Multiple sequence alignment - TraesCS5A01G034300

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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 TraesCS5A01G034300 chr5A 100.000 7541 0 0 1 7541 31514853 31507313 0.000000e+00 13926.0
1 TraesCS5A01G034300 chr5A 100.000 34 0 0 1094 1127 31513724 31513691 6.320000e-06 63.9
2 TraesCS5A01G034300 chr5A 100.000 34 0 0 1130 1163 31513760 31513727 6.320000e-06 63.9
3 TraesCS5A01G034300 chr3D 96.957 6014 131 22 278 6274 603745985 603740007 0.000000e+00 10045.0
4 TraesCS5A01G034300 chr3D 84.566 2339 250 61 3980 6274 568432134 568429863 0.000000e+00 2217.0
5 TraesCS5A01G034300 chr3D 87.457 877 40 21 6500 7359 603740012 603739189 0.000000e+00 946.0
6 TraesCS5A01G034300 chr3D 84.375 768 81 21 1153 1904 568434108 568433364 0.000000e+00 717.0
7 TraesCS5A01G034300 chr3D 85.259 502 42 13 6632 7121 568429762 568429281 8.790000e-134 488.0
8 TraesCS5A01G034300 chr3D 84.823 481 12 17 7092 7534 568429350 568428893 1.940000e-115 427.0
9 TraesCS5A01G034300 chr3D 97.368 228 4 1 1 228 603746313 603746088 3.300000e-103 387.0
10 TraesCS5A01G034300 chr3D 94.944 178 4 2 6500 6673 568429868 568429692 2.680000e-69 274.0
11 TraesCS5A01G034300 chr3D 82.192 292 39 8 3693 3980 568432378 568432096 9.780000e-59 239.0
12 TraesCS5A01G034300 chr3D 87.368 190 6 9 7359 7534 603739162 603738977 1.280000e-47 202.0
13 TraesCS5A01G034300 chr3D 98.246 57 1 0 224 280 603746067 603746011 4.810000e-17 100.0
14 TraesCS5A01G034300 chr3D 100.000 34 0 0 1094 1127 603745137 603745104 6.320000e-06 63.9
15 TraesCS5A01G034300 chr3D 100.000 34 0 0 1130 1163 603745173 603745140 6.320000e-06 63.9
16 TraesCS5A01G034300 chr3A 97.939 4172 74 5 1233 5400 645999511 645995348 0.000000e+00 7217.0
17 TraesCS5A01G034300 chr3A 98.764 809 7 2 432 1240 646003661 646002856 0.000000e+00 1435.0
18 TraesCS5A01G034300 chr3A 90.146 893 36 16 5393 6277 645994696 645993848 0.000000e+00 1114.0
19 TraesCS5A01G034300 chr3A 86.971 875 20 20 6500 7359 645993854 645993059 0.000000e+00 898.0
20 TraesCS5A01G034300 chr3A 95.685 394 8 1 1 394 646004051 646003667 6.420000e-175 625.0
21 TraesCS5A01G034300 chr3A 100.000 34 0 0 1094 1127 646002966 646002933 6.320000e-06 63.9
22 TraesCS5A01G034300 chr3A 100.000 34 0 0 1130 1163 646003002 646002969 6.320000e-06 63.9
23 TraesCS5A01G034300 chr7A 95.964 223 5 4 6276 6494 194051253 194051475 7.190000e-95 359.0
24 TraesCS5A01G034300 chr1B 95.536 224 6 4 6277 6496 12257474 12257697 9.310000e-94 355.0
25 TraesCS5A01G034300 chr1B 94.595 222 7 5 6278 6494 374036023 374036244 9.370000e-89 339.0
26 TraesCS5A01G034300 chr2A 95.475 221 7 3 6277 6494 59334521 59334741 4.330000e-92 350.0
27 TraesCS5A01G034300 chr4A 94.273 227 10 3 6271 6494 494072697 494072471 2.010000e-90 344.0
28 TraesCS5A01G034300 chr7B 94.170 223 9 4 6277 6495 526844903 526844681 3.370000e-88 337.0
29 TraesCS5A01G034300 chr3B 94.118 221 10 3 6275 6492 813189981 813189761 4.360000e-87 333.0
30 TraesCS5A01G034300 chr3B 93.636 220 11 3 6277 6494 4673275 4673057 7.300000e-85 326.0
31 TraesCS5A01G034300 chr2B 94.118 221 10 3 6277 6494 517750680 517750900 4.360000e-87 333.0
32 TraesCS5A01G034300 chr6D 88.732 71 7 1 5580 5650 351746649 351746580 1.350000e-12 86.1
33 TraesCS5A01G034300 chr6A 85.915 71 7 1 5580 5650 491570718 491570785 1.050000e-08 73.1


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 TraesCS5A01G034300 chr5A 31507313 31514853 7540 True 4684.600000 13926 100.000000 1 7541 3 chr5A.!!$R1 7540
1 TraesCS5A01G034300 chr3D 603738977 603746313 7336 True 1686.828571 10045 95.342286 1 7534 7 chr3D.!!$R2 7533
2 TraesCS5A01G034300 chr3D 568428893 568434108 5215 True 727.000000 2217 86.026500 1153 7534 6 chr3D.!!$R1 6381
3 TraesCS5A01G034300 chr3A 645993059 646004051 10992 True 1630.971429 7217 95.643571 1 7359 7 chr3A.!!$R1 7358

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
125 126 1.488527 GCGTGGTCCTATTCGATGTC 58.511 55.000 0.00 0.00 0.00 3.06 F
659 714 2.045926 GGAAGAGCATGTGCCCGT 60.046 61.111 0.57 0.00 43.38 5.28 F
2088 5512 4.612939 GCGCCTAATCGATTTATTCCCAAC 60.613 45.833 17.19 0.00 0.00 3.77 F
3322 6780 1.531365 CCTTGGCTGCCTTTGACCA 60.531 57.895 21.03 0.00 0.00 4.02 F
4588 8136 0.760567 ATCGCTCCTGGCCACATCTA 60.761 55.000 0.00 0.00 37.74 1.98 F
5242 8790 0.105964 TAACTGCAGACGCACCTTGT 59.894 50.000 23.35 0.00 45.36 3.16 F
6327 10607 0.178958 AACCAGGTGAGACTCGTCCT 60.179 55.000 11.69 11.69 0.00 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1690 5113 0.963225 TCGAAGTGAATGGACCGTCA 59.037 50.000 0.00 0.00 0.00 4.35 R
2497 5952 2.158400 TCACATGTTCATTGGGGGTTCA 60.158 45.455 0.00 0.00 0.00 3.18 R
3592 7050 1.067295 AGATCAGCCAAACCCACTCA 58.933 50.000 0.00 0.00 0.00 3.41 R
5242 8790 0.184933 AACAGCACTTTGGCTACCCA 59.815 50.000 0.00 0.00 43.68 4.51 R
6308 10588 0.178958 AGGACGAGTCTCACCTGGTT 60.179 55.000 12.90 0.00 0.00 3.67 R
6416 10696 0.240678 GATGACACGTGGCATTTGCA 59.759 50.000 36.07 9.07 45.42 4.08 R
7318 11625 1.451567 CACGCGTCCTCCTCTCCTA 60.452 63.158 9.86 0.00 0.00 2.94 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
94 95 7.337942 GGCAATTCTCAGGTATAATAATCCCTG 59.662 40.741 0.00 0.00 44.74 4.45
125 126 1.488527 GCGTGGTCCTATTCGATGTC 58.511 55.000 0.00 0.00 0.00 3.06
432 484 5.038651 ACTAGCAGTGGTAGGAGTACTAG 57.961 47.826 28.11 12.54 37.87 2.57
433 485 4.474287 ACTAGCAGTGGTAGGAGTACTAGT 59.526 45.833 28.11 13.09 37.87 2.57
434 486 5.664908 ACTAGCAGTGGTAGGAGTACTAGTA 59.335 44.000 28.11 0.00 37.81 1.82
435 487 4.779696 AGCAGTGGTAGGAGTACTAGTAC 58.220 47.826 23.03 23.03 36.35 2.73
436 488 8.517175 ACTAGCAGTGGTAGGAGTACTAGTACT 61.517 44.444 31.10 31.10 41.17 2.73
437 489 5.664908 AGCAGTGGTAGGAGTACTAGTACTA 59.335 44.000 30.80 16.17 45.63 1.82
438 490 5.990996 GCAGTGGTAGGAGTACTAGTACTAG 59.009 48.000 30.80 25.30 45.63 2.57
439 491 6.407979 GCAGTGGTAGGAGTACTAGTACTAGT 60.408 46.154 32.39 32.39 45.63 2.57
440 492 7.201956 GCAGTGGTAGGAGTACTAGTACTAGTA 60.202 44.444 30.50 30.50 45.63 1.82
659 714 2.045926 GGAAGAGCATGTGCCCGT 60.046 61.111 0.57 0.00 43.38 5.28
684 739 6.535150 TCAAGACAACTACTGTTCAAGTGAAG 59.465 38.462 0.00 0.00 40.26 3.02
1405 4824 6.939730 TGAAGTGGTATGATGCTAAAGACAAA 59.060 34.615 0.00 0.00 0.00 2.83
1406 4825 6.743575 AGTGGTATGATGCTAAAGACAAAC 57.256 37.500 0.00 0.00 0.00 2.93
1407 4826 6.237901 AGTGGTATGATGCTAAAGACAAACA 58.762 36.000 0.00 0.00 0.00 2.83
1408 4827 6.149474 AGTGGTATGATGCTAAAGACAAACAC 59.851 38.462 0.00 0.00 0.00 3.32
1409 4828 6.000840 TGGTATGATGCTAAAGACAAACACA 58.999 36.000 0.00 0.00 0.00 3.72
1410 4829 6.488344 TGGTATGATGCTAAAGACAAACACAA 59.512 34.615 0.00 0.00 0.00 3.33
1484 4903 5.643777 GTGGTGTTGCAGAATATCTACAAGT 59.356 40.000 0.00 0.00 30.97 3.16
1690 5113 8.386264 CAATCTTATAATAGGATCTGGGTTGGT 58.614 37.037 0.00 0.00 0.00 3.67
2088 5512 4.612939 GCGCCTAATCGATTTATTCCCAAC 60.613 45.833 17.19 0.00 0.00 3.77
2445 5900 6.331369 TGGAACACTTCATTCAAATTCCTC 57.669 37.500 0.00 0.00 36.04 3.71
2497 5952 7.094506 GGTTAGATTCGAGTGTTATTTTTGGGT 60.095 37.037 0.00 0.00 0.00 4.51
2655 6110 2.536761 TGTGAACTTCCCGAACGAAT 57.463 45.000 0.00 0.00 0.00 3.34
3322 6780 1.531365 CCTTGGCTGCCTTTGACCA 60.531 57.895 21.03 0.00 0.00 4.02
3592 7050 5.534654 TGCTCCTGCAGTATTTGTTACTTTT 59.465 36.000 13.81 0.00 45.31 2.27
3625 7083 2.158885 GCTGATCTAGGAGGGTTGGTTC 60.159 54.545 0.00 0.00 0.00 3.62
4016 7550 6.591834 GCACACTAACTGAGATACTGTTTCAT 59.408 38.462 1.22 0.00 40.26 2.57
4588 8136 0.760567 ATCGCTCCTGGCCACATCTA 60.761 55.000 0.00 0.00 37.74 1.98
4606 8154 5.426509 ACATCTATCTGATTCACCAACTCCA 59.573 40.000 0.00 0.00 32.05 3.86
4614 8162 5.875224 TGATTCACCAACTCCACTAATTCA 58.125 37.500 0.00 0.00 0.00 2.57
4633 8181 2.182827 CACAGTTGAGGATCTCAGGGA 58.817 52.381 0.00 0.00 41.75 4.20
4638 8186 4.898265 CAGTTGAGGATCTCAGGGATAAGA 59.102 45.833 0.00 0.00 41.75 2.10
4645 8193 5.966935 AGGATCTCAGGGATAAGACTCAAAA 59.033 40.000 0.00 0.00 34.33 2.44
4738 8286 3.570212 GCACACAGGGACCAGGGT 61.570 66.667 0.00 0.00 0.00 4.34
4774 8322 4.437682 TTGAGAAACATGGTCCTGACTT 57.562 40.909 0.00 0.00 0.00 3.01
4882 8430 9.468532 CATATTCTCATCAACTCGAGATTGTAA 57.531 33.333 21.68 5.64 38.06 2.41
4939 8487 6.128336 CCAAGAAATGAGTCTGAAGATGACAC 60.128 42.308 0.00 0.00 36.94 3.67
5043 8591 1.150992 GGAGCCGAGGGTAGAGCTA 59.849 63.158 0.00 0.00 35.23 3.32
5057 8605 1.279271 AGAGCTACGGCCAACAAGATT 59.721 47.619 2.24 0.00 39.73 2.40
5242 8790 0.105964 TAACTGCAGACGCACCTTGT 59.894 50.000 23.35 0.00 45.36 3.16
5266 8814 0.536260 AGCCAAAGTGCTGTTTTGCA 59.464 45.000 9.15 0.00 40.90 4.08
5337 8885 1.277557 TGGGCCAACCATTTATGTTGC 59.722 47.619 2.13 0.00 46.80 4.17
5596 9803 8.718734 GGTAATTTTTAGTCTTGTGTAGTCTGG 58.281 37.037 0.00 0.00 0.00 3.86
5634 9841 1.409790 GCCATACCATGCAATGCAGAA 59.590 47.619 14.98 0.00 44.97 3.02
5779 10024 7.934120 ACCTAGTACATTCTCAATAAATGCTCC 59.066 37.037 0.00 0.00 37.58 4.70
5832 10077 2.166664 GAGTAGAATCAGGCGGACAACT 59.833 50.000 0.00 0.00 0.00 3.16
5890 10135 2.698274 TGGTCAAGTGAGCTAGTTGTGA 59.302 45.455 11.46 0.00 42.60 3.58
5903 10148 2.487934 AGTTGTGACTGCTGCTGTAAG 58.512 47.619 12.29 0.00 33.99 2.34
5959 10204 0.376152 GATGCACTTGACATGGCTCG 59.624 55.000 0.00 0.00 0.00 5.03
5967 10213 1.068250 GACATGGCTCGGGTCTAGC 59.932 63.158 0.00 0.00 39.33 3.42
6013 10260 5.525745 CACAACCTTTTGTTTAACCCAATCC 59.474 40.000 0.00 0.00 43.89 3.01
6076 10323 9.577110 TCAATCAATCATAAAGCTTGTTTGATC 57.423 29.630 17.45 0.00 40.23 2.92
6242 10520 4.454728 TTTTGGGAATTCAGTAGCATGC 57.545 40.909 10.51 10.51 0.00 4.06
6243 10521 2.804986 TGGGAATTCAGTAGCATGCA 57.195 45.000 21.98 2.77 0.00 3.96
6244 10522 3.301794 TGGGAATTCAGTAGCATGCAT 57.698 42.857 21.98 7.68 0.00 3.96
6245 10523 2.953648 TGGGAATTCAGTAGCATGCATG 59.046 45.455 22.70 22.70 0.00 4.06
6249 10527 4.261489 GGAATTCAGTAGCATGCATGGAAG 60.261 45.833 27.34 2.89 0.00 3.46
6261 10539 1.941209 GCATGGAAGTGACGAGAGCAA 60.941 52.381 0.00 0.00 0.00 3.91
6268 10548 2.111384 AGTGACGAGAGCAATGGGTAT 58.889 47.619 0.00 0.00 0.00 2.73
6269 10549 2.501723 AGTGACGAGAGCAATGGGTATT 59.498 45.455 0.00 0.00 0.00 1.89
6270 10550 3.055094 AGTGACGAGAGCAATGGGTATTT 60.055 43.478 0.00 0.00 0.00 1.40
6271 10551 3.689649 GTGACGAGAGCAATGGGTATTTT 59.310 43.478 0.00 0.00 0.00 1.82
6272 10552 4.156008 GTGACGAGAGCAATGGGTATTTTT 59.844 41.667 0.00 0.00 0.00 1.94
6313 10593 4.939052 AGACCGGTCTCATATAAACCAG 57.061 45.455 31.69 0.00 34.17 4.00
6314 10594 3.641906 AGACCGGTCTCATATAAACCAGG 59.358 47.826 31.69 0.00 34.17 4.45
6315 10595 3.381335 ACCGGTCTCATATAAACCAGGT 58.619 45.455 0.00 0.00 36.11 4.00
6316 10596 3.134081 ACCGGTCTCATATAAACCAGGTG 59.866 47.826 0.00 0.00 38.03 4.00
6317 10597 3.386726 CCGGTCTCATATAAACCAGGTGA 59.613 47.826 0.00 0.00 32.35 4.02
6318 10598 4.501571 CCGGTCTCATATAAACCAGGTGAG 60.502 50.000 0.00 0.00 38.07 3.51
6319 10599 4.341235 CGGTCTCATATAAACCAGGTGAGA 59.659 45.833 0.00 0.00 41.99 3.27
6322 10602 6.716934 TCTCATATAAACCAGGTGAGACTC 57.283 41.667 0.00 0.00 40.06 3.36
6323 10603 5.299531 TCTCATATAAACCAGGTGAGACTCG 59.700 44.000 0.00 0.00 40.06 4.18
6324 10604 4.954202 TCATATAAACCAGGTGAGACTCGT 59.046 41.667 0.00 0.00 0.00 4.18
6325 10605 3.870633 ATAAACCAGGTGAGACTCGTC 57.129 47.619 0.00 0.00 0.00 4.20
6326 10606 0.680061 AAACCAGGTGAGACTCGTCC 59.320 55.000 0.00 8.03 0.00 4.79
6327 10607 0.178958 AACCAGGTGAGACTCGTCCT 60.179 55.000 11.69 11.69 0.00 3.85
6328 10608 0.896019 ACCAGGTGAGACTCGTCCTG 60.896 60.000 26.44 26.44 44.74 3.86
6330 10610 3.989782 AGGTGAGACTCGTCCTGAT 57.010 52.632 15.36 0.00 0.00 2.90
6331 10611 1.468985 AGGTGAGACTCGTCCTGATG 58.531 55.000 15.36 0.00 0.00 3.07
6332 10612 0.457851 GGTGAGACTCGTCCTGATGG 59.542 60.000 8.64 0.00 0.00 3.51
6333 10613 1.464734 GTGAGACTCGTCCTGATGGA 58.535 55.000 0.00 0.00 40.69 3.41
6334 10614 2.028130 GTGAGACTCGTCCTGATGGAT 58.972 52.381 0.00 0.00 45.29 3.41
6343 10623 3.548745 GTCCTGATGGATGACATGTGA 57.451 47.619 1.15 0.00 45.29 3.58
6344 10624 3.201290 GTCCTGATGGATGACATGTGAC 58.799 50.000 1.15 0.00 45.29 3.67
6345 10625 2.839425 TCCTGATGGATGACATGTGACA 59.161 45.455 1.15 0.00 40.72 3.58
6346 10626 3.457012 TCCTGATGGATGACATGTGACAT 59.543 43.478 1.15 0.36 40.72 3.06
6347 10627 4.080186 TCCTGATGGATGACATGTGACATT 60.080 41.667 1.15 0.00 40.72 2.71
6348 10628 4.275196 CCTGATGGATGACATGTGACATTC 59.725 45.833 1.15 0.31 40.72 2.67
6349 10629 4.846040 TGATGGATGACATGTGACATTCA 58.154 39.130 1.15 7.05 40.72 2.57
6350 10630 8.111097 CCTGATGGATGACATGTGACATTCAC 62.111 46.154 1.15 2.81 38.23 3.18
6362 10642 5.565723 GTGACATTCACAAATCACAAAGC 57.434 39.130 1.34 0.00 46.22 3.51
6363 10643 5.042593 GTGACATTCACAAATCACAAAGCA 58.957 37.500 1.34 0.00 46.22 3.91
6364 10644 5.693104 GTGACATTCACAAATCACAAAGCAT 59.307 36.000 1.34 0.00 46.22 3.79
6365 10645 5.921976 TGACATTCACAAATCACAAAGCATC 59.078 36.000 0.00 0.00 0.00 3.91
6366 10646 6.092955 ACATTCACAAATCACAAAGCATCT 57.907 33.333 0.00 0.00 0.00 2.90
6367 10647 7.040548 TGACATTCACAAATCACAAAGCATCTA 60.041 33.333 0.00 0.00 0.00 1.98
6368 10648 7.660112 ACATTCACAAATCACAAAGCATCTAA 58.340 30.769 0.00 0.00 0.00 2.10
6369 10649 8.308931 ACATTCACAAATCACAAAGCATCTAAT 58.691 29.630 0.00 0.00 0.00 1.73
6370 10650 8.804743 CATTCACAAATCACAAAGCATCTAATC 58.195 33.333 0.00 0.00 0.00 1.75
6371 10651 7.692460 TCACAAATCACAAAGCATCTAATCT 57.308 32.000 0.00 0.00 0.00 2.40
6372 10652 7.755591 TCACAAATCACAAAGCATCTAATCTC 58.244 34.615 0.00 0.00 0.00 2.75
6373 10653 7.609146 TCACAAATCACAAAGCATCTAATCTCT 59.391 33.333 0.00 0.00 0.00 3.10
6374 10654 7.909121 CACAAATCACAAAGCATCTAATCTCTC 59.091 37.037 0.00 0.00 0.00 3.20
6375 10655 7.066766 ACAAATCACAAAGCATCTAATCTCTCC 59.933 37.037 0.00 0.00 0.00 3.71
6376 10656 5.028549 TCACAAAGCATCTAATCTCTCCC 57.971 43.478 0.00 0.00 0.00 4.30
6377 10657 4.133078 CACAAAGCATCTAATCTCTCCCC 58.867 47.826 0.00 0.00 0.00 4.81
6378 10658 3.137360 ACAAAGCATCTAATCTCTCCCCC 59.863 47.826 0.00 0.00 0.00 5.40
6398 10678 2.062971 CTGATTTCAGGTGGGGATGG 57.937 55.000 0.00 0.00 40.20 3.51
6399 10679 0.630673 TGATTTCAGGTGGGGATGGG 59.369 55.000 0.00 0.00 0.00 4.00
6400 10680 0.631212 GATTTCAGGTGGGGATGGGT 59.369 55.000 0.00 0.00 0.00 4.51
6401 10681 1.850345 GATTTCAGGTGGGGATGGGTA 59.150 52.381 0.00 0.00 0.00 3.69
6402 10682 1.295020 TTTCAGGTGGGGATGGGTAG 58.705 55.000 0.00 0.00 0.00 3.18
6403 10683 0.419865 TTCAGGTGGGGATGGGTAGA 59.580 55.000 0.00 0.00 0.00 2.59
6404 10684 0.647738 TCAGGTGGGGATGGGTAGAT 59.352 55.000 0.00 0.00 0.00 1.98
6405 10685 0.767375 CAGGTGGGGATGGGTAGATG 59.233 60.000 0.00 0.00 0.00 2.90
6406 10686 1.062488 AGGTGGGGATGGGTAGATGC 61.062 60.000 0.00 0.00 0.00 3.91
6407 10687 1.062488 GGTGGGGATGGGTAGATGCT 61.062 60.000 0.00 0.00 0.00 3.79
6408 10688 0.846693 GTGGGGATGGGTAGATGCTT 59.153 55.000 0.00 0.00 0.00 3.91
6409 10689 1.215423 GTGGGGATGGGTAGATGCTTT 59.785 52.381 0.00 0.00 0.00 3.51
6410 10690 1.215173 TGGGGATGGGTAGATGCTTTG 59.785 52.381 0.00 0.00 0.00 2.77
6411 10691 1.215423 GGGGATGGGTAGATGCTTTGT 59.785 52.381 0.00 0.00 0.00 2.83
6412 10692 2.301346 GGGATGGGTAGATGCTTTGTG 58.699 52.381 0.00 0.00 0.00 3.33
6413 10693 2.092429 GGGATGGGTAGATGCTTTGTGA 60.092 50.000 0.00 0.00 0.00 3.58
6414 10694 3.435601 GGGATGGGTAGATGCTTTGTGAT 60.436 47.826 0.00 0.00 0.00 3.06
6415 10695 4.210331 GGATGGGTAGATGCTTTGTGATT 58.790 43.478 0.00 0.00 0.00 2.57
6416 10696 4.646492 GGATGGGTAGATGCTTTGTGATTT 59.354 41.667 0.00 0.00 0.00 2.17
6417 10697 5.450965 GGATGGGTAGATGCTTTGTGATTTG 60.451 44.000 0.00 0.00 0.00 2.32
6418 10698 3.193267 TGGGTAGATGCTTTGTGATTTGC 59.807 43.478 0.00 0.00 0.00 3.68
6419 10699 3.193267 GGGTAGATGCTTTGTGATTTGCA 59.807 43.478 0.00 0.00 39.83 4.08
6420 10700 4.321899 GGGTAGATGCTTTGTGATTTGCAA 60.322 41.667 0.00 0.00 38.96 4.08
6421 10701 5.229423 GGTAGATGCTTTGTGATTTGCAAA 58.771 37.500 15.44 15.44 38.96 3.68
6422 10702 5.870978 GGTAGATGCTTTGTGATTTGCAAAT 59.129 36.000 24.33 24.33 38.96 2.32
6423 10703 5.856126 AGATGCTTTGTGATTTGCAAATG 57.144 34.783 28.67 14.08 38.96 2.32
6424 10704 3.881780 TGCTTTGTGATTTGCAAATGC 57.118 38.095 28.67 22.57 42.50 3.56
6425 10705 2.548904 TGCTTTGTGATTTGCAAATGCC 59.451 40.909 28.67 17.86 41.18 4.40
6426 10706 2.548904 GCTTTGTGATTTGCAAATGCCA 59.451 40.909 28.67 20.05 41.18 4.92
6427 10707 3.607542 GCTTTGTGATTTGCAAATGCCAC 60.608 43.478 28.67 26.95 41.18 5.01
6428 10708 1.780806 TGTGATTTGCAAATGCCACG 58.219 45.000 28.67 0.00 41.18 4.94
6429 10709 1.068281 TGTGATTTGCAAATGCCACGT 59.932 42.857 28.67 3.95 41.18 4.49
6430 10710 1.456544 GTGATTTGCAAATGCCACGTG 59.543 47.619 28.67 9.08 41.18 4.49
6431 10711 1.068281 TGATTTGCAAATGCCACGTGT 59.932 42.857 28.67 2.32 41.18 4.49
6432 10712 1.720852 GATTTGCAAATGCCACGTGTC 59.279 47.619 28.67 8.55 41.18 3.67
6433 10713 0.457443 TTTGCAAATGCCACGTGTCA 59.543 45.000 15.65 8.63 41.18 3.58
6434 10714 0.672889 TTGCAAATGCCACGTGTCAT 59.327 45.000 15.65 11.07 41.18 3.06
6435 10715 0.240678 TGCAAATGCCACGTGTCATC 59.759 50.000 13.12 1.09 41.18 2.92
6436 10716 0.456653 GCAAATGCCACGTGTCATCC 60.457 55.000 13.12 1.07 34.31 3.51
6437 10717 0.880441 CAAATGCCACGTGTCATCCA 59.120 50.000 13.12 2.78 0.00 3.41
6438 10718 1.473677 CAAATGCCACGTGTCATCCAT 59.526 47.619 13.12 4.99 0.00 3.41
6439 10719 1.838112 AATGCCACGTGTCATCCATT 58.162 45.000 13.12 10.37 0.00 3.16
6440 10720 2.708216 ATGCCACGTGTCATCCATTA 57.292 45.000 15.65 0.00 0.00 1.90
6441 10721 2.481289 TGCCACGTGTCATCCATTAA 57.519 45.000 15.65 0.00 0.00 1.40
6442 10722 2.355197 TGCCACGTGTCATCCATTAAG 58.645 47.619 15.65 0.00 0.00 1.85
6443 10723 2.027653 TGCCACGTGTCATCCATTAAGA 60.028 45.455 15.65 0.00 0.00 2.10
6444 10724 3.206150 GCCACGTGTCATCCATTAAGAT 58.794 45.455 15.65 0.00 0.00 2.40
6445 10725 3.002656 GCCACGTGTCATCCATTAAGATG 59.997 47.826 15.65 0.00 44.21 2.90
6458 10738 4.970711 CATTAAGATGGATCTCACCTGCT 58.029 43.478 0.00 0.00 35.76 4.24
6459 10739 6.106648 CATTAAGATGGATCTCACCTGCTA 57.893 41.667 0.00 0.00 35.76 3.49
6460 10740 6.528321 CATTAAGATGGATCTCACCTGCTAA 58.472 40.000 0.00 0.00 35.76 3.09
6461 10741 6.560003 TTAAGATGGATCTCACCTGCTAAA 57.440 37.500 0.00 0.00 35.76 1.85
6462 10742 4.414337 AGATGGATCTCACCTGCTAAAC 57.586 45.455 0.00 0.00 29.30 2.01
6463 10743 3.135530 AGATGGATCTCACCTGCTAAACC 59.864 47.826 0.00 0.00 29.30 3.27
6464 10744 1.207089 TGGATCTCACCTGCTAAACCG 59.793 52.381 0.00 0.00 0.00 4.44
6465 10745 1.207329 GGATCTCACCTGCTAAACCGT 59.793 52.381 0.00 0.00 0.00 4.83
6466 10746 2.271800 GATCTCACCTGCTAAACCGTG 58.728 52.381 0.00 0.00 0.00 4.94
6467 10747 1.334160 TCTCACCTGCTAAACCGTGA 58.666 50.000 0.00 0.00 34.26 4.35
6468 10748 1.714794 CTCACCTGCTAAACCGTGAG 58.285 55.000 2.01 2.01 44.38 3.51
6469 10749 1.334160 TCACCTGCTAAACCGTGAGA 58.666 50.000 0.00 0.00 31.80 3.27
6470 10750 1.000506 TCACCTGCTAAACCGTGAGAC 59.999 52.381 0.00 0.00 31.80 3.36
6471 10751 0.320697 ACCTGCTAAACCGTGAGACC 59.679 55.000 0.00 0.00 0.00 3.85
6472 10752 0.608640 CCTGCTAAACCGTGAGACCT 59.391 55.000 0.00 0.00 0.00 3.85
6473 10753 1.673033 CCTGCTAAACCGTGAGACCTG 60.673 57.143 0.00 0.00 0.00 4.00
6474 10754 0.320374 TGCTAAACCGTGAGACCTGG 59.680 55.000 0.00 0.00 0.00 4.45
6475 10755 0.320697 GCTAAACCGTGAGACCTGGT 59.679 55.000 0.00 0.00 37.68 4.00
6476 10756 1.672145 GCTAAACCGTGAGACCTGGTC 60.672 57.143 19.20 19.20 34.11 4.02
6477 10757 1.893801 CTAAACCGTGAGACCTGGTCT 59.106 52.381 28.70 28.70 46.42 3.85
6722 11024 1.396996 GCGTGCGTATGAGACCAAAAT 59.603 47.619 0.00 0.00 0.00 1.82
6724 11026 3.302480 GCGTGCGTATGAGACCAAAATAG 60.302 47.826 0.00 0.00 0.00 1.73
7038 11345 5.574970 AGGGAATTAGAAGGATGGATGAC 57.425 43.478 0.00 0.00 0.00 3.06
7045 11352 6.813293 TTAGAAGGATGGATGACATGAGAA 57.187 37.500 0.00 0.00 40.72 2.87
7079 11386 0.387202 CTCATCCATCGTTCTCGGCT 59.613 55.000 0.00 0.00 37.69 5.52
7090 11397 0.735471 TTCTCGGCTGTCTCATCTCG 59.265 55.000 0.00 0.00 0.00 4.04
7232 11539 2.203394 GGCGCCATCACCCATCAT 60.203 61.111 24.80 0.00 0.00 2.45
7233 11540 2.263741 GGCGCCATCACCCATCATC 61.264 63.158 24.80 0.00 0.00 2.92
7234 11541 1.526686 GCGCCATCACCCATCATCA 60.527 57.895 0.00 0.00 0.00 3.07
7235 11542 1.512996 GCGCCATCACCCATCATCAG 61.513 60.000 0.00 0.00 0.00 2.90
7243 11550 3.106738 CCCATCATCAGGGTGCTTC 57.893 57.895 0.00 0.00 41.61 3.86
7244 11551 0.549950 CCCATCATCAGGGTGCTTCT 59.450 55.000 0.00 0.00 41.61 2.85
7245 11552 1.476471 CCCATCATCAGGGTGCTTCTC 60.476 57.143 0.00 0.00 41.61 2.87
7246 11553 1.476471 CCATCATCAGGGTGCTTCTCC 60.476 57.143 0.00 0.00 0.00 3.71
7289 11596 1.228094 TGTTTGTGGCCGCTGATGA 60.228 52.632 18.96 0.00 0.00 2.92
7290 11597 0.608856 TGTTTGTGGCCGCTGATGAT 60.609 50.000 18.96 0.00 0.00 2.45
7296 11603 1.265095 GTGGCCGCTGATGATGTATTG 59.735 52.381 9.68 0.00 0.00 1.90
7416 11764 0.657840 GTTGCTATAGCTTGCCCGTG 59.342 55.000 24.61 0.00 42.66 4.94
7506 11862 9.883142 CTCATTTATGTTCTAGGACTCTTTTCT 57.117 33.333 2.07 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
387 439 2.888834 AAATGTGAAACCACACTGCC 57.111 45.000 0.00 0.00 46.10 4.85
433 485 9.841295 ACAAAGGAAAATGAAGTGTTACTAGTA 57.159 29.630 0.00 0.00 0.00 1.82
434 486 8.747538 ACAAAGGAAAATGAAGTGTTACTAGT 57.252 30.769 0.00 0.00 0.00 2.57
435 487 9.450807 CAACAAAGGAAAATGAAGTGTTACTAG 57.549 33.333 0.00 0.00 0.00 2.57
436 488 8.410141 CCAACAAAGGAAAATGAAGTGTTACTA 58.590 33.333 0.00 0.00 0.00 1.82
437 489 7.264947 CCAACAAAGGAAAATGAAGTGTTACT 58.735 34.615 0.00 0.00 0.00 2.24
438 490 6.019075 GCCAACAAAGGAAAATGAAGTGTTAC 60.019 38.462 0.00 0.00 0.00 2.50
439 491 6.045955 GCCAACAAAGGAAAATGAAGTGTTA 58.954 36.000 0.00 0.00 0.00 2.41
440 492 4.875536 GCCAACAAAGGAAAATGAAGTGTT 59.124 37.500 0.00 0.00 0.00 3.32
649 704 0.238289 GTTGTCTTGACGGGCACATG 59.762 55.000 0.00 0.00 0.00 3.21
659 714 5.972935 TCACTTGAACAGTAGTTGTCTTGA 58.027 37.500 0.00 0.00 39.73 3.02
684 739 4.098349 ACATCATAATCATTGCCACACCAC 59.902 41.667 0.00 0.00 0.00 4.16
1405 4824 3.312697 GGAGCGAAGAAAGAACTTTGTGT 59.687 43.478 4.48 0.00 34.71 3.72
1406 4825 3.604772 CGGAGCGAAGAAAGAACTTTGTG 60.605 47.826 4.48 0.00 34.71 3.33
1407 4826 2.544267 CGGAGCGAAGAAAGAACTTTGT 59.456 45.455 4.48 0.00 34.71 2.83
1408 4827 2.800544 TCGGAGCGAAGAAAGAACTTTG 59.199 45.455 4.48 0.00 35.18 2.77
1409 4828 2.801111 GTCGGAGCGAAGAAAGAACTTT 59.199 45.455 0.00 0.00 37.72 2.66
1410 4829 2.036089 AGTCGGAGCGAAGAAAGAACTT 59.964 45.455 0.00 0.00 37.72 2.66
1484 4903 3.627395 AAGACGATAATCTGGGTGCAA 57.373 42.857 0.00 0.00 0.00 4.08
1690 5113 0.963225 TCGAAGTGAATGGACCGTCA 59.037 50.000 0.00 0.00 0.00 4.35
1833 5257 6.733334 TGGTTGTAGAATATATCCAGCCCATA 59.267 38.462 0.00 0.00 29.63 2.74
2088 5512 8.998377 TGTGGGAATGACATAAATGATATAACG 58.002 33.333 0.00 0.00 0.00 3.18
2497 5952 2.158400 TCACATGTTCATTGGGGGTTCA 60.158 45.455 0.00 0.00 0.00 3.18
2655 6110 3.762407 TGAATCGGGAAGTTCTGTTCA 57.238 42.857 2.25 5.90 0.00 3.18
3322 6780 4.394712 CGCCGCCACCTTCTCCTT 62.395 66.667 0.00 0.00 0.00 3.36
3592 7050 1.067295 AGATCAGCCAAACCCACTCA 58.933 50.000 0.00 0.00 0.00 3.41
3852 7386 4.911514 ATGGTTGTGTTGTTGGTACTTC 57.088 40.909 0.00 0.00 0.00 3.01
3863 7397 5.528043 TGCATTGTCTAAATGGTTGTGTT 57.472 34.783 0.67 0.00 0.00 3.32
4016 7550 9.868160 TTGTCCAAGATATCAAGTAGATCTCTA 57.132 33.333 0.00 0.00 38.74 2.43
4327 7871 7.450323 TGATTCAGATGGTCCTACGAACATATA 59.550 37.037 0.00 0.00 46.78 0.86
4555 8103 7.040686 GGCCAGGAGCGATAAATTAAATTAGAA 60.041 37.037 0.00 0.00 45.17 2.10
4588 8136 5.762179 TTAGTGGAGTTGGTGAATCAGAT 57.238 39.130 0.00 0.00 0.00 2.90
4606 8154 6.351711 CCTGAGATCCTCAACTGTGAATTAGT 60.352 42.308 0.00 0.00 40.18 2.24
4614 8162 2.630889 TCCCTGAGATCCTCAACTGT 57.369 50.000 0.00 0.00 40.18 3.55
4738 8286 7.800155 TGTTTCTCAATGAAATCACAGTACA 57.200 32.000 0.00 0.00 45.19 2.90
4774 8322 5.126707 ACTTTTGCCAAATTTTTGCCAATGA 59.873 32.000 12.28 0.00 35.75 2.57
4824 8372 6.985645 AGATACTTGCTCTTGTCTTCATCATC 59.014 38.462 0.00 0.00 0.00 2.92
4882 8430 1.402968 CACAAGCATTAAGAGCCGCAT 59.597 47.619 0.00 0.00 0.00 4.73
4939 8487 1.261619 GTGTTTTCAGCTCCTGACACG 59.738 52.381 4.73 0.00 40.46 4.49
5043 8591 0.988832 TCCCTAATCTTGTTGGCCGT 59.011 50.000 0.00 0.00 0.00 5.68
5057 8605 7.872061 ATCACAGTTCCATATGTATTCCCTA 57.128 36.000 1.24 0.00 0.00 3.53
5121 8669 3.950397 ACGTGGAGAAATGCTTCCATAA 58.050 40.909 0.00 0.00 34.50 1.90
5242 8790 0.184933 AACAGCACTTTGGCTACCCA 59.815 50.000 0.00 0.00 43.68 4.51
5266 8814 1.160329 GCACCACTGCTCGAACTTGT 61.160 55.000 0.00 0.00 40.63 3.16
5329 8877 7.775053 AATCTAAACAGGAAAGGCAACATAA 57.225 32.000 0.00 0.00 41.41 1.90
5337 8885 8.637196 AGGAGTTTAAATCTAAACAGGAAAGG 57.363 34.615 4.56 0.00 46.36 3.11
5571 9778 8.228464 GCCAGACTACACAAGACTAAAAATTAC 58.772 37.037 0.00 0.00 0.00 1.89
5634 9841 5.454966 ACTCCTACAAACCAGTTTCCATTT 58.545 37.500 0.00 0.00 0.00 2.32
5779 10024 0.963962 ACCACTGCTTCAAATGCCAG 59.036 50.000 0.00 0.00 0.00 4.85
5832 10077 2.026915 ACAAGTCACAGCATGATGCCTA 60.027 45.455 14.72 0.00 46.52 3.93
5890 10135 0.673022 GCAGAGCTTACAGCAGCAGT 60.673 55.000 0.00 0.00 45.56 4.40
5903 10148 0.531753 GCTAGTTAGCTGGGCAGAGC 60.532 60.000 0.00 0.00 45.62 4.09
5928 10173 6.283694 TGTCAAGTGCATCATAATCTCCTAC 58.716 40.000 0.00 0.00 0.00 3.18
5959 10204 1.813178 GACTTTGCAAAGGCTAGACCC 59.187 52.381 35.65 14.69 40.95 4.46
5967 10213 2.291741 GTCTCACTGGACTTTGCAAAGG 59.708 50.000 35.65 23.08 40.31 3.11
6013 10260 1.149627 TGGAACAAAGGACACCCCG 59.850 57.895 0.00 0.00 35.68 5.73
6162 10424 1.418908 CCTCCACCACCACCAGTCTT 61.419 60.000 0.00 0.00 0.00 3.01
6242 10520 2.084610 TTGCTCTCGTCACTTCCATG 57.915 50.000 0.00 0.00 0.00 3.66
6243 10521 2.625737 CATTGCTCTCGTCACTTCCAT 58.374 47.619 0.00 0.00 0.00 3.41
6244 10522 1.338105 CCATTGCTCTCGTCACTTCCA 60.338 52.381 0.00 0.00 0.00 3.53
6245 10523 1.363744 CCATTGCTCTCGTCACTTCC 58.636 55.000 0.00 0.00 0.00 3.46
6249 10527 2.604046 ATACCCATTGCTCTCGTCAC 57.396 50.000 0.00 0.00 0.00 3.67
6292 10572 3.641906 CCTGGTTTATATGAGACCGGTCT 59.358 47.826 36.89 36.89 43.78 3.85
6293 10573 3.387050 ACCTGGTTTATATGAGACCGGTC 59.613 47.826 27.67 27.67 37.99 4.79
6294 10574 3.134081 CACCTGGTTTATATGAGACCGGT 59.866 47.826 6.92 6.92 39.32 5.28
6295 10575 3.386726 TCACCTGGTTTATATGAGACCGG 59.613 47.826 0.00 0.00 39.13 5.28
6296 10576 4.341235 TCTCACCTGGTTTATATGAGACCG 59.659 45.833 8.01 0.00 40.59 4.79
6297 10577 5.871396 TCTCACCTGGTTTATATGAGACC 57.129 43.478 8.01 0.00 40.59 3.85
6299 10579 5.299531 CGAGTCTCACCTGGTTTATATGAGA 59.700 44.000 8.01 8.01 42.63 3.27
6300 10580 5.067936 ACGAGTCTCACCTGGTTTATATGAG 59.932 44.000 0.00 0.00 38.51 2.90
6301 10581 4.954202 ACGAGTCTCACCTGGTTTATATGA 59.046 41.667 0.00 0.00 0.00 2.15
6302 10582 5.263968 ACGAGTCTCACCTGGTTTATATG 57.736 43.478 0.00 0.00 0.00 1.78
6303 10583 4.341520 GGACGAGTCTCACCTGGTTTATAT 59.658 45.833 0.00 0.00 0.00 0.86
6304 10584 3.698040 GGACGAGTCTCACCTGGTTTATA 59.302 47.826 0.00 0.00 0.00 0.98
6305 10585 2.496470 GGACGAGTCTCACCTGGTTTAT 59.504 50.000 0.00 0.00 0.00 1.40
6306 10586 1.891150 GGACGAGTCTCACCTGGTTTA 59.109 52.381 0.00 0.00 0.00 2.01
6307 10587 0.680061 GGACGAGTCTCACCTGGTTT 59.320 55.000 0.00 0.00 0.00 3.27
6308 10588 0.178958 AGGACGAGTCTCACCTGGTT 60.179 55.000 12.90 0.00 0.00 3.67
6309 10589 0.896019 CAGGACGAGTCTCACCTGGT 60.896 60.000 24.23 0.00 44.04 4.00
6310 10590 0.609406 TCAGGACGAGTCTCACCTGG 60.609 60.000 27.98 17.13 46.64 4.45
6312 10592 1.468985 CATCAGGACGAGTCTCACCT 58.531 55.000 9.10 9.10 0.00 4.00
6313 10593 0.457851 CCATCAGGACGAGTCTCACC 59.542 60.000 0.00 2.99 36.89 4.02
6314 10594 1.464734 TCCATCAGGACGAGTCTCAC 58.535 55.000 0.00 0.00 39.61 3.51
6315 10595 3.978876 TCCATCAGGACGAGTCTCA 57.021 52.632 0.00 0.00 39.61 3.27
6325 10605 3.271055 TGTCACATGTCATCCATCAGG 57.729 47.619 0.00 0.00 0.00 3.86
6326 10606 4.879545 TGAATGTCACATGTCATCCATCAG 59.120 41.667 0.00 0.00 0.00 2.90
6327 10607 4.637091 GTGAATGTCACATGTCATCCATCA 59.363 41.667 0.00 0.00 46.22 3.07
6328 10608 5.165911 GTGAATGTCACATGTCATCCATC 57.834 43.478 0.00 0.00 46.22 3.51
6341 10621 5.259832 TGCTTTGTGATTTGTGAATGTCA 57.740 34.783 0.00 0.00 0.00 3.58
6342 10622 6.154445 AGATGCTTTGTGATTTGTGAATGTC 58.846 36.000 0.00 0.00 0.00 3.06
6343 10623 6.092955 AGATGCTTTGTGATTTGTGAATGT 57.907 33.333 0.00 0.00 0.00 2.71
6344 10624 8.697846 ATTAGATGCTTTGTGATTTGTGAATG 57.302 30.769 0.00 0.00 0.00 2.67
6345 10625 8.746530 AGATTAGATGCTTTGTGATTTGTGAAT 58.253 29.630 0.00 0.00 0.00 2.57
6346 10626 8.114331 AGATTAGATGCTTTGTGATTTGTGAA 57.886 30.769 0.00 0.00 0.00 3.18
6347 10627 7.609146 AGAGATTAGATGCTTTGTGATTTGTGA 59.391 33.333 0.00 0.00 0.00 3.58
6348 10628 7.759465 AGAGATTAGATGCTTTGTGATTTGTG 58.241 34.615 0.00 0.00 0.00 3.33
6349 10629 7.066766 GGAGAGATTAGATGCTTTGTGATTTGT 59.933 37.037 0.00 0.00 0.00 2.83
6350 10630 7.416022 GGAGAGATTAGATGCTTTGTGATTTG 58.584 38.462 0.00 0.00 0.00 2.32
6351 10631 6.545298 GGGAGAGATTAGATGCTTTGTGATTT 59.455 38.462 0.00 0.00 0.00 2.17
6352 10632 6.060788 GGGAGAGATTAGATGCTTTGTGATT 58.939 40.000 0.00 0.00 0.00 2.57
6353 10633 5.455899 GGGGAGAGATTAGATGCTTTGTGAT 60.456 44.000 0.00 0.00 0.00 3.06
6354 10634 4.141620 GGGGAGAGATTAGATGCTTTGTGA 60.142 45.833 0.00 0.00 0.00 3.58
6355 10635 4.133078 GGGGAGAGATTAGATGCTTTGTG 58.867 47.826 0.00 0.00 0.00 3.33
6356 10636 3.137360 GGGGGAGAGATTAGATGCTTTGT 59.863 47.826 0.00 0.00 0.00 2.83
6357 10637 3.749226 GGGGGAGAGATTAGATGCTTTG 58.251 50.000 0.00 0.00 0.00 2.77
6379 10659 1.410648 CCCATCCCCACCTGAAATCAG 60.411 57.143 3.37 3.37 43.40 2.90
6380 10660 0.630673 CCCATCCCCACCTGAAATCA 59.369 55.000 0.00 0.00 0.00 2.57
6381 10661 0.631212 ACCCATCCCCACCTGAAATC 59.369 55.000 0.00 0.00 0.00 2.17
6382 10662 1.852965 CTACCCATCCCCACCTGAAAT 59.147 52.381 0.00 0.00 0.00 2.17
6383 10663 1.203505 TCTACCCATCCCCACCTGAAA 60.204 52.381 0.00 0.00 0.00 2.69
6384 10664 0.419865 TCTACCCATCCCCACCTGAA 59.580 55.000 0.00 0.00 0.00 3.02
6385 10665 0.647738 ATCTACCCATCCCCACCTGA 59.352 55.000 0.00 0.00 0.00 3.86
6386 10666 0.767375 CATCTACCCATCCCCACCTG 59.233 60.000 0.00 0.00 0.00 4.00
6387 10667 1.062488 GCATCTACCCATCCCCACCT 61.062 60.000 0.00 0.00 0.00 4.00
6388 10668 1.062488 AGCATCTACCCATCCCCACC 61.062 60.000 0.00 0.00 0.00 4.61
6389 10669 0.846693 AAGCATCTACCCATCCCCAC 59.153 55.000 0.00 0.00 0.00 4.61
6390 10670 1.215173 CAAAGCATCTACCCATCCCCA 59.785 52.381 0.00 0.00 0.00 4.96
6391 10671 1.215423 ACAAAGCATCTACCCATCCCC 59.785 52.381 0.00 0.00 0.00 4.81
6392 10672 2.092429 TCACAAAGCATCTACCCATCCC 60.092 50.000 0.00 0.00 0.00 3.85
6393 10673 3.281727 TCACAAAGCATCTACCCATCC 57.718 47.619 0.00 0.00 0.00 3.51
6394 10674 5.585390 CAAATCACAAAGCATCTACCCATC 58.415 41.667 0.00 0.00 0.00 3.51
6395 10675 4.142093 GCAAATCACAAAGCATCTACCCAT 60.142 41.667 0.00 0.00 0.00 4.00
6396 10676 3.193267 GCAAATCACAAAGCATCTACCCA 59.807 43.478 0.00 0.00 0.00 4.51
6397 10677 3.193267 TGCAAATCACAAAGCATCTACCC 59.807 43.478 0.00 0.00 31.05 3.69
6398 10678 4.439305 TGCAAATCACAAAGCATCTACC 57.561 40.909 0.00 0.00 31.05 3.18
6399 10679 6.671402 GCATTTGCAAATCACAAAGCATCTAC 60.671 38.462 21.70 0.00 40.14 2.59
6400 10680 5.349270 GCATTTGCAAATCACAAAGCATCTA 59.651 36.000 21.70 0.00 40.14 1.98
6401 10681 4.153475 GCATTTGCAAATCACAAAGCATCT 59.847 37.500 21.70 0.00 40.14 2.90
6402 10682 4.399978 GCATTTGCAAATCACAAAGCATC 58.600 39.130 21.70 0.00 40.14 3.91
6403 10683 3.189702 GGCATTTGCAAATCACAAAGCAT 59.810 39.130 21.70 0.00 44.36 3.79
6404 10684 2.548904 GGCATTTGCAAATCACAAAGCA 59.451 40.909 21.70 0.00 44.36 3.91
6405 10685 2.548904 TGGCATTTGCAAATCACAAAGC 59.451 40.909 21.70 19.07 44.36 3.51
6406 10686 3.363182 CGTGGCATTTGCAAATCACAAAG 60.363 43.478 28.97 20.16 44.36 2.77
6407 10687 2.543012 CGTGGCATTTGCAAATCACAAA 59.457 40.909 28.97 14.29 44.36 2.83
6408 10688 2.133553 CGTGGCATTTGCAAATCACAA 58.866 42.857 28.97 15.89 44.36 3.33
6409 10689 1.068281 ACGTGGCATTTGCAAATCACA 59.932 42.857 28.97 23.61 44.36 3.58
6410 10690 1.456544 CACGTGGCATTTGCAAATCAC 59.543 47.619 24.03 24.03 44.36 3.06
6411 10691 1.068281 ACACGTGGCATTTGCAAATCA 59.932 42.857 21.70 14.71 44.36 2.57
6412 10692 1.720852 GACACGTGGCATTTGCAAATC 59.279 47.619 21.70 15.43 44.36 2.17
6413 10693 1.068281 TGACACGTGGCATTTGCAAAT 59.932 42.857 23.03 18.99 44.36 2.32
6414 10694 0.457443 TGACACGTGGCATTTGCAAA 59.543 45.000 23.03 15.44 44.36 3.68
6415 10695 0.672889 ATGACACGTGGCATTTGCAA 59.327 45.000 31.22 4.08 42.08 4.08
6416 10696 0.240678 GATGACACGTGGCATTTGCA 59.759 50.000 36.07 9.07 45.42 4.08
6417 10697 0.456653 GGATGACACGTGGCATTTGC 60.457 55.000 36.07 23.53 45.42 3.68
6418 10698 0.880441 TGGATGACACGTGGCATTTG 59.120 50.000 36.07 1.23 45.42 2.32
6419 10699 1.838112 ATGGATGACACGTGGCATTT 58.162 45.000 36.07 21.52 45.42 2.32
6420 10700 1.838112 AATGGATGACACGTGGCATT 58.162 45.000 36.07 19.83 45.42 3.56
6422 10702 2.027653 TCTTAATGGATGACACGTGGCA 60.028 45.455 29.28 29.28 37.54 4.92
6423 10703 2.627945 TCTTAATGGATGACACGTGGC 58.372 47.619 21.57 19.24 0.00 5.01
6424 10704 4.801147 CATCTTAATGGATGACACGTGG 57.199 45.455 21.57 1.66 44.01 4.94
6436 10716 4.970711 AGCAGGTGAGATCCATCTTAATG 58.029 43.478 0.00 0.00 37.25 1.90
6437 10717 6.753913 TTAGCAGGTGAGATCCATCTTAAT 57.246 37.500 0.00 0.00 37.25 1.40
6438 10718 6.349300 GTTTAGCAGGTGAGATCCATCTTAA 58.651 40.000 0.00 0.00 37.25 1.85
6439 10719 5.163301 GGTTTAGCAGGTGAGATCCATCTTA 60.163 44.000 0.00 0.00 37.25 2.10
6440 10720 4.384647 GGTTTAGCAGGTGAGATCCATCTT 60.385 45.833 0.00 0.00 37.25 2.40
6441 10721 3.135530 GGTTTAGCAGGTGAGATCCATCT 59.864 47.826 0.00 0.00 40.50 2.90
6442 10722 3.471680 GGTTTAGCAGGTGAGATCCATC 58.528 50.000 0.00 0.00 0.00 3.51
6443 10723 2.158900 CGGTTTAGCAGGTGAGATCCAT 60.159 50.000 0.00 0.00 0.00 3.41
6444 10724 1.207089 CGGTTTAGCAGGTGAGATCCA 59.793 52.381 0.00 0.00 0.00 3.41
6445 10725 1.207329 ACGGTTTAGCAGGTGAGATCC 59.793 52.381 0.00 0.00 0.00 3.36
6446 10726 2.094182 TCACGGTTTAGCAGGTGAGATC 60.094 50.000 0.00 0.00 34.71 2.75
6447 10727 1.899814 TCACGGTTTAGCAGGTGAGAT 59.100 47.619 0.00 0.00 34.71 2.75
6448 10728 1.334160 TCACGGTTTAGCAGGTGAGA 58.666 50.000 0.00 0.00 34.71 3.27
6449 10729 3.906660 TCACGGTTTAGCAGGTGAG 57.093 52.632 0.00 0.00 34.71 3.51
6450 10730 1.000506 GTCTCACGGTTTAGCAGGTGA 59.999 52.381 0.00 0.00 37.77 4.02
6451 10731 1.429463 GTCTCACGGTTTAGCAGGTG 58.571 55.000 0.00 0.00 0.00 4.00
6452 10732 0.320697 GGTCTCACGGTTTAGCAGGT 59.679 55.000 0.00 0.00 0.00 4.00
6453 10733 0.608640 AGGTCTCACGGTTTAGCAGG 59.391 55.000 0.00 0.00 0.00 4.85
6454 10734 1.673033 CCAGGTCTCACGGTTTAGCAG 60.673 57.143 0.00 0.00 0.00 4.24
6455 10735 0.320374 CCAGGTCTCACGGTTTAGCA 59.680 55.000 0.00 0.00 0.00 3.49
6456 10736 0.320697 ACCAGGTCTCACGGTTTAGC 59.679 55.000 0.00 0.00 0.00 3.09
6457 10737 1.893801 AGACCAGGTCTCACGGTTTAG 59.106 52.381 17.31 0.00 38.71 1.85
6458 10738 2.005370 AGACCAGGTCTCACGGTTTA 57.995 50.000 17.31 0.00 38.71 2.01
6459 10739 2.836020 AGACCAGGTCTCACGGTTT 58.164 52.632 17.31 0.00 38.71 3.27
6460 10740 4.621269 AGACCAGGTCTCACGGTT 57.379 55.556 17.31 0.00 38.71 4.44
6679 10981 1.555075 ACTTCCAGCGCTCTTATCCAA 59.445 47.619 7.13 0.00 0.00 3.53
6682 10984 1.929836 CACACTTCCAGCGCTCTTATC 59.070 52.381 7.13 0.00 0.00 1.75
6685 10987 1.963338 GCACACTTCCAGCGCTCTT 60.963 57.895 7.13 0.00 0.00 2.85
6686 10988 2.358003 GCACACTTCCAGCGCTCT 60.358 61.111 7.13 0.00 0.00 4.09
6722 11024 4.127171 GCGGTATTCAGCCAAATCTTCTA 58.873 43.478 0.00 0.00 0.00 2.10
6724 11026 2.286418 CGCGGTATTCAGCCAAATCTTC 60.286 50.000 0.00 0.00 0.00 2.87
7038 11345 0.319383 CCTCGATCGGCCTTCTCATG 60.319 60.000 16.41 0.00 0.00 3.07
7045 11352 0.251564 ATGAGATCCTCGATCGGCCT 60.252 55.000 16.41 5.39 43.17 5.19
7079 11386 1.803289 CAGCCGACGAGATGAGACA 59.197 57.895 0.00 0.00 0.00 3.41
7246 11553 4.227134 CCGCATCTCACGAGGGGG 62.227 72.222 0.00 0.00 45.51 5.40
7318 11625 1.451567 CACGCGTCCTCCTCTCCTA 60.452 63.158 9.86 0.00 0.00 2.94
7362 11701 3.747010 AGTACTAGTAGATGCGGTCGATG 59.253 47.826 1.87 0.00 0.00 3.84
7416 11764 2.093711 AGCCAACAACCCAGAAAACAAC 60.094 45.455 0.00 0.00 0.00 3.32
7464 11812 9.627123 ACATAAATGAGGCTTTTTAGCAGTATA 57.373 29.630 8.80 0.00 36.33 1.47
7465 11813 8.525290 ACATAAATGAGGCTTTTTAGCAGTAT 57.475 30.769 8.80 0.00 36.33 2.12
7466 11814 7.938140 ACATAAATGAGGCTTTTTAGCAGTA 57.062 32.000 8.80 0.00 36.33 2.74
7467 11815 6.840780 ACATAAATGAGGCTTTTTAGCAGT 57.159 33.333 8.80 5.69 36.33 4.40
7468 11816 7.542025 AGAACATAAATGAGGCTTTTTAGCAG 58.458 34.615 8.80 5.26 36.33 4.24
7469 11817 7.466746 AGAACATAAATGAGGCTTTTTAGCA 57.533 32.000 8.80 0.00 36.33 3.49
7470 11818 8.131731 CCTAGAACATAAATGAGGCTTTTTAGC 58.868 37.037 8.80 0.00 0.00 3.09
7479 11833 9.103861 GAAAAGAGTCCTAGAACATAAATGAGG 57.896 37.037 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.