Multiple sequence alignment - TraesCS7B01G283000

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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 TraesCS7B01G283000 chr7B 100.000 3568 0 0 1 3568 517309463 517313030 0.000000e+00 6589.0
1 TraesCS7B01G283000 chr7B 82.469 1118 87 49 2453 3527 517323015 517324066 0.000000e+00 878.0
2 TraesCS7B01G283000 chr7B 100.000 35 0 0 454 488 517309882 517309916 8.270000e-07 65.8
3 TraesCS7B01G283000 chr7B 100.000 35 0 0 420 454 517309916 517309950 8.270000e-07 65.8
4 TraesCS7B01G283000 chr7D 93.904 3035 124 31 454 3454 488781997 488785004 0.000000e+00 4523.0
5 TraesCS7B01G283000 chr7D 84.393 865 61 35 2699 3541 488792136 488792948 0.000000e+00 782.0
6 TraesCS7B01G283000 chr7D 94.323 458 22 2 1 454 488781574 488782031 0.000000e+00 699.0
7 TraesCS7B01G283000 chr7D 93.966 116 6 1 3441 3555 488785023 488785138 1.320000e-39 174.0
8 TraesCS7B01G283000 chr7A 91.497 2058 102 32 618 2633 556159064 556161090 0.000000e+00 2763.0
9 TraesCS7B01G283000 chr7A 91.076 762 52 9 2699 3454 556161625 556162376 0.000000e+00 1016.0
10 TraesCS7B01G283000 chr7A 86.812 872 67 23 2699 3555 556170147 556170985 0.000000e+00 929.0
11 TraesCS7B01G283000 chr7A 89.565 230 19 3 1 229 556158446 556158671 1.620000e-73 287.0
12 TraesCS7B01G283000 chr7A 95.652 115 5 0 3441 3555 556162395 556162509 6.080000e-43 185.0
13 TraesCS7B01G283000 chr7A 100.000 42 0 0 2657 2698 556161357 556161398 1.060000e-10 78.7
14 TraesCS7B01G283000 chrUn 93.373 166 11 0 229 394 237318537 237318372 2.750000e-61 246.0
15 TraesCS7B01G283000 chrUn 91.111 180 14 2 216 394 245704220 245704042 3.560000e-60 243.0
16 TraesCS7B01G283000 chrUn 91.954 174 12 2 216 388 348898998 348899170 3.560000e-60 243.0
17 TraesCS7B01G283000 chrUn 91.954 174 12 2 216 388 448431959 448432131 3.560000e-60 243.0
18 TraesCS7B01G283000 chr1A 93.373 166 11 0 229 394 64425 64260 2.750000e-61 246.0
19 TraesCS7B01G283000 chr1A 93.373 166 11 0 229 394 67496 67331 2.750000e-61 246.0
20 TraesCS7B01G283000 chr6B 91.379 174 13 2 216 388 111694163 111694335 1.660000e-58 237.0
21 TraesCS7B01G283000 chr5A 91.379 174 13 2 216 388 706866747 706866919 1.660000e-58 237.0
22 TraesCS7B01G283000 chr5A 71.760 517 126 16 1231 1740 191092281 191092784 1.040000e-25 128.0
23 TraesCS7B01G283000 chr5D 72.340 517 123 16 1231 1740 177676792 177676289 1.030000e-30 145.0
24 TraesCS7B01G283000 chr5B 71.899 516 127 15 1231 1740 192349953 192349450 2.230000e-27 134.0


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 TraesCS7B01G283000 chr7B 517309463 517313030 3567 False 2240.200000 6589 100.000000 1 3568 3 chr7B.!!$F2 3567
1 TraesCS7B01G283000 chr7B 517323015 517324066 1051 False 878.000000 878 82.469000 2453 3527 1 chr7B.!!$F1 1074
2 TraesCS7B01G283000 chr7D 488781574 488785138 3564 False 1798.666667 4523 94.064333 1 3555 3 chr7D.!!$F2 3554
3 TraesCS7B01G283000 chr7D 488792136 488792948 812 False 782.000000 782 84.393000 2699 3541 1 chr7D.!!$F1 842
4 TraesCS7B01G283000 chr7A 556170147 556170985 838 False 929.000000 929 86.812000 2699 3555 1 chr7A.!!$F1 856
5 TraesCS7B01G283000 chr7A 556158446 556162509 4063 False 865.940000 2763 93.558000 1 3555 5 chr7A.!!$F2 3554
6 TraesCS7B01G283000 chr1A 64260 67496 3236 True 246.000000 246 93.373000 229 394 2 chr1A.!!$R1 165

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
394 396 0.040058 AGCCATGCATCACTTCCCAA 59.960 50.0 0.0 0.0 0.0 4.12 F
1920 2643 0.106619 CCCTCCTAGTACCGCTCAGT 60.107 60.0 0.0 0.0 0.0 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2379 3118 0.036388 GGTTGCACCGAGATCCTGAA 60.036 55.000 0.00 0.00 0.00 3.02 R
3354 4576 1.195448 GCAGTCATGCGCCATATGTAC 59.805 52.381 4.18 3.13 43.87 2.90 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
70 71 8.794553 ACTTACCGATAGTATTACTGATTCCAG 58.205 37.037 6.60 0.00 45.76 3.86
164 165 8.897752 AGAGATAGTTTGTGAATTTAGGAATGC 58.102 33.333 0.00 0.00 0.00 3.56
166 167 8.897752 AGATAGTTTGTGAATTTAGGAATGCTC 58.102 33.333 0.00 0.00 0.00 4.26
242 243 5.329399 ACATTACCCTTATTGCCTCAAACA 58.671 37.500 0.00 0.00 0.00 2.83
244 245 6.440328 ACATTACCCTTATTGCCTCAAACATT 59.560 34.615 0.00 0.00 0.00 2.71
278 279 2.559231 GGCGATAGTCCCTCTAAGAAGG 59.441 54.545 0.00 0.00 39.35 3.46
331 333 0.612174 AGCTGGCTGAGGTCTCGTTA 60.612 55.000 0.00 0.00 0.00 3.18
375 377 0.669318 CGCTCCGCCAACTAAGAACA 60.669 55.000 0.00 0.00 0.00 3.18
388 390 2.211250 AAGAACAGCCATGCATCACT 57.789 45.000 0.00 0.00 0.00 3.41
389 391 2.211250 AGAACAGCCATGCATCACTT 57.789 45.000 0.00 0.00 0.00 3.16
394 396 0.040058 AGCCATGCATCACTTCCCAA 59.960 50.000 0.00 0.00 0.00 4.12
396 398 1.275856 GCCATGCATCACTTCCCAAAA 59.724 47.619 0.00 0.00 0.00 2.44
398 400 3.328505 CCATGCATCACTTCCCAAAAAC 58.671 45.455 0.00 0.00 0.00 2.43
443 449 4.129380 CTGGACTGCATCAAAATATCCGA 58.871 43.478 0.00 0.00 0.00 4.55
444 450 4.717877 TGGACTGCATCAAAATATCCGAT 58.282 39.130 0.00 0.00 0.00 4.18
445 451 5.132502 TGGACTGCATCAAAATATCCGATT 58.867 37.500 0.00 0.00 0.00 3.34
446 452 5.593909 TGGACTGCATCAAAATATCCGATTT 59.406 36.000 0.00 0.00 0.00 2.17
447 453 6.770303 TGGACTGCATCAAAATATCCGATTTA 59.230 34.615 0.00 0.00 0.00 1.40
448 454 7.284261 TGGACTGCATCAAAATATCCGATTTAA 59.716 33.333 0.00 0.00 0.00 1.52
449 455 8.134895 GGACTGCATCAAAATATCCGATTTAAA 58.865 33.333 0.00 0.00 0.00 1.52
450 456 9.683069 GACTGCATCAAAATATCCGATTTAAAT 57.317 29.630 0.00 0.00 0.00 1.40
461 623 6.704056 ATCCGATTTAAATATCCCTGGACT 57.296 37.500 0.00 0.00 0.00 3.85
467 629 5.645056 TTAAATATCCCTGGACTGCATCA 57.355 39.130 0.00 0.00 0.00 3.07
468 630 4.524802 AAATATCCCTGGACTGCATCAA 57.475 40.909 0.00 0.00 0.00 2.57
469 631 4.524802 AATATCCCTGGACTGCATCAAA 57.475 40.909 0.00 0.00 0.00 2.69
470 632 2.905415 ATCCCTGGACTGCATCAAAA 57.095 45.000 0.00 0.00 0.00 2.44
471 633 2.905415 TCCCTGGACTGCATCAAAAT 57.095 45.000 0.00 0.00 0.00 1.82
472 634 4.524802 ATCCCTGGACTGCATCAAAATA 57.475 40.909 0.00 0.00 0.00 1.40
473 635 4.524802 TCCCTGGACTGCATCAAAATAT 57.475 40.909 0.00 0.00 0.00 1.28
474 636 4.464008 TCCCTGGACTGCATCAAAATATC 58.536 43.478 0.00 0.00 0.00 1.63
475 637 3.571401 CCCTGGACTGCATCAAAATATCC 59.429 47.826 0.00 0.00 0.00 2.59
476 638 3.251729 CCTGGACTGCATCAAAATATCCG 59.748 47.826 0.00 0.00 0.00 4.18
604 1023 2.105477 GGACCACAGCTCACATATCCAT 59.895 50.000 0.00 0.00 0.00 3.41
612 1031 2.224475 GCTCACATATCCATGGCAGAGT 60.224 50.000 6.96 0.00 36.39 3.24
622 1041 0.706433 ATGGCAGAGTGGGGAAATGT 59.294 50.000 0.00 0.00 0.00 2.71
660 1267 4.252073 GCTCCACCATCTGATGATACATC 58.748 47.826 18.92 4.98 0.00 3.06
661 1268 4.829968 CTCCACCATCTGATGATACATCC 58.170 47.826 18.92 0.00 0.00 3.51
662 1269 3.259123 TCCACCATCTGATGATACATCCG 59.741 47.826 18.92 2.33 0.00 4.18
663 1270 3.007290 CCACCATCTGATGATACATCCGT 59.993 47.826 18.92 2.94 0.00 4.69
664 1271 3.992427 CACCATCTGATGATACATCCGTG 59.008 47.826 18.92 11.17 0.00 4.94
665 1272 3.897505 ACCATCTGATGATACATCCGTGA 59.102 43.478 18.92 5.77 0.00 4.35
666 1273 4.529769 ACCATCTGATGATACATCCGTGAT 59.470 41.667 18.92 7.40 0.00 3.06
674 1281 3.380320 TGATACATCCGTGATTCGTGTCT 59.620 43.478 0.00 0.00 37.94 3.41
789 1413 3.055167 ACATGTATGTGTTCCTAGCTGCA 60.055 43.478 0.00 0.00 40.03 4.41
825 1450 2.040278 AGTATTTTGTCTGGCCAGCAGA 59.960 45.455 28.91 20.09 0.00 4.26
924 1549 1.750399 GGCCCGTGCATCACAGATT 60.750 57.895 0.00 0.00 40.13 2.40
975 1600 1.071228 GTCCGGGGTTTATAAGGCGAT 59.929 52.381 0.00 0.00 0.00 4.58
983 1608 6.127535 CGGGGTTTATAAGGCGATAGAGATAA 60.128 42.308 0.00 0.00 39.76 1.75
1067 1699 4.787280 CCCCGGAGCCTCCTGACT 62.787 72.222 9.52 0.00 33.30 3.41
1117 1752 1.445871 GTCGGGAAATACGCAGGTTT 58.554 50.000 0.00 0.00 0.00 3.27
1134 1769 2.612604 GTTTTTGCCTTGTGTTTCGGT 58.387 42.857 0.00 0.00 0.00 4.69
1141 1776 0.868406 CTTGTGTTTCGGTCTGGCTC 59.132 55.000 0.00 0.00 0.00 4.70
1158 1793 0.109597 CTCCTGTGTTTTCATGCGCC 60.110 55.000 4.18 0.00 0.00 6.53
1362 1998 1.522580 GGAGATGCTCTTCACGGCC 60.523 63.158 0.00 0.00 0.00 6.13
1488 2124 1.526917 CATCCCGGGCATCAAGGTC 60.527 63.158 18.49 0.00 0.00 3.85
1908 2631 2.043248 GCACGTCCCTCCCTCCTA 60.043 66.667 0.00 0.00 0.00 2.94
1909 2632 2.128507 GCACGTCCCTCCCTCCTAG 61.129 68.421 0.00 0.00 0.00 3.02
1913 2636 0.178995 CGTCCCTCCCTCCTAGTACC 60.179 65.000 0.00 0.00 0.00 3.34
1914 2637 0.178995 GTCCCTCCCTCCTAGTACCG 60.179 65.000 0.00 0.00 0.00 4.02
1917 2640 0.537828 CCTCCCTCCTAGTACCGCTC 60.538 65.000 0.00 0.00 0.00 5.03
1918 2641 0.183014 CTCCCTCCTAGTACCGCTCA 59.817 60.000 0.00 0.00 0.00 4.26
1919 2642 0.183014 TCCCTCCTAGTACCGCTCAG 59.817 60.000 0.00 0.00 0.00 3.35
1920 2643 0.106619 CCCTCCTAGTACCGCTCAGT 60.107 60.000 0.00 0.00 0.00 3.41
1921 2644 1.685491 CCCTCCTAGTACCGCTCAGTT 60.685 57.143 0.00 0.00 0.00 3.16
1923 2646 2.617774 CCTCCTAGTACCGCTCAGTTAC 59.382 54.545 0.00 0.00 0.00 2.50
1927 2650 4.878397 TCCTAGTACCGCTCAGTTACTTAC 59.122 45.833 0.00 0.00 0.00 2.34
1928 2651 4.880696 CCTAGTACCGCTCAGTTACTTACT 59.119 45.833 0.00 0.00 37.68 2.24
1930 2653 5.718724 AGTACCGCTCAGTTACTTACTTT 57.281 39.130 0.00 0.00 33.85 2.66
1931 2654 6.094193 AGTACCGCTCAGTTACTTACTTTT 57.906 37.500 0.00 0.00 33.85 2.27
1933 2656 5.919272 ACCGCTCAGTTACTTACTTTTTC 57.081 39.130 0.00 0.00 33.85 2.29
1935 2658 6.053650 ACCGCTCAGTTACTTACTTTTTCTT 58.946 36.000 0.00 0.00 33.85 2.52
1936 2659 6.541278 ACCGCTCAGTTACTTACTTTTTCTTT 59.459 34.615 0.00 0.00 33.85 2.52
1937 2660 7.070183 CCGCTCAGTTACTTACTTTTTCTTTC 58.930 38.462 0.00 0.00 33.85 2.62
1938 2661 7.254658 CCGCTCAGTTACTTACTTTTTCTTTCA 60.255 37.037 0.00 0.00 33.85 2.69
1961 2691 0.390998 TCGTTTGCATGGCTGATCGA 60.391 50.000 0.00 0.00 0.00 3.59
1962 2692 0.659427 CGTTTGCATGGCTGATCGAT 59.341 50.000 0.00 0.00 0.00 3.59
1966 2696 0.883370 TGCATGGCTGATCGATCTGC 60.883 55.000 35.87 35.87 46.85 4.26
1967 2697 0.603172 GCATGGCTGATCGATCTGCT 60.603 55.000 38.92 26.47 46.78 4.24
1968 2698 1.430479 CATGGCTGATCGATCTGCTC 58.570 55.000 38.92 31.60 46.78 4.26
2067 2801 2.434774 GGGGTGGTGTTCCTGTCC 59.565 66.667 0.00 0.00 34.23 4.02
2379 3118 4.619227 CCCGCGCCATTCCCGTAT 62.619 66.667 0.00 0.00 0.00 3.06
2380 3119 2.590575 CCGCGCCATTCCCGTATT 60.591 61.111 0.00 0.00 0.00 1.89
2381 3120 2.604174 CCGCGCCATTCCCGTATTC 61.604 63.158 0.00 0.00 0.00 1.75
2513 3252 5.394333 GCCGTGTACTTAAATTCTCTCTCCT 60.394 44.000 0.00 0.00 0.00 3.69
2514 3253 6.267070 CCGTGTACTTAAATTCTCTCTCCTC 58.733 44.000 0.00 0.00 0.00 3.71
2515 3254 6.267070 CGTGTACTTAAATTCTCTCTCCTCC 58.733 44.000 0.00 0.00 0.00 4.30
2517 3256 5.360144 TGTACTTAAATTCTCTCTCCTCCCG 59.640 44.000 0.00 0.00 0.00 5.14
2518 3257 3.707102 ACTTAAATTCTCTCTCCTCCCGG 59.293 47.826 0.00 0.00 0.00 5.73
2617 3356 9.049523 GTATATGTTTGAGCTTGATTCATGAGA 57.950 33.333 0.00 0.00 0.00 3.27
2753 3963 9.906660 TGAACATTCAACAATTATAACAGGTTC 57.093 29.630 0.00 0.00 33.55 3.62
2790 4000 4.016444 TGCAAATGTCTTCCTAATGGGTC 58.984 43.478 0.00 0.00 36.25 4.46
2847 4060 9.520515 ACAAGAGAAAGAAAGGAAAGCAATATA 57.479 29.630 0.00 0.00 0.00 0.86
2879 4092 3.138283 TCCAGGGAACATTTCTTCAGTGT 59.862 43.478 0.00 0.00 0.00 3.55
2883 4096 5.997746 CAGGGAACATTTCTTCAGTGTCTTA 59.002 40.000 0.00 0.00 0.00 2.10
2905 4118 3.636153 ATGGACAGTAAGAGCCCTTTC 57.364 47.619 0.00 0.00 33.94 2.62
2954 4167 0.101219 GATCCACATTTCCCTTGCGC 59.899 55.000 0.00 0.00 0.00 6.09
3022 4236 3.507622 GCTAATTGAAGGCACTCCAACTT 59.492 43.478 0.00 0.00 33.87 2.66
3211 4425 1.567746 GGGCAGCGCACCAAATTTTG 61.568 55.000 19.65 1.99 0.00 2.44
3287 4502 9.840427 AACAAGAATCGTGAATAAATGTTAAGG 57.160 29.630 2.68 0.00 0.00 2.69
3306 4528 5.403558 AAGGGGAAAGTAAGGGGATATTG 57.596 43.478 0.00 0.00 0.00 1.90
3354 4576 5.756195 TGCAAGATCCTTTGATTTATCCG 57.244 39.130 0.00 0.00 0.00 4.18
3462 4718 4.423625 AACTTTGTCAGCACTAGGAAGT 57.576 40.909 0.00 0.00 35.91 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
70 71 1.478510 TCTCATCGAGCAGAGTTTCCC 59.521 52.381 10.82 0.00 33.63 3.97
164 165 3.685139 ATACAAGGCATCATACCGGAG 57.315 47.619 9.46 0.00 0.00 4.63
166 167 2.736721 CGAATACAAGGCATCATACCGG 59.263 50.000 0.00 0.00 0.00 5.28
278 279 1.147153 GCCATCCCTCCACAGCTAC 59.853 63.158 0.00 0.00 0.00 3.58
315 316 1.629043 AACTAACGAGACCTCAGCCA 58.371 50.000 0.00 0.00 0.00 4.75
375 377 0.040058 TTGGGAAGTGATGCATGGCT 59.960 50.000 2.46 0.00 0.00 4.75
394 396 0.881600 GTGTACCGTCGCCCAGTTTT 60.882 55.000 0.00 0.00 0.00 2.43
396 398 2.341176 GTGTACCGTCGCCCAGTT 59.659 61.111 0.00 0.00 0.00 3.16
398 400 2.718747 TTTGGTGTACCGTCGCCCAG 62.719 60.000 0.00 0.00 39.43 4.45
443 449 6.613699 TGATGCAGTCCAGGGATATTTAAAT 58.386 36.000 5.89 5.89 0.00 1.40
444 450 6.012337 TGATGCAGTCCAGGGATATTTAAA 57.988 37.500 0.00 0.00 0.00 1.52
445 451 5.645056 TGATGCAGTCCAGGGATATTTAA 57.355 39.130 0.00 0.00 0.00 1.52
446 452 5.645056 TTGATGCAGTCCAGGGATATTTA 57.355 39.130 0.00 0.00 0.00 1.40
447 453 4.524802 TTGATGCAGTCCAGGGATATTT 57.475 40.909 0.00 0.00 0.00 1.40
448 454 4.524802 TTTGATGCAGTCCAGGGATATT 57.475 40.909 0.00 0.00 0.00 1.28
449 455 4.524802 TTTTGATGCAGTCCAGGGATAT 57.475 40.909 0.00 0.00 0.00 1.63
450 456 4.524802 ATTTTGATGCAGTCCAGGGATA 57.475 40.909 0.00 0.00 0.00 2.59
473 635 9.232082 CGCAATTTGAAAGATATTTAAATCGGA 57.768 29.630 3.39 0.00 0.00 4.55
474 636 9.232082 TCGCAATTTGAAAGATATTTAAATCGG 57.768 29.630 3.39 0.00 0.00 4.18
490 905 2.112380 TCTGAGGCATCGCAATTTGA 57.888 45.000 0.00 0.00 0.00 2.69
542 959 1.068816 GGTGCCACCACGATGTTTAAC 60.069 52.381 9.55 0.00 43.00 2.01
546 963 1.302511 GAGGTGCCACCACGATGTT 60.303 57.895 17.80 0.00 41.95 2.71
604 1023 1.367346 TACATTTCCCCACTCTGCCA 58.633 50.000 0.00 0.00 0.00 4.92
660 1267 3.985279 TTCTTACAAGACACGAATCACGG 59.015 43.478 0.00 0.00 39.57 4.94
661 1268 5.363517 GTTTCTTACAAGACACGAATCACG 58.636 41.667 0.00 0.00 40.46 4.35
662 1269 5.333875 GGGTTTCTTACAAGACACGAATCAC 60.334 44.000 0.00 0.00 36.76 3.06
663 1270 4.753107 GGGTTTCTTACAAGACACGAATCA 59.247 41.667 0.00 0.00 36.76 2.57
664 1271 4.143179 CGGGTTTCTTACAAGACACGAATC 60.143 45.833 0.50 0.00 36.76 2.52
665 1272 3.744426 CGGGTTTCTTACAAGACACGAAT 59.256 43.478 0.50 0.00 36.76 3.34
666 1273 3.125316 CGGGTTTCTTACAAGACACGAA 58.875 45.455 0.50 0.00 36.76 3.85
674 1281 0.891904 GCTGGCCGGGTTTCTTACAA 60.892 55.000 15.02 0.00 0.00 2.41
825 1450 2.775219 ACCCAAACCCACCTCCGT 60.775 61.111 0.00 0.00 0.00 4.69
901 1526 3.635191 TGATGCACGGGCCACTGA 61.635 61.111 7.46 0.00 40.13 3.41
975 1600 2.099263 GTGGCTGTGCGAGTTATCTCTA 59.901 50.000 0.00 0.00 38.45 2.43
983 1608 3.233980 TGAGGTGGCTGTGCGAGT 61.234 61.111 0.00 0.00 0.00 4.18
1024 1649 1.067915 GGCTGCAAAATCCAAACGCTA 60.068 47.619 0.50 0.00 0.00 4.26
1050 1675 4.787280 AGTCAGGAGGCTCCGGGG 62.787 72.222 29.50 21.60 42.75 5.73
1117 1752 1.403679 CAGACCGAAACACAAGGCAAA 59.596 47.619 0.00 0.00 0.00 3.68
1134 1769 2.507484 CATGAAAACACAGGAGCCAGA 58.493 47.619 0.00 0.00 0.00 3.86
1141 1776 1.080569 GGGCGCATGAAAACACAGG 60.081 57.895 10.83 0.00 0.00 4.00
1186 1821 4.661125 TCATCTGCACATTTTCGTAATGC 58.339 39.130 11.23 3.18 36.81 3.56
1188 1823 4.637534 AGCTCATCTGCACATTTTCGTAAT 59.362 37.500 0.00 0.00 34.99 1.89
1190 1825 3.371898 CAGCTCATCTGCACATTTTCGTA 59.628 43.478 0.00 0.00 35.78 3.43
1191 1826 2.161012 CAGCTCATCTGCACATTTTCGT 59.839 45.455 0.00 0.00 35.78 3.85
1193 1828 4.095932 TGATCAGCTCATCTGCACATTTTC 59.904 41.667 0.00 0.00 42.56 2.29
1194 1829 4.014406 TGATCAGCTCATCTGCACATTTT 58.986 39.130 0.00 0.00 42.56 1.82
1446 2082 2.190578 CCGGCCTTGAGGATGTCC 59.809 66.667 0.00 0.00 37.39 4.02
1488 2124 4.308458 TCCACGGTGCCCTTGTCG 62.308 66.667 1.68 0.00 0.00 4.35
1519 2155 4.309950 GGTGGTGGTCTCGCCGTT 62.310 66.667 0.00 0.00 46.22 4.44
1800 2436 1.068748 TCGTTGAGCGACTTGTAGACC 60.069 52.381 0.00 0.00 45.68 3.85
1906 2629 6.434018 AAGTAAGTAACTGAGCGGTACTAG 57.566 41.667 0.00 0.00 38.88 2.57
1907 2630 6.824305 AAAGTAAGTAACTGAGCGGTACTA 57.176 37.500 0.00 0.00 38.88 1.82
1908 2631 5.718724 AAAGTAAGTAACTGAGCGGTACT 57.281 39.130 0.00 0.00 38.88 2.73
1909 2632 6.644181 AGAAAAAGTAAGTAACTGAGCGGTAC 59.356 38.462 0.00 0.00 38.88 3.34
1913 2636 7.627340 TGAAAGAAAAAGTAAGTAACTGAGCG 58.373 34.615 0.00 0.00 38.88 5.03
1914 2637 9.600646 GATGAAAGAAAAAGTAAGTAACTGAGC 57.399 33.333 0.00 0.00 38.88 4.26
1923 2646 8.472236 GCAAACGAAGATGAAAGAAAAAGTAAG 58.528 33.333 0.00 0.00 0.00 2.34
1927 2650 6.810888 TGCAAACGAAGATGAAAGAAAAAG 57.189 33.333 0.00 0.00 0.00 2.27
1928 2651 6.200665 CCATGCAAACGAAGATGAAAGAAAAA 59.799 34.615 0.00 0.00 0.00 1.94
1930 2653 5.221880 CCATGCAAACGAAGATGAAAGAAA 58.778 37.500 0.00 0.00 0.00 2.52
1931 2654 4.797471 CCATGCAAACGAAGATGAAAGAA 58.203 39.130 0.00 0.00 0.00 2.52
1933 2656 2.919229 GCCATGCAAACGAAGATGAAAG 59.081 45.455 0.00 0.00 0.00 2.62
1935 2658 2.095110 CAGCCATGCAAACGAAGATGAA 60.095 45.455 0.00 0.00 0.00 2.57
1936 2659 1.469703 CAGCCATGCAAACGAAGATGA 59.530 47.619 0.00 0.00 0.00 2.92
1937 2660 1.469703 TCAGCCATGCAAACGAAGATG 59.530 47.619 0.00 0.00 0.00 2.90
1938 2661 1.825090 TCAGCCATGCAAACGAAGAT 58.175 45.000 0.00 0.00 0.00 2.40
1961 2691 1.410517 CCTACACGACCATGAGCAGAT 59.589 52.381 0.00 0.00 0.00 2.90
1962 2692 0.817654 CCTACACGACCATGAGCAGA 59.182 55.000 0.00 0.00 0.00 4.26
1966 2696 2.007049 GCCAACCTACACGACCATGAG 61.007 57.143 0.00 0.00 0.00 2.90
1967 2697 0.036765 GCCAACCTACACGACCATGA 60.037 55.000 0.00 0.00 0.00 3.07
1968 2698 1.358725 CGCCAACCTACACGACCATG 61.359 60.000 0.00 0.00 0.00 3.66
2124 2858 2.031163 GTCCACGGCTTGAGCACT 59.969 61.111 5.24 0.00 44.36 4.40
2136 2870 1.079750 GGAGAAGGTGAGCGTCCAC 60.080 63.158 0.00 1.48 36.37 4.02
2337 3076 3.366273 CGACGGTGCCTTAGTACTTGTAA 60.366 47.826 0.00 0.00 0.00 2.41
2377 3116 2.158957 GGTTGCACCGAGATCCTGAATA 60.159 50.000 0.00 0.00 0.00 1.75
2379 3118 0.036388 GGTTGCACCGAGATCCTGAA 60.036 55.000 0.00 0.00 0.00 3.02
2380 3119 1.596934 GGTTGCACCGAGATCCTGA 59.403 57.895 0.00 0.00 0.00 3.86
2381 3120 1.450312 GGGTTGCACCGAGATCCTG 60.450 63.158 0.00 0.00 39.83 3.86
2461 3200 8.558973 AAAAGGAAGAGCATATATATCTGCAC 57.441 34.615 21.21 16.17 40.88 4.57
2513 3252 3.845398 TGGTTAAATAGGAGAAACCGGGA 59.155 43.478 6.32 0.00 43.53 5.14
2514 3253 4.080751 TCTGGTTAAATAGGAGAAACCGGG 60.081 45.833 6.32 0.00 44.87 5.73
2515 3254 5.093849 TCTGGTTAAATAGGAGAAACCGG 57.906 43.478 0.00 0.00 45.73 5.28
2517 3256 8.319881 AGTAGTTCTGGTTAAATAGGAGAAACC 58.680 37.037 0.00 0.00 41.45 3.27
2518 3257 9.152595 CAGTAGTTCTGGTTAAATAGGAGAAAC 57.847 37.037 0.00 0.00 40.23 2.78
2638 3377 3.790091 TCTGTTCAGCTGAGCATACATC 58.210 45.455 30.10 9.63 34.81 3.06
2790 4000 9.918630 AAAATGAACAGTAGAGAAATTTCATGG 57.081 29.630 19.99 5.98 34.66 3.66
2847 4060 9.492730 AAGAAATGTTCCCTGGAAATAATGTAT 57.507 29.630 0.00 0.00 35.75 2.29
2858 4071 3.490348 ACACTGAAGAAATGTTCCCTGG 58.510 45.455 0.00 0.00 0.00 4.45
2861 4074 8.616076 CATATAAGACACTGAAGAAATGTTCCC 58.384 37.037 0.00 0.00 0.00 3.97
2864 4077 9.167311 GTCCATATAAGACACTGAAGAAATGTT 57.833 33.333 2.27 0.00 34.27 2.71
2866 4079 8.722480 TGTCCATATAAGACACTGAAGAAATG 57.278 34.615 5.16 0.00 39.29 2.32
2868 4081 7.907389 ACTGTCCATATAAGACACTGAAGAAA 58.093 34.615 5.16 0.00 39.29 2.52
2879 4092 5.716979 AGGGCTCTTACTGTCCATATAAGA 58.283 41.667 0.00 0.00 34.55 2.10
2883 4096 4.202264 CGAAAGGGCTCTTACTGTCCATAT 60.202 45.833 0.00 0.00 32.01 1.78
2905 4118 5.600908 TTCGGTAAAATTTCTCTGTTCCG 57.399 39.130 0.00 0.00 37.29 4.30
2954 4167 3.694072 TGCAGGGTTTATTCTCCATTTCG 59.306 43.478 0.00 0.00 0.00 3.46
3022 4236 7.119992 TCCATAAATTTAAGCGTTCTTACTGCA 59.880 33.333 1.21 0.00 34.71 4.41
3063 4277 3.547613 GCAGAATGTTCAGAATCCGCATC 60.548 47.826 0.00 0.00 39.31 3.91
3211 4425 1.432270 GACTTGCTATGACTGCGGGC 61.432 60.000 0.00 0.00 0.00 6.13
3270 4485 7.153217 ACTTTCCCCTTAACATTTATTCACG 57.847 36.000 0.00 0.00 0.00 4.35
3284 4499 4.799579 ACAATATCCCCTTACTTTCCCCTT 59.200 41.667 0.00 0.00 0.00 3.95
3287 4502 5.377478 CAGACAATATCCCCTTACTTTCCC 58.623 45.833 0.00 0.00 0.00 3.97
3354 4576 1.195448 GCAGTCATGCGCCATATGTAC 59.805 52.381 4.18 3.13 43.87 2.90
3385 4607 3.295973 ACAGGAACTAAGCCTTTGCAAA 58.704 40.909 12.14 12.14 36.94 3.68
3462 4718 5.499313 TGCAGATCATGAAATAGTGTTCCA 58.501 37.500 0.00 0.00 0.00 3.53


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

AutoCloner maintained by Alex Coulton.