Multiple sequence alignment - TraesCS7A01G153800

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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 TraesCS7A01G153800 chr7A 100.000 3663 0 0 1 3663 107154067 107150405 0.000000e+00 6765.0
1 TraesCS7A01G153800 chr7A 88.739 2593 237 32 492 3068 106995253 106992700 0.000000e+00 3120.0
2 TraesCS7A01G153800 chr7A 83.598 2457 294 54 492 2918 106745398 106743021 0.000000e+00 2204.0
3 TraesCS7A01G153800 chr7A 84.638 1354 181 20 1088 2416 107322404 107321053 0.000000e+00 1323.0
4 TraesCS7A01G153800 chr7A 81.317 562 95 7 536 1092 107332968 107332412 7.220000e-122 448.0
5 TraesCS7A01G153800 chr7A 90.594 202 15 3 3269 3470 106992511 106992314 7.800000e-67 265.0
6 TraesCS7A01G153800 chr7A 89.394 66 7 0 3384 3449 106741632 106741567 2.340000e-12 84.2
7 TraesCS7A01G153800 chr7A 94.595 37 1 1 23 58 107336699 107336663 5.110000e-04 56.5
8 TraesCS7A01G153800 chr7B 95.445 3227 115 12 448 3663 60497068 60493863 0.000000e+00 5116.0
9 TraesCS7A01G153800 chr7B 86.431 2631 292 38 477 3073 60092618 60090019 0.000000e+00 2820.0
10 TraesCS7A01G153800 chr7B 83.313 2475 343 40 477 2918 59823607 59821170 0.000000e+00 2218.0
11 TraesCS7A01G153800 chr7B 83.868 1903 273 25 536 2412 60566483 60564589 0.000000e+00 1783.0
12 TraesCS7A01G153800 chr7B 78.363 2297 388 82 536 2788 59668432 59666201 0.000000e+00 1387.0
13 TraesCS7A01G153800 chr7B 80.043 1874 328 35 567 2413 60605444 60603590 0.000000e+00 1347.0
14 TraesCS7A01G153800 chr7B 84.893 1026 107 19 492 1511 60064490 60063507 0.000000e+00 992.0
15 TraesCS7A01G153800 chr7B 84.685 888 119 14 1497 2374 60060327 60059447 0.000000e+00 870.0
16 TraesCS7A01G153800 chr7B 84.627 683 75 9 2361 3034 60051913 60051252 0.000000e+00 652.0
17 TraesCS7A01G153800 chr7B 74.526 1582 313 65 545 2094 61055732 61054209 1.120000e-169 606.0
18 TraesCS7A01G153800 chr7B 86.585 410 41 10 3256 3657 60089831 60089428 1.210000e-119 440.0
19 TraesCS7A01G153800 chr7B 90.798 163 11 3 1 161 60497236 60497076 7.970000e-52 215.0
20 TraesCS7A01G153800 chr7B 86.275 153 12 4 3357 3501 60050834 60050683 1.360000e-34 158.0
21 TraesCS7A01G153800 chr7B 90.278 72 5 2 3402 3471 59820688 59820617 3.890000e-15 93.5
22 TraesCS7A01G153800 chr7D 80.157 1915 335 35 538 2424 102578616 102576719 0.000000e+00 1389.0
23 TraesCS7A01G153800 chr3A 92.440 291 20 2 158 446 62122484 62122774 7.320000e-112 414.0
24 TraesCS7A01G153800 chr1D 92.123 292 21 2 157 446 41220153 41220444 9.470000e-111 411.0
25 TraesCS7A01G153800 chr1D 91.753 291 22 2 158 446 438900328 438900618 1.580000e-108 403.0
26 TraesCS7A01G153800 chr5B 92.096 291 21 2 157 445 323368762 323369052 3.400000e-110 409.0
27 TraesCS7A01G153800 chr6B 91.781 292 22 2 157 446 508151247 508150956 4.400000e-109 405.0
28 TraesCS7A01G153800 chr6B 91.781 292 22 2 157 446 591875091 591875382 4.400000e-109 405.0
29 TraesCS7A01G153800 chr2B 91.781 292 21 3 157 446 612347170 612347460 1.580000e-108 403.0
30 TraesCS7A01G153800 chr2D 91.216 296 24 2 153 446 89336342 89336637 5.700000e-108 401.0
31 TraesCS7A01G153800 chr2D 91.246 297 23 3 155 448 550637236 550636940 5.700000e-108 401.0


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 TraesCS7A01G153800 chr7A 107150405 107154067 3662 True 6765.00 6765 100.0000 1 3663 1 chr7A.!!$R1 3662
1 TraesCS7A01G153800 chr7A 106992314 106995253 2939 True 1692.50 3120 89.6665 492 3470 2 chr7A.!!$R4 2978
2 TraesCS7A01G153800 chr7A 107321053 107322404 1351 True 1323.00 1323 84.6380 1088 2416 1 chr7A.!!$R2 1328
3 TraesCS7A01G153800 chr7A 106741567 106745398 3831 True 1144.10 2204 86.4960 492 3449 2 chr7A.!!$R3 2957
4 TraesCS7A01G153800 chr7A 107332412 107336699 4287 True 252.25 448 87.9560 23 1092 2 chr7A.!!$R5 1069
5 TraesCS7A01G153800 chr7B 60493863 60497236 3373 True 2665.50 5116 93.1215 1 3663 2 chr7B.!!$R9 3662
6 TraesCS7A01G153800 chr7B 60564589 60566483 1894 True 1783.00 1783 83.8680 536 2412 1 chr7B.!!$R2 1876
7 TraesCS7A01G153800 chr7B 60089428 60092618 3190 True 1630.00 2820 86.5080 477 3657 2 chr7B.!!$R8 3180
8 TraesCS7A01G153800 chr7B 59666201 59668432 2231 True 1387.00 1387 78.3630 536 2788 1 chr7B.!!$R1 2252
9 TraesCS7A01G153800 chr7B 60603590 60605444 1854 True 1347.00 1347 80.0430 567 2413 1 chr7B.!!$R3 1846
10 TraesCS7A01G153800 chr7B 59820617 59823607 2990 True 1155.75 2218 86.7955 477 3471 2 chr7B.!!$R5 2994
11 TraesCS7A01G153800 chr7B 60059447 60064490 5043 True 931.00 992 84.7890 492 2374 2 chr7B.!!$R7 1882
12 TraesCS7A01G153800 chr7B 61054209 61055732 1523 True 606.00 606 74.5260 545 2094 1 chr7B.!!$R4 1549
13 TraesCS7A01G153800 chr7B 60050683 60051913 1230 True 405.00 652 85.4510 2361 3501 2 chr7B.!!$R6 1140
14 TraesCS7A01G153800 chr7D 102576719 102578616 1897 True 1389.00 1389 80.1570 538 2424 1 chr7D.!!$R1 1886

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
266 3709 0.037605 AGGTAAGCGGGTTCTTCGTG 60.038 55.000 0.00 0.00 0.00 4.35 F
267 3710 0.037975 GGTAAGCGGGTTCTTCGTGA 60.038 55.000 0.00 0.00 0.00 4.35 F
271 3714 0.038159 AGCGGGTTCTTCGTGAAGAG 60.038 55.000 11.76 2.96 46.80 2.85 F
629 4079 0.196888 ATCATATGGGGCCCTGAGGA 59.803 55.000 25.93 18.51 33.47 3.71 F
642 4092 1.151668 CTGAGGAACTGACCAAAGCG 58.848 55.000 0.00 0.00 41.55 4.68 F
2457 9193 1.226575 GCACCGACGATGACGATGA 60.227 57.895 0.00 0.00 42.66 2.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2247 8977 0.032130 AGCACGTATCGGCGATGAAT 59.968 50.000 31.08 13.60 35.59 2.57 R
2409 9139 1.168714 GACACTTTCCACATCAGCCC 58.831 55.000 0.00 0.00 0.00 5.19 R
2436 9166 2.613739 ATCGTCATCGTCGGTGCCAG 62.614 60.000 0.00 0.00 38.33 4.85 R
2461 9197 0.250252 TGCCATTCTGCAACAGACGA 60.250 50.000 0.00 0.00 40.46 4.20 R
2587 9323 1.676635 GCCATTCTGCTGCACTGGA 60.677 57.895 19.73 5.78 0.00 3.86 R
3347 11433 3.857052 TGTCTATAAAGGACACGCCAAG 58.143 45.455 0.00 0.00 38.57 3.61 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
67 69 3.808618 GCAGCTACAGCCAATATAGCCTT 60.809 47.826 0.00 0.00 41.91 4.35
71 73 5.066593 GCTACAGCCAATATAGCCTTCTTT 58.933 41.667 0.00 0.00 36.18 2.52
92 3535 0.620556 CTCTGGCCCACAAGGTACAT 59.379 55.000 0.00 0.00 38.26 2.29
98 3541 1.065418 GCCCACAAGGTACATAGCTGT 60.065 52.381 0.00 0.00 38.26 4.40
132 3575 7.846644 ATTTCTTTCAAGTTGTGCAAATCAA 57.153 28.000 2.11 0.00 0.00 2.57
161 3604 3.350909 ATGCACGACGCGCCTTAGA 62.351 57.895 5.73 0.00 46.97 2.10
162 3605 3.248171 GCACGACGCGCCTTAGAG 61.248 66.667 5.73 0.00 0.00 2.43
164 3607 3.744719 ACGACGCGCCTTAGAGCA 61.745 61.111 5.73 0.00 39.00 4.26
165 3608 2.506217 CGACGCGCCTTAGAGCAA 60.506 61.111 5.73 0.00 39.00 3.91
166 3609 2.508891 CGACGCGCCTTAGAGCAAG 61.509 63.158 5.73 0.00 39.00 4.01
167 3610 1.446272 GACGCGCCTTAGAGCAAGT 60.446 57.895 5.73 0.00 39.00 3.16
168 3611 0.179145 GACGCGCCTTAGAGCAAGTA 60.179 55.000 5.73 0.00 39.00 2.24
169 3612 0.458025 ACGCGCCTTAGAGCAAGTAC 60.458 55.000 5.73 0.00 39.00 2.73
171 3614 1.722011 GCGCCTTAGAGCAAGTACAA 58.278 50.000 0.00 0.00 38.88 2.41
172 3615 2.280628 GCGCCTTAGAGCAAGTACAAT 58.719 47.619 0.00 0.00 38.88 2.71
173 3616 3.454375 GCGCCTTAGAGCAAGTACAATA 58.546 45.455 0.00 0.00 38.88 1.90
175 3618 4.736759 GCGCCTTAGAGCAAGTACAATAGA 60.737 45.833 0.00 0.00 38.88 1.98
176 3619 4.979197 CGCCTTAGAGCAAGTACAATAGAG 59.021 45.833 0.00 0.00 31.77 2.43
177 3620 4.747605 GCCTTAGAGCAAGTACAATAGAGC 59.252 45.833 0.00 0.00 31.77 4.09
178 3621 5.293560 CCTTAGAGCAAGTACAATAGAGCC 58.706 45.833 0.00 0.00 31.77 4.70
179 3622 3.444703 AGAGCAAGTACAATAGAGCCG 57.555 47.619 0.00 0.00 0.00 5.52
181 3624 3.067461 AGAGCAAGTACAATAGAGCCGAG 59.933 47.826 0.00 0.00 0.00 4.63
182 3625 2.761208 AGCAAGTACAATAGAGCCGAGT 59.239 45.455 0.00 0.00 0.00 4.18
183 3626 3.195825 AGCAAGTACAATAGAGCCGAGTT 59.804 43.478 0.00 0.00 0.00 3.01
184 3627 4.401519 AGCAAGTACAATAGAGCCGAGTTA 59.598 41.667 0.00 0.00 0.00 2.24
185 3628 4.740695 GCAAGTACAATAGAGCCGAGTTAG 59.259 45.833 0.00 0.00 0.00 2.34
187 3630 2.493713 ACAATAGAGCCGAGTTAGCG 57.506 50.000 0.00 0.00 34.64 4.26
199 3642 4.825546 CGAGTTAGCGGACTATAAGGAA 57.174 45.455 0.00 0.00 0.00 3.36
201 3644 6.492007 CGAGTTAGCGGACTATAAGGAATA 57.508 41.667 0.00 0.00 0.00 1.75
202 3645 6.906659 CGAGTTAGCGGACTATAAGGAATAA 58.093 40.000 0.00 0.00 0.00 1.40
203 3646 7.365741 CGAGTTAGCGGACTATAAGGAATAAA 58.634 38.462 0.00 0.00 0.00 1.40
204 3647 7.325579 CGAGTTAGCGGACTATAAGGAATAAAC 59.674 40.741 0.00 0.00 0.00 2.01
205 3648 8.247666 AGTTAGCGGACTATAAGGAATAAACT 57.752 34.615 0.00 0.00 0.00 2.66
206 3649 9.359653 AGTTAGCGGACTATAAGGAATAAACTA 57.640 33.333 0.00 0.00 0.00 2.24
207 3650 9.623350 GTTAGCGGACTATAAGGAATAAACTAG 57.377 37.037 0.00 0.00 0.00 2.57
208 3651 7.836479 AGCGGACTATAAGGAATAAACTAGT 57.164 36.000 0.00 0.00 0.00 2.57
209 3652 8.930846 AGCGGACTATAAGGAATAAACTAGTA 57.069 34.615 0.00 0.00 0.00 1.82
210 3653 9.531158 AGCGGACTATAAGGAATAAACTAGTAT 57.469 33.333 0.00 0.00 0.00 2.12
229 3672 9.614792 ACTAGTATATTTTTGCTTAGTTGGAGG 57.385 33.333 0.00 0.00 0.00 4.30
230 3673 9.832445 CTAGTATATTTTTGCTTAGTTGGAGGA 57.168 33.333 0.00 0.00 0.00 3.71
232 3675 9.528489 AGTATATTTTTGCTTAGTTGGAGGAAA 57.472 29.630 0.00 0.00 33.47 3.13
257 3700 6.510879 AAAAGAAAATAGAAGGTAAGCGGG 57.489 37.500 0.00 0.00 0.00 6.13
258 3701 4.838904 AGAAAATAGAAGGTAAGCGGGT 57.161 40.909 0.00 0.00 0.00 5.28
259 3702 5.175388 AGAAAATAGAAGGTAAGCGGGTT 57.825 39.130 0.00 0.00 0.00 4.11
260 3703 5.183969 AGAAAATAGAAGGTAAGCGGGTTC 58.816 41.667 0.00 0.00 0.00 3.62
261 3704 4.838904 AAATAGAAGGTAAGCGGGTTCT 57.161 40.909 0.00 0.00 33.79 3.01
262 3705 4.838904 AATAGAAGGTAAGCGGGTTCTT 57.161 40.909 0.00 0.00 31.69 2.52
263 3706 2.764439 AGAAGGTAAGCGGGTTCTTC 57.236 50.000 11.35 11.35 35.41 2.87
264 3707 1.067071 AGAAGGTAAGCGGGTTCTTCG 60.067 52.381 12.71 0.00 38.89 3.79
265 3708 0.683412 AAGGTAAGCGGGTTCTTCGT 59.317 50.000 0.00 0.00 0.00 3.85
266 3709 0.037605 AGGTAAGCGGGTTCTTCGTG 60.038 55.000 0.00 0.00 0.00 4.35
267 3710 0.037975 GGTAAGCGGGTTCTTCGTGA 60.038 55.000 0.00 0.00 0.00 4.35
268 3711 1.606224 GGTAAGCGGGTTCTTCGTGAA 60.606 52.381 0.00 0.00 0.00 3.18
269 3712 1.725164 GTAAGCGGGTTCTTCGTGAAG 59.275 52.381 3.17 3.17 39.71 3.02
270 3713 0.391597 AAGCGGGTTCTTCGTGAAGA 59.608 50.000 8.19 8.19 44.94 2.87
271 3714 0.038159 AGCGGGTTCTTCGTGAAGAG 60.038 55.000 11.76 2.96 46.80 2.85
272 3715 1.627550 GCGGGTTCTTCGTGAAGAGC 61.628 60.000 15.55 15.55 46.80 4.09
276 3719 0.793250 GTTCTTCGTGAAGAGCCAGC 59.207 55.000 13.56 1.54 46.80 4.85
277 3720 0.681733 TTCTTCGTGAAGAGCCAGCT 59.318 50.000 11.76 0.00 46.80 4.24
278 3721 0.244994 TCTTCGTGAAGAGCCAGCTC 59.755 55.000 11.78 11.78 42.06 4.09
286 3729 2.888863 GAGCCAGCTCTAGCACGT 59.111 61.111 12.42 0.00 45.16 4.49
287 3730 1.518133 GAGCCAGCTCTAGCACGTG 60.518 63.158 12.28 12.28 45.16 4.49
288 3731 3.191539 GCCAGCTCTAGCACGTGC 61.192 66.667 32.79 32.79 45.16 5.34
298 3741 4.170723 GCACGTGCTCCTAGTCAC 57.829 61.111 32.55 0.00 38.21 3.67
299 3742 1.587054 GCACGTGCTCCTAGTCACT 59.413 57.895 32.55 0.00 38.21 3.41
300 3743 0.038159 GCACGTGCTCCTAGTCACTT 60.038 55.000 32.55 0.00 38.21 3.16
301 3744 1.605712 GCACGTGCTCCTAGTCACTTT 60.606 52.381 32.55 0.00 38.21 2.66
302 3745 2.352421 GCACGTGCTCCTAGTCACTTTA 60.352 50.000 32.55 0.00 38.21 1.85
303 3746 3.676324 GCACGTGCTCCTAGTCACTTTAT 60.676 47.826 32.55 0.00 38.21 1.40
304 3747 3.859961 CACGTGCTCCTAGTCACTTTATG 59.140 47.826 0.82 0.00 0.00 1.90
305 3748 3.762288 ACGTGCTCCTAGTCACTTTATGA 59.238 43.478 0.00 0.00 33.79 2.15
306 3749 4.142359 ACGTGCTCCTAGTCACTTTATGAG 60.142 45.833 0.00 0.00 38.28 2.90
307 3750 4.096532 CGTGCTCCTAGTCACTTTATGAGA 59.903 45.833 0.00 0.00 38.28 3.27
308 3751 5.393135 CGTGCTCCTAGTCACTTTATGAGAA 60.393 44.000 0.00 0.00 38.28 2.87
309 3752 6.578023 GTGCTCCTAGTCACTTTATGAGAAT 58.422 40.000 0.00 0.00 38.28 2.40
310 3753 7.468768 CGTGCTCCTAGTCACTTTATGAGAATA 60.469 40.741 0.00 0.00 38.28 1.75
311 3754 8.198109 GTGCTCCTAGTCACTTTATGAGAATAA 58.802 37.037 0.00 0.00 38.28 1.40
312 3755 8.758829 TGCTCCTAGTCACTTTATGAGAATAAA 58.241 33.333 0.00 0.00 38.28 1.40
313 3756 9.601217 GCTCCTAGTCACTTTATGAGAATAAAA 57.399 33.333 0.00 0.00 38.28 1.52
316 3759 9.892130 CCTAGTCACTTTATGAGAATAAAAGGT 57.108 33.333 0.00 0.00 38.28 3.50
318 3761 8.567285 AGTCACTTTATGAGAATAAAAGGTGG 57.433 34.615 9.11 0.00 38.28 4.61
319 3762 7.611855 AGTCACTTTATGAGAATAAAAGGTGGG 59.388 37.037 9.11 0.00 38.28 4.61
320 3763 6.377146 TCACTTTATGAGAATAAAAGGTGGGC 59.623 38.462 9.11 0.00 31.87 5.36
321 3764 5.656859 ACTTTATGAGAATAAAAGGTGGGCC 59.343 40.000 0.00 0.00 0.00 5.80
322 3765 3.756082 ATGAGAATAAAAGGTGGGCCA 57.244 42.857 0.00 0.00 37.19 5.36
323 3766 2.802719 TGAGAATAAAAGGTGGGCCAC 58.197 47.619 28.69 28.69 37.19 5.01
324 3767 2.109128 TGAGAATAAAAGGTGGGCCACA 59.891 45.455 35.69 17.34 35.86 4.17
325 3768 3.245586 TGAGAATAAAAGGTGGGCCACAT 60.246 43.478 35.69 28.70 35.86 3.21
326 3769 4.017958 TGAGAATAAAAGGTGGGCCACATA 60.018 41.667 35.69 22.35 35.86 2.29
327 3770 4.941713 AGAATAAAAGGTGGGCCACATAA 58.058 39.130 35.69 19.45 35.86 1.90
328 3771 5.528337 AGAATAAAAGGTGGGCCACATAAT 58.472 37.500 35.69 23.37 35.86 1.28
329 3772 6.678547 AGAATAAAAGGTGGGCCACATAATA 58.321 36.000 35.69 24.62 35.86 0.98
330 3773 7.129425 AGAATAAAAGGTGGGCCACATAATAA 58.871 34.615 35.69 17.00 35.86 1.40
331 3774 7.621683 AGAATAAAAGGTGGGCCACATAATAAA 59.378 33.333 35.69 16.00 35.86 1.40
332 3775 7.741554 ATAAAAGGTGGGCCACATAATAAAA 57.258 32.000 35.69 13.93 35.86 1.52
333 3776 6.441088 AAAAGGTGGGCCACATAATAAAAA 57.559 33.333 35.69 0.00 35.86 1.94
383 3826 7.921786 TTGTATATGTTGGCTATAAGATGGC 57.078 36.000 0.00 0.00 35.84 4.40
384 3827 7.257790 TGTATATGTTGGCTATAAGATGGCT 57.742 36.000 0.00 0.00 36.91 4.75
385 3828 7.689299 TGTATATGTTGGCTATAAGATGGCTT 58.311 34.615 0.00 0.00 36.91 4.35
386 3829 7.607607 TGTATATGTTGGCTATAAGATGGCTTG 59.392 37.037 0.00 0.00 36.91 4.01
387 3830 4.235079 TGTTGGCTATAAGATGGCTTGT 57.765 40.909 0.00 0.00 36.91 3.16
388 3831 5.366482 TGTTGGCTATAAGATGGCTTGTA 57.634 39.130 0.00 0.00 36.91 2.41
389 3832 5.750524 TGTTGGCTATAAGATGGCTTGTAA 58.249 37.500 0.00 0.00 36.91 2.41
390 3833 6.184068 TGTTGGCTATAAGATGGCTTGTAAA 58.816 36.000 0.00 0.00 36.91 2.01
391 3834 6.833416 TGTTGGCTATAAGATGGCTTGTAAAT 59.167 34.615 0.00 0.00 36.91 1.40
392 3835 6.882610 TGGCTATAAGATGGCTTGTAAATG 57.117 37.500 0.00 0.00 36.91 2.32
393 3836 6.600388 TGGCTATAAGATGGCTTGTAAATGA 58.400 36.000 0.00 0.00 36.91 2.57
394 3837 6.486657 TGGCTATAAGATGGCTTGTAAATGAC 59.513 38.462 0.00 0.00 36.91 3.06
395 3838 6.486657 GGCTATAAGATGGCTTGTAAATGACA 59.513 38.462 0.00 0.00 36.91 3.58
396 3839 7.175641 GGCTATAAGATGGCTTGTAAATGACAT 59.824 37.037 0.00 0.00 36.91 3.06
397 3840 8.019669 GCTATAAGATGGCTTGTAAATGACATG 58.980 37.037 0.00 0.00 38.07 3.21
398 3841 5.587388 AAGATGGCTTGTAAATGACATGG 57.413 39.130 0.00 0.00 38.07 3.66
402 3845 3.855689 GCTTGTAAATGACATGGCACT 57.144 42.857 1.45 0.00 38.07 4.40
403 3846 4.963276 GCTTGTAAATGACATGGCACTA 57.037 40.909 1.45 0.00 38.07 2.74
404 3847 4.913376 GCTTGTAAATGACATGGCACTAG 58.087 43.478 1.45 0.00 38.07 2.57
405 3848 4.731773 GCTTGTAAATGACATGGCACTAGC 60.732 45.833 1.45 5.40 38.07 3.42
406 3849 4.220693 TGTAAATGACATGGCACTAGCT 57.779 40.909 1.45 0.00 35.22 3.32
407 3850 4.588899 TGTAAATGACATGGCACTAGCTT 58.411 39.130 1.45 0.00 35.22 3.74
408 3851 5.739959 TGTAAATGACATGGCACTAGCTTA 58.260 37.500 1.45 0.00 35.22 3.09
409 3852 6.356556 TGTAAATGACATGGCACTAGCTTAT 58.643 36.000 1.45 0.00 35.22 1.73
410 3853 7.505258 TGTAAATGACATGGCACTAGCTTATA 58.495 34.615 1.45 0.00 35.22 0.98
411 3854 7.657354 TGTAAATGACATGGCACTAGCTTATAG 59.343 37.037 1.45 0.00 35.22 1.31
412 3855 5.815233 ATGACATGGCACTAGCTTATAGT 57.185 39.130 1.45 0.00 41.70 2.12
413 3856 5.201713 TGACATGGCACTAGCTTATAGTC 57.798 43.478 0.00 0.00 41.70 2.59
414 3857 4.649218 TGACATGGCACTAGCTTATAGTCA 59.351 41.667 0.00 0.00 41.70 3.41
418 3861 3.068732 TGGCACTAGCTTATAGTCAGCAG 59.931 47.826 0.00 0.00 39.99 4.24
419 3862 3.056304 GCACTAGCTTATAGTCAGCAGC 58.944 50.000 0.00 0.00 39.99 5.25
420 3863 3.243704 GCACTAGCTTATAGTCAGCAGCT 60.244 47.826 0.00 0.00 44.83 4.24
423 3866 1.202627 AGCTTATAGTCAGCAGCTGGC 60.203 52.381 20.03 20.03 41.17 4.85
441 3884 7.046652 CAGCTGGCTATACTATTAATCATGCT 58.953 38.462 5.57 0.00 0.00 3.79
442 3885 7.224362 CAGCTGGCTATACTATTAATCATGCTC 59.776 40.741 5.57 0.00 0.00 4.26
443 3886 7.125507 AGCTGGCTATACTATTAATCATGCTCT 59.874 37.037 0.00 0.00 0.00 4.09
444 3887 7.768120 GCTGGCTATACTATTAATCATGCTCTT 59.232 37.037 0.00 0.00 0.00 2.85
460 3903 3.698539 TGCTCTTACTCCTCACTCTGATG 59.301 47.826 0.00 0.00 0.00 3.07
534 3977 5.068987 TGCCTAATTGTTCCAAGATTATGCC 59.931 40.000 0.00 0.00 30.65 4.40
564 4014 3.799963 CGGCTAATTCTGTGTTGCGTATA 59.200 43.478 0.00 0.00 0.00 1.47
629 4079 0.196888 ATCATATGGGGCCCTGAGGA 59.803 55.000 25.93 18.51 33.47 3.71
642 4092 1.151668 CTGAGGAACTGACCAAAGCG 58.848 55.000 0.00 0.00 41.55 4.68
651 4101 1.741770 GACCAAAGCGGATCGTGCT 60.742 57.895 5.33 5.33 46.68 4.40
703 4153 3.117625 TCCGGTTATCTCCTTCTCTAGCA 60.118 47.826 0.00 0.00 0.00 3.49
704 4154 3.829601 CCGGTTATCTCCTTCTCTAGCAT 59.170 47.826 0.00 0.00 0.00 3.79
705 4155 4.282195 CCGGTTATCTCCTTCTCTAGCATT 59.718 45.833 0.00 0.00 0.00 3.56
757 4213 3.452627 GGAAGATCTAACAGCTCCTGGAA 59.547 47.826 0.00 0.00 35.51 3.53
827 4283 4.161001 TCCTAATCCAGAAACCGGTAGAAC 59.839 45.833 8.00 0.00 0.00 3.01
855 4311 8.295569 ACAGAAGAAAACTAGATACACGAAAC 57.704 34.615 0.00 0.00 0.00 2.78
1004 4466 4.708909 TGATATCTTCGAGGCTGCTATGAT 59.291 41.667 3.98 0.00 0.00 2.45
1038 4500 4.692625 CCTCTCCCGTGCTATGAATATTTG 59.307 45.833 0.00 0.00 0.00 2.32
1070 4532 8.797438 CAATGGTACTTATGATGAGCTAGTAGA 58.203 37.037 0.00 0.00 0.00 2.59
1114 4582 3.872240 GCTTACTCCAACCCACTTGCATA 60.872 47.826 0.00 0.00 0.00 3.14
1728 8423 1.822990 CAGCAAGCCTGTCATCCATTT 59.177 47.619 0.00 0.00 36.79 2.32
2064 8764 4.143986 AGCTACTCAACCTAATGCCTTC 57.856 45.455 0.00 0.00 0.00 3.46
2075 8775 7.233962 TCAACCTAATGCCTTCGTATATTCCTA 59.766 37.037 0.00 0.00 0.00 2.94
2261 8991 2.602217 GGCACAAATTCATCGCCGATAC 60.602 50.000 0.00 0.00 32.14 2.24
2380 9110 8.229253 TGTTGCTGATAAGCATTATGAGATTT 57.771 30.769 5.32 0.00 43.73 2.17
2409 9139 3.924686 GCCAAATGCATTGAGTTGAGAAG 59.075 43.478 13.82 0.00 41.85 2.85
2452 9188 2.094659 CACTGGCACCGACGATGAC 61.095 63.158 0.00 0.00 0.00 3.06
2453 9189 2.880879 CTGGCACCGACGATGACG 60.881 66.667 0.00 0.00 45.75 4.35
2454 9190 3.336715 CTGGCACCGACGATGACGA 62.337 63.158 0.00 0.00 42.66 4.20
2455 9191 2.104331 GGCACCGACGATGACGAT 59.896 61.111 0.00 0.00 42.66 3.73
2456 9192 2.230940 GGCACCGACGATGACGATG 61.231 63.158 0.00 0.00 42.66 3.84
2457 9193 1.226575 GCACCGACGATGACGATGA 60.227 57.895 0.00 0.00 42.66 2.92
2587 9323 1.229625 TGGGGACACAGAGCCTGAT 60.230 57.895 8.91 0.00 35.18 2.90
2671 9410 3.512329 TGTGCGATGTCTAAGGTAAAGGA 59.488 43.478 0.00 0.00 0.00 3.36
2689 9428 0.737219 GAAAGCGCCAGATGCTCATT 59.263 50.000 2.29 0.00 43.14 2.57
2791 9541 4.357325 TGGAAAGAAGAGGTAGATGCTCT 58.643 43.478 0.00 0.00 0.00 4.09
2812 9562 6.705381 GCTCTGTGTGCATATTCTCTTTAGAT 59.295 38.462 0.00 0.00 0.00 1.98
2815 9566 5.985530 TGTGTGCATATTCTCTTTAGATCGG 59.014 40.000 0.00 0.00 0.00 4.18
2897 9653 7.898100 ACATAGATGGTGATGAGACAGGTATAT 59.102 37.037 0.00 0.00 0.00 0.86
3042 10143 8.261522 TGTCACATATGTAGTGTATGCCTTTAA 58.738 33.333 8.32 0.00 38.16 1.52
3050 10151 6.937465 TGTAGTGTATGCCTTTAAATGTGTGA 59.063 34.615 0.00 0.00 0.00 3.58
3142 11091 1.119684 TGCCCGCAGAGTACATGTAT 58.880 50.000 9.18 0.00 0.00 2.29
3341 11426 6.014771 TCTCCAGCTCCTTTATAGACAGTA 57.985 41.667 0.00 0.00 0.00 2.74
3347 11433 8.831550 CCAGCTCCTTTATAGACAGTATTTTTC 58.168 37.037 0.00 0.00 0.00 2.29
3382 11468 6.540189 CCTTTATAGACAGTTGATGGTTGAGG 59.460 42.308 0.00 0.00 0.00 3.86
3423 11516 5.630121 ACATACATGGTCTTGGTGAAGAAA 58.370 37.500 0.00 0.00 40.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 2.660064 GGAGGTCATGGCAGGTCGT 61.660 63.158 0.00 0.00 0.00 4.34
18 19 1.976132 ATGGAGGTCATGGCAGGTCG 61.976 60.000 0.00 0.00 34.22 4.79
58 59 3.497584 GGCCAGAGCAAAGAAGGCTATAT 60.498 47.826 0.00 0.00 42.78 0.86
59 60 2.158755 GGCCAGAGCAAAGAAGGCTATA 60.159 50.000 0.00 0.00 42.78 1.31
67 69 0.538057 CTTGTGGGCCAGAGCAAAGA 60.538 55.000 6.40 0.00 42.56 2.52
71 73 1.845664 TACCTTGTGGGCCAGAGCA 60.846 57.895 6.40 0.00 42.56 4.26
92 3535 2.504175 AGAAATTTCGGCCCTACAGCTA 59.496 45.455 12.42 0.00 0.00 3.32
98 3541 4.403734 ACTTGAAAGAAATTTCGGCCCTA 58.596 39.130 12.42 1.00 33.80 3.53
150 3593 0.458025 GTACTTGCTCTAAGGCGCGT 60.458 55.000 8.43 0.00 40.84 6.01
154 3597 4.747605 GCTCTATTGTACTTGCTCTAAGGC 59.252 45.833 0.00 0.00 40.84 4.35
161 3604 2.761208 ACTCGGCTCTATTGTACTTGCT 59.239 45.455 0.00 0.00 0.00 3.91
162 3605 3.166489 ACTCGGCTCTATTGTACTTGC 57.834 47.619 0.00 0.00 0.00 4.01
164 3607 4.497674 CGCTAACTCGGCTCTATTGTACTT 60.498 45.833 0.00 0.00 0.00 2.24
165 3608 3.003482 CGCTAACTCGGCTCTATTGTACT 59.997 47.826 0.00 0.00 0.00 2.73
166 3609 3.298317 CGCTAACTCGGCTCTATTGTAC 58.702 50.000 0.00 0.00 0.00 2.90
167 3610 2.292569 CCGCTAACTCGGCTCTATTGTA 59.707 50.000 0.00 0.00 43.18 2.41
168 3611 1.067212 CCGCTAACTCGGCTCTATTGT 59.933 52.381 0.00 0.00 43.18 2.71
169 3612 1.772182 CCGCTAACTCGGCTCTATTG 58.228 55.000 0.00 0.00 43.18 1.90
178 3621 4.825546 TTCCTTATAGTCCGCTAACTCG 57.174 45.455 0.00 0.00 0.00 4.18
179 3622 8.358895 AGTTTATTCCTTATAGTCCGCTAACTC 58.641 37.037 0.00 0.00 0.00 3.01
181 3624 9.623350 CTAGTTTATTCCTTATAGTCCGCTAAC 57.377 37.037 0.00 0.00 0.00 2.34
182 3625 9.359653 ACTAGTTTATTCCTTATAGTCCGCTAA 57.640 33.333 0.00 0.00 0.00 3.09
183 3626 8.930846 ACTAGTTTATTCCTTATAGTCCGCTA 57.069 34.615 0.00 0.00 0.00 4.26
184 3627 7.836479 ACTAGTTTATTCCTTATAGTCCGCT 57.164 36.000 0.00 0.00 0.00 5.52
203 3646 9.614792 CCTCCAACTAAGCAAAAATATACTAGT 57.385 33.333 0.00 0.00 0.00 2.57
204 3647 9.832445 TCCTCCAACTAAGCAAAAATATACTAG 57.168 33.333 0.00 0.00 0.00 2.57
206 3649 9.528489 TTTCCTCCAACTAAGCAAAAATATACT 57.472 29.630 0.00 0.00 0.00 2.12
233 3676 6.492429 ACCCGCTTACCTTCTATTTTCTTTTT 59.508 34.615 0.00 0.00 0.00 1.94
234 3677 6.008331 ACCCGCTTACCTTCTATTTTCTTTT 58.992 36.000 0.00 0.00 0.00 2.27
235 3678 5.567430 ACCCGCTTACCTTCTATTTTCTTT 58.433 37.500 0.00 0.00 0.00 2.52
236 3679 5.175388 ACCCGCTTACCTTCTATTTTCTT 57.825 39.130 0.00 0.00 0.00 2.52
237 3680 4.838904 ACCCGCTTACCTTCTATTTTCT 57.161 40.909 0.00 0.00 0.00 2.52
238 3681 5.183969 AGAACCCGCTTACCTTCTATTTTC 58.816 41.667 0.00 0.00 0.00 2.29
239 3682 5.175388 AGAACCCGCTTACCTTCTATTTT 57.825 39.130 0.00 0.00 0.00 1.82
240 3683 4.838904 AGAACCCGCTTACCTTCTATTT 57.161 40.909 0.00 0.00 0.00 1.40
241 3684 4.679905 CGAAGAACCCGCTTACCTTCTATT 60.680 45.833 0.00 0.00 33.14 1.73
242 3685 3.181478 CGAAGAACCCGCTTACCTTCTAT 60.181 47.826 0.00 0.00 33.14 1.98
243 3686 2.165030 CGAAGAACCCGCTTACCTTCTA 59.835 50.000 0.00 0.00 33.14 2.10
244 3687 1.067071 CGAAGAACCCGCTTACCTTCT 60.067 52.381 0.00 0.00 33.14 2.85
245 3688 1.337541 ACGAAGAACCCGCTTACCTTC 60.338 52.381 0.00 0.00 0.00 3.46
246 3689 0.683412 ACGAAGAACCCGCTTACCTT 59.317 50.000 0.00 0.00 0.00 3.50
247 3690 0.037605 CACGAAGAACCCGCTTACCT 60.038 55.000 0.00 0.00 0.00 3.08
248 3691 0.037975 TCACGAAGAACCCGCTTACC 60.038 55.000 0.00 0.00 0.00 2.85
249 3692 1.725164 CTTCACGAAGAACCCGCTTAC 59.275 52.381 0.20 0.00 40.79 2.34
250 3693 1.614903 TCTTCACGAAGAACCCGCTTA 59.385 47.619 7.03 0.00 43.79 3.09
251 3694 0.391597 TCTTCACGAAGAACCCGCTT 59.608 50.000 7.03 0.00 43.79 4.68
252 3695 0.038159 CTCTTCACGAAGAACCCGCT 60.038 55.000 10.53 0.00 45.75 5.52
253 3696 1.627550 GCTCTTCACGAAGAACCCGC 61.628 60.000 10.53 6.91 45.75 6.13
254 3697 1.014564 GGCTCTTCACGAAGAACCCG 61.015 60.000 15.48 4.25 44.12 5.28
255 3698 2.842320 GGCTCTTCACGAAGAACCC 58.158 57.895 15.48 12.17 44.12 4.11
257 3700 0.793250 GCTGGCTCTTCACGAAGAAC 59.207 55.000 10.53 6.33 45.75 3.01
258 3701 0.681733 AGCTGGCTCTTCACGAAGAA 59.318 50.000 10.53 0.00 45.75 2.52
259 3702 0.244994 GAGCTGGCTCTTCACGAAGA 59.755 55.000 14.51 9.08 44.47 2.87
260 3703 2.748268 GAGCTGGCTCTTCACGAAG 58.252 57.895 14.51 0.08 39.80 3.79
261 3704 4.996976 GAGCTGGCTCTTCACGAA 57.003 55.556 14.51 0.00 39.80 3.85
269 3712 1.518133 CACGTGCTAGAGCTGGCTC 60.518 63.158 14.02 14.02 42.66 4.70
270 3713 2.575993 CACGTGCTAGAGCTGGCT 59.424 61.111 0.82 0.00 42.66 4.75
271 3714 3.191539 GCACGTGCTAGAGCTGGC 61.192 66.667 32.55 1.87 42.66 4.85
281 3724 0.038159 AAGTGACTAGGAGCACGTGC 60.038 55.000 32.79 32.79 39.88 5.34
282 3725 2.440539 AAAGTGACTAGGAGCACGTG 57.559 50.000 12.28 12.28 39.88 4.49
283 3726 3.762288 TCATAAAGTGACTAGGAGCACGT 59.238 43.478 0.00 0.00 39.88 4.49
284 3727 4.096532 TCTCATAAAGTGACTAGGAGCACG 59.903 45.833 0.00 0.00 39.88 5.34
285 3728 5.584253 TCTCATAAAGTGACTAGGAGCAC 57.416 43.478 0.00 0.00 32.22 4.40
286 3729 6.798427 ATTCTCATAAAGTGACTAGGAGCA 57.202 37.500 0.00 0.00 32.22 4.26
287 3730 9.601217 TTTTATTCTCATAAAGTGACTAGGAGC 57.399 33.333 0.00 0.00 36.43 4.70
290 3733 9.892130 ACCTTTTATTCTCATAAAGTGACTAGG 57.108 33.333 0.00 0.00 36.43 3.02
292 3735 9.667107 CCACCTTTTATTCTCATAAAGTGACTA 57.333 33.333 7.92 0.00 35.21 2.59
293 3736 7.611855 CCCACCTTTTATTCTCATAAAGTGACT 59.388 37.037 7.92 0.00 35.21 3.41
294 3737 7.628580 GCCCACCTTTTATTCTCATAAAGTGAC 60.629 40.741 7.92 0.00 35.21 3.67
295 3738 6.377146 GCCCACCTTTTATTCTCATAAAGTGA 59.623 38.462 7.92 0.00 35.21 3.41
296 3739 6.405842 GGCCCACCTTTTATTCTCATAAAGTG 60.406 42.308 0.00 0.00 36.43 3.16
297 3740 5.656859 GGCCCACCTTTTATTCTCATAAAGT 59.343 40.000 0.00 0.00 36.43 2.66
298 3741 5.656416 TGGCCCACCTTTTATTCTCATAAAG 59.344 40.000 0.00 0.00 36.43 1.85
299 3742 5.420739 GTGGCCCACCTTTTATTCTCATAAA 59.579 40.000 1.17 0.00 36.63 1.40
300 3743 4.953579 GTGGCCCACCTTTTATTCTCATAA 59.046 41.667 1.17 0.00 36.63 1.90
301 3744 4.017958 TGTGGCCCACCTTTTATTCTCATA 60.018 41.667 12.25 0.00 36.63 2.15
302 3745 3.245586 TGTGGCCCACCTTTTATTCTCAT 60.246 43.478 12.25 0.00 36.63 2.90
303 3746 2.109128 TGTGGCCCACCTTTTATTCTCA 59.891 45.455 12.25 0.00 36.63 3.27
304 3747 2.802719 TGTGGCCCACCTTTTATTCTC 58.197 47.619 12.25 0.00 36.63 2.87
305 3748 2.990740 TGTGGCCCACCTTTTATTCT 57.009 45.000 12.25 0.00 36.63 2.40
306 3749 5.869649 ATTATGTGGCCCACCTTTTATTC 57.130 39.130 12.25 0.00 36.63 1.75
307 3750 7.741554 TTTATTATGTGGCCCACCTTTTATT 57.258 32.000 12.25 0.00 36.63 1.40
308 3751 7.741554 TTTTATTATGTGGCCCACCTTTTAT 57.258 32.000 12.25 0.00 36.63 1.40
309 3752 7.554959 TTTTTATTATGTGGCCCACCTTTTA 57.445 32.000 12.25 0.00 36.63 1.52
310 3753 6.441088 TTTTTATTATGTGGCCCACCTTTT 57.559 33.333 12.25 0.00 36.63 2.27
357 3800 9.613428 GCCATCTTATAGCCAACATATACAATA 57.387 33.333 0.00 0.00 0.00 1.90
358 3801 8.331740 AGCCATCTTATAGCCAACATATACAAT 58.668 33.333 0.00 0.00 0.00 2.71
359 3802 7.689299 AGCCATCTTATAGCCAACATATACAA 58.311 34.615 0.00 0.00 0.00 2.41
360 3803 7.257790 AGCCATCTTATAGCCAACATATACA 57.742 36.000 0.00 0.00 0.00 2.29
361 3804 7.607991 ACAAGCCATCTTATAGCCAACATATAC 59.392 37.037 0.00 0.00 0.00 1.47
362 3805 7.689299 ACAAGCCATCTTATAGCCAACATATA 58.311 34.615 0.00 0.00 0.00 0.86
363 3806 6.546484 ACAAGCCATCTTATAGCCAACATAT 58.454 36.000 0.00 0.00 0.00 1.78
364 3807 5.940617 ACAAGCCATCTTATAGCCAACATA 58.059 37.500 0.00 0.00 0.00 2.29
365 3808 4.796606 ACAAGCCATCTTATAGCCAACAT 58.203 39.130 0.00 0.00 0.00 2.71
366 3809 4.235079 ACAAGCCATCTTATAGCCAACA 57.765 40.909 0.00 0.00 0.00 3.33
367 3810 6.693315 TTTACAAGCCATCTTATAGCCAAC 57.307 37.500 0.00 0.00 0.00 3.77
368 3811 7.013274 GTCATTTACAAGCCATCTTATAGCCAA 59.987 37.037 0.00 0.00 0.00 4.52
369 3812 6.486657 GTCATTTACAAGCCATCTTATAGCCA 59.513 38.462 0.00 0.00 0.00 4.75
370 3813 6.486657 TGTCATTTACAAGCCATCTTATAGCC 59.513 38.462 0.00 0.00 34.29 3.93
371 3814 7.496529 TGTCATTTACAAGCCATCTTATAGC 57.503 36.000 0.00 0.00 34.29 2.97
372 3815 8.509690 CCATGTCATTTACAAGCCATCTTATAG 58.490 37.037 0.00 0.00 42.70 1.31
373 3816 7.040478 GCCATGTCATTTACAAGCCATCTTATA 60.040 37.037 0.00 0.00 42.70 0.98
374 3817 6.239120 GCCATGTCATTTACAAGCCATCTTAT 60.239 38.462 0.00 0.00 42.70 1.73
375 3818 5.067674 GCCATGTCATTTACAAGCCATCTTA 59.932 40.000 0.00 0.00 42.70 2.10
376 3819 4.142093 GCCATGTCATTTACAAGCCATCTT 60.142 41.667 0.00 0.00 42.70 2.40
377 3820 3.382546 GCCATGTCATTTACAAGCCATCT 59.617 43.478 0.00 0.00 42.70 2.90
378 3821 3.130869 TGCCATGTCATTTACAAGCCATC 59.869 43.478 0.00 0.00 42.70 3.51
379 3822 3.098377 TGCCATGTCATTTACAAGCCAT 58.902 40.909 0.00 0.00 42.70 4.40
380 3823 2.230992 GTGCCATGTCATTTACAAGCCA 59.769 45.455 0.00 0.00 42.70 4.75
381 3824 2.493278 AGTGCCATGTCATTTACAAGCC 59.507 45.455 0.00 0.00 42.70 4.35
382 3825 3.855689 AGTGCCATGTCATTTACAAGC 57.144 42.857 0.00 0.00 42.70 4.01
383 3826 4.637534 AGCTAGTGCCATGTCATTTACAAG 59.362 41.667 0.00 0.00 40.10 3.16
384 3827 4.588899 AGCTAGTGCCATGTCATTTACAA 58.411 39.130 0.00 0.00 40.10 2.41
385 3828 4.220693 AGCTAGTGCCATGTCATTTACA 57.779 40.909 0.00 0.00 40.68 2.41
386 3829 6.867662 ATAAGCTAGTGCCATGTCATTTAC 57.132 37.500 0.00 0.00 40.80 2.01
387 3830 7.735917 ACTATAAGCTAGTGCCATGTCATTTA 58.264 34.615 0.00 0.00 40.80 1.40
388 3831 6.595682 ACTATAAGCTAGTGCCATGTCATTT 58.404 36.000 0.00 0.00 40.80 2.32
389 3832 6.179906 ACTATAAGCTAGTGCCATGTCATT 57.820 37.500 0.00 0.00 40.80 2.57
390 3833 5.305386 TGACTATAAGCTAGTGCCATGTCAT 59.695 40.000 0.00 0.00 40.80 3.06
391 3834 4.649218 TGACTATAAGCTAGTGCCATGTCA 59.351 41.667 0.00 0.00 40.80 3.58
392 3835 5.201713 TGACTATAAGCTAGTGCCATGTC 57.798 43.478 0.00 0.00 40.80 3.06
393 3836 4.502259 GCTGACTATAAGCTAGTGCCATGT 60.502 45.833 0.00 0.00 40.80 3.21
394 3837 3.993081 GCTGACTATAAGCTAGTGCCATG 59.007 47.826 0.00 0.00 40.80 3.66
395 3838 3.643320 TGCTGACTATAAGCTAGTGCCAT 59.357 43.478 0.00 0.00 41.42 4.40
396 3839 3.031013 TGCTGACTATAAGCTAGTGCCA 58.969 45.455 0.00 0.00 41.42 4.92
397 3840 3.648009 CTGCTGACTATAAGCTAGTGCC 58.352 50.000 0.00 0.00 41.42 5.01
398 3841 3.056304 GCTGCTGACTATAAGCTAGTGC 58.944 50.000 0.00 0.00 41.42 4.40
399 3842 4.297510 CAGCTGCTGACTATAAGCTAGTG 58.702 47.826 24.88 0.00 44.00 2.74
400 3843 3.320541 CCAGCTGCTGACTATAAGCTAGT 59.679 47.826 30.10 0.00 44.00 2.57
401 3844 3.860378 GCCAGCTGCTGACTATAAGCTAG 60.860 52.174 30.10 10.14 44.00 3.42
402 3845 2.036475 GCCAGCTGCTGACTATAAGCTA 59.964 50.000 30.10 0.00 44.00 3.32
403 3846 1.202627 GCCAGCTGCTGACTATAAGCT 60.203 52.381 30.10 0.00 46.70 3.74
404 3847 1.224965 GCCAGCTGCTGACTATAAGC 58.775 55.000 30.10 18.50 41.22 3.09
418 3861 7.271511 AGAGCATGATTAATAGTATAGCCAGC 58.728 38.462 0.00 0.00 0.00 4.85
427 3870 8.364142 GTGAGGAGTAAGAGCATGATTAATAGT 58.636 37.037 0.00 0.00 0.00 2.12
429 3872 8.484214 AGTGAGGAGTAAGAGCATGATTAATA 57.516 34.615 0.00 0.00 0.00 0.98
432 3875 6.040278 CAGAGTGAGGAGTAAGAGCATGATTA 59.960 42.308 0.00 0.00 0.00 1.75
436 3879 3.698539 TCAGAGTGAGGAGTAAGAGCATG 59.301 47.826 0.00 0.00 0.00 4.06
441 3884 4.340666 GCATCATCAGAGTGAGGAGTAAGA 59.659 45.833 0.00 0.00 40.71 2.10
442 3885 4.501229 GGCATCATCAGAGTGAGGAGTAAG 60.501 50.000 0.00 0.00 40.71 2.34
443 3886 3.386078 GGCATCATCAGAGTGAGGAGTAA 59.614 47.826 0.00 0.00 40.71 2.24
444 3887 2.961741 GGCATCATCAGAGTGAGGAGTA 59.038 50.000 0.00 0.00 40.71 2.59
446 3889 1.269673 CGGCATCATCAGAGTGAGGAG 60.270 57.143 0.00 0.00 40.71 3.69
490 3933 4.021981 GGCAAGAAAATGAGCCTACTGTTT 60.022 41.667 0.00 0.00 43.70 2.83
534 3977 3.127548 ACACAGAATTAGCCGAGCAAATG 59.872 43.478 0.00 0.00 0.00 2.32
564 4014 0.527565 GGTCATCGGCTGCAAAACAT 59.472 50.000 0.50 0.00 0.00 2.71
586 4036 1.250328 TGCACTTGCCCATTCTTGAG 58.750 50.000 0.00 0.00 41.18 3.02
629 4079 0.034896 ACGATCCGCTTTGGTCAGTT 59.965 50.000 0.00 0.00 39.52 3.16
703 4153 2.951642 CACACGATGCTGGGGAAATAAT 59.048 45.455 0.00 0.00 0.00 1.28
704 4154 2.364632 CACACGATGCTGGGGAAATAA 58.635 47.619 0.00 0.00 0.00 1.40
705 4155 2.036958 CACACGATGCTGGGGAAATA 57.963 50.000 0.00 0.00 0.00 1.40
782 4238 5.476945 GGAAAGGTTATGTTGTCACTTCCAT 59.523 40.000 0.00 0.00 0.00 3.41
827 4283 9.569167 TTCGTGTATCTAGTTTTCTTCTGTATG 57.431 33.333 0.00 0.00 0.00 2.39
855 4311 2.483491 GCTTCTGCAACTCTTCCTTGAG 59.517 50.000 0.00 0.00 39.41 3.02
930 4392 5.920903 TCGGAATAAGGATCGGTAACATTT 58.079 37.500 0.00 0.00 0.00 2.32
1004 4466 3.681594 GCACGGGAGAGGATGTAAATTCA 60.682 47.826 0.00 0.00 0.00 2.57
1038 4500 6.203723 GCTCATCATAAGTACCATTGAAGACC 59.796 42.308 0.00 0.00 0.00 3.85
1070 4532 0.838608 TACCCCCAAAGACACGTTGT 59.161 50.000 0.00 0.00 0.00 3.32
1728 8423 1.412710 ACGGAGTCTCTTTGCAGTCAA 59.587 47.619 0.00 0.00 29.74 3.18
2075 8775 4.342092 AGGCTGCACTACAAAGAACAAATT 59.658 37.500 0.50 0.00 0.00 1.82
2088 8811 2.356665 TTTTTGTCCAGGCTGCACTA 57.643 45.000 10.40 0.00 0.00 2.74
2247 8977 0.032130 AGCACGTATCGGCGATGAAT 59.968 50.000 31.08 13.60 35.59 2.57
2409 9139 1.168714 GACACTTTCCACATCAGCCC 58.831 55.000 0.00 0.00 0.00 5.19
2436 9166 2.613739 ATCGTCATCGTCGGTGCCAG 62.614 60.000 0.00 0.00 38.33 4.85
2453 9189 2.095008 TCTGCAACAGACGAGACTCATC 60.095 50.000 2.82 0.00 35.39 2.92
2454 9190 1.889170 TCTGCAACAGACGAGACTCAT 59.111 47.619 2.82 0.00 35.39 2.90
2455 9191 1.318576 TCTGCAACAGACGAGACTCA 58.681 50.000 2.82 0.00 35.39 3.41
2456 9192 2.423926 TTCTGCAACAGACGAGACTC 57.576 50.000 0.00 0.00 40.46 3.36
2457 9193 2.611473 CCATTCTGCAACAGACGAGACT 60.611 50.000 0.00 0.00 40.46 3.24
2461 9197 0.250252 TGCCATTCTGCAACAGACGA 60.250 50.000 0.00 0.00 40.46 4.20
2494 9230 3.737559 AATGGTTGTTGATCAGGGCTA 57.262 42.857 0.00 0.00 0.00 3.93
2587 9323 1.676635 GCCATTCTGCTGCACTGGA 60.677 57.895 19.73 5.78 0.00 3.86
2637 9376 3.455327 ACATCGCACATCTCAATCTGAG 58.545 45.455 0.00 0.00 45.59 3.35
2651 9390 4.811969 TTCCTTTACCTTAGACATCGCA 57.188 40.909 0.00 0.00 0.00 5.10
2689 9428 8.557592 TCACTTAAATGACGAGAGAAGTACTA 57.442 34.615 0.00 0.00 0.00 1.82
2791 9541 5.985530 CCGATCTAAAGAGAATATGCACACA 59.014 40.000 0.00 0.00 34.61 3.72
2812 9562 9.410556 GTACTACTTTGAAAACATAAGTACCGA 57.589 33.333 0.00 0.00 34.60 4.69
2815 9566 9.410556 TCGGTACTACTTTGAAAACATAAGTAC 57.589 33.333 0.00 0.00 38.08 2.73
3042 10143 4.716784 TCCTAGTAGGCTGAATCACACATT 59.283 41.667 11.75 0.00 34.61 2.71
3050 10151 4.230455 AGCATTCTCCTAGTAGGCTGAAT 58.770 43.478 21.47 21.47 38.13 2.57
3224 11174 9.551734 CACTCACTGAATATATCCAATTCAAGA 57.448 33.333 1.99 2.81 41.50 3.02
3334 11419 4.134563 ACACGCCAAGAAAAATACTGTCT 58.865 39.130 0.00 0.00 0.00 3.41
3341 11426 5.722021 ATAAAGGACACGCCAAGAAAAAT 57.278 34.783 0.00 0.00 40.02 1.82
3347 11433 3.857052 TGTCTATAAAGGACACGCCAAG 58.143 45.455 0.00 0.00 38.57 3.61
3382 11468 6.862209 TGTATGTTGGAGATTATGGTTTTGC 58.138 36.000 0.00 0.00 0.00 3.68


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

AutoCloner maintained by Alex Coulton.