Multiple sequence alignment - TraesCS3B01G248800

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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 TraesCS3B01G248800 chr3B 100.000 4817 0 0 1 4817 396717314 396722130 0.000000e+00 8896
1 TraesCS3B01G248800 chr3B 94.157 599 34 1 1 598 53912954 53912356 0.000000e+00 911
2 TraesCS3B01G248800 chr3B 94.147 598 34 1 1 597 792731314 792731911 0.000000e+00 909
3 TraesCS3B01G248800 chr3B 95.480 354 15 1 597 949 53912322 53911969 9.050000e-157 564
4 TraesCS3B01G248800 chr3B 95.184 353 17 0 597 949 792731946 792732298 4.210000e-155 558
5 TraesCS3B01G248800 chr3A 97.316 2869 73 3 949 3815 400767071 400764205 0.000000e+00 4868
6 TraesCS3B01G248800 chr3A 92.201 795 41 10 4023 4806 400763973 400763189 0.000000e+00 1105
7 TraesCS3B01G248800 chr3A 96.026 151 6 0 3872 4022 400764203 400764053 3.720000e-61 246
8 TraesCS3B01G248800 chr3D 93.408 1972 74 25 2042 3973 322709961 322711916 0.000000e+00 2870
9 TraesCS3B01G248800 chr3D 95.716 1097 28 1 949 2045 322708803 322709880 0.000000e+00 1748
10 TraesCS3B01G248800 chr6B 95.993 599 23 1 1 598 704306466 704305868 0.000000e+00 972
11 TraesCS3B01G248800 chr6B 96.893 354 9 2 597 949 704305834 704305482 4.150000e-165 592
12 TraesCS3B01G248800 chr4A 94.491 599 32 1 1 598 593476042 593475444 0.000000e+00 922
13 TraesCS3B01G248800 chr4A 91.268 355 8 4 597 950 593475410 593475078 3.400000e-126 462
14 TraesCS3B01G248800 chr7B 94.491 599 29 2 1 598 605987325 605987920 0.000000e+00 920
15 TraesCS3B01G248800 chr7B 94.618 353 19 0 597 949 605987954 605988306 9.110000e-152 547
16 TraesCS3B01G248800 chr7B 93.503 354 22 1 597 949 551537705 551538058 4.270000e-145 525
17 TraesCS3B01G248800 chr1B 93.813 598 35 2 1 597 588144270 588143674 0.000000e+00 898
18 TraesCS3B01G248800 chr1B 95.726 351 15 0 599 949 588143637 588143287 2.520000e-157 566
19 TraesCS3B01G248800 chr4D 85.284 598 86 2 1 597 135120620 135121216 2.460000e-172 616
20 TraesCS3B01G248800 chr4D 87.755 343 40 2 606 947 135121260 135121601 2.700000e-107 399
21 TraesCS3B01G248800 chr2B 96.884 353 11 0 597 949 9278336 9278688 4.150000e-165 592
22 TraesCS3B01G248800 chr2B 78.109 201 36 7 4602 4799 4475709 4475514 2.350000e-23 121
23 TraesCS3B01G248800 chr6D 84.027 601 92 3 1 597 278551080 278550480 4.180000e-160 575
24 TraesCS3B01G248800 chr7D 83.417 597 97 2 1 596 479667559 479668154 1.960000e-153 553
25 TraesCS3B01G248800 chr5D 94.512 164 9 0 4654 4817 110870725 110870562 2.230000e-63 254


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 TraesCS3B01G248800 chr3B 396717314 396722130 4816 False 8896.0 8896 100.0000 1 4817 1 chr3B.!!$F1 4816
1 TraesCS3B01G248800 chr3B 53911969 53912954 985 True 737.5 911 94.8185 1 949 2 chr3B.!!$R1 948
2 TraesCS3B01G248800 chr3B 792731314 792732298 984 False 733.5 909 94.6655 1 949 2 chr3B.!!$F2 948
3 TraesCS3B01G248800 chr3A 400763189 400767071 3882 True 2073.0 4868 95.1810 949 4806 3 chr3A.!!$R1 3857
4 TraesCS3B01G248800 chr3D 322708803 322711916 3113 False 2309.0 2870 94.5620 949 3973 2 chr3D.!!$F1 3024
5 TraesCS3B01G248800 chr6B 704305482 704306466 984 True 782.0 972 96.4430 1 949 2 chr6B.!!$R1 948
6 TraesCS3B01G248800 chr4A 593475078 593476042 964 True 692.0 922 92.8795 1 950 2 chr4A.!!$R1 949
7 TraesCS3B01G248800 chr7B 605987325 605988306 981 False 733.5 920 94.5545 1 949 2 chr7B.!!$F2 948
8 TraesCS3B01G248800 chr1B 588143287 588144270 983 True 732.0 898 94.7695 1 949 2 chr1B.!!$R1 948
9 TraesCS3B01G248800 chr4D 135120620 135121601 981 False 507.5 616 86.5195 1 947 2 chr4D.!!$F1 946
10 TraesCS3B01G248800 chr6D 278550480 278551080 600 True 575.0 575 84.0270 1 597 1 chr6D.!!$R1 596
11 TraesCS3B01G248800 chr7D 479667559 479668154 595 False 553.0 553 83.4170 1 596 1 chr7D.!!$F1 595

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
889 931 1.149288 TGGCTAGGGATCCTACCGAAT 59.851 52.381 12.58 0.0 34.61 3.34 F
1291 1333 1.609061 CCGCAGACCATCAAGTTCACT 60.609 52.381 0.00 0.0 0.00 3.41 F
1426 1468 2.036992 GCTCTGACATCGGATCTCCATT 59.963 50.000 0.00 0.0 35.14 3.16 F
3067 3196 1.678627 CCTCGGTCAGTACATCCTCAG 59.321 57.143 0.00 0.0 0.00 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2100 2226 0.106268 AGCAACCAATGTCACACCCA 60.106 50.000 0.00 0.0 0.00 4.51 R
2620 2749 1.974957 TCTTCCACGGAATCAACTGGA 59.025 47.619 0.00 0.0 33.28 3.86 R
3415 3544 2.355716 GGTAGCAGACATAAACCCAGCA 60.356 50.000 0.00 0.0 0.00 4.41 R
4438 4694 0.035317 TCATGGCCTGTGTGAGTGAC 59.965 55.000 3.32 0.0 0.00 3.67 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
35 36 2.945456 AGGTCAAAGTCCCCTCAAAAC 58.055 47.619 0.00 0.00 0.00 2.43
116 117 1.961180 AAGGAAGATGGCGGACTCGG 61.961 60.000 0.00 0.00 36.79 4.63
535 540 2.756207 CAATGTGGATGGTGCAATCTCA 59.244 45.455 0.00 0.00 0.00 3.27
608 650 2.288666 GTATTTGGGCAGCGAATCTGA 58.711 47.619 0.00 0.00 45.72 3.27
664 706 1.343069 AGGACCTCAACCTCTCACAC 58.657 55.000 0.00 0.00 31.43 3.82
709 751 1.546029 CAAGTGGTCTCGGACATCAGA 59.454 52.381 6.41 0.00 33.68 3.27
803 845 8.630917 GTGCTAGTTTTAGATATGAGTGTAGGA 58.369 37.037 0.00 0.00 0.00 2.94
889 931 1.149288 TGGCTAGGGATCCTACCGAAT 59.851 52.381 12.58 0.00 34.61 3.34
1093 1135 2.073101 GCTTCCCTTCCCCGATCCT 61.073 63.158 0.00 0.00 0.00 3.24
1165 1207 2.107141 GCCCTCGACGATCCCAAG 59.893 66.667 0.00 0.00 0.00 3.61
1291 1333 1.609061 CCGCAGACCATCAAGTTCACT 60.609 52.381 0.00 0.00 0.00 3.41
1426 1468 2.036992 GCTCTGACATCGGATCTCCATT 59.963 50.000 0.00 0.00 35.14 3.16
1649 1691 2.966309 CTTCCGCGGCAACTTCACC 61.966 63.158 23.51 0.00 0.00 4.02
1744 1786 7.518052 GCTTCATTCCTCTTGTTGATAAGATCG 60.518 40.741 0.00 0.00 36.21 3.69
1826 1868 4.063689 GCTGGACATGATTCCTGATACAG 58.936 47.826 11.92 0.00 36.87 2.74
1871 1913 8.405418 AGAGTGTGTTGTTGATCTACTAGTTA 57.595 34.615 0.00 0.00 0.00 2.24
1950 1992 2.631062 TCTGCGTTATGGTATAGTGGGG 59.369 50.000 0.00 0.00 0.00 4.96
2056 2182 5.009110 GGCCTTGAAAGTATCTTCTAATGGC 59.991 44.000 0.00 0.00 0.00 4.40
2099 2225 5.253096 AGGGAGAAGGGTTTATTTCTAGCAA 59.747 40.000 0.00 0.00 33.97 3.91
2100 2226 6.068794 AGGGAGAAGGGTTTATTTCTAGCAAT 60.069 38.462 0.00 0.00 33.97 3.56
2104 2230 5.206905 AGGGTTTATTTCTAGCAATGGGT 57.793 39.130 0.00 0.00 0.00 4.51
2194 2322 5.732331 TCCTTTGGTATCCTGATGGAAAT 57.268 39.130 0.00 0.00 46.80 2.17
2372 2500 7.537596 AGTGTATCTATCCTGATTCTTCCTG 57.462 40.000 0.00 0.00 0.00 3.86
2375 2503 5.901413 ATCTATCCTGATTCTTCCTGCAA 57.099 39.130 0.00 0.00 0.00 4.08
2376 2504 5.901413 TCTATCCTGATTCTTCCTGCAAT 57.099 39.130 0.00 0.00 0.00 3.56
2442 2570 5.355910 ACTGGTTCACAACGATTAAGTGTTT 59.644 36.000 0.00 0.00 34.94 2.83
2456 2584 8.311822 CGATTAAGTGTTTGTAACTGATAGTCG 58.688 37.037 0.00 0.00 0.00 4.18
2468 2597 9.384764 TGTAACTGATAGTCGGATATGATCTAG 57.615 37.037 0.00 0.00 0.00 2.43
2490 2619 5.295950 AGATAGCTTGTCATATGTGCAGAC 58.704 41.667 1.90 0.00 0.00 3.51
2520 2649 6.935741 TTGCGGTGCTATCAACTATATTTT 57.064 33.333 0.00 0.00 0.00 1.82
2530 2659 8.290325 GCTATCAACTATATTTTTGCCACCTAC 58.710 37.037 0.00 0.00 0.00 3.18
2595 2724 4.570772 ACACGTGCTGGTTTATATTAGCAG 59.429 41.667 17.22 10.66 45.74 4.24
3067 3196 1.678627 CCTCGGTCAGTACATCCTCAG 59.321 57.143 0.00 0.00 0.00 3.35
3077 3206 5.242615 TCAGTACATCCTCAGTATGCAGATC 59.757 44.000 0.00 0.00 34.76 2.75
3138 3267 9.862371 ATTTCAGTTAGATGTAAGTGTACTGAG 57.138 33.333 15.06 0.00 39.65 3.35
3313 3442 6.569179 TGTCATAAACAAGTAAAAGGAGGC 57.431 37.500 0.00 0.00 34.03 4.70
3314 3443 5.180492 TGTCATAAACAAGTAAAAGGAGGCG 59.820 40.000 0.00 0.00 34.03 5.52
3415 3544 3.091545 CAGATGGGTTATTGCTGGTGTT 58.908 45.455 0.00 0.00 0.00 3.32
3670 3810 3.266772 ACATCCCACCTTACATGTGACAT 59.733 43.478 9.11 0.00 35.74 3.06
3789 3929 7.222031 GTGGTTTACTTTTTGTTCCATTCACTC 59.778 37.037 0.00 0.00 0.00 3.51
3800 3940 9.443323 TTTGTTCCATTCACTCGAGATTAATAA 57.557 29.630 21.68 5.12 0.00 1.40
3801 3941 9.613428 TTGTTCCATTCACTCGAGATTAATAAT 57.387 29.630 21.68 6.19 0.00 1.28
3836 3979 1.535462 CAACTGCGGTTGTTCCTAAGG 59.465 52.381 27.09 1.38 45.42 2.69
3837 3980 0.605589 ACTGCGGTTGTTCCTAAGGC 60.606 55.000 0.00 0.00 0.00 4.35
3843 3986 1.265905 GGTTGTTCCTAAGGCGTGTTG 59.734 52.381 0.00 0.00 0.00 3.33
3846 3989 0.035739 GTTCCTAAGGCGTGTTGGGA 59.964 55.000 0.74 0.74 35.41 4.37
4039 4284 2.531206 GGATGTGCTAGACGTGAACTC 58.469 52.381 0.00 0.00 0.00 3.01
4097 4342 4.615815 GCGCTGCCATCCTCCGAT 62.616 66.667 0.00 0.00 0.00 4.18
4098 4343 2.356793 CGCTGCCATCCTCCGATC 60.357 66.667 0.00 0.00 0.00 3.69
4099 4344 2.031768 GCTGCCATCCTCCGATCC 59.968 66.667 0.00 0.00 0.00 3.36
4100 4345 2.515071 GCTGCCATCCTCCGATCCT 61.515 63.158 0.00 0.00 0.00 3.24
4137 4383 1.203523 CCGCATCAGTAGGCCTATCTC 59.796 57.143 17.38 2.87 0.00 2.75
4162 4408 1.001706 GACATATGTCGTCGCTGCCTA 60.002 52.381 19.63 0.00 35.12 3.93
4173 4419 1.760029 TCGCTGCCTACACCATATGAA 59.240 47.619 3.65 0.00 0.00 2.57
4189 4435 5.105351 CCATATGAATATGCTCCCTACGTCA 60.105 44.000 3.65 0.00 38.99 4.35
4207 4463 6.880942 ACGTCATATCTCTTACTAGGGTTC 57.119 41.667 0.00 0.00 0.00 3.62
4260 4516 1.277273 CTCCTCAGCCTTGTGACATGA 59.723 52.381 0.00 0.00 0.00 3.07
4286 4542 3.351740 TCTGCAAACTCCACTTCAAACA 58.648 40.909 0.00 0.00 0.00 2.83
4287 4543 3.761218 TCTGCAAACTCCACTTCAAACAA 59.239 39.130 0.00 0.00 0.00 2.83
4288 4544 3.843999 TGCAAACTCCACTTCAAACAAC 58.156 40.909 0.00 0.00 0.00 3.32
4304 4560 0.664166 CAACGCCAGCGCAATTTTCT 60.664 50.000 11.47 0.00 44.19 2.52
4322 4578 2.219325 CTCCGTCCGAAAGCAGCTCT 62.219 60.000 0.00 0.00 0.00 4.09
4362 4618 3.254166 GGTTTCATTGTCACACATGAGCT 59.746 43.478 0.00 0.00 34.75 4.09
4366 4622 3.499537 TCATTGTCACACATGAGCTTGAC 59.500 43.478 0.00 6.97 39.09 3.18
4369 4625 2.072298 GTCACACATGAGCTTGACCTC 58.928 52.381 0.00 0.00 34.75 3.85
4370 4626 1.073964 CACACATGAGCTTGACCTCG 58.926 55.000 0.00 0.00 34.56 4.63
4371 4627 0.036952 ACACATGAGCTTGACCTCGG 60.037 55.000 0.00 0.00 34.56 4.63
4382 4638 1.108776 TGACCTCGGGTAATCTTCGG 58.891 55.000 0.00 0.00 35.25 4.30
4390 4646 3.705579 TCGGGTAATCTTCGGTTTATCCA 59.294 43.478 0.00 0.00 32.59 3.41
4396 4652 1.835531 TCTTCGGTTTATCCACCCTCC 59.164 52.381 0.00 0.00 35.57 4.30
4420 4676 1.067212 ACCGCTCGTCATATCTTGGTC 59.933 52.381 0.00 0.00 0.00 4.02
4431 4687 0.255890 ATCTTGGTCGGGGTGAATGG 59.744 55.000 0.00 0.00 0.00 3.16
4438 4694 2.406616 CGGGGTGAATGGCTTTCGG 61.407 63.158 8.39 0.00 37.13 4.30
4496 4752 7.562135 ACCTATATTCCTCTTAAACTTCGCAA 58.438 34.615 0.00 0.00 0.00 4.85
4535 4791 7.396623 TCCCTCTCTCGTTAAGAATTTACTCTT 59.603 37.037 0.00 0.00 39.09 2.85
4538 4794 9.413048 CTCTCTCGTTAAGAATTTACTCTTTGT 57.587 33.333 0.00 0.00 36.95 2.83
4541 4797 8.697067 TCTCGTTAAGAATTTACTCTTTGTTCG 58.303 33.333 0.00 0.00 36.95 3.95
4543 4799 7.042590 TCGTTAAGAATTTACTCTTTGTTCGCA 60.043 33.333 0.00 0.00 36.95 5.10
4569 4825 0.721718 CTCGCGACAATCCTGTTTCC 59.278 55.000 3.71 0.00 35.30 3.13
4570 4826 0.034198 TCGCGACAATCCTGTTTCCA 59.966 50.000 3.71 0.00 35.30 3.53
4582 4838 7.738950 ACAATCCTGTTTCCATCAAGTTTGATG 60.739 37.037 22.11 22.11 46.94 3.07
4633 4889 0.034756 TCTCAAAGGCGCACTAAGCA 59.965 50.000 10.83 0.00 46.13 3.91
4664 4920 7.699566 TCATTCCAAGTAACAACAGTTTACAC 58.300 34.615 0.00 0.00 0.00 2.90
4684 4940 4.101585 ACACGATGAATGACATATCCCTGT 59.898 41.667 0.00 0.00 39.56 4.00
4701 4957 5.801380 TCCCTGTTGTATTACTTCTGGAAC 58.199 41.667 12.43 0.00 0.00 3.62
4806 5062 1.203052 TGAATAAGCTTGCCTTGCTGC 59.797 47.619 9.86 0.00 41.03 5.25
4807 5063 1.203052 GAATAAGCTTGCCTTGCTGCA 59.797 47.619 9.86 0.00 41.03 4.41
4808 5064 1.481871 ATAAGCTTGCCTTGCTGCAT 58.518 45.000 9.86 0.00 41.70 3.96
4809 5065 0.813184 TAAGCTTGCCTTGCTGCATC 59.187 50.000 9.86 0.00 41.70 3.91
4810 5066 1.183030 AAGCTTGCCTTGCTGCATCA 61.183 50.000 1.84 0.00 41.70 3.07
4811 5067 0.970937 AGCTTGCCTTGCTGCATCAT 60.971 50.000 1.84 0.00 41.70 2.45
4812 5068 0.806102 GCTTGCCTTGCTGCATCATG 60.806 55.000 1.84 5.97 41.70 3.07
4813 5069 0.179111 CTTGCCTTGCTGCATCATGG 60.179 55.000 16.06 16.06 41.70 3.66
4814 5070 1.609635 TTGCCTTGCTGCATCATGGG 61.610 55.000 20.34 13.16 41.70 4.00
4815 5071 2.812499 CCTTGCTGCATCATGGGC 59.188 61.111 13.29 0.63 0.00 5.36
4816 5072 1.756950 CCTTGCTGCATCATGGGCT 60.757 57.895 13.29 0.00 0.00 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 7.500227 TGATAGCCTCCATACAAAAATTCTGAG 59.500 37.037 0.00 0.00 0.00 3.35
116 117 1.134946 ACCACACAAAGAACAAGCTGC 59.865 47.619 0.00 0.00 0.00 5.25
294 295 2.200899 CCAAAACTTTTGCCAACTCCG 58.799 47.619 8.53 0.00 0.00 4.63
504 509 6.435591 TGCACCATCCACATTGATTTTAACTA 59.564 34.615 0.00 0.00 0.00 2.24
535 540 2.190841 CACCCCTTTTGCGTTCCGT 61.191 57.895 0.00 0.00 0.00 4.69
664 706 6.128715 GCATACAATCAGAACCTATGATCACG 60.129 42.308 0.00 0.00 36.38 4.35
709 751 5.013913 AGCATAAGATGATAGCACATTCCCT 59.986 40.000 0.00 0.00 0.00 4.20
803 845 0.251474 TGAGCTTCAGCATTGGCCTT 60.251 50.000 3.32 0.00 45.16 4.35
889 931 9.817809 GATAACACAGAAGGAATACAAGTGATA 57.182 33.333 0.00 0.00 0.00 2.15
1291 1333 0.191064 AGGTCTGGAGGTTGGACTCA 59.809 55.000 0.00 0.00 39.27 3.41
1426 1468 2.839486 AGAACAAAGTCAGATCCGCA 57.161 45.000 0.00 0.00 0.00 5.69
1562 1604 0.535335 CGAAGTAGGGCTTGTAGGCA 59.465 55.000 2.60 0.00 43.44 4.75
1649 1691 2.059541 GGTTTGTCGGAAGTCTTCTCG 58.940 52.381 12.31 13.26 0.00 4.04
1744 1786 3.304257 CCGCATTCATTCTCAAGCATACC 60.304 47.826 0.00 0.00 0.00 2.73
1826 1868 4.380531 TCTCATTCCACAACTGAAGACAC 58.619 43.478 0.00 0.00 0.00 3.67
1879 1921 6.040504 AGGAACTGGTTCATGAAACTAAAACC 59.959 38.462 23.46 18.16 41.20 3.27
1950 1992 3.624861 CAGGTGGATCAAGAGCAATACAC 59.375 47.826 0.00 0.00 36.21 2.90
1982 2024 5.114764 TCTTCACAGGCATTAATCATCCA 57.885 39.130 0.00 0.00 0.00 3.41
2056 2182 3.084786 CCTCTTCTAAACAAAGGGCCTG 58.915 50.000 6.92 0.00 0.00 4.85
2081 2207 5.422012 CACCCATTGCTAGAAATAAACCCTT 59.578 40.000 0.00 0.00 0.00 3.95
2099 2225 0.968405 GCAACCAATGTCACACCCAT 59.032 50.000 0.00 0.00 0.00 4.00
2100 2226 0.106268 AGCAACCAATGTCACACCCA 60.106 50.000 0.00 0.00 0.00 4.51
2104 2230 2.098614 ACAACAGCAACCAATGTCACA 58.901 42.857 0.00 0.00 0.00 3.58
2194 2322 7.656137 GGAAATATCTGCCACTAAACGATTAGA 59.344 37.037 18.17 0.00 40.90 2.10
2291 2419 7.420800 AGTCTACAAAACAGCTGAAATGAAAG 58.579 34.615 23.35 16.08 0.00 2.62
2349 2477 6.162777 GCAGGAAGAATCAGGATAGATACAC 58.837 44.000 0.00 0.00 0.00 2.90
2402 2530 4.868314 ACCAGTACTGTCCTAACTTGAC 57.132 45.455 21.18 0.00 0.00 3.18
2442 2570 9.384764 CTAGATCATATCCGACTATCAGTTACA 57.615 37.037 0.00 0.00 0.00 2.41
2468 2597 5.295950 AGTCTGCACATATGACAAGCTATC 58.704 41.667 10.38 0.00 33.56 2.08
2490 2619 3.111853 TGATAGCACCGCAAAGGATAG 57.888 47.619 0.00 0.00 45.00 2.08
2520 2649 3.449746 AGGCAATAAAGTAGGTGGCAA 57.550 42.857 0.00 0.00 38.91 4.52
2553 2682 6.926826 CACGTGTGGCTCCTATTATTATTGTA 59.073 38.462 7.58 0.00 0.00 2.41
2620 2749 1.974957 TCTTCCACGGAATCAACTGGA 59.025 47.619 0.00 0.00 33.28 3.86
3067 3196 6.595772 AGAATTCAAAGTCGATCTGCATAC 57.404 37.500 8.44 0.00 0.00 2.39
3313 3442 8.447833 TGTTAGTCCTGAGTTAAAATAATTGCG 58.552 33.333 0.00 0.00 0.00 4.85
3415 3544 2.355716 GGTAGCAGACATAAACCCAGCA 60.356 50.000 0.00 0.00 0.00 4.41
3670 3810 3.070446 AGTGGTATGTGTTCGTTCCTGAA 59.930 43.478 0.00 0.00 0.00 3.02
3858 4001 7.775053 AATAATGTACAGGACCAAACACATT 57.225 32.000 0.33 14.38 39.31 2.71
3859 4002 7.450014 TGAAATAATGTACAGGACCAAACACAT 59.550 33.333 0.33 0.00 0.00 3.21
3860 4003 6.773200 TGAAATAATGTACAGGACCAAACACA 59.227 34.615 0.33 0.00 0.00 3.72
3861 4004 7.174253 TCTGAAATAATGTACAGGACCAAACAC 59.826 37.037 0.33 0.00 0.00 3.32
3862 4005 7.227873 TCTGAAATAATGTACAGGACCAAACA 58.772 34.615 0.33 0.00 0.00 2.83
3863 4006 7.681939 TCTGAAATAATGTACAGGACCAAAC 57.318 36.000 0.33 0.00 0.00 2.93
3864 4007 9.391006 GTATCTGAAATAATGTACAGGACCAAA 57.609 33.333 0.33 0.00 0.00 3.28
3981 4147 2.743718 CCTGCTCCACTCGGTGTT 59.256 61.111 3.82 0.00 0.00 3.32
4082 4327 2.031768 GGATCGGAGGATGGCAGC 59.968 66.667 0.00 0.00 31.51 5.25
4083 4328 1.670590 GAGGATCGGAGGATGGCAG 59.329 63.158 0.00 0.00 31.51 4.85
4113 4358 1.227380 GGCCTACTGATGCGGAGTG 60.227 63.158 0.00 0.00 0.00 3.51
4114 4359 0.106167 TAGGCCTACTGATGCGGAGT 60.106 55.000 8.91 0.00 0.00 3.85
4115 4360 1.203523 GATAGGCCTACTGATGCGGAG 59.796 57.143 16.61 0.00 0.00 4.63
4116 4361 1.203063 AGATAGGCCTACTGATGCGGA 60.203 52.381 16.61 0.00 0.00 5.54
4117 4362 1.203523 GAGATAGGCCTACTGATGCGG 59.796 57.143 16.61 0.00 0.00 5.69
4137 4383 1.260198 GCGACGACATATGTCCGACG 61.260 60.000 27.88 28.17 41.86 5.12
4173 4419 5.761205 AGAGATATGACGTAGGGAGCATAT 58.239 41.667 5.21 5.21 36.83 1.78
4260 4516 1.073897 GTGGAGTTTGCAGAGGCCT 59.926 57.895 3.86 3.86 40.13 5.19
4286 4542 0.387239 GAGAAAATTGCGCTGGCGTT 60.387 50.000 16.21 2.35 44.10 4.84
4287 4543 1.210155 GAGAAAATTGCGCTGGCGT 59.790 52.632 16.21 0.00 44.10 5.68
4288 4544 1.514873 GGAGAAAATTGCGCTGGCG 60.515 57.895 9.73 10.80 44.10 5.69
4304 4560 2.261671 GAGCTGCTTTCGGACGGA 59.738 61.111 2.53 0.00 0.00 4.69
4322 4578 2.735151 ACCATGTCGAGGTATCAGTCA 58.265 47.619 0.00 0.00 37.67 3.41
4362 4618 1.479323 CCGAAGATTACCCGAGGTCAA 59.521 52.381 0.00 0.00 37.09 3.18
4366 4622 2.685850 AAACCGAAGATTACCCGAGG 57.314 50.000 0.00 0.00 0.00 4.63
4369 4625 3.805971 GTGGATAAACCGAAGATTACCCG 59.194 47.826 0.00 0.00 42.61 5.28
4370 4626 4.132336 GGTGGATAAACCGAAGATTACCC 58.868 47.826 0.00 0.00 42.61 3.69
4371 4627 4.132336 GGGTGGATAAACCGAAGATTACC 58.868 47.826 0.00 0.00 41.52 2.85
4382 4638 2.159000 CGGTACAGGAGGGTGGATAAAC 60.159 54.545 0.00 0.00 0.00 2.01
4390 4646 2.754658 CGAGCGGTACAGGAGGGT 60.755 66.667 0.00 0.00 0.00 4.34
4396 4652 3.300857 CAAGATATGACGAGCGGTACAG 58.699 50.000 0.00 0.00 0.00 2.74
4420 4676 2.406616 CCGAAAGCCATTCACCCCG 61.407 63.158 1.34 0.00 37.96 5.73
4431 4687 0.861837 CTGTGTGAGTGACCGAAAGC 59.138 55.000 0.00 0.00 0.00 3.51
4438 4694 0.035317 TCATGGCCTGTGTGAGTGAC 59.965 55.000 3.32 0.00 0.00 3.67
4496 4752 2.024080 AGAGAGGGAGAGAGCAAGACAT 60.024 50.000 0.00 0.00 0.00 3.06
4535 4791 0.303493 GCGAGTGAGTTTGCGAACAA 59.697 50.000 19.01 3.93 38.26 2.83
4541 4797 0.512952 ATTGTCGCGAGTGAGTTTGC 59.487 50.000 10.24 0.00 0.00 3.68
4543 4799 1.000955 AGGATTGTCGCGAGTGAGTTT 59.999 47.619 10.24 0.00 0.00 2.66
4608 4864 0.874390 GTGCGCCTTTGAGATGTTCA 59.126 50.000 4.18 0.00 0.00 3.18
4633 4889 6.323739 ACTGTTGTTACTTGGAATGAAATGGT 59.676 34.615 0.00 0.00 0.00 3.55
4664 4920 5.059161 ACAACAGGGATATGTCATTCATCG 58.941 41.667 0.00 0.00 37.91 3.84
4701 4957 4.186159 GCATCATTCCCTGGAACAAATTG 58.814 43.478 0.00 0.00 38.70 2.32


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

AutoCloner maintained by Alex Coulton.