Multiple sequence alignment - TraesCS3B01G404200

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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 TraesCS3B01G404200 chr3B 100.000 3532 0 0 1 3532 638959471 638963002 0.000000e+00 6523.0
1 TraesCS3B01G404200 chr3B 92.310 3342 172 32 227 3532 639148625 639151917 0.000000e+00 4669.0
2 TraesCS3B01G404200 chr3B 92.227 3332 191 21 234 3532 639552857 639556153 0.000000e+00 4656.0
3 TraesCS3B01G404200 chr3B 92.755 2595 148 15 241 2820 639398409 639400978 0.000000e+00 3714.0
4 TraesCS3B01G404200 chr3B 89.417 2504 197 40 227 2721 639753474 639755918 0.000000e+00 3094.0
5 TraesCS3B01G404200 chr3B 82.407 1404 212 22 1469 2855 639834835 639836220 0.000000e+00 1192.0
6 TraesCS3B01G404200 chr3B 91.401 628 36 2 2906 3532 639401150 639401760 0.000000e+00 845.0
7 TraesCS3B01G404200 chr3B 82.897 725 91 21 741 1464 639468497 639469189 3.870000e-174 621.0
8 TraesCS3B01G404200 chr3B 98.830 171 1 1 1 171 639397816 639397985 1.590000e-78 303.0
9 TraesCS3B01G404200 chr3B 98.830 171 1 1 1 171 639552204 639552373 1.590000e-78 303.0
10 TraesCS3B01G404200 chr3B 98.246 171 2 1 1 171 639753304 639753473 7.410000e-77 298.0
11 TraesCS3B01G404200 chr3B 96.000 150 4 2 1 150 639148425 639148572 3.520000e-60 243.0
12 TraesCS3B01G404200 chr3B 78.716 296 49 5 2864 3149 639779415 639779706 6.020000e-43 185.0
13 TraesCS3B01G404200 chr3B 100.000 37 0 0 135 171 639148588 639148624 6.330000e-08 69.4
14 TraesCS3B01G404200 chr3B 100.000 28 0 0 2927 2954 639756244 639756271 6.000000e-03 52.8
15 TraesCS3B01G404200 chr3D 92.551 2967 172 25 227 3154 478737836 478740792 0.000000e+00 4209.0
16 TraesCS3B01G404200 chr3D 85.893 2644 276 50 238 2832 479449720 479452315 0.000000e+00 2726.0
17 TraesCS3B01G404200 chr3D 83.794 1376 183 26 1478 2840 478755902 478757250 0.000000e+00 1269.0
18 TraesCS3B01G404200 chr3D 83.585 1322 177 20 1538 2844 478751505 478752801 0.000000e+00 1203.0
19 TraesCS3B01G404200 chr3D 82.692 728 94 17 741 1465 478757830 478758528 5.010000e-173 617.0
20 TraesCS3B01G404200 chr3D 84.880 582 58 16 238 810 479918918 479918358 8.560000e-156 560.0
21 TraesCS3B01G404200 chr3D 92.328 378 29 0 3155 3532 478740829 478741206 4.010000e-149 538.0
22 TraesCS3B01G404200 chr3D 88.618 369 39 3 414 782 479122043 479122408 2.500000e-121 446.0
23 TraesCS3B01G404200 chr3D 83.905 379 39 9 3153 3531 479214970 479215326 3.380000e-90 342.0
24 TraesCS3B01G404200 chr3D 82.322 379 46 7 3153 3531 479912452 479912095 3.420000e-80 309.0
25 TraesCS3B01G404200 chr3D 81.530 379 49 7 3153 3531 479452703 479453060 3.450000e-75 292.0
26 TraesCS3B01G404200 chr3D 96.512 172 3 3 1 171 478737666 478737835 7.460000e-72 281.0
27 TraesCS3B01G404200 chr3D 80.656 305 45 5 2860 3154 479122840 479123140 1.280000e-54 224.0
28 TraesCS3B01G404200 chr3A 90.037 2941 191 35 238 3152 622276817 622279681 0.000000e+00 3714.0
29 TraesCS3B01G404200 chr3A 84.011 1401 169 28 238 1611 622817669 622819041 0.000000e+00 1295.0
30 TraesCS3B01G404200 chr3A 83.428 1406 161 33 238 1611 622709269 622710634 0.000000e+00 1240.0
31 TraesCS3B01G404200 chr3A 82.511 1418 164 37 238 1611 622898881 622900258 0.000000e+00 1168.0
32 TraesCS3B01G404200 chr3A 90.714 280 22 1 3157 3436 622279723 622279998 1.550000e-98 370.0
33 TraesCS3B01G404200 chr3A 81.675 382 49 7 3150 3531 622712201 622712561 7.410000e-77 298.0
34 TraesCS3B01G404200 chr3A 80.789 380 50 9 3153 3531 622893120 622893477 3.470000e-70 276.0
35 TraesCS3B01G404200 chr3A 80.656 305 44 5 2860 3154 622711870 622712169 4.590000e-54 222.0
36 TraesCS3B01G404200 chr3A 79.344 305 49 4 2860 3154 622720589 622720889 5.980000e-48 202.0
37 TraesCS3B01G404200 chr3A 76.508 315 58 6 3153 3461 622722815 622723119 1.310000e-34 158.0
38 TraesCS3B01G404200 chr3A 94.048 84 5 0 8 91 622276670 622276753 1.030000e-25 128.0
39 TraesCS3B01G404200 chr7B 100.000 57 0 0 171 227 674191986 674192042 4.820000e-19 106.0
40 TraesCS3B01G404200 chr4A 98.361 61 0 1 171 230 701961989 701961929 4.820000e-19 106.0
41 TraesCS3B01G404200 chr2B 100.000 57 0 0 171 227 360849976 360849920 4.820000e-19 106.0
42 TraesCS3B01G404200 chr2B 100.000 57 0 0 171 227 476403060 476403116 4.820000e-19 106.0
43 TraesCS3B01G404200 chr2B 91.429 70 4 2 171 240 53409018 53408951 1.040000e-15 95.3
44 TraesCS3B01G404200 chr1B 100.000 57 0 0 171 227 8172769 8172825 4.820000e-19 106.0
45 TraesCS3B01G404200 chr1A 100.000 57 0 0 171 227 406150797 406150853 4.820000e-19 106.0
46 TraesCS3B01G404200 chr7A 96.721 61 1 1 171 231 509845296 509845237 2.240000e-17 100.0
47 TraesCS3B01G404200 chr6A 94.737 57 3 0 171 227 613967616 613967672 4.860000e-14 89.8


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 TraesCS3B01G404200 chr3B 638959471 638963002 3531 False 6523.000000 6523 100.000000 1 3532 1 chr3B.!!$F1 3531
1 TraesCS3B01G404200 chr3B 639552204 639556153 3949 False 2479.500000 4656 95.528500 1 3532 2 chr3B.!!$F7 3531
2 TraesCS3B01G404200 chr3B 639148425 639151917 3492 False 1660.466667 4669 96.103333 1 3532 3 chr3B.!!$F5 3531
3 TraesCS3B01G404200 chr3B 639397816 639401760 3944 False 1620.666667 3714 94.328667 1 3532 3 chr3B.!!$F6 3531
4 TraesCS3B01G404200 chr3B 639834835 639836220 1385 False 1192.000000 1192 82.407000 1469 2855 1 chr3B.!!$F4 1386
5 TraesCS3B01G404200 chr3B 639753304 639756271 2967 False 1148.266667 3094 95.887667 1 2954 3 chr3B.!!$F8 2953
6 TraesCS3B01G404200 chr3B 639468497 639469189 692 False 621.000000 621 82.897000 741 1464 1 chr3B.!!$F2 723
7 TraesCS3B01G404200 chr3D 478737666 478741206 3540 False 1676.000000 4209 93.797000 1 3532 3 chr3D.!!$F2 3531
8 TraesCS3B01G404200 chr3D 479449720 479453060 3340 False 1509.000000 2726 83.711500 238 3531 2 chr3D.!!$F5 3293
9 TraesCS3B01G404200 chr3D 478751505 478758528 7023 False 1029.666667 1269 83.357000 741 2844 3 chr3D.!!$F3 2103
10 TraesCS3B01G404200 chr3D 479918358 479918918 560 True 560.000000 560 84.880000 238 810 1 chr3D.!!$R2 572
11 TraesCS3B01G404200 chr3D 479122043 479123140 1097 False 335.000000 446 84.637000 414 3154 2 chr3D.!!$F4 2740
12 TraesCS3B01G404200 chr3A 622276670 622279998 3328 False 1404.000000 3714 91.599667 8 3436 3 chr3A.!!$F4 3428
13 TraesCS3B01G404200 chr3A 622817669 622819041 1372 False 1295.000000 1295 84.011000 238 1611 1 chr3A.!!$F1 1373
14 TraesCS3B01G404200 chr3A 622898881 622900258 1377 False 1168.000000 1168 82.511000 238 1611 1 chr3A.!!$F3 1373
15 TraesCS3B01G404200 chr3A 622709269 622712561 3292 False 586.666667 1240 81.919667 238 3531 3 chr3A.!!$F5 3293

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
592 1144 0.319727 CGGCCACACACGGTTTACTA 60.320 55.0 2.24 0.0 0.0 1.82 F
1407 3790 0.179089 CTGAGATCAACAGGGAGCCG 60.179 60.0 10.72 0.0 0.0 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1935 6189 0.242825 CGGCTGACTCACGGTTCTTA 59.757 55.0 0.0 0.0 0.0 2.10 R
2958 7504 0.904865 TGTCAAGGCTCACGGGATCT 60.905 55.0 0.0 0.0 0.0 2.75 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
34 35 7.630082 GCTCTATCTGATTTTGCTTTTCCATGT 60.630 37.037 0.00 0.00 0.00 3.21
171 203 3.827302 AGAACACGGAAGAGTCAGTATGT 59.173 43.478 0.00 0.00 37.40 2.29
172 204 4.281182 AGAACACGGAAGAGTCAGTATGTT 59.719 41.667 0.00 0.00 37.40 2.71
173 205 3.914312 ACACGGAAGAGTCAGTATGTTG 58.086 45.455 0.00 0.00 37.40 3.33
174 206 3.572682 ACACGGAAGAGTCAGTATGTTGA 59.427 43.478 0.00 0.00 37.40 3.18
175 207 4.220821 ACACGGAAGAGTCAGTATGTTGAT 59.779 41.667 0.00 0.00 37.40 2.57
176 208 4.564372 CACGGAAGAGTCAGTATGTTGATG 59.436 45.833 0.00 0.00 37.40 3.07
177 209 4.115516 CGGAAGAGTCAGTATGTTGATGG 58.884 47.826 0.00 0.00 37.40 3.51
178 210 3.873952 GGAAGAGTCAGTATGTTGATGGC 59.126 47.826 0.00 0.00 37.40 4.40
179 211 4.383552 GGAAGAGTCAGTATGTTGATGGCT 60.384 45.833 0.00 0.00 37.40 4.75
180 212 4.833478 AGAGTCAGTATGTTGATGGCTT 57.167 40.909 0.00 0.00 37.40 4.35
181 213 5.171339 AGAGTCAGTATGTTGATGGCTTT 57.829 39.130 0.00 0.00 37.40 3.51
182 214 4.940046 AGAGTCAGTATGTTGATGGCTTTG 59.060 41.667 0.00 0.00 37.40 2.77
183 215 4.655963 AGTCAGTATGTTGATGGCTTTGT 58.344 39.130 0.00 0.00 37.40 2.83
184 216 5.072741 AGTCAGTATGTTGATGGCTTTGTT 58.927 37.500 0.00 0.00 37.40 2.83
185 217 6.237901 AGTCAGTATGTTGATGGCTTTGTTA 58.762 36.000 0.00 0.00 37.40 2.41
186 218 6.714810 AGTCAGTATGTTGATGGCTTTGTTAA 59.285 34.615 0.00 0.00 37.40 2.01
187 219 7.394359 AGTCAGTATGTTGATGGCTTTGTTAAT 59.606 33.333 0.00 0.00 37.40 1.40
188 220 8.028938 GTCAGTATGTTGATGGCTTTGTTAATT 58.971 33.333 0.00 0.00 37.40 1.40
189 221 8.243426 TCAGTATGTTGATGGCTTTGTTAATTC 58.757 33.333 0.00 0.00 37.40 2.17
190 222 8.028354 CAGTATGTTGATGGCTTTGTTAATTCA 58.972 33.333 0.00 0.00 0.00 2.57
191 223 8.584157 AGTATGTTGATGGCTTTGTTAATTCAA 58.416 29.630 0.00 0.00 0.00 2.69
192 224 9.202273 GTATGTTGATGGCTTTGTTAATTCAAA 57.798 29.630 0.00 0.00 36.18 2.69
199 231 2.734276 TTGTTAATTCAAAGCCGGGC 57.266 45.000 12.11 12.11 0.00 6.13
200 232 1.917872 TGTTAATTCAAAGCCGGGCT 58.082 45.000 17.69 17.69 42.56 5.19
201 233 1.816224 TGTTAATTCAAAGCCGGGCTC 59.184 47.619 24.08 6.82 38.25 4.70
202 234 2.092323 GTTAATTCAAAGCCGGGCTCT 58.908 47.619 24.08 5.15 38.25 4.09
203 235 2.492088 GTTAATTCAAAGCCGGGCTCTT 59.508 45.455 24.08 15.43 38.25 2.85
204 236 1.177401 AATTCAAAGCCGGGCTCTTC 58.823 50.000 24.08 0.00 38.25 2.87
205 237 0.329596 ATTCAAAGCCGGGCTCTTCT 59.670 50.000 24.08 2.98 38.25 2.85
206 238 0.606401 TTCAAAGCCGGGCTCTTCTG 60.606 55.000 24.08 16.60 38.25 3.02
207 239 2.042831 CAAAGCCGGGCTCTTCTGG 61.043 63.158 24.08 0.00 38.25 3.86
208 240 2.224159 AAAGCCGGGCTCTTCTGGA 61.224 57.895 24.08 0.00 38.25 3.86
209 241 2.190488 AAAGCCGGGCTCTTCTGGAG 62.190 60.000 24.08 0.00 38.25 3.86
218 250 2.570442 CTCTTCTGGAGCCTACGTTC 57.430 55.000 0.00 0.00 35.08 3.95
219 251 1.135333 CTCTTCTGGAGCCTACGTTCC 59.865 57.143 0.00 0.00 39.75 3.62
220 252 0.895530 CTTCTGGAGCCTACGTTCCA 59.104 55.000 6.53 6.53 46.20 3.53
224 256 2.642154 TGGAGCCTACGTTCCAAAAA 57.358 45.000 4.19 0.00 45.49 1.94
275 802 3.067684 GGCTTCTAACAGGCCAACTAA 57.932 47.619 5.01 0.00 44.69 2.24
304 831 3.269381 ACAAATTCTGGGCCTAGATTCCA 59.731 43.478 20.79 5.03 0.00 3.53
425 964 3.994204 TGCGTGTAGACTGACTTTACA 57.006 42.857 0.00 0.00 0.00 2.41
463 1005 8.477419 TCTATTTTTCCATTTTTGAGGACACT 57.523 30.769 0.00 0.00 32.62 3.55
480 1022 3.046374 ACACTACCTTTTGTCACCTCCT 58.954 45.455 0.00 0.00 0.00 3.69
552 1094 4.796830 CCGAATTAGAAACGACGATCTTGA 59.203 41.667 0.00 0.00 0.00 3.02
592 1144 0.319727 CGGCCACACACGGTTTACTA 60.320 55.000 2.24 0.00 0.00 1.82
609 1161 7.013464 CGGTTTACTAGTATCCTTGTCTCTCAT 59.987 40.741 17.07 0.00 0.00 2.90
647 1199 3.681835 GTCGTCGGGCAGTGAGGT 61.682 66.667 0.00 0.00 0.00 3.85
683 1235 2.426024 AGTCGTCGGCTAGCTATTGAAA 59.574 45.455 15.72 0.00 0.00 2.69
700 1252 2.042843 AAAAACCACCACGCCCCA 60.043 55.556 0.00 0.00 0.00 4.96
785 3124 2.478031 CCATCCAGTACGAGACGAACTG 60.478 54.545 0.00 0.00 40.24 3.16
905 3277 3.008485 GCTGCAGGCTATAAATAGAGGGT 59.992 47.826 17.12 0.00 38.06 4.34
924 3296 2.639286 CGGCACACAAGGCTGAAC 59.361 61.111 0.00 0.00 40.08 3.18
925 3297 2.908073 CGGCACACAAGGCTGAACC 61.908 63.158 0.00 0.00 40.08 3.62
926 3298 1.827789 GGCACACAAGGCTGAACCA 60.828 57.895 0.00 0.00 43.14 3.67
927 3299 1.360192 GCACACAAGGCTGAACCAC 59.640 57.895 0.00 0.00 43.14 4.16
928 3300 1.383456 GCACACAAGGCTGAACCACA 61.383 55.000 0.00 0.00 43.14 4.17
972 3349 4.073549 ACAAGCAAGAGAGTACGTAGAGT 58.926 43.478 0.00 0.00 0.00 3.24
1073 3450 1.741770 ACCCGCACATTCTCGAAGC 60.742 57.895 0.00 0.00 0.00 3.86
1124 3507 0.246360 TCTTCCATCTTCGCGCTGAA 59.754 50.000 5.56 10.12 34.74 3.02
1292 3675 3.897681 TAGGTGCTGGTGGAGGCGA 62.898 63.158 0.00 0.00 0.00 5.54
1303 3686 2.499685 GAGGCGAAGGTGGCGTAT 59.500 61.111 0.00 0.00 39.82 3.06
1407 3790 0.179089 CTGAGATCAACAGGGAGCCG 60.179 60.000 10.72 0.00 0.00 5.52
1847 6101 2.664185 CATGGGCGATGGAGCGAG 60.664 66.667 0.98 0.00 38.18 5.03
2163 6426 0.175989 GAAAGCTGAGGAGGTACGGG 59.824 60.000 0.00 0.00 0.00 5.28
2193 6456 5.420421 TGACCAGTGAAAACCATGAGAAAAA 59.580 36.000 0.00 0.00 0.00 1.94
2328 6592 1.561542 CCTGGCAATCCTCCTACACTT 59.438 52.381 0.00 0.00 0.00 3.16
2608 6891 7.668052 AGGAATTGTGGTGTTTATAGCAGTAAA 59.332 33.333 0.00 0.00 0.00 2.01
2615 6898 9.685828 GTGGTGTTTATAGCAGTAAAATTTTCA 57.314 29.630 6.72 0.00 0.00 2.69
2636 6942 2.641559 CGGAGCGGGGTCGTATAC 59.358 66.667 0.00 0.00 38.89 1.47
2673 6981 5.600069 AGTACCTAAAACTATAAGGACCCGG 59.400 44.000 0.00 0.00 34.34 5.73
2844 7277 1.608590 GTCCATTTCTGGTGTGTGTGG 59.391 52.381 0.00 0.00 43.61 4.17
2846 7279 0.961019 CATTTCTGGTGTGTGTGGGG 59.039 55.000 0.00 0.00 0.00 4.96
3063 7611 1.002773 GAGGGTCCGGTTAGCTTTCAA 59.997 52.381 0.00 0.00 0.00 2.69
3178 7763 4.628333 CCAATTGCTTGCAAGAACCTAATG 59.372 41.667 30.39 16.37 0.00 1.90
3179 7764 5.472148 CAATTGCTTGCAAGAACCTAATGA 58.528 37.500 30.39 2.54 0.00 2.57
3259 7850 7.766738 TGGTCGTGATTATTTTTACAGCTGATA 59.233 33.333 23.35 4.16 0.00 2.15
3319 7910 3.203442 GGTGACGCCCTATCACGA 58.797 61.111 0.00 0.00 46.19 4.35
3349 7940 1.482182 AGCTGCATCTGATGAACGGTA 59.518 47.619 21.30 0.00 0.00 4.02
3446 8581 1.197492 CAACTGCAGCAGCGACAATTA 59.803 47.619 23.05 0.00 46.23 1.40
3457 8592 3.381272 CAGCGACAATTATGGGGTTGATT 59.619 43.478 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
179 211 2.630580 AGCCCGGCTTTGAATTAACAAA 59.369 40.909 5.94 0.00 33.89 2.83
180 212 2.230266 GAGCCCGGCTTTGAATTAACAA 59.770 45.455 14.70 0.00 39.88 2.83
181 213 1.816224 GAGCCCGGCTTTGAATTAACA 59.184 47.619 14.70 0.00 39.88 2.41
182 214 2.092323 AGAGCCCGGCTTTGAATTAAC 58.908 47.619 14.70 0.00 39.88 2.01
183 215 2.507407 AGAGCCCGGCTTTGAATTAA 57.493 45.000 14.70 0.00 39.88 1.40
184 216 2.026262 AGAAGAGCCCGGCTTTGAATTA 60.026 45.455 14.70 0.00 39.88 1.40
185 217 1.177401 GAAGAGCCCGGCTTTGAATT 58.823 50.000 14.70 4.04 39.88 2.17
186 218 0.329596 AGAAGAGCCCGGCTTTGAAT 59.670 50.000 14.70 0.00 39.88 2.57
187 219 0.606401 CAGAAGAGCCCGGCTTTGAA 60.606 55.000 14.70 0.00 39.88 2.69
188 220 1.003355 CAGAAGAGCCCGGCTTTGA 60.003 57.895 14.70 0.00 39.88 2.69
189 221 2.042831 CCAGAAGAGCCCGGCTTTG 61.043 63.158 14.70 9.88 39.88 2.77
190 222 2.190488 CTCCAGAAGAGCCCGGCTTT 62.190 60.000 14.70 4.65 39.88 3.51
191 223 2.607750 TCCAGAAGAGCCCGGCTT 60.608 61.111 14.70 0.00 39.88 4.35
192 224 3.080121 CTCCAGAAGAGCCCGGCT 61.080 66.667 13.16 13.16 43.88 5.52
199 231 1.135333 GGAACGTAGGCTCCAGAAGAG 59.865 57.143 0.00 0.00 46.29 2.85
200 232 1.183549 GGAACGTAGGCTCCAGAAGA 58.816 55.000 0.00 0.00 34.29 2.87
201 233 0.895530 TGGAACGTAGGCTCCAGAAG 59.104 55.000 3.44 0.00 38.46 2.85
202 234 1.344065 TTGGAACGTAGGCTCCAGAA 58.656 50.000 7.56 0.00 43.02 3.02
203 235 1.344065 TTTGGAACGTAGGCTCCAGA 58.656 50.000 7.56 1.21 43.02 3.86
204 236 2.178912 TTTTGGAACGTAGGCTCCAG 57.821 50.000 7.56 0.00 43.02 3.86
205 237 2.642154 TTTTTGGAACGTAGGCTCCA 57.358 45.000 3.44 3.44 41.02 3.86
270 797 4.082787 CCCAGAATTTGTCGTGCATTAGTT 60.083 41.667 0.00 0.00 0.00 2.24
275 802 0.527565 GCCCAGAATTTGTCGTGCAT 59.472 50.000 0.00 0.00 0.00 3.96
304 831 0.268869 TGGGCCTGGACCATCTAGAT 59.731 55.000 20.00 0.00 34.69 1.98
457 999 3.400255 GAGGTGACAAAAGGTAGTGTCC 58.600 50.000 1.64 0.00 42.89 4.02
463 1005 4.781775 TTCAAGGAGGTGACAAAAGGTA 57.218 40.909 0.00 0.00 0.00 3.08
480 1022 3.071479 GGTACGGTGCTCTTCAATTCAA 58.929 45.455 0.00 0.00 0.00 2.69
609 1161 2.921121 CTGAGCATTACGAACGTTAGCA 59.079 45.455 8.42 0.00 0.00 3.49
683 1235 2.042843 TGGGGCGTGGTGGTTTTT 60.043 55.556 0.00 0.00 0.00 1.94
737 1290 1.289694 CTGCCAAAGCGCCAAATGA 59.710 52.632 2.29 0.00 44.31 2.57
758 3096 3.752665 GTCTCGTACTGGATGGATAGGA 58.247 50.000 0.00 0.00 0.00 2.94
905 3277 4.560743 TCAGCCTTGTGTGCCGCA 62.561 61.111 0.00 0.00 0.00 5.69
924 3296 0.393673 TGGTGTGTGTGGTTCTGTGG 60.394 55.000 0.00 0.00 0.00 4.17
925 3297 0.732571 GTGGTGTGTGTGGTTCTGTG 59.267 55.000 0.00 0.00 0.00 3.66
926 3298 0.326595 TGTGGTGTGTGTGGTTCTGT 59.673 50.000 0.00 0.00 0.00 3.41
927 3299 1.132262 GTTGTGGTGTGTGTGGTTCTG 59.868 52.381 0.00 0.00 0.00 3.02
928 3300 1.459450 GTTGTGGTGTGTGTGGTTCT 58.541 50.000 0.00 0.00 0.00 3.01
929 3301 0.454196 GGTTGTGGTGTGTGTGGTTC 59.546 55.000 0.00 0.00 0.00 3.62
930 3302 0.968393 GGGTTGTGGTGTGTGTGGTT 60.968 55.000 0.00 0.00 0.00 3.67
931 3303 1.379309 GGGTTGTGGTGTGTGTGGT 60.379 57.895 0.00 0.00 0.00 4.16
1061 3438 1.134848 GCTCCTCAGCTTCGAGAATGT 60.135 52.381 2.68 0.00 43.09 2.71
1073 3450 1.739562 GCAACCGTCTGCTCCTCAG 60.740 63.158 0.00 0.00 44.21 3.35
1124 3507 3.326747 GAGTATTGCAGTTCGTCCAGTT 58.673 45.455 0.00 0.00 0.00 3.16
1292 3675 1.070758 CTCCTGCATATACGCCACCTT 59.929 52.381 0.00 0.00 0.00 3.50
1303 3686 1.289160 AGGTTGCTTCCTCCTGCATA 58.711 50.000 0.00 0.00 39.07 3.14
1590 5799 2.509964 GGGGTTTATCTGTCCATGGACT 59.490 50.000 37.92 24.45 44.80 3.85
1752 6003 3.415650 GATACCCACCCCGCCTTGG 62.416 68.421 0.00 0.00 37.55 3.61
1758 6009 2.812499 CTCACGATACCCACCCCG 59.188 66.667 0.00 0.00 0.00 5.73
1847 6101 3.785859 TGCCGCCACTCTCCATCC 61.786 66.667 0.00 0.00 0.00 3.51
1935 6189 0.242825 CGGCTGACTCACGGTTCTTA 59.757 55.000 0.00 0.00 0.00 2.10
2163 6426 0.312102 GTTTTCACTGGTCAGCAGCC 59.688 55.000 3.01 0.00 0.00 4.85
2193 6456 8.800332 AGAACTGAAAAGCATATGAAAACTGAT 58.200 29.630 6.97 0.00 0.00 2.90
2450 6721 7.345653 ACATTCTCCTTGGACTGTTCTATCATA 59.654 37.037 0.00 0.00 0.00 2.15
2575 6846 3.077484 ACACCACAATTCCTCCTCATG 57.923 47.619 0.00 0.00 0.00 3.07
2661 6968 3.971305 ACATTGACATCCGGGTCCTTATA 59.029 43.478 0.00 0.00 36.97 0.98
2673 6981 5.355071 TGCTTGACCAGATAACATTGACATC 59.645 40.000 0.00 0.00 0.00 3.06
2855 7288 3.006110 CACGTGACTAAACTCTAACCCCA 59.994 47.826 10.90 0.00 0.00 4.96
2958 7504 0.904865 TGTCAAGGCTCACGGGATCT 60.905 55.000 0.00 0.00 0.00 2.75
3063 7611 2.361610 CCAACCAGGGAGCGCAAT 60.362 61.111 11.47 0.00 0.00 3.56
3178 7763 8.403236 ACACATTAACTGTTTTAAGACTTGGTC 58.597 33.333 0.00 0.00 35.29 4.02
3179 7764 8.188139 CACACATTAACTGTTTTAAGACTTGGT 58.812 33.333 0.00 0.00 35.29 3.67
3259 7850 7.056635 TCTTCTTTGACTGTTCCATCTTCTTT 58.943 34.615 0.00 0.00 0.00 2.52
3281 7872 2.546789 CCTTCTTGGCGTTAACGTTCTT 59.453 45.455 27.28 0.00 42.22 2.52
3349 7940 2.296073 TGGAAGTTAAATGGCGGGTT 57.704 45.000 0.00 0.00 0.00 4.11
3360 7951 1.134521 CCAGCACGGCTATGGAAGTTA 60.135 52.381 0.00 0.00 36.40 2.24
3446 8581 7.678171 AGAAAAGGTAAATACAATCAACCCCAT 59.322 33.333 0.00 0.00 0.00 4.00
3457 8592 7.118680 CCGCTTTGAGTAGAAAAGGTAAATACA 59.881 37.037 0.00 0.00 35.57 2.29


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

AutoCloner maintained by Alex Coulton.