Multiple sequence alignment - TraesCS1A01G316200

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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 TraesCS1A01G316200 chr1A 100.000 1847 0 0 1 1847 508213411 508215257 0.000000e+00 3411
1 TraesCS1A01G316200 chr1A 84.542 1889 195 43 1 1847 508314810 508316643 0.000000e+00 1781
2 TraesCS1A01G316200 chr1A 84.408 1892 194 45 1 1847 508282686 508284521 0.000000e+00 1766
3 TraesCS1A01G316200 chr1A 84.729 1696 156 48 1 1668 508160524 508162144 0.000000e+00 1602
4 TraesCS1A01G316200 chr1A 83.816 1174 118 24 1 1136 508182324 508183463 0.000000e+00 1050
5 TraesCS1A01G316200 chr1A 81.107 831 100 19 1 800 508277183 508277987 1.660000e-171 612
6 TraesCS1A01G316200 chr1A 81.107 831 100 19 1 800 508304212 508305016 1.660000e-171 612
7 TraesCS1A01G316200 chr1A 81.107 831 100 19 1 800 508336107 508336911 1.660000e-171 612
8 TraesCS1A01G316200 chr1A 100.000 229 0 0 2302 2530 508215712 508215940 8.370000e-115 424
9 TraesCS1A01G316200 chr1A 87.892 223 26 1 2302 2524 508206496 508206717 6.940000e-66 261
10 TraesCS1A01G316200 chr1D 87.480 1885 169 25 1 1847 411743541 411745396 0.000000e+00 2111
11 TraesCS1A01G316200 chr1D 85.327 1881 188 38 1 1847 411700400 411702226 0.000000e+00 1864
12 TraesCS1A01G316200 chr1D 88.727 1437 133 15 421 1847 411694489 411695906 0.000000e+00 1729
13 TraesCS1A01G316200 chr1D 84.870 423 37 11 1 396 411692405 411692827 3.920000e-108 401
14 TraesCS1A01G316200 chr1B 86.649 1880 155 32 1 1845 555017081 555018899 0.000000e+00 1993
15 TraesCS1A01G316200 chr1B 86.436 1880 159 26 1 1845 555075705 555077523 0.000000e+00 1971
16 TraesCS1A01G316200 chr1B 86.376 1879 161 28 1 1845 555065009 555066826 0.000000e+00 1964
17 TraesCS1A01G316200 chr1B 86.337 1881 160 28 1 1847 555059651 555061468 0.000000e+00 1960
18 TraesCS1A01G316200 chr1B 85.798 1880 160 28 1 1845 555070362 555072169 0.000000e+00 1893
19 TraesCS1A01G316200 chr1B 85.879 1650 140 27 1 1616 555006424 555008014 0.000000e+00 1670
20 TraesCS1A01G316200 chr1B 92.661 218 15 1 2307 2524 555033144 555033360 1.890000e-81 313
21 TraesCS1A01G316200 chr1B 92.056 214 16 1 2306 2519 555061526 555061738 1.470000e-77 300
22 TraesCS1A01G316200 chr1B 91.589 214 17 1 2306 2519 555013603 555013815 6.840000e-76 294
23 TraesCS1A01G316200 chr1B 91.589 214 17 1 2306 2519 555066885 555067097 6.840000e-76 294
24 TraesCS1A01G316200 chr1B 91.589 214 17 1 2306 2519 555072228 555072440 6.840000e-76 294
25 TraesCS1A01G316200 chr1B 90.826 218 19 1 2307 2524 555091562 555091778 8.850000e-75 291
26 TraesCS1A01G316200 chr1B 91.121 214 18 1 2306 2519 555018958 555019170 3.180000e-74 289
27 TraesCS1A01G316200 chr1B 91.121 214 18 1 2306 2519 555077582 555077794 3.180000e-74 289
28 TraesCS1A01G316200 chrUn 83.333 432 36 18 1 396 473005533 473005102 1.430000e-97 366


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 TraesCS1A01G316200 chr1A 508213411 508215940 2529 False 1917.500000 3411 100.000000 1 2530 2 chr1A.!!$F9 2529
1 TraesCS1A01G316200 chr1A 508314810 508316643 1833 False 1781.000000 1781 84.542000 1 1847 1 chr1A.!!$F7 1846
2 TraesCS1A01G316200 chr1A 508282686 508284521 1835 False 1766.000000 1766 84.408000 1 1847 1 chr1A.!!$F5 1846
3 TraesCS1A01G316200 chr1A 508160524 508162144 1620 False 1602.000000 1602 84.729000 1 1668 1 chr1A.!!$F1 1667
4 TraesCS1A01G316200 chr1A 508182324 508183463 1139 False 1050.000000 1050 83.816000 1 1136 1 chr1A.!!$F2 1135
5 TraesCS1A01G316200 chr1A 508277183 508277987 804 False 612.000000 612 81.107000 1 800 1 chr1A.!!$F4 799
6 TraesCS1A01G316200 chr1A 508304212 508305016 804 False 612.000000 612 81.107000 1 800 1 chr1A.!!$F6 799
7 TraesCS1A01G316200 chr1A 508336107 508336911 804 False 612.000000 612 81.107000 1 800 1 chr1A.!!$F8 799
8 TraesCS1A01G316200 chr1D 411743541 411745396 1855 False 2111.000000 2111 87.480000 1 1847 1 chr1D.!!$F2 1846
9 TraesCS1A01G316200 chr1D 411700400 411702226 1826 False 1864.000000 1864 85.327000 1 1847 1 chr1D.!!$F1 1846
10 TraesCS1A01G316200 chr1D 411692405 411695906 3501 False 1065.000000 1729 86.798500 1 1847 2 chr1D.!!$F3 1846
11 TraesCS1A01G316200 chr1B 555006424 555008014 1590 False 1670.000000 1670 85.879000 1 1616 1 chr1B.!!$F1 1615
12 TraesCS1A01G316200 chr1B 555059651 555077794 18143 False 1120.625000 1971 88.912750 1 2519 8 chr1B.!!$F5 2518
13 TraesCS1A01G316200 chr1B 555013603 555019170 5567 False 858.666667 1993 89.786333 1 2519 3 chr1B.!!$F4 2518

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
358 3880 0.108992 GTCGACCAACGCCTATGACA 60.109 55.0 3.51 0.0 42.26 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1741 23011 0.322456 TGACAACTAGTGCATGGCCC 60.322 55.0 0.0 0.0 0.0 5.8 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
82 3564 1.003580 TCTTCCTCTTGCATGGTGGTC 59.996 52.381 0.00 0.00 0.00 4.02
94 3576 0.181587 TGGTGGTCGGTTTCATGTGT 59.818 50.000 0.00 0.00 0.00 3.72
102 3584 4.036380 GGTCGGTTTCATGTGTTTCTTCTT 59.964 41.667 0.00 0.00 0.00 2.52
104 3586 4.878971 TCGGTTTCATGTGTTTCTTCTTGA 59.121 37.500 0.00 0.00 0.00 3.02
112 3594 5.023533 TGTGTTTCTTCTTGACTGCTAGT 57.976 39.130 0.00 0.00 0.00 2.57
117 3599 4.848562 TCTTCTTGACTGCTAGTTCGAA 57.151 40.909 0.00 0.00 0.00 3.71
180 3662 8.976471 GGCTAGTATTACCGATTTTCTTTAGAC 58.024 37.037 0.00 0.00 0.00 2.59
190 3673 6.708054 CCGATTTTCTTTAGACCAGCTATGAT 59.292 38.462 0.00 0.00 0.00 2.45
197 3680 6.609212 TCTTTAGACCAGCTATGATGTTCTCT 59.391 38.462 0.00 0.00 0.00 3.10
198 3681 4.669206 AGACCAGCTATGATGTTCTCTG 57.331 45.455 0.00 0.00 0.00 3.35
204 3687 4.575236 CAGCTATGATGTTCTCTGCAATGT 59.425 41.667 0.00 0.00 0.00 2.71
219 3713 2.351726 GCAATGTCTTGTATCGGGTCAC 59.648 50.000 0.00 0.00 34.69 3.67
234 3728 2.095415 GGGTCACTTTGTATCGGTTTGC 60.095 50.000 0.00 0.00 0.00 3.68
253 3764 1.735700 GCTTGTTTATGCCCGAAAGCC 60.736 52.381 0.00 0.00 35.19 4.35
259 3771 1.917872 TATGCCCGAAAGCCTGTTTT 58.082 45.000 0.00 0.00 0.00 2.43
297 3815 3.446442 AATCAACTGTCCTTGATGGCT 57.554 42.857 0.00 0.00 39.51 4.75
306 3824 5.648092 ACTGTCCTTGATGGCTTATTACAAC 59.352 40.000 0.00 0.00 35.26 3.32
355 3877 0.172578 TCAGTCGACCAACGCCTATG 59.827 55.000 13.01 0.20 42.26 2.23
358 3880 0.108992 GTCGACCAACGCCTATGACA 60.109 55.000 3.51 0.00 42.26 3.58
395 5579 4.952460 TGTTATCCCGCCTTCTATACAAC 58.048 43.478 0.00 0.00 0.00 3.32
405 5589 5.753438 CGCCTTCTATACAACAAAGCTATGA 59.247 40.000 0.00 0.00 0.00 2.15
409 5593 9.988815 CCTTCTATACAACAAAGCTATGATACT 57.011 33.333 0.00 0.00 0.00 2.12
445 5629 7.435068 AAAGCTATGGTACTTAACTTGTGTG 57.565 36.000 0.00 0.00 0.00 3.82
460 5644 4.943705 ACTTGTGTGCTCTTGAGAAAAGAA 59.056 37.500 1.30 0.00 0.00 2.52
524 5713 7.295201 TCTTAATAAATCAATTATCGTGCGGC 58.705 34.615 0.00 0.00 32.96 6.53
541 5732 2.633657 CAGGAATATGCACGCGCC 59.366 61.111 5.73 0.00 37.32 6.53
550 5741 3.925238 GCACGCGCCCACGAATAG 61.925 66.667 5.73 0.00 43.93 1.73
617 5810 4.166011 GCTTGTGCACCGGATCGC 62.166 66.667 15.69 8.58 39.41 4.58
646 5839 4.966787 GGGTTTGCCGCCAGACCA 62.967 66.667 8.44 0.00 45.56 4.02
712 5908 7.550551 AGATTATCATTGTATAATGGGTGAGCG 59.449 37.037 11.75 0.00 43.11 5.03
764 5967 9.712305 AAATTCATCTGGGAGTACTAATATTCG 57.288 33.333 0.00 0.00 0.00 3.34
771 5974 5.303333 TGGGAGTACTAATATTCGTGCATCA 59.697 40.000 10.14 3.62 0.00 3.07
794 5997 1.413077 GACCTACCATACCTCACCTGC 59.587 57.143 0.00 0.00 0.00 4.85
822 6025 3.306364 GCGCTTACACCTGATGATCCTAT 60.306 47.826 0.00 0.00 0.00 2.57
829 6032 6.760440 ACACCTGATGATCCTATCTTGAAT 57.240 37.500 0.00 0.00 0.00 2.57
856 6059 5.647589 TCCATCGCCTATATATTTCGACAC 58.352 41.667 0.00 0.00 31.74 3.67
887 6090 5.547465 TCAACGATCTTACAACACATTCCT 58.453 37.500 0.00 0.00 0.00 3.36
906 6109 1.808945 CTTCGTGCAGCCAATTCTCTT 59.191 47.619 0.00 0.00 0.00 2.85
1010 6215 3.753272 CGACATTTAATCATGGGGGCTAG 59.247 47.826 0.00 0.00 0.00 3.42
1022 6227 1.979308 GGGGGCTAGAGTTCTTATCCC 59.021 57.143 0.00 0.00 0.00 3.85
1137 11702 1.026718 CCATGTGGGCTTCGAGAACC 61.027 60.000 0.00 0.00 0.00 3.62
1142 11709 1.375326 GGGCTTCGAGAACCAGGTT 59.625 57.895 3.79 3.79 0.00 3.50
1143 11710 0.673956 GGGCTTCGAGAACCAGGTTC 60.674 60.000 23.26 23.26 42.25 3.62
1192 11759 0.813184 CTCCACCACCATGCACAATC 59.187 55.000 0.00 0.00 0.00 2.67
1210 11777 2.398754 TCTGGTGGAGGTGAGAAAGA 57.601 50.000 0.00 0.00 0.00 2.52
1223 11791 0.109873 AGAAAGACTGGTACGACGCG 60.110 55.000 3.53 3.53 0.00 6.01
1246 11814 1.056700 AATAGCTCCAGCCCCATCGT 61.057 55.000 0.00 0.00 43.38 3.73
1256 11824 1.952102 GCCCCATCGTGACGTTCCTA 61.952 60.000 4.40 0.00 0.00 2.94
1307 11875 1.184431 TTGGGACGCGGTACTTCATA 58.816 50.000 12.47 0.00 0.00 2.15
1316 11884 1.522676 CGGTACTTCATATGCAGCGTG 59.477 52.381 1.95 0.00 0.00 5.34
1375 11943 0.880278 GTGAAGTCGAAGGCAGTGCA 60.880 55.000 18.61 0.00 0.00 4.57
1512 12080 2.650116 ATTGTCGCGGCTGGTCTCT 61.650 57.895 13.81 0.00 0.00 3.10
1514 12082 1.529152 TTGTCGCGGCTGGTCTCTTA 61.529 55.000 13.81 0.00 0.00 2.10
1526 12094 6.316390 CGGCTGGTCTCTTATTGTTCTTTTAT 59.684 38.462 0.00 0.00 0.00 1.40
1722 22992 1.005037 CAGTGCTAGGTGCCGTTCA 60.005 57.895 0.00 0.00 42.00 3.18
1756 23026 1.000896 GGTGGGCCATGCACTAGTT 60.001 57.895 10.70 0.00 30.56 2.24
1788 23058 1.227943 TGCATAGGCCGGCTGATTC 60.228 57.895 28.56 14.56 40.13 2.52
2320 23590 2.285368 CCCAGGTCCCTAGCACCA 60.285 66.667 10.81 0.00 36.23 4.17
2351 23621 3.072944 GGAGAGATGCAGTATCAATGGC 58.927 50.000 0.91 0.00 38.31 4.40
2354 23624 4.387598 AGAGATGCAGTATCAATGGCTTC 58.612 43.478 0.91 0.00 38.31 3.86
2367 23637 3.407657 GCTTCTGCCGCTCTGATG 58.592 61.111 0.00 0.00 0.00 3.07
2378 23648 1.146637 GCTCTGATGCTCGCAATAGG 58.853 55.000 0.00 0.00 0.00 2.57
2383 23653 0.864455 GATGCTCGCAATAGGCACTC 59.136 55.000 0.00 0.00 45.17 3.51
2396 23666 0.320421 GGCACTCGCACTAGTTCCAA 60.320 55.000 0.00 0.00 41.24 3.53
2398 23668 1.872237 GCACTCGCACTAGTTCCAACA 60.872 52.381 0.00 0.00 38.36 3.33
2425 23695 5.652994 ACTCTCTCTCGTTCTAGCATTTT 57.347 39.130 0.00 0.00 0.00 1.82
2459 23729 4.845580 CATCTCGCCGGCAAGCCT 62.846 66.667 28.98 5.22 0.00 4.58
2511 23781 2.107204 AGTCTCTGGTTCCAGCAAATGT 59.893 45.455 13.44 0.00 34.33 2.71
2521 23791 2.956987 GCAAATGTGCGAGCCAGT 59.043 55.556 0.00 0.00 41.93 4.00
2522 23792 1.286880 GCAAATGTGCGAGCCAGTT 59.713 52.632 0.00 0.00 41.93 3.16
2523 23793 0.730494 GCAAATGTGCGAGCCAGTTC 60.730 55.000 0.00 0.00 41.93 3.01
2524 23794 0.877071 CAAATGTGCGAGCCAGTTCT 59.123 50.000 0.00 0.00 0.00 3.01
2525 23795 2.076100 CAAATGTGCGAGCCAGTTCTA 58.924 47.619 0.00 0.00 0.00 2.10
2526 23796 2.015736 AATGTGCGAGCCAGTTCTAG 57.984 50.000 0.00 0.00 0.00 2.43
2527 23797 0.176680 ATGTGCGAGCCAGTTCTAGG 59.823 55.000 0.00 0.00 0.00 3.02
2528 23798 0.898326 TGTGCGAGCCAGTTCTAGGA 60.898 55.000 0.00 0.00 0.00 2.94
2529 23799 0.246635 GTGCGAGCCAGTTCTAGGAA 59.753 55.000 0.00 0.00 0.00 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
56 3536 1.004044 CATGCAAGAGGAAGACCACCT 59.996 52.381 0.00 0.00 40.80 4.00
70 3551 0.466372 TGAAACCGACCACCATGCAA 60.466 50.000 0.00 0.00 0.00 4.08
82 3564 4.970003 GTCAAGAAGAAACACATGAAACCG 59.030 41.667 0.00 0.00 0.00 4.44
94 3576 5.196341 TCGAACTAGCAGTCAAGAAGAAA 57.804 39.130 0.00 0.00 0.00 2.52
102 3584 0.596577 ACGCTTCGAACTAGCAGTCA 59.403 50.000 8.23 0.00 38.55 3.41
104 3586 2.150397 AAACGCTTCGAACTAGCAGT 57.850 45.000 8.23 4.32 38.55 4.40
112 3594 0.863144 GTGCACCTAAACGCTTCGAA 59.137 50.000 5.22 0.00 0.00 3.71
117 3599 2.413837 CACTAAGTGCACCTAAACGCT 58.586 47.619 14.63 0.00 0.00 5.07
140 3622 6.663944 AATACTAGCCAAGAACGCTAAAAG 57.336 37.500 0.00 0.00 38.32 2.27
180 3662 3.189618 TGCAGAGAACATCATAGCTGG 57.810 47.619 0.00 0.00 0.00 4.85
190 3673 4.627035 CGATACAAGACATTGCAGAGAACA 59.373 41.667 0.00 0.00 40.27 3.18
197 3680 2.027653 TGACCCGATACAAGACATTGCA 60.028 45.455 0.00 0.00 40.27 4.08
198 3681 2.351726 GTGACCCGATACAAGACATTGC 59.648 50.000 0.00 0.00 40.27 3.56
204 3687 5.657474 GATACAAAGTGACCCGATACAAGA 58.343 41.667 0.00 0.00 0.00 3.02
219 3713 6.183359 GCATAAACAAGCAAACCGATACAAAG 60.183 38.462 0.00 0.00 0.00 2.77
234 3728 1.818674 AGGCTTTCGGGCATAAACAAG 59.181 47.619 0.00 0.00 43.56 3.16
253 3764 4.444388 TCACGAATCGTTCTCTCAAAACAG 59.556 41.667 5.20 0.00 38.32 3.16
259 3771 4.805219 TGATTTCACGAATCGTTCTCTCA 58.195 39.130 5.20 4.73 45.85 3.27
297 3815 1.398739 CCATGCACGCCGTTGTAATAA 59.601 47.619 0.00 0.00 0.00 1.40
355 3877 3.618690 ACAGATACAAGAAGGGCTGTC 57.381 47.619 0.00 0.00 31.54 3.51
358 3880 4.103311 GGGATAACAGATACAAGAAGGGCT 59.897 45.833 0.00 0.00 0.00 5.19
418 5602 9.734984 ACACAAGTTAAGTACCATAGCTTTAAT 57.265 29.630 0.00 0.00 0.00 1.40
419 5603 8.995220 CACACAAGTTAAGTACCATAGCTTTAA 58.005 33.333 0.00 0.00 0.00 1.52
420 5604 7.118680 GCACACAAGTTAAGTACCATAGCTTTA 59.881 37.037 0.00 0.00 0.00 1.85
421 5605 6.072673 GCACACAAGTTAAGTACCATAGCTTT 60.073 38.462 0.00 0.00 0.00 3.51
422 5606 5.411669 GCACACAAGTTAAGTACCATAGCTT 59.588 40.000 0.00 0.00 0.00 3.74
423 5607 4.935808 GCACACAAGTTAAGTACCATAGCT 59.064 41.667 0.00 0.00 0.00 3.32
424 5608 4.935808 AGCACACAAGTTAAGTACCATAGC 59.064 41.667 0.00 0.00 0.00 2.97
425 5609 6.398918 AGAGCACACAAGTTAAGTACCATAG 58.601 40.000 0.00 0.00 0.00 2.23
426 5610 6.354794 AGAGCACACAAGTTAAGTACCATA 57.645 37.500 0.00 0.00 0.00 2.74
427 5611 5.228945 AGAGCACACAAGTTAAGTACCAT 57.771 39.130 0.00 0.00 0.00 3.55
428 5612 4.682778 AGAGCACACAAGTTAAGTACCA 57.317 40.909 0.00 0.00 0.00 3.25
429 5613 5.054477 TCAAGAGCACACAAGTTAAGTACC 58.946 41.667 0.00 0.00 0.00 3.34
430 5614 5.983720 TCTCAAGAGCACACAAGTTAAGTAC 59.016 40.000 0.00 0.00 0.00 2.73
431 5615 6.156748 TCTCAAGAGCACACAAGTTAAGTA 57.843 37.500 0.00 0.00 0.00 2.24
432 5616 5.023533 TCTCAAGAGCACACAAGTTAAGT 57.976 39.130 0.00 0.00 0.00 2.24
433 5617 5.991328 TTCTCAAGAGCACACAAGTTAAG 57.009 39.130 0.00 0.00 0.00 1.85
434 5618 6.597672 TCTTTTCTCAAGAGCACACAAGTTAA 59.402 34.615 0.00 0.00 0.00 2.01
435 5619 6.112734 TCTTTTCTCAAGAGCACACAAGTTA 58.887 36.000 0.00 0.00 0.00 2.24
436 5620 4.943705 TCTTTTCTCAAGAGCACACAAGTT 59.056 37.500 0.00 0.00 0.00 2.66
437 5621 4.517285 TCTTTTCTCAAGAGCACACAAGT 58.483 39.130 0.00 0.00 0.00 3.16
438 5622 5.295292 TCTTCTTTTCTCAAGAGCACACAAG 59.705 40.000 0.00 0.00 0.00 3.16
439 5623 5.185454 TCTTCTTTTCTCAAGAGCACACAA 58.815 37.500 0.00 0.00 0.00 3.33
440 5624 4.769688 TCTTCTTTTCTCAAGAGCACACA 58.230 39.130 0.00 0.00 0.00 3.72
445 5629 6.713792 ACGTAATCTTCTTTTCTCAAGAGC 57.286 37.500 0.00 0.00 32.16 4.09
524 5713 2.633657 GGCGCGTGCATATTCCTG 59.366 61.111 24.18 0.00 45.35 3.86
541 5732 7.441157 TGATTAAAGTTATGAGCCTATTCGTGG 59.559 37.037 0.00 0.00 0.00 4.94
550 5741 9.294030 CACAATCTTTGATTAAAGTTATGAGCC 57.706 33.333 9.55 0.00 43.04 4.70
580 5773 9.497030 CACAAGCGTGCTAAACATTAATTATTA 57.503 29.630 0.00 0.00 36.06 0.98
603 5796 2.494445 CTAGCGATCCGGTGCACA 59.506 61.111 20.43 0.00 38.30 4.57
617 5810 1.028868 GCAAACCCTCAGGCTGCTAG 61.029 60.000 10.34 2.57 40.56 3.42
646 5839 2.687700 TCGTAGCCGAGAGTAGACTT 57.312 50.000 0.00 0.00 38.40 3.01
696 5892 2.169561 TGCTTCGCTCACCCATTATACA 59.830 45.455 0.00 0.00 0.00 2.29
704 5900 2.117156 ATGCATGCTTCGCTCACCC 61.117 57.895 20.33 0.00 0.00 4.61
764 5967 4.528596 AGGTATGGTAGGTCTATGATGCAC 59.471 45.833 0.00 0.00 0.00 4.57
771 5974 4.742012 CAGGTGAGGTATGGTAGGTCTAT 58.258 47.826 0.00 0.00 0.00 1.98
794 5997 0.666274 TCAGGTGTAAGCGCGTTGAG 60.666 55.000 8.43 0.00 40.95 3.02
822 6025 3.565764 AGGCGATGGATTGATTCAAGA 57.434 42.857 5.21 0.00 0.00 3.02
829 6032 6.978659 GTCGAAATATATAGGCGATGGATTGA 59.021 38.462 7.46 0.00 33.30 2.57
856 6059 3.261580 TGTAAGATCGTTGATGCCACTG 58.738 45.455 0.00 0.00 0.00 3.66
887 6090 1.896220 AAGAGAATTGGCTGCACGAA 58.104 45.000 0.50 0.00 0.00 3.85
906 6109 2.978156 AGGATCCAAGGAAGTTGCAA 57.022 45.000 15.82 0.00 34.45 4.08
1010 6215 2.361438 ACGGTGATCGGGATAAGAACTC 59.639 50.000 0.00 0.00 44.45 3.01
1137 11702 1.153369 ATCGCCGATGGTGAACCTG 60.153 57.895 0.00 0.00 45.75 4.00
1142 11709 2.106938 GCTCATCGCCGATGGTGA 59.893 61.111 25.40 7.95 46.70 4.02
1143 11710 2.107750 AGCTCATCGCCGATGGTG 59.892 61.111 25.40 18.84 40.15 4.17
1161 11728 3.322828 TGGTGGTGGAGTACTGAAACTAC 59.677 47.826 0.00 3.70 0.00 2.73
1162 11729 3.578978 TGGTGGTGGAGTACTGAAACTA 58.421 45.455 0.00 0.00 0.00 2.24
1192 11759 1.974236 AGTCTTTCTCACCTCCACCAG 59.026 52.381 0.00 0.00 0.00 4.00
1210 11777 2.758770 ATTGCACGCGTCGTACCAGT 62.759 55.000 9.86 0.00 38.32 4.00
1223 11791 1.825622 GGGGCTGGAGCTATTGCAC 60.826 63.158 1.12 2.88 42.74 4.57
1246 11814 0.600782 GTTGCCGGTTAGGAACGTCA 60.601 55.000 1.90 0.00 45.00 4.35
1316 11884 4.580551 GCGATGCAATGCCCTGGC 62.581 66.667 1.53 0.00 42.35 4.85
1375 11943 1.006571 CGGCACCGTTGTACTGTCT 60.007 57.895 0.00 0.00 34.35 3.41
1457 12025 1.831106 ACCACCGCAGACTGATCAATA 59.169 47.619 6.65 0.00 0.00 1.90
1512 12080 7.655236 TCGTCGGTCAATAAAAGAACAATAA 57.345 32.000 0.00 0.00 0.00 1.40
1514 12082 6.737254 ATCGTCGGTCAATAAAAGAACAAT 57.263 33.333 0.00 0.00 0.00 2.71
1526 12094 1.225376 GCACCACAATCGTCGGTCAA 61.225 55.000 0.00 0.00 0.00 3.18
1635 22903 9.860898 GGTTTTGCAAGAAGATATGTTAAATCT 57.139 29.630 0.00 0.00 35.17 2.40
1685 22955 5.739935 GCACTGCCCTTTATTTATTCCATGG 60.740 44.000 4.97 4.97 0.00 3.66
1741 23011 0.322456 TGACAACTAGTGCATGGCCC 60.322 55.000 0.00 0.00 0.00 5.80
1747 23017 2.837532 TGCATCTGACAACTAGTGCA 57.162 45.000 0.00 0.00 39.94 4.57
2301 23571 4.162690 GTGCTAGGGACCTGGGCG 62.163 72.222 0.00 0.00 0.00 6.13
2302 23572 3.798511 GGTGCTAGGGACCTGGGC 61.799 72.222 0.00 6.20 0.00 5.36
2303 23573 2.285368 TGGTGCTAGGGACCTGGG 60.285 66.667 9.43 0.00 34.26 4.45
2304 23574 2.990479 GTGGTGCTAGGGACCTGG 59.010 66.667 9.43 0.00 34.26 4.45
2329 23599 3.324117 CCATTGATACTGCATCTCTCCG 58.676 50.000 0.00 0.00 34.46 4.63
2336 23606 2.621998 GCAGAAGCCATTGATACTGCAT 59.378 45.455 0.00 0.00 46.30 3.96
2351 23621 1.152989 GAGCATCAGAGCGGCAGAAG 61.153 60.000 1.45 0.00 40.15 2.85
2354 23624 2.960659 CGAGCATCAGAGCGGCAG 60.961 66.667 1.45 0.00 40.15 4.85
2367 23637 2.875786 GCGAGTGCCTATTGCGAGC 61.876 63.158 0.00 0.00 45.60 5.03
2378 23648 0.790814 GTTGGAACTAGTGCGAGTGC 59.209 55.000 0.00 0.00 43.20 4.40
2412 23682 2.684881 AGGGCATGAAAATGCTAGAACG 59.315 45.455 10.27 0.00 46.22 3.95
2417 23687 2.496871 CAACCAGGGCATGAAAATGCTA 59.503 45.455 0.00 0.00 46.22 3.49
2425 23695 2.308570 AGATGTTACAACCAGGGCATGA 59.691 45.455 0.00 0.00 0.00 3.07
2431 23701 1.369625 GGCGAGATGTTACAACCAGG 58.630 55.000 0.00 0.00 0.00 4.45
2436 23706 0.320858 TTGCCGGCGAGATGTTACAA 60.321 50.000 23.90 2.74 0.00 2.41
2459 23729 2.434658 AATCAGCGACGGTGAGCACA 62.435 55.000 30.45 11.41 43.30 4.57
2511 23781 2.666085 TTCCTAGAACTGGCTCGCA 58.334 52.632 0.00 0.00 0.00 5.10


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

AutoCloner maintained by Alex Coulton.