447 1.732117 TTACTCCCTCCGTTCCCAAA 58.268 50.000 0.00 0.00 0.00 3.28
7885 24448 1.961133 TACTCCCTCCGTTCCCAAAT 58.039 50.000 0.00 0.00 0.00 2.32
7886 24449 1.961133 ACTCCCTCCGTTCCCAAATA 58.039 50.000 0.00 0.00 0.00 1.40
7887 24450 2.488836 ACTCCCTCCGTTCCCAAATAT 58.511 47.619 0.00 0.00 0.00 1.28
7888 24451 2.850568 ACTCCCTCCGTTCCCAAATATT 59.149 45.455 0.00 0.00 0.00 1.28
7889 24452 3.268595 ACTCCCTCCGTTCCCAAATATTT 59.731 43.478 0.00 0.00 0.00 1.40
7890 24453 3.626930 TCCCTCCGTTCCCAAATATTTG 58.373 45.455 19.40 19.40 37.90 2.32
7891 24454 3.010808 TCCCTCCGTTCCCAAATATTTGT 59.989 43.478 23.24 0.00 36.45 2.83
7892 24455 3.380320 CCCTCCGTTCCCAAATATTTGTC 59.620 47.826 23.24 11.68 36.45 3.18
7893 24456 4.270008 CCTCCGTTCCCAAATATTTGTCT 58.730 43.478 23.24 0.00 36.45 3.41
7894 24457 4.705023 CCTCCGTTCCCAAATATTTGTCTT 59.295 41.667 23.24 0.00 36.45 3.01
7895 24458 5.185056 CCTCCGTTCCCAAATATTTGTCTTT 59.815 40.000 23.24 0.00 36.45 2.52
7896 24459 6.019779 TCCGTTCCCAAATATTTGTCTTTG 57.980 37.500 23.24 10.08 36.45 2.77
7897 24460 5.536916 TCCGTTCCCAAATATTTGTCTTTGT 59.463 36.000 23.24 0.00 36.45 2.83
7898 24461 6.715718 TCCGTTCCCAAATATTTGTCTTTGTA 59.284 34.615 23.24 5.03 36.45 2.41
7899 24462 7.027161 CCGTTCCCAAATATTTGTCTTTGTAG 58.973 38.462 23.24 8.23 36.45 2.74
7900 24463 7.094549 CCGTTCCCAAATATTTGTCTTTGTAGA 60.095 37.037 23.24 7.17 36.45 2.59
7901 24464 7.962918 CGTTCCCAAATATTTGTCTTTGTAGAG 59.037 37.037 23.24 7.00 36.45 2.43
7902 24465 9.010029 GTTCCCAAATATTTGTCTTTGTAGAGA 57.990 33.333 23.24 5.94 36.45 3.10
7903 24466 9.753674 TTCCCAAATATTTGTCTTTGTAGAGAT 57.246 29.630 23.24 0.00 36.45 2.75
7904 24467 9.753674 TCCCAAATATTTGTCTTTGTAGAGATT 57.246 29.630 23.24 0.00 36.45 2.40
7912 24475 9.956720 ATTTGTCTTTGTAGAGATTTCAACAAG 57.043 29.630 0.00 0.00 33.70 3.16
7913 24476 8.506168 TTGTCTTTGTAGAGATTTCAACAAGT 57.494 30.769 0.00 0.00 33.70 3.16
7914 24477 7.919690 TGTCTTTGTAGAGATTTCAACAAGTG 58.080 34.615 0.00 0.00 33.70 3.16
7915 24478 7.768582 TGTCTTTGTAGAGATTTCAACAAGTGA 59.231 33.333 0.00 0.00 33.70 3.41
7916 24479 8.064814 GTCTTTGTAGAGATTTCAACAAGTGAC 58.935 37.037 0.00 0.00 35.39 3.67
7917 24480 7.987458 TCTTTGTAGAGATTTCAACAAGTGACT 59.013 33.333 0.00 0.00 35.39 3.41
7918 24481 9.261180 CTTTGTAGAGATTTCAACAAGTGACTA 57.739 33.333 0.00 0.00 35.39 2.59
7919 24482 8.589335 TTGTAGAGATTTCAACAAGTGACTAC 57.411 34.615 0.00 0.00 35.39 2.73
7920 24483 7.722363 TGTAGAGATTTCAACAAGTGACTACA 58.278 34.615 0.00 0.00 37.97 2.74
7921 24484 8.367911 TGTAGAGATTTCAACAAGTGACTACAT 58.632 33.333 0.00 0.00 36.58 2.29
7922 24485 9.856488 GTAGAGATTTCAACAAGTGACTACATA 57.144 33.333 0.00 0.00 35.39 2.29
7923 24486 8.764524 AGAGATTTCAACAAGTGACTACATAC 57.235 34.615 0.00 0.00 35.39 2.39
7924 24487 7.542477 AGAGATTTCAACAAGTGACTACATACG 59.458 37.037 0.00 0.00 35.39 3.06
7925 24488 7.375834 AGATTTCAACAAGTGACTACATACGA 58.624 34.615 0.00 0.00 35.39 3.43
7926 24489 7.870954 AGATTTCAACAAGTGACTACATACGAA 59.129 33.333 0.00 0.00 35.39 3.85
7927 24490 7.402811 TTTCAACAAGTGACTACATACGAAG 57.597 36.000 0.00 0.00 35.39 3.79
7928 24491 4.921515 TCAACAAGTGACTACATACGAAGC 59.078 41.667 0.00 0.00 0.00 3.86
7929 24492 4.514781 ACAAGTGACTACATACGAAGCA 57.485 40.909 0.00 0.00 0.00 3.91
7930 24493 4.878439 ACAAGTGACTACATACGAAGCAA 58.122 39.130 0.00 0.00 0.00 3.91
7931 24494 5.294356 ACAAGTGACTACATACGAAGCAAA 58.706 37.500 0.00 0.00 0.00 3.68
7932 24495 5.756347 ACAAGTGACTACATACGAAGCAAAA 59.244 36.000 0.00 0.00 0.00 2.44
7933 24496 6.426937 ACAAGTGACTACATACGAAGCAAAAT 59.573 34.615 0.00 0.00 0.00 1.82
7934 24497 6.408858 AGTGACTACATACGAAGCAAAATG 57.591 37.500 0.00 0.00 0.00 2.32
7935 24498 6.163476 AGTGACTACATACGAAGCAAAATGA 58.837 36.000 0.00 0.00 0.00 2.57
7936 24499 6.311445 AGTGACTACATACGAAGCAAAATGAG 59.689 38.462 0.00 0.00 0.00 2.90
7937 24500 6.090898 GTGACTACATACGAAGCAAAATGAGT 59.909 38.462 0.00 0.00 0.00 3.41
7938 24501 6.090763 TGACTACATACGAAGCAAAATGAGTG 59.909 38.462 0.00 0.00 0.00 3.51
7939 24502 6.163476 ACTACATACGAAGCAAAATGAGTGA 58.837 36.000 0.00 0.00 0.00 3.41
7940 24503 5.940192 ACATACGAAGCAAAATGAGTGAA 57.060 34.783 0.00 0.00 0.00 3.18
7941 24504 5.931532 ACATACGAAGCAAAATGAGTGAAG 58.068 37.500 0.00 0.00 0.00 3.02
7942 24505 3.273919 ACGAAGCAAAATGAGTGAAGC 57.726 42.857 0.00 0.00 0.00 3.86
7943 24506 2.880890 ACGAAGCAAAATGAGTGAAGCT 59.119 40.909 0.00 0.00 0.00 3.74
7944 24507 4.065088 ACGAAGCAAAATGAGTGAAGCTA 58.935 39.130 0.00 0.00 0.00 3.32
7945 24508 4.083802 ACGAAGCAAAATGAGTGAAGCTAC 60.084 41.667 0.00 0.00 0.00 3.58
7946 24509 4.083855 CGAAGCAAAATGAGTGAAGCTACA 60.084 41.667 0.00 0.00 0.00 2.74
7947 24510 4.756084 AGCAAAATGAGTGAAGCTACAC 57.244 40.909 0.00 0.00 40.60 2.90
7960 24523 7.971004 GTGAAGCTACACTTTAAAATATGCC 57.029 36.000 0.00 0.00 39.29 4.40
7961 24524 7.762382 GTGAAGCTACACTTTAAAATATGCCT 58.238 34.615 0.00 0.00 39.29 4.75
7962 24525 8.889717 GTGAAGCTACACTTTAAAATATGCCTA 58.110 33.333 0.00 0.00 39.29 3.93
7963 24526 8.889717 TGAAGCTACACTTTAAAATATGCCTAC 58.110 33.333 0.00 0.00 39.29 3.18
7964 24527 8.801882 AAGCTACACTTTAAAATATGCCTACA 57.198 30.769 0.00 0.00 33.71 2.74
7965 24528 8.980481 AGCTACACTTTAAAATATGCCTACAT 57.020 30.769 0.00 0.00 40.49 2.29
7972 24535 9.860650 ACTTTAAAATATGCCTACATACATCCA 57.139 29.630 0.00 0.00 41.50 3.41
7981 24544 8.969260 ATGCCTACATACATCCATATATTGTG 57.031 34.615 0.00 0.00 33.67 3.33
7982 24545 7.917003 TGCCTACATACATCCATATATTGTGT 58.083 34.615 0.00 0.66 0.00 3.72
7983 24546 8.040727 TGCCTACATACATCCATATATTGTGTC 58.959 37.037 0.00 0.00 0.00 3.67
7984 24547 7.495934 GCCTACATACATCCATATATTGTGTCC 59.504 40.741 0.00 0.00 0.00 4.02
7985 24548 8.539544 CCTACATACATCCATATATTGTGTCCA 58.460 37.037 0.00 0.00 0.00 4.02
7988 24551 9.812347 ACATACATCCATATATTGTGTCCATTT 57.188 29.630 0.00 0.00 0.00 2.32
7991 24554 8.765488 ACATCCATATATTGTGTCCATTTGAA 57.235 30.769 0.00 0.00 0.00 2.69
7992 24555 9.199645 ACATCCATATATTGTGTCCATTTGAAA 57.800 29.630 0.00 0.00 0.00 2.69
7995 24558 8.143193 TCCATATATTGTGTCCATTTGAAATGC 58.857 33.333 12.26 0.87 0.00 3.56
7996 24559 7.385752 CCATATATTGTGTCCATTTGAAATGCC 59.614 37.037 12.26 5.75 0.00 4.40
7997 24560 4.895668 ATTGTGTCCATTTGAAATGCCT 57.104 36.364 12.26 0.00 0.00 4.75
7998 24561 5.999205 ATTGTGTCCATTTGAAATGCCTA 57.001 34.783 12.26 0.00 0.00 3.93
7999 24562 5.389859 TTGTGTCCATTTGAAATGCCTAG 57.610 39.130 12.26 0.00 0.00 3.02
8000 24563 4.661222 TGTGTCCATTTGAAATGCCTAGA 58.339 39.130 12.26 1.83 0.00 2.43
8001 24564 5.076182 TGTGTCCATTTGAAATGCCTAGAA 58.924 37.500 12.26 0.00 0.00 2.10
8002 24565 5.538053 TGTGTCCATTTGAAATGCCTAGAAA 59.462 36.000 12.26 0.00 0.00 2.52
8003 24566 6.095377 GTGTCCATTTGAAATGCCTAGAAAG 58.905 40.000 12.26 0.00 0.00 2.62
8004 24567 6.009589 TGTCCATTTGAAATGCCTAGAAAGA 58.990 36.000 12.26 0.00 0.00 2.52
8005 24568 6.071952 TGTCCATTTGAAATGCCTAGAAAGAC 60.072 38.462 12.26 11.27 0.00 3.01
8006 24569 6.009589 TCCATTTGAAATGCCTAGAAAGACA 58.990 36.000 12.26 0.00 0.00 3.41
8007 24570 6.493115 TCCATTTGAAATGCCTAGAAAGACAA 59.507 34.615 12.26 0.00 0.00 3.18
8008 24571 7.015098 TCCATTTGAAATGCCTAGAAAGACAAA 59.985 33.333 12.26 0.00 0.00 2.83
8009 24572 7.820872 CCATTTGAAATGCCTAGAAAGACAAAT 59.179 33.333 12.26 0.00 36.38 2.32
8010 24573 9.859427 CATTTGAAATGCCTAGAAAGACAAATA 57.141 29.630 4.82 0.00 34.96 1.40
8017 24580 9.920946 AATGCCTAGAAAGACAAATATTTAGGA 57.079 29.630 11.79 1.09 0.00 2.94
8018 24581 9.920946 ATGCCTAGAAAGACAAATATTTAGGAA 57.079 29.630 11.79 3.74 0.00 3.36
8019 24582 9.174166 TGCCTAGAAAGACAAATATTTAGGAAC 57.826 33.333 11.79 0.00 0.00 3.62
8020 24583 8.336080 GCCTAGAAAGACAAATATTTAGGAACG 58.664 37.037 11.79 0.00 0.00 3.95
8021 24584 8.827677 CCTAGAAAGACAAATATTTAGGAACGG 58.172 37.037 0.00 0.00 0.00 4.44
8022 24585 9.595823 CTAGAAAGACAAATATTTAGGAACGGA 57.404 33.333 0.00 0.00 0.00 4.69
8023 24586 8.494016 AGAAAGACAAATATTTAGGAACGGAG 57.506 34.615 0.00 0.00 0.00 4.63
8024 24587 7.553044 AGAAAGACAAATATTTAGGAACGGAGG 59.447 37.037 0.00 0.00 0.00 4.30
8025 24588 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
8026 24589 5.427481 AGACAAATATTTAGGAACGGAGGGA 59.573 40.000 0.00 0.00 0.00 4.20
8027 24590 5.681639 ACAAATATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
8028 24591 5.191124 ACAAATATTTAGGAACGGAGGGAGT 59.809 40.000 0.00 0.00 0.00 3.85
8029 24592 6.384886 ACAAATATTTAGGAACGGAGGGAGTA 59.615 38.462 0.00 0.00 0.00 2.59
8030 24593 6.667558 AATATTTAGGAACGGAGGGAGTAG 57.332 41.667 0.00 0.00 0.00 2.57
8031 24594 3.744940 TTTAGGAACGGAGGGAGTAGA 57.255 47.619 0.00 0.00 0.00 2.59
8032 24595 3.294038 TTAGGAACGGAGGGAGTAGAG 57.706 52.381 0.00 0.00 0.00 2.43
8033 24596 1.296984 AGGAACGGAGGGAGTAGAGA 58.703 55.000 0.00 0.00 0.00 3.10
8034 24597 1.854280 AGGAACGGAGGGAGTAGAGAT 59.146 52.381 0.00 0.00 0.00 2.75
8035 24598 1.957877 GGAACGGAGGGAGTAGAGATG 59.042 57.143 0.00 0.00 0.00 2.90
8036 24599 2.423088 GGAACGGAGGGAGTAGAGATGA 60.423 54.545 0.00 0.00 0.00 2.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 72 8.402798 TCTTATCTTCCTGTAAATTGCAACAA 57.597 30.769 0.00 0.00 0.00 2.83
114 115 3.197434 GGTACCAAATCAACGAGTTGC 57.803 47.619 7.15 0.00 36.48 4.17
208 209 7.487484 TGCAACTGATAAAAATCTGAACACAA 58.513 30.769 0.00 0.00 0.00 3.33
251 252 5.523883 AACTACCCCAGTTTTAAGGCATA 57.476 39.130 0.00 0.00 45.54 3.14
288 289 3.790223 GCCAACAATGAAGGGCCA 58.210 55.556 6.18 0.00 40.55 5.36
290 291 2.981302 GGGCCAACAATGAAGGGC 59.019 61.111 4.39 12.14 46.34 5.19
292 293 2.350458 CCCGGGCCAACAATGAAGG 61.350 63.158 8.08 0.00 0.00 3.46
294 295 2.283532 CCCCGGGCCAACAATGAA 60.284 61.111 17.73 0.00 0.00 2.57
474 9461 5.010012 GCCCTTTATTCATGGAATGGTACTG 59.990 44.000 1.86 0.00 46.73 2.74
590 9577 5.181748 CACAGGAGCTAGCATAGAGTTTTT 58.818 41.667 18.83 0.00 42.77 1.94
646 9633 2.812011 AGGACGTTGTTATCCAAACAGC 59.188 45.455 0.00 0.00 37.47 4.40
662 9649 3.459232 TCATCCAGATTGCTTAGGACG 57.541 47.619 0.00 0.00 32.04 4.79
681 9668 6.088824 CACATGTTCATTCCAGCTAACTTTC 58.911 40.000 0.00 0.00 0.00 2.62
812 9806 2.827800 TCAGCACAGAGACCTGAAAG 57.172 50.000 0.00 0.00 43.02 2.62
1048 10043 3.056754 GCCCCATAAACCGAGCCCT 62.057 63.158 0.00 0.00 0.00 5.19
1094 10089 1.075970 CGGATCTCCACCTCAGGGA 60.076 63.158 0.00 0.00 36.25 4.20
1102 10097 1.335496 GACTAGTGCTCGGATCTCCAC 59.665 57.143 0.00 0.00 35.14 4.02
1287 10282 5.964958 AATGACAAAATCTCACCAATCGT 57.035 34.783 0.00 0.00 0.00 3.73
1362 10358 3.658757 GGAGATCTCCTCAATTCCTCG 57.341 52.381 31.11 0.00 46.16 4.63
1399 10395 0.539438 TTCTCCGCACAAAGGCCAAT 60.539 50.000 5.01 0.00 0.00 3.16
1466 10462 5.321927 CAAACCATACCTGTAGGAAAACCT 58.678 41.667 4.64 0.00 38.94 3.50
1528 10524 0.902531 GGCCCACACTCAGCTAGTTA 59.097 55.000 0.00 0.00 35.76 2.24
1694 10691 3.757745 AATTGCCGAAAATACAGGTCG 57.242 42.857 0.00 0.00 34.58 4.79
1731 10728 4.301628 CTTGTCAAAAGGATTTCTGGTGC 58.698 43.478 0.00 0.00 37.28 5.01
1765 10762 8.579850 TTCAGTAGTAAATCTCATTTGCCATT 57.420 30.769 0.00 0.00 35.77 3.16
1841 12900 8.920665 TGCAAGTTACAAATATTAAATGCACAC 58.079 29.630 0.00 0.00 32.66 3.82
1842 12901 9.481340 TTGCAAGTTACAAATATTAAATGCACA 57.519 25.926 0.00 0.00 35.18 4.57
1935 12994 1.050988 TGTCCCTAGCCATGGAGCTC 61.051 60.000 18.40 4.71 43.67 4.09
1987 13046 2.555325 CTCTCTGCATTTTGGCAAGTGA 59.445 45.455 15.98 3.28 44.40 3.41
2015 13074 1.334149 GCGACTGAAGCAAAACACCTC 60.334 52.381 0.00 0.00 34.19 3.85
2466 13525 7.564793 ACCAATTCATACATCTAGCTTACACA 58.435 34.615 0.00 0.00 0.00 3.72
2673 13732 4.142293 GGATTTTTCTCCAGACCTGCAATC 60.142 45.833 0.00 0.00 35.24 2.67
2790 14219 5.008217 GGCTTTGTGTTACATTGACTACACA 59.992 40.000 14.60 14.60 46.41 3.72
2981 14410 2.028130 TGCCAATGGAAAACAGAACGT 58.972 42.857 2.05 0.00 0.00 3.99
3501 14962 2.543653 GCTTCAAACATTTGGCTCACGT 60.544 45.455 4.58 0.00 38.66 4.49
3565 15026 8.035394 ACTTTGATGTTCATATCAGTACGAAGT 58.965 33.333 0.00 0.00 40.57 3.01
3571 15032 8.862325 ACCAAACTTTGATGTTCATATCAGTA 57.138 30.769 2.87 0.00 38.25 2.74
3578 15039 5.280654 AGCAACCAAACTTTGATGTTCAT 57.719 34.783 2.87 0.00 0.00 2.57
3682 15143 3.806949 ACTAATTGAGAAGGTTGGGCA 57.193 42.857 0.00 0.00 0.00 5.36
3843 17845 5.873179 TTTCTGGTCTATAAAAACCTGCG 57.127 39.130 0.00 0.00 36.47 5.18
4033 18038 7.492352 ACTGTGGTTTTAGTCTTACATTGAC 57.508 36.000 0.00 0.00 34.88 3.18
4167 18419 4.860907 GCTCAAACAATCTGCTAACAATGG 59.139 41.667 0.00 0.00 0.00 3.16
4170 18422 3.058293 CCGCTCAAACAATCTGCTAACAA 60.058 43.478 0.00 0.00 0.00 2.83
4361 18647 6.332735 TCTGATGTATTCCACTATTCTCGG 57.667 41.667 0.00 0.00 0.00 4.63
4362 18648 7.597386 TGATCTGATGTATTCCACTATTCTCG 58.403 38.462 0.00 0.00 0.00 4.04
4363 18649 9.770097 TTTGATCTGATGTATTCCACTATTCTC 57.230 33.333 0.00 0.00 0.00 2.87
4364 18650 9.775854 CTTTGATCTGATGTATTCCACTATTCT 57.224 33.333 0.00 0.00 0.00 2.40
4365 18651 8.502387 GCTTTGATCTGATGTATTCCACTATTC 58.498 37.037 0.00 0.00 0.00 1.75
4366 18652 7.446625 GGCTTTGATCTGATGTATTCCACTATT 59.553 37.037 0.00 0.00 0.00 1.73
4367 18653 6.939163 GGCTTTGATCTGATGTATTCCACTAT 59.061 38.462 0.00 0.00 0.00 2.12
4368 18654 6.100279 AGGCTTTGATCTGATGTATTCCACTA 59.900 38.462 0.00 0.00 0.00 2.74
4369 18655 5.104193 AGGCTTTGATCTGATGTATTCCACT 60.104 40.000 0.00 0.00 0.00 4.00
4370 18656 5.128919 AGGCTTTGATCTGATGTATTCCAC 58.871 41.667 0.00 0.00 0.00 4.02
4371 18657 5.378230 AGGCTTTGATCTGATGTATTCCA 57.622 39.130 0.00 0.00 0.00 3.53
4372 18658 6.429385 CCTAAGGCTTTGATCTGATGTATTCC 59.571 42.308 4.45 0.00 0.00 3.01
4373 18659 6.072783 GCCTAAGGCTTTGATCTGATGTATTC 60.073 42.308 4.45 0.00 46.69 1.75
4374 18660 5.767168 GCCTAAGGCTTTGATCTGATGTATT 59.233 40.000 4.45 0.00 46.69 1.89
4375 18661 5.312079 GCCTAAGGCTTTGATCTGATGTAT 58.688 41.667 4.45 0.00 46.69 2.29
4376 18662 4.708177 GCCTAAGGCTTTGATCTGATGTA 58.292 43.478 4.45 0.00 46.69 2.29
4377 18663 3.549794 GCCTAAGGCTTTGATCTGATGT 58.450 45.455 4.45 0.00 46.69 3.06
4391 18677 0.326618 TGAGGGGAGGAAGCCTAAGG 60.327 60.000 0.00 0.00 31.76 2.69
4392 18678 1.584724 TTGAGGGGAGGAAGCCTAAG 58.415 55.000 0.00 0.00 31.76 2.18
4393 18679 1.916181 CTTTGAGGGGAGGAAGCCTAA 59.084 52.381 0.00 0.00 31.76 2.69
4394 18680 1.584724 CTTTGAGGGGAGGAAGCCTA 58.415 55.000 0.00 0.00 31.76 3.93
4801 19087 1.154197 GCGGCGTTTTTCTCCTTACT 58.846 50.000 9.37 0.00 0.00 2.24
4845 21002 6.645827 CAGACAAACCATTATGATGTGCAAAA 59.354 34.615 0.00 0.00 0.00 2.44
4947 21108 1.344114 GATTTGGGGCAGTTTGAGCAA 59.656 47.619 0.00 0.00 0.00 3.91
5037 21198 3.850273 GCTGTCAGCATTTCTTTGAATCG 59.150 43.478 20.16 0.00 41.89 3.34
5142 21686 3.264450 CCATCTCAGGTCATAATACCCCC 59.736 52.174 0.00 0.00 40.71 5.40
5292 21836 9.393786 AGGAGGATAAGCTGGAACTTAAATATA 57.606 33.333 0.00 0.00 35.82 0.86
5293 21837 8.281529 AGGAGGATAAGCTGGAACTTAAATAT 57.718 34.615 0.00 0.00 35.82 1.28
5424 21973 3.926616 AGTCCGAAGTCCTTGTATGTTG 58.073 45.455 0.00 0.00 0.00 3.33
5569 22118 2.302445 AGCTCTCCATCAGATGCCATAC 59.698 50.000 4.68 0.00 0.00 2.39
5612 22161 8.177119 AGACAGAAACCATTAACAATGCTTTA 57.823 30.769 0.00 0.00 37.57 1.85
5779 22328 2.673775 TTCCCAGAACTGCATTCCAA 57.326 45.000 0.00 0.00 38.16 3.53
5792 22341 4.214332 GCAGACACTAACTTCTTTTCCCAG 59.786 45.833 0.00 0.00 0.00 4.45
5896 22445 3.610242 CACGACTTCATCTGAGTACTTGC 59.390 47.826 0.00 0.00 0.00 4.01
5905 22454 5.723492 TTGCATTATCACGACTTCATCTG 57.277 39.130 0.00 0.00 0.00 2.90
5931 22480 5.339008 ACTGTTTCTAATATGAGCCGTGA 57.661 39.130 0.00 0.00 0.00 4.35
5934 22483 7.494625 TCCTTTAACTGTTTCTAATATGAGCCG 59.505 37.037 0.00 0.00 0.00 5.52
5983 22532 8.653036 AGTACTTTGAACTTCTCCTATACTGT 57.347 34.615 0.00 0.00 0.00 3.55
6025 22574 3.631686 TGCATGGGAAAGAACGGAATATG 59.368 43.478 0.00 0.00 0.00 1.78
6382 22931 5.103000 CCAAACTCGGACAGTCTACATAAG 58.897 45.833 0.00 0.00 32.30 1.73
6697 23246 3.070018 CAGAGACATGTCAAAGGTCACC 58.930 50.000 27.02 0.00 34.04 4.02
6799 23348 5.643379 TCTTATCATTGCCCTCAAAACAC 57.357 39.130 0.00 0.00 35.56 3.32
6938 23487 1.186200 TCTCTTGGTCCTCCATGTCG 58.814 55.000 0.00 0.00 43.91 4.35
7072 23621 1.089920 ATGGTGCAGTCGATCAAAGC 58.910 50.000 0.00 0.00 0.00 3.51
7132 23681 9.953697 CATTAGTCACTACTGGTATCTTAACTC 57.046 37.037 0.00 0.00 36.36 3.01
7231 23781 6.127647 GGTCACATGCCATAGAAAAATTCTCA 60.128 38.462 0.00 0.00 41.14 3.27
7393 23943 3.833545 ACGGCGCAAATTTAACATACA 57.166 38.095 10.83 0.00 0.00 2.29
7401 23951 5.682943 ACATATACATACGGCGCAAATTT 57.317 34.783 10.83 0.00 0.00 1.82
7403 23953 6.128391 CCTTTACATATACATACGGCGCAAAT 60.128 38.462 10.83 0.00 0.00 2.32
7406 23956 4.239304 CCTTTACATATACATACGGCGCA 58.761 43.478 10.83 0.00 0.00 6.09
7490 24040 1.976474 GGAACATTGGCCTCCGCAA 60.976 57.895 3.32 0.00 36.38 4.85
7563 24123 3.396560 AGTCCAAAGTTACACTAACGGC 58.603 45.455 0.00 0.00 43.29 5.68
7617 24177 7.634817 CGTAAACACACAACAAACAAACAAAAA 59.365 29.630 0.00 0.00 0.00 1.94
7618 24178 7.117454 CGTAAACACACAACAAACAAACAAAA 58.883 30.769 0.00 0.00 0.00 2.44
7619 24179 6.255020 ACGTAAACACACAACAAACAAACAAA 59.745 30.769 0.00 0.00 0.00 2.83
7620 24180 5.747197 ACGTAAACACACAACAAACAAACAA 59.253 32.000 0.00 0.00 0.00 2.83
7621 24181 5.279384 ACGTAAACACACAACAAACAAACA 58.721 33.333 0.00 0.00 0.00 2.83
7622 24182 5.809373 ACGTAAACACACAACAAACAAAC 57.191 34.783 0.00 0.00 0.00 2.93
7623 24183 6.255020 ACAAACGTAAACACACAACAAACAAA 59.745 30.769 0.00 0.00 0.00 2.83
7624 24184 5.747197 ACAAACGTAAACACACAACAAACAA 59.253 32.000 0.00 0.00 0.00 2.83
7625 24185 5.279384 ACAAACGTAAACACACAACAAACA 58.721 33.333 0.00 0.00 0.00 2.83
7668 24228 0.027455 CACAGCGAACGCAAGAAACA 59.973 50.000 20.66 0.00 44.88 2.83
7669 24229 0.657368 CCACAGCGAACGCAAGAAAC 60.657 55.000 20.66 0.00 44.88 2.78
7670 24230 1.646540 CCACAGCGAACGCAAGAAA 59.353 52.632 20.66 0.00 44.88 2.52
7736 24299 8.761575 TGGTTGATGAGATTTAAAATTTGAGC 57.238 30.769 0.00 0.00 0.00 4.26
7744 24307 6.855763 ATGCCTTGGTTGATGAGATTTAAA 57.144 33.333 0.00 0.00 0.00 1.52
7746 24309 6.855763 AAATGCCTTGGTTGATGAGATTTA 57.144 33.333 0.00 0.00 0.00 1.40
7862 24425 0.468648 GGGAACGGAGGGAGTAATGG 59.531 60.000 0.00 0.00 0.00 3.16
7865 24428 1.732117 TTTGGGAACGGAGGGAGTAA 58.268 50.000 0.00 0.00 0.00 2.24
7868 24431 3.577805 AATATTTGGGAACGGAGGGAG 57.422 47.619 0.00 0.00 0.00 4.30
7869 24432 3.010808 ACAAATATTTGGGAACGGAGGGA 59.989 43.478 27.43 0.00 42.34 4.20
7870 24433 3.361786 ACAAATATTTGGGAACGGAGGG 58.638 45.455 27.43 3.22 42.34 4.30
7871 24434 4.270008 AGACAAATATTTGGGAACGGAGG 58.730 43.478 27.43 3.68 42.34 4.30
7872 24435 5.897377 AAGACAAATATTTGGGAACGGAG 57.103 39.130 27.43 4.34 42.34 4.63
7873 24436 5.536916 ACAAAGACAAATATTTGGGAACGGA 59.463 36.000 27.43 0.00 40.62 4.69
7874 24437 5.778862 ACAAAGACAAATATTTGGGAACGG 58.221 37.500 27.43 16.09 40.62 4.44
7875 24438 7.812648 TCTACAAAGACAAATATTTGGGAACG 58.187 34.615 27.43 16.67 40.62 3.95
7876 24439 9.010029 TCTCTACAAAGACAAATATTTGGGAAC 57.990 33.333 27.43 16.80 40.62 3.62
7877 24440 9.753674 ATCTCTACAAAGACAAATATTTGGGAA 57.246 29.630 27.43 8.61 40.62 3.97
7878 24441 9.753674 AATCTCTACAAAGACAAATATTTGGGA 57.246 29.630 27.43 9.10 40.62 4.37
7886 24449 9.956720 CTTGTTGAAATCTCTACAAAGACAAAT 57.043 29.630 0.00 0.00 43.56 2.32
7887 24450 8.956426 ACTTGTTGAAATCTCTACAAAGACAAA 58.044 29.630 0.00 0.00 43.56 2.83
7888 24451 8.397906 CACTTGTTGAAATCTCTACAAAGACAA 58.602 33.333 0.00 0.00 43.56 3.18
7889 24452 7.768582 TCACTTGTTGAAATCTCTACAAAGACA 59.231 33.333 0.00 0.00 43.56 3.41
7890 24453 8.064814 GTCACTTGTTGAAATCTCTACAAAGAC 58.935 37.037 10.49 10.49 43.56 3.01
7891 24454 7.987458 AGTCACTTGTTGAAATCTCTACAAAGA 59.013 33.333 0.00 0.00 43.56 2.52
7892 24455 8.147642 AGTCACTTGTTGAAATCTCTACAAAG 57.852 34.615 0.00 0.00 43.56 2.77
7893 24456 9.042008 GTAGTCACTTGTTGAAATCTCTACAAA 57.958 33.333 0.00 0.00 43.56 2.83
7894 24457 8.201464 TGTAGTCACTTGTTGAAATCTCTACAA 58.799 33.333 0.00 0.00 42.53 2.41
7895 24458 7.722363 TGTAGTCACTTGTTGAAATCTCTACA 58.278 34.615 0.00 0.00 36.87 2.74
7896 24459 8.764524 ATGTAGTCACTTGTTGAAATCTCTAC 57.235 34.615 0.00 0.00 35.39 2.59
7897 24460 9.856488 GTATGTAGTCACTTGTTGAAATCTCTA 57.144 33.333 0.00 0.00 35.39 2.43
7898 24461 7.542477 CGTATGTAGTCACTTGTTGAAATCTCT 59.458 37.037 0.00 0.00 35.39 3.10
7899 24462 7.541091 TCGTATGTAGTCACTTGTTGAAATCTC 59.459 37.037 0.00 0.00 35.39 2.75
7900 24463 7.375834 TCGTATGTAGTCACTTGTTGAAATCT 58.624 34.615 0.00 0.00 35.39 2.40
7901 24464 7.576750 TCGTATGTAGTCACTTGTTGAAATC 57.423 36.000 0.00 0.00 35.39 2.17
7902 24465 7.360101 GCTTCGTATGTAGTCACTTGTTGAAAT 60.360 37.037 0.00 0.00 35.39 2.17
7903 24466 6.073980 GCTTCGTATGTAGTCACTTGTTGAAA 60.074 38.462 0.00 0.00 35.39 2.69
7904 24467 5.404366 GCTTCGTATGTAGTCACTTGTTGAA 59.596 40.000 0.00 0.00 35.39 2.69
7905 24468 4.921515 GCTTCGTATGTAGTCACTTGTTGA 59.078 41.667 0.00 0.00 0.00 3.18
7906 24469 4.684242 TGCTTCGTATGTAGTCACTTGTTG 59.316 41.667 0.00 0.00 0.00 3.33
7907 24470 4.878439 TGCTTCGTATGTAGTCACTTGTT 58.122 39.130 0.00 0.00 0.00 2.83
7908 24471 4.514781 TGCTTCGTATGTAGTCACTTGT 57.485 40.909 0.00 0.00 0.00 3.16
7909 24472 5.839262 TTTGCTTCGTATGTAGTCACTTG 57.161 39.130 0.00 0.00 0.00 3.16
7910 24473 6.649141 TCATTTTGCTTCGTATGTAGTCACTT 59.351 34.615 0.00 0.00 0.00 3.16
7911 24474 6.163476 TCATTTTGCTTCGTATGTAGTCACT 58.837 36.000 0.00 0.00 0.00 3.41
7912 24475 6.090898 ACTCATTTTGCTTCGTATGTAGTCAC 59.909 38.462 0.00 0.00 0.00 3.67
7913 24476 6.090763 CACTCATTTTGCTTCGTATGTAGTCA 59.909 38.462 0.00 0.00 0.00 3.41
7914 24477 6.310467 TCACTCATTTTGCTTCGTATGTAGTC 59.690 38.462 0.00 0.00 0.00 2.59
7915 24478 6.163476 TCACTCATTTTGCTTCGTATGTAGT 58.837 36.000 0.00 0.00 0.00 2.73
7916 24479 6.647212 TCACTCATTTTGCTTCGTATGTAG 57.353 37.500 0.00 0.00 0.00 2.74
7917 24480 6.402118 GCTTCACTCATTTTGCTTCGTATGTA 60.402 38.462 0.00 0.00 0.00 2.29
7918 24481 5.617751 GCTTCACTCATTTTGCTTCGTATGT 60.618 40.000 0.00 0.00 0.00 2.29
7919 24482 4.790140 GCTTCACTCATTTTGCTTCGTATG 59.210 41.667 0.00 0.00 0.00 2.39
7920 24483 4.697352 AGCTTCACTCATTTTGCTTCGTAT 59.303 37.500 0.00 0.00 0.00 3.06
7921 24484 4.065088 AGCTTCACTCATTTTGCTTCGTA 58.935 39.130 0.00 0.00 0.00 3.43
7922 24485 2.880890 AGCTTCACTCATTTTGCTTCGT 59.119 40.909 0.00 0.00 0.00 3.85
7923 24486 3.549299 AGCTTCACTCATTTTGCTTCG 57.451 42.857 0.00 0.00 0.00 3.79
7924 24487 5.049129 AGTGTAGCTTCACTCATTTTGCTTC 60.049 40.000 19.22 0.00 44.07 3.86
7925 24488 4.823989 AGTGTAGCTTCACTCATTTTGCTT 59.176 37.500 19.22 0.00 44.07 3.91
7926 24489 4.392940 AGTGTAGCTTCACTCATTTTGCT 58.607 39.130 19.22 0.00 44.07 3.91
7927 24490 4.756084 AGTGTAGCTTCACTCATTTTGC 57.244 40.909 19.22 0.00 44.07 3.68
7928 24491 9.515020 TTTTAAAGTGTAGCTTCACTCATTTTG 57.485 29.630 24.10 0.00 46.25 2.44
7933 24496 8.450964 GCATATTTTAAAGTGTAGCTTCACTCA 58.549 33.333 24.10 13.59 46.25 3.41
7934 24497 7.910683 GGCATATTTTAAAGTGTAGCTTCACTC 59.089 37.037 24.10 9.16 46.25 3.51
7936 24499 7.762382 AGGCATATTTTAAAGTGTAGCTTCAC 58.238 34.615 15.08 15.08 36.17 3.18
7937 24500 7.938140 AGGCATATTTTAAAGTGTAGCTTCA 57.062 32.000 0.00 0.00 36.17 3.02
7938 24501 8.889717 TGTAGGCATATTTTAAAGTGTAGCTTC 58.110 33.333 0.00 0.00 36.17 3.86
7939 24502 8.801882 TGTAGGCATATTTTAAAGTGTAGCTT 57.198 30.769 0.00 0.00 39.52 3.74
7940 24503 8.980481 ATGTAGGCATATTTTAAAGTGTAGCT 57.020 30.769 0.00 0.00 32.73 3.32
7946 24509 9.860650 TGGATGTATGTAGGCATATTTTAAAGT 57.139 29.630 0.00 0.00 39.49 2.66
7956 24519 8.551440 ACACAATATATGGATGTATGTAGGCAT 58.449 33.333 0.00 0.00 39.03 4.40
7957 24520 7.917003 ACACAATATATGGATGTATGTAGGCA 58.083 34.615 0.00 0.00 0.00 4.75
7958 24521 7.495934 GGACACAATATATGGATGTATGTAGGC 59.504 40.741 0.00 0.00 0.00 3.93
7959 24522 8.539544 TGGACACAATATATGGATGTATGTAGG 58.460 37.037 0.00 0.00 0.00 3.18
7962 24525 9.812347 AAATGGACACAATATATGGATGTATGT 57.188 29.630 0.00 0.00 0.00 2.29
7965 24528 9.859152 TTCAAATGGACACAATATATGGATGTA 57.141 29.630 0.00 0.00 0.00 2.29
7966 24529 8.765488 TTCAAATGGACACAATATATGGATGT 57.235 30.769 0.00 0.00 0.00 3.06
7969 24532 8.143193 GCATTTCAAATGGACACAATATATGGA 58.857 33.333 12.14 0.00 0.00 3.41
7970 24533 7.385752 GGCATTTCAAATGGACACAATATATGG 59.614 37.037 12.14 0.00 0.00 2.74
7971 24534 8.145767 AGGCATTTCAAATGGACACAATATATG 58.854 33.333 12.14 0.00 0.00 1.78
7972 24535 8.253867 AGGCATTTCAAATGGACACAATATAT 57.746 30.769 12.14 0.00 0.00 0.86
7973 24536 7.658525 AGGCATTTCAAATGGACACAATATA 57.341 32.000 12.14 0.00 0.00 0.86
7974 24537 6.549433 AGGCATTTCAAATGGACACAATAT 57.451 33.333 12.14 0.00 0.00 1.28
7975 24538 5.999205 AGGCATTTCAAATGGACACAATA 57.001 34.783 12.14 0.00 0.00 1.90
7976 24539 4.895668 AGGCATTTCAAATGGACACAAT 57.104 36.364 12.14 0.00 0.00 2.71
7977 24540 5.076182 TCTAGGCATTTCAAATGGACACAA 58.924 37.500 12.14 0.00 0.00 3.33
7978 24541 4.661222 TCTAGGCATTTCAAATGGACACA 58.339 39.130 12.14 0.00 0.00 3.72
7979 24542 5.643379 TTCTAGGCATTTCAAATGGACAC 57.357 39.130 12.14 0.00 0.00 3.67
7980 24543 6.009589 TCTTTCTAGGCATTTCAAATGGACA 58.990 36.000 12.14 0.00 0.00 4.02
7981 24544 6.071952 TGTCTTTCTAGGCATTTCAAATGGAC 60.072 38.462 12.14 8.23 29.10 4.02
7982 24545 6.009589 TGTCTTTCTAGGCATTTCAAATGGA 58.990 36.000 12.14 0.00 29.10 3.41
7983 24546 6.271488 TGTCTTTCTAGGCATTTCAAATGG 57.729 37.500 12.14 0.00 29.10 3.16
7984 24547 8.767478 ATTTGTCTTTCTAGGCATTTCAAATG 57.233 30.769 5.68 5.68 35.56 2.32
7991 24554 9.920946 TCCTAAATATTTGTCTTTCTAGGCATT 57.079 29.630 11.05 0.00 35.56 3.56
7992 24555 9.920946 TTCCTAAATATTTGTCTTTCTAGGCAT 57.079 29.630 11.05 0.00 35.56 4.40
7993 24556 9.174166 GTTCCTAAATATTTGTCTTTCTAGGCA 57.826 33.333 11.05 0.00 33.22 4.75
7994 24557 8.336080 CGTTCCTAAATATTTGTCTTTCTAGGC 58.664 37.037 11.05 0.00 0.00 3.93
7995 24558 8.827677 CCGTTCCTAAATATTTGTCTTTCTAGG 58.172 37.037 11.05 6.95 0.00 3.02
7996 24559 9.595823 TCCGTTCCTAAATATTTGTCTTTCTAG 57.404 33.333 11.05 0.00 0.00 2.43
7997 24560 9.595823 CTCCGTTCCTAAATATTTGTCTTTCTA 57.404 33.333 11.05 0.00 0.00 2.10
7998 24561 7.553044 CCTCCGTTCCTAAATATTTGTCTTTCT 59.447 37.037 11.05 0.00 0.00 2.52
7999 24562 7.201705 CCCTCCGTTCCTAAATATTTGTCTTTC 60.202 40.741 11.05 0.00 0.00 2.62
8000 24563 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
8001 24564 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
8002 24565 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
8003 24566 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
8004 24567 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
8005 24568 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
8006 24569 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
8007 24570 6.379579 TCTACTCCCTCCGTTCCTAAATATT 58.620 40.000 0.00 0.00 0.00 1.28
8008 24571 5.961897 TCTACTCCCTCCGTTCCTAAATAT 58.038 41.667 0.00 0.00 0.00 1.28
8009 24572 5.133322 TCTCTACTCCCTCCGTTCCTAAATA 59.867 44.000 0.00 0.00 0.00 1.40
8010 24573 4.079327 TCTCTACTCCCTCCGTTCCTAAAT 60.079 45.833 0.00 0.00 0.00 1.40
8011 24574 3.267812 TCTCTACTCCCTCCGTTCCTAAA 59.732 47.826 0.00 0.00 0.00 1.85
8012 24575 2.848694 TCTCTACTCCCTCCGTTCCTAA 59.151 50.000 0.00 0.00 0.00 2.69
8013 24576 2.485659 TCTCTACTCCCTCCGTTCCTA 58.514 52.381 0.00 0.00 0.00 2.94
8014 24577 1.296984 TCTCTACTCCCTCCGTTCCT 58.703 55.000 0.00 0.00 0.00 3.36
8015 24578 1.957877 CATCTCTACTCCCTCCGTTCC 59.042 57.143 0.00 0.00 0.00 3.62
8016 24579 2.933573 TCATCTCTACTCCCTCCGTTC 58.066 52.381 0.00 0.00 0.00 3.95


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

AutoCloner maintained by Alex Coulton.