Multiple sequence alignment - TraesCS4B01G156300

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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 TraesCS4B01G156300 chr4B 100.000 3656 0 0 1 3656 286072247 286075902 0.000000e+00 6752.0
1 TraesCS4B01G156300 chr4B 93.750 80 5 0 1 80 482656356 482656435 1.780000e-23 121.0
2 TraesCS4B01G156300 chr4B 98.529 68 1 0 198 265 603516340 603516273 1.780000e-23 121.0
3 TraesCS4B01G156300 chr4B 88.608 79 9 0 1 79 467250071 467249993 3.010000e-16 97.1
4 TraesCS4B01G156300 chr4B 100.000 32 0 0 89 120 384839220 384839189 3.940000e-05 60.2
5 TraesCS4B01G156300 chr4A 94.988 3252 103 18 432 3656 222559814 222556596 0.000000e+00 5048.0
6 TraesCS4B01G156300 chr4A 91.139 237 19 2 4 239 222560247 222560012 1.640000e-83 320.0
7 TraesCS4B01G156300 chr4D 97.864 2060 38 3 1299 3358 251525111 251523058 0.000000e+00 3555.0
8 TraesCS4B01G156300 chr4D 93.021 874 24 11 378 1239 251526221 251525373 0.000000e+00 1242.0
9 TraesCS4B01G156300 chr4D 91.850 319 11 5 3353 3656 251522967 251522649 7.250000e-117 431.0
10 TraesCS4B01G156300 chr4D 92.857 196 14 0 1 196 251526413 251526218 5.980000e-73 285.0
11 TraesCS4B01G156300 chr4D 94.444 36 2 0 89 124 211044653 211044618 5.100000e-04 56.5
12 TraesCS4B01G156300 chr3D 92.105 152 8 4 195 342 468976917 468977068 1.030000e-50 211.0
13 TraesCS4B01G156300 chr3D 90.517 116 6 1 266 381 11463497 11463387 8.180000e-32 148.0
14 TraesCS4B01G156300 chr3D 92.500 80 6 0 1 80 47653069 47652990 8.300000e-22 115.0
15 TraesCS4B01G156300 chr6D 92.241 116 7 1 266 381 455306336 455306449 2.920000e-36 163.0
16 TraesCS4B01G156300 chr6D 87.402 127 8 2 263 381 431311771 431311897 4.920000e-29 139.0
17 TraesCS4B01G156300 chr6D 96.875 32 1 0 89 120 72226051 72226082 2.000000e-03 54.7
18 TraesCS4B01G156300 chr6D 96.875 32 1 0 89 120 91818616 91818647 2.000000e-03 54.7
19 TraesCS4B01G156300 chr6D 96.875 32 1 0 89 120 101309687 101309656 2.000000e-03 54.7
20 TraesCS4B01G156300 chr6D 96.875 32 1 0 89 120 113506370 113506401 2.000000e-03 54.7
21 TraesCS4B01G156300 chr6D 96.875 32 1 0 89 120 128897407 128897376 2.000000e-03 54.7
22 TraesCS4B01G156300 chr6D 96.875 32 1 0 89 120 148555766 148555797 2.000000e-03 54.7
23 TraesCS4B01G156300 chr6D 96.875 32 1 0 89 120 153191808 153191777 2.000000e-03 54.7
24 TraesCS4B01G156300 chr6D 96.875 32 1 0 89 120 158355749 158355780 2.000000e-03 54.7
25 TraesCS4B01G156300 chr6D 96.875 32 1 0 89 120 221858749 221858718 2.000000e-03 54.7
26 TraesCS4B01G156300 chr7B 88.333 120 12 2 263 381 60826937 60827055 3.810000e-30 143.0
27 TraesCS4B01G156300 chr7B 88.889 90 10 0 176 265 723151719 723151808 1.070000e-20 111.0
28 TraesCS4B01G156300 chr7B 96.875 32 1 0 89 120 527618882 527618851 2.000000e-03 54.7
29 TraesCS4B01G156300 chr6B 88.333 120 6 3 263 381 5553751 5553639 1.770000e-28 137.0
30 TraesCS4B01G156300 chr6B 93.590 78 3 2 188 265 550375699 550375774 8.300000e-22 115.0
31 TraesCS4B01G156300 chr6B 91.566 83 7 0 187 269 714919724 714919806 8.300000e-22 115.0
32 TraesCS4B01G156300 chr6B 90.909 77 7 0 3 79 20207788 20207864 1.800000e-18 104.0
33 TraesCS4B01G156300 chr6B 100.000 32 0 0 89 120 563991311 563991280 3.940000e-05 60.2
34 TraesCS4B01G156300 chr6A 88.496 113 11 2 277 389 349637754 349637864 6.370000e-28 135.0
35 TraesCS4B01G156300 chr6A 90.000 80 8 0 1 80 616207702 616207781 1.800000e-18 104.0
36 TraesCS4B01G156300 chr6A 97.059 34 1 0 87 120 178520289 178520256 1.420000e-04 58.4
37 TraesCS4B01G156300 chr3A 87.395 119 13 1 263 381 550395222 550395338 6.370000e-28 135.0
38 TraesCS4B01G156300 chr3A 100.000 32 0 0 89 120 674276837 674276806 3.940000e-05 60.2
39 TraesCS4B01G156300 chr3A 90.909 44 2 1 77 120 492198052 492198011 1.420000e-04 58.4
40 TraesCS4B01G156300 chr3B 94.937 79 3 1 2 80 809844961 809844884 4.960000e-24 122.0
41 TraesCS4B01G156300 chr3B 82.812 128 14 8 228 349 71403636 71403761 1.390000e-19 108.0
42 TraesCS4B01G156300 chr3B 91.250 80 6 1 186 265 415934784 415934862 1.390000e-19 108.0
43 TraesCS4B01G156300 chr1A 92.771 83 6 0 1 83 292776368 292776286 1.780000e-23 121.0
44 TraesCS4B01G156300 chr1A 89.157 83 9 0 1 83 333872253 333872171 1.800000e-18 104.0
45 TraesCS4B01G156300 chr1A 97.059 34 1 0 87 120 283857355 283857388 1.420000e-04 58.4
46 TraesCS4B01G156300 chr5D 91.566 83 7 0 1 83 270203007 270202925 8.300000e-22 115.0
47 TraesCS4B01G156300 chr5D 84.034 119 17 2 263 381 435519847 435519963 2.980000e-21 113.0
48 TraesCS4B01G156300 chr5D 80.795 151 13 6 184 334 435519826 435519960 1.800000e-18 104.0
49 TraesCS4B01G156300 chr5D 84.337 83 13 0 1 83 352822563 352822481 8.410000e-12 82.4
50 TraesCS4B01G156300 chr5D 94.444 36 0 2 89 124 132144261 132144294 2.000000e-03 54.7
51 TraesCS4B01G156300 chr5A 91.566 83 7 0 1 83 359022550 359022468 8.300000e-22 115.0
52 TraesCS4B01G156300 chr5B 92.308 78 6 0 1 78 93222590 93222513 1.070000e-20 111.0
53 TraesCS4B01G156300 chr5B 91.358 81 6 1 3 83 256040890 256040811 3.860000e-20 110.0
54 TraesCS4B01G156300 chr5B 100.000 32 0 0 89 120 390869905 390869874 3.940000e-05 60.2
55 TraesCS4B01G156300 chr1B 86.735 98 9 4 171 265 648097729 648097825 4.990000e-19 106.0
56 TraesCS4B01G156300 chr7D 94.545 55 3 0 335 389 163634766 163634820 6.500000e-13 86.1
57 TraesCS4B01G156300 chr7D 97.059 34 1 0 87 120 262826035 262826068 1.420000e-04 58.4
58 TraesCS4B01G156300 chr1D 81.928 83 3 4 1 83 326477740 326477670 3.940000e-05 60.2
59 TraesCS4B01G156300 chr1D 94.286 35 2 0 86 120 62191465 62191499 2.000000e-03 54.7
60 TraesCS4B01G156300 chr2D 97.059 34 1 0 87 120 206697708 206697675 1.420000e-04 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 TraesCS4B01G156300 chr4B 286072247 286075902 3655 False 6752.00 6752 100.0000 1 3656 1 chr4B.!!$F1 3655
1 TraesCS4B01G156300 chr4A 222556596 222560247 3651 True 2684.00 5048 93.0635 4 3656 2 chr4A.!!$R1 3652
2 TraesCS4B01G156300 chr4D 251522649 251526413 3764 True 1378.25 3555 93.8980 1 3656 4 chr4D.!!$R2 3655

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
822 919 0.031994 GGCGAGAGAGAGAGAATGGC 59.968 60.0 0.0 0.0 0.0 4.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2735 3046 0.605319 TAGCCTTTTGGACAGCACCG 60.605 55.0 0.0 0.0 44.07 4.94 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 7.148738 CGTCATCAAGGACATGTACTATAATGC 60.149 40.741 12.04 10.14 37.66 3.56
48 49 4.766891 ACTATAATGCTGTGCCAAGTGTTT 59.233 37.500 0.00 0.00 0.00 2.83
79 80 1.017387 GGCGACATTGATGACTTCCC 58.983 55.000 0.00 0.00 0.00 3.97
80 81 1.678728 GGCGACATTGATGACTTCCCA 60.679 52.381 0.00 0.00 0.00 4.37
154 155 3.996363 CACATCATCCCATATGTACCACG 59.004 47.826 1.24 0.00 34.61 4.94
157 158 2.631062 TCATCCCATATGTACCACGGTC 59.369 50.000 1.24 0.00 0.00 4.79
163 164 0.452987 TATGTACCACGGTCACGCTC 59.547 55.000 0.00 0.00 46.04 5.03
207 208 9.942526 AGAATTAATCAAGTATTCCCTCCATTT 57.057 29.630 0.00 0.00 0.00 2.32
215 216 9.189156 TCAAGTATTCCCTCCATTTCAAAATAG 57.811 33.333 0.00 0.00 0.00 1.73
216 217 9.189156 CAAGTATTCCCTCCATTTCAAAATAGA 57.811 33.333 0.00 0.00 0.00 1.98
219 220 9.354673 GTATTCCCTCCATTTCAAAATAGATGA 57.645 33.333 0.00 0.00 0.00 2.92
226 227 8.868522 TCCATTTCAAAATAGATGACTCAACT 57.131 30.769 0.00 0.00 0.00 3.16
233 234 9.778741 TCAAAATAGATGACTCAACTTTGTACT 57.221 29.630 0.00 0.00 0.00 2.73
266 267 9.739276 AGTACAAAGTTGGATCATCTATTTTCA 57.261 29.630 0.00 0.00 0.00 2.69
323 324 9.739276 AGTACAAAGTTGGATCATCTATTTTGA 57.261 29.630 12.56 0.00 0.00 2.69
326 327 9.696917 ACAAAGTTGGATCATCTATTTTGAAAC 57.303 29.630 12.56 0.00 0.00 2.78
327 328 9.695526 CAAAGTTGGATCATCTATTTTGAAACA 57.304 29.630 0.00 0.00 0.00 2.83
328 329 9.918630 AAAGTTGGATCATCTATTTTGAAACAG 57.081 29.630 0.00 0.00 0.00 3.16
329 330 8.868522 AGTTGGATCATCTATTTTGAAACAGA 57.131 30.769 0.00 0.00 0.00 3.41
330 331 8.954350 AGTTGGATCATCTATTTTGAAACAGAG 58.046 33.333 0.00 0.00 0.00 3.35
331 332 7.870509 TGGATCATCTATTTTGAAACAGAGG 57.129 36.000 0.00 0.00 0.00 3.69
332 333 6.830324 TGGATCATCTATTTTGAAACAGAGGG 59.170 38.462 0.00 0.00 0.00 4.30
333 334 7.056635 GGATCATCTATTTTGAAACAGAGGGA 58.943 38.462 0.00 0.00 0.00 4.20
334 335 7.723172 GGATCATCTATTTTGAAACAGAGGGAT 59.277 37.037 0.00 0.69 0.00 3.85
335 336 9.784531 GATCATCTATTTTGAAACAGAGGGATA 57.215 33.333 0.00 0.00 0.00 2.59
337 338 9.973661 TCATCTATTTTGAAACAGAGGGATAAA 57.026 29.630 0.00 0.00 0.00 1.40
339 340 9.981460 ATCTATTTTGAAACAGAGGGATAAAGT 57.019 29.630 0.00 0.00 0.00 2.66
340 341 9.807921 TCTATTTTGAAACAGAGGGATAAAGTT 57.192 29.630 0.00 0.00 0.00 2.66
343 344 8.990163 TTTTGAAACAGAGGGATAAAGTTAGT 57.010 30.769 0.00 0.00 0.00 2.24
345 346 9.498176 TTTGAAACAGAGGGATAAAGTTAGTAC 57.502 33.333 0.00 0.00 0.00 2.73
346 347 8.197592 TGAAACAGAGGGATAAAGTTAGTACA 57.802 34.615 0.00 0.00 0.00 2.90
347 348 8.653191 TGAAACAGAGGGATAAAGTTAGTACAA 58.347 33.333 0.00 0.00 0.00 2.41
348 349 9.498176 GAAACAGAGGGATAAAGTTAGTACAAA 57.502 33.333 0.00 0.00 0.00 2.83
349 350 9.503399 AAACAGAGGGATAAAGTTAGTACAAAG 57.497 33.333 0.00 0.00 0.00 2.77
350 351 8.203681 ACAGAGGGATAAAGTTAGTACAAAGT 57.796 34.615 0.00 0.00 0.00 2.66
351 352 9.317827 ACAGAGGGATAAAGTTAGTACAAAGTA 57.682 33.333 0.00 0.00 0.00 2.24
352 353 9.804758 CAGAGGGATAAAGTTAGTACAAAGTAG 57.195 37.037 0.00 0.00 0.00 2.57
353 354 8.979534 AGAGGGATAAAGTTAGTACAAAGTAGG 58.020 37.037 0.00 0.00 0.00 3.18
354 355 8.087303 AGGGATAAAGTTAGTACAAAGTAGGG 57.913 38.462 0.00 0.00 0.00 3.53
355 356 7.681598 AGGGATAAAGTTAGTACAAAGTAGGGT 59.318 37.037 0.00 0.00 0.00 4.34
356 357 7.984050 GGGATAAAGTTAGTACAAAGTAGGGTC 59.016 40.741 0.00 0.00 0.00 4.46
357 358 8.534496 GGATAAAGTTAGTACAAAGTAGGGTCA 58.466 37.037 0.00 0.00 0.00 4.02
368 369 7.027874 ACAAAGTAGGGTCATCTATTTTGGA 57.972 36.000 17.65 0.00 44.27 3.53
375 376 3.877508 GGTCATCTATTTTGGAACGGAGG 59.122 47.826 0.00 0.00 0.00 4.30
395 396 6.294065 CGGAGGGAGTAATACATAAGACTGAC 60.294 46.154 0.00 0.00 0.00 3.51
415 416 3.949113 GACTAGAACCAACAACCAAACCA 59.051 43.478 0.00 0.00 0.00 3.67
422 423 4.450053 ACCAACAACCAAACCAAATCATG 58.550 39.130 0.00 0.00 0.00 3.07
448 544 3.595173 TGATGTACTTGCACGCAGTAAT 58.405 40.909 0.00 0.00 41.61 1.89
510 607 1.988406 GAGTTACGGCTGGGAGGGT 60.988 63.158 0.00 0.00 0.00 4.34
511 608 2.240162 GAGTTACGGCTGGGAGGGTG 62.240 65.000 0.00 0.00 0.00 4.61
512 609 3.006728 TTACGGCTGGGAGGGTGG 61.007 66.667 0.00 0.00 0.00 4.61
521 618 4.825679 GGAGGGTGGGAGGGGGAG 62.826 77.778 0.00 0.00 0.00 4.30
522 619 4.825679 GAGGGTGGGAGGGGGAGG 62.826 77.778 0.00 0.00 0.00 4.30
739 836 2.514592 CTGCGGTACCTGGCCATG 60.515 66.667 5.51 6.06 0.00 3.66
818 915 3.958018 ACTAAAGGCGAGAGAGAGAGAA 58.042 45.455 0.00 0.00 0.00 2.87
819 916 4.532834 ACTAAAGGCGAGAGAGAGAGAAT 58.467 43.478 0.00 0.00 0.00 2.40
821 918 1.691196 AGGCGAGAGAGAGAGAATGG 58.309 55.000 0.00 0.00 0.00 3.16
822 919 0.031994 GGCGAGAGAGAGAGAATGGC 59.968 60.000 0.00 0.00 0.00 4.40
823 920 1.032014 GCGAGAGAGAGAGAATGGCT 58.968 55.000 0.00 0.00 0.00 4.75
824 921 1.269206 GCGAGAGAGAGAGAATGGCTG 60.269 57.143 0.00 0.00 0.00 4.85
958 1067 1.293924 CGACAGCATCACATTCTCCC 58.706 55.000 0.00 0.00 0.00 4.30
1230 1339 2.285180 CTCCTCCCCTCCCCTGAG 59.715 72.222 0.00 0.00 38.42 3.35
1263 1372 0.333312 TTCTCCTCTTCCTCGCCTCT 59.667 55.000 0.00 0.00 0.00 3.69
1267 1376 0.682855 CCTCTTCCTCGCCTCTCACT 60.683 60.000 0.00 0.00 0.00 3.41
1269 1378 1.134175 CTCTTCCTCGCCTCTCACTTC 59.866 57.143 0.00 0.00 0.00 3.01
1273 1382 3.068691 TCGCCTCTCACTTCCCCG 61.069 66.667 0.00 0.00 0.00 5.73
1274 1383 4.821589 CGCCTCTCACTTCCCCGC 62.822 72.222 0.00 0.00 0.00 6.13
1275 1384 4.475135 GCCTCTCACTTCCCCGCC 62.475 72.222 0.00 0.00 0.00 6.13
1276 1385 3.787001 CCTCTCACTTCCCCGCCC 61.787 72.222 0.00 0.00 0.00 6.13
1277 1386 3.787001 CTCTCACTTCCCCGCCCC 61.787 72.222 0.00 0.00 0.00 5.80
1278 1387 4.332543 TCTCACTTCCCCGCCCCT 62.333 66.667 0.00 0.00 0.00 4.79
1739 2050 1.200716 TCCAGCTACGTTTGTCTACCG 59.799 52.381 0.00 0.00 0.00 4.02
1890 2201 2.964978 GGCCATATTGCCGATGCC 59.035 61.111 1.40 0.00 42.54 4.40
1932 2243 2.238898 GGTGGACAAAGGTATACAGCCT 59.761 50.000 5.01 0.00 38.11 4.58
2224 2535 1.819288 CGATAGGGATGTATCAGCGGT 59.181 52.381 0.00 0.00 30.79 5.68
2305 2616 2.009042 GCGAGGAAGGACAGGTTGATG 61.009 57.143 0.00 0.00 0.00 3.07
2383 2694 7.433680 ACGTAGCAATGATAGTGTCATCAATA 58.566 34.615 2.52 0.00 46.80 1.90
2542 2853 5.271625 CACTGCTGATTCTGAATACAATGC 58.728 41.667 2.28 4.64 0.00 3.56
2740 3051 6.861055 TCTTTGAGAAATGTTTTTATCGGTGC 59.139 34.615 0.00 0.00 36.14 5.01
2877 3188 4.679373 TCCTTGGAGAGATAGCAATGTC 57.321 45.455 0.00 0.00 0.00 3.06
2881 3192 5.374921 CTTGGAGAGATAGCAATGTCCAAT 58.625 41.667 4.51 0.00 41.91 3.16
2902 3213 2.154462 GGCAACAGCTGTGAGTAACAT 58.846 47.619 22.49 0.00 38.39 2.71
2990 3301 1.452110 CAAATGCCTGTGATCGTGGA 58.548 50.000 3.09 0.00 0.00 4.02
3108 3419 4.232188 ACATCACCATTCTCTGCATCTT 57.768 40.909 0.00 0.00 0.00 2.40
3229 3540 3.257624 ACGTCTCGTCCTTCCTGTATTTT 59.742 43.478 0.00 0.00 33.69 1.82
3470 3876 2.354303 CCCAAGCTAATGTGTACCGTCA 60.354 50.000 0.00 0.00 0.00 4.35
3481 3905 1.619827 TGTACCGTCAACCTAACTGGG 59.380 52.381 0.00 0.00 41.11 4.45
3635 4059 6.102663 CAGTTTAACCTCAGAATGACGAGAT 58.897 40.000 0.00 0.00 42.56 2.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 2.937469 TGTTCAAACACTTGGCACAG 57.063 45.000 0.00 0.00 34.47 3.66
48 49 2.183478 ATGTCGCCATCACTTGTTCA 57.817 45.000 0.00 0.00 0.00 3.18
79 80 9.506018 TTGATGAGGGTAATGTACATCATATTG 57.494 33.333 9.23 0.00 43.91 1.90
80 81 9.730705 CTTGATGAGGGTAATGTACATCATATT 57.269 33.333 9.23 0.00 43.91 1.28
154 155 1.334149 GCTTGTTTTCAGAGCGTGACC 60.334 52.381 0.00 0.00 33.71 4.02
157 158 2.313234 CATGCTTGTTTTCAGAGCGTG 58.687 47.619 2.81 2.81 40.56 5.34
163 164 8.692110 TTAATTCTATGCATGCTTGTTTTCAG 57.308 30.769 20.33 5.88 0.00 3.02
196 197 7.413446 AGTCATCTATTTTGAAATGGAGGGAA 58.587 34.615 12.38 0.00 38.91 3.97
207 208 9.778741 AGTACAAAGTTGAGTCATCTATTTTGA 57.221 29.630 15.99 3.46 38.91 2.69
240 241 9.739276 TGAAAATAGATGATCCAACTTTGTACT 57.261 29.630 0.00 0.00 0.00 2.73
264 265 9.778741 AGTACAAAGTTGAGTCATCTATTTTGA 57.221 29.630 15.99 3.46 38.91 2.69
307 308 6.830324 CCCTCTGTTTCAAAATAGATGATCCA 59.170 38.462 2.91 0.00 35.92 3.41
308 309 7.056635 TCCCTCTGTTTCAAAATAGATGATCC 58.943 38.462 2.91 0.00 35.92 3.36
309 310 8.688747 ATCCCTCTGTTTCAAAATAGATGATC 57.311 34.615 2.91 0.00 35.92 2.92
311 312 9.973661 TTTATCCCTCTGTTTCAAAATAGATGA 57.026 29.630 2.91 4.11 35.92 2.92
314 315 9.807921 AACTTTATCCCTCTGTTTCAAAATAGA 57.192 29.630 2.56 2.56 35.32 1.98
317 318 9.588096 ACTAACTTTATCCCTCTGTTTCAAAAT 57.412 29.630 0.00 0.00 0.00 1.82
318 319 8.990163 ACTAACTTTATCCCTCTGTTTCAAAA 57.010 30.769 0.00 0.00 0.00 2.44
319 320 9.498176 GTACTAACTTTATCCCTCTGTTTCAAA 57.502 33.333 0.00 0.00 0.00 2.69
320 321 8.653191 TGTACTAACTTTATCCCTCTGTTTCAA 58.347 33.333 0.00 0.00 0.00 2.69
321 322 8.197592 TGTACTAACTTTATCCCTCTGTTTCA 57.802 34.615 0.00 0.00 0.00 2.69
322 323 9.498176 TTTGTACTAACTTTATCCCTCTGTTTC 57.502 33.333 0.00 0.00 0.00 2.78
323 324 9.503399 CTTTGTACTAACTTTATCCCTCTGTTT 57.497 33.333 0.00 0.00 0.00 2.83
324 325 8.657712 ACTTTGTACTAACTTTATCCCTCTGTT 58.342 33.333 0.00 0.00 0.00 3.16
325 326 8.203681 ACTTTGTACTAACTTTATCCCTCTGT 57.796 34.615 0.00 0.00 0.00 3.41
326 327 9.804758 CTACTTTGTACTAACTTTATCCCTCTG 57.195 37.037 0.00 0.00 0.00 3.35
327 328 8.979534 CCTACTTTGTACTAACTTTATCCCTCT 58.020 37.037 0.00 0.00 0.00 3.69
328 329 8.202811 CCCTACTTTGTACTAACTTTATCCCTC 58.797 40.741 0.00 0.00 0.00 4.30
329 330 7.681598 ACCCTACTTTGTACTAACTTTATCCCT 59.318 37.037 0.00 0.00 0.00 4.20
330 331 7.855375 ACCCTACTTTGTACTAACTTTATCCC 58.145 38.462 0.00 0.00 0.00 3.85
331 332 8.534496 TGACCCTACTTTGTACTAACTTTATCC 58.466 37.037 0.00 0.00 0.00 2.59
334 335 9.317827 AGATGACCCTACTTTGTACTAACTTTA 57.682 33.333 0.00 0.00 0.00 1.85
335 336 8.203681 AGATGACCCTACTTTGTACTAACTTT 57.796 34.615 0.00 0.00 0.00 2.66
336 337 7.793948 AGATGACCCTACTTTGTACTAACTT 57.206 36.000 0.00 0.00 0.00 2.66
337 338 9.490083 AATAGATGACCCTACTTTGTACTAACT 57.510 33.333 0.00 0.00 0.00 2.24
341 342 8.047310 CCAAAATAGATGACCCTACTTTGTACT 58.953 37.037 0.00 0.00 35.36 2.73
342 343 8.044908 TCCAAAATAGATGACCCTACTTTGTAC 58.955 37.037 0.00 0.00 35.36 2.90
343 344 8.153221 TCCAAAATAGATGACCCTACTTTGTA 57.847 34.615 0.00 0.00 35.36 2.41
344 345 7.027874 TCCAAAATAGATGACCCTACTTTGT 57.972 36.000 0.00 0.00 35.36 2.83
345 346 7.414098 CGTTCCAAAATAGATGACCCTACTTTG 60.414 40.741 0.00 0.00 36.30 2.77
346 347 6.598064 CGTTCCAAAATAGATGACCCTACTTT 59.402 38.462 0.00 0.00 0.00 2.66
347 348 6.113411 CGTTCCAAAATAGATGACCCTACTT 58.887 40.000 0.00 0.00 0.00 2.24
348 349 5.396436 CCGTTCCAAAATAGATGACCCTACT 60.396 44.000 0.00 0.00 0.00 2.57
349 350 4.814771 CCGTTCCAAAATAGATGACCCTAC 59.185 45.833 0.00 0.00 0.00 3.18
350 351 4.717778 TCCGTTCCAAAATAGATGACCCTA 59.282 41.667 0.00 0.00 0.00 3.53
351 352 3.521937 TCCGTTCCAAAATAGATGACCCT 59.478 43.478 0.00 0.00 0.00 4.34
352 353 3.877508 CTCCGTTCCAAAATAGATGACCC 59.122 47.826 0.00 0.00 0.00 4.46
353 354 3.877508 CCTCCGTTCCAAAATAGATGACC 59.122 47.826 0.00 0.00 0.00 4.02
354 355 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
355 356 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
356 357 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
357 358 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
358 359 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
359 360 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
368 369 6.040616 CAGTCTTATGTATTACTCCCTCCGTT 59.959 42.308 0.00 0.00 0.00 4.44
395 396 4.993029 TTGGTTTGGTTGTTGGTTCTAG 57.007 40.909 0.00 0.00 0.00 2.43
401 402 3.814283 CCATGATTTGGTTTGGTTGTTGG 59.186 43.478 0.00 0.00 40.99 3.77
422 423 3.130633 TGCGTGCAAGTACATCATATCC 58.869 45.455 0.59 0.00 0.00 2.59
511 608 4.845307 CTTCCCCCTCCCCCTCCC 62.845 77.778 0.00 0.00 0.00 4.30
512 609 4.845307 CCTTCCCCCTCCCCCTCC 62.845 77.778 0.00 0.00 0.00 4.30
513 610 4.845307 CCCTTCCCCCTCCCCCTC 62.845 77.778 0.00 0.00 0.00 4.30
516 613 4.381121 TTCCCCTTCCCCCTCCCC 62.381 72.222 0.00 0.00 0.00 4.81
517 614 2.696504 CTTCCCCTTCCCCCTCCC 60.697 72.222 0.00 0.00 0.00 4.30
518 615 2.696504 CCTTCCCCTTCCCCCTCC 60.697 72.222 0.00 0.00 0.00 4.30
519 616 3.421386 GCCTTCCCCTTCCCCCTC 61.421 72.222 0.00 0.00 0.00 4.30
520 617 4.301662 TGCCTTCCCCTTCCCCCT 62.302 66.667 0.00 0.00 0.00 4.79
521 618 4.062032 GTGCCTTCCCCTTCCCCC 62.062 72.222 0.00 0.00 0.00 5.40
522 619 4.062032 GGTGCCTTCCCCTTCCCC 62.062 72.222 0.00 0.00 0.00 4.81
523 620 2.941583 AGGTGCCTTCCCCTTCCC 60.942 66.667 0.00 0.00 0.00 3.97
526 623 3.984732 GCCAGGTGCCTTCCCCTT 61.985 66.667 0.00 0.00 0.00 3.95
799 896 3.634448 CCATTCTCTCTCTCTCGCCTTTA 59.366 47.826 0.00 0.00 0.00 1.85
818 915 1.242076 GTGTGCTTCAAGTCAGCCAT 58.758 50.000 0.00 0.00 36.33 4.40
819 916 1.159713 CGTGTGCTTCAAGTCAGCCA 61.160 55.000 0.00 0.00 36.33 4.75
821 918 1.082496 GCGTGTGCTTCAAGTCAGC 60.082 57.895 0.00 0.00 38.39 4.26
822 919 1.202568 CGCGTGTGCTTCAAGTCAG 59.797 57.895 0.00 0.00 39.65 3.51
823 920 2.243957 CCGCGTGTGCTTCAAGTCA 61.244 57.895 4.92 0.00 39.65 3.41
824 921 2.551270 CCGCGTGTGCTTCAAGTC 59.449 61.111 4.92 0.00 39.65 3.01
897 1006 0.734889 GTGGTCAGATTTGATGGCGG 59.265 55.000 0.00 0.00 35.39 6.13
938 1047 0.654683 GGAGAATGTGATGCTGTCGC 59.345 55.000 0.00 0.00 37.86 5.19
1199 1308 1.000612 AGGAGACGGGAGAGGGTTC 59.999 63.158 0.00 0.00 0.00 3.62
1230 1339 2.047179 AGAAAACGGAGCGAGGGC 60.047 61.111 0.00 0.00 40.37 5.19
1587 1898 4.794439 CGTCGTGCAGCATCCCGA 62.794 66.667 0.00 0.00 0.00 5.14
1739 2050 1.153168 AGCCCATGTATGACACGCC 60.153 57.895 0.00 0.00 0.00 5.68
1890 2201 0.835276 TCTCATCCCACATCTGCTGG 59.165 55.000 0.00 0.00 0.00 4.85
2224 2535 3.055094 GGCTCCAAACCAGATGAGAGTAA 60.055 47.826 0.00 0.00 0.00 2.24
2305 2616 7.377766 TCAAGGTAAGTAATTCAACAGCATC 57.622 36.000 0.00 0.00 0.00 3.91
2383 2694 0.608640 CGCCTGACCTTACAGAACCT 59.391 55.000 0.00 0.00 39.94 3.50
2542 2853 7.446625 ACTGCCTAATTCATATCCAGCTTTAAG 59.553 37.037 0.00 0.00 0.00 1.85
2644 2955 1.814394 CAAATGCCACTAGCTGCTCAA 59.186 47.619 4.91 0.00 44.23 3.02
2735 3046 0.605319 TAGCCTTTTGGACAGCACCG 60.605 55.000 0.00 0.00 44.07 4.94
2740 3051 4.278170 TCATTTGTGTAGCCTTTTGGACAG 59.722 41.667 0.00 0.00 44.07 3.51
2877 3188 0.242825 CTCACAGCTGTTGCCATTGG 59.757 55.000 18.94 3.10 40.80 3.16
2881 3192 1.134250 TGTTACTCACAGCTGTTGCCA 60.134 47.619 18.94 5.49 40.80 4.92
2902 3213 1.615883 GCTGTCACAACCTCTCAGAGA 59.384 52.381 2.09 0.00 0.00 3.10
2996 3307 1.611043 GTACTACGGTGCTGTTCGAC 58.389 55.000 0.00 0.00 0.00 4.20
3034 3345 2.409870 GGCCATCTTGAAGTGCCCG 61.410 63.158 0.00 0.00 36.07 6.13
3108 3419 1.355381 AGAATGCACACCTGGGAATGA 59.645 47.619 0.00 0.00 0.00 2.57
3229 3540 5.787953 TCTTGAATCCATTTGCTCAAACA 57.212 34.783 0.00 0.00 32.51 2.83
3260 3571 4.085721 CGTCGTAGTTCTCTTGACAACAAC 60.086 45.833 0.00 0.00 32.14 3.32
3470 3876 6.296836 CCATACCTTAAGTTCCCAGTTAGGTT 60.297 42.308 0.97 0.00 34.66 3.50
3481 3905 8.693625 AGTACACAGATACCATACCTTAAGTTC 58.306 37.037 0.97 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.