Multiple sequence alignment - TraesCS4A01G131800

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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 TraesCS4A01G131800 chr4A 100.000 6339 0 0 1 6339 176601915 176595577 0.000000e+00 11707
1 TraesCS4A01G131800 chr4D 95.951 6175 173 38 26 6163 303061919 303068053 0.000000e+00 9947
2 TraesCS4A01G131800 chr4D 93.296 179 11 1 6160 6338 82235182 82235359 4.870000e-66 263
3 TraesCS4A01G131800 chr4B 94.888 6143 182 52 3 6090 377786066 377792131 0.000000e+00 9483
4 TraesCS4A01G131800 chr2D 77.622 1001 209 14 3847 4840 39828337 39829329 1.520000e-165 593
5 TraesCS4A01G131800 chr2D 77.168 1003 210 15 3847 4840 55371373 55370381 3.320000e-157 566
6 TraesCS4A01G131800 chr2B 77.490 1004 205 17 3847 4840 87845084 87844092 3.290000e-162 582
7 TraesCS4A01G131800 chr2A 77.390 1004 206 16 3847 4840 56920461 56919469 1.530000e-160 577
8 TraesCS4A01G131800 chr2A 96.111 180 6 1 6160 6339 543574857 543575035 6.220000e-75 292
9 TraesCS4A01G131800 chr5A 95.480 177 7 1 6163 6338 504764674 504764850 1.350000e-71 281
10 TraesCS4A01G131800 chr5A 92.655 177 13 0 6163 6339 633276269 633276093 8.160000e-64 255
11 TraesCS4A01G131800 chr5A 91.803 183 14 1 6157 6339 11128643 11128824 2.930000e-63 254
12 TraesCS4A01G131800 chr7D 94.350 177 9 1 6163 6339 620460229 620460054 2.910000e-68 270
13 TraesCS4A01G131800 chr7D 93.258 178 9 1 6162 6339 29683252 29683426 6.300000e-65 259
14 TraesCS4A01G131800 chr5D 93.785 177 11 0 6163 6339 481941423 481941599 3.770000e-67 267
15 TraesCS4A01G131800 chr6D 93.785 177 9 1 6163 6339 377549373 377549199 1.360000e-66 265
16 TraesCS4A01G131800 chr1A 88.889 135 15 0 1863 1997 6707021 6707155 3.930000e-37 167


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 TraesCS4A01G131800 chr4A 176595577 176601915 6338 True 11707 11707 100.000 1 6339 1 chr4A.!!$R1 6338
1 TraesCS4A01G131800 chr4D 303061919 303068053 6134 False 9947 9947 95.951 26 6163 1 chr4D.!!$F2 6137
2 TraesCS4A01G131800 chr4B 377786066 377792131 6065 False 9483 9483 94.888 3 6090 1 chr4B.!!$F1 6087
3 TraesCS4A01G131800 chr2D 39828337 39829329 992 False 593 593 77.622 3847 4840 1 chr2D.!!$F1 993
4 TraesCS4A01G131800 chr2D 55370381 55371373 992 True 566 566 77.168 3847 4840 1 chr2D.!!$R1 993
5 TraesCS4A01G131800 chr2B 87844092 87845084 992 True 582 582 77.490 3847 4840 1 chr2B.!!$R1 993
6 TraesCS4A01G131800 chr2A 56919469 56920461 992 True 577 577 77.390 3847 4840 1 chr2A.!!$R1 993

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
98 104 0.324738 TCGCTCCTGGAGGTGATCTT 60.325 55.000 24.43 0.00 36.34 2.40 F
100 106 0.463474 GCTCCTGGAGGTGATCTTGC 60.463 60.000 24.43 4.47 36.34 4.01 F
1156 1171 0.251608 CTTGTCCCCACCCGGATTTT 60.252 55.000 0.73 0.00 33.48 1.82 F
2304 2346 0.179001 ACAGCTACAAACCACCCCAC 60.179 55.000 0.00 0.00 0.00 4.61 F
3082 3140 2.032979 CCGCACCAAAAATTGAACAAGC 60.033 45.455 0.00 0.00 0.00 4.01 F
3478 3536 2.029623 GTGGCTCGATCTTACTACCCA 58.970 52.381 0.00 0.00 0.00 4.51 F
4480 4541 1.127951 CCGAGGAATTCCGTGTTTTCG 59.872 52.381 18.82 19.15 42.08 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1083 1097 1.024579 TGAAAAGGAAGGCGATCGGC 61.025 55.000 32.17 32.17 42.51 5.54 R
1595 1612 1.419762 TGCAAAGCCACTAACCTCTGA 59.580 47.619 0.00 0.00 0.00 3.27 R
3082 3140 0.320374 TGGAACTGGTACTGGCTTCG 59.680 55.000 0.00 0.00 0.00 3.79 R
3306 3364 0.321671 CCTGGGACGTCTCATGTTGT 59.678 55.000 20.49 0.00 0.00 3.32 R
4480 4541 1.067495 AGGTCGCTCAAAGCTACTGAC 60.067 52.381 3.99 1.06 39.60 3.51 R
5071 5137 2.115911 AGCTCGTAGTGAGGCCTCG 61.116 63.158 27.43 16.14 45.38 4.63 R
6165 6247 0.037882 CTGTGTGCAGATCGTCCACT 60.038 55.000 12.42 0.00 45.28 4.00 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
21 22 1.555075 GTCTTCCCATAGCTGTCACCA 59.445 52.381 0.00 0.00 0.00 4.17
28 34 2.289320 CCATAGCTGTCACCATAGAGGC 60.289 54.545 0.00 0.00 43.14 4.70
97 103 1.040339 GTCGCTCCTGGAGGTGATCT 61.040 60.000 24.43 0.00 36.34 2.75
98 104 0.324738 TCGCTCCTGGAGGTGATCTT 60.325 55.000 24.43 0.00 36.34 2.40
100 106 0.463474 GCTCCTGGAGGTGATCTTGC 60.463 60.000 24.43 4.47 36.34 4.01
113 119 1.217057 ATCTTGCCCCCACACCATCT 61.217 55.000 0.00 0.00 0.00 2.90
173 179 1.133181 TGCCTCATCACCACCTTCCA 61.133 55.000 0.00 0.00 0.00 3.53
184 190 2.281070 CCTTCCATAGGCGCGCAT 60.281 61.111 34.42 30.20 37.17 4.73
215 221 3.706373 GTTCCCTCTGGCAGCGGA 61.706 66.667 24.71 20.14 0.00 5.54
257 264 2.792599 CGGCGCGACTAGAGTTCT 59.207 61.111 12.10 0.00 0.00 3.01
265 272 2.539953 GCGACTAGAGTTCTCCATGTCG 60.540 54.545 22.24 22.24 45.44 4.35
284 291 1.590238 CGCATGTCTCTCATCGGAAAC 59.410 52.381 0.00 0.00 34.09 2.78
314 321 7.279981 GTGCACCCAAAGAGTTTTAAATTTCTT 59.720 33.333 5.22 8.24 0.00 2.52
370 378 2.707849 GCAAGGGTGAGCTGCCATG 61.708 63.158 0.00 0.00 0.00 3.66
372 380 2.541907 AAGGGTGAGCTGCCATGGT 61.542 57.895 14.67 0.00 0.00 3.55
380 388 2.025981 TGAGCTGCCATGGTAGATTGTT 60.026 45.455 31.57 11.66 0.00 2.83
425 433 8.889717 CATCACAATACGGTAAGTTTTATTCCT 58.110 33.333 0.00 0.00 0.00 3.36
427 435 9.287373 TCACAATACGGTAAGTTTTATTCCTTT 57.713 29.630 0.00 0.00 0.00 3.11
429 437 9.287373 ACAATACGGTAAGTTTTATTCCTTTCA 57.713 29.630 0.00 0.00 0.00 2.69
448 456 9.088987 TCCTTTCATTCCATATTAATTAAGGCC 57.911 33.333 3.94 0.00 31.57 5.19
470 478 4.036498 CCGAGTTGGATGTATCTAGACGTT 59.964 45.833 0.00 0.00 42.00 3.99
512 520 9.495754 GAAAGAAGTAATAAACAGCATAGCAAG 57.504 33.333 0.00 0.00 0.00 4.01
531 540 9.744468 ATAGCAAGTCGAATTTTGTTAAAACTT 57.256 25.926 0.00 0.00 32.37 2.66
553 562 7.097834 ACTTCAAATAAAACCTCTCCTCTACG 58.902 38.462 0.00 0.00 0.00 3.51
663 672 0.905337 ACTTCTCCCCTTGTCCTCCG 60.905 60.000 0.00 0.00 0.00 4.63
695 704 9.533253 CAAATCCAAACAAGAAGAAACAATACT 57.467 29.630 0.00 0.00 0.00 2.12
698 707 8.740123 TCCAAACAAGAAGAAACAATACTACA 57.260 30.769 0.00 0.00 0.00 2.74
699 708 9.179909 TCCAAACAAGAAGAAACAATACTACAA 57.820 29.630 0.00 0.00 0.00 2.41
700 709 9.965824 CCAAACAAGAAGAAACAATACTACAAT 57.034 29.630 0.00 0.00 0.00 2.71
703 712 9.574516 AACAAGAAGAAACAATACTACAATCCT 57.425 29.630 0.00 0.00 0.00 3.24
704 713 9.220767 ACAAGAAGAAACAATACTACAATCCTC 57.779 33.333 0.00 0.00 0.00 3.71
705 714 9.442047 CAAGAAGAAACAATACTACAATCCTCT 57.558 33.333 0.00 0.00 0.00 3.69
1083 1097 2.431430 TTCTGCTCGCTGCTCGTG 60.431 61.111 0.00 0.00 43.37 4.35
1156 1171 0.251608 CTTGTCCCCACCCGGATTTT 60.252 55.000 0.73 0.00 33.48 1.82
1439 1456 6.454795 TGGACTGCTTTTTATGAAAATGGTC 58.545 36.000 0.00 5.44 34.45 4.02
1443 1460 6.875195 ACTGCTTTTTATGAAAATGGTCATGG 59.125 34.615 0.00 0.00 38.69 3.66
1492 1509 1.122849 CACGTGTTCATTTGTGCTGC 58.877 50.000 7.58 0.00 0.00 5.25
1505 1522 2.161855 TGTGCTGCATTTAGGAGGTTG 58.838 47.619 5.27 0.00 35.99 3.77
1595 1612 2.164624 GGTAGAGATGTGAACGCAGAGT 59.835 50.000 0.00 0.00 0.00 3.24
1619 1645 3.897505 AGAGGTTAGTGGCTTTGCATTTT 59.102 39.130 0.00 0.00 0.00 1.82
1620 1646 4.344968 AGAGGTTAGTGGCTTTGCATTTTT 59.655 37.500 0.00 0.00 0.00 1.94
1677 1703 2.037772 ACCGCATCTAGATCATTCCACC 59.962 50.000 1.03 0.00 0.00 4.61
1743 1769 0.323629 CCCCTGTTTGTTCTCCGCTA 59.676 55.000 0.00 0.00 0.00 4.26
1842 1871 6.922247 ATCTTTGATGTTCACTAGCATGAG 57.078 37.500 0.00 0.00 0.00 2.90
1975 2004 3.895232 TTCTGCCACTCTTCCTCATAC 57.105 47.619 0.00 0.00 0.00 2.39
2304 2346 0.179001 ACAGCTACAAACCACCCCAC 60.179 55.000 0.00 0.00 0.00 4.61
2384 2426 7.387397 CCCTAGTCTCTTTCTTCATGATTATGC 59.613 40.741 0.00 0.00 34.21 3.14
2514 2563 8.567948 TGAATCCTTGATGTGTTACTCTTTTTC 58.432 33.333 0.00 0.00 0.00 2.29
2515 2564 8.697507 AATCCTTGATGTGTTACTCTTTTTCT 57.302 30.769 0.00 0.00 0.00 2.52
2525 2574 6.858478 GTGTTACTCTTTTTCTTTCAGGATGC 59.142 38.462 0.00 0.00 34.76 3.91
2836 2894 3.548818 GCTGTTACTTGTTTCCAGTGCAG 60.549 47.826 0.00 0.00 0.00 4.41
3063 3121 3.369381 CTGTATGCAGTTCTCCCCG 57.631 57.895 2.12 0.00 37.92 5.73
3082 3140 2.032979 CCGCACCAAAAATTGAACAAGC 60.033 45.455 0.00 0.00 0.00 4.01
3131 3189 4.337555 CCCAGAAAAGTATGATGGCTCTTG 59.662 45.833 0.00 0.00 0.00 3.02
3154 3212 6.090129 TGTTTTGCTGTTTCTCTTTGTACAC 58.910 36.000 0.00 0.00 0.00 2.90
3163 3221 6.821160 TGTTTCTCTTTGTACACAAGTCATGA 59.179 34.615 0.00 0.00 37.15 3.07
3304 3362 2.715046 TGATGCCAGGATTTCAGTGAC 58.285 47.619 0.00 0.00 0.00 3.67
3305 3363 2.040145 TGATGCCAGGATTTCAGTGACA 59.960 45.455 0.00 0.00 0.00 3.58
3306 3364 2.655090 TGCCAGGATTTCAGTGACAA 57.345 45.000 0.00 0.00 0.00 3.18
3478 3536 2.029623 GTGGCTCGATCTTACTACCCA 58.970 52.381 0.00 0.00 0.00 4.51
3797 3855 4.922719 GACTGGGAAAGTACTATCAGTCG 58.077 47.826 21.16 4.22 40.07 4.18
3802 3860 4.398673 GGGAAAGTACTATCAGTCGTGACT 59.601 45.833 0.00 0.00 43.61 3.41
3902 3962 2.724349 GCAATAGCAAGAGCCAAATCG 58.276 47.619 0.00 0.00 43.56 3.34
4043 4103 2.747396 TGCCCAAAAGTCATCATTGC 57.253 45.000 0.00 0.00 0.00 3.56
4480 4541 1.127951 CCGAGGAATTCCGTGTTTTCG 59.872 52.381 18.82 19.15 42.08 3.46
4854 4915 1.748493 GTTGGTTTGTTGTCAGCCTGA 59.252 47.619 0.00 0.00 0.00 3.86
4939 5003 7.606349 TCATCCATACTTGATATAGTGAGCAC 58.394 38.462 0.00 0.00 0.00 4.40
5071 5137 3.074412 ACAGTTCCGGAACAATGATGAC 58.926 45.455 40.66 18.27 43.47 3.06
5215 5281 2.234661 AGTGATCCGAACTTCTGCATCA 59.765 45.455 0.00 0.00 0.00 3.07
5341 5407 4.588899 AGTGCAATGTAAGTCCATAGCAA 58.411 39.130 0.00 0.00 0.00 3.91
5443 5517 5.110814 TGGAGTGAAAAGACCAGAAAAGA 57.889 39.130 0.00 0.00 0.00 2.52
5496 5570 4.097551 TCCAACACCATCTGTTCATTGA 57.902 40.909 0.00 0.00 41.50 2.57
5543 5617 7.539022 GGTTTTTCTGCAGTTAGAGAAATTAGC 59.461 37.037 14.67 3.86 37.87 3.09
5614 5688 3.487372 GCTTCAGGTAAAAGGGAGTGTT 58.513 45.455 0.00 0.00 0.00 3.32
5632 5706 6.096141 GGAGTGTTCACTCTCATCATCTAGAA 59.904 42.308 25.41 0.00 38.01 2.10
5798 5876 7.339212 TGTTTATCAAAGTTATGTGGATGGGAG 59.661 37.037 0.00 0.00 0.00 4.30
5825 5903 9.744468 GTATATTTGGTTTGTCAGAAACTTGTT 57.256 29.630 0.00 0.00 0.00 2.83
5970 6052 1.815003 GATGGGCCTCTCAGTTTGTTG 59.185 52.381 4.53 0.00 0.00 3.33
5971 6053 0.550914 TGGGCCTCTCAGTTTGTTGT 59.449 50.000 4.53 0.00 0.00 3.32
5972 6054 1.064017 TGGGCCTCTCAGTTTGTTGTT 60.064 47.619 4.53 0.00 0.00 2.83
5990 6072 7.111247 TGTTGTTCATTCATGTCCTTTCTTT 57.889 32.000 0.00 0.00 0.00 2.52
6017 6099 0.756294 TCGAGACCCTGAACTTGCAA 59.244 50.000 0.00 0.00 0.00 4.08
6048 6130 6.101332 ACGTTGGTACACGATGTGTTAATAT 58.899 36.000 12.18 0.00 45.08 1.28
6061 6143 7.172190 CGATGTGTTAATATTTGCTGAGATCCT 59.828 37.037 0.00 0.00 0.00 3.24
6079 6161 0.514691 CTGAGACTTGCTGCCGAAAC 59.485 55.000 0.00 0.00 0.00 2.78
6090 6172 2.916716 GCTGCCGAAACATTTACATGTG 59.083 45.455 9.11 0.00 43.34 3.21
6091 6173 3.611530 GCTGCCGAAACATTTACATGTGT 60.612 43.478 9.11 0.00 43.34 3.72
6129 6211 2.301296 AGGGATGATAGAAGTGCCATCG 59.699 50.000 0.00 0.00 37.02 3.84
6145 6227 7.033185 AGTGCCATCGGTATTTGAAAATAAAC 58.967 34.615 0.00 0.00 33.05 2.01
6150 6232 9.931210 CCATCGGTATTTGAAAATAAACTAGTC 57.069 33.333 0.00 0.00 33.05 2.59
6163 6245 2.509166 ACTAGTCGGTGATCTGGTGA 57.491 50.000 0.00 0.00 0.00 4.02
6164 6246 2.370349 ACTAGTCGGTGATCTGGTGAG 58.630 52.381 0.00 0.00 0.00 3.51
6165 6247 2.026169 ACTAGTCGGTGATCTGGTGAGA 60.026 50.000 0.00 0.00 0.00 3.27
6166 6248 1.468985 AGTCGGTGATCTGGTGAGAG 58.531 55.000 0.00 0.00 0.00 3.20
6167 6249 1.178276 GTCGGTGATCTGGTGAGAGT 58.822 55.000 0.00 0.00 0.00 3.24
6168 6250 1.135257 GTCGGTGATCTGGTGAGAGTG 60.135 57.143 0.00 0.00 0.00 3.51
6169 6251 0.174389 CGGTGATCTGGTGAGAGTGG 59.826 60.000 0.00 0.00 0.00 4.00
6170 6252 1.561643 GGTGATCTGGTGAGAGTGGA 58.438 55.000 0.00 0.00 0.00 4.02
6171 6253 1.205893 GGTGATCTGGTGAGAGTGGAC 59.794 57.143 0.00 0.00 0.00 4.02
6172 6254 1.135257 GTGATCTGGTGAGAGTGGACG 60.135 57.143 0.00 0.00 0.00 4.79
6173 6255 1.271926 TGATCTGGTGAGAGTGGACGA 60.272 52.381 0.00 0.00 0.00 4.20
6174 6256 2.028130 GATCTGGTGAGAGTGGACGAT 58.972 52.381 0.00 0.00 0.00 3.73
6175 6257 1.464734 TCTGGTGAGAGTGGACGATC 58.535 55.000 0.00 0.00 0.00 3.69
6176 6258 1.004862 TCTGGTGAGAGTGGACGATCT 59.995 52.381 0.00 0.00 0.00 2.75
6177 6259 1.133982 CTGGTGAGAGTGGACGATCTG 59.866 57.143 0.00 0.00 0.00 2.90
6178 6260 0.179124 GGTGAGAGTGGACGATCTGC 60.179 60.000 0.00 0.00 0.00 4.26
6179 6261 0.528017 GTGAGAGTGGACGATCTGCA 59.472 55.000 0.00 0.00 0.00 4.41
6180 6262 0.528017 TGAGAGTGGACGATCTGCAC 59.472 55.000 8.17 8.17 41.50 4.57
6181 6263 0.528017 GAGAGTGGACGATCTGCACA 59.472 55.000 15.37 0.00 43.60 4.57
6182 6264 0.244994 AGAGTGGACGATCTGCACAC 59.755 55.000 15.37 10.85 43.60 3.82
6183 6265 0.038251 GAGTGGACGATCTGCACACA 60.038 55.000 15.37 0.00 43.60 3.72
6184 6266 0.037882 AGTGGACGATCTGCACACAG 60.038 55.000 15.37 0.00 43.60 3.66
6185 6267 1.016130 GTGGACGATCTGCACACAGG 61.016 60.000 10.43 0.00 44.59 4.00
6186 6268 1.448540 GGACGATCTGCACACAGGG 60.449 63.158 0.00 0.00 44.59 4.45
6187 6269 1.448540 GACGATCTGCACACAGGGG 60.449 63.158 0.00 0.00 44.59 4.79
6188 6270 2.821366 CGATCTGCACACAGGGGC 60.821 66.667 0.00 0.00 44.59 5.80
6189 6271 2.352422 GATCTGCACACAGGGGCA 59.648 61.111 0.00 0.00 44.59 5.36
6190 6272 1.077212 GATCTGCACACAGGGGCAT 60.077 57.895 0.00 0.00 44.59 4.40
6191 6273 1.077212 ATCTGCACACAGGGGCATC 60.077 57.895 0.00 0.00 44.59 3.91
6192 6274 1.569030 ATCTGCACACAGGGGCATCT 61.569 55.000 0.00 0.00 44.59 2.90
6193 6275 2.034532 TGCACACAGGGGCATCTG 59.965 61.111 5.69 5.69 40.40 2.90
6194 6276 3.446570 GCACACAGGGGCATCTGC 61.447 66.667 6.95 0.00 38.26 4.26
6195 6277 2.034532 CACACAGGGGCATCTGCA 59.965 61.111 4.33 0.00 44.36 4.41
6196 6278 2.034687 ACACAGGGGCATCTGCAC 59.965 61.111 4.33 0.00 45.53 4.57
6203 6285 3.064324 GGCATCTGCACCCGCTTT 61.064 61.111 4.33 0.00 44.36 3.51
6204 6286 2.639327 GGCATCTGCACCCGCTTTT 61.639 57.895 4.33 0.00 44.36 2.27
6205 6287 1.153958 GCATCTGCACCCGCTTTTC 60.154 57.895 0.00 0.00 41.59 2.29
6206 6288 1.865788 GCATCTGCACCCGCTTTTCA 61.866 55.000 0.00 0.00 41.59 2.69
6207 6289 0.597568 CATCTGCACCCGCTTTTCAA 59.402 50.000 0.00 0.00 39.64 2.69
6208 6290 1.000385 CATCTGCACCCGCTTTTCAAA 60.000 47.619 0.00 0.00 39.64 2.69
6209 6291 1.107114 TCTGCACCCGCTTTTCAAAA 58.893 45.000 0.00 0.00 39.64 2.44
6210 6292 1.478510 TCTGCACCCGCTTTTCAAAAA 59.521 42.857 0.00 0.00 39.64 1.94
6211 6293 2.102252 TCTGCACCCGCTTTTCAAAAAT 59.898 40.909 0.00 0.00 39.64 1.82
6212 6294 2.208431 TGCACCCGCTTTTCAAAAATG 58.792 42.857 0.00 0.00 39.64 2.32
6213 6295 2.209273 GCACCCGCTTTTCAAAAATGT 58.791 42.857 0.00 0.00 34.30 2.71
6214 6296 3.181475 TGCACCCGCTTTTCAAAAATGTA 60.181 39.130 0.00 0.00 39.64 2.29
6215 6297 3.183574 GCACCCGCTTTTCAAAAATGTAC 59.816 43.478 0.00 0.00 34.30 2.90
6216 6298 4.616953 CACCCGCTTTTCAAAAATGTACT 58.383 39.130 0.00 0.00 0.00 2.73
6217 6299 5.047188 CACCCGCTTTTCAAAAATGTACTT 58.953 37.500 0.00 0.00 0.00 2.24
6218 6300 5.522097 CACCCGCTTTTCAAAAATGTACTTT 59.478 36.000 0.00 0.00 0.00 2.66
6219 6301 6.036626 CACCCGCTTTTCAAAAATGTACTTTT 59.963 34.615 1.06 1.06 38.73 2.27
6220 6302 6.596106 ACCCGCTTTTCAAAAATGTACTTTTT 59.404 30.769 12.38 12.38 45.70 1.94
6221 6303 7.764901 ACCCGCTTTTCAAAAATGTACTTTTTA 59.235 29.630 17.05 3.37 43.54 1.52
6222 6304 8.059502 CCCGCTTTTCAAAAATGTACTTTTTAC 58.940 33.333 17.05 4.18 43.54 2.01
6223 6305 7.785665 CCGCTTTTCAAAAATGTACTTTTTACG 59.214 33.333 17.05 12.46 43.54 3.18
6224 6306 8.315341 CGCTTTTCAAAAATGTACTTTTTACGT 58.685 29.630 17.05 0.00 43.54 3.57
6225 6307 9.403869 GCTTTTCAAAAATGTACTTTTTACGTG 57.596 29.630 17.05 12.82 43.54 4.49
6237 6319 9.837525 TGTACTTTTTACGTGTTTTGTAATGTT 57.162 25.926 0.00 0.00 32.28 2.71
6239 6321 8.967552 ACTTTTTACGTGTTTTGTAATGTTGA 57.032 26.923 0.00 0.00 32.28 3.18
6240 6322 9.408069 ACTTTTTACGTGTTTTGTAATGTTGAA 57.592 25.926 0.00 0.00 32.28 2.69
6247 6329 9.145865 ACGTGTTTTGTAATGTTGAAAAATTCT 57.854 25.926 0.00 0.00 0.00 2.40
6275 6357 5.512753 AAAAATATGCATACATGTCGGCA 57.487 34.783 21.97 21.97 41.00 5.69
6276 6358 5.512753 AAAATATGCATACATGTCGGCAA 57.487 34.783 23.09 14.84 40.02 4.52
6277 6359 5.512753 AAATATGCATACATGTCGGCAAA 57.487 34.783 23.09 6.35 40.02 3.68
6278 6360 4.754372 ATATGCATACATGTCGGCAAAG 57.246 40.909 23.09 0.00 40.02 2.77
6279 6361 2.106477 TGCATACATGTCGGCAAAGA 57.894 45.000 18.73 0.00 32.54 2.52
6280 6362 2.642427 TGCATACATGTCGGCAAAGAT 58.358 42.857 18.73 0.00 32.54 2.40
6281 6363 3.802866 TGCATACATGTCGGCAAAGATA 58.197 40.909 18.73 0.00 32.54 1.98
6282 6364 3.559655 TGCATACATGTCGGCAAAGATAC 59.440 43.478 18.73 0.00 32.54 2.24
6283 6365 3.362986 GCATACATGTCGGCAAAGATACG 60.363 47.826 14.74 0.00 0.00 3.06
6284 6366 2.380084 ACATGTCGGCAAAGATACGT 57.620 45.000 0.00 0.00 0.00 3.57
6285 6367 2.268298 ACATGTCGGCAAAGATACGTC 58.732 47.619 0.00 0.00 0.00 4.34
6286 6368 1.593006 CATGTCGGCAAAGATACGTCC 59.407 52.381 0.00 0.00 0.00 4.79
6287 6369 0.604073 TGTCGGCAAAGATACGTCCA 59.396 50.000 0.00 0.00 0.00 4.02
6288 6370 0.997196 GTCGGCAAAGATACGTCCAC 59.003 55.000 0.00 0.00 0.00 4.02
6289 6371 0.457166 TCGGCAAAGATACGTCCACG 60.457 55.000 0.00 0.00 46.33 4.94
6290 6372 1.418342 CGGCAAAGATACGTCCACGG 61.418 60.000 3.81 0.00 44.95 4.94
6291 6373 1.702491 GGCAAAGATACGTCCACGGC 61.702 60.000 3.81 0.00 44.95 5.68
6292 6374 1.017177 GCAAAGATACGTCCACGGCA 61.017 55.000 3.81 0.00 44.95 5.69
6293 6375 0.719465 CAAAGATACGTCCACGGCAC 59.281 55.000 3.81 0.00 44.95 5.01
6294 6376 0.319083 AAAGATACGTCCACGGCACA 59.681 50.000 3.81 0.00 44.95 4.57
6295 6377 0.319083 AAGATACGTCCACGGCACAA 59.681 50.000 3.81 0.00 44.95 3.33
6296 6378 0.319083 AGATACGTCCACGGCACAAA 59.681 50.000 3.81 0.00 44.95 2.83
6297 6379 1.149987 GATACGTCCACGGCACAAAA 58.850 50.000 3.81 0.00 44.95 2.44
6298 6380 1.735571 GATACGTCCACGGCACAAAAT 59.264 47.619 3.81 0.00 44.95 1.82
6299 6381 1.595466 TACGTCCACGGCACAAAATT 58.405 45.000 3.81 0.00 44.95 1.82
6300 6382 0.741915 ACGTCCACGGCACAAAATTT 59.258 45.000 3.81 0.00 44.95 1.82
6301 6383 1.135333 ACGTCCACGGCACAAAATTTT 59.865 42.857 3.81 0.00 44.95 1.82
6302 6384 1.520590 CGTCCACGGCACAAAATTTTG 59.479 47.619 25.73 25.73 38.71 2.44
6303 6385 3.050778 CGTCCACGGCACAAAATTTTGT 61.051 45.455 27.01 27.01 42.84 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.471676 GGTGACAGCTATGGGAAGACG 60.472 57.143 0.00 0.00 0.00 4.18
1 2 1.555075 TGGTGACAGCTATGGGAAGAC 59.445 52.381 6.17 0.00 35.01 3.01
21 22 2.797278 CGTTGCCTCCCGCCTCTAT 61.797 63.158 0.00 0.00 36.24 1.98
97 103 2.440147 CAGATGGTGTGGGGGCAA 59.560 61.111 0.00 0.00 0.00 4.52
98 104 3.660571 CCAGATGGTGTGGGGGCA 61.661 66.667 0.00 0.00 0.00 5.36
100 106 3.650298 CTGCCAGATGGTGTGGGGG 62.650 68.421 0.00 0.00 35.39 5.40
184 190 2.029964 GAACACCGACGAAGGCCA 59.970 61.111 5.01 0.00 33.69 5.36
215 221 2.765807 CCCCAGACCCTCGCATCT 60.766 66.667 0.00 0.00 0.00 2.90
222 228 2.203998 CCAGTGACCCCAGACCCT 60.204 66.667 0.00 0.00 0.00 4.34
257 264 1.185315 TGAGAGACATGCGACATGGA 58.815 50.000 19.30 0.09 0.00 3.41
265 272 1.590238 CGTTTCCGATGAGAGACATGC 59.410 52.381 0.00 0.00 39.56 4.06
284 291 1.157870 AACTCTTTGGGTGCACGTCG 61.158 55.000 11.45 0.00 0.00 5.12
288 295 6.761242 AGAAATTTAAAACTCTTTGGGTGCAC 59.239 34.615 8.80 8.80 0.00 4.57
324 332 9.070149 GCACTTCAAATTAGTTTCATCATCTTC 57.930 33.333 0.00 0.00 0.00 2.87
331 339 6.088016 TGCAGCACTTCAAATTAGTTTCAT 57.912 33.333 0.00 0.00 0.00 2.57
334 342 5.291971 CCTTGCAGCACTTCAAATTAGTTT 58.708 37.500 0.00 0.00 0.00 2.66
370 378 0.727398 GGTGCTGCGAACAATCTACC 59.273 55.000 0.00 0.00 0.00 3.18
372 380 1.001974 AGTGGTGCTGCGAACAATCTA 59.998 47.619 0.00 0.00 0.00 1.98
380 388 0.104855 GGATATCAGTGGTGCTGCGA 59.895 55.000 4.83 0.00 44.66 5.10
425 433 8.698973 TCGGCCTTAATTAATATGGAATGAAA 57.301 30.769 0.00 0.00 31.83 2.69
427 435 7.458397 ACTCGGCCTTAATTAATATGGAATGA 58.542 34.615 0.00 0.86 31.83 2.57
429 437 7.176690 CCAACTCGGCCTTAATTAATATGGAAT 59.823 37.037 0.00 0.00 31.83 3.01
431 439 6.001460 CCAACTCGGCCTTAATTAATATGGA 58.999 40.000 0.00 0.00 31.83 3.41
443 451 2.119495 AGATACATCCAACTCGGCCTT 58.881 47.619 0.00 0.00 33.14 4.35
448 456 4.815040 ACGTCTAGATACATCCAACTCG 57.185 45.455 0.00 0.00 0.00 4.18
480 488 7.380536 TGCTGTTTATTACTTCTTTCGTCCTA 58.619 34.615 0.00 0.00 0.00 2.94
484 492 7.333423 TGCTATGCTGTTTATTACTTCTTTCGT 59.667 33.333 0.00 0.00 0.00 3.85
490 498 7.010183 TCGACTTGCTATGCTGTTTATTACTTC 59.990 37.037 0.00 0.00 0.00 3.01
531 540 6.845758 TCGTAGAGGAGAGGTTTTATTTGA 57.154 37.500 0.00 0.00 0.00 2.69
553 562 4.882842 TTTATTTGGGGTTTTCTGCCTC 57.117 40.909 0.00 0.00 0.00 4.70
663 672 6.345096 TCTTCTTGTTTGGATTTGGGATTC 57.655 37.500 0.00 0.00 0.00 2.52
695 704 8.875168 AGAAAGAGAAAGAGAAAGAGGATTGTA 58.125 33.333 0.00 0.00 0.00 2.41
697 706 8.096414 AGAGAAAGAGAAAGAGAAAGAGGATTG 58.904 37.037 0.00 0.00 0.00 2.67
698 707 8.206126 AGAGAAAGAGAAAGAGAAAGAGGATT 57.794 34.615 0.00 0.00 0.00 3.01
699 708 7.797121 AGAGAAAGAGAAAGAGAAAGAGGAT 57.203 36.000 0.00 0.00 0.00 3.24
700 709 7.610580 AAGAGAAAGAGAAAGAGAAAGAGGA 57.389 36.000 0.00 0.00 0.00 3.71
701 710 8.150296 AGAAAGAGAAAGAGAAAGAGAAAGAGG 58.850 37.037 0.00 0.00 0.00 3.69
702 711 9.196552 GAGAAAGAGAAAGAGAAAGAGAAAGAG 57.803 37.037 0.00 0.00 0.00 2.85
703 712 8.147704 GGAGAAAGAGAAAGAGAAAGAGAAAGA 58.852 37.037 0.00 0.00 0.00 2.52
704 713 7.387673 GGGAGAAAGAGAAAGAGAAAGAGAAAG 59.612 40.741 0.00 0.00 0.00 2.62
705 714 7.071824 AGGGAGAAAGAGAAAGAGAAAGAGAAA 59.928 37.037 0.00 0.00 0.00 2.52
706 715 6.556874 AGGGAGAAAGAGAAAGAGAAAGAGAA 59.443 38.462 0.00 0.00 0.00 2.87
707 716 6.014669 CAGGGAGAAAGAGAAAGAGAAAGAGA 60.015 42.308 0.00 0.00 0.00 3.10
1083 1097 1.024579 TGAAAAGGAAGGCGATCGGC 61.025 55.000 32.17 32.17 42.51 5.54
1419 1436 6.314400 CCCATGACCATTTTCATAAAAAGCAG 59.686 38.462 0.00 0.00 37.76 4.24
1439 1456 4.347876 TCAGTCATACTATCCCAACCCATG 59.652 45.833 0.00 0.00 0.00 3.66
1443 1460 5.308237 AGGAATCAGTCATACTATCCCAACC 59.692 44.000 0.00 0.00 29.75 3.77
1492 1509 2.827921 AGGCAAAGCAACCTCCTAAATG 59.172 45.455 0.00 0.00 0.00 2.32
1505 1522 1.857602 GCGATCGAATGAAGGCAAAGC 60.858 52.381 21.57 0.00 0.00 3.51
1595 1612 1.419762 TGCAAAGCCACTAACCTCTGA 59.580 47.619 0.00 0.00 0.00 3.27
1621 1647 9.554395 TTCATCACTGTCAGTACATAAGAAAAA 57.446 29.630 4.85 0.00 34.37 1.94
1677 1703 6.461698 GTCGAACAAAATACACATAGCTTTCG 59.538 38.462 0.00 0.00 34.81 3.46
1842 1871 6.319141 ACCAAAGTTCTGAACTGCTATTTC 57.681 37.500 22.67 0.00 41.91 2.17
2186 2219 1.168714 GAGGAGTGCACCATGTTTCC 58.831 55.000 14.63 12.85 0.00 3.13
2304 2346 6.764308 ATATCACTTTGTTTGTCATCCCTG 57.236 37.500 0.00 0.00 0.00 4.45
2340 2382 9.762381 AGACTAGGGTGGAGAGATTAAATATAG 57.238 37.037 0.00 0.00 0.00 1.31
2384 2426 6.992063 ATACTTTTCACAGCCTTCATAGTG 57.008 37.500 0.00 0.00 0.00 2.74
2514 2563 1.298157 TTCCGTGCGCATCCTGAAAG 61.298 55.000 15.91 0.00 0.00 2.62
2515 2564 0.886938 TTTCCGTGCGCATCCTGAAA 60.887 50.000 15.91 16.70 0.00 2.69
2647 2696 7.933033 GGAATTTGGTGCATAATTGATTATGGT 59.067 33.333 19.79 0.00 46.03 3.55
2873 2931 6.309494 CACCAGCATTTGTTCAGAATTATGTG 59.691 38.462 0.00 0.00 0.00 3.21
2964 3022 4.399618 TCAGGTAGAGAAGATGCACTACAC 59.600 45.833 10.87 2.76 37.52 2.90
3063 3121 2.863137 TCGCTTGTTCAATTTTTGGTGC 59.137 40.909 0.00 0.00 0.00 5.01
3082 3140 0.320374 TGGAACTGGTACTGGCTTCG 59.680 55.000 0.00 0.00 0.00 3.79
3131 3189 6.090129 TGTGTACAAAGAGAAACAGCAAAAC 58.910 36.000 0.00 0.00 0.00 2.43
3154 3212 6.149973 TGCTTCAGAAGGTAAATCATGACTTG 59.850 38.462 12.30 0.00 0.00 3.16
3304 3362 1.800586 CTGGGACGTCTCATGTTGTTG 59.199 52.381 20.49 0.74 0.00 3.33
3305 3363 1.270839 CCTGGGACGTCTCATGTTGTT 60.271 52.381 20.49 0.00 0.00 2.83
3306 3364 0.321671 CCTGGGACGTCTCATGTTGT 59.678 55.000 20.49 0.00 0.00 3.32
3367 3425 3.335579 ACAGTAACTCCCGAATTCAAGC 58.664 45.455 6.22 0.00 0.00 4.01
3478 3536 4.953940 TCCTTTAAGTTTGGCAATGCTT 57.046 36.364 17.50 17.50 0.00 3.91
3751 3809 6.317642 TCAACCATACCGGATACAAATTCAAG 59.682 38.462 9.46 0.00 38.63 3.02
3797 3855 6.826893 ACAAACAATAAAATGCACAGTCAC 57.173 33.333 0.00 0.00 0.00 3.67
3802 3860 8.932945 TTCAGTAACAAACAATAAAATGCACA 57.067 26.923 0.00 0.00 0.00 4.57
3803 3861 9.796062 CATTCAGTAACAAACAATAAAATGCAC 57.204 29.630 0.00 0.00 0.00 4.57
3811 3871 9.114952 TCAAGTGTCATTCAGTAACAAACAATA 57.885 29.630 0.00 0.00 0.00 1.90
3902 3962 3.980646 TTGTTACAATCCACAGTGCAC 57.019 42.857 9.40 9.40 0.00 4.57
4143 4203 9.492973 GGCAAGCACATTTTTGGATAATATAAT 57.507 29.630 0.00 0.00 0.00 1.28
4480 4541 1.067495 AGGTCGCTCAAAGCTACTGAC 60.067 52.381 3.99 1.06 39.60 3.51
4854 4915 9.709495 TGCATGCTTTAGAACTTGAAATAAAAT 57.291 25.926 20.33 0.00 0.00 1.82
4907 4968 9.104713 ACTATATCAAGTATGGATGATGGTTGA 57.895 33.333 0.00 0.00 36.93 3.18
4965 5030 9.195411 TCATGCATTTTTCAAATAGACTGAAAC 57.805 29.630 0.00 0.00 41.32 2.78
5071 5137 2.115911 AGCTCGTAGTGAGGCCTCG 61.116 63.158 27.43 16.14 45.38 4.63
5341 5407 6.381133 AGTCAAATCTTCTGGTTTCCAAAGTT 59.619 34.615 0.00 0.00 30.80 2.66
5438 5512 9.211485 CAAAATTGATGGCTAATGACTTCTTTT 57.789 29.630 0.00 0.00 0.00 2.27
5443 5517 7.230849 TGTCAAAATTGATGGCTAATGACTT 57.769 32.000 0.00 0.00 39.73 3.01
5496 5570 4.019174 CCACCCATCAAGCTCACTAATTT 58.981 43.478 0.00 0.00 0.00 1.82
5543 5617 3.741344 CCGCATTATCCTTCGACTTAAGG 59.259 47.826 7.53 0.00 46.35 2.69
5614 5688 5.707764 CCCGTATTCTAGATGATGAGAGTGA 59.292 44.000 0.00 0.00 0.00 3.41
5632 5706 1.913419 ACCAACAATCCTGTCCCGTAT 59.087 47.619 0.00 0.00 33.45 3.06
5798 5876 8.357402 ACAAGTTTCTGACAAACCAAATATACC 58.643 33.333 0.00 0.00 0.00 2.73
5825 5903 3.942748 GTCAACCTTGTTAGTTGTGACCA 59.057 43.478 3.80 0.00 44.02 4.02
5970 6052 7.373493 ACATGAAAGAAAGGACATGAATGAAC 58.627 34.615 0.00 0.00 41.45 3.18
5971 6053 7.528996 ACATGAAAGAAAGGACATGAATGAA 57.471 32.000 0.00 0.00 41.45 2.57
5972 6054 7.884877 ACTACATGAAAGAAAGGACATGAATGA 59.115 33.333 0.00 0.00 41.45 2.57
5990 6072 2.753452 GTTCAGGGTCTCGACTACATGA 59.247 50.000 0.00 0.00 0.00 3.07
6017 6099 0.318107 CGTGTACCAACGTCGGAACT 60.318 55.000 0.00 0.00 38.74 3.01
6021 6103 0.387622 ACATCGTGTACCAACGTCGG 60.388 55.000 5.74 0.00 43.96 4.79
6022 6104 0.706184 CACATCGTGTACCAACGTCG 59.294 55.000 5.74 0.00 43.96 5.12
6042 6124 8.027524 AGTCTCAGGATCTCAGCAAATATTAA 57.972 34.615 0.00 0.00 0.00 1.40
6048 6130 3.867600 GCAAGTCTCAGGATCTCAGCAAA 60.868 47.826 0.00 0.00 0.00 3.68
6061 6143 0.179059 TGTTTCGGCAGCAAGTCTCA 60.179 50.000 0.00 0.00 0.00 3.27
6104 6186 3.243724 GGCACTTCTATCATCCCTACCT 58.756 50.000 0.00 0.00 0.00 3.08
6114 6196 5.297547 TCAAATACCGATGGCACTTCTATC 58.702 41.667 0.00 0.00 0.00 2.08
6129 6211 8.938906 TCACCGACTAGTTTATTTTCAAATACC 58.061 33.333 0.00 0.00 31.03 2.73
6145 6227 2.616376 CTCTCACCAGATCACCGACTAG 59.384 54.545 0.00 0.00 0.00 2.57
6150 6232 0.174389 CCACTCTCACCAGATCACCG 59.826 60.000 0.00 0.00 0.00 4.94
6163 6245 0.244994 GTGTGCAGATCGTCCACTCT 59.755 55.000 12.42 0.00 0.00 3.24
6164 6246 0.038251 TGTGTGCAGATCGTCCACTC 60.038 55.000 12.42 10.09 0.00 3.51
6165 6247 0.037882 CTGTGTGCAGATCGTCCACT 60.038 55.000 12.42 0.00 45.28 4.00
6166 6248 1.016130 CCTGTGTGCAGATCGTCCAC 61.016 60.000 0.00 6.52 45.28 4.02
6167 6249 1.293179 CCTGTGTGCAGATCGTCCA 59.707 57.895 0.00 0.00 45.28 4.02
6168 6250 1.448540 CCCTGTGTGCAGATCGTCC 60.449 63.158 0.00 0.00 45.28 4.79
6169 6251 1.448540 CCCCTGTGTGCAGATCGTC 60.449 63.158 0.00 0.00 45.28 4.20
6170 6252 2.665000 CCCCTGTGTGCAGATCGT 59.335 61.111 0.00 0.00 45.28 3.73
6171 6253 2.821366 GCCCCTGTGTGCAGATCG 60.821 66.667 0.00 0.00 45.28 3.69
6172 6254 1.077212 ATGCCCCTGTGTGCAGATC 60.077 57.895 0.00 0.00 45.28 2.75
6173 6255 1.077212 GATGCCCCTGTGTGCAGAT 60.077 57.895 0.00 0.00 45.28 2.90
6174 6256 2.226315 AGATGCCCCTGTGTGCAGA 61.226 57.895 0.00 0.00 45.28 4.26
6175 6257 2.044555 CAGATGCCCCTGTGTGCAG 61.045 63.158 0.00 0.00 41.46 4.41
6176 6258 2.034532 CAGATGCCCCTGTGTGCA 59.965 61.111 0.00 0.00 42.52 4.57
6177 6259 3.446570 GCAGATGCCCCTGTGTGC 61.447 66.667 0.00 0.00 36.57 4.57
6178 6260 2.034532 TGCAGATGCCCCTGTGTG 59.965 61.111 1.72 0.00 41.18 3.82
6179 6261 2.034687 GTGCAGATGCCCCTGTGT 59.965 61.111 1.72 0.00 41.18 3.72
6180 6262 2.753043 GGTGCAGATGCCCCTGTG 60.753 66.667 1.72 0.00 41.18 3.66
6181 6263 4.052518 GGGTGCAGATGCCCCTGT 62.053 66.667 18.69 0.00 43.68 4.00
6186 6268 2.548127 GAAAAGCGGGTGCAGATGCC 62.548 60.000 1.72 0.00 46.23 4.40
6187 6269 1.153958 GAAAAGCGGGTGCAGATGC 60.154 57.895 0.00 0.00 46.23 3.91
6188 6270 0.597568 TTGAAAAGCGGGTGCAGATG 59.402 50.000 0.00 0.00 46.23 2.90
6189 6271 1.327303 TTTGAAAAGCGGGTGCAGAT 58.673 45.000 0.00 0.00 46.23 2.90
6190 6272 1.107114 TTTTGAAAAGCGGGTGCAGA 58.893 45.000 0.00 0.00 46.23 4.26
6191 6273 1.933247 TTTTTGAAAAGCGGGTGCAG 58.067 45.000 0.00 0.00 46.23 4.41
6192 6274 2.208431 CATTTTTGAAAAGCGGGTGCA 58.792 42.857 0.00 0.00 46.23 4.57
6193 6275 2.209273 ACATTTTTGAAAAGCGGGTGC 58.791 42.857 0.00 0.00 43.24 5.01
6194 6276 4.616953 AGTACATTTTTGAAAAGCGGGTG 58.383 39.130 0.00 0.00 0.00 4.61
6195 6277 4.929819 AGTACATTTTTGAAAAGCGGGT 57.070 36.364 0.00 0.00 0.00 5.28
6196 6278 6.597262 AAAAGTACATTTTTGAAAAGCGGG 57.403 33.333 0.00 0.00 37.89 6.13
6211 6293 9.837525 AACATTACAAAACACGTAAAAAGTACA 57.162 25.926 0.00 0.00 32.84 2.90
6214 6296 8.967552 TCAACATTACAAAACACGTAAAAAGT 57.032 26.923 0.00 0.00 32.84 2.66
6221 6303 9.145865 AGAATTTTTCAACATTACAAAACACGT 57.854 25.926 0.00 0.00 0.00 4.49
6253 6335 5.512753 TGCCGACATGTATGCATATTTTT 57.487 34.783 15.65 0.00 33.30 1.94
6254 6336 5.512753 TTGCCGACATGTATGCATATTTT 57.487 34.783 19.11 0.00 33.30 1.82
6255 6337 5.299028 TCTTTGCCGACATGTATGCATATTT 59.701 36.000 19.11 0.00 33.30 1.40
6256 6338 4.821260 TCTTTGCCGACATGTATGCATATT 59.179 37.500 19.11 0.00 33.30 1.28
6257 6339 4.388485 TCTTTGCCGACATGTATGCATAT 58.612 39.130 19.11 0.00 33.30 1.78
6258 6340 3.802866 TCTTTGCCGACATGTATGCATA 58.197 40.909 19.11 14.48 33.30 3.14
6259 6341 2.642427 TCTTTGCCGACATGTATGCAT 58.358 42.857 19.11 3.79 33.08 3.96
6260 6342 2.106477 TCTTTGCCGACATGTATGCA 57.894 45.000 15.65 15.65 0.00 3.96
6261 6343 3.362986 CGTATCTTTGCCGACATGTATGC 60.363 47.826 11.20 11.20 0.00 3.14
6262 6344 3.802139 ACGTATCTTTGCCGACATGTATG 59.198 43.478 0.00 0.00 0.00 2.39
6263 6345 4.049186 GACGTATCTTTGCCGACATGTAT 58.951 43.478 0.00 0.00 0.00 2.29
6264 6346 3.441163 GACGTATCTTTGCCGACATGTA 58.559 45.455 0.00 0.00 0.00 2.29
6265 6347 2.268298 GACGTATCTTTGCCGACATGT 58.732 47.619 0.00 0.00 0.00 3.21
6266 6348 1.593006 GGACGTATCTTTGCCGACATG 59.407 52.381 0.00 0.00 0.00 3.21
6267 6349 1.206132 TGGACGTATCTTTGCCGACAT 59.794 47.619 0.00 0.00 0.00 3.06
6268 6350 0.604073 TGGACGTATCTTTGCCGACA 59.396 50.000 0.00 0.00 0.00 4.35
6269 6351 0.997196 GTGGACGTATCTTTGCCGAC 59.003 55.000 0.00 0.00 0.00 4.79
6270 6352 0.457166 CGTGGACGTATCTTTGCCGA 60.457 55.000 0.00 0.00 34.11 5.54
6271 6353 1.418342 CCGTGGACGTATCTTTGCCG 61.418 60.000 0.00 0.00 37.74 5.69
6272 6354 1.702491 GCCGTGGACGTATCTTTGCC 61.702 60.000 0.00 0.00 37.74 4.52
6273 6355 1.017177 TGCCGTGGACGTATCTTTGC 61.017 55.000 0.00 0.00 37.74 3.68
6274 6356 0.719465 GTGCCGTGGACGTATCTTTG 59.281 55.000 0.00 0.00 37.74 2.77
6275 6357 0.319083 TGTGCCGTGGACGTATCTTT 59.681 50.000 0.00 0.00 37.74 2.52
6276 6358 0.319083 TTGTGCCGTGGACGTATCTT 59.681 50.000 0.00 0.00 37.74 2.40
6277 6359 0.319083 TTTGTGCCGTGGACGTATCT 59.681 50.000 0.00 0.00 37.74 1.98
6278 6360 1.149987 TTTTGTGCCGTGGACGTATC 58.850 50.000 0.00 0.00 37.74 2.24
6279 6361 1.816074 ATTTTGTGCCGTGGACGTAT 58.184 45.000 0.00 0.00 37.74 3.06
6280 6362 1.595466 AATTTTGTGCCGTGGACGTA 58.405 45.000 0.00 0.00 37.74 3.57
6281 6363 0.741915 AAATTTTGTGCCGTGGACGT 59.258 45.000 0.00 0.00 37.74 4.34
6282 6364 1.520590 CAAAATTTTGTGCCGTGGACG 59.479 47.619 20.57 0.00 34.83 4.79


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

AutoCloner maintained by Alex Coulton.