Multiple sequence alignment - TraesCS7B01G154600

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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 TraesCS7B01G154600 chr7B 100.000 2792 0 0 1 2792 206338718 206335927 0.000000e+00 5156
1 TraesCS7B01G154600 chr7D 87.762 2484 109 64 7 2368 234349759 234347349 0.000000e+00 2723
2 TraesCS7B01G154600 chr7D 86.242 298 16 7 2486 2781 234347009 234346735 1.630000e-77 300
3 TraesCS7B01G154600 chr7A 89.858 1696 80 27 743 2371 247252615 247250945 0.000000e+00 2095
4 TraesCS7B01G154600 chr7A 93.111 450 11 7 1 439 247255655 247255215 2.340000e-180 641
5 TraesCS7B01G154600 chr7A 89.199 287 23 5 2499 2778 247249803 247249518 4.420000e-93 351
6 TraesCS7B01G154600 chr7A 94.215 121 7 0 436 556 247252814 247252694 4.750000e-43 185
7 TraesCS7B01G154600 chr3B 86.145 166 19 4 1629 1793 703296599 703296437 2.860000e-40 176
8 TraesCS7B01G154600 chr3B 76.453 344 60 17 1452 1792 471485594 471485919 1.720000e-37 167
9 TraesCS7B01G154600 chr3A 85.455 165 20 4 1629 1792 666222071 666221910 4.780000e-38 169
10 TraesCS7B01G154600 chr3A 84.667 150 23 0 1643 1792 482093330 482093479 1.730000e-32 150
11 TraesCS7B01G154600 chr3D 86.093 151 19 2 1643 1792 531680006 531679857 8.000000e-36 161
12 TraesCS7B01G154600 chr3D 75.504 347 67 17 1452 1792 361776980 361777314 1.340000e-33 154


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 TraesCS7B01G154600 chr7B 206335927 206338718 2791 True 5156.0 5156 100.00000 1 2792 1 chr7B.!!$R1 2791
1 TraesCS7B01G154600 chr7D 234346735 234349759 3024 True 1511.5 2723 87.00200 7 2781 2 chr7D.!!$R1 2774
2 TraesCS7B01G154600 chr7A 247249518 247255655 6137 True 818.0 2095 91.59575 1 2778 4 chr7A.!!$R1 2777

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
832 3298 0.039346 GCTCCCTTCGCCGATACTAC 60.039 60.0 0.0 0.0 0.0 2.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2480 6075 0.101759 TATACGTCTTCCGCTGCACC 59.898 55.0 0.0 0.0 41.42 5.01 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
298 327 1.965414 TGGAGCTTCCAATGGGTAGA 58.035 50.000 0.00 0.00 45.00 2.59
299 328 2.274542 TGGAGCTTCCAATGGGTAGAA 58.725 47.619 0.00 0.00 45.00 2.10
300 329 2.647299 TGGAGCTTCCAATGGGTAGAAA 59.353 45.455 0.00 0.00 45.00 2.52
301 330 3.075283 TGGAGCTTCCAATGGGTAGAAAA 59.925 43.478 0.00 0.00 45.00 2.29
302 331 3.696548 GGAGCTTCCAATGGGTAGAAAAG 59.303 47.826 0.00 0.00 36.28 2.27
360 389 0.970640 TCTCCACCCGATCGAAACAA 59.029 50.000 18.66 0.00 0.00 2.83
362 391 1.463444 CTCCACCCGATCGAAACAAAC 59.537 52.381 18.66 0.00 0.00 2.93
379 408 1.174783 AACTGGCGAGTCGTGACTAT 58.825 50.000 15.08 0.00 42.66 2.12
380 409 2.034104 ACTGGCGAGTCGTGACTATA 57.966 50.000 15.08 0.00 42.66 1.31
382 411 1.941294 CTGGCGAGTCGTGACTATAGT 59.059 52.381 15.08 4.68 42.66 2.12
385 414 2.032722 GGCGAGTCGTGACTATAGTGAG 60.033 54.545 10.90 1.36 42.66 3.51
387 416 3.309138 GCGAGTCGTGACTATAGTGAGAA 59.691 47.826 10.90 0.00 42.66 2.87
454 2888 3.315470 ACGTCAGAATAGCTAGCGATTGA 59.685 43.478 25.26 16.09 0.00 2.57
464 2898 3.070159 AGCTAGCGATTGAAGCCAGATTA 59.930 43.478 9.55 0.00 36.92 1.75
499 2943 2.544685 CAGATCGCTCAAATCGAACCT 58.455 47.619 0.00 0.00 39.54 3.50
585 3034 1.446792 AAGCGTGCTCCGACAGATG 60.447 57.895 0.00 0.00 39.56 2.90
589 3038 1.812922 GTGCTCCGACAGATGCCAG 60.813 63.158 0.00 0.00 0.00 4.85
590 3039 2.894387 GCTCCGACAGATGCCAGC 60.894 66.667 0.00 0.00 0.00 4.85
591 3040 2.202987 CTCCGACAGATGCCAGCC 60.203 66.667 0.00 0.00 0.00 4.85
592 3041 3.746949 CTCCGACAGATGCCAGCCC 62.747 68.421 0.00 0.00 0.00 5.19
593 3042 4.864334 CCGACAGATGCCAGCCCC 62.864 72.222 0.00 0.00 0.00 5.80
594 3043 4.864334 CGACAGATGCCAGCCCCC 62.864 72.222 0.00 0.00 0.00 5.40
595 3044 3.415087 GACAGATGCCAGCCCCCT 61.415 66.667 0.00 0.00 0.00 4.79
596 3045 2.943265 ACAGATGCCAGCCCCCTT 60.943 61.111 0.00 0.00 0.00 3.95
597 3046 2.441532 CAGATGCCAGCCCCCTTG 60.442 66.667 0.00 0.00 0.00 3.61
598 3047 4.453892 AGATGCCAGCCCCCTTGC 62.454 66.667 0.00 0.00 0.00 4.01
603 3052 3.747579 CCAGCCCCCTTGCCAGAT 61.748 66.667 0.00 0.00 0.00 2.90
604 3053 2.123982 CAGCCCCCTTGCCAGATC 60.124 66.667 0.00 0.00 0.00 2.75
605 3054 3.424105 AGCCCCCTTGCCAGATCC 61.424 66.667 0.00 0.00 0.00 3.36
606 3055 4.529731 GCCCCCTTGCCAGATCCC 62.530 72.222 0.00 0.00 0.00 3.85
607 3056 2.697644 CCCCCTTGCCAGATCCCT 60.698 66.667 0.00 0.00 0.00 4.20
608 3057 2.761465 CCCCCTTGCCAGATCCCTC 61.761 68.421 0.00 0.00 0.00 4.30
609 3058 2.507944 CCCTTGCCAGATCCCTCG 59.492 66.667 0.00 0.00 0.00 4.63
610 3059 2.203126 CCTTGCCAGATCCCTCGC 60.203 66.667 0.00 0.00 0.00 5.03
611 3060 2.203126 CTTGCCAGATCCCTCGCC 60.203 66.667 0.00 0.00 0.00 5.54
612 3061 2.688666 TTGCCAGATCCCTCGCCT 60.689 61.111 0.00 0.00 0.00 5.52
653 3103 3.538028 CTGCACTGCACTGCACTGC 62.538 63.158 22.02 22.02 44.42 4.40
655 3105 2.330393 CACTGCACTGCACTGCAC 59.670 61.111 15.89 0.00 42.36 4.57
723 3183 5.715279 GCCTTTATTTACTCCCTTCCAAACT 59.285 40.000 0.00 0.00 0.00 2.66
724 3184 6.888088 GCCTTTATTTACTCCCTTCCAAACTA 59.112 38.462 0.00 0.00 0.00 2.24
725 3185 7.395206 GCCTTTATTTACTCCCTTCCAAACTAA 59.605 37.037 0.00 0.00 0.00 2.24
726 3186 9.304335 CCTTTATTTACTCCCTTCCAAACTAAA 57.696 33.333 0.00 0.00 0.00 1.85
728 3188 8.640063 TTATTTACTCCCTTCCAAACTAAACC 57.360 34.615 0.00 0.00 0.00 3.27
729 3189 3.136009 ACTCCCTTCCAAACTAAACCG 57.864 47.619 0.00 0.00 0.00 4.44
730 3190 2.224695 ACTCCCTTCCAAACTAAACCGG 60.225 50.000 0.00 0.00 0.00 5.28
731 3191 1.074244 TCCCTTCCAAACTAAACCGGG 59.926 52.381 6.32 0.00 0.00 5.73
732 3192 1.541379 CCTTCCAAACTAAACCGGGG 58.459 55.000 6.32 0.00 0.00 5.73
733 3193 1.074244 CCTTCCAAACTAAACCGGGGA 59.926 52.381 6.32 0.00 0.00 4.81
734 3194 2.156917 CTTCCAAACTAAACCGGGGAC 58.843 52.381 6.32 0.00 0.00 4.46
830 3296 2.846652 CGCTCCCTTCGCCGATACT 61.847 63.158 0.00 0.00 0.00 2.12
831 3297 1.512996 CGCTCCCTTCGCCGATACTA 61.513 60.000 0.00 0.00 0.00 1.82
832 3298 0.039346 GCTCCCTTCGCCGATACTAC 60.039 60.000 0.00 0.00 0.00 2.73
909 3377 1.555075 TGCTGGCTAGACCGAAGAATT 59.445 47.619 0.00 0.00 43.94 2.17
926 3394 3.648545 AGAATTATAGGCGCTTCCCTTCT 59.351 43.478 7.64 6.60 36.41 2.85
930 3398 1.276622 TAGGCGCTTCCCTTCTCTTT 58.723 50.000 7.64 0.00 36.41 2.52
939 3408 4.584874 CTTCCCTTCTCTTTCCTTTCCTC 58.415 47.826 0.00 0.00 0.00 3.71
940 3409 2.913617 TCCCTTCTCTTTCCTTTCCTCC 59.086 50.000 0.00 0.00 0.00 4.30
985 3459 0.249868 CGACTGCCTTTGTCCAGACA 60.250 55.000 0.00 0.00 39.98 3.41
986 3460 1.230324 GACTGCCTTTGTCCAGACAC 58.770 55.000 0.00 0.00 41.67 3.67
987 3461 0.179018 ACTGCCTTTGTCCAGACACC 60.179 55.000 0.00 0.00 41.67 4.16
988 3462 0.890996 CTGCCTTTGTCCAGACACCC 60.891 60.000 0.00 0.00 41.67 4.61
990 3464 1.302511 CCTTTGTCCAGACACCCCG 60.303 63.158 0.00 0.00 41.67 5.73
1458 3962 1.899534 GACGGATCGGGAGGAGGAG 60.900 68.421 5.18 0.00 0.00 3.69
1584 4100 4.838486 GAGCCGTCGTCGCAGGAG 62.838 72.222 9.52 0.00 35.54 3.69
1820 4336 3.083349 CGGCCTCCCCATCTGACA 61.083 66.667 0.00 0.00 0.00 3.58
1821 4337 2.592308 GGCCTCCCCATCTGACAC 59.408 66.667 0.00 0.00 0.00 3.67
1933 4449 2.559231 GCCCATTTTCTGTAAAACCCGA 59.441 45.455 0.00 0.00 37.41 5.14
1934 4450 3.366985 GCCCATTTTCTGTAAAACCCGAG 60.367 47.826 0.00 0.00 37.41 4.63
1947 4464 6.877322 TGTAAAACCCGAGAAAAAGGAGATAG 59.123 38.462 0.00 0.00 0.00 2.08
1950 4467 3.263425 ACCCGAGAAAAAGGAGATAGCAA 59.737 43.478 0.00 0.00 0.00 3.91
1967 4484 2.031682 AGCAACATGTTCAGCTCGAAAC 60.032 45.455 15.63 0.00 34.69 2.78
1970 4487 2.783135 ACATGTTCAGCTCGAAACCAT 58.217 42.857 0.00 0.23 34.69 3.55
1975 4492 3.265791 GTTCAGCTCGAAACCATCATCT 58.734 45.455 0.96 0.00 34.69 2.90
2000 4522 1.317613 TGTTGTTACAGCTTGCCAGG 58.682 50.000 0.34 0.00 0.00 4.45
2008 4555 0.901580 CAGCTTGCCAGGGACCAATT 60.902 55.000 0.00 0.00 0.00 2.32
2042 4589 7.147312 TCTGAATTGCACATTTCTACTTTTGG 58.853 34.615 0.00 0.00 0.00 3.28
2058 4605 6.544928 ACTTTTGGTTCCTCATTTCAGTTT 57.455 33.333 0.00 0.00 0.00 2.66
2065 4612 6.041409 TGGTTCCTCATTTCAGTTTGCAATTA 59.959 34.615 0.00 0.00 0.00 1.40
2067 4614 6.647334 TCCTCATTTCAGTTTGCAATTACA 57.353 33.333 0.00 0.00 0.00 2.41
2079 4626 6.762661 AGTTTGCAATTACAATTTGTTGCTCT 59.237 30.769 19.81 14.13 45.28 4.09
2172 4725 9.562408 TTGACTCGAGATTAATCTATCACTACT 57.438 33.333 21.68 0.00 37.25 2.57
2198 4754 6.526566 CGGAATTACTTTCTGCCAGTATAC 57.473 41.667 0.00 0.00 34.04 1.47
2201 4757 7.381678 CGGAATTACTTTCTGCCAGTATACTAC 59.618 40.741 4.74 1.56 34.04 2.73
2219 4786 2.841442 ACTCCTTGTTGTCCAGCTAC 57.159 50.000 0.00 0.00 0.00 3.58
2220 4787 2.330216 ACTCCTTGTTGTCCAGCTACT 58.670 47.619 0.00 0.00 0.00 2.57
2278 4856 8.082242 CGGGAGTTCCAATTGATTAATTAATCC 58.918 37.037 27.53 14.02 38.54 3.01
2301 4900 2.262915 GCTCCACTCCACTCCACG 59.737 66.667 0.00 0.00 0.00 4.94
2371 4970 6.035975 CGTGGAGCGCATTTCATATTCATATA 59.964 38.462 11.47 0.00 0.00 0.86
2390 5965 7.408910 TCATATATTGTTTGTTCAGTGATGCG 58.591 34.615 0.00 0.00 0.00 4.73
2399 5974 0.803380 TCAGTGATGCGCGATGTCAG 60.803 55.000 12.10 0.00 0.00 3.51
2400 5975 2.169789 AGTGATGCGCGATGTCAGC 61.170 57.895 12.10 0.38 0.00 4.26
2411 5986 3.815337 CGATGTCAGCGCTAGTACTAT 57.185 47.619 10.99 5.60 0.00 2.12
2413 5988 4.152526 CGATGTCAGCGCTAGTACTATTC 58.847 47.826 10.99 7.11 0.00 1.75
2415 5990 5.561145 CGATGTCAGCGCTAGTACTATTCTT 60.561 44.000 10.99 0.00 0.00 2.52
2416 5991 4.921547 TGTCAGCGCTAGTACTATTCTTG 58.078 43.478 10.99 0.00 0.00 3.02
2417 5992 4.638865 TGTCAGCGCTAGTACTATTCTTGA 59.361 41.667 10.99 0.00 0.00 3.02
2418 5993 5.209240 GTCAGCGCTAGTACTATTCTTGAG 58.791 45.833 10.99 0.00 0.00 3.02
2419 5994 3.978217 CAGCGCTAGTACTATTCTTGAGC 59.022 47.826 10.99 4.98 35.01 4.26
2420 5995 3.632604 AGCGCTAGTACTATTCTTGAGCA 59.367 43.478 8.99 0.00 36.44 4.26
2421 5996 3.978217 GCGCTAGTACTATTCTTGAGCAG 59.022 47.826 2.33 1.83 34.95 4.24
2422 5997 4.261238 GCGCTAGTACTATTCTTGAGCAGA 60.261 45.833 2.33 0.00 34.95 4.26
2423 5998 5.733655 GCGCTAGTACTATTCTTGAGCAGAA 60.734 44.000 2.33 0.00 46.01 3.02
2443 6038 9.844257 AGCAGAATAGCTAGTTTTATCAATTCT 57.156 29.630 0.00 0.00 44.50 2.40
2452 6047 5.942872 AGTTTTATCAATTCTGTCCGCAAG 58.057 37.500 0.00 0.00 0.00 4.01
2455 6050 5.545658 TTATCAATTCTGTCCGCAAGAAC 57.454 39.130 0.00 0.00 43.02 3.01
2456 6051 1.798223 TCAATTCTGTCCGCAAGAACG 59.202 47.619 0.00 0.00 43.02 3.95
2467 6062 1.333791 CGCAAGAACGGACCAAAACTC 60.334 52.381 0.00 0.00 43.02 3.01
2469 6064 2.357952 GCAAGAACGGACCAAAACTCTT 59.642 45.455 0.00 0.00 0.00 2.85
2470 6065 3.792124 GCAAGAACGGACCAAAACTCTTG 60.792 47.826 11.11 11.11 41.62 3.02
2471 6066 1.947456 AGAACGGACCAAAACTCTTGC 59.053 47.619 0.00 0.00 0.00 4.01
2472 6067 1.001706 GAACGGACCAAAACTCTTGCC 60.002 52.381 0.00 0.00 0.00 4.52
2473 6068 1.164041 ACGGACCAAAACTCTTGCCG 61.164 55.000 0.00 0.00 42.64 5.69
2475 6070 1.534729 GGACCAAAACTCTTGCCGAT 58.465 50.000 0.00 0.00 0.00 4.18
2476 6071 1.468914 GGACCAAAACTCTTGCCGATC 59.531 52.381 0.00 0.00 0.00 3.69
2477 6072 1.128692 GACCAAAACTCTTGCCGATCG 59.871 52.381 8.51 8.51 0.00 3.69
2480 6075 2.159653 CCAAAACTCTTGCCGATCGAAG 60.160 50.000 18.66 13.35 0.00 3.79
2481 6076 1.726853 AAACTCTTGCCGATCGAAGG 58.273 50.000 18.66 9.55 0.00 3.46
2482 6077 0.608640 AACTCTTGCCGATCGAAGGT 59.391 50.000 18.66 10.14 0.00 3.50
2483 6078 0.108615 ACTCTTGCCGATCGAAGGTG 60.109 55.000 18.66 11.65 0.00 4.00
2484 6079 1.424493 CTCTTGCCGATCGAAGGTGC 61.424 60.000 18.66 11.62 0.00 5.01
2485 6080 1.741401 CTTGCCGATCGAAGGTGCA 60.741 57.895 18.66 14.36 0.00 4.57
2486 6081 1.699656 CTTGCCGATCGAAGGTGCAG 61.700 60.000 18.66 7.39 32.88 4.41
2487 6082 3.567797 GCCGATCGAAGGTGCAGC 61.568 66.667 18.66 8.11 0.00 5.25
2489 6084 3.257561 CGATCGAAGGTGCAGCGG 61.258 66.667 10.26 4.29 0.00 5.52
2491 6086 1.447838 GATCGAAGGTGCAGCGGAA 60.448 57.895 10.78 0.00 0.00 4.30
2492 6087 1.424493 GATCGAAGGTGCAGCGGAAG 61.424 60.000 10.78 3.91 0.00 3.46
2493 6088 1.888436 ATCGAAGGTGCAGCGGAAGA 61.888 55.000 10.78 9.32 0.00 2.87
2494 6089 2.383527 CGAAGGTGCAGCGGAAGAC 61.384 63.158 10.78 0.00 0.00 3.01
2496 6091 3.165160 AAGGTGCAGCGGAAGACGT 62.165 57.895 10.78 0.00 46.52 4.34
2497 6092 1.812686 AAGGTGCAGCGGAAGACGTA 61.813 55.000 10.78 0.00 46.52 3.57
2527 6151 0.582005 GCTCATTAATCGCGGGTGAC 59.418 55.000 6.13 0.00 0.00 3.67
2539 6163 3.351450 GGTGACCCGTCAAAAGCC 58.649 61.111 0.00 0.00 41.85 4.35
2572 6196 1.683943 ATGATGCGGACCCAATGAAG 58.316 50.000 0.00 0.00 0.00 3.02
2590 6215 2.440247 GGACGGAATTGCCTGGGG 60.440 66.667 0.00 0.00 0.00 4.96
2612 6237 2.583593 GCGCCAGGCTAGAGAACG 60.584 66.667 10.54 0.00 39.11 3.95
2679 6310 2.574399 GGTCGAGAGCACCTGTCC 59.426 66.667 0.00 0.00 0.00 4.02
2682 6313 2.179517 CGAGAGCACCTGTCCGTC 59.820 66.667 0.00 0.00 0.00 4.79
2787 6419 4.426112 CTGGCTCGCTCGCTCACA 62.426 66.667 0.00 0.00 0.00 3.58
2788 6420 3.713205 CTGGCTCGCTCGCTCACAT 62.713 63.158 0.00 0.00 0.00 3.21
2789 6421 3.260483 GGCTCGCTCGCTCACATG 61.260 66.667 0.00 0.00 0.00 3.21
2790 6422 3.922893 GCTCGCTCGCTCACATGC 61.923 66.667 0.00 0.00 0.00 4.06
2791 6423 3.260483 CTCGCTCGCTCACATGCC 61.260 66.667 0.00 0.00 0.00 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
172 195 2.686118 GCTTGCATTCCAATCTCCCTCT 60.686 50.000 0.00 0.00 31.91 3.69
291 320 4.479158 AGCACATTTTCCTTTTCTACCCA 58.521 39.130 0.00 0.00 0.00 4.51
297 326 7.282224 AGGGTTAAAAAGCACATTTTCCTTTTC 59.718 33.333 0.00 0.00 40.27 2.29
298 327 7.116075 AGGGTTAAAAAGCACATTTTCCTTTT 58.884 30.769 0.00 0.00 40.27 2.27
299 328 6.658849 AGGGTTAAAAAGCACATTTTCCTTT 58.341 32.000 0.00 0.00 40.27 3.11
300 329 6.247229 AGGGTTAAAAAGCACATTTTCCTT 57.753 33.333 0.00 0.00 40.27 3.36
301 330 5.887214 AGGGTTAAAAAGCACATTTTCCT 57.113 34.783 0.00 0.00 40.27 3.36
302 331 6.935741 AAAGGGTTAAAAAGCACATTTTCC 57.064 33.333 0.00 0.00 40.27 3.13
360 389 1.174783 ATAGTCACGACTCGCCAGTT 58.825 50.000 2.26 0.00 42.54 3.16
362 391 1.941294 ACTATAGTCACGACTCGCCAG 59.059 52.381 2.26 0.19 42.54 4.85
379 408 3.242518 CGACTTGCGATGTTTCTCACTA 58.757 45.455 0.00 0.00 44.57 2.74
380 409 2.061773 CGACTTGCGATGTTTCTCACT 58.938 47.619 0.00 0.00 44.57 3.41
382 411 1.270094 ACCGACTTGCGATGTTTCTCA 60.270 47.619 0.00 0.00 44.57 3.27
385 414 0.093026 CGACCGACTTGCGATGTTTC 59.907 55.000 0.00 0.00 44.57 2.78
387 416 1.736645 CCGACCGACTTGCGATGTT 60.737 57.895 0.00 0.00 44.57 2.71
454 2888 4.287067 TCCAGTTTCTCAGTAATCTGGCTT 59.713 41.667 8.27 0.00 42.41 4.35
464 2898 2.232452 CGATCTGGTCCAGTTTCTCAGT 59.768 50.000 18.65 0.00 32.61 3.41
499 2943 3.054728 TGCTGGGGATTTTGACGAGAATA 60.055 43.478 0.00 0.00 0.00 1.75
566 3015 1.446792 ATCTGTCGGAGCACGCTTG 60.447 57.895 0.00 0.00 43.86 4.01
567 3016 1.446792 CATCTGTCGGAGCACGCTT 60.447 57.895 0.00 0.00 43.86 4.68
568 3017 2.182791 CATCTGTCGGAGCACGCT 59.817 61.111 0.00 0.00 43.86 5.07
569 3018 3.558411 GCATCTGTCGGAGCACGC 61.558 66.667 0.00 0.00 43.86 5.34
570 3019 2.887568 GGCATCTGTCGGAGCACG 60.888 66.667 5.75 0.00 46.11 5.34
571 3020 1.812922 CTGGCATCTGTCGGAGCAC 60.813 63.158 0.00 0.00 0.00 4.40
572 3021 2.580815 CTGGCATCTGTCGGAGCA 59.419 61.111 0.00 0.00 0.00 4.26
589 3038 4.529731 GGGATCTGGCAAGGGGGC 62.530 72.222 0.00 0.00 43.73 5.80
590 3039 2.697644 AGGGATCTGGCAAGGGGG 60.698 66.667 0.00 0.00 0.00 5.40
591 3040 2.922234 GAGGGATCTGGCAAGGGG 59.078 66.667 0.00 0.00 0.00 4.79
592 3041 2.507944 CGAGGGATCTGGCAAGGG 59.492 66.667 0.00 0.00 0.00 3.95
593 3042 2.203126 GCGAGGGATCTGGCAAGG 60.203 66.667 0.00 0.00 43.07 3.61
594 3043 2.203126 GGCGAGGGATCTGGCAAG 60.203 66.667 3.11 0.00 44.97 4.01
595 3044 2.688666 AGGCGAGGGATCTGGCAA 60.689 61.111 3.11 0.00 44.97 4.52
596 3045 3.157252 GAGGCGAGGGATCTGGCA 61.157 66.667 3.11 0.00 44.97 4.92
597 3046 4.292178 CGAGGCGAGGGATCTGGC 62.292 72.222 0.00 0.00 42.88 4.85
598 3047 4.292178 GCGAGGCGAGGGATCTGG 62.292 72.222 0.00 0.00 0.00 3.86
599 3048 4.292178 GGCGAGGCGAGGGATCTG 62.292 72.222 0.00 0.00 0.00 2.90
600 3049 4.531426 AGGCGAGGCGAGGGATCT 62.531 66.667 0.00 0.00 0.00 2.75
601 3050 3.984749 GAGGCGAGGCGAGGGATC 61.985 72.222 0.00 0.00 0.00 3.36
653 3103 1.848608 CGACGTATGATGACTGCAGTG 59.151 52.381 27.27 9.70 0.00 3.66
655 3105 2.223363 ACTCGACGTATGATGACTGCAG 60.223 50.000 13.48 13.48 0.00 4.41
830 3296 0.027194 GCGTGAGAGCGTGTATCGTA 59.973 55.000 0.00 0.00 42.13 3.43
831 3297 1.226323 GCGTGAGAGCGTGTATCGT 60.226 57.895 0.00 0.00 42.13 3.73
832 3298 3.589982 GCGTGAGAGCGTGTATCG 58.410 61.111 0.00 0.00 43.12 2.92
909 3377 2.383442 AGAGAAGGGAAGCGCCTATA 57.617 50.000 2.29 0.00 36.66 1.31
926 3394 2.375509 GACAAGGGGAGGAAAGGAAAGA 59.624 50.000 0.00 0.00 0.00 2.52
930 3398 0.196118 AGGACAAGGGGAGGAAAGGA 59.804 55.000 0.00 0.00 0.00 3.36
939 3408 1.003696 GTGGAAGAAGAGGACAAGGGG 59.996 57.143 0.00 0.00 0.00 4.79
940 3409 1.003696 GGTGGAAGAAGAGGACAAGGG 59.996 57.143 0.00 0.00 0.00 3.95
993 3467 3.610669 CTCCCCTCCATCTCGGCG 61.611 72.222 0.00 0.00 33.14 6.46
1245 3719 0.807667 GGATGATGTCGAGCAGCGTT 60.808 55.000 0.00 0.00 41.80 4.84
1458 3962 4.095400 TCCCCCTGCTCCTCCTCC 62.095 72.222 0.00 0.00 0.00 4.30
1933 4449 6.716628 TGAACATGTTGCTATCTCCTTTTTCT 59.283 34.615 17.58 0.00 0.00 2.52
1934 4450 6.913170 TGAACATGTTGCTATCTCCTTTTTC 58.087 36.000 17.58 0.00 0.00 2.29
1947 4464 2.310577 GTTTCGAGCTGAACATGTTGC 58.689 47.619 17.58 14.24 35.97 4.17
1950 4467 2.254546 TGGTTTCGAGCTGAACATGT 57.745 45.000 0.00 0.00 35.97 3.21
1967 4484 6.421377 TGTAACAACATTCGAAGATGATGG 57.579 37.500 3.35 0.00 35.04 3.51
1970 4487 5.237815 AGCTGTAACAACATTCGAAGATGA 58.762 37.500 3.35 0.00 35.04 2.92
1975 4492 3.304391 GGCAAGCTGTAACAACATTCGAA 60.304 43.478 0.00 0.00 0.00 3.71
2000 4522 6.581171 ATTCAGAAGAAGTGAAATTGGTCC 57.419 37.500 0.00 0.00 37.46 4.46
2042 4589 6.922957 TGTAATTGCAAACTGAAATGAGGAAC 59.077 34.615 1.71 0.00 0.00 3.62
2065 4612 3.195396 ACCAACACAGAGCAACAAATTGT 59.805 39.130 0.00 0.00 38.17 2.71
2067 4614 5.348164 GTTACCAACACAGAGCAACAAATT 58.652 37.500 0.00 0.00 0.00 1.82
2079 4626 4.522405 CCTGATTGATTGGTTACCAACACA 59.478 41.667 19.93 18.33 46.95 3.72
2172 4725 3.055385 ACTGGCAGAAAGTAATTCCGCTA 60.055 43.478 23.66 0.00 40.59 4.26
2173 4726 2.290323 ACTGGCAGAAAGTAATTCCGCT 60.290 45.455 23.66 0.00 40.59 5.52
2174 4727 2.084546 ACTGGCAGAAAGTAATTCCGC 58.915 47.619 23.66 0.00 40.13 5.54
2193 4749 5.127356 AGCTGGACAACAAGGAGTAGTATAC 59.873 44.000 0.00 0.00 43.47 1.47
2194 4750 5.269991 AGCTGGACAACAAGGAGTAGTATA 58.730 41.667 0.00 0.00 0.00 1.47
2195 4751 4.097418 AGCTGGACAACAAGGAGTAGTAT 58.903 43.478 0.00 0.00 0.00 2.12
2198 4754 3.511934 AGTAGCTGGACAACAAGGAGTAG 59.488 47.826 0.00 0.00 0.00 2.57
2201 4757 2.300152 TGAGTAGCTGGACAACAAGGAG 59.700 50.000 0.00 0.00 0.00 3.69
2219 4786 3.441922 TCTCGAGATCTCCAAACACTGAG 59.558 47.826 17.13 13.88 0.00 3.35
2220 4787 3.421844 TCTCGAGATCTCCAAACACTGA 58.578 45.455 17.13 4.99 0.00 3.41
2301 4900 0.179054 TCATGCCTGAGAGCTGCATC 60.179 55.000 5.55 0.00 43.49 3.91
2371 4970 2.664916 GCGCATCACTGAACAAACAAT 58.335 42.857 0.30 0.00 0.00 2.71
2399 5974 3.966154 TGCTCAAGAATAGTACTAGCGC 58.034 45.455 8.85 0.00 0.00 5.92
2400 5975 5.425577 TCTGCTCAAGAATAGTACTAGCG 57.574 43.478 8.85 3.55 29.54 4.26
2413 5988 8.654230 TGATAAAACTAGCTATTCTGCTCAAG 57.346 34.615 0.00 0.00 42.97 3.02
2415 5990 9.618890 AATTGATAAAACTAGCTATTCTGCTCA 57.381 29.630 0.00 0.00 42.97 4.26
2417 5992 9.844257 AGAATTGATAAAACTAGCTATTCTGCT 57.156 29.630 0.00 0.00 46.11 4.24
2418 5993 9.875675 CAGAATTGATAAAACTAGCTATTCTGC 57.124 33.333 16.01 0.00 43.10 4.26
2422 5997 9.046296 CGGACAGAATTGATAAAACTAGCTATT 57.954 33.333 0.00 0.00 0.00 1.73
2423 5998 7.171678 GCGGACAGAATTGATAAAACTAGCTAT 59.828 37.037 0.00 0.00 0.00 2.97
2425 6000 5.294552 GCGGACAGAATTGATAAAACTAGCT 59.705 40.000 0.00 0.00 0.00 3.32
2426 6001 5.064707 TGCGGACAGAATTGATAAAACTAGC 59.935 40.000 0.00 0.00 0.00 3.42
2427 6002 6.662414 TGCGGACAGAATTGATAAAACTAG 57.338 37.500 0.00 0.00 0.00 2.57
2428 6003 6.876789 TCTTGCGGACAGAATTGATAAAACTA 59.123 34.615 0.00 0.00 0.00 2.24
2432 6007 5.390461 CGTTCTTGCGGACAGAATTGATAAA 60.390 40.000 5.24 0.00 0.00 1.40
2434 6009 3.616821 CGTTCTTGCGGACAGAATTGATA 59.383 43.478 5.24 0.00 0.00 2.15
2452 6047 1.001706 GGCAAGAGTTTTGGTCCGTTC 60.002 52.381 0.00 0.00 0.00 3.95
2455 6050 0.882927 TCGGCAAGAGTTTTGGTCCG 60.883 55.000 6.23 6.23 37.00 4.79
2456 6051 1.468914 GATCGGCAAGAGTTTTGGTCC 59.531 52.381 0.00 0.00 0.00 4.46
2459 6054 1.438651 TCGATCGGCAAGAGTTTTGG 58.561 50.000 16.41 0.00 0.00 3.28
2467 6062 1.699656 CTGCACCTTCGATCGGCAAG 61.700 60.000 16.41 12.17 33.58 4.01
2469 6064 2.125552 CTGCACCTTCGATCGGCA 60.126 61.111 16.41 14.97 0.00 5.69
2470 6065 3.567797 GCTGCACCTTCGATCGGC 61.568 66.667 16.41 10.80 0.00 5.54
2471 6066 3.257561 CGCTGCACCTTCGATCGG 61.258 66.667 16.41 1.30 0.00 4.18
2472 6067 3.257561 CCGCTGCACCTTCGATCG 61.258 66.667 9.36 9.36 0.00 3.69
2473 6068 1.424493 CTTCCGCTGCACCTTCGATC 61.424 60.000 0.00 0.00 0.00 3.69
2475 6070 2.048222 CTTCCGCTGCACCTTCGA 60.048 61.111 0.00 0.00 0.00 3.71
2476 6071 2.048222 TCTTCCGCTGCACCTTCG 60.048 61.111 0.00 0.00 0.00 3.79
2477 6072 2.383527 CGTCTTCCGCTGCACCTTC 61.384 63.158 0.00 0.00 0.00 3.46
2480 6075 0.101759 TATACGTCTTCCGCTGCACC 59.898 55.000 0.00 0.00 41.42 5.01
2481 6076 1.478137 CTATACGTCTTCCGCTGCAC 58.522 55.000 0.00 0.00 41.42 4.57
2482 6077 0.384309 CCTATACGTCTTCCGCTGCA 59.616 55.000 0.00 0.00 41.42 4.41
2483 6078 0.666913 TCCTATACGTCTTCCGCTGC 59.333 55.000 0.00 0.00 41.42 5.25
2484 6079 1.333881 CGTCCTATACGTCTTCCGCTG 60.334 57.143 0.00 0.00 46.72 5.18
2485 6080 0.942962 CGTCCTATACGTCTTCCGCT 59.057 55.000 0.00 0.00 46.72 5.52
2486 6081 3.451504 CGTCCTATACGTCTTCCGC 57.548 57.895 0.00 0.00 46.72 5.54
2495 6090 2.708386 AATGAGCGCTCGTCCTATAC 57.292 50.000 31.10 6.29 0.00 1.47
2496 6091 4.436986 CGATTAATGAGCGCTCGTCCTATA 60.437 45.833 31.10 17.41 0.00 1.31
2497 6092 3.670895 CGATTAATGAGCGCTCGTCCTAT 60.671 47.826 31.10 22.59 0.00 2.57
2536 6160 3.860930 ATTGAACCAACGCCGGGCT 62.861 57.895 18.34 0.89 0.00 5.19
2537 6161 3.370231 ATTGAACCAACGCCGGGC 61.370 61.111 9.54 9.54 0.00 6.13
2538 6162 1.312371 ATCATTGAACCAACGCCGGG 61.312 55.000 2.18 0.00 0.00 5.73
2539 6163 0.179166 CATCATTGAACCAACGCCGG 60.179 55.000 0.00 0.00 0.00 6.13
2572 6196 2.440247 CCCAGGCAATTCCGTCCC 60.440 66.667 0.00 0.00 40.77 4.46
2590 6215 1.066587 CTCTAGCCTGGCGCACTAC 59.933 63.158 13.96 0.00 41.38 2.73
2599 6224 1.187087 AGGGAACGTTCTCTAGCCTG 58.813 55.000 29.00 0.00 35.91 4.85
2604 6229 2.229784 GGACGAAAGGGAACGTTCTCTA 59.770 50.000 30.12 0.00 45.20 2.43
2612 6237 1.014564 CGCAGAGGACGAAAGGGAAC 61.015 60.000 0.00 0.00 0.00 3.62
2667 6298 2.282251 TCGACGGACAGGTGCTCT 60.282 61.111 0.00 0.00 0.00 4.09
2738 6370 2.999063 CCAACCTCGTACCCGGGT 60.999 66.667 32.66 32.66 38.67 5.28
2772 6404 3.260483 CATGTGAGCGAGCGAGCC 61.260 66.667 2.87 0.00 38.01 4.70


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

AutoCloner maintained by Alex Coulton.