Multiple sequence alignment - TraesCS2B01G131800

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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 TraesCS2B01G131800 chr2B 100.000 5229 0 0 967 6195 98356317 98361545 0.000000e+00 9657.0
1 TraesCS2B01G131800 chr2B 100.000 475 0 0 1 475 98355351 98355825 0.000000e+00 878.0
2 TraesCS2B01G131800 chr2B 96.591 176 5 1 4132 4306 314771396 314771571 2.180000e-74 291.0
3 TraesCS2B01G131800 chr2B 100.000 28 0 0 4308 4335 684628750 684628723 1.100000e-02 52.8
4 TraesCS2B01G131800 chr2A 94.739 2471 79 22 967 3400 63817259 63819715 0.000000e+00 3795.0
5 TraesCS2B01G131800 chr2A 94.067 2343 83 18 3417 5719 63821760 63824086 0.000000e+00 3506.0
6 TraesCS2B01G131800 chr2A 93.750 96 6 0 6100 6195 63824449 63824544 1.800000e-30 145.0
7 TraesCS2B01G131800 chr2A 79.602 201 18 2 62 260 63816039 63816218 8.430000e-24 122.0
8 TraesCS2B01G131800 chr2A 84.314 102 5 4 337 437 63815232 63815323 8.550000e-14 89.8
9 TraesCS2B01G131800 chr2D 90.235 2468 125 41 1014 3404 62950993 62953421 0.000000e+00 3116.0
10 TraesCS2B01G131800 chr2D 93.770 1252 45 14 4304 5543 62954195 62955425 0.000000e+00 1849.0
11 TraesCS2B01G131800 chr2D 94.715 719 22 8 3417 4131 62953482 62954188 0.000000e+00 1103.0
12 TraesCS2B01G131800 chr2D 87.023 262 33 1 128 389 62949755 62950015 1.690000e-75 294.0
13 TraesCS2B01G131800 chr2D 81.081 259 35 10 5940 6195 62956354 62956601 1.760000e-45 195.0
14 TraesCS2B01G131800 chr7A 96.089 179 5 2 4126 4303 630034515 630034338 2.180000e-74 291.0
15 TraesCS2B01G131800 chr1A 96.067 178 6 1 4132 4308 137410073 137409896 7.860000e-74 289.0
16 TraesCS2B01G131800 chr1A 95.531 179 6 2 4132 4308 50339320 50339498 1.020000e-72 285.0
17 TraesCS2B01G131800 chr6B 95.055 182 7 2 4124 4304 159369577 159369757 1.020000e-72 285.0
18 TraesCS2B01G131800 chr3B 94.652 187 5 4 4119 4300 689002674 689002860 1.020000e-72 285.0
19 TraesCS2B01G131800 chr4A 95.506 178 6 2 4127 4302 231287827 231287650 3.660000e-72 283.0
20 TraesCS2B01G131800 chr4A 92.105 38 3 0 5842 5879 468255371 468255334 3.000000e-03 54.7
21 TraesCS2B01G131800 chr1B 96.000 175 6 1 4127 4300 158536311 158536137 3.660000e-72 283.0
22 TraesCS2B01G131800 chr6A 80.097 206 32 6 4367 4571 3327376 3327573 1.800000e-30 145.0
23 TraesCS2B01G131800 chr7B 75.194 258 42 10 4313 4570 96526175 96526410 1.100000e-17 102.0
24 TraesCS2B01G131800 chr6D 87.500 80 10 0 4310 4389 304111006 304110927 6.610000e-15 93.5


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 TraesCS2B01G131800 chr2B 98355351 98361545 6194 False 5267.50 9657 100.0000 1 6195 2 chr2B.!!$F2 6194
1 TraesCS2B01G131800 chr2A 63815232 63824544 9312 False 1531.56 3795 89.2944 62 6195 5 chr2A.!!$F1 6133
2 TraesCS2B01G131800 chr2D 62949755 62956601 6846 False 1311.40 3116 89.3648 128 6195 5 chr2D.!!$F1 6067

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
223 972 0.312416 CTCCTTCGATCCGGCAGTAG 59.688 60.000 0.00 0.00 0.00 2.57 F
1000 2341 0.248743 CGTAATTCAGGCGAGCCGTA 60.249 55.000 8.63 0.00 41.95 4.02 F
1201 2571 0.313672 CTATCTCTCCCGAGCTGTGC 59.686 60.000 0.00 0.00 37.19 4.57 F
1203 2573 1.047596 ATCTCTCCCGAGCTGTGCAT 61.048 55.000 0.00 0.00 37.19 3.96 F
1318 2707 1.064389 GCTAGGCTTGGGGAACTGAAT 60.064 52.381 0.00 0.00 0.00 2.57 F
1347 2741 1.404748 TGTACGTGGAGTCGTGAAACA 59.595 47.619 0.00 0.00 43.93 2.83 F
1980 3396 1.681327 CTGGGCCAAGCTCTGCATT 60.681 57.895 8.04 0.00 0.00 3.56 F
3719 7178 0.322456 TGCATAGTTGGACCCACAGC 60.322 55.000 0.00 0.29 0.00 4.40 F
5074 8541 0.528017 TGTCTCGTGCACAGGATCTC 59.472 55.000 18.64 3.33 0.00 2.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1101 2446 1.076485 GTACTCCGGGTAGGCCTCA 60.076 63.158 9.68 0.0 40.77 3.86 R
2638 4066 1.385528 AAAGTTTCGTGGGCTTCGTT 58.614 45.000 2.55 0.0 0.00 3.85 R
2761 4189 1.609072 GGAGGAACTGAAAACAGGCAC 59.391 52.381 0.00 0.0 41.55 5.01 R
3412 4840 3.432933 GCCCACACAAGCAACATATTTTG 59.567 43.478 0.00 0.0 0.00 2.44 R
3415 4843 1.202114 CGCCCACACAAGCAACATATT 59.798 47.619 0.00 0.0 0.00 1.28 R
3475 6931 3.751175 TGCATCAGAGGTTCTTAAAACGG 59.249 43.478 0.00 0.0 0.00 4.44 R
4151 7610 0.764890 CAAGTGGGAGGACTTCACCA 59.235 55.000 0.00 0.0 33.75 4.17 R
5089 8556 0.251033 GGAAAAGGGTGCGGGTAACT 60.251 55.000 0.00 0.0 0.00 2.24 R
5906 9881 0.475906 AGCCATAGCCCATCAGGAAC 59.524 55.000 0.00 0.0 41.25 3.62 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
63 64 1.299089 GGCAACCAACAACACGAGC 60.299 57.895 0.00 0.00 0.00 5.03
64 65 1.431440 GCAACCAACAACACGAGCA 59.569 52.632 0.00 0.00 0.00 4.26
77 824 3.013921 ACACGAGCAAAAGGAAGTTCAA 58.986 40.909 5.01 0.00 0.00 2.69
81 828 3.791353 CGAGCAAAAGGAAGTTCAACAAC 59.209 43.478 5.01 0.00 0.00 3.32
83 830 5.343307 AGCAAAAGGAAGTTCAACAACAT 57.657 34.783 5.01 0.00 34.60 2.71
99 846 9.665719 TTCAACAACATGAGCTATCTATTACAA 57.334 29.630 0.00 0.00 0.00 2.41
131 880 0.879090 CAGTTAAAACGGGCCCTCAC 59.121 55.000 22.43 2.15 0.00 3.51
141 890 1.424638 GGGCCCTCACATAGAAGCTA 58.575 55.000 17.04 0.00 0.00 3.32
172 921 0.631212 CCTTGGGCCCACCTTATTCT 59.369 55.000 28.70 0.00 41.11 2.40
173 922 1.410224 CCTTGGGCCCACCTTATTCTC 60.410 57.143 28.70 0.00 41.11 2.87
193 942 1.203928 CATCTTCACGCGATCCTCAC 58.796 55.000 15.93 0.00 0.00 3.51
206 955 2.116827 TCCTCACGAGTTCTCCTCTC 57.883 55.000 0.00 0.00 38.11 3.20
216 965 1.335496 GTTCTCCTCTCCTTCGATCCG 59.665 57.143 0.00 0.00 0.00 4.18
218 967 1.801309 CTCCTCTCCTTCGATCCGGC 61.801 65.000 0.00 0.00 0.00 6.13
223 972 0.312416 CTCCTTCGATCCGGCAGTAG 59.688 60.000 0.00 0.00 0.00 2.57
262 1011 2.930682 GCTTGATTGAGTACCGGAGAAC 59.069 50.000 9.46 2.91 0.00 3.01
265 1014 4.610605 TGATTGAGTACCGGAGAACAAA 57.389 40.909 9.46 2.92 0.00 2.83
273 1022 6.094603 TGAGTACCGGAGAACAAACTAGATAC 59.905 42.308 9.46 0.00 0.00 2.24
274 1023 5.948162 AGTACCGGAGAACAAACTAGATACA 59.052 40.000 9.46 0.00 0.00 2.29
330 1079 5.765677 TGTCAACAACCTCCGATTTCATAAA 59.234 36.000 0.00 0.00 0.00 1.40
331 1080 6.084277 GTCAACAACCTCCGATTTCATAAAC 58.916 40.000 0.00 0.00 0.00 2.01
332 1081 6.001460 TCAACAACCTCCGATTTCATAAACT 58.999 36.000 0.00 0.00 0.00 2.66
333 1082 6.488683 TCAACAACCTCCGATTTCATAAACTT 59.511 34.615 0.00 0.00 0.00 2.66
334 1083 6.254281 ACAACCTCCGATTTCATAAACTTG 57.746 37.500 0.00 0.00 0.00 3.16
335 1084 5.768164 ACAACCTCCGATTTCATAAACTTGT 59.232 36.000 0.00 0.00 0.00 3.16
336 1085 6.072673 ACAACCTCCGATTTCATAAACTTGTC 60.073 38.462 0.00 0.00 0.00 3.18
337 1086 5.805728 ACCTCCGATTTCATAAACTTGTCT 58.194 37.500 0.00 0.00 0.00 3.41
338 1087 6.942976 ACCTCCGATTTCATAAACTTGTCTA 58.057 36.000 0.00 0.00 0.00 2.59
339 1088 6.817140 ACCTCCGATTTCATAAACTTGTCTAC 59.183 38.462 0.00 0.00 0.00 2.59
341 1090 7.549488 CCTCCGATTTCATAAACTTGTCTACTT 59.451 37.037 0.00 0.00 0.00 2.24
342 1091 8.475331 TCCGATTTCATAAACTTGTCTACTTC 57.525 34.615 0.00 0.00 0.00 3.01
344 1093 7.333423 CCGATTTCATAAACTTGTCTACTTCCA 59.667 37.037 0.00 0.00 0.00 3.53
350 1099 9.349713 TCATAAACTTGTCTACTTCCATTTTGT 57.650 29.630 0.00 0.00 0.00 2.83
417 1379 8.300286 CACGATAATACTCCACAAGATCTACAT 58.700 37.037 0.00 0.00 0.00 2.29
457 1444 3.554934 TCACTCCTTTGCACTTCACAAT 58.445 40.909 0.00 0.00 0.00 2.71
468 1455 7.712264 TTGCACTTCACAATTTAATTCCTTG 57.288 32.000 0.00 0.00 0.00 3.61
472 1459 7.569957 GCACTTCACAATTTAATTCCTTGCTTG 60.570 37.037 0.00 0.00 0.00 4.01
473 1460 7.652909 CACTTCACAATTTAATTCCTTGCTTGA 59.347 33.333 0.00 0.00 0.00 3.02
1000 2341 0.248743 CGTAATTCAGGCGAGCCGTA 60.249 55.000 8.63 0.00 41.95 4.02
1011 2356 1.448893 GAGCCGTATGTTTCGCCCA 60.449 57.895 0.00 0.00 0.00 5.36
1017 2362 1.821759 TATGTTTCGCCCATGCCGG 60.822 57.895 0.00 0.00 0.00 6.13
1027 2372 1.288752 CCATGCCGGTTGTTTGACC 59.711 57.895 1.90 0.00 36.31 4.02
1184 2529 2.551887 GCGATGTGAGCATCTCTCTCTA 59.448 50.000 6.11 0.00 46.96 2.43
1191 2536 4.697352 GTGAGCATCTCTCTCTATCTCTCC 59.303 50.000 0.00 0.00 42.38 3.71
1193 2538 3.009723 GCATCTCTCTCTATCTCTCCCG 58.990 54.545 0.00 0.00 0.00 5.14
1194 2539 3.307410 GCATCTCTCTCTATCTCTCCCGA 60.307 52.174 0.00 0.00 0.00 5.14
1195 2540 4.507710 CATCTCTCTCTATCTCTCCCGAG 58.492 52.174 0.00 0.00 38.67 4.63
1198 2543 2.038426 TCTCTCTATCTCTCCCGAGCTG 59.962 54.545 0.00 0.00 37.19 4.24
1201 2571 0.313672 CTATCTCTCCCGAGCTGTGC 59.686 60.000 0.00 0.00 37.19 4.57
1203 2573 1.047596 ATCTCTCCCGAGCTGTGCAT 61.048 55.000 0.00 0.00 37.19 3.96
1216 2586 2.354510 GCTGTGCATAGTGCCGAATTAA 59.645 45.455 12.41 0.00 44.23 1.40
1220 2590 5.577835 TGTGCATAGTGCCGAATTAATTTC 58.422 37.500 1.43 0.00 44.23 2.17
1274 2654 2.145397 AGACTCCACGAATCTGGCTA 57.855 50.000 0.00 0.00 0.00 3.93
1276 2656 3.833732 AGACTCCACGAATCTGGCTATA 58.166 45.455 0.00 0.00 0.00 1.31
1277 2657 4.411927 AGACTCCACGAATCTGGCTATAT 58.588 43.478 0.00 0.00 0.00 0.86
1278 2658 4.835615 AGACTCCACGAATCTGGCTATATT 59.164 41.667 0.00 0.00 0.00 1.28
1279 2659 5.305644 AGACTCCACGAATCTGGCTATATTT 59.694 40.000 0.00 0.00 0.00 1.40
1280 2660 5.930135 ACTCCACGAATCTGGCTATATTTT 58.070 37.500 0.00 0.00 0.00 1.82
1281 2661 5.760253 ACTCCACGAATCTGGCTATATTTTG 59.240 40.000 0.00 0.00 0.00 2.44
1282 2662 5.063204 TCCACGAATCTGGCTATATTTTGG 58.937 41.667 0.00 4.43 0.00 3.28
1283 2663 4.216257 CCACGAATCTGGCTATATTTTGGG 59.784 45.833 0.00 0.00 0.00 4.12
1284 2664 5.063204 CACGAATCTGGCTATATTTTGGGA 58.937 41.667 0.00 0.00 0.00 4.37
1286 2666 6.878923 CACGAATCTGGCTATATTTTGGGATA 59.121 38.462 0.00 0.00 0.00 2.59
1287 2667 7.390440 CACGAATCTGGCTATATTTTGGGATAA 59.610 37.037 0.00 0.00 0.00 1.75
1289 2669 8.960591 CGAATCTGGCTATATTTTGGGATAATT 58.039 33.333 0.00 0.00 0.00 1.40
1318 2707 1.064389 GCTAGGCTTGGGGAACTGAAT 60.064 52.381 0.00 0.00 0.00 2.57
1333 2727 6.385033 GGAACTGAATAACTGTACTGTACGT 58.615 40.000 12.87 10.61 0.00 3.57
1339 2733 3.911661 AACTGTACTGTACGTGGAGTC 57.088 47.619 12.87 0.00 0.00 3.36
1341 2735 1.802960 CTGTACTGTACGTGGAGTCGT 59.197 52.381 12.87 0.00 45.97 4.34
1343 2737 1.800586 GTACTGTACGTGGAGTCGTGA 59.199 52.381 0.00 0.00 43.93 4.35
1345 2739 1.677576 ACTGTACGTGGAGTCGTGAAA 59.322 47.619 0.00 0.00 43.93 2.69
1346 2740 2.049228 CTGTACGTGGAGTCGTGAAAC 58.951 52.381 0.00 0.00 43.93 2.78
1347 2741 1.404748 TGTACGTGGAGTCGTGAAACA 59.595 47.619 0.00 0.00 43.93 2.83
1358 2753 5.411669 GGAGTCGTGAAACAGGAATATTTGT 59.588 40.000 0.00 0.00 35.74 2.83
1361 2756 5.851177 GTCGTGAAACAGGAATATTTGTGTG 59.149 40.000 4.81 0.00 35.74 3.82
1372 2767 7.175641 CAGGAATATTTGTGTGGTTTCTCTCTT 59.824 37.037 0.00 0.00 0.00 2.85
1383 2778 3.057946 GGTTTCTCTCTTTGACCACATGC 60.058 47.826 0.00 0.00 0.00 4.06
1617 3013 3.627577 GTGGACCATGTTAAGCAGGTATG 59.372 47.826 0.00 0.00 33.77 2.39
1840 3236 2.270352 TCAGTTTTGACGAATGGCCT 57.730 45.000 3.32 0.00 0.00 5.19
1965 3381 9.250624 GTATAACTCAACATACTTTAGCTCTGG 57.749 37.037 0.00 0.00 0.00 3.86
1980 3396 1.681327 CTGGGCCAAGCTCTGCATT 60.681 57.895 8.04 0.00 0.00 3.56
2477 3905 8.746751 CATATTACATAGTCAGCGAATAATCCG 58.253 37.037 0.00 0.00 0.00 4.18
2500 3928 7.177216 TCCGTACTTATTTACTTGAGACAGGAA 59.823 37.037 0.00 0.00 0.00 3.36
2586 4014 6.972328 CGTTTATTGTACCAATGGAAAGGATG 59.028 38.462 6.16 0.00 0.00 3.51
2667 4095 4.738243 GCCCACGAAACTTTTGGTATGTTT 60.738 41.667 0.00 0.00 36.96 2.83
2668 4096 5.353111 CCCACGAAACTTTTGGTATGTTTT 58.647 37.500 0.00 0.00 35.09 2.43
2761 4189 6.878317 TCAGTGACTTTGGTCTGGATTATAG 58.122 40.000 0.00 0.00 42.54 1.31
2934 4362 3.431673 TCATTTGGTGTGTGGCTATGA 57.568 42.857 0.00 0.00 0.00 2.15
3404 4832 9.337396 CTCCACAATAATGCAGGTTAGTTTATA 57.663 33.333 0.00 0.00 0.00 0.98
3405 4833 9.116067 TCCACAATAATGCAGGTTAGTTTATAC 57.884 33.333 0.00 0.00 0.00 1.47
3412 4840 6.563222 TGCAGGTTAGTTTATACAACAACC 57.437 37.500 14.91 14.91 34.51 3.77
3413 4841 6.062749 TGCAGGTTAGTTTATACAACAACCA 58.937 36.000 19.24 8.56 35.61 3.67
3414 4842 6.546403 TGCAGGTTAGTTTATACAACAACCAA 59.454 34.615 19.24 11.05 35.61 3.67
3415 4843 7.068348 TGCAGGTTAGTTTATACAACAACCAAA 59.932 33.333 19.24 10.88 35.61 3.28
3542 6998 4.737054 CAGCATATTTTGGCTCGAAACTT 58.263 39.130 0.00 0.00 38.56 2.66
3571 7027 1.216990 CCCTCTAGGCACCCTCAATT 58.783 55.000 0.00 0.00 34.61 2.32
3603 7059 5.336150 TGGATTTGTTTTGCAGAACTTGA 57.664 34.783 19.62 7.25 0.00 3.02
3648 7106 5.944007 GGCCTACCATTAAGTCTCTTTTCAA 59.056 40.000 0.00 0.00 35.26 2.69
3692 7150 7.333423 TGGTTGTTGTATCACTGCTTTAGTATC 59.667 37.037 0.00 0.00 37.60 2.24
3719 7178 0.322456 TGCATAGTTGGACCCACAGC 60.322 55.000 0.00 0.29 0.00 4.40
3821 7280 8.853345 CAAGTCAGTATGTGTTCATTTATTTGC 58.147 33.333 0.00 0.00 37.40 3.68
3884 7343 6.149474 AGTCACTATATTGGTGCAAACTGTTC 59.851 38.462 0.00 0.00 34.97 3.18
3885 7344 5.414454 TCACTATATTGGTGCAAACTGTTCC 59.586 40.000 0.00 0.00 34.97 3.62
3886 7345 5.182950 CACTATATTGGTGCAAACTGTTCCA 59.817 40.000 0.00 0.00 0.00 3.53
3887 7346 5.772672 ACTATATTGGTGCAAACTGTTCCAA 59.227 36.000 12.16 12.16 41.40 3.53
3888 7347 2.663826 TTGGTGCAAACTGTTCCAAC 57.336 45.000 7.18 5.16 33.95 3.77
3889 7348 1.550327 TGGTGCAAACTGTTCCAACA 58.450 45.000 7.52 7.52 37.37 3.33
4008 7467 7.443879 TGTGTAGATAGAAATGACAGTTGCAAA 59.556 33.333 0.00 0.00 0.00 3.68
4146 7605 3.655211 CAAGAGGGCAGGCCTGGT 61.655 66.667 33.46 4.17 36.10 4.00
4147 7606 3.655211 AAGAGGGCAGGCCTGGTG 61.655 66.667 33.46 10.79 36.10 4.17
4190 7649 1.360393 TGCCAAGAGGTCCTGGGTTT 61.360 55.000 0.00 0.00 38.32 3.27
4241 7700 4.966805 CAGGGGTAAGACTAGGTTCCAATA 59.033 45.833 0.00 0.00 0.00 1.90
4255 7714 3.383780 TCCAATAATCCCTCCCCAGAT 57.616 47.619 0.00 0.00 0.00 2.90
4259 7718 0.956528 TAATCCCTCCCCAGATCCCA 59.043 55.000 0.00 0.00 0.00 4.37
4290 7749 0.543749 AGCTTCTATGCACTGGGTCC 59.456 55.000 0.00 0.00 34.99 4.46
4299 7758 0.822121 GCACTGGGTCCGTCCTTTTT 60.822 55.000 0.00 0.00 36.25 1.94
4397 7856 5.193679 ACCACCTCTATAGAAAAATGTGCC 58.806 41.667 3.57 0.00 0.00 5.01
4405 7864 5.998454 ATAGAAAAATGTGCCGAGATCTG 57.002 39.130 0.00 0.00 0.00 2.90
4431 7892 7.483375 GCAACAGCAAATACACATAATACGAAA 59.517 33.333 0.00 0.00 0.00 3.46
4562 8026 7.145323 CAGAACTTCAATTATTTTGGAACGGT 58.855 34.615 0.00 0.00 0.00 4.83
4615 8079 6.872628 TTGATGTGCCATCTGATCTAAATC 57.127 37.500 13.94 0.00 0.00 2.17
4642 8106 3.440173 GTGCTGCCTTGAGTATGCTTTTA 59.560 43.478 0.00 0.00 0.00 1.52
4725 8192 8.702163 ATATCTTCGCCAGGTTTAAAATTTTG 57.298 30.769 13.76 0.00 0.00 2.44
4739 8206 7.945033 TTAAAATTTTGAACATGCCTCTGAC 57.055 32.000 13.76 0.00 0.00 3.51
4749 8216 7.441836 TGAACATGCCTCTGACGTTATATTAT 58.558 34.615 0.00 0.00 0.00 1.28
4782 8249 0.946221 GCCTGAAGACACTGGACACG 60.946 60.000 0.00 0.00 0.00 4.49
4814 8281 0.817654 TCATTCGGCATCACGAGTCT 59.182 50.000 0.00 0.00 44.47 3.24
4897 8364 7.482654 TGCTAACACAGTGAATAATGCTATC 57.517 36.000 7.81 0.00 0.00 2.08
4940 8407 6.496565 AGGAATCATACTTGAATCTCTCCGAT 59.503 38.462 0.00 0.00 34.96 4.18
4998 8465 6.319658 ACAATCTGGCATTAAACAGGATAGTG 59.680 38.462 0.00 0.81 35.47 2.74
5013 8480 2.480555 GTGGCAACGCTCGGATTG 59.519 61.111 0.00 0.00 46.04 2.67
5049 8516 1.352352 CATGTCCCCTGTTTCACTCCT 59.648 52.381 0.00 0.00 0.00 3.69
5074 8541 0.528017 TGTCTCGTGCACAGGATCTC 59.472 55.000 18.64 3.33 0.00 2.75
5206 8673 2.427453 CACTAGGTAGCTTCGTGTGGAT 59.573 50.000 0.00 0.00 0.00 3.41
5350 8817 5.452078 TTCTTTTGTGGAGAAATCGCATT 57.548 34.783 0.00 0.00 30.60 3.56
5434 8906 1.987770 CTCCAAATCAAACGCATGTGC 59.012 47.619 6.08 0.00 37.78 4.57
5470 8943 9.403110 CTTTTGAGATACCTGAAACAGATTTTG 57.597 33.333 0.00 0.00 32.44 2.44
5479 8952 7.820648 ACCTGAAACAGATTTTGTCATGTATC 58.179 34.615 0.00 0.00 39.73 2.24
5579 9479 2.291540 ACCCCTCATGGTATGTTTGGTG 60.292 50.000 0.00 0.00 36.67 4.17
5604 9507 2.637382 CCCAAGTTTGCCCTACCAAAAT 59.363 45.455 0.00 0.00 36.55 1.82
5642 9545 8.729805 AAATTTCAGTCAAGGTTTTATTTGCA 57.270 26.923 0.00 0.00 0.00 4.08
5699 9607 3.706594 AGAGAGAACTGGAGTGAACACAA 59.293 43.478 7.68 0.00 0.00 3.33
5713 9621 7.273381 GGAGTGAACACAATTACATTAACATGC 59.727 37.037 7.68 0.00 33.05 4.06
5718 9626 7.887996 ACACAATTACATTAACATGCCAAAG 57.112 32.000 0.00 0.00 33.05 2.77
5720 9628 6.313411 CACAATTACATTAACATGCCAAAGGG 59.687 38.462 0.00 0.00 33.05 3.95
5734 9662 1.727880 CAAAGGGCATGCATCAAAACG 59.272 47.619 21.36 0.00 0.00 3.60
5752 9680 8.703604 TCAAAACGAAGTCCATATTCTCTTAG 57.296 34.615 0.00 0.00 45.00 2.18
5759 9687 9.413048 CGAAGTCCATATTCTCTTAGAAATACC 57.587 37.037 0.00 0.00 37.82 2.73
5780 9722 0.520404 AGTACAGCGTAGACACACCG 59.480 55.000 0.00 0.00 0.00 4.94
5783 9725 1.284715 CAGCGTAGACACACCGACA 59.715 57.895 0.00 0.00 0.00 4.35
5788 9730 1.534385 CGTAGACACACCGACAACACA 60.534 52.381 0.00 0.00 0.00 3.72
5825 9785 8.099364 TGGAGTTACAAAGAAGATTGATCAAC 57.901 34.615 11.07 5.15 34.38 3.18
5837 9811 5.702865 AGATTGATCAACCATTGTTTGTCG 58.297 37.500 11.07 0.00 30.42 4.35
5906 9881 6.595682 AGATGATGTCCAACCTAGTATTTGG 58.404 40.000 8.18 8.18 43.29 3.28
5914 9889 5.491078 TCCAACCTAGTATTTGGTTCCTGAT 59.509 40.000 12.43 0.00 43.88 2.90
5924 9900 0.538287 GGTTCCTGATGGGCTATGGC 60.538 60.000 0.00 0.00 37.82 4.40
5953 9967 6.010219 ACAACCCTGCTAACATGTTAATTCT 58.990 36.000 18.55 0.00 0.00 2.40
5958 9972 7.232534 ACCCTGCTAACATGTTAATTCTCAAAA 59.767 33.333 18.55 0.00 0.00 2.44
6005 10037 8.746052 TTATCGAAGTCCATATTTTGGTCAAT 57.254 30.769 0.00 0.00 46.52 2.57
6007 10039 6.176896 TCGAAGTCCATATTTTGGTCAATGA 58.823 36.000 0.00 0.00 46.52 2.57
6014 10046 8.469200 GTCCATATTTTGGTCAATGATCTGAAA 58.531 33.333 0.00 0.00 46.52 2.69
6015 10047 8.469200 TCCATATTTTGGTCAATGATCTGAAAC 58.531 33.333 0.00 0.00 46.52 2.78
6019 10051 8.597662 ATTTTGGTCAATGATCTGAAACTTTG 57.402 30.769 0.00 0.00 0.00 2.77
6055 10088 4.816925 GGCAGTCTGAACTTTCAACTAAGT 59.183 41.667 3.32 0.00 39.97 2.24
6056 10089 5.277538 GGCAGTCTGAACTTTCAACTAAGTG 60.278 44.000 3.32 0.00 38.33 3.16
6058 10091 6.037172 GCAGTCTGAACTTTCAACTAAGTGAA 59.963 38.462 3.32 0.00 38.33 3.18
6059 10092 7.625553 CAGTCTGAACTTTCAACTAAGTGAAG 58.374 38.462 0.00 0.00 38.69 3.02
6060 10093 7.492669 CAGTCTGAACTTTCAACTAAGTGAAGA 59.507 37.037 0.00 0.00 38.69 2.87
6061 10094 8.041323 AGTCTGAACTTTCAACTAAGTGAAGAA 58.959 33.333 0.00 0.00 38.69 2.52
6062 10095 8.117370 GTCTGAACTTTCAACTAAGTGAAGAAC 58.883 37.037 0.00 0.00 38.69 3.01
6063 10096 7.000575 TGAACTTTCAACTAAGTGAAGAACG 57.999 36.000 0.00 0.00 38.69 3.95
6064 10097 5.986004 ACTTTCAACTAAGTGAAGAACGG 57.014 39.130 0.00 0.00 38.69 4.44
6065 10098 5.425630 ACTTTCAACTAAGTGAAGAACGGT 58.574 37.500 0.00 0.00 38.69 4.83
6066 10099 5.293569 ACTTTCAACTAAGTGAAGAACGGTG 59.706 40.000 0.00 0.00 38.69 4.94
6068 10101 4.761975 TCAACTAAGTGAAGAACGGTGTT 58.238 39.130 0.00 0.00 0.00 3.32
6070 10103 6.339730 TCAACTAAGTGAAGAACGGTGTTAA 58.660 36.000 0.00 0.00 0.00 2.01
6072 10105 7.333921 TCAACTAAGTGAAGAACGGTGTTAAAA 59.666 33.333 0.00 0.00 0.00 1.52
6073 10106 7.614124 ACTAAGTGAAGAACGGTGTTAAAAA 57.386 32.000 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 5.685520 TGGTTGCCCTTCTAAAACTTTTT 57.314 34.783 0.00 0.00 0.00 1.94
31 32 5.046231 TGTTGGTTGCCCTTCTAAAACTTTT 60.046 36.000 0.00 0.00 0.00 2.27
32 33 4.468153 TGTTGGTTGCCCTTCTAAAACTTT 59.532 37.500 0.00 0.00 0.00 2.66
33 34 4.027437 TGTTGGTTGCCCTTCTAAAACTT 58.973 39.130 0.00 0.00 0.00 2.66
35 36 4.116961 GTTGTTGGTTGCCCTTCTAAAAC 58.883 43.478 0.00 0.00 0.00 2.43
36 37 3.769844 TGTTGTTGGTTGCCCTTCTAAAA 59.230 39.130 0.00 0.00 0.00 1.52
37 38 3.131400 GTGTTGTTGGTTGCCCTTCTAAA 59.869 43.478 0.00 0.00 0.00 1.85
38 39 2.691011 GTGTTGTTGGTTGCCCTTCTAA 59.309 45.455 0.00 0.00 0.00 2.10
39 40 2.303175 GTGTTGTTGGTTGCCCTTCTA 58.697 47.619 0.00 0.00 0.00 2.10
40 41 1.111277 GTGTTGTTGGTTGCCCTTCT 58.889 50.000 0.00 0.00 0.00 2.85
41 42 0.248866 CGTGTTGTTGGTTGCCCTTC 60.249 55.000 0.00 0.00 0.00 3.46
43 44 1.077357 TCGTGTTGTTGGTTGCCCT 60.077 52.632 0.00 0.00 0.00 5.19
44 45 1.358759 CTCGTGTTGTTGGTTGCCC 59.641 57.895 0.00 0.00 0.00 5.36
46 47 0.179150 TTGCTCGTGTTGTTGGTTGC 60.179 50.000 0.00 0.00 0.00 4.17
47 48 2.270275 TTTGCTCGTGTTGTTGGTTG 57.730 45.000 0.00 0.00 0.00 3.77
50 51 1.403679 TCCTTTTGCTCGTGTTGTTGG 59.596 47.619 0.00 0.00 0.00 3.77
51 52 2.842208 TCCTTTTGCTCGTGTTGTTG 57.158 45.000 0.00 0.00 0.00 3.33
52 53 2.752903 ACTTCCTTTTGCTCGTGTTGTT 59.247 40.909 0.00 0.00 0.00 2.83
56 57 2.639065 TGAACTTCCTTTTGCTCGTGT 58.361 42.857 0.00 0.00 0.00 4.49
57 58 3.181501 TGTTGAACTTCCTTTTGCTCGTG 60.182 43.478 0.00 0.00 0.00 4.35
58 59 3.013921 TGTTGAACTTCCTTTTGCTCGT 58.986 40.909 0.00 0.00 0.00 4.18
60 61 4.743493 TGTTGTTGAACTTCCTTTTGCTC 58.257 39.130 0.00 0.00 32.79 4.26
61 62 4.799564 TGTTGTTGAACTTCCTTTTGCT 57.200 36.364 0.00 0.00 32.79 3.91
62 63 5.108517 TCATGTTGTTGAACTTCCTTTTGC 58.891 37.500 0.00 0.00 32.79 3.68
63 64 5.232838 GCTCATGTTGTTGAACTTCCTTTTG 59.767 40.000 0.00 0.00 32.79 2.44
64 65 5.127682 AGCTCATGTTGTTGAACTTCCTTTT 59.872 36.000 0.00 0.00 32.79 2.27
99 846 7.544217 GCCCGTTTTAACTGATGTTAATGATTT 59.456 33.333 2.79 0.00 44.88 2.17
106 853 3.083293 GGGCCCGTTTTAACTGATGTTA 58.917 45.455 5.69 0.00 37.59 2.41
113 860 0.475044 TGTGAGGGCCCGTTTTAACT 59.525 50.000 18.44 0.00 0.00 2.24
121 870 1.227674 GCTTCTATGTGAGGGCCCG 60.228 63.158 18.44 0.00 0.00 6.13
141 890 3.308401 GGGCCCAAGGATTGTTCAATAT 58.692 45.455 19.95 0.00 46.99 1.28
172 921 0.385751 GAGGATCGCGTGAAGATGGA 59.614 55.000 5.77 0.00 0.00 3.41
173 922 0.103026 TGAGGATCGCGTGAAGATGG 59.897 55.000 5.77 0.00 38.61 3.51
206 955 0.744874 TTCTACTGCCGGATCGAAGG 59.255 55.000 5.05 0.00 0.00 3.46
216 965 2.426842 AAAGGGATGCTTCTACTGCC 57.573 50.000 0.00 0.00 0.00 4.85
218 967 5.755861 GCTTACTAAAGGGATGCTTCTACTG 59.244 44.000 0.00 0.00 32.98 2.74
223 972 5.186198 TCAAGCTTACTAAAGGGATGCTTC 58.814 41.667 0.00 0.00 37.20 3.86
330 1079 7.122055 TGTTTCACAAAATGGAAGTAGACAAGT 59.878 33.333 0.00 0.00 0.00 3.16
331 1080 7.432252 GTGTTTCACAAAATGGAAGTAGACAAG 59.568 37.037 0.00 0.00 34.08 3.16
332 1081 7.094162 TGTGTTTCACAAAATGGAAGTAGACAA 60.094 33.333 0.00 0.00 41.69 3.18
333 1082 6.375736 TGTGTTTCACAAAATGGAAGTAGACA 59.624 34.615 0.00 0.00 41.69 3.41
334 1083 6.791303 TGTGTTTCACAAAATGGAAGTAGAC 58.209 36.000 0.00 0.00 41.69 2.59
335 1084 6.826231 TCTGTGTTTCACAAAATGGAAGTAGA 59.174 34.615 4.21 0.00 44.08 2.59
336 1085 7.026631 TCTGTGTTTCACAAAATGGAAGTAG 57.973 36.000 4.21 0.00 44.08 2.57
337 1086 7.255451 GGATCTGTGTTTCACAAAATGGAAGTA 60.255 37.037 4.21 0.00 44.08 2.24
338 1087 5.913137 TCTGTGTTTCACAAAATGGAAGT 57.087 34.783 4.21 0.00 44.08 3.01
339 1088 5.922544 GGATCTGTGTTTCACAAAATGGAAG 59.077 40.000 4.21 0.00 44.08 3.46
341 1090 4.892345 TGGATCTGTGTTTCACAAAATGGA 59.108 37.500 4.21 0.00 44.08 3.41
342 1091 5.199024 TGGATCTGTGTTTCACAAAATGG 57.801 39.130 4.21 0.00 44.08 3.16
344 1093 7.014518 TGAGATTGGATCTGTGTTTCACAAAAT 59.985 33.333 4.21 1.61 44.08 1.82
348 1097 4.971939 TGAGATTGGATCTGTGTTTCACA 58.028 39.130 2.66 2.66 42.45 3.58
349 1098 5.645067 TCATGAGATTGGATCTGTGTTTCAC 59.355 40.000 0.00 0.00 40.38 3.18
350 1099 5.807909 TCATGAGATTGGATCTGTGTTTCA 58.192 37.500 0.00 0.00 40.38 2.69
398 1147 7.039363 GGAGCTTATGTAGATCTTGTGGAGTAT 60.039 40.741 0.00 0.00 39.29 2.12
403 1365 5.282055 TGGAGCTTATGTAGATCTTGTGG 57.718 43.478 0.00 0.00 39.29 4.17
417 1379 6.772716 GGAGTGAATGGAAATTATGGAGCTTA 59.227 38.462 0.00 0.00 0.00 3.09
1011 2356 1.906333 GGGGTCAAACAACCGGCAT 60.906 57.895 0.00 0.00 40.46 4.40
1017 2362 0.310854 CAAGCGAGGGGTCAAACAAC 59.689 55.000 0.00 0.00 0.00 3.32
1027 2372 1.425428 GCATTCGAACAAGCGAGGG 59.575 57.895 0.00 0.00 41.79 4.30
1101 2446 1.076485 GTACTCCGGGTAGGCCTCA 60.076 63.158 9.68 0.00 40.77 3.86
1191 2536 3.403277 GCACTATGCACAGCTCGG 58.597 61.111 0.00 0.00 44.26 4.63
1239 2619 3.555586 GGAGTCTTAACCGCTGGTTTACA 60.556 47.826 16.22 0.00 44.33 2.41
1277 2657 9.447157 CCTAGCAAATTCAAAATTATCCCAAAA 57.553 29.630 0.00 0.00 0.00 2.44
1278 2658 7.552330 GCCTAGCAAATTCAAAATTATCCCAAA 59.448 33.333 0.00 0.00 0.00 3.28
1279 2659 7.047271 GCCTAGCAAATTCAAAATTATCCCAA 58.953 34.615 0.00 0.00 0.00 4.12
1280 2660 6.383726 AGCCTAGCAAATTCAAAATTATCCCA 59.616 34.615 0.00 0.00 0.00 4.37
1281 2661 6.820335 AGCCTAGCAAATTCAAAATTATCCC 58.180 36.000 0.00 0.00 0.00 3.85
1282 2662 7.225341 CCAAGCCTAGCAAATTCAAAATTATCC 59.775 37.037 0.00 0.00 0.00 2.59
1283 2663 7.225341 CCCAAGCCTAGCAAATTCAAAATTATC 59.775 37.037 0.00 0.00 0.00 1.75
1284 2664 7.049754 CCCAAGCCTAGCAAATTCAAAATTAT 58.950 34.615 0.00 0.00 0.00 1.28
1286 2666 5.247862 CCCAAGCCTAGCAAATTCAAAATT 58.752 37.500 0.00 0.00 0.00 1.82
1287 2667 4.323715 CCCCAAGCCTAGCAAATTCAAAAT 60.324 41.667 0.00 0.00 0.00 1.82
1289 2669 2.566724 CCCCAAGCCTAGCAAATTCAAA 59.433 45.455 0.00 0.00 0.00 2.69
1290 2670 2.178580 CCCCAAGCCTAGCAAATTCAA 58.821 47.619 0.00 0.00 0.00 2.69
1291 2671 1.357420 TCCCCAAGCCTAGCAAATTCA 59.643 47.619 0.00 0.00 0.00 2.57
1292 2672 2.143876 TCCCCAAGCCTAGCAAATTC 57.856 50.000 0.00 0.00 0.00 2.17
1318 2707 3.433274 CGACTCCACGTACAGTACAGTTA 59.567 47.826 11.37 1.05 0.00 2.24
1333 2727 4.819105 ATATTCCTGTTTCACGACTCCA 57.181 40.909 0.00 0.00 0.00 3.86
1339 2733 5.153513 CCACACAAATATTCCTGTTTCACG 58.846 41.667 0.00 0.00 0.00 4.35
1341 2735 6.723298 AACCACACAAATATTCCTGTTTCA 57.277 33.333 0.00 0.00 0.00 2.69
1343 2737 7.287696 AGAGAAACCACACAAATATTCCTGTTT 59.712 33.333 0.00 0.00 0.00 2.83
1345 2739 6.306987 AGAGAAACCACACAAATATTCCTGT 58.693 36.000 0.00 0.00 0.00 4.00
1346 2740 6.656693 AGAGAGAAACCACACAAATATTCCTG 59.343 38.462 0.00 0.00 0.00 3.86
1347 2741 6.784031 AGAGAGAAACCACACAAATATTCCT 58.216 36.000 0.00 0.00 0.00 3.36
1358 2753 3.924114 TGGTCAAAGAGAGAAACCACA 57.076 42.857 0.00 0.00 35.15 4.17
1361 2756 3.057946 GCATGTGGTCAAAGAGAGAAACC 60.058 47.826 0.00 0.00 0.00 3.27
1372 2767 6.382859 TCCTACTCTAATTAGCATGTGGTCAA 59.617 38.462 7.67 0.00 0.00 3.18
1383 2778 9.039870 CAACAGAAATGCTCCTACTCTAATTAG 57.960 37.037 6.11 6.11 0.00 1.73
1617 3013 5.388111 CGGTATCATGCACATCATTCAATC 58.612 41.667 0.00 0.00 31.79 2.67
1822 3218 2.420022 CCTAGGCCATTCGTCAAAACTG 59.580 50.000 5.01 0.00 0.00 3.16
1840 3236 6.717289 ACACTGCTAAACCATAAATGACCTA 58.283 36.000 0.00 0.00 0.00 3.08
1965 3381 3.531934 ATTTAAATGCAGAGCTTGGCC 57.468 42.857 0.00 0.00 0.00 5.36
1980 3396 7.550551 CAGCAACAGAGAGAGTGGATTATTTAA 59.449 37.037 0.00 0.00 0.00 1.52
2448 3876 5.801531 TTCGCTGACTATGTAATATGGGT 57.198 39.130 0.00 0.00 0.00 4.51
2477 3905 8.604890 GCATTCCTGTCTCAAGTAAATAAGTAC 58.395 37.037 0.00 0.00 0.00 2.73
2525 3953 7.309744 CCTTTTGGATAAGCTTCACCAACATAA 60.310 37.037 26.31 19.71 44.07 1.90
2586 4014 1.853963 TCAGCTCCTGGTTCCTCTAC 58.146 55.000 0.00 0.00 31.51 2.59
2638 4066 1.385528 AAAGTTTCGTGGGCTTCGTT 58.614 45.000 2.55 0.00 0.00 3.85
2688 4116 8.828688 ATTTCCTTATAATAACAGCGAGGTAC 57.171 34.615 0.00 0.00 0.00 3.34
2761 4189 1.609072 GGAGGAACTGAAAACAGGCAC 59.391 52.381 0.00 0.00 41.55 5.01
3411 4839 3.995705 CCCACACAAGCAACATATTTTGG 59.004 43.478 3.87 0.00 0.00 3.28
3412 4840 3.432933 GCCCACACAAGCAACATATTTTG 59.567 43.478 0.00 0.00 0.00 2.44
3413 4841 3.663025 GCCCACACAAGCAACATATTTT 58.337 40.909 0.00 0.00 0.00 1.82
3414 4842 2.352617 CGCCCACACAAGCAACATATTT 60.353 45.455 0.00 0.00 0.00 1.40
3415 4843 1.202114 CGCCCACACAAGCAACATATT 59.798 47.619 0.00 0.00 0.00 1.28
3475 6931 3.751175 TGCATCAGAGGTTCTTAAAACGG 59.249 43.478 0.00 0.00 0.00 4.44
3571 7027 7.065085 TCTGCAAAACAAATCCAAAATTCGAAA 59.935 29.630 0.00 0.00 0.00 3.46
3692 7150 2.094545 GGTCCAACTATGCAAGCAAAGG 60.095 50.000 0.00 0.00 0.00 3.11
3884 7343 2.099405 AGGTTTGTGTTGGTCTGTTGG 58.901 47.619 0.00 0.00 0.00 3.77
3885 7344 4.733523 GCTTAGGTTTGTGTTGGTCTGTTG 60.734 45.833 0.00 0.00 0.00 3.33
3886 7345 3.380320 GCTTAGGTTTGTGTTGGTCTGTT 59.620 43.478 0.00 0.00 0.00 3.16
3887 7346 2.949644 GCTTAGGTTTGTGTTGGTCTGT 59.050 45.455 0.00 0.00 0.00 3.41
3888 7347 3.214328 AGCTTAGGTTTGTGTTGGTCTG 58.786 45.455 0.00 0.00 0.00 3.51
3889 7348 3.577805 AGCTTAGGTTTGTGTTGGTCT 57.422 42.857 0.00 0.00 0.00 3.85
3890 7349 4.649088 AAAGCTTAGGTTTGTGTTGGTC 57.351 40.909 8.70 0.00 31.83 4.02
3891 7350 5.508994 GCATAAAGCTTAGGTTTGTGTTGGT 60.509 40.000 25.85 1.71 41.63 3.67
3943 7402 3.073503 TCTGGGAGAGGAAATATGCCATG 59.926 47.826 0.00 0.00 40.17 3.66
4124 7583 1.064463 CAGGCCTGCCCTCTTGAAATA 60.064 52.381 22.33 0.00 44.09 1.40
4146 7605 1.754745 GGAGGACTTCACCACTGCA 59.245 57.895 0.00 0.00 0.00 4.41
4147 7606 1.003233 GGGAGGACTTCACCACTGC 60.003 63.158 0.00 0.00 0.00 4.40
4148 7607 2.452116 TGGGAGGACTTCACCACTG 58.548 57.895 0.00 0.00 0.00 3.66
4151 7610 0.764890 CAAGTGGGAGGACTTCACCA 59.235 55.000 0.00 0.00 33.75 4.17
4152 7611 0.765510 ACAAGTGGGAGGACTTCACC 59.234 55.000 0.00 0.00 33.75 4.02
4190 7649 0.694771 AATGCAGAGAGGCTGGTTCA 59.305 50.000 0.00 0.00 45.03 3.18
4241 7700 0.699231 GTGGGATCTGGGGAGGGATT 60.699 60.000 0.00 0.00 0.00 3.01
4259 7718 1.729586 TAGAAGCTCCCACACAAGGT 58.270 50.000 0.00 0.00 0.00 3.50
4299 7758 4.322953 GGACGGAGGGAGTACACATAAAAA 60.323 45.833 0.00 0.00 0.00 1.94
4300 7759 3.196254 GGACGGAGGGAGTACACATAAAA 59.804 47.826 0.00 0.00 0.00 1.52
4405 7864 6.482835 TCGTATTATGTGTATTTGCTGTTGC 58.517 36.000 0.00 0.00 40.20 4.17
4562 8026 8.129496 TGAATGACACAAAGATACTACTACCA 57.871 34.615 0.00 0.00 0.00 3.25
4615 8079 1.882912 TACTCAAGGCAGCACAACAG 58.117 50.000 0.00 0.00 0.00 3.16
4642 8106 3.807209 GCGGCACCATGACTAAATATCCT 60.807 47.826 0.00 0.00 0.00 3.24
4725 8192 7.891183 ATAATATAACGTCAGAGGCATGTTC 57.109 36.000 0.00 0.00 0.00 3.18
4739 8206 9.525007 GGCGACTGAAACATAAATAATATAACG 57.475 33.333 0.00 0.00 0.00 3.18
4782 8249 1.258982 CCGAATGATGTTAGCGACTGC 59.741 52.381 0.00 0.00 43.24 4.40
4814 8281 6.531503 ACCTCGAGAGATGAAAAATACTCA 57.468 37.500 15.71 0.00 40.84 3.41
4897 8364 3.402110 TCCTGTGTGCAGAAATGTGTAG 58.598 45.455 0.00 0.00 45.28 2.74
4940 8407 0.867086 GGCGTACCTTAAACGTTGCA 59.133 50.000 0.00 0.00 42.26 4.08
5013 8480 4.439289 GGGACATGAAAAGATAACTGCAGC 60.439 45.833 15.27 0.00 0.00 5.25
5049 8516 1.400142 CCTGTGCACGAGACAAAACAA 59.600 47.619 13.13 0.00 0.00 2.83
5089 8556 0.251033 GGAAAAGGGTGCGGGTAACT 60.251 55.000 0.00 0.00 0.00 2.24
5350 8817 8.929260 AATCTGAATGAACATATATTCTGGCA 57.071 30.769 0.00 0.00 35.02 4.92
5434 8906 1.928868 ATCTCAAAAGGCACAAGGGG 58.071 50.000 0.00 0.00 0.00 4.79
5562 9055 2.164219 GCACCACCAAACATACCATGAG 59.836 50.000 0.00 0.00 0.00 2.90
5604 9507 7.004555 TGACTGAAATTTAGGCTAGACAGAA 57.995 36.000 0.00 0.00 0.00 3.02
5673 9577 5.866633 GTGTTCACTCCAGTTCTCTCTTATG 59.133 44.000 0.00 0.00 0.00 1.90
5713 9621 2.078392 GTTTTGATGCATGCCCTTTGG 58.922 47.619 16.68 0.00 0.00 3.28
5718 9626 1.067635 ACTTCGTTTTGATGCATGCCC 60.068 47.619 16.68 7.77 0.00 5.36
5720 9628 2.253603 GGACTTCGTTTTGATGCATGC 58.746 47.619 11.82 11.82 0.00 4.06
5724 9652 6.037610 AGAGAATATGGACTTCGTTTTGATGC 59.962 38.462 0.00 0.00 0.00 3.91
5752 9680 5.287992 GTGTCTACGCTGTACTTGGTATTTC 59.712 44.000 0.00 0.00 0.00 2.17
5759 9687 2.325761 GGTGTGTCTACGCTGTACTTG 58.674 52.381 0.00 0.00 37.47 3.16
5762 9690 0.518636 TCGGTGTGTCTACGCTGTAC 59.481 55.000 0.00 0.00 42.85 2.90
5767 9699 0.595567 TGTTGTCGGTGTGTCTACGC 60.596 55.000 0.00 0.00 36.58 4.42
5780 9722 4.035017 CCAATGAGAACGTTTGTGTTGTC 58.965 43.478 0.46 0.00 41.20 3.18
5783 9725 3.945285 ACTCCAATGAGAACGTTTGTGTT 59.055 39.130 0.46 0.00 41.42 3.32
5788 9730 6.540914 TCTTTGTAACTCCAATGAGAACGTTT 59.459 34.615 0.46 0.00 41.42 3.60
5825 9785 4.235939 TGTTTCCATCGACAAACAATGG 57.764 40.909 13.89 4.93 39.10 3.16
5841 9815 4.037923 TCTTTCAGTGGAAGGCAATGTTTC 59.962 41.667 11.39 0.00 33.82 2.78
5848 9822 4.949856 GGATTATTCTTTCAGTGGAAGGCA 59.050 41.667 11.39 0.00 33.82 4.75
5878 9853 8.727100 AATACTAGGTTGGACATCATCTATGA 57.273 34.615 0.00 0.00 41.70 2.15
5906 9881 0.475906 AGCCATAGCCCATCAGGAAC 59.524 55.000 0.00 0.00 41.25 3.62
5914 9889 1.340600 GGTTGTTGTAGCCATAGCCCA 60.341 52.381 0.00 0.00 41.25 5.36
5924 9900 4.072131 ACATGTTAGCAGGGTTGTTGTAG 58.928 43.478 0.00 0.00 0.00 2.74
5999 10013 6.974965 AGTTCAAAGTTTCAGATCATTGACC 58.025 36.000 0.00 0.00 0.00 4.02
6073 10106 3.128349 TCACGCTCTTCGCTTAGTTTTT 58.872 40.909 0.00 0.00 43.23 1.94
6074 10107 2.750948 TCACGCTCTTCGCTTAGTTTT 58.249 42.857 0.00 0.00 43.23 2.43
6077 10110 1.472878 TGATCACGCTCTTCGCTTAGT 59.527 47.619 0.00 0.00 43.23 2.24
6079 10112 2.647529 TTGATCACGCTCTTCGCTTA 57.352 45.000 0.00 0.00 43.23 3.09
6081 10114 2.015736 AATTGATCACGCTCTTCGCT 57.984 45.000 0.00 0.00 43.23 4.93
6082 10115 3.925688 TTAATTGATCACGCTCTTCGC 57.074 42.857 0.00 0.00 43.23 4.70
6083 10116 6.019075 TGGTAATTAATTGATCACGCTCTTCG 60.019 38.462 11.05 0.00 45.38 3.79
6133 10181 2.583593 GTTAGGAGGCTCGCGCAG 60.584 66.667 8.75 5.26 38.10 5.18


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

AutoCloner maintained by Alex Coulton.