Multiple sequence alignment - TraesCS5B01G468400

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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 TraesCS5B01G468400 chr5B 100.000 4123 0 0 1 4123 641832347 641836469 0.000000e+00 7614.0
1 TraesCS5B01G468400 chr5B 87.958 2948 278 38 1031 3933 641822232 641825147 0.000000e+00 3406.0
2 TraesCS5B01G468400 chr5B 83.466 1887 275 21 1562 3431 641814275 641812409 0.000000e+00 1722.0
3 TraesCS5B01G468400 chr1B 91.681 2825 193 17 733 3543 28376051 28373255 0.000000e+00 3877.0
4 TraesCS5B01G468400 chr1B 91.620 2685 195 14 982 3642 28324737 28322059 0.000000e+00 3685.0
5 TraesCS5B01G468400 chr1B 88.727 3025 270 28 975 3946 28308537 28305531 0.000000e+00 3631.0
6 TraesCS5B01G468400 chr1B 85.911 2548 297 35 762 3295 28483484 28485983 0.000000e+00 2660.0
7 TraesCS5B01G468400 chr1B 95.388 477 19 3 3648 4123 28373226 28372752 0.000000e+00 756.0
8 TraesCS5B01G468400 chr1B 90.515 369 22 7 1 362 28376820 28376458 3.730000e-130 475.0
9 TraesCS5B01G468400 chr1B 81.683 202 12 10 555 736 28376272 28376076 1.190000e-30 145.0
10 TraesCS5B01G468400 chr1B 94.595 37 2 0 3589 3625 28373260 28373224 1.600000e-04 58.4
11 TraesCS5B01G468400 chr4A 90.740 2851 191 27 733 3527 675285960 675283127 0.000000e+00 3735.0
12 TraesCS5B01G468400 chr4A 88.889 180 10 4 114 286 675286652 675286476 3.230000e-51 213.0
13 TraesCS5B01G468400 chr4A 82.609 184 10 9 565 736 675286158 675285985 4.300000e-30 143.0
14 TraesCS5B01G468400 chr4A 87.179 117 13 2 414 529 675286407 675286292 9.300000e-27 132.0
15 TraesCS5B01G468400 chr4A 81.452 124 20 3 3937 4059 717967085 717967206 9.430000e-17 99.0
16 TraesCS5B01G468400 chr1A 91.054 2761 205 15 888 3608 20927497 20924739 0.000000e+00 3692.0
17 TraesCS5B01G468400 chr1A 89.641 2452 225 18 1031 3458 20932470 20930024 0.000000e+00 3094.0
18 TraesCS5B01G468400 chr1A 82.971 276 22 11 410 677 20927968 20927710 4.150000e-55 226.0
19 TraesCS5B01G468400 chr1A 82.353 170 17 8 39 208 20928241 20928085 7.190000e-28 135.0
20 TraesCS5B01G468400 chr1A 82.353 85 11 2 784 868 20927580 20927500 2.060000e-08 71.3
21 TraesCS5B01G468400 chr1D 87.973 2960 296 30 1031 3946 19020788 19017845 0.000000e+00 3439.0
22 TraesCS5B01G468400 chr1D 90.898 2571 206 14 982 3527 19002502 18999935 0.000000e+00 3426.0
23 TraesCS5B01G468400 chr1D 94.006 1785 95 4 2344 4123 19013249 19011472 0.000000e+00 2693.0
24 TraesCS5B01G468400 chr1D 86.925 1912 140 39 438 2301 19015099 19013250 0.000000e+00 2045.0
25 TraesCS5B01G468400 chr1D 84.925 597 80 5 2701 3295 19045480 19046068 2.740000e-166 595.0
26 TraesCS5B01G468400 chr1D 91.463 246 15 4 129 373 19015411 19015171 2.380000e-87 333.0
27 TraesCS5B01G468400 chr1D 80.813 443 45 19 253 684 19003308 19002895 1.110000e-80 311.0
28 TraesCS5B01G468400 chr2A 85.749 2463 305 24 983 3427 624359550 624361984 0.000000e+00 2562.0


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 TraesCS5B01G468400 chr5B 641832347 641836469 4122 False 7614.00 7614 100.00000 1 4123 1 chr5B.!!$F2 4122
1 TraesCS5B01G468400 chr5B 641822232 641825147 2915 False 3406.00 3406 87.95800 1031 3933 1 chr5B.!!$F1 2902
2 TraesCS5B01G468400 chr5B 641812409 641814275 1866 True 1722.00 1722 83.46600 1562 3431 1 chr5B.!!$R1 1869
3 TraesCS5B01G468400 chr1B 28322059 28324737 2678 True 3685.00 3685 91.62000 982 3642 1 chr1B.!!$R2 2660
4 TraesCS5B01G468400 chr1B 28305531 28308537 3006 True 3631.00 3631 88.72700 975 3946 1 chr1B.!!$R1 2971
5 TraesCS5B01G468400 chr1B 28483484 28485983 2499 False 2660.00 2660 85.91100 762 3295 1 chr1B.!!$F1 2533
6 TraesCS5B01G468400 chr1B 28372752 28376820 4068 True 1062.28 3877 90.77240 1 4123 5 chr1B.!!$R3 4122
7 TraesCS5B01G468400 chr4A 675283127 675286652 3525 True 1055.75 3735 87.35425 114 3527 4 chr4A.!!$R1 3413
8 TraesCS5B01G468400 chr1A 20924739 20932470 7731 True 1443.66 3692 85.67440 39 3608 5 chr1A.!!$R1 3569
9 TraesCS5B01G468400 chr1D 19011472 19020788 9316 True 2127.50 3439 90.09175 129 4123 4 chr1D.!!$R2 3994
10 TraesCS5B01G468400 chr1D 18999935 19003308 3373 True 1868.50 3426 85.85550 253 3527 2 chr1D.!!$R1 3274
11 TraesCS5B01G468400 chr1D 19045480 19046068 588 False 595.00 595 84.92500 2701 3295 1 chr1D.!!$F1 594
12 TraesCS5B01G468400 chr2A 624359550 624361984 2434 False 2562.00 2562 85.74900 983 3427 1 chr2A.!!$F1 2444

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
391 6083 0.178068 CCGGAATGTCCCTCGTCATT 59.822 55.0 0.0 0.0 37.04 2.57 F
2040 8094 0.111061 TGACCCACAAGCTGAAGCAT 59.889 50.0 4.9 0.0 45.16 3.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2169 8223 1.865788 GCCATTGTGGTGATGTGCGT 61.866 55.000 0.0 0.0 40.46 5.24 R
3493 9610 1.417890 CTCCACCAGACCACTGTTCTT 59.582 52.381 0.0 0.0 42.05 2.52 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
32 34 2.807895 CTGGACACGGGCGTTACG 60.808 66.667 0.00 0.00 37.36 3.18
52 54 1.856802 CAGGCCAAAACAAGACAAGC 58.143 50.000 5.01 0.00 0.00 4.01
66 68 4.664677 AAGCCACTTCTCGCGCGT 62.665 61.111 30.98 6.92 0.00 6.01
70 72 1.064296 CCACTTCTCGCGCGTATCT 59.936 57.895 30.98 6.82 0.00 1.98
168 5848 1.647346 GTGTGACCAACGACTTGACA 58.353 50.000 0.00 0.00 0.00 3.58
169 5849 1.326548 GTGTGACCAACGACTTGACAC 59.673 52.381 0.00 0.00 36.22 3.67
185 5865 3.020984 TGACACCACTCACGCATATCTA 58.979 45.455 0.00 0.00 0.00 1.98
192 5872 4.155099 CCACTCACGCATATCTAGTCCTAG 59.845 50.000 0.00 0.00 34.56 3.02
260 5943 1.519455 GACGAGAGGATGGCCGTTG 60.519 63.158 0.00 0.00 39.96 4.10
266 5949 1.613437 AGAGGATGGCCGTTGTTTTTG 59.387 47.619 0.00 0.00 39.96 2.44
362 6045 4.292186 AGTGGCACTGTATCTTTCACAT 57.708 40.909 21.37 0.00 0.00 3.21
363 6046 5.420725 AGTGGCACTGTATCTTTCACATA 57.579 39.130 21.37 0.00 0.00 2.29
370 6053 5.063944 CACTGTATCTTTCACATAGTGGCAC 59.936 44.000 10.29 10.29 33.87 5.01
382 6074 2.033448 TGGCACACCGGAATGTCC 59.967 61.111 9.46 11.69 39.70 4.02
385 6077 1.745489 GCACACCGGAATGTCCCTC 60.745 63.158 9.46 0.00 31.13 4.30
387 6079 1.911766 ACACCGGAATGTCCCTCGT 60.912 57.895 9.46 0.00 31.13 4.18
388 6080 1.153628 CACCGGAATGTCCCTCGTC 60.154 63.158 9.46 0.00 31.13 4.20
389 6081 1.608336 ACCGGAATGTCCCTCGTCA 60.608 57.895 9.46 0.00 31.13 4.35
390 6082 0.976073 ACCGGAATGTCCCTCGTCAT 60.976 55.000 9.46 0.00 31.13 3.06
391 6083 0.178068 CCGGAATGTCCCTCGTCATT 59.822 55.000 0.00 0.00 37.04 2.57
392 6084 1.406887 CCGGAATGTCCCTCGTCATTT 60.407 52.381 0.00 0.00 34.92 2.32
393 6085 2.159014 CCGGAATGTCCCTCGTCATTTA 60.159 50.000 0.00 0.00 34.92 1.40
408 6115 1.131126 CATTTAGCTCACTTGCACCCG 59.869 52.381 0.00 0.00 34.99 5.28
429 6145 1.008309 GGGCACGCGCAAGTTTAAA 60.008 52.632 5.73 0.00 41.24 1.52
480 6204 5.564063 GCACCCCACAAAATACTAGTGAAAC 60.564 44.000 5.39 0.00 35.33 2.78
553 6278 1.172812 GCAGAACCCCACTCGCTTTT 61.173 55.000 0.00 0.00 0.00 2.27
602 6452 1.801913 CAGACGTCCGTGTAGCTGC 60.802 63.158 13.01 0.00 0.00 5.25
610 6460 3.423123 CGTCCGTGTAGCTGCTTTTTAAG 60.423 47.826 7.79 0.00 0.00 1.85
611 6461 3.744426 GTCCGTGTAGCTGCTTTTTAAGA 59.256 43.478 7.79 0.00 0.00 2.10
612 6462 4.392138 GTCCGTGTAGCTGCTTTTTAAGAT 59.608 41.667 7.79 0.00 0.00 2.40
613 6463 5.001232 TCCGTGTAGCTGCTTTTTAAGATT 58.999 37.500 7.79 0.00 0.00 2.40
614 6464 5.472137 TCCGTGTAGCTGCTTTTTAAGATTT 59.528 36.000 7.79 0.00 0.00 2.17
615 6465 5.795441 CCGTGTAGCTGCTTTTTAAGATTTC 59.205 40.000 7.79 0.00 0.00 2.17
616 6466 5.795441 CGTGTAGCTGCTTTTTAAGATTTCC 59.205 40.000 7.79 0.00 0.00 3.13
618 6468 7.148474 CGTGTAGCTGCTTTTTAAGATTTCCTA 60.148 37.037 7.79 0.00 0.00 2.94
619 6469 8.678199 GTGTAGCTGCTTTTTAAGATTTCCTAT 58.322 33.333 7.79 0.00 0.00 2.57
620 6470 9.899661 TGTAGCTGCTTTTTAAGATTTCCTATA 57.100 29.630 7.79 0.00 0.00 1.31
686 6540 6.627395 TGTTTGAAACGTTCACCATTAGAT 57.373 33.333 0.00 0.00 39.87 1.98
687 6541 7.033530 TGTTTGAAACGTTCACCATTAGATT 57.966 32.000 0.00 0.00 39.87 2.40
689 6543 8.286800 TGTTTGAAACGTTCACCATTAGATTAG 58.713 33.333 0.00 0.00 39.87 1.73
692 6546 8.251750 TGAAACGTTCACCATTAGATTAGAAG 57.748 34.615 0.00 0.00 34.08 2.85
697 6551 7.093465 ACGTTCACCATTAGATTAGAAGGAAGA 60.093 37.037 0.00 0.00 0.00 2.87
700 6554 8.146053 TCACCATTAGATTAGAAGGAAGAACA 57.854 34.615 0.00 0.00 0.00 3.18
701 6555 8.041323 TCACCATTAGATTAGAAGGAAGAACAC 58.959 37.037 0.00 0.00 0.00 3.32
755 6683 2.228822 CACAAGAATACACCAACCCTGC 59.771 50.000 0.00 0.00 0.00 4.85
812 6804 3.348236 CAGCCAAGCTTCGCTGTT 58.652 55.556 30.80 4.26 45.97 3.16
813 6805 1.656441 CAGCCAAGCTTCGCTGTTT 59.344 52.632 30.80 3.90 45.97 2.83
814 6806 0.386478 CAGCCAAGCTTCGCTGTTTC 60.386 55.000 30.80 0.00 45.97 2.78
825 6817 4.155280 GCTTCGCTGTTTCCCTATTTAACA 59.845 41.667 0.00 0.00 0.00 2.41
837 6829 3.391626 CCTATTTAACACCTCCTCTCCCC 59.608 52.174 0.00 0.00 0.00 4.81
875 6871 2.496817 CCTCCCTCGCTTTCCTCG 59.503 66.667 0.00 0.00 0.00 4.63
895 6891 2.165998 GGCAATTTGAGCTCCACTTCT 58.834 47.619 12.15 0.00 0.00 2.85
912 6908 2.126618 TGCGCAAGTCCGTCTACG 60.127 61.111 8.16 0.00 41.68 3.51
933 6929 3.206964 GGCTTACAGAGTTAATCCTGGC 58.793 50.000 10.51 5.60 34.85 4.85
960 6957 4.202305 GCCTGAGCCAGATACAGATACTTT 60.202 45.833 4.00 0.00 32.44 2.66
972 6969 5.091261 ACAGATACTTTCAGCTACCAAGG 57.909 43.478 0.00 0.00 0.00 3.61
987 7000 6.098552 AGCTACCAAGGTTCTATCTTACTTCC 59.901 42.308 0.00 0.00 0.00 3.46
1020 7036 2.357034 GAGTGCGAGAACGGGCAA 60.357 61.111 0.00 0.00 41.46 4.52
1451 7486 9.537192 AATTAGATATTTCGGTTGTTGATCGTA 57.463 29.630 0.00 0.00 0.00 3.43
1647 7701 0.249657 GCATCCGCTTCGAGATCCTT 60.250 55.000 0.00 0.00 34.30 3.36
1815 7869 1.948508 CAGCAAGGTTAACGCAGCA 59.051 52.632 14.46 0.00 0.00 4.41
1971 8025 2.103941 CCTCCTTGCTGAGGTTCTATCC 59.896 54.545 8.75 0.00 45.76 2.59
2040 8094 0.111061 TGACCCACAAGCTGAAGCAT 59.889 50.000 4.90 0.00 45.16 3.79
2169 8223 5.368145 CCAAAGCAAGATAGGTATGCACTA 58.632 41.667 0.00 0.00 42.45 2.74
2202 8256 2.827921 ACAATGGCTTGGTCCTCAAATC 59.172 45.455 0.00 0.00 36.64 2.17
2400 8454 0.392998 TTGCCCAATTCTCGGAGCTC 60.393 55.000 4.71 4.71 0.00 4.09
2421 8475 4.613944 TCGTGAACGACTTCTACAACAAT 58.386 39.130 0.50 0.00 44.22 2.71
2517 8571 1.658686 CCTCGTACTGCTCCGAGCTT 61.659 60.000 20.87 10.58 46.94 3.74
2535 8589 3.082548 GCTTCAGTTCTTAGGAAACCCC 58.917 50.000 0.00 0.00 32.81 4.95
2538 8592 2.301009 TCAGTTCTTAGGAAACCCCGTC 59.699 50.000 0.00 0.00 40.87 4.79
2605 8659 2.123251 TCGGCCTCATCTCCTCCC 60.123 66.667 0.00 0.00 0.00 4.30
2706 8760 4.416516 TCCGCCATCTTGAGGAGAATATA 58.583 43.478 0.00 0.00 38.06 0.86
2712 8766 7.227156 GCCATCTTGAGGAGAATATAAAGGAA 58.773 38.462 0.00 0.00 38.06 3.36
2748 8802 0.405198 TGAAGATGGCAGCCAGGAAA 59.595 50.000 21.51 1.14 36.75 3.13
2865 8922 2.437359 GATGACCCTTGCAGCGCT 60.437 61.111 2.64 2.64 0.00 5.92
2877 8934 0.458669 GCAGCGCTAACTACCCACTA 59.541 55.000 10.99 0.00 0.00 2.74
3240 9297 1.578206 GCCTCAAAGAGTGGAACGGC 61.578 60.000 0.00 0.00 45.86 5.68
3313 9399 2.560105 GTGCAGAAGGCTTTGGATCTTT 59.440 45.455 0.00 0.00 45.15 2.52
3459 9563 6.497259 ACAACCTCTGATGTAAGTTAGAAGGA 59.503 38.462 3.21 0.00 0.00 3.36
3464 9568 8.865090 CCTCTGATGTAAGTTAGAAGGATACAT 58.135 37.037 0.00 0.00 39.27 2.29
3465 9569 9.906660 CTCTGATGTAAGTTAGAAGGATACATC 57.093 37.037 14.24 14.24 46.60 3.06
3650 9790 9.473640 CTAGTTATATCAATATGATGCGATGCT 57.526 33.333 3.17 0.00 37.70 3.79
3737 9898 4.469227 AGAAGGATTGTACTGCTCTGATGT 59.531 41.667 0.00 0.00 0.00 3.06
3745 9906 4.949856 TGTACTGCTCTGATGTAGATGACA 59.050 41.667 0.00 0.00 43.97 3.58
3872 10034 9.646427 ATTCTATTATAAGAGATCTTTCACGGC 57.354 33.333 10.49 0.00 37.40 5.68
3933 10095 7.201359 CCAAATAATCTATCGCACTTACGCTAG 60.201 40.741 0.00 0.00 34.06 3.42
4000 10162 0.612744 TCGATGTGATGGCTGGTTGA 59.387 50.000 0.00 0.00 0.00 3.18
4060 10222 3.146066 GTGGCTGAAATGGACTACACAA 58.854 45.455 0.00 0.00 0.00 3.33
4077 10239 1.817447 ACAACGGAGTAGTAGGTGCTC 59.183 52.381 0.00 0.00 45.00 4.26
4105 10267 6.662865 AGAATTCAGAGAAGAGACTGACAA 57.337 37.500 8.44 0.00 41.82 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 34 1.856802 CTTGTCTTGTTTTGGCCTGC 58.143 50.000 3.32 0.00 0.00 4.85
33 35 1.538849 GGCTTGTCTTGTTTTGGCCTG 60.539 52.381 3.32 0.00 35.73 4.85
52 54 0.525668 AAGATACGCGCGAGAAGTGG 60.526 55.000 39.36 4.66 0.00 4.00
66 68 6.313905 GTCGGATCTTTCTTTGCTTCAAGATA 59.686 38.462 0.00 0.00 36.35 1.98
70 72 3.186409 CGTCGGATCTTTCTTTGCTTCAA 59.814 43.478 0.00 0.00 0.00 2.69
168 5848 2.623889 GGACTAGATATGCGTGAGTGGT 59.376 50.000 0.00 0.00 0.00 4.16
169 5849 2.887783 AGGACTAGATATGCGTGAGTGG 59.112 50.000 0.00 0.00 0.00 4.00
185 5865 3.679389 CATGCCACAGAAAACTAGGACT 58.321 45.455 0.00 0.00 0.00 3.85
192 5872 2.129607 CACAAGCATGCCACAGAAAAC 58.870 47.619 15.66 0.00 0.00 2.43
260 5943 7.913821 AGTGGAAACGATTTCTTAGACAAAAAC 59.086 33.333 0.00 0.00 39.59 2.43
266 5949 5.163943 GCTCAGTGGAAACGATTTCTTAGAC 60.164 44.000 0.00 0.00 39.59 2.59
302 5985 0.602638 TAGTGCCACTTGACTTGCCG 60.603 55.000 1.02 0.00 0.00 5.69
362 6045 0.036765 GACATTCCGGTGTGCCACTA 60.037 55.000 1.84 0.00 34.40 2.74
363 6046 1.302511 GACATTCCGGTGTGCCACT 60.303 57.895 1.84 0.00 34.40 4.00
370 6053 1.153628 GACGAGGGACATTCCGGTG 60.154 63.158 0.00 0.00 37.43 4.94
373 6065 2.024176 AAATGACGAGGGACATTCCG 57.976 50.000 0.00 0.00 37.51 4.30
374 6066 2.872858 GCTAAATGACGAGGGACATTCC 59.127 50.000 0.00 0.00 37.51 3.01
376 6068 3.197766 TGAGCTAAATGACGAGGGACATT 59.802 43.478 0.00 0.00 39.61 2.71
378 6070 2.094182 GTGAGCTAAATGACGAGGGACA 60.094 50.000 0.00 0.00 0.00 4.02
379 6071 2.166664 AGTGAGCTAAATGACGAGGGAC 59.833 50.000 0.00 0.00 0.00 4.46
380 6072 2.457598 AGTGAGCTAAATGACGAGGGA 58.542 47.619 0.00 0.00 0.00 4.20
382 6074 2.349886 GCAAGTGAGCTAAATGACGAGG 59.650 50.000 0.00 0.00 0.00 4.63
385 6077 2.159653 GGTGCAAGTGAGCTAAATGACG 60.160 50.000 0.00 0.00 34.99 4.35
387 6079 2.436417 GGGTGCAAGTGAGCTAAATGA 58.564 47.619 0.00 0.00 34.99 2.57
388 6080 1.131126 CGGGTGCAAGTGAGCTAAATG 59.869 52.381 0.00 0.00 34.99 2.32
389 6081 1.453155 CGGGTGCAAGTGAGCTAAAT 58.547 50.000 0.00 0.00 34.99 1.40
390 6082 1.234615 GCGGGTGCAAGTGAGCTAAA 61.235 55.000 0.00 0.00 42.15 1.85
391 6083 1.671054 GCGGGTGCAAGTGAGCTAA 60.671 57.895 0.00 0.00 42.15 3.09
392 6084 2.047274 GCGGGTGCAAGTGAGCTA 60.047 61.111 0.00 0.00 42.15 3.32
412 6128 1.414378 AATTTAAACTTGCGCGTGCC 58.586 45.000 19.87 0.48 41.78 5.01
429 6145 8.990163 ACGAACCCCACATATTCTATTTAAAT 57.010 30.769 5.89 5.89 0.00 1.40
480 6204 5.998454 AATGATCCGTCATAAGCTTTCAG 57.002 39.130 3.20 0.00 44.20 3.02
489 6213 7.227049 TGTTATCTGCTAATGATCCGTCATA 57.773 36.000 0.00 0.00 44.20 2.15
490 6214 6.101650 TGTTATCTGCTAATGATCCGTCAT 57.898 37.500 0.00 0.00 46.91 3.06
492 6216 5.986135 AGTTGTTATCTGCTAATGATCCGTC 59.014 40.000 0.00 0.00 0.00 4.79
553 6278 5.466728 GCTTTGACAAAGTATCTGTGACTCA 59.533 40.000 24.98 0.00 40.64 3.41
586 6432 0.666577 AAAGCAGCTACACGGACGTC 60.667 55.000 7.13 7.13 0.00 4.34
613 6463 8.636213 GCATAAACCACTACAGTACTATAGGAA 58.364 37.037 12.69 0.00 0.00 3.36
614 6464 7.781219 TGCATAAACCACTACAGTACTATAGGA 59.219 37.037 12.69 0.00 0.00 2.94
615 6465 7.948357 TGCATAAACCACTACAGTACTATAGG 58.052 38.462 12.69 5.49 0.00 2.57
616 6466 9.627395 GATGCATAAACCACTACAGTACTATAG 57.373 37.037 6.64 6.64 0.00 1.31
618 6468 7.145985 CGATGCATAAACCACTACAGTACTAT 58.854 38.462 0.00 0.00 0.00 2.12
619 6469 6.095860 ACGATGCATAAACCACTACAGTACTA 59.904 38.462 0.00 0.00 0.00 1.82
620 6470 5.105473 ACGATGCATAAACCACTACAGTACT 60.105 40.000 0.00 0.00 0.00 2.73
621 6471 5.005394 CACGATGCATAAACCACTACAGTAC 59.995 44.000 0.00 0.00 0.00 2.73
686 6540 4.100498 ACTTGGTCGTGTTCTTCCTTCTAA 59.900 41.667 0.00 0.00 0.00 2.10
687 6541 3.640029 ACTTGGTCGTGTTCTTCCTTCTA 59.360 43.478 0.00 0.00 0.00 2.10
689 6543 2.835027 ACTTGGTCGTGTTCTTCCTTC 58.165 47.619 0.00 0.00 0.00 3.46
692 6546 2.067013 GCTACTTGGTCGTGTTCTTCC 58.933 52.381 0.00 0.00 0.00 3.46
697 6551 4.674623 CGAATCTAGCTACTTGGTCGTGTT 60.675 45.833 0.00 0.00 0.00 3.32
700 6554 3.015327 ACGAATCTAGCTACTTGGTCGT 58.985 45.455 0.00 7.15 0.00 4.34
701 6555 3.694535 ACGAATCTAGCTACTTGGTCG 57.305 47.619 0.00 0.00 0.00 4.79
755 6683 0.541863 ACCGCTGGATTGGTCTTAGG 59.458 55.000 1.50 0.00 31.16 2.69
811 6803 5.191124 GGAGAGGAGGTGTTAAATAGGGAAA 59.809 44.000 0.00 0.00 0.00 3.13
812 6804 4.720273 GGAGAGGAGGTGTTAAATAGGGAA 59.280 45.833 0.00 0.00 0.00 3.97
813 6805 4.296056 GGAGAGGAGGTGTTAAATAGGGA 58.704 47.826 0.00 0.00 0.00 4.20
814 6806 3.391626 GGGAGAGGAGGTGTTAAATAGGG 59.608 52.174 0.00 0.00 0.00 3.53
837 6829 0.332632 TCTTCTTGGGGAGCAATGGG 59.667 55.000 0.00 0.00 0.00 4.00
847 6839 1.911471 GAGGGAGGCTCTTCTTGGG 59.089 63.158 15.23 0.00 0.00 4.12
875 6871 2.094854 CAGAAGTGGAGCTCAAATTGCC 60.095 50.000 17.19 0.00 0.00 4.52
895 6891 2.126618 CGTAGACGGACTTGCGCA 60.127 61.111 5.66 5.66 35.37 6.09
912 6908 3.206964 GCCAGGATTAACTCTGTAAGCC 58.793 50.000 0.00 0.00 39.39 4.35
913 6909 3.206964 GGCCAGGATTAACTCTGTAAGC 58.793 50.000 0.00 3.44 0.00 3.09
933 6929 0.543277 TGTATCTGGCTCAGGCTTGG 59.457 55.000 0.00 0.00 38.73 3.61
960 6957 6.195700 AGTAAGATAGAACCTTGGTAGCTGA 58.804 40.000 0.00 0.00 0.00 4.26
972 6969 7.044798 AGATGTGCAAGGAAGTAAGATAGAAC 58.955 38.462 0.00 0.00 0.00 3.01
987 7000 1.931841 CACTCCATCGAGATGTGCAAG 59.068 52.381 11.59 6.46 38.52 4.01
1102 7118 1.304052 CCAAATGGCTCCCGGACAA 60.304 57.895 0.73 0.00 36.04 3.18
1438 7467 4.082354 AGGAGTACAGTACGATCAACAACC 60.082 45.833 5.02 0.00 0.00 3.77
1451 7486 6.828785 AGATCACAAAAACAAAGGAGTACAGT 59.171 34.615 0.00 0.00 0.00 3.55
1554 7608 2.747460 GCGGCAGGCAGAACATGA 60.747 61.111 0.00 0.00 42.87 3.07
1677 7731 2.282391 GGCAGGCATGGTGTCACA 60.282 61.111 5.12 0.00 0.00 3.58
2040 8094 2.038813 TCGATCTGCCCAGGGTGA 59.961 61.111 7.55 6.57 0.00 4.02
2137 8191 4.036498 CCTATCTTGCTTTGGCTTCATCAG 59.964 45.833 0.00 0.00 39.59 2.90
2169 8223 1.865788 GCCATTGTGGTGATGTGCGT 61.866 55.000 0.00 0.00 40.46 5.24
2202 8256 2.887568 GCAGCACGGATGACCTCG 60.888 66.667 0.00 0.00 0.00 4.63
2400 8454 4.376008 CCATTGTTGTAGAAGTCGTTCACG 60.376 45.833 0.00 0.00 41.45 4.35
2421 8475 0.555769 AGAGGTTGGAAGGCAAACCA 59.444 50.000 7.28 4.20 46.91 3.67
2517 8571 2.301009 GACGGGGTTTCCTAAGAACTGA 59.699 50.000 0.00 0.00 0.00 3.41
2535 8589 0.034756 TCTGGACATGGTTGGTGACG 59.965 55.000 0.00 0.00 0.00 4.35
2538 8592 1.300971 CGCTCTGGACATGGTTGGTG 61.301 60.000 0.00 0.00 0.00 4.17
2706 8760 2.222027 CAACTCTTGACGGCTTCCTTT 58.778 47.619 0.00 0.00 0.00 3.11
2712 8766 0.464036 TCACACAACTCTTGACGGCT 59.536 50.000 0.00 0.00 0.00 5.52
2748 8802 1.832883 TGTTGTTGGTGCTCAGTGTT 58.167 45.000 0.00 0.00 0.00 3.32
2865 8922 6.582636 CATCTTCTGCATTAGTGGGTAGTTA 58.417 40.000 0.00 0.00 0.00 2.24
3240 9297 1.596477 GCAGATAGGCAAGGGCTCG 60.596 63.158 0.00 0.00 39.70 5.03
3363 9451 4.757149 AGACTGATCCAGCTTACAAAACAC 59.243 41.667 0.00 0.00 34.37 3.32
3488 9605 4.275936 CCACCAGACCACTGTTCTTAAAAG 59.724 45.833 0.00 0.00 42.05 2.27
3493 9610 1.417890 CTCCACCAGACCACTGTTCTT 59.582 52.381 0.00 0.00 42.05 2.52
3737 9898 6.438741 AGGAACAGAGAGAAACATGTCATCTA 59.561 38.462 12.62 0.00 0.00 1.98
3745 9906 5.222007 ACCATTCAGGAACAGAGAGAAACAT 60.222 40.000 0.00 0.00 41.22 2.71
3872 10034 8.143835 ACCTTTGTCTTGTTTCATTTAAGGATG 58.856 33.333 0.00 0.00 34.97 3.51
3921 10083 7.914346 TCTTATCTTTCTAACTAGCGTAAGTGC 59.086 37.037 0.00 0.00 41.68 4.40
3933 10095 5.629348 GAGCACGCTCTTATCTTTCTAAC 57.371 43.478 11.81 0.00 39.80 2.34
3969 10131 4.687948 CCATCACATCGATAGCTTGTAAGG 59.312 45.833 0.00 0.00 31.20 2.69
4060 10222 1.281287 TGAGAGCACCTACTACTCCGT 59.719 52.381 0.00 0.00 0.00 4.69
4077 10239 7.329226 GTCAGTCTCTTCTCTGAATTCTTTGAG 59.671 40.741 7.05 11.20 41.41 3.02


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

AutoCloner maintained by Alex Coulton.