Multiple sequence alignment - TraesCS1D01G297400

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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 TraesCS1D01G297400 chr1D 100.000 3393 0 0 1 3393 395876000 395879392 0.000000e+00 6266.0
1 TraesCS1D01G297400 chr1D 83.073 703 90 11 1368 2069 395627861 395628535 2.240000e-171 612.0
2 TraesCS1D01G297400 chr1D 77.320 582 64 26 2335 2897 395715112 395715644 7.170000e-72 281.0
3 TraesCS1D01G297400 chr1A 93.492 2474 105 30 942 3393 490018611 490021050 0.000000e+00 3626.0
4 TraesCS1D01G297400 chr1A 93.289 2280 102 26 1124 3393 490108869 490111107 0.000000e+00 3315.0
5 TraesCS1D01G297400 chr1A 81.000 700 104 11 1371 2069 489921871 489922542 2.320000e-146 529.0
6 TraesCS1D01G297400 chr1A 90.523 306 25 4 300 601 490017988 490018293 5.270000e-108 401.0
7 TraesCS1D01G297400 chr1A 95.671 231 4 2 702 932 490018337 490018561 1.920000e-97 366.0
8 TraesCS1D01G297400 chr1A 78.731 583 92 21 1394 1969 489236521 489237078 8.950000e-96 361.0
9 TraesCS1D01G297400 chr1A 80.244 491 79 12 1389 1879 489178897 489179369 1.500000e-93 353.0
10 TraesCS1D01G297400 chr1A 90.043 231 3 9 702 932 490108657 490108867 7.170000e-72 281.0
11 TraesCS1D01G297400 chr1A 77.604 192 40 2 987 1178 489921544 489921732 2.770000e-21 113.0
12 TraesCS1D01G297400 chr1A 77.604 192 40 2 987 1178 490087109 490087297 2.770000e-21 113.0
13 TraesCS1D01G297400 chr1B 91.459 1768 88 32 778 2507 526428127 526429869 0.000000e+00 2370.0
14 TraesCS1D01G297400 chr1B 82.454 701 92 15 1371 2069 526378276 526378947 4.880000e-163 584.0
15 TraesCS1D01G297400 chr1B 78.840 586 89 21 1394 1969 525894622 525895182 2.490000e-96 363.0
16 TraesCS1D01G297400 chr1B 87.838 222 17 6 1 222 526427303 526427514 5.620000e-63 252.0
17 TraesCS1D01G297400 chr1B 75.375 333 63 11 987 1314 526377949 526378267 3.530000e-30 143.0
18 TraesCS1D01G297400 chr1B 91.228 57 3 2 648 703 524160482 524160537 3.630000e-10 76.8
19 TraesCS1D01G297400 chr3D 88.542 96 10 1 609 703 578210991 578211086 7.690000e-22 115.0
20 TraesCS1D01G297400 chr3D 91.045 67 4 2 212 277 294841752 294841687 4.660000e-14 89.8
21 TraesCS1D01G297400 chr3D 91.379 58 3 2 651 707 16318118 16318062 1.010000e-10 78.7
22 TraesCS1D01G297400 chr4A 87.629 97 10 2 609 704 507475968 507475873 9.950000e-21 111.0
23 TraesCS1D01G297400 chr4A 92.982 57 2 2 648 703 679672721 679672776 7.800000e-12 82.4
24 TraesCS1D01G297400 chr4B 86.000 100 11 3 607 704 654749901 654749999 1.670000e-18 104.0
25 TraesCS1D01G297400 chr2A 87.805 82 9 1 609 690 174455159 174455079 1.000000e-15 95.3
26 TraesCS1D01G297400 chr2A 91.228 57 5 0 326 382 535153534 535153478 1.010000e-10 78.7
27 TraesCS1D01G297400 chr7A 96.429 56 2 0 219 274 509393687 509393742 3.600000e-15 93.5
28 TraesCS1D01G297400 chr7A 90.909 66 5 1 209 274 320818571 320818635 1.680000e-13 87.9
29 TraesCS1D01G297400 chr6D 93.651 63 2 2 213 274 160229424 160229485 3.600000e-15 93.5
30 TraesCS1D01G297400 chr6D 92.188 64 4 1 211 274 357008512 357008574 4.660000e-14 89.8
31 TraesCS1D01G297400 chr4D 94.828 58 3 0 217 274 404392673 404392730 1.300000e-14 91.6
32 TraesCS1D01G297400 chr2B 92.188 64 5 0 214 277 705206469 705206406 1.300000e-14 91.6
33 TraesCS1D01G297400 chr7B 89.189 74 4 4 205 277 370676791 370676721 4.660000e-14 89.8
34 TraesCS1D01G297400 chr2D 90.769 65 6 0 210 274 595752332 595752396 1.680000e-13 87.9
35 TraesCS1D01G297400 chr3A 90.323 62 4 2 647 707 495257232 495257172 2.810000e-11 80.5
36 TraesCS1D01G297400 chr6B 92.727 55 2 2 651 704 44827240 44827187 1.010000e-10 78.7
37 TraesCS1D01G297400 chr3B 95.122 41 1 1 609 649 814578021 814578060 2.830000e-06 63.9


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 TraesCS1D01G297400 chr1D 395876000 395879392 3392 False 6266.000000 6266 100.000000 1 3393 1 chr1D.!!$F3 3392
1 TraesCS1D01G297400 chr1D 395627861 395628535 674 False 612.000000 612 83.073000 1368 2069 1 chr1D.!!$F1 701
2 TraesCS1D01G297400 chr1D 395715112 395715644 532 False 281.000000 281 77.320000 2335 2897 1 chr1D.!!$F2 562
3 TraesCS1D01G297400 chr1A 490108657 490111107 2450 False 1798.000000 3315 91.666000 702 3393 2 chr1A.!!$F6 2691
4 TraesCS1D01G297400 chr1A 490017988 490021050 3062 False 1464.333333 3626 93.228667 300 3393 3 chr1A.!!$F5 3093
5 TraesCS1D01G297400 chr1A 489236521 489237078 557 False 361.000000 361 78.731000 1394 1969 1 chr1A.!!$F2 575
6 TraesCS1D01G297400 chr1A 489921544 489922542 998 False 321.000000 529 79.302000 987 2069 2 chr1A.!!$F4 1082
7 TraesCS1D01G297400 chr1B 526427303 526429869 2566 False 1311.000000 2370 89.648500 1 2507 2 chr1B.!!$F4 2506
8 TraesCS1D01G297400 chr1B 526377949 526378947 998 False 363.500000 584 78.914500 987 2069 2 chr1B.!!$F3 1082
9 TraesCS1D01G297400 chr1B 525894622 525895182 560 False 363.000000 363 78.840000 1394 1969 1 chr1B.!!$F2 575

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
203 204 0.104304 AAGACGCGTGTATCCATCCC 59.896 55.0 20.70 0.0 0.00 3.85 F
273 274 0.179163 GTCCGCTTTGCTTATGCCAC 60.179 55.0 0.00 0.0 38.71 5.01 F
2102 2389 0.038166 TTGGACATGCTTGGGAGGAC 59.962 55.0 4.44 0.0 0.00 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1891 2169 0.107508 CTGATGTGCAAGGGGTCGAT 60.108 55.000 0.0 0.0 0.00 3.59 R
2172 2459 1.000607 CTTGACCAGAGAAACGACGGA 60.001 52.381 0.0 0.0 0.00 4.69 R
3195 3520 1.003476 TCTTGGCAGCGAGATTGCA 60.003 52.632 0.0 0.0 43.28 4.08 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
26 27 3.118738 AGGCTCGAAAACGAATATGGAGT 60.119 43.478 0.00 0.00 0.00 3.85
29 30 2.933906 TCGAAAACGAATATGGAGTGCC 59.066 45.455 0.00 0.00 0.00 5.01
31 32 3.279434 GAAAACGAATATGGAGTGCCCT 58.721 45.455 0.00 0.00 35.38 5.19
34 35 2.958818 ACGAATATGGAGTGCCCTCTA 58.041 47.619 0.00 0.00 37.86 2.43
73 74 4.375272 AGCGGTATATATGATGCATCTGC 58.625 43.478 26.32 14.72 42.50 4.26
76 77 5.403766 GCGGTATATATGATGCATCTGCTAC 59.596 44.000 26.32 18.13 42.66 3.58
77 78 6.737070 GCGGTATATATGATGCATCTGCTACT 60.737 42.308 26.32 10.14 42.66 2.57
78 79 6.640092 CGGTATATATGATGCATCTGCTACTG 59.360 42.308 26.32 18.85 42.66 2.74
79 80 6.423302 GGTATATATGATGCATCTGCTACTGC 59.577 42.308 26.32 10.71 42.66 4.40
80 81 2.932855 ATGATGCATCTGCTACTGCT 57.067 45.000 26.32 0.00 42.66 4.24
81 82 5.672421 ATATGATGCATCTGCTACTGCTA 57.328 39.130 26.32 3.41 42.66 3.49
82 83 3.382048 TGATGCATCTGCTACTGCTAG 57.618 47.619 26.32 0.00 42.66 3.42
83 84 2.961062 TGATGCATCTGCTACTGCTAGA 59.039 45.455 26.32 0.00 42.66 2.43
84 85 3.577415 TGATGCATCTGCTACTGCTAGAT 59.423 43.478 26.32 0.00 42.66 1.98
85 86 4.040095 TGATGCATCTGCTACTGCTAGATT 59.960 41.667 26.32 0.00 42.66 2.40
86 87 5.244626 TGATGCATCTGCTACTGCTAGATTA 59.755 40.000 26.32 0.00 42.66 1.75
182 183 1.266446 CAACACGAATCATGCCACACA 59.734 47.619 0.00 0.00 0.00 3.72
197 198 1.124297 CACACACAAGACGCGTGTATC 59.876 52.381 20.70 0.63 45.63 2.24
200 201 1.067142 ACACAAGACGCGTGTATCCAT 60.067 47.619 20.70 0.00 45.55 3.41
203 204 0.104304 AAGACGCGTGTATCCATCCC 59.896 55.000 20.70 0.00 0.00 3.85
204 205 1.300697 GACGCGTGTATCCATCCCC 60.301 63.158 20.70 0.00 0.00 4.81
222 223 5.116084 TCCCCTAGTCCATTTGAATCTTG 57.884 43.478 0.00 0.00 0.00 3.02
223 224 4.079787 TCCCCTAGTCCATTTGAATCTTGG 60.080 45.833 0.00 0.00 0.00 3.61
224 225 4.210331 CCCTAGTCCATTTGAATCTTGGG 58.790 47.826 0.00 0.00 35.63 4.12
225 226 4.079787 CCCTAGTCCATTTGAATCTTGGGA 60.080 45.833 0.00 0.00 41.33 4.37
226 227 5.509498 CCTAGTCCATTTGAATCTTGGGAA 58.491 41.667 0.00 0.00 0.00 3.97
227 228 5.951747 CCTAGTCCATTTGAATCTTGGGAAA 59.048 40.000 0.00 0.00 0.00 3.13
228 229 6.437162 CCTAGTCCATTTGAATCTTGGGAAAA 59.563 38.462 0.00 0.00 0.00 2.29
229 230 6.101650 AGTCCATTTGAATCTTGGGAAAAC 57.898 37.500 0.00 0.00 0.00 2.43
231 232 6.327365 AGTCCATTTGAATCTTGGGAAAACTT 59.673 34.615 0.00 0.00 0.00 2.66
233 234 6.991531 TCCATTTGAATCTTGGGAAAACTTTG 59.008 34.615 0.00 0.00 0.00 2.77
234 235 6.767423 CCATTTGAATCTTGGGAAAACTTTGT 59.233 34.615 0.00 0.00 0.00 2.83
236 237 8.676401 CATTTGAATCTTGGGAAAACTTTGTTT 58.324 29.630 0.00 0.00 0.00 2.83
237 238 8.628630 TTTGAATCTTGGGAAAACTTTGTTTT 57.371 26.923 7.97 7.97 0.00 2.43
238 239 8.628630 TTGAATCTTGGGAAAACTTTGTTTTT 57.371 26.923 9.36 0.00 0.00 1.94
239 240 8.038492 TGAATCTTGGGAAAACTTTGTTTTTG 57.962 30.769 9.36 0.98 0.00 2.44
240 241 5.871465 TCTTGGGAAAACTTTGTTTTTGC 57.129 34.783 9.36 0.00 36.39 3.68
245 246 5.216566 GGAAAACTTTGTTTTTGCCACTC 57.783 39.130 9.36 0.00 32.30 3.51
246 247 4.935205 GGAAAACTTTGTTTTTGCCACTCT 59.065 37.500 9.36 0.00 32.30 3.24
247 248 6.103330 GGAAAACTTTGTTTTTGCCACTCTA 58.897 36.000 9.36 0.00 32.30 2.43
248 249 6.255670 GGAAAACTTTGTTTTTGCCACTCTAG 59.744 38.462 9.36 0.00 32.30 2.43
249 250 4.307443 ACTTTGTTTTTGCCACTCTAGC 57.693 40.909 0.00 0.00 0.00 3.42
250 251 3.954258 ACTTTGTTTTTGCCACTCTAGCT 59.046 39.130 0.00 0.00 0.00 3.32
251 252 4.402474 ACTTTGTTTTTGCCACTCTAGCTT 59.598 37.500 0.00 0.00 0.00 3.74
252 253 5.105351 ACTTTGTTTTTGCCACTCTAGCTTT 60.105 36.000 0.00 0.00 0.00 3.51
253 254 5.337578 TTGTTTTTGCCACTCTAGCTTTT 57.662 34.783 0.00 0.00 0.00 2.27
254 255 4.681744 TGTTTTTGCCACTCTAGCTTTTG 58.318 39.130 0.00 0.00 0.00 2.44
255 256 4.159506 TGTTTTTGCCACTCTAGCTTTTGT 59.840 37.500 0.00 0.00 0.00 2.83
256 257 4.568152 TTTTGCCACTCTAGCTTTTGTC 57.432 40.909 0.00 0.00 0.00 3.18
258 259 1.079503 GCCACTCTAGCTTTTGTCCG 58.920 55.000 0.00 0.00 0.00 4.79
260 261 1.338200 CCACTCTAGCTTTTGTCCGCT 60.338 52.381 0.00 0.00 40.15 5.52
261 262 2.417719 CACTCTAGCTTTTGTCCGCTT 58.582 47.619 0.00 0.00 37.68 4.68
262 263 2.808543 CACTCTAGCTTTTGTCCGCTTT 59.191 45.455 0.00 0.00 37.68 3.51
263 264 2.808543 ACTCTAGCTTTTGTCCGCTTTG 59.191 45.455 0.00 0.00 37.68 2.77
264 265 1.535462 TCTAGCTTTTGTCCGCTTTGC 59.465 47.619 0.00 0.00 37.68 3.68
266 267 0.746659 AGCTTTTGTCCGCTTTGCTT 59.253 45.000 0.00 0.00 31.17 3.91
267 268 1.953686 AGCTTTTGTCCGCTTTGCTTA 59.046 42.857 0.00 0.00 31.17 3.09
268 269 2.558359 AGCTTTTGTCCGCTTTGCTTAT 59.442 40.909 0.00 0.00 31.17 1.73
271 272 0.525761 TTGTCCGCTTTGCTTATGCC 59.474 50.000 0.00 0.00 38.71 4.40
272 273 0.607762 TGTCCGCTTTGCTTATGCCA 60.608 50.000 0.00 0.00 38.71 4.92
273 274 0.179163 GTCCGCTTTGCTTATGCCAC 60.179 55.000 0.00 0.00 38.71 5.01
274 275 0.607762 TCCGCTTTGCTTATGCCACA 60.608 50.000 0.00 0.00 38.71 4.17
275 276 0.456653 CCGCTTTGCTTATGCCACAC 60.457 55.000 0.00 0.00 38.71 3.82
276 277 0.523072 CGCTTTGCTTATGCCACACT 59.477 50.000 0.00 0.00 38.71 3.55
280 281 3.809279 GCTTTGCTTATGCCACACTTTTT 59.191 39.130 0.00 0.00 38.71 1.94
298 299 2.285827 TTTTTGGTTGGCACGTTGAG 57.714 45.000 0.00 0.00 0.00 3.02
314 441 7.148474 GGCACGTTGAGACTTATCAAAAGATAA 60.148 37.037 0.00 0.00 40.72 1.75
323 450 9.896645 AGACTTATCAAAAGATAATCAAGAGCA 57.103 29.630 0.00 0.00 0.00 4.26
329 456 8.627208 TCAAAAGATAATCAAGAGCAGTCTTT 57.373 30.769 0.00 0.00 41.40 2.52
357 484 1.305930 GCATCGTCCCAAGGAACACC 61.306 60.000 0.00 0.00 31.38 4.16
496 696 1.701847 AGCCCACTTGAATGTCTCAGT 59.298 47.619 0.00 0.00 34.81 3.41
518 718 5.014544 AGTCCCTTCTCCTCAATTTGAATCA 59.985 40.000 0.01 0.00 0.00 2.57
556 756 1.360551 CTCGACGAGATGGGCGATT 59.639 57.895 20.25 0.00 31.87 3.34
601 802 6.318396 GTCTAGGTGTAGGAGTACCAAACTAG 59.682 46.154 0.00 0.00 39.07 2.57
604 805 4.768968 GGTGTAGGAGTACCAAACTAGTCA 59.231 45.833 0.00 0.00 39.07 3.41
605 806 5.105837 GGTGTAGGAGTACCAAACTAGTCAG 60.106 48.000 0.00 0.00 39.07 3.51
606 807 4.461781 TGTAGGAGTACCAAACTAGTCAGC 59.538 45.833 0.00 0.00 39.07 4.26
608 809 2.565834 GGAGTACCAAACTAGTCAGCCA 59.434 50.000 0.00 0.00 39.07 4.75
609 810 3.586892 GAGTACCAAACTAGTCAGCCAC 58.413 50.000 0.00 0.00 39.07 5.01
610 811 3.240302 AGTACCAAACTAGTCAGCCACT 58.760 45.455 0.00 0.00 36.36 4.00
611 812 2.841442 ACCAAACTAGTCAGCCACTC 57.159 50.000 0.00 0.00 36.43 3.51
621 822 0.543410 TCAGCCACTCCCTCCGTTTA 60.543 55.000 0.00 0.00 0.00 2.01
628 829 4.095932 GCCACTCCCTCCGTTTAAAAATAG 59.904 45.833 0.00 0.00 0.00 1.73
634 835 6.117488 TCCCTCCGTTTAAAAATAGATGACC 58.883 40.000 0.00 0.00 0.00 4.02
635 836 5.298527 CCCTCCGTTTAAAAATAGATGACCC 59.701 44.000 0.00 0.00 0.00 4.46
638 839 7.148355 TCCGTTTAAAAATAGATGACCCAAC 57.852 36.000 0.00 0.00 0.00 3.77
693 894 8.070171 ACAAAGTTGAGTCATCTATTTTGAACG 58.930 33.333 15.99 0.00 38.91 3.95
694 895 6.727824 AGTTGAGTCATCTATTTTGAACGG 57.272 37.500 1.70 0.00 0.00 4.44
695 896 5.122396 AGTTGAGTCATCTATTTTGAACGGC 59.878 40.000 1.70 0.00 0.00 5.68
696 897 3.616821 TGAGTCATCTATTTTGAACGGCG 59.383 43.478 4.80 4.80 0.00 6.46
697 898 2.936498 AGTCATCTATTTTGAACGGCGG 59.064 45.455 13.24 0.00 0.00 6.13
698 899 2.031683 GTCATCTATTTTGAACGGCGGG 59.968 50.000 13.24 0.00 0.00 6.13
699 900 2.093394 TCATCTATTTTGAACGGCGGGA 60.093 45.455 13.24 0.00 0.00 5.14
700 901 2.018542 TCTATTTTGAACGGCGGGAG 57.981 50.000 13.24 0.00 0.00 4.30
787 988 3.932710 TCGTTCAACTATCACAATGAGCC 59.067 43.478 0.00 0.00 0.00 4.70
841 1048 1.668826 AGTTGGGCAGTTGGGATAGA 58.331 50.000 0.00 0.00 0.00 1.98
842 1049 1.282157 AGTTGGGCAGTTGGGATAGAC 59.718 52.381 0.00 0.00 0.00 2.59
843 1050 1.004277 GTTGGGCAGTTGGGATAGACA 59.996 52.381 0.00 0.00 0.00 3.41
844 1051 1.595311 TGGGCAGTTGGGATAGACAT 58.405 50.000 0.00 0.00 0.00 3.06
845 1052 2.770447 TGGGCAGTTGGGATAGACATA 58.230 47.619 0.00 0.00 0.00 2.29
846 1053 2.705658 TGGGCAGTTGGGATAGACATAG 59.294 50.000 0.00 0.00 0.00 2.23
847 1054 2.972713 GGGCAGTTGGGATAGACATAGA 59.027 50.000 0.00 0.00 0.00 1.98
944 1208 3.382832 CTCGTGAACCCGCCTCCT 61.383 66.667 0.00 0.00 0.00 3.69
957 1221 1.227823 CCTCCTCGGTTGCACACAA 60.228 57.895 0.00 0.00 0.00 3.33
958 1222 1.230635 CCTCCTCGGTTGCACACAAG 61.231 60.000 0.00 0.00 36.16 3.16
985 1254 1.900981 CACACCACCAAATCGGCCA 60.901 57.895 2.24 0.00 39.03 5.36
1471 1749 1.542915 CGGAGAGGACCTTGTCGTTTA 59.457 52.381 0.00 0.00 32.65 2.01
1757 2035 2.049433 CGTCGACCCTTTCAGCGT 60.049 61.111 10.58 0.00 0.00 5.07
1902 2189 2.107141 GCCGAGATCGACCCCTTG 59.893 66.667 3.31 0.00 43.02 3.61
2097 2384 1.270550 GTCAGTTTGGACATGCTTGGG 59.729 52.381 4.44 0.00 37.73 4.12
2099 2386 1.542915 CAGTTTGGACATGCTTGGGAG 59.457 52.381 4.44 0.00 0.00 4.30
2102 2389 0.038166 TTGGACATGCTTGGGAGGAC 59.962 55.000 4.44 0.00 0.00 3.85
2106 2393 0.620556 ACATGCTTGGGAGGACGATT 59.379 50.000 4.44 0.00 0.00 3.34
2108 2395 2.213499 CATGCTTGGGAGGACGATTAC 58.787 52.381 0.00 0.00 0.00 1.89
2109 2396 1.568504 TGCTTGGGAGGACGATTACT 58.431 50.000 0.00 0.00 0.00 2.24
2110 2397 2.742348 TGCTTGGGAGGACGATTACTA 58.258 47.619 0.00 0.00 0.00 1.82
2123 2410 5.800941 GGACGATTACTAAGAGTTCTGTGTG 59.199 44.000 0.00 0.00 0.00 3.82
2124 2411 5.162075 ACGATTACTAAGAGTTCTGTGTGC 58.838 41.667 0.00 0.00 0.00 4.57
2125 2412 5.161358 CGATTACTAAGAGTTCTGTGTGCA 58.839 41.667 0.00 0.00 0.00 4.57
2140 2427 1.202794 TGTGCACTGATGAAAGCCAGA 60.203 47.619 19.41 0.00 34.65 3.86
2153 2440 4.208632 CCAGATGGCGTCAGGTTC 57.791 61.111 9.78 0.00 0.00 3.62
2154 2441 1.296392 CCAGATGGCGTCAGGTTCA 59.704 57.895 9.78 0.00 0.00 3.18
2160 2447 3.389329 AGATGGCGTCAGGTTCATATCTT 59.611 43.478 9.78 0.00 0.00 2.40
2172 2459 4.641989 GGTTCATATCTTCCATGTGTGCTT 59.358 41.667 0.00 0.00 0.00 3.91
2190 2477 1.000607 CTTCCGTCGTTTCTCTGGTCA 60.001 52.381 0.00 0.00 0.00 4.02
2193 2480 1.269621 CCGTCGTTTCTCTGGTCAAGT 60.270 52.381 0.00 0.00 0.00 3.16
2196 2483 1.000607 TCGTTTCTCTGGTCAAGTCCG 60.001 52.381 0.00 0.00 0.00 4.79
2242 2530 5.490139 ACTGTTGTACATAGATGCATTGC 57.510 39.130 0.00 0.46 0.00 3.56
2244 2532 5.065602 ACTGTTGTACATAGATGCATTGCAG 59.934 40.000 17.52 5.42 43.65 4.41
2247 2535 6.037062 TGTTGTACATAGATGCATTGCAGTAC 59.963 38.462 21.86 21.86 43.65 2.73
2248 2536 5.056480 TGTACATAGATGCATTGCAGTACC 58.944 41.667 23.97 12.54 43.65 3.34
2249 2537 3.133691 ACATAGATGCATTGCAGTACCG 58.866 45.455 17.52 7.88 43.65 4.02
2250 2538 2.979814 TAGATGCATTGCAGTACCGT 57.020 45.000 17.52 0.00 43.65 4.83
2251 2539 2.979814 AGATGCATTGCAGTACCGTA 57.020 45.000 17.52 0.00 43.65 4.02
2252 2540 2.550978 AGATGCATTGCAGTACCGTAC 58.449 47.619 17.52 0.00 43.65 3.67
2254 2542 2.171341 TGCATTGCAGTACCGTACAA 57.829 45.000 7.38 0.00 33.32 2.41
2257 2545 2.482721 GCATTGCAGTACCGTACAAGTT 59.517 45.455 11.26 0.00 0.00 2.66
2258 2546 3.680937 GCATTGCAGTACCGTACAAGTTA 59.319 43.478 11.26 0.00 0.00 2.24
2259 2547 4.201685 GCATTGCAGTACCGTACAAGTTAG 60.202 45.833 11.26 0.00 0.00 2.34
2264 2563 5.106555 TGCAGTACCGTACAAGTTAGTAGTC 60.107 44.000 11.26 0.00 0.00 2.59
2280 2579 8.867097 AGTTAGTAGTCATGTTCCAAGTTCTTA 58.133 33.333 0.00 0.00 0.00 2.10
2320 2619 6.588719 ACTTTATATGCAGGCAAGAACAAA 57.411 33.333 0.00 0.00 0.00 2.83
2343 2642 2.500509 TTGGACATGGCGAAAAACAC 57.499 45.000 0.00 0.00 0.00 3.32
2657 2979 6.478344 TCGTCGTTTTAAAGTTAGCCTGTAAA 59.522 34.615 0.00 0.00 32.14 2.01
2669 2991 8.473358 AGTTAGCCTGTAAATTGGTTAAGTTT 57.527 30.769 0.00 0.00 31.58 2.66
2674 2996 7.870954 AGCCTGTAAATTGGTTAAGTTTTAAGC 59.129 33.333 4.33 4.33 0.00 3.09
2875 3200 9.134055 ACCCTTCATCTAGTAGTATAGTGTTTC 57.866 37.037 0.00 0.00 0.00 2.78
2897 3222 7.914427 TTCCTGAACTAGCTTCCATTATCTA 57.086 36.000 0.00 0.00 0.00 1.98
2945 3270 5.801350 GCACTAGCTGTCATGATTAACAA 57.199 39.130 0.00 0.00 37.91 2.83
2946 3271 6.369059 GCACTAGCTGTCATGATTAACAAT 57.631 37.500 0.00 0.00 37.91 2.71
2947 3272 6.789262 GCACTAGCTGTCATGATTAACAATT 58.211 36.000 0.00 0.00 37.91 2.32
2948 3273 7.253422 GCACTAGCTGTCATGATTAACAATTT 58.747 34.615 0.00 0.00 37.91 1.82
2983 3308 9.593134 AAGTTCAGAACTATATGTCTCATGAAC 57.407 33.333 16.46 6.20 41.91 3.18
2984 3309 8.976353 AGTTCAGAACTATATGTCTCATGAACT 58.024 33.333 14.58 10.13 45.62 3.01
2987 3312 9.634021 TCAGAACTATATGTCTCATGAACTAGT 57.366 33.333 0.00 0.00 0.00 2.57
3290 3616 7.178274 TGGTGCATTATCTTTACATGTCCTTTT 59.822 33.333 0.00 0.00 0.00 2.27
3382 3708 2.558359 GGAGATGTTTGGGTTTGTGGAG 59.442 50.000 0.00 0.00 0.00 3.86
3385 3711 3.139397 AGATGTTTGGGTTTGTGGAGGTA 59.861 43.478 0.00 0.00 0.00 3.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 2.031683 GGGCACTCCATATTCGTTTTCG 59.968 50.000 0.00 0.00 39.05 3.46
40 41 7.619964 TCATATATACCGCTATCGACAAAGA 57.380 36.000 0.00 0.00 38.10 2.52
41 42 7.096436 GCATCATATATACCGCTATCGACAAAG 60.096 40.741 0.00 0.00 38.10 2.77
53 54 6.640092 CAGTAGCAGATGCATCATATATACCG 59.360 42.308 27.81 11.50 45.16 4.02
104 105 9.309516 CATTAATATAGCCGTCGGTATAACATT 57.690 33.333 13.94 11.74 38.19 2.71
115 116 9.027129 TCGCATAATAACATTAATATAGCCGTC 57.973 33.333 0.00 0.00 0.00 4.79
144 145 5.561919 CGTGTTGTTAATAGCACATGTGGTT 60.562 40.000 33.18 19.94 41.96 3.67
197 198 3.951563 TTCAAATGGACTAGGGGATGG 57.048 47.619 0.00 0.00 0.00 3.51
200 201 4.079787 CCAAGATTCAAATGGACTAGGGGA 60.080 45.833 0.00 0.00 36.27 4.81
203 204 5.116084 TCCCAAGATTCAAATGGACTAGG 57.884 43.478 0.00 0.00 36.27 3.02
204 205 7.177392 AGTTTTCCCAAGATTCAAATGGACTAG 59.823 37.037 5.11 0.00 36.27 2.57
222 223 4.006989 AGTGGCAAAAACAAAGTTTTCCC 58.993 39.130 8.16 11.39 0.00 3.97
223 224 4.935205 AGAGTGGCAAAAACAAAGTTTTCC 59.065 37.500 8.16 7.10 0.00 3.13
224 225 6.237835 GCTAGAGTGGCAAAAACAAAGTTTTC 60.238 38.462 8.16 0.00 0.00 2.29
225 226 5.580691 GCTAGAGTGGCAAAAACAAAGTTTT 59.419 36.000 0.00 2.26 0.00 2.43
226 227 5.105351 AGCTAGAGTGGCAAAAACAAAGTTT 60.105 36.000 0.00 0.00 0.00 2.66
227 228 4.402474 AGCTAGAGTGGCAAAAACAAAGTT 59.598 37.500 0.00 0.00 0.00 2.66
228 229 3.954258 AGCTAGAGTGGCAAAAACAAAGT 59.046 39.130 0.00 0.00 0.00 2.66
229 230 4.574599 AGCTAGAGTGGCAAAAACAAAG 57.425 40.909 0.00 0.00 0.00 2.77
231 232 5.108517 CAAAAGCTAGAGTGGCAAAAACAA 58.891 37.500 0.00 0.00 0.00 2.83
233 234 4.682787 ACAAAAGCTAGAGTGGCAAAAAC 58.317 39.130 0.00 0.00 0.00 2.43
234 235 4.202111 GGACAAAAGCTAGAGTGGCAAAAA 60.202 41.667 0.00 0.00 0.00 1.94
236 237 2.884639 GGACAAAAGCTAGAGTGGCAAA 59.115 45.455 0.00 0.00 0.00 3.68
237 238 2.504367 GGACAAAAGCTAGAGTGGCAA 58.496 47.619 0.00 0.00 0.00 4.52
238 239 1.608025 CGGACAAAAGCTAGAGTGGCA 60.608 52.381 0.00 0.00 0.00 4.92
239 240 1.079503 CGGACAAAAGCTAGAGTGGC 58.920 55.000 0.00 0.00 0.00 5.01
240 241 1.079503 GCGGACAAAAGCTAGAGTGG 58.920 55.000 0.00 0.00 0.00 4.00
241 242 2.086054 AGCGGACAAAAGCTAGAGTG 57.914 50.000 0.00 0.00 42.60 3.51
242 243 2.808543 CAAAGCGGACAAAAGCTAGAGT 59.191 45.455 0.00 0.00 43.78 3.24
243 244 2.413371 GCAAAGCGGACAAAAGCTAGAG 60.413 50.000 0.00 0.00 43.78 2.43
244 245 1.535462 GCAAAGCGGACAAAAGCTAGA 59.465 47.619 0.00 0.00 43.78 2.43
245 246 1.537202 AGCAAAGCGGACAAAAGCTAG 59.463 47.619 0.00 0.00 43.78 3.42
246 247 1.604604 AGCAAAGCGGACAAAAGCTA 58.395 45.000 0.00 0.00 43.78 3.32
247 248 0.746659 AAGCAAAGCGGACAAAAGCT 59.253 45.000 0.00 0.00 46.97 3.74
248 249 2.415697 TAAGCAAAGCGGACAAAAGC 57.584 45.000 0.00 0.00 0.00 3.51
249 250 2.663119 GCATAAGCAAAGCGGACAAAAG 59.337 45.455 0.00 0.00 41.58 2.27
250 251 2.609244 GGCATAAGCAAAGCGGACAAAA 60.609 45.455 0.00 0.00 44.61 2.44
251 252 1.067915 GGCATAAGCAAAGCGGACAAA 60.068 47.619 0.00 0.00 44.61 2.83
252 253 0.525761 GGCATAAGCAAAGCGGACAA 59.474 50.000 0.00 0.00 44.61 3.18
253 254 0.607762 TGGCATAAGCAAAGCGGACA 60.608 50.000 0.00 0.00 44.61 4.02
254 255 0.179163 GTGGCATAAGCAAAGCGGAC 60.179 55.000 0.00 0.00 44.61 4.79
255 256 0.607762 TGTGGCATAAGCAAAGCGGA 60.608 50.000 0.00 0.00 44.61 5.54
256 257 0.456653 GTGTGGCATAAGCAAAGCGG 60.457 55.000 0.00 0.00 44.61 5.52
258 259 2.730550 AAGTGTGGCATAAGCAAAGC 57.269 45.000 0.00 0.00 44.61 3.51
280 281 1.133407 GTCTCAACGTGCCAACCAAAA 59.867 47.619 0.00 0.00 0.00 2.44
282 283 0.107410 AGTCTCAACGTGCCAACCAA 60.107 50.000 0.00 0.00 0.00 3.67
283 284 0.107410 AAGTCTCAACGTGCCAACCA 60.107 50.000 0.00 0.00 0.00 3.67
284 285 1.873698 TAAGTCTCAACGTGCCAACC 58.126 50.000 0.00 0.00 0.00 3.77
286 287 3.394674 TGATAAGTCTCAACGTGCCAA 57.605 42.857 0.00 0.00 0.00 4.52
288 289 4.451096 TCTTTTGATAAGTCTCAACGTGCC 59.549 41.667 0.00 0.00 34.96 5.01
289 290 5.591643 TCTTTTGATAAGTCTCAACGTGC 57.408 39.130 0.00 0.00 34.96 5.34
329 456 1.988293 TGGGACGATGCCTTTGAAAA 58.012 45.000 0.00 0.00 0.00 2.29
340 467 0.768622 TTGGTGTTCCTTGGGACGAT 59.231 50.000 0.00 0.00 34.23 3.73
346 473 4.533919 TTTGCATATTGGTGTTCCTTGG 57.466 40.909 0.00 0.00 34.23 3.61
441 573 7.328493 GGTACATTCCATACTTTTTGCTTTGAC 59.672 37.037 0.00 0.00 0.00 3.18
448 581 6.924111 AGCAAGGTACATTCCATACTTTTTG 58.076 36.000 0.00 0.00 0.00 2.44
496 696 5.519183 TGATTCAAATTGAGGAGAAGGGA 57.481 39.130 0.00 0.00 0.00 4.20
518 718 5.536538 TCGAGGTAGCTACATCAATCTGAAT 59.463 40.000 31.27 2.90 36.86 2.57
531 731 1.542767 CCCATCTCGTCGAGGTAGCTA 60.543 57.143 21.63 1.89 0.00 3.32
556 756 1.553248 CTAAACACGATCCCTCCCACA 59.447 52.381 0.00 0.00 0.00 4.17
601 802 2.113243 AAACGGAGGGAGTGGCTGAC 62.113 60.000 0.00 0.00 0.00 3.51
604 805 1.061546 TTTAAACGGAGGGAGTGGCT 58.938 50.000 0.00 0.00 0.00 4.75
605 806 1.900245 TTTTAAACGGAGGGAGTGGC 58.100 50.000 0.00 0.00 0.00 5.01
606 807 5.493809 TCTATTTTTAAACGGAGGGAGTGG 58.506 41.667 0.00 0.00 0.00 4.00
608 809 6.822170 GTCATCTATTTTTAAACGGAGGGAGT 59.178 38.462 0.00 0.00 0.00 3.85
609 810 6.260271 GGTCATCTATTTTTAAACGGAGGGAG 59.740 42.308 0.00 0.00 0.00 4.30
610 811 6.117488 GGTCATCTATTTTTAAACGGAGGGA 58.883 40.000 0.00 0.00 0.00 4.20
611 812 5.298527 GGGTCATCTATTTTTAAACGGAGGG 59.701 44.000 0.00 0.00 0.00 4.30
667 868 8.070171 CGTTCAAAATAGATGACTCAACTTTGT 58.930 33.333 0.00 0.00 0.00 2.83
668 869 7.535258 CCGTTCAAAATAGATGACTCAACTTTG 59.465 37.037 0.00 0.00 0.00 2.77
669 870 7.584987 CCGTTCAAAATAGATGACTCAACTTT 58.415 34.615 0.00 0.00 0.00 2.66
670 871 6.348540 GCCGTTCAAAATAGATGACTCAACTT 60.349 38.462 0.00 0.00 0.00 2.66
671 872 5.122396 GCCGTTCAAAATAGATGACTCAACT 59.878 40.000 0.00 0.00 0.00 3.16
672 873 5.324697 GCCGTTCAAAATAGATGACTCAAC 58.675 41.667 0.00 0.00 0.00 3.18
673 874 4.092821 CGCCGTTCAAAATAGATGACTCAA 59.907 41.667 0.00 0.00 0.00 3.02
674 875 3.616821 CGCCGTTCAAAATAGATGACTCA 59.383 43.478 0.00 0.00 0.00 3.41
675 876 3.001330 CCGCCGTTCAAAATAGATGACTC 59.999 47.826 0.00 0.00 0.00 3.36
676 877 2.936498 CCGCCGTTCAAAATAGATGACT 59.064 45.455 0.00 0.00 0.00 3.41
677 878 2.031683 CCCGCCGTTCAAAATAGATGAC 59.968 50.000 0.00 0.00 0.00 3.06
678 879 2.093394 TCCCGCCGTTCAAAATAGATGA 60.093 45.455 0.00 0.00 0.00 2.92
679 880 2.285083 TCCCGCCGTTCAAAATAGATG 58.715 47.619 0.00 0.00 0.00 2.90
680 881 2.093128 ACTCCCGCCGTTCAAAATAGAT 60.093 45.455 0.00 0.00 0.00 1.98
681 882 1.276989 ACTCCCGCCGTTCAAAATAGA 59.723 47.619 0.00 0.00 0.00 1.98
682 883 1.734163 ACTCCCGCCGTTCAAAATAG 58.266 50.000 0.00 0.00 0.00 1.73
683 884 2.028294 TGTACTCCCGCCGTTCAAAATA 60.028 45.455 0.00 0.00 0.00 1.40
684 885 1.270947 TGTACTCCCGCCGTTCAAAAT 60.271 47.619 0.00 0.00 0.00 1.82
685 886 0.106335 TGTACTCCCGCCGTTCAAAA 59.894 50.000 0.00 0.00 0.00 2.44
686 887 0.106335 TTGTACTCCCGCCGTTCAAA 59.894 50.000 0.00 0.00 0.00 2.69
687 888 0.322322 ATTGTACTCCCGCCGTTCAA 59.678 50.000 0.00 0.00 0.00 2.69
688 889 0.390603 CATTGTACTCCCGCCGTTCA 60.391 55.000 0.00 0.00 0.00 3.18
689 890 1.702491 GCATTGTACTCCCGCCGTTC 61.702 60.000 0.00 0.00 0.00 3.95
690 891 1.743995 GCATTGTACTCCCGCCGTT 60.744 57.895 0.00 0.00 0.00 4.44
691 892 2.125269 GCATTGTACTCCCGCCGT 60.125 61.111 0.00 0.00 0.00 5.68
692 893 1.498865 GATGCATTGTACTCCCGCCG 61.499 60.000 0.00 0.00 0.00 6.46
693 894 0.463654 TGATGCATTGTACTCCCGCC 60.464 55.000 0.00 0.00 0.00 6.13
694 895 1.378531 TTGATGCATTGTACTCCCGC 58.621 50.000 0.00 0.00 0.00 6.13
695 896 4.433186 TTTTTGATGCATTGTACTCCCG 57.567 40.909 0.00 0.00 0.00 5.14
787 988 1.032114 GCTTCCTTCCCACAATCCCG 61.032 60.000 0.00 0.00 0.00 5.14
841 1048 0.456221 CTTCCTCGCGTGGTCTATGT 59.544 55.000 25.10 0.00 0.00 2.29
842 1049 0.872021 GCTTCCTCGCGTGGTCTATG 60.872 60.000 25.10 10.70 0.00 2.23
843 1050 1.038130 AGCTTCCTCGCGTGGTCTAT 61.038 55.000 25.10 9.11 34.40 1.98
844 1051 0.393402 TAGCTTCCTCGCGTGGTCTA 60.393 55.000 25.10 19.90 34.40 2.59
845 1052 1.248785 TTAGCTTCCTCGCGTGGTCT 61.249 55.000 25.10 20.76 34.40 3.85
846 1053 0.802607 CTTAGCTTCCTCGCGTGGTC 60.803 60.000 25.10 15.63 34.40 4.02
847 1054 1.215647 CTTAGCTTCCTCGCGTGGT 59.784 57.895 25.10 9.93 34.40 4.16
919 1129 1.669440 GGGTTCACGAGCACTGGTA 59.331 57.895 0.00 0.00 0.00 3.25
944 1208 1.411246 ACTACTCTTGTGTGCAACCGA 59.589 47.619 0.00 0.00 34.36 4.69
957 1221 2.688902 TGGTGGTGTGGTACTACTCT 57.311 50.000 10.95 0.00 40.33 3.24
958 1222 3.756933 TTTGGTGGTGTGGTACTACTC 57.243 47.619 10.95 6.90 40.33 2.59
1077 1352 4.175337 CGGTCCACCATCGCCCAT 62.175 66.667 0.00 0.00 35.14 4.00
1849 2127 2.352422 GCTGACTCCCATGTGCCA 59.648 61.111 0.00 0.00 0.00 4.92
1891 2169 0.107508 CTGATGTGCAAGGGGTCGAT 60.108 55.000 0.00 0.00 0.00 3.59
1902 2189 1.639298 GCACGAAGGACCTGATGTGC 61.639 60.000 22.63 22.63 44.72 4.57
2093 2380 4.607239 ACTCTTAGTAATCGTCCTCCCAA 58.393 43.478 0.00 0.00 0.00 4.12
2094 2381 4.246712 ACTCTTAGTAATCGTCCTCCCA 57.753 45.455 0.00 0.00 0.00 4.37
2095 2382 4.888823 AGAACTCTTAGTAATCGTCCTCCC 59.111 45.833 0.00 0.00 0.00 4.30
2097 2384 6.127952 ACACAGAACTCTTAGTAATCGTCCTC 60.128 42.308 0.00 0.00 0.00 3.71
2099 2386 5.800941 CACACAGAACTCTTAGTAATCGTCC 59.199 44.000 0.00 0.00 0.00 4.79
2102 2389 5.061064 GTGCACACAGAACTCTTAGTAATCG 59.939 44.000 13.17 0.00 0.00 3.34
2106 2393 4.583073 TCAGTGCACACAGAACTCTTAGTA 59.417 41.667 21.04 0.00 0.00 1.82
2108 2395 3.982475 TCAGTGCACACAGAACTCTTAG 58.018 45.455 21.04 0.00 0.00 2.18
2109 2396 4.039124 TCATCAGTGCACACAGAACTCTTA 59.961 41.667 21.04 0.00 30.66 2.10
2110 2397 2.988010 TCAGTGCACACAGAACTCTT 57.012 45.000 21.04 0.00 0.00 2.85
2123 2410 1.404391 CCATCTGGCTTTCATCAGTGC 59.596 52.381 0.00 0.00 33.13 4.40
2140 2427 3.495100 GGAAGATATGAACCTGACGCCAT 60.495 47.826 0.00 0.00 0.00 4.40
2144 2431 4.509230 CACATGGAAGATATGAACCTGACG 59.491 45.833 0.00 0.00 0.00 4.35
2153 2440 3.249320 CGGAAGCACACATGGAAGATATG 59.751 47.826 0.00 0.00 0.00 1.78
2154 2441 3.118261 ACGGAAGCACACATGGAAGATAT 60.118 43.478 0.00 0.00 0.00 1.63
2160 2447 1.374125 CGACGGAAGCACACATGGA 60.374 57.895 0.00 0.00 0.00 3.41
2172 2459 1.000607 CTTGACCAGAGAAACGACGGA 60.001 52.381 0.00 0.00 0.00 4.69
2190 2477 3.104512 TGTATCACCTGGAATCGGACTT 58.895 45.455 0.00 0.00 0.00 3.01
2193 2480 4.080582 ACAAATGTATCACCTGGAATCGGA 60.081 41.667 0.00 0.00 0.00 4.55
2196 2483 6.515272 AACACAAATGTATCACCTGGAATC 57.485 37.500 0.00 0.00 38.45 2.52
2242 2530 6.486253 TGACTACTAACTTGTACGGTACTG 57.514 41.667 18.32 13.26 0.00 2.74
2244 2532 6.846350 ACATGACTACTAACTTGTACGGTAC 58.154 40.000 11.33 11.33 0.00 3.34
2247 2535 5.803967 GGAACATGACTACTAACTTGTACGG 59.196 44.000 0.00 0.00 0.00 4.02
2248 2536 6.384224 TGGAACATGACTACTAACTTGTACG 58.616 40.000 0.00 0.00 0.00 3.67
2249 2537 7.871463 ACTTGGAACATGACTACTAACTTGTAC 59.129 37.037 0.00 0.00 39.30 2.90
2250 2538 7.959175 ACTTGGAACATGACTACTAACTTGTA 58.041 34.615 0.00 0.00 39.30 2.41
2251 2539 6.827727 ACTTGGAACATGACTACTAACTTGT 58.172 36.000 0.00 0.00 39.30 3.16
2252 2540 7.657761 AGAACTTGGAACATGACTACTAACTTG 59.342 37.037 0.00 0.00 39.30 3.16
2254 2542 7.304497 AGAACTTGGAACATGACTACTAACT 57.696 36.000 0.00 0.00 39.30 2.24
2294 2593 5.125417 TGTTCTTGCCTGCATATAAAGTTCC 59.875 40.000 0.00 0.00 0.00 3.62
2302 2601 5.473066 AAGTTTTGTTCTTGCCTGCATAT 57.527 34.783 0.00 0.00 0.00 1.78
2303 2602 4.935352 AAGTTTTGTTCTTGCCTGCATA 57.065 36.364 0.00 0.00 0.00 3.14
2304 2603 3.825143 AAGTTTTGTTCTTGCCTGCAT 57.175 38.095 0.00 0.00 0.00 3.96
2320 2619 3.118956 TGTTTTTCGCCATGTCCAAAGTT 60.119 39.130 0.00 0.00 0.00 2.66
2343 2642 1.466167 CCAGAACATCTGCCAAAGTCG 59.534 52.381 1.79 0.00 42.98 4.18
2482 2792 8.986477 AAGAAAATACAACATCCTAAACATGC 57.014 30.769 0.00 0.00 0.00 4.06
2657 2979 7.865889 GCAACACTAGCTTAAAACTTAACCAAT 59.134 33.333 0.00 0.00 0.00 3.16
2669 2991 3.762407 TCCACTGCAACACTAGCTTAA 57.238 42.857 0.00 0.00 0.00 1.85
2674 2996 4.258702 ACTAGTTCCACTGCAACACTAG 57.741 45.455 12.50 12.50 41.81 2.57
2747 3069 5.047021 TCAAGTTGCTAGCATTCTACAGAGT 60.047 40.000 20.13 0.22 0.00 3.24
2875 3200 8.424918 TCTTTAGATAATGGAAGCTAGTTCAGG 58.575 37.037 0.00 0.00 36.82 3.86
2897 3222 5.163612 GCAGACAGAAACCACTTCTTTCTTT 60.164 40.000 1.37 0.00 45.10 2.52
2961 3286 9.634021 ACTAGTTCATGAGACATATAGTTCTGA 57.366 33.333 0.00 0.00 0.00 3.27
2973 3298 7.600375 TGTTTCTCATCAACTAGTTCATGAGAC 59.400 37.037 37.19 29.83 46.99 3.36
2975 3300 7.386025 TGTGTTTCTCATCAACTAGTTCATGAG 59.614 37.037 32.40 32.40 42.47 2.90
2976 3301 7.216494 TGTGTTTCTCATCAACTAGTTCATGA 58.784 34.615 19.52 19.52 0.00 3.07
2977 3302 7.425577 TGTGTTTCTCATCAACTAGTTCATG 57.574 36.000 12.90 12.90 0.00 3.07
2978 3303 8.627208 AATGTGTTTCTCATCAACTAGTTCAT 57.373 30.769 4.77 0.00 0.00 2.57
2979 3304 9.725019 ATAATGTGTTTCTCATCAACTAGTTCA 57.275 29.630 4.77 0.00 0.00 3.18
2988 3313 9.276590 GGTGATGATATAATGTGTTTCTCATCA 57.723 33.333 7.93 7.93 42.94 3.07
2989 3314 9.276590 TGGTGATGATATAATGTGTTTCTCATC 57.723 33.333 0.00 0.00 38.51 2.92
2990 3315 9.631257 TTGGTGATGATATAATGTGTTTCTCAT 57.369 29.630 0.00 0.00 0.00 2.90
2991 3316 9.631257 ATTGGTGATGATATAATGTGTTTCTCA 57.369 29.630 0.00 0.00 0.00 3.27
3193 3518 1.989966 CTTGGCAGCGAGATTGCAGG 61.990 60.000 0.00 0.00 43.28 4.85
3195 3520 1.003476 TCTTGGCAGCGAGATTGCA 60.003 52.632 0.00 0.00 43.28 4.08
3258 3584 4.754618 TGTAAAGATAATGCACCATAGCGG 59.245 41.667 0.00 0.00 42.50 5.52


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

AutoCloner maintained by Alex Coulton.