Multiple sequence alignment - TraesCS4D01G330500

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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 TraesCS4D01G330500 chr4D 100.000 2350 0 0 1 2350 488667259 488664910 0.000000e+00 4340.0
1 TraesCS4D01G330500 chr4D 100.000 661 0 0 2659 3319 488664601 488663941 0.000000e+00 1221.0
2 TraesCS4D01G330500 chr4D 81.349 1201 162 26 1164 2336 397158338 397157172 0.000000e+00 920.0
3 TraesCS4D01G330500 chr4D 100.000 30 0 0 2727 2756 397157092 397157063 4.630000e-04 56.5
4 TraesCS4D01G330500 chr4B 91.029 2118 144 10 238 2332 626069778 626067684 0.000000e+00 2817.0
5 TraesCS4D01G330500 chr4B 81.359 1207 174 25 1180 2349 639452143 639453335 0.000000e+00 935.0
6 TraesCS4D01G330500 chr4B 83.389 903 123 11 1250 2131 489294392 489293496 0.000000e+00 811.0
7 TraesCS4D01G330500 chr4B 81.481 756 86 19 1163 1891 667343662 667344390 3.710000e-159 571.0
8 TraesCS4D01G330500 chr4B 91.967 361 24 3 2783 3143 626067048 626066693 4.940000e-138 501.0
9 TraesCS4D01G330500 chr4B 92.857 238 16 1 1 238 626071385 626071149 8.820000e-91 344.0
10 TraesCS4D01G330500 chr4B 82.915 398 38 16 1 368 639451162 639451559 6.860000e-87 331.0
11 TraesCS4D01G330500 chr4B 81.679 393 43 16 1 368 667342731 667343119 1.940000e-77 300.0
12 TraesCS4D01G330500 chr4B 83.333 246 22 8 1432 1660 667289920 667290163 3.360000e-50 209.0
13 TraesCS4D01G330500 chr4B 81.884 276 23 14 1412 1660 667263235 667263510 1.210000e-49 207.0
14 TraesCS4D01G330500 chr4B 81.250 272 26 11 1412 1660 667277857 667278126 2.610000e-46 196.0
15 TraesCS4D01G330500 chr4B 80.851 235 26 8 1428 1645 639294497 639294729 2.050000e-37 167.0
16 TraesCS4D01G330500 chr4B 93.939 99 5 1 2659 2756 626067367 626067269 7.420000e-32 148.0
17 TraesCS4D01G330500 chr4B 95.349 43 2 0 1325 1367 667263184 667263226 5.940000e-08 69.4
18 TraesCS4D01G330500 chr4B 93.023 43 3 0 1325 1367 667277806 667277848 2.760000e-06 63.9
19 TraesCS4D01G330500 chr5A 92.566 1399 90 3 964 2350 670426357 670424961 0.000000e+00 1995.0
20 TraesCS4D01G330500 chr5A 88.265 980 50 19 1 966 670427424 670426496 0.000000e+00 1112.0
21 TraesCS4D01G330500 chr5A 80.785 1223 165 26 1164 2349 706678529 706677340 0.000000e+00 893.0
22 TraesCS4D01G330500 chr5A 92.551 537 26 2 2783 3319 670424539 670424017 0.000000e+00 758.0
23 TraesCS4D01G330500 chr5A 83.291 395 39 15 1 368 706679484 706679090 4.100000e-89 339.0
24 TraesCS4D01G330500 chr5A 79.197 274 31 18 1412 1660 706706073 706705801 2.050000e-37 167.0
25 TraesCS4D01G330500 chr5A 94.949 99 2 2 2659 2756 670424858 670424762 5.730000e-33 152.0
26 TraesCS4D01G330500 chr4A 81.063 1204 168 25 1164 2341 54405912 54404743 0.000000e+00 905.0
27 TraesCS4D01G330500 chr4A 100.000 30 0 0 2727 2756 54404675 54404646 4.630000e-04 56.5
28 TraesCS4D01G330500 chrUn 82.703 688 76 10 1498 2172 30126363 30125706 3.710000e-159 571.0
29 TraesCS4D01G330500 chrUn 79.107 627 86 19 1753 2342 30131077 30130459 1.120000e-104 390.0
30 TraesCS4D01G330500 chrUn 82.576 396 41 14 1 368 30127614 30127219 1.150000e-84 324.0


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 TraesCS4D01G330500 chr4D 488663941 488667259 3318 True 2780.500000 4340 100.00000 1 3319 2 chr4D.!!$R2 3318
1 TraesCS4D01G330500 chr4D 397157063 397158338 1275 True 488.250000 920 90.67450 1164 2756 2 chr4D.!!$R1 1592
2 TraesCS4D01G330500 chr4B 626066693 626071385 4692 True 952.500000 2817 92.44800 1 3143 4 chr4B.!!$R2 3142
3 TraesCS4D01G330500 chr4B 489293496 489294392 896 True 811.000000 811 83.38900 1250 2131 1 chr4B.!!$R1 881
4 TraesCS4D01G330500 chr4B 639451162 639453335 2173 False 633.000000 935 82.13700 1 2349 2 chr4B.!!$F3 2348
5 TraesCS4D01G330500 chr4B 667342731 667344390 1659 False 435.500000 571 81.58000 1 1891 2 chr4B.!!$F6 1890
6 TraesCS4D01G330500 chr5A 670424017 670427424 3407 True 1004.250000 1995 92.08275 1 3319 4 chr5A.!!$R2 3318
7 TraesCS4D01G330500 chr5A 706677340 706679484 2144 True 616.000000 893 82.03800 1 2349 2 chr5A.!!$R3 2348
8 TraesCS4D01G330500 chr4A 54404646 54405912 1266 True 480.750000 905 90.53150 1164 2756 2 chr4A.!!$R1 1592
9 TraesCS4D01G330500 chrUn 30125706 30131077 5371 True 428.333333 571 81.46200 1 2342 3 chrUn.!!$R1 2341

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
596 5470 0.393944 TGAGGAGGTACGCGACAGAT 60.394 55.0 15.93 0.0 0.00 2.90 F
1799 7119 0.168348 TCGACTACGTGAAGCAGCTC 59.832 55.0 0.00 0.0 40.69 4.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1839 7162 0.321671 AACACCATGGACTCTGACGG 59.678 55.0 21.47 0.0 0.00 4.79 R
3127 8746 0.393537 GGGACACCTGCAGATTCTGG 60.394 60.0 17.39 0.0 31.21 3.86 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
129 3599 9.638239 GGATTGAAGCAAAACAAATGTATAAGA 57.362 29.630 0.00 0.00 0.00 2.10
166 3636 2.224523 TGTGCCCTCTTCAGGTTTGTAG 60.225 50.000 0.00 0.00 38.30 2.74
168 3638 3.007614 GTGCCCTCTTCAGGTTTGTAGTA 59.992 47.826 0.00 0.00 38.30 1.82
169 3639 3.007614 TGCCCTCTTCAGGTTTGTAGTAC 59.992 47.826 0.00 0.00 38.30 2.73
170 3640 3.261137 GCCCTCTTCAGGTTTGTAGTACT 59.739 47.826 0.00 0.00 38.30 2.73
177 3662 4.638304 TCAGGTTTGTAGTACTTTCCAGC 58.362 43.478 0.00 0.00 0.00 4.85
185 3670 1.160137 GTACTTTCCAGCCAGCTGTG 58.840 55.000 17.86 5.06 42.15 3.66
259 5117 0.674895 ACCTAAAGCTTGCAGGCTCG 60.675 55.000 24.80 14.70 42.24 5.03
310 5168 4.651778 TGGGTCTCCTAAACAATTGACAG 58.348 43.478 13.59 5.66 0.00 3.51
315 5173 6.127897 GGTCTCCTAAACAATTGACAGAATGG 60.128 42.308 13.59 5.04 43.62 3.16
363 5237 7.030165 CACTAGTGGAGTTCATAACTACTGTG 58.970 42.308 15.49 7.03 43.07 3.66
372 5246 6.013639 AGTTCATAACTACTGTGCTTACCCTT 60.014 38.462 0.00 0.00 40.69 3.95
375 5249 3.963428 ACTACTGTGCTTACCCTTCAG 57.037 47.619 0.00 0.00 0.00 3.02
459 5333 1.299541 CACTCCAACAACTCGCAACT 58.700 50.000 0.00 0.00 0.00 3.16
586 5460 2.897969 GACAGGTTGAGTTGAGGAGGTA 59.102 50.000 0.00 0.00 0.00 3.08
596 5470 0.393944 TGAGGAGGTACGCGACAGAT 60.394 55.000 15.93 0.00 0.00 2.90
613 5487 5.721232 GACAGATCGAGTTTCTTTAGGGAA 58.279 41.667 0.00 0.00 0.00 3.97
614 5488 6.110411 ACAGATCGAGTTTCTTTAGGGAAA 57.890 37.500 0.00 0.00 33.47 3.13
615 5489 6.531021 ACAGATCGAGTTTCTTTAGGGAAAA 58.469 36.000 0.00 0.00 37.02 2.29
616 5490 7.168905 ACAGATCGAGTTTCTTTAGGGAAAAT 58.831 34.615 0.00 0.00 37.02 1.82
617 5491 7.665974 ACAGATCGAGTTTCTTTAGGGAAAATT 59.334 33.333 0.00 0.00 37.02 1.82
618 5492 8.515414 CAGATCGAGTTTCTTTAGGGAAAATTT 58.485 33.333 0.00 0.00 37.02 1.82
619 5493 9.078990 AGATCGAGTTTCTTTAGGGAAAATTTT 57.921 29.630 2.28 2.28 37.02 1.82
620 5494 9.129209 GATCGAGTTTCTTTAGGGAAAATTTTG 57.871 33.333 8.47 0.00 37.02 2.44
635 5509 8.178964 GGGAAAATTTTGTTCTTTGTAAACCAC 58.821 33.333 8.47 0.00 0.00 4.16
657 5531 2.622064 TCAGATCACGGATCTCTCGA 57.378 50.000 11.94 6.08 45.03 4.04
658 5532 2.919228 TCAGATCACGGATCTCTCGAA 58.081 47.619 11.94 0.00 45.03 3.71
729 5604 2.282040 GCACTCAGGCCAAGCACT 60.282 61.111 5.01 0.00 0.00 4.40
742 5617 1.538950 CAAGCACTGGAGAGAAAAGGC 59.461 52.381 0.00 0.00 0.00 4.35
759 5634 4.505313 AAGGCGTTGAGAAAGAAAATCC 57.495 40.909 0.00 0.00 0.00 3.01
771 5647 2.767505 AGAAAATCCGAAACTCGCACT 58.232 42.857 0.00 0.00 38.82 4.40
896 5964 2.052782 ACGCAAAGGACAGAGGTTTT 57.947 45.000 0.00 0.00 0.00 2.43
897 5965 2.375146 ACGCAAAGGACAGAGGTTTTT 58.625 42.857 0.00 0.00 0.00 1.94
908 5976 5.048846 ACAGAGGTTTTTCAGGTATGTGT 57.951 39.130 0.00 0.00 0.00 3.72
915 5983 1.434555 TTCAGGTATGTGTTTCGCCG 58.565 50.000 0.00 0.00 0.00 6.46
926 5994 1.727880 TGTTTCGCCGGAAATTCTACG 59.272 47.619 5.05 0.00 43.58 3.51
936 6017 5.213675 CCGGAAATTCTACGTGTCTAGATC 58.786 45.833 0.00 0.00 0.00 2.75
982 6212 7.810658 TGTGTCTTAATCATCAAGCTTTTCTC 58.189 34.615 0.00 0.00 0.00 2.87
987 6217 4.675190 ATCATCAAGCTTTTCTCGTGTG 57.325 40.909 0.00 0.00 0.00 3.82
999 6229 4.712122 TTCTCGTGTGCACAGTGATATA 57.288 40.909 22.40 7.19 0.00 0.86
1146 6382 2.531206 CTGCGAGTTGAAGGTAGCTAC 58.469 52.381 15.88 15.88 0.00 3.58
1213 6454 5.900123 ACAGGAGGAACTAGCTTACATGTAT 59.100 40.000 6.36 0.00 41.55 2.29
1323 6583 1.227943 CACCGATGGCAATCCCGAT 60.228 57.895 0.00 0.00 35.87 4.18
1329 6589 1.605710 GATGGCAATCCCGATGTTCAG 59.394 52.381 0.00 0.00 35.87 3.02
1466 6729 0.391793 CAACTTCCTCTCCTTCGGCC 60.392 60.000 0.00 0.00 0.00 6.13
1736 7056 3.130340 CGGCTTAAATAGTTGGCCATTGT 59.870 43.478 6.09 0.00 42.56 2.71
1799 7119 0.168348 TCGACTACGTGAAGCAGCTC 59.832 55.000 0.00 0.00 40.69 4.09
1962 7294 3.179925 GACATTGAGGCCAGCATCA 57.820 52.632 5.01 2.34 34.80 3.07
1997 7329 3.311871 CACTCCTGAATATCTGCTGCAAC 59.688 47.826 3.02 0.00 0.00 4.17
2025 7357 0.915872 AGGGGTGCTGGTGATGATCA 60.916 55.000 0.00 0.00 0.00 2.92
2107 7439 0.036732 TCCTGCCTCAACATCACCAC 59.963 55.000 0.00 0.00 0.00 4.16
2156 7494 6.182627 CCCTGGTCATATATACATTGTGCAT 58.817 40.000 0.00 0.00 0.00 3.96
2697 8105 2.244000 GCAAACAGCAGAACCGCTA 58.756 52.632 0.00 0.00 41.38 4.26
2699 8107 1.512926 CAAACAGCAGAACCGCTACT 58.487 50.000 0.00 0.00 41.38 2.57
2770 8389 3.452264 CCAGATCTGGTGGAATGTGTCTA 59.548 47.826 30.55 0.00 45.53 2.59
2771 8390 4.102210 CCAGATCTGGTGGAATGTGTCTAT 59.898 45.833 30.55 0.00 45.53 1.98
2772 8391 5.305386 CCAGATCTGGTGGAATGTGTCTATA 59.695 44.000 30.55 0.00 45.53 1.31
2773 8392 6.219473 CAGATCTGGTGGAATGTGTCTATAC 58.781 44.000 15.38 0.00 0.00 1.47
2774 8393 6.041409 CAGATCTGGTGGAATGTGTCTATACT 59.959 42.308 15.38 0.00 0.00 2.12
2775 8394 5.598416 TCTGGTGGAATGTGTCTATACTG 57.402 43.478 0.00 0.00 0.00 2.74
2776 8395 5.023452 TCTGGTGGAATGTGTCTATACTGT 58.977 41.667 0.00 0.00 0.00 3.55
2777 8396 5.483937 TCTGGTGGAATGTGTCTATACTGTT 59.516 40.000 0.00 0.00 0.00 3.16
2778 8397 5.487433 TGGTGGAATGTGTCTATACTGTTG 58.513 41.667 0.00 0.00 0.00 3.33
2779 8398 4.876107 GGTGGAATGTGTCTATACTGTTGG 59.124 45.833 0.00 0.00 0.00 3.77
2780 8399 4.876107 GTGGAATGTGTCTATACTGTTGGG 59.124 45.833 0.00 0.00 0.00 4.12
2781 8400 3.877508 GGAATGTGTCTATACTGTTGGGC 59.122 47.826 0.00 0.00 0.00 5.36
2818 8437 5.581126 TCAAAAGCACATTGAAGTTGACT 57.419 34.783 0.00 0.00 34.04 3.41
2823 8442 4.392940 AGCACATTGAAGTTGACTAGCTT 58.607 39.130 0.00 0.00 0.00 3.74
2970 8589 1.408127 CCCACATCATTGCGGTCCTTA 60.408 52.381 0.00 0.00 0.00 2.69
2977 8596 3.191669 TCATTGCGGTCCTTATTGTACG 58.808 45.455 0.00 0.00 0.00 3.67
2988 8607 5.924825 GTCCTTATTGTACGTGAAGAAGTGT 59.075 40.000 0.00 0.00 0.00 3.55
3006 8625 5.824904 AGTGTTTATTCTGCCATGCTAAG 57.175 39.130 0.00 0.00 0.00 2.18
3087 8706 0.469144 TGGAACCCAAGAAACCAGCC 60.469 55.000 0.00 0.00 0.00 4.85
3127 8746 5.106277 GGTAAGCATGTTACTTGGGAGTTTC 60.106 44.000 13.98 0.00 37.33 2.78
3152 8771 0.909610 TCTGCAGGTGTCCCCTAAGG 60.910 60.000 15.13 0.00 43.86 2.69
3174 8793 3.730715 GCCTTTGTCACATCTGAAAAACG 59.269 43.478 0.00 0.00 31.38 3.60
3179 8798 3.248363 TGTCACATCTGAAAAACGCTGAG 59.752 43.478 0.00 0.00 0.00 3.35
3182 8801 2.031682 ACATCTGAAAAACGCTGAGTGC 60.032 45.455 0.00 0.00 38.57 4.40
3185 8804 0.380378 TGAAAAACGCTGAGTGCCAC 59.620 50.000 0.00 0.00 38.78 5.01
3216 8835 7.392418 CCATGAAGATCATATCACCATAGTGT 58.608 38.462 0.00 0.00 38.98 3.55
3228 8847 6.381481 TCACCATAGTGTACCAATACTACG 57.619 41.667 0.00 0.00 44.83 3.51
3231 8850 5.127519 ACCATAGTGTACCAATACTACGCAA 59.872 40.000 0.00 0.00 32.81 4.85
3240 8859 4.141482 ACCAATACTACGCAATTGAGGGAT 60.141 41.667 10.34 0.00 35.53 3.85
3271 8890 3.206150 TCAGGTCTTGCACTGTTTCTTC 58.794 45.455 2.37 0.00 36.17 2.87
3313 8932 3.702147 GCATATGTGCCTGAGCTCT 57.298 52.632 16.19 0.00 45.76 4.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 3470 7.037438 GTGCAACTTGGAATATTTCATGACAT 58.963 34.615 14.88 0.00 0.00 3.06
13 3477 5.707411 GCATGTGCAACTTGGAATATTTC 57.293 39.130 0.00 0.00 41.80 2.17
129 3599 1.271597 GCACAAGAAGGGGACAGATGT 60.272 52.381 0.00 0.00 0.00 3.06
133 3603 1.303643 GGGCACAAGAAGGGGACAG 60.304 63.158 0.00 0.00 0.00 3.51
177 3662 2.294233 AGTGCAAATACAACACAGCTGG 59.706 45.455 19.93 9.66 36.76 4.85
185 3670 7.065283 GCTTCAAATCAAAGTGCAAATACAAC 58.935 34.615 0.00 0.00 0.00 3.32
310 5168 9.326413 GCATATACCAATACCATACTACCATTC 57.674 37.037 0.00 0.00 0.00 2.67
315 5173 8.311836 AGTGTGCATATACCAATACCATACTAC 58.688 37.037 0.00 0.00 30.08 2.73
363 5237 1.269723 GTTTGGTGCTGAAGGGTAAGC 59.730 52.381 0.00 0.00 39.96 3.09
372 5246 1.626321 TCCGGATAAGTTTGGTGCTGA 59.374 47.619 0.00 0.00 0.00 4.26
375 5249 3.926821 TTTTCCGGATAAGTTTGGTGC 57.073 42.857 4.15 0.00 0.00 5.01
472 5346 1.444553 GGACGAGGTCTGCTTCACG 60.445 63.158 0.00 0.00 32.47 4.35
478 5352 4.373116 TTGCCGGACGAGGTCTGC 62.373 66.667 5.05 2.25 37.59 4.26
586 5460 0.522180 AGAAACTCGATCTGTCGCGT 59.478 50.000 5.77 0.00 46.70 6.01
596 5470 8.002984 ACAAAATTTTCCCTAAAGAAACTCGA 57.997 30.769 0.00 0.00 35.53 4.04
608 5482 8.103935 TGGTTTACAAAGAACAAAATTTTCCCT 58.896 29.630 0.00 0.00 0.00 4.20
609 5483 8.178964 GTGGTTTACAAAGAACAAAATTTTCCC 58.821 33.333 0.00 0.00 0.00 3.97
614 5488 9.442047 TGAATGTGGTTTACAAAGAACAAAATT 57.558 25.926 0.00 0.00 43.77 1.82
615 5489 9.097257 CTGAATGTGGTTTACAAAGAACAAAAT 57.903 29.630 0.00 0.00 43.77 1.82
616 5490 8.307483 TCTGAATGTGGTTTACAAAGAACAAAA 58.693 29.630 0.00 0.00 43.77 2.44
617 5491 7.831753 TCTGAATGTGGTTTACAAAGAACAAA 58.168 30.769 0.00 0.00 43.77 2.83
618 5492 7.397892 TCTGAATGTGGTTTACAAAGAACAA 57.602 32.000 0.00 0.00 43.77 2.83
619 5493 7.284261 TGATCTGAATGTGGTTTACAAAGAACA 59.716 33.333 0.00 0.00 43.77 3.18
620 5494 7.591426 GTGATCTGAATGTGGTTTACAAAGAAC 59.409 37.037 0.00 0.00 43.77 3.01
657 5531 7.286087 TCTCCTGCATGCAATCTTTAATACATT 59.714 33.333 22.88 0.00 0.00 2.71
658 5532 6.774170 TCTCCTGCATGCAATCTTTAATACAT 59.226 34.615 22.88 0.00 0.00 2.29
729 5604 1.691976 TCTCAACGCCTTTTCTCTCCA 59.308 47.619 0.00 0.00 0.00 3.86
742 5617 5.748592 AGTTTCGGATTTTCTTTCTCAACG 58.251 37.500 0.00 0.00 0.00 4.10
759 5634 0.229753 GACACACAGTGCGAGTTTCG 59.770 55.000 0.00 0.00 43.89 3.46
771 5647 1.131504 GTTTGGTTTCGCAGACACACA 59.868 47.619 0.00 0.00 39.27 3.72
896 5964 1.434555 CGGCGAAACACATACCTGAA 58.565 50.000 0.00 0.00 0.00 3.02
897 5965 0.390603 CCGGCGAAACACATACCTGA 60.391 55.000 9.30 0.00 0.00 3.86
908 5976 1.727880 CACGTAGAATTTCCGGCGAAA 59.272 47.619 9.30 7.76 42.10 3.46
915 5983 5.213675 CCGATCTAGACACGTAGAATTTCC 58.786 45.833 16.29 0.00 32.72 3.13
926 5994 3.018149 AGAGGAACACCGATCTAGACAC 58.982 50.000 0.00 0.00 0.00 3.67
936 6017 2.357517 AAGCGCAGAGGAACACCG 60.358 61.111 11.47 0.00 0.00 4.94
982 6212 4.119136 TCCATTATATCACTGTGCACACG 58.881 43.478 17.42 14.58 0.00 4.49
987 6217 4.023707 GGTTGCTCCATTATATCACTGTGC 60.024 45.833 2.12 0.00 35.97 4.57
999 6229 3.742385 CCATTGTTTTGGTTGCTCCATT 58.258 40.909 2.36 0.00 46.60 3.16
1093 6329 8.989653 TCCACAAAAAGAAAAATTAACTCGTT 57.010 26.923 0.00 0.00 0.00 3.85
1146 6382 6.195244 GCAATAAGATGTCACAAGTTTATGCG 59.805 38.462 0.00 0.00 0.00 4.73
1213 6454 1.463214 TGGACCCCCTTCTTGCTGA 60.463 57.895 0.00 0.00 0.00 4.26
1323 6583 0.390340 GCTGCGAGATGGACTGAACA 60.390 55.000 0.00 0.00 0.00 3.18
1329 6589 0.179062 ATTGGAGCTGCGAGATGGAC 60.179 55.000 0.32 0.00 0.00 4.02
1687 6995 1.676014 GCAGGTACCTGGTGATCACAC 60.676 57.143 36.91 17.33 43.77 3.82
1715 7035 4.159506 TGACAATGGCCAACTATTTAAGCC 59.840 41.667 10.96 0.00 44.13 4.35
1736 7056 5.922053 AGCTTGTCAGTCTGCATAATATGA 58.078 37.500 4.14 0.00 0.00 2.15
1745 7065 1.545582 AGAGAGAGCTTGTCAGTCTGC 59.454 52.381 0.00 0.00 0.00 4.26
1799 7119 1.219393 GGCCTTCACCTTCTCCTCG 59.781 63.158 0.00 0.00 0.00 4.63
1839 7162 0.321671 AACACCATGGACTCTGACGG 59.678 55.000 21.47 0.00 0.00 4.79
1937 7269 2.044946 GCCTCAATGTCCGGGCTT 60.045 61.111 7.97 0.00 41.20 4.35
1962 7294 1.228154 GGAGTGCCGTGTTCCCTTT 60.228 57.895 0.00 0.00 0.00 3.11
1963 7295 2.147387 AGGAGTGCCGTGTTCCCTT 61.147 57.895 0.00 0.00 39.96 3.95
1997 7329 2.043450 AGCACCCCTCTCCTCTCG 60.043 66.667 0.00 0.00 0.00 4.04
2025 7357 3.529533 CCTGATTTTCGAGCTCAGACAT 58.470 45.455 15.40 6.80 38.96 3.06
2107 7439 4.362476 GCCTTGCCTTTGCCGTGG 62.362 66.667 0.00 0.00 36.33 4.94
2156 7494 8.951787 AATGACAGTTAAGTTATAACCGCATA 57.048 30.769 12.05 0.00 0.00 3.14
2209 7564 7.572523 AAAGTGAACATGTCAATCTTCTGAA 57.427 32.000 0.00 0.00 38.23 3.02
2770 8389 0.616371 TAGCCAACGCCCAACAGTAT 59.384 50.000 0.00 0.00 34.57 2.12
2771 8390 0.397187 TTAGCCAACGCCCAACAGTA 59.603 50.000 0.00 0.00 34.57 2.74
2772 8391 1.149627 TTAGCCAACGCCCAACAGT 59.850 52.632 0.00 0.00 34.57 3.55
2773 8392 0.889186 AGTTAGCCAACGCCCAACAG 60.889 55.000 0.00 0.00 39.78 3.16
2774 8393 1.149627 AGTTAGCCAACGCCCAACA 59.850 52.632 0.00 0.00 39.78 3.33
2775 8394 1.579429 CAGTTAGCCAACGCCCAAC 59.421 57.895 0.00 0.00 39.78 3.77
2776 8395 1.602323 CCAGTTAGCCAACGCCCAA 60.602 57.895 0.00 0.00 39.78 4.12
2777 8396 2.033448 CCAGTTAGCCAACGCCCA 59.967 61.111 0.00 0.00 39.78 5.36
2778 8397 3.440415 GCCAGTTAGCCAACGCCC 61.440 66.667 0.00 0.00 39.78 6.13
2779 8398 2.359975 AGCCAGTTAGCCAACGCC 60.360 61.111 0.00 0.00 39.78 5.68
2780 8399 1.234615 TTGAGCCAGTTAGCCAACGC 61.235 55.000 0.00 0.00 39.78 4.84
2781 8400 1.234821 TTTGAGCCAGTTAGCCAACG 58.765 50.000 0.00 0.00 39.78 4.10
2818 8437 5.405935 TGATGTCTCAGTTGCTTAAGCTA 57.594 39.130 26.90 17.93 42.66 3.32
2823 8442 5.129634 TGGTTTTGATGTCTCAGTTGCTTA 58.870 37.500 0.00 0.00 31.68 3.09
2863 8482 3.522343 ACAACCCCCTCTCTGTTATTACC 59.478 47.826 0.00 0.00 0.00 2.85
2970 8589 8.495949 CAGAATAAACACTTCTTCACGTACAAT 58.504 33.333 0.00 0.00 30.60 2.71
2977 8596 5.689383 TGGCAGAATAAACACTTCTTCAC 57.311 39.130 0.00 0.00 30.60 3.18
2988 8607 8.530311 TCATTTTTCTTAGCATGGCAGAATAAA 58.470 29.630 0.00 0.00 0.00 1.40
3048 8667 7.254932 GGTTCCACTGAATATTCTGCAGTATTC 60.255 40.741 21.68 21.68 40.63 1.75
3087 8706 4.218200 TGCTTACCACCTTTGTCATTGATG 59.782 41.667 0.00 0.00 0.00 3.07
3127 8746 0.393537 GGGACACCTGCAGATTCTGG 60.394 60.000 17.39 0.00 31.21 3.86
3152 8771 3.730715 CGTTTTTCAGATGTGACAAAGGC 59.269 43.478 10.13 0.00 33.90 4.35
3179 8798 0.524862 CTTCATGGCTTCTGTGGCAC 59.475 55.000 11.55 11.55 45.12 5.01
3182 8801 2.995283 TGATCTTCATGGCTTCTGTGG 58.005 47.619 0.00 0.00 0.00 4.17
3185 8804 5.411977 GGTGATATGATCTTCATGGCTTCTG 59.588 44.000 0.30 0.00 37.70 3.02
3216 8835 4.406326 TCCCTCAATTGCGTAGTATTGGTA 59.594 41.667 0.00 0.00 34.26 3.25
3228 8847 7.094463 CCTGAATTGACTATATCCCTCAATTGC 60.094 40.741 15.06 9.92 42.18 3.56
3231 8850 7.515514 AGACCTGAATTGACTATATCCCTCAAT 59.484 37.037 0.00 0.00 36.41 2.57
3240 8859 6.108687 CAGTGCAAGACCTGAATTGACTATA 58.891 40.000 0.00 0.00 0.00 1.31
3271 8890 5.708948 TCCCGCTTGAAGAATAAAATTGTG 58.291 37.500 0.00 0.00 0.00 3.33


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

AutoCloner maintained by Alex Coulton.