Multiple sequence alignment - TraesCS2B01G454100

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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 TraesCS2B01G454100 chr2B 100.000 3761 0 0 1 3761 648480121 648483881 0.000000e+00 6946.0
1 TraesCS2B01G454100 chr2B 98.333 60 1 0 672 731 648480733 648480792 5.140000e-19 106.0
2 TraesCS2B01G454100 chr2B 98.333 60 1 0 613 672 648480792 648480851 5.140000e-19 106.0
3 TraesCS2B01G454100 chr2D 92.477 3084 151 45 1 3045 543317127 543320168 0.000000e+00 4335.0
4 TraesCS2B01G454100 chr2D 96.667 60 2 0 672 731 543317743 543317802 2.390000e-17 100.0
5 TraesCS2B01G454100 chr2D 97.872 47 1 0 613 659 543317802 543317848 8.660000e-12 82.4
6 TraesCS2B01G454100 chr2A 93.895 1769 67 17 2019 3761 686171704 686173457 0.000000e+00 2630.0
7 TraesCS2B01G454100 chr2A 90.793 1412 59 27 613 1985 686170211 686171590 0.000000e+00 1821.0
8 TraesCS2B01G454100 chr2A 90.701 742 38 17 6 731 686169426 686170152 0.000000e+00 959.0
9 TraesCS2B01G454100 chr2A 98.319 119 2 0 613 731 686170093 686170211 3.810000e-50 209.0
10 TraesCS2B01G454100 chr2A 97.436 117 3 0 613 729 686170152 686170268 2.290000e-47 200.0
11 TraesCS2B01G454100 chr2A 97.872 47 1 0 613 659 686170270 686170316 8.660000e-12 82.4
12 TraesCS2B01G454100 chr2A 93.333 45 3 0 3001 3045 686172741 686172785 2.420000e-07 67.6


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 TraesCS2B01G454100 chr2B 648480121 648483881 3760 False 2386.000000 6946 98.888667 1 3761 3 chr2B.!!$F1 3760
1 TraesCS2B01G454100 chr2D 543317127 543320168 3041 False 1505.800000 4335 95.672000 1 3045 3 chr2D.!!$F1 3044
2 TraesCS2B01G454100 chr2A 686169426 686173457 4031 False 852.714286 2630 94.621286 6 3761 7 chr2A.!!$F1 3755

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
906 1112 0.037882 ATCGCTGGTGTGTCAGTCAG 60.038 55.0 0.0 0.0 37.12 3.51 F
1395 1627 0.031449 GTCTGCCTCCATCGTCTAGC 59.969 60.0 0.0 0.0 0.00 3.42 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2658 2997 0.52218 CGTTGAGCGAGTGGTAGTCT 59.478 55.0 0.00 0.0 44.77 3.24 R
3361 3724 0.61326 GTGGAGACAGCATGGTGGTA 59.387 55.0 27.32 7.2 44.46 3.25 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
39 40 3.062763 AGATTGTCACAAGCTTCTCACG 58.937 45.455 1.36 0.00 0.00 4.35
173 177 8.930760 ACTTTCAGAAATCAATCTTCTTCTACG 58.069 33.333 0.00 0.00 30.58 3.51
257 268 7.258441 AGTTTTGGAACTTCTGCTAGAAAAAC 58.742 34.615 0.00 0.00 43.48 2.43
303 316 6.340522 AGCATGGTATTAACTTTTCATTGGC 58.659 36.000 0.00 0.00 0.00 4.52
320 333 0.810426 GGCTAGCTTGGTCCGTTAGC 60.810 60.000 15.72 4.65 39.52 3.09
323 336 1.204941 CTAGCTTGGTCCGTTAGCTGT 59.795 52.381 18.32 1.87 44.47 4.40
341 354 3.487544 GCTGTGTTTCAACGCTCTCTTTT 60.488 43.478 4.93 0.00 40.01 2.27
359 372 0.392706 TTGGCGATCGATGTAGGCAT 59.607 50.000 21.57 0.00 38.91 4.40
406 419 6.198216 CGTCATTTGTTCATTCCGTTTTCTTT 59.802 34.615 0.00 0.00 0.00 2.52
573 589 2.697147 ATCACCACCACTGTGCCACC 62.697 60.000 1.29 0.00 41.35 4.61
720 912 8.589335 TTTCCTCTATATTTGCGATGACTAAC 57.411 34.615 0.00 0.00 0.00 2.34
721 913 7.526142 TCCTCTATATTTGCGATGACTAACT 57.474 36.000 0.00 0.00 0.00 2.24
722 914 8.631480 TCCTCTATATTTGCGATGACTAACTA 57.369 34.615 0.00 0.00 0.00 2.24
877 1071 1.944024 TCAACGTACACCTTTGGCTTG 59.056 47.619 0.00 0.00 0.00 4.01
903 1109 1.618837 ACTAATCGCTGGTGTGTCAGT 59.381 47.619 0.00 0.00 37.12 3.41
904 1110 2.263077 CTAATCGCTGGTGTGTCAGTC 58.737 52.381 0.00 0.00 37.12 3.51
905 1111 0.392706 AATCGCTGGTGTGTCAGTCA 59.607 50.000 0.00 0.00 37.12 3.41
906 1112 0.037882 ATCGCTGGTGTGTCAGTCAG 60.038 55.000 0.00 0.00 37.12 3.51
907 1113 1.106944 TCGCTGGTGTGTCAGTCAGA 61.107 55.000 0.00 0.00 37.12 3.27
908 1114 0.249447 CGCTGGTGTGTCAGTCAGAA 60.249 55.000 0.00 0.00 37.12 3.02
909 1115 1.506493 GCTGGTGTGTCAGTCAGAAG 58.494 55.000 0.00 0.00 37.12 2.85
910 1116 1.506493 CTGGTGTGTCAGTCAGAAGC 58.494 55.000 0.00 0.00 0.00 3.86
911 1117 0.829990 TGGTGTGTCAGTCAGAAGCA 59.170 50.000 0.00 0.00 0.00 3.91
916 1122 2.028658 TGTGTCAGTCAGAAGCATCCTC 60.029 50.000 0.00 0.00 0.00 3.71
944 1150 4.095632 TGATATGTTACCAACGGCACAATG 59.904 41.667 0.00 0.00 0.00 2.82
967 1173 9.988350 AATGTCTTTGCAGTTTAAATAGATACG 57.012 29.630 0.00 0.00 0.00 3.06
1038 1244 1.105759 GGAGATCAAGGCATGGGCAC 61.106 60.000 0.00 0.00 43.71 5.01
1092 1310 2.360475 GGAGGAGGGTTGCAGCAC 60.360 66.667 2.05 0.00 0.00 4.40
1249 1467 6.799925 GGTATGTTATTTTTCTTGTGTCACGG 59.200 38.462 0.00 0.00 0.00 4.94
1287 1519 2.486592 TCGTCGACAGTTCTGCTAATCA 59.513 45.455 17.16 0.00 0.00 2.57
1347 1579 5.491982 ACTTGATGCGAAGAAAAGGAGTAT 58.508 37.500 0.00 0.00 0.00 2.12
1348 1580 5.582665 ACTTGATGCGAAGAAAAGGAGTATC 59.417 40.000 0.00 0.00 0.00 2.24
1349 1581 4.112634 TGATGCGAAGAAAAGGAGTATCG 58.887 43.478 0.00 0.00 34.37 2.92
1351 1583 4.386867 TGCGAAGAAAAGGAGTATCGAT 57.613 40.909 2.16 2.16 34.37 3.59
1378 1610 7.187480 GGTTGTTAGACTTTTTCTTGTCAGTC 58.813 38.462 0.00 0.00 35.55 3.51
1395 1627 0.031449 GTCTGCCTCCATCGTCTAGC 59.969 60.000 0.00 0.00 0.00 3.42
1439 1693 2.416893 GCCTCCATCGTTTTGTCTCTTC 59.583 50.000 0.00 0.00 0.00 2.87
1482 1736 3.694535 ACTAGCAAGAACGTATCTCGG 57.305 47.619 0.00 0.00 44.69 4.63
1503 1757 4.981794 GGAACGGTGGTATCATTTTTCTG 58.018 43.478 0.00 0.00 0.00 3.02
1545 1800 2.431954 AGTGCAAGATAAGCATGGCT 57.568 45.000 0.00 0.00 44.79 4.75
1568 1823 7.829211 GGCTGATTATTAATACATGAGGCCTAA 59.171 37.037 4.42 0.00 0.00 2.69
1615 1870 3.819188 GCTCCAGCACTGCCATAC 58.181 61.111 0.00 0.00 41.59 2.39
1762 2018 1.517257 CGATCGTCACAGGCTCACC 60.517 63.158 7.03 0.00 0.00 4.02
1775 2031 0.247736 GCTCACCTCCTGACACGATT 59.752 55.000 0.00 0.00 0.00 3.34
1778 2034 1.967779 TCACCTCCTGACACGATTTGA 59.032 47.619 0.00 0.00 0.00 2.69
1781 2037 4.221924 TCACCTCCTGACACGATTTGATTA 59.778 41.667 0.00 0.00 0.00 1.75
1924 2180 1.079127 CCTCAACGTCTCCGGCAAT 60.079 57.895 0.00 0.00 38.78 3.56
1954 2210 2.267642 CTTCCCGCCACCATCGAA 59.732 61.111 0.00 0.00 0.00 3.71
1996 2252 0.171007 ACCCGCAAATCGCAATTCTG 59.829 50.000 0.00 0.00 42.60 3.02
2001 2257 2.159667 CGCAAATCGCAATTCTGACTCA 60.160 45.455 0.00 0.00 42.60 3.41
2015 2286 2.164624 CTGACTCACTGCACTAGGGTAC 59.835 54.545 0.00 0.00 0.00 3.34
2030 2369 3.105283 AGGGTACGAAACTAGGAATGCT 58.895 45.455 0.00 0.00 0.00 3.79
2118 2457 3.842923 CTGACGAGGCTGCCGGAT 61.843 66.667 13.96 1.73 0.00 4.18
2121 2460 2.758327 ACGAGGCTGCCGGATACA 60.758 61.111 13.96 0.00 0.00 2.29
2199 2538 2.581354 CTGCCCTTCTCCACCTCG 59.419 66.667 0.00 0.00 0.00 4.63
2208 2547 1.184970 TCTCCACCTCGCACATGACA 61.185 55.000 0.00 0.00 0.00 3.58
2247 2586 2.434884 CGCCTCAACTGCATCCGT 60.435 61.111 0.00 0.00 0.00 4.69
2439 2778 1.678101 GCCAAGCTCAACAAGTTCAGT 59.322 47.619 0.00 0.00 0.00 3.41
2466 2805 4.660938 AACCCGCTTGTCTGCCCC 62.661 66.667 0.00 0.00 0.00 5.80
2658 2997 0.820226 CTGAGGGCTTCTCGATGTCA 59.180 55.000 0.00 0.00 45.32 3.58
2661 3000 0.820871 AGGGCTTCTCGATGTCAGAC 59.179 55.000 0.00 0.00 0.00 3.51
2891 3234 6.963796 ACCGTAGTGCATATAGTAGTACAAC 58.036 40.000 2.52 0.00 38.29 3.32
2926 3269 7.591006 TGTACATAGAAACTAAAAAGAGCGG 57.409 36.000 0.00 0.00 0.00 5.52
2933 3276 6.732154 AGAAACTAAAAAGAGCGGTTTTACC 58.268 36.000 0.00 0.00 34.05 2.85
2951 3294 8.635328 GGTTTTACCTTCCTTCTGTATTTTTGA 58.365 33.333 0.00 0.00 34.73 2.69
2981 3332 3.542712 ACAGATGCTTTTGTAAGTGCG 57.457 42.857 0.00 0.00 33.74 5.34
3048 3399 7.360113 ACATAAAGTTTGAGGTTTGGAATGT 57.640 32.000 0.00 0.00 0.00 2.71
3120 3473 4.941263 AGCTCACTTTTGTCAACACAAGTA 59.059 37.500 12.84 3.91 42.86 2.24
3122 3475 6.765989 AGCTCACTTTTGTCAACACAAGTATA 59.234 34.615 12.84 5.65 42.86 1.47
3165 3526 6.489127 TGAAAACACAGTCCAATATTACCG 57.511 37.500 0.00 0.00 0.00 4.02
3199 3562 9.903682 ACTCAACAGAAATGACATTTTCTATTG 57.096 29.630 14.46 15.93 45.19 1.90
3208 3571 9.613428 AAATGACATTTTCTATTGACGATCCTA 57.387 29.630 7.62 0.00 0.00 2.94
3219 3582 8.084684 TCTATTGACGATCCTAGAATGATTGTG 58.915 37.037 5.39 0.00 37.05 3.33
3249 3612 9.231297 AGTGCAATTTAAGCTTGATAAGAACTA 57.769 29.630 9.86 0.00 0.00 2.24
3293 3656 5.778862 AGTGCGCAATTTACTTACCAAAAT 58.221 33.333 14.00 0.00 0.00 1.82
3334 3697 4.094442 CCCTTCGTTATTACCTTTGAGCAC 59.906 45.833 0.00 0.00 0.00 4.40
3336 3699 5.411669 CCTTCGTTATTACCTTTGAGCACTT 59.588 40.000 0.00 0.00 0.00 3.16
3337 3700 6.402226 CCTTCGTTATTACCTTTGAGCACTTC 60.402 42.308 0.00 0.00 0.00 3.01
3359 3722 3.192422 CACACTCAAGACAGTAGAGGAGG 59.808 52.174 0.00 0.00 33.76 4.30
3361 3724 3.829601 CACTCAAGACAGTAGAGGAGGTT 59.170 47.826 0.00 0.00 33.76 3.50
3365 3728 4.087182 CAAGACAGTAGAGGAGGTTACCA 58.913 47.826 3.51 0.00 0.00 3.25
3379 3742 1.003118 GTTACCACCATGCTGTCTCCA 59.997 52.381 0.00 0.00 0.00 3.86
3418 3781 6.790285 AAAAGAACATGCTGGCTAAAAATG 57.210 33.333 0.00 0.00 0.00 2.32
3458 3821 6.153067 AGACTGAAGACGTAAATTCTGACTG 58.847 40.000 16.30 4.05 31.86 3.51
3483 3846 7.399191 TGATCACTATATCCAACCCAGTATACC 59.601 40.741 0.00 0.00 0.00 2.73
3492 3855 2.487775 ACCCAGTATACCCATTGCTGA 58.512 47.619 0.00 0.00 0.00 4.26
3541 3905 3.181476 GCAGTGGATCCAACACAAAACTT 60.181 43.478 18.20 0.00 41.21 2.66
3573 3937 8.744568 TCACTATTATTTGTCATGCCAATACA 57.255 30.769 0.00 0.00 0.00 2.29
3576 3940 9.189156 ACTATTATTTGTCATGCCAATACAAGT 57.811 29.630 0.00 0.00 34.80 3.16
3693 4057 5.278169 GCAAAGCTACTAATGTCATCCCATG 60.278 44.000 0.00 0.00 0.00 3.66
3709 4073 0.883833 CATGACAACCAAGACCAGCC 59.116 55.000 0.00 0.00 0.00 4.85
3746 4110 4.234530 ACTCTTCAGTCATTTGCAAAGC 57.765 40.909 18.19 10.12 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 1.336517 TGAGGCAGTACGTAACACAGC 60.337 52.381 0.00 0.00 0.00 4.40
173 177 7.064016 TGTCAACAAATTAACCAAGTGAAAAGC 59.936 33.333 0.00 0.00 0.00 3.51
257 268 4.272489 TCCTTGATTCCTTTGTATGCTGG 58.728 43.478 0.00 0.00 0.00 4.85
303 316 1.204941 ACAGCTAACGGACCAAGCTAG 59.795 52.381 11.53 9.29 44.58 3.42
320 333 3.951979 AAAGAGAGCGTTGAAACACAG 57.048 42.857 0.00 0.00 0.00 3.66
323 336 2.223479 GCCAAAAGAGAGCGTTGAAACA 60.223 45.455 0.00 0.00 0.00 2.83
341 354 0.319813 CATGCCTACATCGATCGCCA 60.320 55.000 11.09 0.00 32.87 5.69
382 395 7.463469 AAAGAAAACGGAATGAACAAATGAC 57.537 32.000 0.00 0.00 0.00 3.06
406 419 3.312973 ACACGGTCAATTACGCAAAGAAA 59.687 39.130 0.00 0.00 0.00 2.52
573 589 3.127099 TGGGAGATACGTAGCCCAG 57.873 57.895 22.65 0.00 45.31 4.45
718 910 0.895530 TGCTGCCGCTAAGTCTAGTT 59.104 50.000 0.70 0.00 36.97 2.24
719 911 0.457851 CTGCTGCCGCTAAGTCTAGT 59.542 55.000 0.70 0.00 36.97 2.57
720 912 0.457851 ACTGCTGCCGCTAAGTCTAG 59.542 55.000 0.70 0.00 36.97 2.43
721 913 1.676529 CTACTGCTGCCGCTAAGTCTA 59.323 52.381 0.70 0.00 36.97 2.59
722 914 0.457851 CTACTGCTGCCGCTAAGTCT 59.542 55.000 0.70 0.00 36.97 3.24
738 930 2.161410 TGCAATCACAAATGCCGACTAC 59.839 45.455 0.00 0.00 41.87 2.73
877 1071 6.213677 TGACACACCAGCGATTAGTATAATC 58.786 40.000 0.00 0.35 0.00 1.75
903 1109 2.659428 TCAGATCGAGGATGCTTCTGA 58.341 47.619 11.76 11.76 40.22 3.27
904 1110 3.663995 ATCAGATCGAGGATGCTTCTG 57.336 47.619 7.83 7.83 36.09 3.02
905 1111 4.771577 ACATATCAGATCGAGGATGCTTCT 59.228 41.667 7.14 0.00 0.00 2.85
906 1112 5.070770 ACATATCAGATCGAGGATGCTTC 57.929 43.478 7.14 0.00 0.00 3.86
907 1113 5.480642 AACATATCAGATCGAGGATGCTT 57.519 39.130 7.14 0.00 0.00 3.91
908 1114 5.105554 GGTAACATATCAGATCGAGGATGCT 60.106 44.000 7.14 0.00 0.00 3.79
909 1115 5.105752 GGTAACATATCAGATCGAGGATGC 58.894 45.833 7.14 0.00 0.00 3.91
910 1116 6.272822 TGGTAACATATCAGATCGAGGATG 57.727 41.667 7.14 8.37 46.17 3.51
944 1150 7.839837 CGACGTATCTATTTAAACTGCAAAGAC 59.160 37.037 0.00 0.00 0.00 3.01
967 1173 1.226323 CCACGTCTGGTCGATCGAC 60.226 63.158 34.70 34.70 43.87 4.20
1092 1310 1.039785 TCTCCTGGTCATGCTCTCCG 61.040 60.000 0.00 0.00 0.00 4.63
1347 1579 5.535333 AGAAAAAGTCTAACAACCGATCGA 58.465 37.500 18.66 0.00 33.56 3.59
1348 1580 5.840940 AGAAAAAGTCTAACAACCGATCG 57.159 39.130 8.51 8.51 33.56 3.69
1349 1581 6.956047 ACAAGAAAAAGTCTAACAACCGATC 58.044 36.000 0.00 0.00 34.56 3.69
1351 1583 5.875910 TGACAAGAAAAAGTCTAACAACCGA 59.124 36.000 0.00 0.00 34.56 4.69
1378 1610 0.678395 ATGCTAGACGATGGAGGCAG 59.322 55.000 0.00 0.00 33.23 4.85
1395 1627 6.138761 GCAAACTGACAAGAACAAGTCTATG 58.861 40.000 0.00 0.00 34.56 2.23
1404 1636 2.297701 TGGAGGCAAACTGACAAGAAC 58.702 47.619 0.00 0.00 0.00 3.01
1439 1693 6.149474 AGTTATCCATTCAAAACAGACGGAAG 59.851 38.462 0.00 0.00 0.00 3.46
1482 1736 5.622770 ACAGAAAAATGATACCACCGTTC 57.377 39.130 0.00 0.00 0.00 3.95
1515 1770 6.538742 TGCTTATCTTGCACTTAACCTATCAC 59.461 38.462 0.00 0.00 35.31 3.06
1521 1776 4.734695 GCCATGCTTATCTTGCACTTAACC 60.735 45.833 0.00 0.00 43.59 2.85
1568 1823 3.764434 AGTCGTCCAGTTGAGTACATGAT 59.236 43.478 0.00 0.00 0.00 2.45
1572 1827 3.748083 AGTAGTCGTCCAGTTGAGTACA 58.252 45.455 9.21 0.00 41.41 2.90
1615 1870 3.219176 AGATTGCCATGGGTGATACTG 57.781 47.619 15.13 0.00 0.00 2.74
1828 2084 3.161450 ACGTCCAGCACCACCACT 61.161 61.111 0.00 0.00 0.00 4.00
1924 2180 1.613630 GGGAAGGGACTGGAGCAGA 60.614 63.158 0.00 0.00 40.86 4.26
1954 2210 2.106683 GCGTGCTTACCGGCATTCT 61.107 57.895 0.00 0.00 44.34 2.40
1996 2252 1.132643 CGTACCCTAGTGCAGTGAGTC 59.867 57.143 3.69 0.00 0.00 3.36
2001 2257 2.245582 AGTTTCGTACCCTAGTGCAGT 58.754 47.619 0.00 0.00 0.00 4.40
2015 2286 5.613358 AGTCAAAAGCATTCCTAGTTTCG 57.387 39.130 0.00 0.00 0.00 3.46
2030 2369 4.255301 ACGTCACACAGGTTAAGTCAAAA 58.745 39.130 0.00 0.00 0.00 2.44
2118 2457 1.605058 GGAGCTCGAAGCCCAGTGTA 61.605 60.000 7.83 0.00 43.77 2.90
2121 2460 2.604686 TGGAGCTCGAAGCCCAGT 60.605 61.111 7.83 0.00 43.77 4.00
2184 2523 3.706373 TGCGAGGTGGAGAAGGGC 61.706 66.667 0.00 0.00 0.00 5.19
2199 2538 4.806481 CGCAGCGCTGTCATGTGC 62.806 66.667 35.80 21.03 43.09 4.57
2265 2604 0.596577 CGAGGTTGACGAGGTTCTCA 59.403 55.000 0.00 0.00 0.00 3.27
2466 2805 1.138859 TGCTCAACGATGTCCATAGGG 59.861 52.381 0.00 0.00 0.00 3.53
2481 2820 2.047844 GCGTCAAGGCTCTGCTCA 60.048 61.111 0.00 0.00 0.00 4.26
2658 2997 0.522180 CGTTGAGCGAGTGGTAGTCT 59.478 55.000 0.00 0.00 44.77 3.24
2661 3000 1.805945 GCCGTTGAGCGAGTGGTAG 60.806 63.158 0.00 0.00 44.77 3.18
2772 3111 7.707104 ACTTGAAAGATCAAACCACTTACAAG 58.293 34.615 0.00 0.00 44.64 3.16
2790 3129 9.690913 AGGATCATTTCATCTGAATACTTGAAA 57.309 29.630 6.00 6.00 40.99 2.69
2812 3151 1.912043 AGAAACAGCAGCACCTAGGAT 59.088 47.619 17.98 0.00 0.00 3.24
2869 3212 7.076362 CCTGTTGTACTACTATATGCACTACG 58.924 42.308 8.88 0.00 0.00 3.51
2876 3219 7.441836 TCAATGCCCTGTTGTACTACTATATG 58.558 38.462 8.88 0.53 0.00 1.78
2877 3220 7.612065 TCAATGCCCTGTTGTACTACTATAT 57.388 36.000 8.88 0.00 0.00 0.86
2891 3234 5.824624 AGTTTCTATGTACATCAATGCCCTG 59.175 40.000 12.68 0.00 0.00 4.45
2933 3276 8.936864 ACGAGTAATCAAAAATACAGAAGGAAG 58.063 33.333 0.00 0.00 0.00 3.46
2951 3294 8.542497 TTACAAAAGCATCTGTAACGAGTAAT 57.458 30.769 0.00 0.00 34.02 1.89
2981 3332 9.366216 GGATTACAATTTTACTCAAAATCCACC 57.634 33.333 0.00 0.00 42.29 4.61
3151 3512 4.755266 AAGTGAGCGGTAATATTGGACT 57.245 40.909 0.00 0.00 0.00 3.85
3164 3525 4.686091 TCATTTCTGTTGAGTAAGTGAGCG 59.314 41.667 0.00 0.00 0.00 5.03
3165 3526 5.466728 TGTCATTTCTGTTGAGTAAGTGAGC 59.533 40.000 0.00 0.00 0.00 4.26
3197 3560 6.220726 TCACAATCATTCTAGGATCGTCAA 57.779 37.500 0.00 0.00 0.00 3.18
3199 3562 6.450545 TGATCACAATCATTCTAGGATCGTC 58.549 40.000 0.00 0.00 36.98 4.20
3208 3571 6.525578 AATTGCACTGATCACAATCATTCT 57.474 33.333 9.69 0.00 41.05 2.40
3219 3582 8.400947 TCTTATCAAGCTTAAATTGCACTGATC 58.599 33.333 0.00 0.00 36.92 2.92
3249 3612 7.329471 CGCACTCATATACTATATGCACAAAGT 59.671 37.037 10.24 6.43 0.00 2.66
3293 3656 2.846206 AGGGAAGACATCAATGCAGGTA 59.154 45.455 0.00 0.00 0.00 3.08
3334 3697 4.520874 TCCTCTACTGTCTTGAGTGTGAAG 59.479 45.833 0.00 0.00 0.00 3.02
3336 3699 4.075682 CTCCTCTACTGTCTTGAGTGTGA 58.924 47.826 0.00 0.00 0.00 3.58
3337 3700 3.192422 CCTCCTCTACTGTCTTGAGTGTG 59.808 52.174 0.00 0.00 0.00 3.82
3359 3722 1.003118 TGGAGACAGCATGGTGGTAAC 59.997 52.381 27.32 15.42 43.62 2.50
3361 3724 0.613260 GTGGAGACAGCATGGTGGTA 59.387 55.000 27.32 7.20 44.46 3.25
3389 3752 8.723942 TTTAGCCAGCATGTTCTTTTTAAAAA 57.276 26.923 12.62 12.62 0.00 1.94
3390 3753 8.723942 TTTTAGCCAGCATGTTCTTTTTAAAA 57.276 26.923 0.00 0.00 0.00 1.52
3391 3754 8.723942 TTTTTAGCCAGCATGTTCTTTTTAAA 57.276 26.923 0.00 0.00 0.00 1.52
3392 3755 8.772705 CATTTTTAGCCAGCATGTTCTTTTTAA 58.227 29.630 0.00 0.00 0.00 1.52
3393 3756 7.930865 ACATTTTTAGCCAGCATGTTCTTTTTA 59.069 29.630 0.00 0.00 0.00 1.52
3399 3762 4.622740 GTGACATTTTTAGCCAGCATGTTC 59.377 41.667 0.00 0.00 0.00 3.18
3418 3781 4.825422 TCAGTCTTTGATGATCTGGTGAC 58.175 43.478 0.00 0.00 0.00 3.67
3458 3821 7.147707 GGGTATACTGGGTTGGATATAGTGATC 60.148 44.444 2.25 0.00 0.00 2.92
3483 3846 5.716094 TGATTGATTCTGTTTCAGCAATGG 58.284 37.500 0.00 0.00 27.71 3.16
3492 3855 4.154195 GCACCGTACTGATTGATTCTGTTT 59.846 41.667 0.00 0.00 37.63 2.83
3541 3905 8.935844 GGCATGACAAATAATAGTGAATCGATA 58.064 33.333 0.00 0.00 0.00 2.92
3573 3937 8.793592 GTTCCTGTTTAAGAAATGGATGTACTT 58.206 33.333 0.00 0.00 0.00 2.24
3576 3940 8.698973 TTGTTCCTGTTTAAGAAATGGATGTA 57.301 30.769 0.00 0.00 0.00 2.29
3693 4057 1.172812 GGTGGCTGGTCTTGGTTGTC 61.173 60.000 0.00 0.00 0.00 3.18
3709 4073 7.255660 GACTGAAGAGTAATACCTATCCAGGTG 60.256 44.444 6.59 0.00 43.64 4.00


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

AutoCloner maintained by Alex Coulton.