Multiple sequence alignment - TraesCS5B01G247500

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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 TraesCS5B01G247500 chr5B 100.000 4708 0 0 1 4708 429422839 429418132 0.000000e+00 8695
1 TraesCS5B01G247500 chr5B 82.446 1202 200 6 2526 3723 441670574 441671768 0.000000e+00 1040
2 TraesCS5B01G247500 chr5B 80.833 1200 207 14 2500 3686 429094448 429093259 0.000000e+00 920
3 TraesCS5B01G247500 chr5B 76.240 766 134 30 972 1706 429095547 429094799 3.460000e-96 363
4 TraesCS5B01G247500 chr5D 94.831 2844 101 10 1898 4708 362969954 362967124 0.000000e+00 4396
5 TraesCS5B01G247500 chr5D 93.366 1628 70 25 300 1906 362973857 362972247 0.000000e+00 2374
6 TraesCS5B01G247500 chr5D 82.090 1206 200 11 2526 3723 371849746 371850943 0.000000e+00 1016
7 TraesCS5B01G247500 chr5D 80.631 1172 204 15 2528 3686 362886781 362885620 0.000000e+00 885
8 TraesCS5B01G247500 chr5D 81.527 904 156 7 2818 3718 371842330 371843225 0.000000e+00 734
9 TraesCS5B01G247500 chr5D 93.204 309 12 4 1 308 362974582 362974282 3.340000e-121 446
10 TraesCS5B01G247500 chr5A 94.411 1807 70 12 2199 3979 464207851 464206050 0.000000e+00 2748
11 TraesCS5B01G247500 chr5A 92.557 1236 70 12 954 2180 464209062 464207840 0.000000e+00 1753
12 TraesCS5B01G247500 chr5A 82.083 1200 201 11 2526 3718 475268237 475269429 0.000000e+00 1013
13 TraesCS5B01G247500 chr5A 81.988 1177 201 6 2524 3696 474928643 474929812 0.000000e+00 989
14 TraesCS5B01G247500 chr5A 86.957 667 36 8 3964 4603 464206035 464205393 0.000000e+00 702
15 TraesCS5B01G247500 chr5A 91.154 520 28 8 1 511 464210301 464209791 0.000000e+00 689
16 TraesCS5B01G247500 chr5A 91.473 129 8 3 622 749 464209618 464209492 1.740000e-39 174
17 TraesCS5B01G247500 chr6B 73.333 240 48 7 3766 3989 36355995 36355756 1.820000e-09 75


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 TraesCS5B01G247500 chr5B 429418132 429422839 4707 True 8695.000000 8695 100.000000 1 4708 1 chr5B.!!$R1 4707
1 TraesCS5B01G247500 chr5B 441670574 441671768 1194 False 1040.000000 1040 82.446000 2526 3723 1 chr5B.!!$F1 1197
2 TraesCS5B01G247500 chr5B 429093259 429095547 2288 True 641.500000 920 78.536500 972 3686 2 chr5B.!!$R2 2714
3 TraesCS5B01G247500 chr5D 362967124 362974582 7458 True 2405.333333 4396 93.800333 1 4708 3 chr5D.!!$R2 4707
4 TraesCS5B01G247500 chr5D 371849746 371850943 1197 False 1016.000000 1016 82.090000 2526 3723 1 chr5D.!!$F2 1197
5 TraesCS5B01G247500 chr5D 362885620 362886781 1161 True 885.000000 885 80.631000 2528 3686 1 chr5D.!!$R1 1158
6 TraesCS5B01G247500 chr5D 371842330 371843225 895 False 734.000000 734 81.527000 2818 3718 1 chr5D.!!$F1 900
7 TraesCS5B01G247500 chr5A 464205393 464210301 4908 True 1213.200000 2748 91.310400 1 4603 5 chr5A.!!$R1 4602
8 TraesCS5B01G247500 chr5A 475268237 475269429 1192 False 1013.000000 1013 82.083000 2526 3718 1 chr5A.!!$F2 1192
9 TraesCS5B01G247500 chr5A 474928643 474929812 1169 False 989.000000 989 81.988000 2524 3696 1 chr5A.!!$F1 1172

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
38 41 0.318360 ATTCACGCGTTGTCGTCTGA 60.318 50.000 10.22 0.0 41.21 3.27 F
40 43 0.518195 TCACGCGTTGTCGTCTGATA 59.482 50.000 10.22 0.0 41.21 2.15 F
43 46 0.523546 CGCGTTGTCGTCTGATAGCT 60.524 55.000 0.00 0.0 39.49 3.32 F
44 47 1.267882 CGCGTTGTCGTCTGATAGCTA 60.268 52.381 0.00 0.0 39.49 3.32 F
1566 2340 1.463674 AAAGCTAATCCTTGTGGCCG 58.536 50.000 0.00 0.0 0.00 6.13 F
1979 5071 0.802607 GACTGCCTCCTACGCTTTCG 60.803 60.000 0.00 0.0 42.43 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1263 2018 0.329261 TAGCTGCCTTGCAAGTCCAT 59.671 50.000 24.35 9.92 38.41 3.41 R
1309 2064 0.812811 CACGCACTATGGCTGCTGAT 60.813 55.000 0.00 0.00 32.03 2.90 R
1566 2340 2.139118 GCGTATTCTTGCAGATCCCTC 58.861 52.381 0.00 0.00 0.00 4.30 R
1979 5071 2.672961 TCACCATGGTCTTCGATGAC 57.327 50.000 16.53 20.17 32.72 3.06 R
2797 6051 0.893727 GACCGCCACCTCCAAATTGT 60.894 55.000 0.00 0.00 0.00 2.71 R
3772 7035 2.096819 GCCGCATCATCGTTTTCCTTAA 59.903 45.455 0.00 0.00 0.00 1.85 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
25 28 7.887711 CATAACAAAATGATGAACCATTCACG 58.112 34.615 0.00 0.00 43.48 4.35
26 29 4.236935 ACAAAATGATGAACCATTCACGC 58.763 39.130 0.00 0.00 43.48 5.34
38 41 0.318360 ATTCACGCGTTGTCGTCTGA 60.318 50.000 10.22 0.00 41.21 3.27
39 42 0.318360 TTCACGCGTTGTCGTCTGAT 60.318 50.000 10.22 0.00 41.21 2.90
40 43 0.518195 TCACGCGTTGTCGTCTGATA 59.482 50.000 10.22 0.00 41.21 2.15
41 44 0.907837 CACGCGTTGTCGTCTGATAG 59.092 55.000 10.22 0.00 41.21 2.08
42 45 0.797249 ACGCGTTGTCGTCTGATAGC 60.797 55.000 5.58 0.00 38.44 2.97
43 46 0.523546 CGCGTTGTCGTCTGATAGCT 60.524 55.000 0.00 0.00 39.49 3.32
44 47 1.267882 CGCGTTGTCGTCTGATAGCTA 60.268 52.381 0.00 0.00 39.49 3.32
271 274 4.467795 TCCAGCAAGTCTATCTATATGCCC 59.532 45.833 0.00 0.00 34.44 5.36
333 770 4.331968 TCATGTCCCAAACTGTTCCATAC 58.668 43.478 0.00 0.00 0.00 2.39
530 1003 3.374042 TTCCTCCCACACAAGTTGAAA 57.626 42.857 10.54 0.00 0.00 2.69
557 1038 3.681897 GCCACAACACAGTAGAGAAGATG 59.318 47.826 0.00 0.00 0.00 2.90
559 1040 5.566826 GCCACAACACAGTAGAGAAGATGTA 60.567 44.000 0.00 0.00 0.00 2.29
560 1041 6.634805 CCACAACACAGTAGAGAAGATGTAT 58.365 40.000 0.00 0.00 0.00 2.29
561 1042 7.630728 GCCACAACACAGTAGAGAAGATGTATA 60.631 40.741 0.00 0.00 0.00 1.47
562 1043 8.417106 CCACAACACAGTAGAGAAGATGTATAT 58.583 37.037 0.00 0.00 0.00 0.86
564 1045 9.809096 ACAACACAGTAGAGAAGATGTATATTG 57.191 33.333 0.00 0.00 0.00 1.90
565 1046 9.809096 CAACACAGTAGAGAAGATGTATATTGT 57.191 33.333 0.00 0.00 0.00 2.71
753 1312 6.426633 TGCATAGAGAAAAGTTGATTTGTCGA 59.573 34.615 0.00 0.00 37.57 4.20
754 1313 7.119699 TGCATAGAGAAAAGTTGATTTGTCGAT 59.880 33.333 0.00 0.00 37.57 3.59
755 1314 7.965107 GCATAGAGAAAAGTTGATTTGTCGATT 59.035 33.333 0.00 0.00 37.57 3.34
756 1315 9.270576 CATAGAGAAAAGTTGATTTGTCGATTG 57.729 33.333 0.00 0.00 37.57 2.67
757 1316 7.264373 AGAGAAAAGTTGATTTGTCGATTGT 57.736 32.000 0.00 0.00 37.57 2.71
758 1317 7.355778 AGAGAAAAGTTGATTTGTCGATTGTC 58.644 34.615 0.00 0.00 37.57 3.18
759 1318 7.012327 AGAGAAAAGTTGATTTGTCGATTGTCA 59.988 33.333 0.00 0.00 37.57 3.58
760 1319 7.651808 AGAAAAGTTGATTTGTCGATTGTCAT 58.348 30.769 0.00 0.00 0.00 3.06
761 1320 8.783093 AGAAAAGTTGATTTGTCGATTGTCATA 58.217 29.630 0.00 0.00 0.00 2.15
762 1321 8.955061 AAAAGTTGATTTGTCGATTGTCATAG 57.045 30.769 0.00 0.00 0.00 2.23
898 1458 4.625028 ACCGTTACTCTGGTTAAAGACAC 58.375 43.478 0.00 0.00 33.81 3.67
907 1467 4.165372 TCTGGTTAAAGACACCCCATATCC 59.835 45.833 0.00 0.00 32.71 2.59
932 1503 2.159393 CCCAACACACACACACAGAAAG 60.159 50.000 0.00 0.00 0.00 2.62
933 1504 2.159393 CCAACACACACACACAGAAAGG 60.159 50.000 0.00 0.00 0.00 3.11
934 1505 2.746904 CAACACACACACACAGAAAGGA 59.253 45.455 0.00 0.00 0.00 3.36
935 1506 2.356135 ACACACACACACAGAAAGGAC 58.644 47.619 0.00 0.00 0.00 3.85
936 1507 2.290008 ACACACACACACAGAAAGGACA 60.290 45.455 0.00 0.00 0.00 4.02
937 1508 2.945008 CACACACACACAGAAAGGACAT 59.055 45.455 0.00 0.00 0.00 3.06
938 1509 3.002656 CACACACACACAGAAAGGACATC 59.997 47.826 0.00 0.00 0.00 3.06
939 1510 3.118261 ACACACACACAGAAAGGACATCT 60.118 43.478 0.00 0.00 0.00 2.90
1114 1863 6.291060 GCTATTTCAACGAAAACACAACACTG 60.291 38.462 0.00 0.00 35.11 3.66
1132 1881 5.564550 ACACTGCTCAAATATGGAAAGACT 58.435 37.500 0.00 0.00 0.00 3.24
1151 1900 4.471386 AGACTACCCTTGCAACTACATGAT 59.529 41.667 0.00 0.00 0.00 2.45
1206 1961 4.202524 ACCAGCTATGTCAAACCCAAAGTA 60.203 41.667 0.00 0.00 0.00 2.24
1263 2018 2.417651 CGCGAACTGGGTAATAAGACCA 60.418 50.000 0.00 0.00 41.73 4.02
1309 2064 1.480545 ACATGAGTACCTATGCGTGCA 59.519 47.619 0.00 0.00 0.00 4.57
1348 2103 2.028130 GTGTTGATTCCACCACCAACA 58.972 47.619 0.00 0.00 44.28 3.33
1435 2190 3.483421 CAAGGTACCTTCCGTTTTCCTT 58.517 45.455 24.73 0.00 33.42 3.36
1478 2234 9.498176 CATTTTCACCATCTCATGTAGATCATA 57.502 33.333 0.00 0.00 43.42 2.15
1566 2340 1.463674 AAAGCTAATCCTTGTGGCCG 58.536 50.000 0.00 0.00 0.00 6.13
1979 5071 0.802607 GACTGCCTCCTACGCTTTCG 60.803 60.000 0.00 0.00 42.43 3.46
1998 5090 1.135112 CGTCATCGAAGACCATGGTGA 60.135 52.381 25.52 14.02 42.51 4.02
2045 5137 4.211502 GCGCCCCACCATCAATGC 62.212 66.667 0.00 0.00 0.00 3.56
2107 5199 5.314529 CCGGAGTAGTCAGGTATTGATAGA 58.685 45.833 8.48 0.00 38.29 1.98
2212 5304 3.763360 TGGAACAAGCAGTATTTGGATGG 59.237 43.478 0.00 0.00 31.92 3.51
2225 5317 1.357690 GGATGGCATGCATGTCACG 59.642 57.895 34.69 6.35 46.22 4.35
2282 5374 4.027621 CGATGTCGTCCAAAATTAGTCTCG 60.028 45.833 0.00 0.00 34.11 4.04
2283 5375 4.508461 TGTCGTCCAAAATTAGTCTCGA 57.492 40.909 0.00 0.00 0.00 4.04
2336 5428 6.655003 TGAAGGAGAAACTGATCCAACAATAC 59.345 38.462 0.00 0.00 38.12 1.89
2378 5470 8.485578 AACCAAATAAATAGTTTGAAGGACCA 57.514 30.769 0.00 0.00 38.51 4.02
2458 5678 1.411977 TGGGCCACTGTGTTTGATTTG 59.588 47.619 0.00 0.00 0.00 2.32
2565 5816 6.040729 TGTTGGACTTGTCATCATTGTGATTT 59.959 34.615 3.08 0.00 34.28 2.17
2970 6224 3.816523 GGTTTATGAGTTCGTCCCAAACA 59.183 43.478 0.00 0.00 32.91 2.83
3206 6460 4.454161 CCAACCGATGAGTCACAATTTGTA 59.546 41.667 0.86 0.00 0.00 2.41
3705 6968 1.000993 ACGAGTCTGGGATCTGGCT 59.999 57.895 0.00 0.00 0.00 4.75
3772 7035 1.683011 GGGTATCAATGCAGTGCCACT 60.683 52.381 13.72 0.00 0.00 4.00
3824 7087 8.997323 CAGTTAAGAATGTGAGAGAAGATTGTT 58.003 33.333 0.00 0.00 0.00 2.83
3841 7104 7.356089 AGATTGTTGCATCATATTGTGGAAT 57.644 32.000 0.00 0.00 0.00 3.01
3970 7239 6.147164 TGCAGTGTGAATACAGTAACTAAAGC 59.853 38.462 0.00 0.00 38.40 3.51
4023 7322 6.402550 GCAGTGTGAGTGACCTTATTGTAATG 60.403 42.308 0.00 0.00 0.00 1.90
4075 7374 6.539649 TCAGTTTCTCATAAACTTTGTCGG 57.460 37.500 0.51 0.00 38.32 4.79
4123 7422 6.942532 TGGAGACAGATGGTAAATATTTGC 57.057 37.500 11.05 9.30 35.01 3.68
4240 7539 9.107177 TGCAATATTATGCCAAATCGAAAATTT 57.893 25.926 0.00 0.00 45.83 1.82
4301 7625 0.456824 GCGTGATCTGCGTGAAGAGA 60.457 55.000 10.83 0.00 0.00 3.10
4312 7636 3.055891 TGCGTGAAGAGATGGAATGAGAA 60.056 43.478 0.00 0.00 0.00 2.87
4316 7640 3.196469 TGAAGAGATGGAATGAGAACGCT 59.804 43.478 0.00 0.00 0.00 5.07
4321 7647 0.035152 TGGAATGAGAACGCTGCCAT 60.035 50.000 0.00 0.00 0.00 4.40
4342 7668 2.358615 CTTGCCTACCTGCGCACA 60.359 61.111 5.66 0.00 33.97 4.57
4451 7777 1.303236 CCCATTGACCTTGTCGGCA 60.303 57.895 0.00 0.00 34.95 5.69
4477 7803 4.373116 GGAGACGGTGAGCGCCAA 62.373 66.667 2.29 0.00 0.00 4.52
4501 7827 1.226542 CAGCATGGTGGCATCCTCT 59.773 57.895 17.24 0.00 35.83 3.69
4589 7915 1.656652 CGCACATCCTCGATTTTCCT 58.343 50.000 0.00 0.00 0.00 3.36
4624 7950 1.952133 CGTGTTCCGCTTCGAACCA 60.952 57.895 0.00 0.00 41.24 3.67
4634 7960 3.194861 CGCTTCGAACCATTGGAGATAA 58.805 45.455 10.37 0.00 0.00 1.75
4635 7961 3.246226 CGCTTCGAACCATTGGAGATAAG 59.754 47.826 10.37 8.63 0.00 1.73
4663 7989 3.479269 GCACGGGAAGCGAAGACG 61.479 66.667 0.00 0.00 42.93 4.18
4664 7990 2.049433 CACGGGAAGCGAAGACGT 60.049 61.111 0.00 0.00 41.98 4.34
4665 7991 1.663702 CACGGGAAGCGAAGACGTT 60.664 57.895 0.00 0.00 41.98 3.99
4666 7992 1.068585 ACGGGAAGCGAAGACGTTT 59.931 52.632 0.00 0.00 44.69 3.60
4667 7993 0.531311 ACGGGAAGCGAAGACGTTTT 60.531 50.000 0.00 0.00 42.37 2.43
4668 7994 0.584876 CGGGAAGCGAAGACGTTTTT 59.415 50.000 0.00 0.00 42.37 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 28 2.470196 TAGCTATCAGACGACAACGC 57.530 50.000 0.00 0.00 43.96 4.84
26 29 5.749620 ACTATTAGCTATCAGACGACAACG 58.250 41.667 8.65 0.00 45.75 4.10
39 42 9.481340 CATGCTCACAAGATTAACTATTAGCTA 57.519 33.333 0.00 0.00 0.00 3.32
40 43 7.989741 ACATGCTCACAAGATTAACTATTAGCT 59.010 33.333 0.00 0.00 0.00 3.32
41 44 8.147642 ACATGCTCACAAGATTAACTATTAGC 57.852 34.615 0.00 0.00 0.00 3.09
83 86 3.584848 AGAAGAATGCACTGGTAGGAAGT 59.415 43.478 0.00 0.00 0.00 3.01
530 1003 3.149196 CTCTACTGTGTTGTGGCCAAAT 58.851 45.455 7.24 0.00 30.94 2.32
557 1038 6.009474 CAGCGCATGAATCGTTACAATATAC 58.991 40.000 11.47 0.00 0.00 1.47
559 1040 4.511454 ACAGCGCATGAATCGTTACAATAT 59.489 37.500 11.47 0.00 0.00 1.28
560 1041 3.868661 ACAGCGCATGAATCGTTACAATA 59.131 39.130 11.47 0.00 0.00 1.90
561 1042 2.677836 ACAGCGCATGAATCGTTACAAT 59.322 40.909 11.47 0.00 0.00 2.71
562 1043 2.073056 ACAGCGCATGAATCGTTACAA 58.927 42.857 11.47 0.00 0.00 2.41
564 1045 1.658596 TCACAGCGCATGAATCGTTAC 59.341 47.619 11.47 0.00 0.00 2.50
565 1046 1.926510 CTCACAGCGCATGAATCGTTA 59.073 47.619 11.47 0.00 0.00 3.18
566 1047 0.723414 CTCACAGCGCATGAATCGTT 59.277 50.000 11.47 0.00 0.00 3.85
567 1048 1.699656 GCTCACAGCGCATGAATCGT 61.700 55.000 11.47 0.00 0.00 3.73
568 1049 1.011463 GCTCACAGCGCATGAATCG 60.011 57.895 11.47 2.62 0.00 3.34
569 1050 0.661552 ATGCTCACAGCGCATGAATC 59.338 50.000 11.47 8.23 46.26 2.52
639 1156 2.349886 CCTAGAACTCACGCATTTCTGC 59.650 50.000 0.00 0.00 45.31 4.26
716 1233 7.653713 ACTTTTCTCTATGCACCATATCGTTAG 59.346 37.037 0.00 0.00 0.00 2.34
725 1242 6.265196 ACAAATCAACTTTTCTCTATGCACCA 59.735 34.615 0.00 0.00 0.00 4.17
877 1437 3.992427 GGTGTCTTTAACCAGAGTAACGG 59.008 47.826 0.00 0.00 37.65 4.44
914 1474 2.747446 GTCCTTTCTGTGTGTGTGTGTT 59.253 45.455 0.00 0.00 0.00 3.32
915 1475 2.290008 TGTCCTTTCTGTGTGTGTGTGT 60.290 45.455 0.00 0.00 0.00 3.72
919 1490 3.134623 TGAGATGTCCTTTCTGTGTGTGT 59.865 43.478 0.00 0.00 0.00 3.72
963 1711 3.572577 TTACGTACTGCACACAAAACG 57.427 42.857 0.00 0.00 38.98 3.60
1072 1820 9.772973 TTGAAATAGCCACGATAATACTGTATT 57.227 29.630 16.51 16.51 0.00 1.89
1114 1863 5.685728 AGGGTAGTCTTTCCATATTTGAGC 58.314 41.667 0.00 0.00 0.00 4.26
1132 1881 5.423931 TCACTATCATGTAGTTGCAAGGGTA 59.576 40.000 0.00 0.00 0.00 3.69
1151 1900 3.439857 AAGCTGCCTTTTCCATCACTA 57.560 42.857 0.00 0.00 0.00 2.74
1206 1961 6.385443 TCCCTCCTTGTATGTCTCATAGAAT 58.615 40.000 1.05 0.00 0.00 2.40
1263 2018 0.329261 TAGCTGCCTTGCAAGTCCAT 59.671 50.000 24.35 9.92 38.41 3.41
1309 2064 0.812811 CACGCACTATGGCTGCTGAT 60.813 55.000 0.00 0.00 32.03 2.90
1348 2103 3.511146 CACTTGCAATGGTAACCTGGATT 59.489 43.478 0.00 0.00 0.00 3.01
1435 2190 7.159372 GTGAAAATGTAAGTGAGGTAGAAGGA 58.841 38.462 0.00 0.00 0.00 3.36
1566 2340 2.139118 GCGTATTCTTGCAGATCCCTC 58.861 52.381 0.00 0.00 0.00 4.30
1979 5071 2.672961 TCACCATGGTCTTCGATGAC 57.327 50.000 16.53 20.17 32.72 3.06
2107 5199 3.529341 TTGGCTGATGCACCGTCGT 62.529 57.895 0.00 0.00 41.91 4.34
2196 5288 2.101917 GCATGCCATCCAAATACTGCTT 59.898 45.455 6.36 0.00 0.00 3.91
2225 5317 0.869880 GACGGTTGTTTTGCCAGTGC 60.870 55.000 0.00 0.00 38.26 4.40
2336 5428 9.825109 TTATTTGGTTCACTTTCCCTTTTAAAG 57.175 29.630 0.00 0.00 39.38 1.85
2797 6051 0.893727 GACCGCCACCTCCAAATTGT 60.894 55.000 0.00 0.00 0.00 2.71
2802 6056 2.111999 CTCTTGACCGCCACCTCCAA 62.112 60.000 0.00 0.00 0.00 3.53
2970 6224 2.699846 GGATGAGATGGAAGAGAGTGCT 59.300 50.000 0.00 0.00 0.00 4.40
3206 6460 2.557317 CACGTCCCTTGTACAAGTGTT 58.443 47.619 29.05 9.95 36.72 3.32
3705 6968 6.262496 CAGGTCTAAGGTACGATTACTCATCA 59.738 42.308 0.00 0.00 0.00 3.07
3772 7035 2.096819 GCCGCATCATCGTTTTCCTTAA 59.903 45.455 0.00 0.00 0.00 1.85
3800 7063 7.748241 GCAACAATCTTCTCTCACATTCTTAAC 59.252 37.037 0.00 0.00 0.00 2.01
4054 7353 5.176958 CGACCGACAAAGTTTATGAGAAACT 59.823 40.000 0.00 0.00 41.82 2.66
4225 7524 5.347364 TCGGATTTCAAATTTTCGATTTGGC 59.653 36.000 9.46 0.00 38.97 4.52
4228 7527 6.375377 TCGTCGGATTTCAAATTTTCGATTT 58.625 32.000 7.20 0.00 0.00 2.17
4240 7539 1.327690 CCTCCCCTCGTCGGATTTCA 61.328 60.000 0.00 0.00 33.16 2.69
4301 7625 0.035152 TGGCAGCGTTCTCATTCCAT 60.035 50.000 0.00 0.00 0.00 3.41
4312 7636 2.629656 GGCAAGAACATGGCAGCGT 61.630 57.895 0.00 0.00 44.66 5.07
4321 7647 1.671054 GCGCAGGTAGGCAAGAACA 60.671 57.895 0.30 0.00 0.00 3.18
4342 7668 5.163513 GGAAATTTGAGATGATTTGCGTGT 58.836 37.500 0.00 0.00 0.00 4.49
4353 7679 3.355378 TGACGCCATGGAAATTTGAGAT 58.645 40.909 18.40 0.00 0.00 2.75
4434 7760 0.734889 GATGCCGACAAGGTCAATGG 59.265 55.000 0.00 0.00 43.70 3.16
4438 7764 0.389817 CTTCGATGCCGACAAGGTCA 60.390 55.000 0.00 0.00 45.50 4.02
4451 7777 2.754658 ACCGTCTCCCGCTTCGAT 60.755 61.111 0.00 0.00 34.38 3.59
4477 7803 4.437587 GCCACCATGCTGGGCTCT 62.438 66.667 9.14 0.00 43.37 4.09
4501 7827 0.892358 ACACGGACGAGCACCTCTAA 60.892 55.000 0.00 0.00 0.00 2.10
4620 7946 3.134804 CCCGTCTCTTATCTCCAATGGTT 59.865 47.826 0.00 0.00 0.00 3.67
4624 7950 2.103263 GTGCCCGTCTCTTATCTCCAAT 59.897 50.000 0.00 0.00 0.00 3.16
4675 8001 5.160607 ACATACGTCTTCTCCATTTCCAA 57.839 39.130 0.00 0.00 0.00 3.53
4676 8002 4.819105 ACATACGTCTTCTCCATTTCCA 57.181 40.909 0.00 0.00 0.00 3.53
4677 8003 4.571176 GGAACATACGTCTTCTCCATTTCC 59.429 45.833 0.00 0.00 0.00 3.13
4679 8005 5.160607 TGGAACATACGTCTTCTCCATTT 57.839 39.130 0.00 0.00 0.00 2.32
4680 8006 4.819105 TGGAACATACGTCTTCTCCATT 57.181 40.909 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.