Multiple sequence alignment - TraesCS5A01G127900

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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 TraesCS5A01G127900 chr5A 100.000 2486 0 0 1 2486 284885108 284887593 0.000000e+00 4591.0
1 TraesCS5A01G127900 chr5A 92.308 91 6 1 1549 1639 284886586 284886675 7.220000e-26 128.0
2 TraesCS5A01G127900 chr5A 92.308 91 6 1 1479 1568 284886656 284886746 7.220000e-26 128.0
3 TraesCS5A01G127900 chr5B 93.587 998 47 5 579 1568 231824686 231825674 0.000000e+00 1472.0
4 TraesCS5A01G127900 chr5B 94.395 339 19 0 1566 1904 231825601 231825939 2.830000e-144 521.0
5 TraesCS5A01G127900 chr5B 90.448 335 25 5 2153 2481 231838411 231838744 3.800000e-118 435.0
6 TraesCS5A01G127900 chr5B 91.139 237 21 0 1927 2163 231836876 231837112 3.080000e-84 322.0
7 TraesCS5A01G127900 chr5B 94.574 129 7 0 434 562 231824575 231824703 1.510000e-47 200.0
8 TraesCS5A01G127900 chr5D 93.409 880 36 7 722 1593 216059712 216060577 0.000000e+00 1284.0
9 TraesCS5A01G127900 chr5D 91.692 325 14 8 251 562 216057602 216057926 2.940000e-119 438.0
10 TraesCS5A01G127900 chr5D 91.429 210 14 3 2220 2425 216060622 216060831 4.050000e-73 285.0
11 TraesCS5A01G127900 chr5D 94.444 144 8 0 579 722 216057909 216058052 3.220000e-54 222.0
12 TraesCS5A01G127900 chr5D 89.011 182 9 1 34 204 216057421 216057602 5.390000e-52 215.0
13 TraesCS5A01G127900 chr5D 82.941 170 14 3 1549 1703 216060458 216060627 3.330000e-29 139.0
14 TraesCS5A01G127900 chr3D 86.508 252 31 3 95 344 11780179 11779929 8.760000e-70 274.0
15 TraesCS5A01G127900 chr3A 85.714 245 29 6 104 346 25304108 25304348 1.140000e-63 254.0
16 TraesCS5A01G127900 chr3A 93.023 43 3 0 64 106 748360122 748360080 2.060000e-06 63.9
17 TraesCS5A01G127900 chr1A 87.234 94 6 4 64 154 497579176 497579086 4.370000e-18 102.0
18 TraesCS5A01G127900 chr7A 79.310 145 22 4 1706 1850 6875028 6875164 7.320000e-16 95.3
19 TraesCS5A01G127900 chr7A 87.302 63 2 3 2058 2120 694804013 694804069 1.600000e-07 67.6
20 TraesCS5A01G127900 chr7A 87.302 63 2 3 2058 2120 694941204 694941260 1.600000e-07 67.6
21 TraesCS5A01G127900 chr7A 87.302 63 2 3 2058 2120 695067518 695067574 1.600000e-07 67.6
22 TraesCS5A01G127900 chr7A 87.931 58 2 2 2063 2120 694796606 694796658 2.060000e-06 63.9
23 TraesCS5A01G127900 chr7A 87.931 58 2 2 2063 2120 694934187 694934239 2.060000e-06 63.9
24 TraesCS5A01G127900 chr7A 87.931 58 2 2 2063 2120 694974749 694974801 2.060000e-06 63.9
25 TraesCS5A01G127900 chr7A 88.235 51 6 0 50 100 639742311 639742361 7.420000e-06 62.1
26 TraesCS5A01G127900 chr1D 85.897 78 3 5 2046 2123 417197860 417197929 2.650000e-10 76.8
27 TraesCS5A01G127900 chr7D 88.710 62 2 2 2062 2123 40003908 40003964 1.230000e-08 71.3
28 TraesCS5A01G127900 chrUn 94.595 37 2 0 64 100 81721601 81721565 9.600000e-05 58.4


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 TraesCS5A01G127900 chr5A 284885108 284887593 2485 False 1615.666667 4591 94.872000 1 2486 3 chr5A.!!$F1 2485
1 TraesCS5A01G127900 chr5B 231824575 231825939 1364 False 731.000000 1472 94.185333 434 1904 3 chr5B.!!$F1 1470
2 TraesCS5A01G127900 chr5B 231836876 231838744 1868 False 378.500000 435 90.793500 1927 2481 2 chr5B.!!$F2 554
3 TraesCS5A01G127900 chr5D 216057421 216060831 3410 False 430.500000 1284 90.487667 34 2425 6 chr5D.!!$F1 2391

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
800 2485 1.15261 CGTACCCCCTAGCAGCCTA 60.153 63.158 0.0 0.0 0.0 3.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2078 3776 0.025513 GCGTTGCTTGCATAGAGACG 59.974 55.0 11.03 11.03 37.01 4.18 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
23 24 6.463995 TGCAAATATGATCCCTAAACCAAC 57.536 37.500 0.00 0.00 0.00 3.77
24 25 6.194235 TGCAAATATGATCCCTAAACCAACT 58.806 36.000 0.00 0.00 0.00 3.16
25 26 7.350382 TGCAAATATGATCCCTAAACCAACTA 58.650 34.615 0.00 0.00 0.00 2.24
26 27 7.836685 TGCAAATATGATCCCTAAACCAACTAA 59.163 33.333 0.00 0.00 0.00 2.24
27 28 8.691797 GCAAATATGATCCCTAAACCAACTAAA 58.308 33.333 0.00 0.00 0.00 1.85
30 31 9.936329 AATATGATCCCTAAACCAACTAAATGT 57.064 29.630 0.00 0.00 0.00 2.71
57 58 5.188327 TGATAAAGGTGATACAGCTCTCG 57.812 43.478 4.01 0.00 41.59 4.04
74 75 2.449730 TCTCGGATATCCCTACACCCTT 59.550 50.000 16.36 0.00 0.00 3.95
124 136 9.850628 ATCTGAAACTTTGTGACATCAAATATG 57.149 29.630 0.00 0.00 36.83 1.78
125 137 8.849168 TCTGAAACTTTGTGACATCAAATATGT 58.151 29.630 0.00 0.00 36.83 2.29
142 154 2.553079 TGTTCAAACGTTTCAGGTGC 57.447 45.000 11.37 0.00 0.00 5.01
146 158 1.403679 TCAAACGTTTCAGGTGCTTGG 59.596 47.619 11.37 0.00 0.00 3.61
156 168 6.292114 CGTTTCAGGTGCTTGGAAATTTTAAC 60.292 38.462 0.00 0.00 33.58 2.01
204 216 8.103305 AGGTGTACACATGAGAAACAGATATTT 58.897 33.333 26.51 0.00 0.00 1.40
205 217 8.177663 GGTGTACACATGAGAAACAGATATTTG 58.822 37.037 26.51 0.00 0.00 2.32
206 218 8.721478 GTGTACACATGAGAAACAGATATTTGT 58.279 33.333 21.14 0.00 0.00 2.83
207 219 8.720562 TGTACACATGAGAAACAGATATTTGTG 58.279 33.333 0.00 0.00 37.75 3.33
208 220 6.615088 ACACATGAGAAACAGATATTTGTGC 58.385 36.000 0.00 0.00 36.24 4.57
209 221 6.432162 ACACATGAGAAACAGATATTTGTGCT 59.568 34.615 0.00 1.09 36.24 4.40
210 222 7.040201 ACACATGAGAAACAGATATTTGTGCTT 60.040 33.333 0.00 0.00 36.24 3.91
211 223 8.453320 CACATGAGAAACAGATATTTGTGCTTA 58.547 33.333 0.00 0.00 29.54 3.09
212 224 9.013229 ACATGAGAAACAGATATTTGTGCTTAA 57.987 29.630 0.00 0.00 0.00 1.85
213 225 9.844790 CATGAGAAACAGATATTTGTGCTTAAA 57.155 29.630 0.00 0.00 0.00 1.52
215 227 9.066892 TGAGAAACAGATATTTGTGCTTAAAGT 57.933 29.630 0.00 0.00 0.00 2.66
216 228 9.334693 GAGAAACAGATATTTGTGCTTAAAGTG 57.665 33.333 0.00 0.00 0.00 3.16
217 229 7.809806 AGAAACAGATATTTGTGCTTAAAGTGC 59.190 33.333 0.00 0.00 0.00 4.40
218 230 6.824305 ACAGATATTTGTGCTTAAAGTGCT 57.176 33.333 0.00 0.00 0.00 4.40
219 231 6.846350 ACAGATATTTGTGCTTAAAGTGCTC 58.154 36.000 0.00 0.00 0.00 4.26
220 232 6.430925 ACAGATATTTGTGCTTAAAGTGCTCA 59.569 34.615 0.00 0.00 33.04 4.26
221 233 7.040478 ACAGATATTTGTGCTTAAAGTGCTCAA 60.040 33.333 0.00 0.00 40.56 3.02
224 236 4.981806 TTGTGCTTAAAGTGCTCAAAGT 57.018 36.364 0.00 0.00 39.76 2.66
225 237 4.981806 TGTGCTTAAAGTGCTCAAAGTT 57.018 36.364 0.00 0.00 32.15 2.66
226 238 5.323371 TGTGCTTAAAGTGCTCAAAGTTT 57.677 34.783 0.00 0.00 32.15 2.66
227 239 5.719173 TGTGCTTAAAGTGCTCAAAGTTTT 58.281 33.333 0.00 0.00 32.15 2.43
228 240 5.576384 TGTGCTTAAAGTGCTCAAAGTTTTG 59.424 36.000 0.00 0.00 39.48 2.44
229 241 5.804979 GTGCTTAAAGTGCTCAAAGTTTTGA 59.195 36.000 7.06 7.06 44.31 2.69
240 252 4.439057 TCAAAGTTTTGAGCACTAGTCGT 58.561 39.130 3.28 0.00 41.88 4.34
241 253 4.873827 TCAAAGTTTTGAGCACTAGTCGTT 59.126 37.500 3.28 0.00 41.88 3.85
242 254 5.353123 TCAAAGTTTTGAGCACTAGTCGTTT 59.647 36.000 3.28 0.00 41.88 3.60
243 255 5.813080 AAGTTTTGAGCACTAGTCGTTTT 57.187 34.783 0.00 0.00 0.00 2.43
244 256 5.405331 AGTTTTGAGCACTAGTCGTTTTC 57.595 39.130 0.00 0.00 0.00 2.29
245 257 5.116882 AGTTTTGAGCACTAGTCGTTTTCT 58.883 37.500 0.00 0.00 0.00 2.52
246 258 5.006746 AGTTTTGAGCACTAGTCGTTTTCTG 59.993 40.000 0.00 0.00 0.00 3.02
247 259 3.026630 TGAGCACTAGTCGTTTTCTGG 57.973 47.619 0.00 0.00 0.00 3.86
248 260 2.364324 TGAGCACTAGTCGTTTTCTGGT 59.636 45.455 0.00 0.00 0.00 4.00
249 261 2.731976 GAGCACTAGTCGTTTTCTGGTG 59.268 50.000 0.00 5.34 43.75 4.17
250 262 2.102588 AGCACTAGTCGTTTTCTGGTGT 59.897 45.455 10.14 0.00 43.16 4.16
260 272 3.555168 CGTTTTCTGGTGTAGAGCTCCTT 60.555 47.826 10.93 0.00 36.61 3.36
291 306 1.742831 TCTGCACGAAAACTTGCAAGT 59.257 42.857 26.36 26.36 42.04 3.16
295 310 2.032924 GCACGAAAACTTGCAAGTACCT 59.967 45.455 31.31 18.51 38.57 3.08
297 312 4.083484 GCACGAAAACTTGCAAGTACCTAT 60.083 41.667 31.31 13.63 38.57 2.57
307 322 8.685838 ACTTGCAAGTACCTATAAAGTTTGAA 57.314 30.769 30.25 0.00 37.52 2.69
336 351 5.437289 TGATGTCGCAAAGTTTCAGATTT 57.563 34.783 0.00 0.00 0.00 2.17
400 420 2.019807 AGGGACGAACCTTGGAGTTA 57.980 50.000 0.00 0.00 37.69 2.24
502 522 1.479323 GACAATGCATTGGATGTGCCT 59.521 47.619 35.85 17.57 41.83 4.75
566 591 9.828039 AACCTAATTAGAGTACTTAATTTCCCG 57.172 33.333 14.28 11.68 0.00 5.14
567 592 7.930325 ACCTAATTAGAGTACTTAATTTCCCGC 59.070 37.037 14.28 0.00 0.00 6.13
568 593 7.929785 CCTAATTAGAGTACTTAATTTCCCGCA 59.070 37.037 14.28 7.59 0.00 5.69
569 594 9.321562 CTAATTAGAGTACTTAATTTCCCGCAA 57.678 33.333 19.20 7.15 0.00 4.85
570 595 8.570068 AATTAGAGTACTTAATTTCCCGCAAA 57.430 30.769 0.00 0.00 0.00 3.68
571 596 7.982761 TTAGAGTACTTAATTTCCCGCAAAA 57.017 32.000 0.00 0.00 0.00 2.44
572 597 8.570068 TTAGAGTACTTAATTTCCCGCAAAAT 57.430 30.769 0.00 0.00 0.00 1.82
573 598 9.669887 TTAGAGTACTTAATTTCCCGCAAAATA 57.330 29.630 0.00 0.00 0.00 1.40
574 599 8.570068 AGAGTACTTAATTTCCCGCAAAATAA 57.430 30.769 0.00 0.00 0.00 1.40
575 600 9.185680 AGAGTACTTAATTTCCCGCAAAATAAT 57.814 29.630 0.00 0.00 0.00 1.28
610 635 8.177119 AGTGCTTAATTGGACTTTTGTATGAA 57.823 30.769 0.00 0.00 35.04 2.57
613 638 7.035612 GCTTAATTGGACTTTTGTATGAAGGG 58.964 38.462 0.00 0.00 0.00 3.95
618 643 3.499745 GGACTTTTGTATGAAGGGTGGGT 60.500 47.826 0.00 0.00 0.00 4.51
622 647 4.938575 TTTGTATGAAGGGTGGGTGTAT 57.061 40.909 0.00 0.00 0.00 2.29
631 656 3.496331 AGGGTGGGTGTATTGAAAGTTG 58.504 45.455 0.00 0.00 0.00 3.16
673 698 4.086457 ACTTTCAGTTTGGACAAGTGGTT 58.914 39.130 0.00 0.00 0.00 3.67
679 704 4.803613 CAGTTTGGACAAGTGGTTAAAAGC 59.196 41.667 0.00 0.00 0.00 3.51
732 2417 7.861176 TCCGTTTAAAATAATGTGCAAAGTC 57.139 32.000 0.00 0.00 0.00 3.01
753 2438 5.893824 AGTCCCCAGCAAAAGGAAAATATAG 59.106 40.000 0.00 0.00 0.00 1.31
794 2479 1.991722 ACCAACCGTACCCCCTAGC 60.992 63.158 0.00 0.00 0.00 3.42
795 2480 1.991167 CCAACCGTACCCCCTAGCA 60.991 63.158 0.00 0.00 0.00 3.49
796 2481 1.520666 CAACCGTACCCCCTAGCAG 59.479 63.158 0.00 0.00 0.00 4.24
797 2482 2.364780 AACCGTACCCCCTAGCAGC 61.365 63.158 0.00 0.00 0.00 5.25
798 2483 3.547513 CCGTACCCCCTAGCAGCC 61.548 72.222 0.00 0.00 0.00 4.85
799 2484 2.444140 CGTACCCCCTAGCAGCCT 60.444 66.667 0.00 0.00 0.00 4.58
800 2485 1.152610 CGTACCCCCTAGCAGCCTA 60.153 63.158 0.00 0.00 0.00 3.93
801 2486 1.179814 CGTACCCCCTAGCAGCCTAG 61.180 65.000 0.00 0.00 40.64 3.02
985 2673 2.109126 GCCACAAGTGATCGGAGGC 61.109 63.158 0.94 0.00 0.00 4.70
1089 2777 1.869574 CGACGATGACGAGGTGCTG 60.870 63.158 0.00 0.00 42.66 4.41
1092 2780 1.244697 ACGATGACGAGGTGCTGACT 61.245 55.000 0.00 0.00 42.66 3.41
1131 2819 3.549827 GCTACAGTCACGGAGAGATGATG 60.550 52.174 0.00 0.00 0.00 3.07
1150 2841 3.417224 TCACCGACGACGACGAGG 61.417 66.667 20.63 17.82 42.66 4.63
1151 2842 3.417224 CACCGACGACGACGAGGA 61.417 66.667 24.84 0.00 42.66 3.71
1152 2843 3.117171 ACCGACGACGACGAGGAG 61.117 66.667 24.84 6.71 42.66 3.69
1222 2913 2.202388 ACCGACACGATACGCACG 60.202 61.111 0.00 0.00 0.00 5.34
1313 3004 2.594962 CGGTCACGGACAGCAACAC 61.595 63.158 6.41 0.00 33.68 3.32
1398 3089 2.607750 AAGAGGAGGCTTGGGCGA 60.608 61.111 0.00 0.00 39.81 5.54
1519 3210 1.002366 CGCGAAGGAAAGGTCAGATG 58.998 55.000 0.00 0.00 0.00 2.90
1520 3211 1.673033 CGCGAAGGAAAGGTCAGATGT 60.673 52.381 0.00 0.00 0.00 3.06
1521 3212 2.416836 CGCGAAGGAAAGGTCAGATGTA 60.417 50.000 0.00 0.00 0.00 2.29
1522 3213 3.596214 GCGAAGGAAAGGTCAGATGTAA 58.404 45.455 0.00 0.00 0.00 2.41
1523 3214 4.000988 GCGAAGGAAAGGTCAGATGTAAA 58.999 43.478 0.00 0.00 0.00 2.01
1524 3215 4.636206 GCGAAGGAAAGGTCAGATGTAAAT 59.364 41.667 0.00 0.00 0.00 1.40
1525 3216 5.447818 GCGAAGGAAAGGTCAGATGTAAATG 60.448 44.000 0.00 0.00 0.00 2.32
1526 3217 5.643777 CGAAGGAAAGGTCAGATGTAAATGT 59.356 40.000 0.00 0.00 0.00 2.71
1527 3218 6.402550 CGAAGGAAAGGTCAGATGTAAATGTG 60.403 42.308 0.00 0.00 0.00 3.21
1528 3219 6.126863 AGGAAAGGTCAGATGTAAATGTGA 57.873 37.500 0.00 0.00 0.00 3.58
1529 3220 6.542821 AGGAAAGGTCAGATGTAAATGTGAA 58.457 36.000 0.00 0.00 0.00 3.18
1530 3221 7.004086 AGGAAAGGTCAGATGTAAATGTGAAA 58.996 34.615 0.00 0.00 0.00 2.69
1531 3222 7.671398 AGGAAAGGTCAGATGTAAATGTGAAAT 59.329 33.333 0.00 0.00 0.00 2.17
1532 3223 8.956426 GGAAAGGTCAGATGTAAATGTGAAATA 58.044 33.333 0.00 0.00 0.00 1.40
1533 3224 9.994432 GAAAGGTCAGATGTAAATGTGAAATAG 57.006 33.333 0.00 0.00 0.00 1.73
1534 3225 7.559590 AGGTCAGATGTAAATGTGAAATAGC 57.440 36.000 0.00 0.00 0.00 2.97
1535 3226 7.112122 AGGTCAGATGTAAATGTGAAATAGCA 58.888 34.615 0.00 0.00 0.00 3.49
1536 3227 7.066284 AGGTCAGATGTAAATGTGAAATAGCAC 59.934 37.037 0.00 0.00 39.22 4.40
1545 3236 4.019792 TGTGAAATAGCACAGACCATGT 57.980 40.909 0.00 0.00 43.35 3.21
1559 3250 5.940470 ACAGACCATGTGAAGAAATAGAACC 59.060 40.000 0.00 0.00 41.91 3.62
1560 3251 6.176183 CAGACCATGTGAAGAAATAGAACCT 58.824 40.000 0.00 0.00 0.00 3.50
1561 3252 6.314896 CAGACCATGTGAAGAAATAGAACCTC 59.685 42.308 0.00 0.00 0.00 3.85
1562 3253 6.013379 AGACCATGTGAAGAAATAGAACCTCA 60.013 38.462 0.00 0.00 0.00 3.86
1563 3254 6.176183 ACCATGTGAAGAAATAGAACCTCAG 58.824 40.000 0.00 0.00 0.00 3.35
1564 3255 6.013379 ACCATGTGAAGAAATAGAACCTCAGA 60.013 38.462 0.00 0.00 0.00 3.27
1565 3256 6.538021 CCATGTGAAGAAATAGAACCTCAGAG 59.462 42.308 0.00 0.00 0.00 3.35
1632 3330 5.178797 ACCATGTGAAGAAATAGAACCTCG 58.821 41.667 0.00 0.00 0.00 4.63
1641 3339 8.098286 TGAAGAAATAGAACCTCGGATGTAAAA 58.902 33.333 0.00 0.00 0.00 1.52
1691 3389 8.918961 ATTTCAGAAACGTGATTGTAAAACAA 57.081 26.923 0.00 0.00 42.95 2.83
1703 3401 5.871396 TTGTAAAACAAAGGGCACCATTA 57.129 34.783 0.00 0.00 42.34 1.90
1751 3449 0.667993 CCGCTCATCTCCTCTCTCAC 59.332 60.000 0.00 0.00 0.00 3.51
1766 3464 3.191581 TCTCTCACTCGCTTAGACAAAGG 59.808 47.826 0.00 0.00 35.58 3.11
1779 3477 6.207614 GCTTAGACAAAGGTGAAAGGAGAAAT 59.792 38.462 0.00 0.00 35.58 2.17
1781 3479 9.454859 CTTAGACAAAGGTGAAAGGAGAAATAT 57.545 33.333 0.00 0.00 0.00 1.28
1783 3481 8.794335 AGACAAAGGTGAAAGGAGAAATATAC 57.206 34.615 0.00 0.00 0.00 1.47
1795 3493 7.259088 AGGAGAAATATACTGGACACAAGTT 57.741 36.000 0.00 0.00 0.00 2.66
1801 3499 6.737254 ATATACTGGACACAAGTTTTTCCG 57.263 37.500 0.00 0.00 0.00 4.30
1810 3508 0.173708 AAGTTTTTCCGGCGCACAAA 59.826 45.000 10.83 1.06 0.00 2.83
1825 3523 1.885388 CAAACACCTCACCGCACGA 60.885 57.895 0.00 0.00 0.00 4.35
1843 3541 4.675510 CACGAACGGCCTAATCTTTACTA 58.324 43.478 0.00 0.00 0.00 1.82
1856 3554 6.803154 AATCTTTACTAGGCACAAACTGAC 57.197 37.500 0.00 0.00 0.00 3.51
1864 3562 0.249031 GCACAAACTGACCTTGGCAC 60.249 55.000 0.00 0.00 0.00 5.01
1900 3598 1.157870 ACAAACCACCGCTGAGAACG 61.158 55.000 0.00 0.00 0.00 3.95
1904 3602 3.767230 CACCGCTGAGAACGCACG 61.767 66.667 0.00 0.00 0.00 5.34
1909 3607 4.415501 CTGAGAACGCACGCGCAC 62.416 66.667 12.02 5.85 44.19 5.34
1911 3609 4.702826 GAGAACGCACGCGCACAC 62.703 66.667 12.02 0.96 44.19 3.82
1918 3616 4.627114 CACGCGCACACACACGAC 62.627 66.667 5.73 0.00 0.00 4.34
1919 3617 4.865761 ACGCGCACACACACGACT 62.866 61.111 5.73 0.00 0.00 4.18
1920 3618 2.728015 CGCGCACACACACGACTA 60.728 61.111 8.75 0.00 0.00 2.59
1921 3619 2.844146 GCGCACACACACGACTAC 59.156 61.111 0.30 0.00 0.00 2.73
1922 3620 1.947146 GCGCACACACACGACTACA 60.947 57.895 0.30 0.00 0.00 2.74
1923 3621 1.282248 GCGCACACACACGACTACAT 61.282 55.000 0.30 0.00 0.00 2.29
1924 3622 0.708370 CGCACACACACGACTACATC 59.292 55.000 0.00 0.00 0.00 3.06
1925 3623 1.778334 GCACACACACGACTACATCA 58.222 50.000 0.00 0.00 0.00 3.07
1932 3630 3.570975 ACACACGACTACATCACTAACCA 59.429 43.478 0.00 0.00 0.00 3.67
1939 3637 4.806330 ACTACATCACTAACCACTTGTCG 58.194 43.478 0.00 0.00 0.00 4.35
1941 3639 3.650139 ACATCACTAACCACTTGTCGAC 58.350 45.455 9.11 9.11 0.00 4.20
1945 3643 1.324718 CTAACCACTTGTCGACGTCG 58.675 55.000 31.30 31.30 41.45 5.12
2017 3715 0.859232 CACACACCGCACTAACTCAC 59.141 55.000 0.00 0.00 0.00 3.51
2058 3756 4.738740 CGCTAACCAGCTAACTACATGTAC 59.261 45.833 0.08 0.00 46.26 2.90
2064 3762 2.159142 AGCTAACTACATGTACGCCCAC 60.159 50.000 0.08 0.00 0.00 4.61
2090 3788 1.351430 GCACGCACGTCTCTATGCAA 61.351 55.000 0.00 0.00 42.17 4.08
2100 3798 0.097674 CTCTATGCAAGCAACGCACC 59.902 55.000 0.00 0.00 43.35 5.01
2114 3812 3.215568 CACCGGCCAAGCAACACA 61.216 61.111 0.00 0.00 0.00 3.72
2115 3813 2.906897 ACCGGCCAAGCAACACAG 60.907 61.111 0.00 0.00 0.00 3.66
2125 3823 3.181487 CCAAGCAACACAGCTACTTGTTT 60.181 43.478 5.09 0.54 45.89 2.83
2126 3824 3.971032 AGCAACACAGCTACTTGTTTC 57.029 42.857 5.09 1.81 44.50 2.78
2159 3857 5.597806 TCAACTAGACTTAACCACACACAG 58.402 41.667 0.00 0.00 0.00 3.66
2163 3861 1.525619 GACTTAACCACACACAGCGTC 59.474 52.381 0.00 0.00 0.00 5.19
2182 5189 5.514279 GCGTCGGCTAACTAACTAATCTAA 58.486 41.667 0.00 0.00 35.83 2.10
2185 5192 7.583230 CGTCGGCTAACTAACTAATCTAATCT 58.417 38.462 0.00 0.00 0.00 2.40
2241 5248 1.444933 ATTGGAACCAGGACCAGACA 58.555 50.000 0.00 0.00 37.48 3.41
2252 5262 1.891150 GGACCAGACACGGAAACTAGA 59.109 52.381 0.00 0.00 0.00 2.43
2315 5326 6.023603 AGAGGTGAAGATGAACCCTTAACTA 58.976 40.000 0.00 0.00 37.13 2.24
2376 5387 4.765339 GCTAGGGTTGGTGAATTTAGTTGT 59.235 41.667 0.00 0.00 0.00 3.32
2404 5415 8.877864 TGTAATAACCCTGAGATGTTTTCAAT 57.122 30.769 0.00 0.00 0.00 2.57
2405 5416 9.308000 TGTAATAACCCTGAGATGTTTTCAATT 57.692 29.630 0.00 0.00 0.00 2.32
2430 5441 6.920569 TTACTTTCCGGAATTTAGAGCATC 57.079 37.500 19.62 0.00 0.00 3.91
2460 5473 6.360947 CGGATCTCTTAAACATGTCTCATACG 59.639 42.308 0.00 0.00 0.00 3.06
2466 5479 1.758936 ACATGTCTCATACGTCCGGA 58.241 50.000 0.00 0.00 0.00 5.14
2468 5481 1.404035 CATGTCTCATACGTCCGGACA 59.596 52.381 32.80 16.29 40.43 4.02
2485 5498 2.527624 AGGCTGCCTGGTCACTCA 60.528 61.111 22.71 0.00 29.57 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.194235 AGTTGGTTTAGGGATCATATTTGCA 58.806 36.000 0.00 0.00 0.00 4.08
1 2 6.715347 AGTTGGTTTAGGGATCATATTTGC 57.285 37.500 0.00 0.00 0.00 3.68
4 5 9.936329 ACATTTAGTTGGTTTAGGGATCATATT 57.064 29.630 0.00 0.00 0.00 1.28
7 8 9.936329 ATTACATTTAGTTGGTTTAGGGATCAT 57.064 29.630 0.00 0.00 0.00 2.45
28 29 9.929180 GAGCTGTATCACCTTTATCATATTACA 57.071 33.333 0.00 0.00 0.00 2.41
31 32 8.031864 CGAGAGCTGTATCACCTTTATCATATT 58.968 37.037 0.00 0.00 0.00 1.28
32 33 7.363355 CCGAGAGCTGTATCACCTTTATCATAT 60.363 40.741 0.00 0.00 0.00 1.78
57 58 6.043938 TGTTCATAAAGGGTGTAGGGATATCC 59.956 42.308 13.87 13.87 0.00 2.59
111 123 8.131731 TGAAACGTTTGAACATATTTGATGTCA 58.868 29.630 20.10 0.47 0.00 3.58
124 136 2.844122 AGCACCTGAAACGTTTGAAC 57.156 45.000 20.10 4.66 0.00 3.18
125 137 2.159310 CCAAGCACCTGAAACGTTTGAA 60.159 45.455 20.10 5.53 0.00 2.69
168 180 8.768501 TCTCATGTGTACACCTTTCTCTATAT 57.231 34.615 22.91 3.08 0.00 0.86
204 216 4.981806 AACTTTGAGCACTTTAAGCACA 57.018 36.364 0.00 0.00 0.00 4.57
205 217 5.804979 TCAAAACTTTGAGCACTTTAAGCAC 59.195 36.000 0.69 0.00 41.88 4.40
206 218 5.960113 TCAAAACTTTGAGCACTTTAAGCA 58.040 33.333 0.69 0.00 41.88 3.91
218 230 4.439057 ACGACTAGTGCTCAAAACTTTGA 58.561 39.130 0.00 4.87 44.31 2.69
219 231 4.795970 ACGACTAGTGCTCAAAACTTTG 57.204 40.909 0.00 0.00 39.48 2.77
220 232 5.813080 AAACGACTAGTGCTCAAAACTTT 57.187 34.783 0.00 0.00 0.00 2.66
221 233 5.585047 AGAAAACGACTAGTGCTCAAAACTT 59.415 36.000 0.00 0.00 0.00 2.66
222 234 5.006746 CAGAAAACGACTAGTGCTCAAAACT 59.993 40.000 0.00 0.00 0.00 2.66
223 235 5.198274 CAGAAAACGACTAGTGCTCAAAAC 58.802 41.667 0.00 0.00 0.00 2.43
224 236 4.272504 CCAGAAAACGACTAGTGCTCAAAA 59.727 41.667 0.00 0.00 0.00 2.44
225 237 3.807622 CCAGAAAACGACTAGTGCTCAAA 59.192 43.478 0.00 0.00 0.00 2.69
226 238 3.181469 ACCAGAAAACGACTAGTGCTCAA 60.181 43.478 0.00 0.00 0.00 3.02
227 239 2.364324 ACCAGAAAACGACTAGTGCTCA 59.636 45.455 0.00 0.00 0.00 4.26
228 240 2.731976 CACCAGAAAACGACTAGTGCTC 59.268 50.000 0.00 0.00 0.00 4.26
229 241 2.102588 ACACCAGAAAACGACTAGTGCT 59.897 45.455 0.00 0.00 32.11 4.40
230 242 2.480845 ACACCAGAAAACGACTAGTGC 58.519 47.619 0.00 0.00 32.11 4.40
231 243 5.117355 TCTACACCAGAAAACGACTAGTG 57.883 43.478 0.00 0.00 34.31 2.74
232 244 4.321082 GCTCTACACCAGAAAACGACTAGT 60.321 45.833 0.00 0.00 31.12 2.57
233 245 4.082679 AGCTCTACACCAGAAAACGACTAG 60.083 45.833 0.00 0.00 31.12 2.57
234 246 3.825014 AGCTCTACACCAGAAAACGACTA 59.175 43.478 0.00 0.00 31.12 2.59
235 247 2.628657 AGCTCTACACCAGAAAACGACT 59.371 45.455 0.00 0.00 31.12 4.18
236 248 2.987821 GAGCTCTACACCAGAAAACGAC 59.012 50.000 6.43 0.00 31.12 4.34
237 249 2.029290 GGAGCTCTACACCAGAAAACGA 60.029 50.000 14.64 0.00 31.12 3.85
238 250 2.028930 AGGAGCTCTACACCAGAAAACG 60.029 50.000 14.64 0.00 31.12 3.60
239 251 3.686916 AGGAGCTCTACACCAGAAAAC 57.313 47.619 14.64 0.00 31.12 2.43
240 252 3.646162 TCAAGGAGCTCTACACCAGAAAA 59.354 43.478 14.64 0.00 31.12 2.29
241 253 3.239449 TCAAGGAGCTCTACACCAGAAA 58.761 45.455 14.64 0.00 31.12 2.52
242 254 2.889512 TCAAGGAGCTCTACACCAGAA 58.110 47.619 14.64 0.00 31.12 3.02
243 255 2.604912 TCAAGGAGCTCTACACCAGA 57.395 50.000 14.64 0.00 0.00 3.86
244 256 3.055530 ACATTCAAGGAGCTCTACACCAG 60.056 47.826 14.64 2.34 0.00 4.00
245 257 2.906389 ACATTCAAGGAGCTCTACACCA 59.094 45.455 14.64 0.00 0.00 4.17
246 258 3.618690 ACATTCAAGGAGCTCTACACC 57.381 47.619 14.64 0.00 0.00 4.16
247 259 5.948992 AAAACATTCAAGGAGCTCTACAC 57.051 39.130 14.64 0.00 0.00 2.90
277 289 7.803724 ACTTTATAGGTACTTGCAAGTTTTCG 58.196 34.615 35.20 16.42 41.75 3.46
278 290 9.961265 AAACTTTATAGGTACTTGCAAGTTTTC 57.039 29.630 35.20 23.83 41.75 2.29
279 291 9.744468 CAAACTTTATAGGTACTTGCAAGTTTT 57.256 29.630 35.20 21.58 41.75 2.43
297 312 8.293157 TGCGACATCAAATATGTTCAAACTTTA 58.707 29.630 0.00 0.00 31.52 1.85
307 322 6.676950 TGAAACTTTGCGACATCAAATATGT 58.323 32.000 0.00 0.00 35.64 2.29
376 396 0.974383 CCAAGGTTCGTCCCTACACT 59.026 55.000 0.00 0.00 36.75 3.55
502 522 9.625747 TGGATCAATGCATGTCTAAACTATAAA 57.374 29.630 0.00 0.00 0.00 1.40
563 588 9.341899 GCACTCTAATTATTATTATTTTGCGGG 57.658 33.333 0.00 0.00 0.00 6.13
579 604 8.860088 ACAAAAGTCCAATTAAGCACTCTAATT 58.140 29.630 0.00 0.00 0.00 1.40
580 605 8.409358 ACAAAAGTCCAATTAAGCACTCTAAT 57.591 30.769 0.00 0.00 0.00 1.73
581 606 7.817418 ACAAAAGTCCAATTAAGCACTCTAA 57.183 32.000 0.00 0.00 0.00 2.10
582 607 8.946085 CATACAAAAGTCCAATTAAGCACTCTA 58.054 33.333 0.00 0.00 0.00 2.43
583 608 7.665559 TCATACAAAAGTCCAATTAAGCACTCT 59.334 33.333 0.00 0.00 0.00 3.24
584 609 7.816640 TCATACAAAAGTCCAATTAAGCACTC 58.183 34.615 0.00 0.00 0.00 3.51
585 610 7.759489 TCATACAAAAGTCCAATTAAGCACT 57.241 32.000 0.00 0.00 0.00 4.40
586 611 7.542130 CCTTCATACAAAAGTCCAATTAAGCAC 59.458 37.037 0.00 0.00 0.00 4.40
587 612 7.309744 CCCTTCATACAAAAGTCCAATTAAGCA 60.310 37.037 0.00 0.00 0.00 3.91
588 613 7.035612 CCCTTCATACAAAAGTCCAATTAAGC 58.964 38.462 0.00 0.00 0.00 3.09
610 635 3.117284 ACAACTTTCAATACACCCACCCT 60.117 43.478 0.00 0.00 0.00 4.34
613 638 6.475402 CAGAAAACAACTTTCAATACACCCAC 59.525 38.462 0.52 0.00 45.15 4.61
618 643 9.698309 TTTTCACAGAAAACAACTTTCAATACA 57.302 25.926 1.09 0.00 45.15 2.29
622 647 8.655651 ACTTTTTCACAGAAAACAACTTTCAA 57.344 26.923 4.55 0.00 45.15 2.69
631 656 7.652300 AAAGTCCAACTTTTTCACAGAAAAC 57.348 32.000 4.55 0.00 45.38 2.43
732 2417 6.790232 TTCTATATTTTCCTTTTGCTGGGG 57.210 37.500 0.00 0.00 0.00 4.96
794 2479 2.888414 GGGAAGAGTACTAGCTAGGCTG 59.112 54.545 24.35 0.67 40.10 4.85
795 2480 2.514582 TGGGAAGAGTACTAGCTAGGCT 59.485 50.000 24.35 20.14 43.41 4.58
796 2481 2.946785 TGGGAAGAGTACTAGCTAGGC 58.053 52.381 24.35 16.03 0.00 3.93
797 2482 3.637694 GGTTGGGAAGAGTACTAGCTAGG 59.362 52.174 24.35 7.13 0.00 3.02
798 2483 4.279145 TGGTTGGGAAGAGTACTAGCTAG 58.721 47.826 19.44 19.44 0.00 3.42
799 2484 4.326600 TGGTTGGGAAGAGTACTAGCTA 57.673 45.455 0.00 0.00 0.00 3.32
800 2485 3.185880 TGGTTGGGAAGAGTACTAGCT 57.814 47.619 0.00 0.00 0.00 3.32
801 2486 3.707102 AGATGGTTGGGAAGAGTACTAGC 59.293 47.826 0.00 0.00 0.00 3.42
1089 2777 3.885521 CCCCCGTCGTCGCTAGTC 61.886 72.222 0.00 0.00 35.54 2.59
1111 2799 2.952310 CCATCATCTCTCCGTGACTGTA 59.048 50.000 0.00 0.00 0.00 2.74
1131 2819 3.642008 CTCGTCGTCGTCGGTGACC 62.642 68.421 11.74 0.00 35.40 4.02
1313 3004 2.520069 AGGCATAGTAGGATGAGACGG 58.480 52.381 0.00 0.00 0.00 4.79
1382 3073 3.080121 CTCGCCCAAGCCTCCTCT 61.080 66.667 0.00 0.00 34.57 3.69
1519 3210 6.494893 TGGTCTGTGCTATTTCACATTTAC 57.505 37.500 0.00 0.00 44.88 2.01
1520 3211 6.658816 ACATGGTCTGTGCTATTTCACATTTA 59.341 34.615 0.00 0.00 44.88 1.40
1521 3212 5.477984 ACATGGTCTGTGCTATTTCACATTT 59.522 36.000 0.00 0.00 44.88 2.32
1522 3213 5.012239 ACATGGTCTGTGCTATTTCACATT 58.988 37.500 0.00 0.00 44.88 2.71
1523 3214 4.592942 ACATGGTCTGTGCTATTTCACAT 58.407 39.130 0.00 0.00 44.88 3.21
1524 3215 4.019792 ACATGGTCTGTGCTATTTCACA 57.980 40.909 0.00 0.00 43.93 3.58
1535 3226 5.940470 GGTTCTATTTCTTCACATGGTCTGT 59.060 40.000 0.00 0.00 39.20 3.41
1536 3227 6.176183 AGGTTCTATTTCTTCACATGGTCTG 58.824 40.000 0.00 0.00 0.00 3.51
1537 3228 6.013379 TGAGGTTCTATTTCTTCACATGGTCT 60.013 38.462 0.00 0.00 0.00 3.85
1538 3229 6.173339 TGAGGTTCTATTTCTTCACATGGTC 58.827 40.000 0.00 0.00 0.00 4.02
1539 3230 6.013379 TCTGAGGTTCTATTTCTTCACATGGT 60.013 38.462 0.00 0.00 0.00 3.55
1540 3231 6.409704 TCTGAGGTTCTATTTCTTCACATGG 58.590 40.000 0.00 0.00 0.00 3.66
1541 3232 7.102346 ACTCTGAGGTTCTATTTCTTCACATG 58.898 38.462 9.85 0.00 0.00 3.21
1542 3233 7.251321 ACTCTGAGGTTCTATTTCTTCACAT 57.749 36.000 9.85 0.00 0.00 3.21
1543 3234 6.672266 ACTCTGAGGTTCTATTTCTTCACA 57.328 37.500 9.85 0.00 0.00 3.58
1544 3235 7.223777 GCATACTCTGAGGTTCTATTTCTTCAC 59.776 40.741 9.85 0.00 0.00 3.18
1545 3236 7.268586 GCATACTCTGAGGTTCTATTTCTTCA 58.731 38.462 9.85 0.00 0.00 3.02
1546 3237 6.419413 CGCATACTCTGAGGTTCTATTTCTTC 59.581 42.308 9.85 0.00 0.00 2.87
1547 3238 6.276847 CGCATACTCTGAGGTTCTATTTCTT 58.723 40.000 9.85 0.00 0.00 2.52
1548 3239 5.737635 GCGCATACTCTGAGGTTCTATTTCT 60.738 44.000 9.85 0.00 0.00 2.52
1549 3240 4.446051 GCGCATACTCTGAGGTTCTATTTC 59.554 45.833 9.85 0.00 0.00 2.17
1550 3241 4.372656 GCGCATACTCTGAGGTTCTATTT 58.627 43.478 9.85 0.00 0.00 1.40
1551 3242 3.551046 CGCGCATACTCTGAGGTTCTATT 60.551 47.826 8.75 0.00 0.00 1.73
1552 3243 2.030717 CGCGCATACTCTGAGGTTCTAT 60.031 50.000 8.75 0.00 0.00 1.98
1553 3244 1.333931 CGCGCATACTCTGAGGTTCTA 59.666 52.381 8.75 0.00 0.00 2.10
1554 3245 0.101399 CGCGCATACTCTGAGGTTCT 59.899 55.000 8.75 0.00 0.00 3.01
1555 3246 0.100682 TCGCGCATACTCTGAGGTTC 59.899 55.000 8.75 0.00 0.00 3.62
1556 3247 0.530744 TTCGCGCATACTCTGAGGTT 59.469 50.000 8.75 0.00 0.00 3.50
1557 3248 0.101399 CTTCGCGCATACTCTGAGGT 59.899 55.000 8.75 0.00 0.00 3.85
1558 3249 0.596083 CCTTCGCGCATACTCTGAGG 60.596 60.000 8.75 0.00 0.00 3.86
1559 3250 0.382158 TCCTTCGCGCATACTCTGAG 59.618 55.000 8.75 2.45 0.00 3.35
1560 3251 0.815095 TTCCTTCGCGCATACTCTGA 59.185 50.000 8.75 0.00 0.00 3.27
1561 3252 1.590238 CTTTCCTTCGCGCATACTCTG 59.410 52.381 8.75 0.00 0.00 3.35
1562 3253 1.471676 CCTTTCCTTCGCGCATACTCT 60.472 52.381 8.75 0.00 0.00 3.24
1563 3254 0.931005 CCTTTCCTTCGCGCATACTC 59.069 55.000 8.75 0.00 0.00 2.59
1564 3255 0.249398 ACCTTTCCTTCGCGCATACT 59.751 50.000 8.75 0.00 0.00 2.12
1565 3256 0.651031 GACCTTTCCTTCGCGCATAC 59.349 55.000 8.75 0.00 0.00 2.39
1632 3330 7.907214 ACAGTTACATCTGACTTTTACATCC 57.093 36.000 0.65 0.00 38.63 3.51
1641 3339 5.670485 TGAACACAACAGTTACATCTGACT 58.330 37.500 0.65 0.00 38.63 3.41
1751 3449 3.433615 CCTTTCACCTTTGTCTAAGCGAG 59.566 47.826 0.00 0.00 32.19 5.03
1766 3464 7.103641 TGTGTCCAGTATATTTCTCCTTTCAC 58.896 38.462 0.00 0.00 0.00 3.18
1779 3477 4.998672 CCGGAAAAACTTGTGTCCAGTATA 59.001 41.667 0.00 0.00 0.00 1.47
1781 3479 3.207778 CCGGAAAAACTTGTGTCCAGTA 58.792 45.455 0.00 0.00 0.00 2.74
1783 3481 1.269051 GCCGGAAAAACTTGTGTCCAG 60.269 52.381 5.05 0.00 0.00 3.86
1795 3493 1.226717 GTGTTTGTGCGCCGGAAAA 60.227 52.632 5.05 0.00 0.00 2.29
1801 3499 2.331451 GTGAGGTGTTTGTGCGCC 59.669 61.111 4.18 0.00 39.22 6.53
1810 3508 2.279918 GTTCGTGCGGTGAGGTGT 60.280 61.111 0.00 0.00 0.00 4.16
1843 3541 1.109323 GCCAAGGTCAGTTTGTGCCT 61.109 55.000 0.00 0.00 35.04 4.75
1856 3554 1.079405 ACGTCGGTATGTGCCAAGG 60.079 57.895 0.00 0.00 0.00 3.61
1884 3582 2.665185 GCGTTCTCAGCGGTGGTT 60.665 61.111 15.67 0.00 0.00 3.67
1904 3602 1.282248 ATGTAGTCGTGTGTGTGCGC 61.282 55.000 0.00 0.00 0.00 6.09
1905 3603 0.708370 GATGTAGTCGTGTGTGTGCG 59.292 55.000 0.00 0.00 0.00 5.34
1906 3604 1.455786 GTGATGTAGTCGTGTGTGTGC 59.544 52.381 0.00 0.00 0.00 4.57
1907 3605 3.013276 AGTGATGTAGTCGTGTGTGTG 57.987 47.619 0.00 0.00 0.00 3.82
1908 3606 4.543692 GTTAGTGATGTAGTCGTGTGTGT 58.456 43.478 0.00 0.00 0.00 3.72
1909 3607 3.918591 GGTTAGTGATGTAGTCGTGTGTG 59.081 47.826 0.00 0.00 0.00 3.82
1910 3608 3.570975 TGGTTAGTGATGTAGTCGTGTGT 59.429 43.478 0.00 0.00 0.00 3.72
1911 3609 3.918591 GTGGTTAGTGATGTAGTCGTGTG 59.081 47.826 0.00 0.00 0.00 3.82
1912 3610 3.825014 AGTGGTTAGTGATGTAGTCGTGT 59.175 43.478 0.00 0.00 0.00 4.49
1913 3611 4.436242 AGTGGTTAGTGATGTAGTCGTG 57.564 45.455 0.00 0.00 0.00 4.35
1914 3612 4.280174 ACAAGTGGTTAGTGATGTAGTCGT 59.720 41.667 0.00 0.00 0.00 4.34
1915 3613 4.806330 ACAAGTGGTTAGTGATGTAGTCG 58.194 43.478 0.00 0.00 0.00 4.18
1916 3614 4.857588 CGACAAGTGGTTAGTGATGTAGTC 59.142 45.833 0.00 0.00 0.00 2.59
1917 3615 4.521639 TCGACAAGTGGTTAGTGATGTAGT 59.478 41.667 0.00 0.00 0.00 2.73
1918 3616 4.857588 GTCGACAAGTGGTTAGTGATGTAG 59.142 45.833 11.55 0.00 0.00 2.74
1919 3617 4.614306 CGTCGACAAGTGGTTAGTGATGTA 60.614 45.833 17.16 0.00 0.00 2.29
1920 3618 3.650139 GTCGACAAGTGGTTAGTGATGT 58.350 45.455 11.55 0.00 0.00 3.06
1921 3619 2.661675 CGTCGACAAGTGGTTAGTGATG 59.338 50.000 17.16 0.00 0.00 3.07
1922 3620 2.295349 ACGTCGACAAGTGGTTAGTGAT 59.705 45.455 17.16 0.00 0.00 3.06
1923 3621 1.677576 ACGTCGACAAGTGGTTAGTGA 59.322 47.619 17.16 0.00 0.00 3.41
1924 3622 2.049228 GACGTCGACAAGTGGTTAGTG 58.951 52.381 17.16 0.00 0.00 2.74
1925 3623 1.334419 CGACGTCGACAAGTGGTTAGT 60.334 52.381 33.35 1.18 43.02 2.24
1997 3695 0.747852 TGAGTTAGTGCGGTGTGTGA 59.252 50.000 0.00 0.00 0.00 3.58
2028 3726 4.151582 GCTGGTTAGCGGCCGGTA 62.152 66.667 31.91 31.91 40.67 4.02
2071 3769 1.351430 TTGCATAGAGACGTGCGTGC 61.351 55.000 0.67 2.19 44.11 5.34
2078 3776 0.025513 GCGTTGCTTGCATAGAGACG 59.974 55.000 11.03 11.03 37.01 4.18
2100 3798 1.965930 TAGCTGTGTTGCTTGGCCG 60.966 57.895 0.00 0.00 43.74 6.13
2114 3812 1.263217 CGCAAACCGAAACAAGTAGCT 59.737 47.619 0.00 0.00 40.02 3.32
2115 3813 1.670326 CGCAAACCGAAACAAGTAGC 58.330 50.000 0.00 0.00 40.02 3.58
2125 3823 0.315886 TCTAGTTGAGCGCAAACCGA 59.684 50.000 18.87 13.98 40.02 4.69
2126 3824 0.438830 GTCTAGTTGAGCGCAAACCG 59.561 55.000 18.87 12.30 35.42 4.44
2159 3857 3.962423 AGATTAGTTAGTTAGCCGACGC 58.038 45.455 0.00 0.00 0.00 5.19
2163 3861 8.732531 AGCTAGATTAGATTAGTTAGTTAGCCG 58.267 37.037 0.00 0.00 32.39 5.52
2241 5248 3.473625 CCCACAAGTTTCTAGTTTCCGT 58.526 45.455 0.00 0.00 0.00 4.69
2252 5262 0.963962 CATGAGCTGCCCACAAGTTT 59.036 50.000 0.00 0.00 0.00 2.66
2315 5326 6.412214 TGTGATCACATGAACTTCATCATCT 58.588 36.000 24.56 0.00 37.96 2.90
2349 5360 4.806640 AAATTCACCAACCCTAGCATTG 57.193 40.909 0.00 0.00 0.00 2.82
2376 5387 9.137459 TGAAAACATCTCAGGGTTATTACAAAA 57.863 29.630 0.00 0.00 0.00 2.44
2404 5415 8.974060 ATGCTCTAAATTCCGGAAAGTAATAA 57.026 30.769 23.08 4.40 0.00 1.40
2405 5416 8.429641 AGATGCTCTAAATTCCGGAAAGTAATA 58.570 33.333 23.08 8.98 0.00 0.98
2408 5419 6.235231 AGATGCTCTAAATTCCGGAAAGTA 57.765 37.500 23.08 13.45 0.00 2.24
2416 5427 3.006967 TCCGGCTAGATGCTCTAAATTCC 59.993 47.826 0.00 0.00 42.39 3.01
2430 5441 4.950050 ACATGTTTAAGAGATCCGGCTAG 58.050 43.478 0.00 0.00 0.00 3.42
2439 5452 6.561614 GGACGTATGAGACATGTTTAAGAGA 58.438 40.000 0.00 0.00 0.00 3.10
2444 5457 3.695556 TCCGGACGTATGAGACATGTTTA 59.304 43.478 0.00 0.00 0.00 2.01
2460 5473 4.767255 CAGGCAGCCTGTCCGGAC 62.767 72.222 30.97 28.17 45.82 4.79
2468 5481 2.527624 TGAGTGACCAGGCAGCCT 60.528 61.111 8.70 8.70 0.00 4.58


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

AutoCloner maintained by Alex Coulton.