Multiple sequence alignment - TraesCS7A01G252500

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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 TraesCS7A01G252500 chr7A 100.000 3317 0 0 1 3317 237508756 237512072 0.000000e+00 6126.0
1 TraesCS7A01G252500 chr7A 100.000 500 0 0 3608 4107 237512363 237512862 0.000000e+00 924.0
2 TraesCS7A01G252500 chr7D 92.606 1109 58 10 507 1607 222523905 222524997 0.000000e+00 1572.0
3 TraesCS7A01G252500 chr7D 88.849 1121 88 19 1594 2700 222526152 222527249 0.000000e+00 1343.0
4 TraesCS7A01G252500 chr7D 96.078 561 17 4 2761 3317 222527358 222527917 0.000000e+00 909.0
5 TraesCS7A01G252500 chr7D 95.981 423 16 1 1 422 222521983 222522405 0.000000e+00 686.0
6 TraesCS7A01G252500 chr7D 87.010 485 43 15 3633 4105 222527954 222528430 2.810000e-146 529.0
7 TraesCS7A01G252500 chr7D 97.917 48 1 0 460 507 222522467 222522514 2.630000e-12 84.2
8 TraesCS7A01G252500 chr7D 100.000 33 0 0 2728 2760 222527309 222527341 1.230000e-05 62.1
9 TraesCS7A01G252500 chr7B 92.308 949 58 5 1777 2712 174046244 174045298 0.000000e+00 1334.0
10 TraesCS7A01G252500 chr7B 90.541 814 55 14 958 1751 174047226 174046415 0.000000e+00 1057.0
11 TraesCS7A01G252500 chr7B 96.279 430 14 2 1 428 174067584 174067155 0.000000e+00 704.0
12 TraesCS7A01G252500 chr7B 93.939 462 11 5 2761 3207 174045196 174044737 0.000000e+00 682.0
13 TraesCS7A01G252500 chr7B 87.298 496 58 3 3610 4105 174043870 174043380 2.770000e-156 562.0
14 TraesCS7A01G252500 chr7B 87.273 440 29 12 542 960 174047700 174047267 1.030000e-130 477.0
15 TraesCS7A01G252500 chr7B 91.262 103 3 2 3216 3317 174043988 174043891 7.160000e-28 135.0
16 TraesCS7A01G252500 chr7B 100.000 35 0 0 2726 2760 174045251 174045217 9.530000e-07 65.8
17 TraesCS7A01G252500 chr5A 77.778 360 76 3 1856 2213 484074455 484074812 6.910000e-53 219.0
18 TraesCS7A01G252500 chr5D 77.500 360 77 3 1856 2213 383771999 383772356 3.220000e-51 213.0


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 TraesCS7A01G252500 chr7A 237508756 237512862 4106 False 3525.000000 6126 100.000 1 4107 2 chr7A.!!$F1 4106
1 TraesCS7A01G252500 chr7D 222521983 222528430 6447 False 740.757143 1572 94.063 1 4105 7 chr7D.!!$F1 4104
2 TraesCS7A01G252500 chr7B 174043380 174047700 4320 True 616.114286 1334 91.803 542 4105 7 chr7B.!!$R2 3563

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
814 2239 0.027586 GTCGAAAACGTGCAGCAAGT 59.972 50.0 8.32 8.32 0.0 3.16 F
2340 5159 0.968405 TGTTTCCAAATCAGCAGGGC 59.032 50.0 0.00 0.00 0.0 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2618 5448 0.108662 TCTCATGTGCACGGCAGTAG 60.109 55.0 13.13 3.91 40.08 2.57 R
3942 7588 0.173708 GTCGTCATGGTGAGGAGGAC 59.826 60.0 2.89 0.00 41.27 3.85 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
177 178 4.908687 TTGCTGTCCACGCGCACT 62.909 61.111 5.73 0.00 32.71 4.40
367 369 2.047655 CGTGAAGGCCCGTAAGCA 60.048 61.111 0.00 0.00 0.00 3.91
378 380 2.280628 CCCGTAAGCAGAACTCAATCC 58.719 52.381 0.00 0.00 0.00 3.01
422 424 1.746220 GCCCGATACGCTGATATCTCT 59.254 52.381 3.98 0.00 30.54 3.10
423 425 2.223386 GCCCGATACGCTGATATCTCTC 60.223 54.545 3.98 0.00 30.54 3.20
424 426 2.031068 CCCGATACGCTGATATCTCTCG 59.969 54.545 3.98 7.20 30.54 4.04
426 428 3.242155 CCGATACGCTGATATCTCTCGAC 60.242 52.174 15.12 7.82 30.54 4.20
428 430 4.491763 CGATACGCTGATATCTCTCGACAG 60.492 50.000 15.12 0.00 30.54 3.51
429 431 1.876799 ACGCTGATATCTCTCGACAGG 59.123 52.381 15.12 0.00 0.00 4.00
430 432 1.876799 CGCTGATATCTCTCGACAGGT 59.123 52.381 3.98 0.00 0.00 4.00
431 433 3.067833 CGCTGATATCTCTCGACAGGTA 58.932 50.000 3.98 0.00 0.00 3.08
432 434 3.498777 CGCTGATATCTCTCGACAGGTAA 59.501 47.826 3.98 0.00 0.00 2.85
433 435 4.155099 CGCTGATATCTCTCGACAGGTAAT 59.845 45.833 3.98 0.00 0.00 1.89
434 436 5.335269 CGCTGATATCTCTCGACAGGTAATT 60.335 44.000 3.98 0.00 0.00 1.40
435 437 5.861251 GCTGATATCTCTCGACAGGTAATTG 59.139 44.000 3.98 0.00 0.00 2.32
436 438 5.773575 TGATATCTCTCGACAGGTAATTGC 58.226 41.667 3.98 0.00 0.00 3.56
437 439 2.961526 TCTCTCGACAGGTAATTGCC 57.038 50.000 4.07 4.07 0.00 4.52
438 440 2.457598 TCTCTCGACAGGTAATTGCCT 58.542 47.619 9.62 9.62 39.99 4.75
439 441 2.427453 TCTCTCGACAGGTAATTGCCTC 59.573 50.000 12.76 1.88 36.58 4.70
441 443 0.174845 TCGACAGGTAATTGCCTCGG 59.825 55.000 19.28 10.40 36.58 4.63
442 444 0.810031 CGACAGGTAATTGCCTCGGG 60.810 60.000 12.76 4.50 36.58 5.14
443 445 0.252197 GACAGGTAATTGCCTCGGGT 59.748 55.000 12.76 7.92 36.58 5.28
444 446 0.696501 ACAGGTAATTGCCTCGGGTT 59.303 50.000 12.76 0.00 36.58 4.11
445 447 1.094785 CAGGTAATTGCCTCGGGTTG 58.905 55.000 12.76 0.00 36.58 3.77
446 448 0.696501 AGGTAATTGCCTCGGGTTGT 59.303 50.000 9.62 0.00 32.39 3.32
447 449 1.092348 GGTAATTGCCTCGGGTTGTC 58.908 55.000 5.16 0.00 0.00 3.18
448 450 1.339727 GGTAATTGCCTCGGGTTGTCT 60.340 52.381 5.16 0.00 0.00 3.41
449 451 2.007608 GTAATTGCCTCGGGTTGTCTC 58.992 52.381 0.00 0.00 0.00 3.36
450 452 0.400213 AATTGCCTCGGGTTGTCTCA 59.600 50.000 0.00 0.00 0.00 3.27
452 454 0.181587 TTGCCTCGGGTTGTCTCAAA 59.818 50.000 0.00 0.00 0.00 2.69
454 456 1.314730 GCCTCGGGTTGTCTCAAAAA 58.685 50.000 0.00 0.00 0.00 1.94
493 519 2.681344 GGGAAACGTACAATGATGGTCC 59.319 50.000 0.00 0.00 0.00 4.46
527 1944 0.809385 TTGTAGTTCTCCCGCTCTCG 59.191 55.000 0.00 0.00 0.00 4.04
540 1957 1.940613 CGCTCTCGAAAAATAAGGGGG 59.059 52.381 0.00 0.00 38.10 5.40
569 1986 8.571336 ACTTAAATATCTCTATGGTTTGCATGC 58.429 33.333 11.82 11.82 0.00 4.06
570 1987 6.964807 AAATATCTCTATGGTTTGCATGCA 57.035 33.333 18.46 18.46 0.00 3.96
576 1993 4.136796 TCTATGGTTTGCATGCAGGATAC 58.863 43.478 21.50 16.28 0.00 2.24
607 2024 3.070018 CTCTGTCTTCGAAAATGCCACT 58.930 45.455 0.00 0.00 0.00 4.00
733 2151 3.225548 CACCGAAAATGTTCACATCACG 58.774 45.455 0.00 0.65 35.10 4.35
739 2157 5.386323 CGAAAATGTTCACATCACGCTTTTC 60.386 40.000 0.00 0.00 35.10 2.29
743 2161 3.876914 TGTTCACATCACGCTTTTCTCTT 59.123 39.130 0.00 0.00 0.00 2.85
746 2164 5.134202 TCACATCACGCTTTTCTCTTCTA 57.866 39.130 0.00 0.00 0.00 2.10
750 2168 6.958193 CACATCACGCTTTTCTCTTCTATTTC 59.042 38.462 0.00 0.00 0.00 2.17
751 2169 6.876257 ACATCACGCTTTTCTCTTCTATTTCT 59.124 34.615 0.00 0.00 0.00 2.52
752 2170 6.712241 TCACGCTTTTCTCTTCTATTTCTG 57.288 37.500 0.00 0.00 0.00 3.02
754 2172 6.587990 TCACGCTTTTCTCTTCTATTTCTGAG 59.412 38.462 0.00 0.00 0.00 3.35
755 2173 5.872070 ACGCTTTTCTCTTCTATTTCTGAGG 59.128 40.000 0.00 0.00 0.00 3.86
756 2174 6.102663 CGCTTTTCTCTTCTATTTCTGAGGA 58.897 40.000 0.00 0.00 0.00 3.71
784 2205 0.666274 TTCACATCACGCGAGACCAC 60.666 55.000 15.93 0.00 0.00 4.16
814 2239 0.027586 GTCGAAAACGTGCAGCAAGT 59.972 50.000 8.32 8.32 0.00 3.16
1014 2503 4.864334 GCCATGGGCGTGGAGGAG 62.864 72.222 15.13 0.00 42.02 3.69
1036 2525 2.116736 CTTTCGCGGCAACAAGCTCA 62.117 55.000 6.13 0.00 44.79 4.26
1330 2819 1.860676 ATTGCTGTGCTTGCTTGTTG 58.139 45.000 0.00 0.00 0.00 3.33
1378 2867 5.164177 CGATCTTTCGTCAGTAACTGTTCAC 60.164 44.000 0.00 0.00 40.53 3.18
1402 2891 3.186205 GTGTTTCTGCTGAAGCTTCTCTC 59.814 47.826 26.09 15.19 42.66 3.20
1447 2936 4.651045 ACTTGCTTCAAATTTGAACTCCCT 59.349 37.500 26.01 9.05 41.88 4.20
1468 2957 4.092675 CCTTGATCTGTTTCGCTCTCTTTC 59.907 45.833 0.00 0.00 0.00 2.62
1685 4358 4.327024 GTCGAGAAATTGCAGAATTCGTC 58.673 43.478 0.00 0.00 30.02 4.20
1704 4377 4.813235 GCGGGGCAATGGCTGGTA 62.813 66.667 6.78 0.00 40.87 3.25
1706 4379 2.442087 GGGGCAATGGCTGGTACC 60.442 66.667 4.43 4.43 40.87 3.34
1718 4391 2.092914 GGCTGGTACCATGACTAAAGCT 60.093 50.000 16.75 0.00 0.00 3.74
1801 4619 7.848223 TTTTTCTGATGATAGCAAGATTCGA 57.152 32.000 0.00 0.00 0.00 3.71
1807 4625 5.698089 TGATGATAGCAAGATTCGATTGGTC 59.302 40.000 5.29 0.00 39.06 4.02
1919 4737 3.562182 AGGGTCAAAACAGATTTTCGGT 58.438 40.909 0.00 0.00 35.79 4.69
1921 4739 4.517832 AGGGTCAAAACAGATTTTCGGTAC 59.482 41.667 0.00 0.00 35.79 3.34
1958 4776 1.474332 AACACAATGGCTGGCAAGGG 61.474 55.000 8.35 7.87 0.00 3.95
2051 4869 1.291877 GCGTCAAACGGAGCATGACT 61.292 55.000 0.00 0.00 42.04 3.41
2054 4872 2.143122 GTCAAACGGAGCATGACTTCA 58.857 47.619 0.00 0.00 41.33 3.02
2061 4879 2.089980 GGAGCATGACTTCAGCACAAT 58.910 47.619 0.00 0.00 0.00 2.71
2062 4880 2.490903 GGAGCATGACTTCAGCACAATT 59.509 45.455 0.00 0.00 0.00 2.32
2081 4899 1.203237 TGCGATGGAAAGAGGATGGA 58.797 50.000 0.00 0.00 0.00 3.41
2220 5039 3.100671 AGGTCCTCAAGGTACATCAGAC 58.899 50.000 0.00 0.00 36.34 3.51
2339 5158 2.229784 GTCTGTTTCCAAATCAGCAGGG 59.770 50.000 0.00 0.00 0.00 4.45
2340 5159 0.968405 TGTTTCCAAATCAGCAGGGC 59.032 50.000 0.00 0.00 0.00 5.19
2409 5239 1.028905 TACTTGTGCTGGCAAACCAC 58.971 50.000 0.00 5.85 42.67 4.16
2450 5280 1.774110 ATGCTCTGTCTCAGGATCGT 58.226 50.000 0.00 0.00 31.51 3.73
2468 5298 1.058404 GTCTGACTGTTAACCGCGAC 58.942 55.000 8.23 0.00 0.00 5.19
2482 5312 3.539253 GCGACGCGTATCCTAGAAA 57.461 52.632 13.97 0.00 0.00 2.52
2483 5313 2.047679 GCGACGCGTATCCTAGAAAT 57.952 50.000 13.97 0.00 0.00 2.17
2618 5448 3.632604 TGTATGAGACGATCAAGACCTCC 59.367 47.826 0.00 0.00 42.53 4.30
2688 5518 1.205655 TCATCGGAGCTCTTTCAGGTG 59.794 52.381 14.64 7.08 30.88 4.00
2689 5519 1.205655 CATCGGAGCTCTTTCAGGTGA 59.794 52.381 14.64 0.00 30.88 4.02
2690 5520 0.891373 TCGGAGCTCTTTCAGGTGAG 59.109 55.000 14.64 0.00 30.88 3.51
2703 5533 1.277273 CAGGTGAGAGGATTCAGTGCA 59.723 52.381 0.00 0.00 0.00 4.57
2704 5534 1.554160 AGGTGAGAGGATTCAGTGCAG 59.446 52.381 0.00 0.00 0.00 4.41
2712 5542 1.093159 GATTCAGTGCAGCCCAGAAG 58.907 55.000 0.00 0.00 0.00 2.85
2789 5673 4.706962 CCTTGGAGAAACTTAGAAATGGGG 59.293 45.833 0.00 0.00 0.00 4.96
2820 5704 3.821033 AGATTCACTTACAGTTTGGCCAC 59.179 43.478 3.88 0.00 0.00 5.01
2828 5712 2.151202 ACAGTTTGGCCACTGAATACG 58.849 47.619 25.74 5.60 46.29 3.06
2835 5719 1.361793 GCCACTGAATACGCCGTTAA 58.638 50.000 0.00 0.00 0.00 2.01
2853 5737 5.108027 CCGTTAAATTTCGAGGTTGCTTTTG 60.108 40.000 0.00 0.00 0.00 2.44
2874 5760 3.071206 AGGTCTGACGGCGAGCAT 61.071 61.111 16.62 0.00 0.00 3.79
2987 5873 1.920835 GTGGTCAAGGAGGAGGGCT 60.921 63.158 0.00 0.00 0.00 5.19
3266 6904 7.309920 AGTTACATAAAATTTACGCCAGTTGG 58.690 34.615 0.00 0.00 38.53 3.77
3653 7292 3.377573 TGTAACCCCCTCATAGGTGTAC 58.622 50.000 0.00 0.00 36.19 2.90
3708 7347 1.270147 GGTTACTCGCCTGACAGTTGT 60.270 52.381 0.93 0.00 0.00 3.32
3814 7460 1.152860 CCTCCTCCTCTGCTCGCTA 60.153 63.158 0.00 0.00 0.00 4.26
3817 7463 0.749818 TCCTCCTCTGCTCGCTACTG 60.750 60.000 0.00 0.00 0.00 2.74
3819 7465 1.661498 CTCCTCTGCTCGCTACTGCA 61.661 60.000 0.00 0.00 39.64 4.41
3820 7466 1.216444 CCTCTGCTCGCTACTGCAA 59.784 57.895 0.00 0.00 38.81 4.08
3853 7499 2.885266 GGAGGGTGTCTTGTTTCTTTCC 59.115 50.000 0.00 0.00 0.00 3.13
3885 7531 8.990163 TTTTTCATAGGTGGAGTTAGTCTTTT 57.010 30.769 0.00 0.00 0.00 2.27
3891 7537 4.163458 AGGTGGAGTTAGTCTTTTGTGTGA 59.837 41.667 0.00 0.00 0.00 3.58
3894 7540 4.515191 TGGAGTTAGTCTTTTGTGTGATGC 59.485 41.667 0.00 0.00 0.00 3.91
3899 7545 1.680735 GTCTTTTGTGTGATGCCACCA 59.319 47.619 0.00 0.00 42.53 4.17
3914 7560 1.406069 CCACCAGAAGGATGAGAACGG 60.406 57.143 0.00 0.00 38.69 4.44
3918 7564 1.153549 GAAGGATGAGAACGGCGCT 60.154 57.895 6.90 0.00 0.00 5.92
3941 7587 0.963962 TCGAGTAAAGTTGCCTCGGT 59.036 50.000 18.82 0.00 46.03 4.69
3942 7588 1.068474 CGAGTAAAGTTGCCTCGGTG 58.932 55.000 13.80 0.00 43.20 4.94
3968 7614 0.955905 TCACCATGACGACGTTCTCA 59.044 50.000 0.13 0.00 0.00 3.27
3979 7625 0.599204 ACGTTCTCAATGACGGCGTT 60.599 50.000 16.19 0.00 0.00 4.84
4007 7657 1.422531 GATGGCCTCATCCTCTCACT 58.577 55.000 3.32 0.00 42.92 3.41
4009 7659 1.145819 GGCCTCATCCTCTCACTGC 59.854 63.158 0.00 0.00 0.00 4.40
4015 7665 2.622942 CTCATCCTCTCACTGCCTAGTC 59.377 54.545 0.00 0.00 34.07 2.59
4020 7670 0.409876 TCTCACTGCCTAGTCAGGGT 59.590 55.000 2.43 0.00 42.88 4.34
4050 7700 1.066071 GGGTCTTCTTTTCCTCTCCGG 60.066 57.143 0.00 0.00 0.00 5.14
4057 7707 0.472471 TTTTCCTCTCCGGCAGTTGT 59.528 50.000 0.00 0.00 0.00 3.32
4064 7714 1.673920 TCTCCGGCAGTTGTTGTTTTC 59.326 47.619 0.00 0.00 0.00 2.29
4097 7747 1.823169 GAGGCTGGGTGACGGTGTAA 61.823 60.000 0.00 0.00 0.00 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 2.282040 AGCTGGGTGAAGCACTGC 60.282 61.111 0.00 0.00 46.08 4.40
313 314 3.800531 ACGGCCCAGTTATGTAATGTAC 58.199 45.455 0.00 0.00 0.00 2.90
316 317 2.158813 AGGACGGCCCAGTTATGTAATG 60.159 50.000 1.76 0.00 37.41 1.90
344 345 4.452733 CGGGCCTTCACGGGTCTC 62.453 72.222 0.84 0.00 0.00 3.36
367 369 0.674895 GCCGTGCAGGATTGAGTTCT 60.675 55.000 8.24 0.00 45.00 3.01
422 424 0.174845 CCGAGGCAATTACCTGTCGA 59.825 55.000 0.59 0.00 41.32 4.20
423 425 0.810031 CCCGAGGCAATTACCTGTCG 60.810 60.000 0.59 0.49 41.32 4.35
424 426 0.252197 ACCCGAGGCAATTACCTGTC 59.748 55.000 0.59 0.00 41.32 3.51
426 428 1.094785 CAACCCGAGGCAATTACCTG 58.905 55.000 0.59 0.00 41.32 4.00
428 430 1.092348 GACAACCCGAGGCAATTACC 58.908 55.000 0.00 0.00 0.00 2.85
429 431 2.007608 GAGACAACCCGAGGCAATTAC 58.992 52.381 0.00 0.00 0.00 1.89
430 432 1.626321 TGAGACAACCCGAGGCAATTA 59.374 47.619 0.00 0.00 0.00 1.40
431 433 0.400213 TGAGACAACCCGAGGCAATT 59.600 50.000 0.00 0.00 0.00 2.32
432 434 0.400213 TTGAGACAACCCGAGGCAAT 59.600 50.000 0.00 0.00 0.00 3.56
433 435 0.181587 TTTGAGACAACCCGAGGCAA 59.818 50.000 0.00 0.00 0.00 4.52
434 436 0.181587 TTTTGAGACAACCCGAGGCA 59.818 50.000 0.00 0.00 0.00 4.75
435 437 1.314730 TTTTTGAGACAACCCGAGGC 58.685 50.000 0.00 0.00 0.00 4.70
455 457 1.279846 TCCCGAGGCGATTACCTTTTT 59.720 47.619 0.00 0.00 41.32 1.94
456 458 0.906775 TCCCGAGGCGATTACCTTTT 59.093 50.000 0.00 0.00 41.32 2.27
457 459 0.906775 TTCCCGAGGCGATTACCTTT 59.093 50.000 0.00 0.00 41.32 3.11
458 460 0.906775 TTTCCCGAGGCGATTACCTT 59.093 50.000 0.00 0.00 41.32 3.50
493 519 4.749245 ACTACAAATTGAACAAGCGGAG 57.251 40.909 0.00 0.00 0.00 4.63
567 1984 0.535335 GACTGGGTTCGTATCCTGCA 59.465 55.000 0.00 0.00 0.00 4.41
568 1985 0.824759 AGACTGGGTTCGTATCCTGC 59.175 55.000 0.00 0.00 0.00 4.85
569 1986 2.099921 CAGAGACTGGGTTCGTATCCTG 59.900 54.545 0.00 0.00 0.00 3.86
570 1987 2.291670 ACAGAGACTGGGTTCGTATCCT 60.292 50.000 0.00 0.00 35.51 3.24
576 1993 1.401670 CGAAGACAGAGACTGGGTTCG 60.402 57.143 16.74 16.74 41.03 3.95
607 2024 1.004277 CTTCCTGGGATTTTCGGGACA 59.996 52.381 0.00 0.00 39.22 4.02
700 2118 2.414058 TTTCGGTGCTACGTTTCGTA 57.586 45.000 0.00 2.23 41.54 3.43
702 2120 2.096614 ACATTTTCGGTGCTACGTTTCG 60.097 45.455 0.00 0.00 34.94 3.46
704 2122 3.312973 TGAACATTTTCGGTGCTACGTTT 59.687 39.130 0.00 0.00 34.04 3.60
733 2151 7.913674 TTCCTCAGAAATAGAAGAGAAAAGC 57.086 36.000 0.00 0.00 0.00 3.51
763 2184 1.674611 GGTCTCGCGTGATGTGAACG 61.675 60.000 14.59 0.00 43.81 3.95
784 2205 1.442813 CGTTTTCGACGTGCATTGTTG 59.557 47.619 0.00 0.00 46.49 3.33
814 2239 3.561217 TTGTGCGACGCTCGGCTAA 62.561 57.895 22.08 4.88 40.84 3.09
982 2462 3.961414 GGCTGGAACCCCGGACAA 61.961 66.667 0.73 0.00 46.69 3.18
1239 2728 2.453983 AAACCGTCCCAATTTGCATG 57.546 45.000 0.00 0.00 0.00 4.06
1302 2791 3.065095 GCAAGCACAGCAATTTCCAAAAA 59.935 39.130 0.00 0.00 0.00 1.94
1303 2792 2.613133 GCAAGCACAGCAATTTCCAAAA 59.387 40.909 0.00 0.00 0.00 2.44
1352 2841 3.917743 ACAGTTACTGACGAAAGATCGCC 60.918 47.826 20.07 0.00 42.77 5.54
1358 2847 5.316488 CTGTGAACAGTTACTGACGAAAG 57.684 43.478 20.07 7.00 39.09 2.62
1402 2891 2.135933 GACGTTCTGAAACCCTGACAG 58.864 52.381 0.00 0.00 31.27 3.51
1447 2936 4.631131 TGAAAGAGAGCGAAACAGATCAA 58.369 39.130 0.00 0.00 0.00 2.57
1489 2978 5.783100 AAAAACAATTGCAGTGACTGTTG 57.217 34.783 14.82 12.88 33.43 3.33
1704 4377 3.503748 GCAAGAACAGCTTTAGTCATGGT 59.496 43.478 0.00 0.00 33.60 3.55
1706 4379 4.142730 GGAGCAAGAACAGCTTTAGTCATG 60.143 45.833 0.00 0.00 43.58 3.07
1718 4391 6.437477 TGATAGTTTCTAGAGGAGCAAGAACA 59.563 38.462 0.00 0.00 0.00 3.18
1801 4619 4.777463 CCTGATTAACTTACCCGACCAAT 58.223 43.478 0.00 0.00 0.00 3.16
1807 4625 3.536956 TGAGCCTGATTAACTTACCCG 57.463 47.619 0.00 0.00 0.00 5.28
1842 4660 5.716228 TCAGAAACCATGGCATCACTATTTT 59.284 36.000 13.04 0.76 0.00 1.82
1958 4776 3.368571 GTGTTGCCTGCCCAGAGC 61.369 66.667 0.00 0.00 44.14 4.09
2061 4879 1.559219 TCCATCCTCTTTCCATCGCAA 59.441 47.619 0.00 0.00 0.00 4.85
2062 4880 1.203237 TCCATCCTCTTTCCATCGCA 58.797 50.000 0.00 0.00 0.00 5.10
2064 4882 2.149578 GCATCCATCCTCTTTCCATCG 58.850 52.381 0.00 0.00 0.00 3.84
2081 4899 1.475751 CCGAGCTGTATCTTTGGGCAT 60.476 52.381 0.00 0.00 0.00 4.40
2220 5039 7.392494 TGTAGTCAGTTAATACAGAGTCAGG 57.608 40.000 0.00 0.00 0.00 3.86
2339 5158 8.537223 CAAATGCAAAGATATTTGTCAGTATGC 58.463 33.333 13.94 0.00 38.71 3.14
2340 5159 9.791820 TCAAATGCAAAGATATTTGTCAGTATG 57.208 29.630 13.94 11.51 42.20 2.39
2409 5239 2.416547 AGAACATCAACGAATCGGCAAG 59.583 45.455 7.80 0.00 0.00 4.01
2415 5245 5.521735 ACAGAGCATAGAACATCAACGAATC 59.478 40.000 0.00 0.00 0.00 2.52
2450 5280 0.386352 CGTCGCGGTTAACAGTCAGA 60.386 55.000 6.13 2.69 0.00 3.27
2468 5298 3.106672 GGCGATATTTCTAGGATACGCG 58.893 50.000 3.53 3.53 44.49 6.01
2600 5430 2.516227 AGGAGGTCTTGATCGTCTCA 57.484 50.000 0.00 0.00 0.00 3.27
2618 5448 0.108662 TCTCATGTGCACGGCAGTAG 60.109 55.000 13.13 3.91 40.08 2.57
2688 5518 0.463474 GGGCTGCACTGAATCCTCTC 60.463 60.000 0.50 0.00 0.00 3.20
2689 5519 1.203441 TGGGCTGCACTGAATCCTCT 61.203 55.000 2.50 0.00 0.00 3.69
2690 5520 0.747283 CTGGGCTGCACTGAATCCTC 60.747 60.000 2.50 0.00 0.00 3.71
2712 5542 5.529800 TGAAACCAAGTAGTAACTTTCTGCC 59.470 40.000 0.00 0.00 43.60 4.85
2714 5544 9.057089 AGAATGAAACCAAGTAGTAACTTTCTG 57.943 33.333 0.00 0.00 43.60 3.02
2715 5545 9.057089 CAGAATGAAACCAAGTAGTAACTTTCT 57.943 33.333 0.00 0.00 40.26 2.52
2716 5546 8.837389 ACAGAATGAAACCAAGTAGTAACTTTC 58.163 33.333 0.00 0.00 40.26 2.62
2717 5547 8.747538 ACAGAATGAAACCAAGTAGTAACTTT 57.252 30.769 0.00 0.00 40.26 2.66
2718 5548 8.747538 AACAGAATGAAACCAAGTAGTAACTT 57.252 30.769 0.00 0.00 42.92 2.66
2719 5549 8.747538 AAACAGAATGAAACCAAGTAGTAACT 57.252 30.769 0.00 0.00 39.69 2.24
2720 5550 9.874215 GTAAACAGAATGAAACCAAGTAGTAAC 57.126 33.333 0.00 0.00 39.69 2.50
2723 5553 7.228706 CAGGTAAACAGAATGAAACCAAGTAGT 59.771 37.037 0.00 0.00 39.69 2.73
2724 5554 7.228706 ACAGGTAAACAGAATGAAACCAAGTAG 59.771 37.037 0.00 0.00 39.69 2.57
2820 5704 5.133707 TCGAAATTTAACGGCGTATTCAG 57.866 39.130 15.20 7.55 0.00 3.02
2828 5712 2.095415 AGCAACCTCGAAATTTAACGGC 60.095 45.455 0.00 0.00 0.00 5.68
2835 5719 3.383185 TGGACAAAAGCAACCTCGAAATT 59.617 39.130 0.00 0.00 0.00 1.82
2853 5737 3.343788 CTCGCCGTCAGACCTGGAC 62.344 68.421 0.00 0.00 0.00 4.02
2874 5760 3.717912 TCCAGAGGGAAGCTGATCA 57.282 52.632 0.00 0.00 41.32 2.92
2987 5873 2.282180 GCGGAACAGCCCCTTGAA 60.282 61.111 0.00 0.00 0.00 2.69
3056 5942 2.283298 CTTGCATGCCTCGTAGAACAT 58.717 47.619 16.68 0.00 34.27 2.71
3266 6904 3.209410 CCTAGACCCAATCACAATCTGC 58.791 50.000 0.00 0.00 0.00 4.26
3627 7266 5.222463 ACACCTATGAGGGGGTTACATTTTT 60.222 40.000 0.00 0.00 45.32 1.94
3628 7267 4.293901 ACACCTATGAGGGGGTTACATTTT 59.706 41.667 0.00 0.00 45.32 1.82
3629 7268 3.856206 ACACCTATGAGGGGGTTACATTT 59.144 43.478 0.00 0.00 45.32 2.32
3630 7269 3.470868 ACACCTATGAGGGGGTTACATT 58.529 45.455 0.00 0.00 45.32 2.71
3631 7270 3.145559 ACACCTATGAGGGGGTTACAT 57.854 47.619 0.00 0.00 45.32 2.29
3644 7283 6.479001 GTCAAGTGCAATAATCGTACACCTAT 59.521 38.462 0.00 0.00 31.58 2.57
3653 7292 7.239166 AGATAACTGTCAAGTGCAATAATCG 57.761 36.000 0.00 0.00 36.51 3.34
3838 7484 5.975693 AAACACAGGAAAGAAACAAGACA 57.024 34.783 0.00 0.00 0.00 3.41
3885 7531 0.250858 CCTTCTGGTGGCATCACACA 60.251 55.000 0.00 0.00 45.32 3.72
3891 7537 1.588239 TCTCATCCTTCTGGTGGCAT 58.412 50.000 0.00 0.00 34.23 4.40
3894 7540 1.406069 CCGTTCTCATCCTTCTGGTGG 60.406 57.143 0.00 0.00 34.23 4.61
3899 7545 1.153549 GCGCCGTTCTCATCCTTCT 60.154 57.895 0.00 0.00 0.00 2.85
3914 7560 1.136611 CAACTTTACTCGACACAGCGC 60.137 52.381 0.00 0.00 0.00 5.92
3941 7587 0.251608 TCGTCATGGTGAGGAGGACA 60.252 55.000 0.00 0.00 36.49 4.02
3942 7588 0.173708 GTCGTCATGGTGAGGAGGAC 59.826 60.000 2.89 0.00 41.27 3.85
3968 7614 1.298859 GGCTTCTCAACGCCGTCATT 61.299 55.000 0.00 0.00 36.45 2.57
3997 7647 2.665165 CTGACTAGGCAGTGAGAGGAT 58.335 52.381 18.20 0.00 38.18 3.24
4007 7657 1.007118 TCTCATCACCCTGACTAGGCA 59.993 52.381 0.00 0.00 43.16 4.75
4009 7659 3.070734 CCAATCTCATCACCCTGACTAGG 59.929 52.174 0.00 0.00 44.18 3.02
4015 7665 1.842562 AGACCCAATCTCATCACCCTG 59.157 52.381 0.00 0.00 28.16 4.45
4020 7670 5.014544 AGGAAAAGAAGACCCAATCTCATCA 59.985 40.000 0.00 0.00 36.27 3.07
4050 7700 4.142469 ACCACTACAGAAAACAACAACTGC 60.142 41.667 0.00 0.00 34.25 4.40
4057 7707 5.092554 TCTGACACCACTACAGAAAACAA 57.907 39.130 0.00 0.00 37.66 2.83
4064 7714 1.067283 CAGCCTCTGACACCACTACAG 60.067 57.143 0.00 0.00 32.44 2.74


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

AutoCloner maintained by Alex Coulton.