Multiple sequence alignment - TraesCS1A01G385800

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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 TraesCS1A01G385800 chr1A 100.000 3215 0 0 1 3215 555486132 555482918 0.000000e+00 5938.0
1 TraesCS1A01G385800 chr1A 87.490 1311 134 15 1128 2431 555523120 555521833 0.000000e+00 1485.0
2 TraesCS1A01G385800 chr1A 85.386 1478 144 42 805 2249 555533226 555534664 0.000000e+00 1467.0
3 TraesCS1A01G385800 chr1A 92.549 255 14 4 2477 2731 555534867 555535116 8.480000e-96 361.0
4 TraesCS1A01G385800 chr1D 94.334 2171 81 16 1058 3215 463283218 463281077 0.000000e+00 3290.0
5 TraesCS1A01G385800 chr1D 86.390 1543 147 36 805 2314 463341072 463342584 0.000000e+00 1628.0
6 TraesCS1A01G385800 chr1D 87.291 1314 143 11 1128 2431 463326415 463325116 0.000000e+00 1480.0
7 TraesCS1A01G385800 chr1D 95.879 461 15 4 4 463 463288616 463288159 0.000000e+00 743.0
8 TraesCS1A01G385800 chr1D 92.952 454 12 7 608 1044 463283652 463283202 0.000000e+00 643.0
9 TraesCS1A01G385800 chr1D 91.440 257 16 4 2477 2731 463342747 463342999 6.600000e-92 348.0
10 TraesCS1A01G385800 chr1D 92.683 82 4 2 434 513 463283983 463283902 2.030000e-22 117.0
11 TraesCS1A01G385800 chr1B 92.220 2095 93 35 712 2799 638784200 638782169 0.000000e+00 2902.0
12 TraesCS1A01G385800 chr1B 85.161 1988 190 57 805 2731 638881758 638883701 0.000000e+00 1940.0
13 TraesCS1A01G385800 chr1B 87.853 1309 130 14 1134 2431 638821894 638820604 0.000000e+00 1509.0
14 TraesCS1A01G385800 chr1B 89.093 706 38 17 19 720 638785369 638784699 0.000000e+00 841.0
15 TraesCS1A01G385800 chr1B 94.712 416 17 3 2804 3215 638781998 638781584 2.700000e-180 641.0
16 TraesCS1A01G385800 chr1B 76.566 431 53 24 33 443 638828536 638828938 3.270000e-45 193.0
17 TraesCS1A01G385800 chr3D 77.310 974 183 32 1139 2090 371870636 371869679 1.010000e-149 540.0
18 TraesCS1A01G385800 chr3D 89.706 68 7 0 1251 1318 5809156 5809089 1.590000e-13 87.9


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 TraesCS1A01G385800 chr1A 555482918 555486132 3214 True 5938.000000 5938 100.000000 1 3215 1 chr1A.!!$R1 3214
1 TraesCS1A01G385800 chr1A 555521833 555523120 1287 True 1485.000000 1485 87.490000 1128 2431 1 chr1A.!!$R2 1303
2 TraesCS1A01G385800 chr1A 555533226 555535116 1890 False 914.000000 1467 88.967500 805 2731 2 chr1A.!!$F1 1926
3 TraesCS1A01G385800 chr1D 463325116 463326415 1299 True 1480.000000 1480 87.291000 1128 2431 1 chr1D.!!$R2 1303
4 TraesCS1A01G385800 chr1D 463281077 463283983 2906 True 1350.000000 3290 93.323000 434 3215 3 chr1D.!!$R3 2781
5 TraesCS1A01G385800 chr1D 463341072 463342999 1927 False 988.000000 1628 88.915000 805 2731 2 chr1D.!!$F1 1926
6 TraesCS1A01G385800 chr1B 638881758 638883701 1943 False 1940.000000 1940 85.161000 805 2731 1 chr1B.!!$F2 1926
7 TraesCS1A01G385800 chr1B 638820604 638821894 1290 True 1509.000000 1509 87.853000 1134 2431 1 chr1B.!!$R1 1297
8 TraesCS1A01G385800 chr1B 638781584 638785369 3785 True 1461.333333 2902 92.008333 19 3215 3 chr1B.!!$R2 3196
9 TraesCS1A01G385800 chr3D 371869679 371870636 957 True 540.000000 540 77.310000 1139 2090 1 chr3D.!!$R2 951

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
596 603 0.178953 ATGCACAAGGGTTTGGCTCT 60.179 50.0 0.0 0.0 38.66 4.09 F
1043 1772 0.036577 CGCCCATCTCCATCTCCATC 60.037 60.0 0.0 0.0 0.00 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2061 2859 1.165284 CGCCGTAGAGGTAGGAGGAC 61.165 65.0 0.00 0.00 43.70 3.85 R
2647 3549 0.827368 AGAGCAGGCCAGTTAGCTAC 59.173 55.0 5.01 1.22 37.48 3.58 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
81 82 1.972795 AGTTTTCCGGCCTAGTGTGTA 59.027 47.619 0.00 0.00 0.00 2.90
96 97 2.772568 GTGTAAGCACATGCACACAA 57.227 45.000 17.81 1.33 43.33 3.33
97 98 3.077229 GTGTAAGCACATGCACACAAA 57.923 42.857 17.81 0.00 43.33 2.83
174 175 7.039644 CCTTTGTATGTTAACCCATAACCACAA 60.040 37.037 2.48 9.61 42.74 3.33
181 182 8.148437 TGTTAACCCATAACCACAACTCTATA 57.852 34.615 2.48 0.00 42.74 1.31
199 200 6.134535 TCTATAAATGGATACGGGGCAATT 57.865 37.500 0.00 0.00 42.51 2.32
211 212 2.105821 CGGGGCAATTCTGGATAGGTAA 59.894 50.000 0.00 0.00 0.00 2.85
212 213 3.487372 GGGGCAATTCTGGATAGGTAAC 58.513 50.000 0.00 0.00 0.00 2.50
213 214 3.117663 GGGGCAATTCTGGATAGGTAACA 60.118 47.826 0.00 0.00 41.41 2.41
214 215 4.532834 GGGCAATTCTGGATAGGTAACAA 58.467 43.478 0.00 0.00 41.41 2.83
215 216 4.953579 GGGCAATTCTGGATAGGTAACAAA 59.046 41.667 0.00 0.00 41.41 2.83
216 217 5.163550 GGGCAATTCTGGATAGGTAACAAAC 60.164 44.000 0.00 0.00 41.41 2.93
304 305 4.824537 TCAACGATCCCAATCTGAAACAAA 59.175 37.500 0.00 0.00 0.00 2.83
336 337 1.732732 GCCGTAGAATGGATCCGATCG 60.733 57.143 8.51 8.51 0.00 3.69
398 399 5.643664 TGTTCTGCATTAACTGATTCATGC 58.356 37.500 11.92 2.87 43.10 4.06
400 401 5.239359 TCTGCATTAACTGATTCATGCAC 57.761 39.130 7.59 0.00 45.91 4.57
401 402 4.018649 TGCATTAACTGATTCATGCACG 57.981 40.909 7.59 0.00 45.91 5.34
408 409 4.808077 ACTGATTCATGCACGATCAATC 57.192 40.909 9.07 0.00 0.00 2.67
493 496 6.018669 GCTAAGTTACACACTGCAAGATATCC 60.019 42.308 0.00 0.00 35.12 2.59
521 528 7.013464 TCGATTTGGTTCCAAGCTAACTTAAAA 59.987 33.333 4.44 0.00 33.74 1.52
593 600 1.511850 GAAATGCACAAGGGTTTGGC 58.488 50.000 0.00 0.00 38.66 4.52
594 601 1.070601 GAAATGCACAAGGGTTTGGCT 59.929 47.619 0.00 0.00 38.66 4.75
595 602 0.681175 AATGCACAAGGGTTTGGCTC 59.319 50.000 0.00 0.00 38.66 4.70
596 603 0.178953 ATGCACAAGGGTTTGGCTCT 60.179 50.000 0.00 0.00 38.66 4.09
597 604 0.476338 TGCACAAGGGTTTGGCTCTA 59.524 50.000 0.00 0.00 38.66 2.43
598 605 1.133637 TGCACAAGGGTTTGGCTCTAA 60.134 47.619 0.00 0.00 38.66 2.10
606 613 5.578157 AGGGTTTGGCTCTAAGAAAACTA 57.422 39.130 0.00 0.00 33.90 2.24
611 810 7.065923 GGGTTTGGCTCTAAGAAAACTATACAG 59.934 40.741 0.00 0.00 33.90 2.74
626 825 4.895889 ACTATACAGGCAGAAGAGCACATA 59.104 41.667 0.00 0.00 35.83 2.29
742 1448 8.812513 ACCTCTTCATGATCTAGATATCTCTG 57.187 38.462 8.95 3.95 32.66 3.35
749 1455 8.547173 TCATGATCTAGATATCTCTGTCTAGCA 58.453 37.037 8.95 0.00 40.92 3.49
751 1457 9.752228 ATGATCTAGATATCTCTGTCTAGCAAA 57.248 33.333 8.95 0.00 40.92 3.68
752 1458 9.752228 TGATCTAGATATCTCTGTCTAGCAAAT 57.248 33.333 8.95 0.00 40.92 2.32
1041 1770 1.383109 ACGCCCATCTCCATCTCCA 60.383 57.895 0.00 0.00 0.00 3.86
1042 1771 0.765903 ACGCCCATCTCCATCTCCAT 60.766 55.000 0.00 0.00 0.00 3.41
1043 1772 0.036577 CGCCCATCTCCATCTCCATC 60.037 60.000 0.00 0.00 0.00 3.51
1044 1773 1.360185 GCCCATCTCCATCTCCATCT 58.640 55.000 0.00 0.00 0.00 2.90
1045 1774 1.278699 GCCCATCTCCATCTCCATCTC 59.721 57.143 0.00 0.00 0.00 2.75
1046 1775 1.907936 CCCATCTCCATCTCCATCTCC 59.092 57.143 0.00 0.00 0.00 3.71
1047 1776 2.617658 CCATCTCCATCTCCATCTCCA 58.382 52.381 0.00 0.00 0.00 3.86
1048 1777 3.182976 CCATCTCCATCTCCATCTCCAT 58.817 50.000 0.00 0.00 0.00 3.41
1049 1778 3.198200 CCATCTCCATCTCCATCTCCATC 59.802 52.174 0.00 0.00 0.00 3.51
1050 1779 3.919304 TCTCCATCTCCATCTCCATCT 57.081 47.619 0.00 0.00 0.00 2.90
1051 1780 3.777087 TCTCCATCTCCATCTCCATCTC 58.223 50.000 0.00 0.00 0.00 2.75
1052 1781 2.833338 CTCCATCTCCATCTCCATCTCC 59.167 54.545 0.00 0.00 0.00 3.71
1053 1782 2.180751 TCCATCTCCATCTCCATCTCCA 59.819 50.000 0.00 0.00 0.00 3.86
1054 1783 3.181398 TCCATCTCCATCTCCATCTCCAT 60.181 47.826 0.00 0.00 0.00 3.41
1055 1784 3.198200 CCATCTCCATCTCCATCTCCATC 59.802 52.174 0.00 0.00 0.00 3.51
1056 1785 2.523245 TCTCCATCTCCATCTCCATCG 58.477 52.381 0.00 0.00 0.00 3.84
1057 1786 0.972134 TCCATCTCCATCTCCATCGC 59.028 55.000 0.00 0.00 0.00 4.58
1058 1787 0.036577 CCATCTCCATCTCCATCGCC 60.037 60.000 0.00 0.00 0.00 5.54
1059 1788 0.683412 CATCTCCATCTCCATCGCCA 59.317 55.000 0.00 0.00 0.00 5.69
1060 1789 1.278413 CATCTCCATCTCCATCGCCAT 59.722 52.381 0.00 0.00 0.00 4.40
1061 1790 0.972134 TCTCCATCTCCATCGCCATC 59.028 55.000 0.00 0.00 0.00 3.51
1062 1791 0.389556 CTCCATCTCCATCGCCATCG 60.390 60.000 0.00 0.00 0.00 3.84
1542 2331 1.079127 CCCGCTCACCTTCGTCAAT 60.079 57.895 0.00 0.00 0.00 2.57
1659 2457 3.590443 CTTCGTCGTCACGCTCGGT 62.590 63.158 12.93 0.00 46.28 4.69
1702 2500 3.320879 CTGCCGGTGATGGAGCTGT 62.321 63.158 1.90 0.00 0.00 4.40
1707 2505 1.134401 CCGGTGATGGAGCTGTTGTAT 60.134 52.381 0.00 0.00 0.00 2.29
1715 2513 2.292918 TGGAGCTGTTGTATAGGGAGGT 60.293 50.000 0.00 0.00 0.00 3.85
2061 2859 4.463879 CTCTGCGTCTGGGGCCTG 62.464 72.222 0.84 0.00 0.00 4.85
2129 2927 1.001924 CGATGATCAGGACGAGGACAG 60.002 57.143 12.26 0.00 0.00 3.51
2130 2928 2.302260 GATGATCAGGACGAGGACAGA 58.698 52.381 0.09 0.00 0.00 3.41
2267 3077 0.370273 GCACGAACCATGTGATCGAC 59.630 55.000 16.57 7.77 39.73 4.20
2284 3124 1.782569 CGACAAGTGCATTGCAACAAG 59.217 47.619 13.94 6.50 43.15 3.16
2313 3160 6.293004 TGGAAACTGAAATTTTCTTGGTGT 57.707 33.333 10.33 2.72 34.06 4.16
2409 3264 2.293122 GCCATGAGTTGTGTTTACAGCA 59.707 45.455 0.00 0.00 40.12 4.41
2428 3284 6.233434 ACAGCATACAAAGAGACAAGAATGA 58.767 36.000 0.00 0.00 0.00 2.57
2467 3323 1.662044 CTTGTTTGGTGGGCTGCTC 59.338 57.895 0.00 0.00 0.00 4.26
2504 3402 1.737355 GCACTTGCATGGGTGTGTGT 61.737 55.000 3.52 0.00 41.59 3.72
2505 3403 0.031043 CACTTGCATGGGTGTGTGTG 59.969 55.000 4.44 0.00 0.00 3.82
2519 3417 3.738282 GTGTGTGTGAAAAACTTGCACAA 59.262 39.130 1.72 0.00 43.33 3.33
2560 3458 7.217028 ACAGGGACATGCCATTCATATATAT 57.783 36.000 8.20 0.00 38.95 0.86
2561 3459 8.335819 ACAGGGACATGCCATTCATATATATA 57.664 34.615 8.20 0.00 38.95 0.86
2647 3549 4.715527 ACAGTTTACCTAGTTAGCGAGG 57.284 45.455 4.16 4.16 42.34 4.63
2668 3570 1.451028 GCTAACTGGCCTGCTCTGG 60.451 63.158 9.95 0.00 0.00 3.86
2710 3635 1.307355 TGTTGTCATGCCATGGCTCG 61.307 55.000 35.53 25.74 42.51 5.03
2731 3656 7.368833 GCTCGTTATCCTTATACTGTGTGTAT 58.631 38.462 0.00 0.00 43.62 2.29
2799 3724 6.098838 TGCACCATCACTTATCTTAGACATCT 59.901 38.462 0.00 0.00 0.00 2.90
2800 3725 6.423302 GCACCATCACTTATCTTAGACATCTG 59.577 42.308 0.00 0.00 0.00 2.90
2801 3726 7.495901 CACCATCACTTATCTTAGACATCTGT 58.504 38.462 0.00 0.00 0.00 3.41
2902 4000 0.325860 TGCGGGTTCCTATAGGTGGT 60.326 55.000 18.51 0.00 36.34 4.16
2951 4049 0.025001 CGCCGTTTCGAGTTGCTATG 59.975 55.000 0.00 0.00 0.00 2.23
2998 4096 3.829948 TCGTCGTTAGATGACCAAAGAC 58.170 45.455 0.00 0.00 37.48 3.01
2999 4097 2.592897 CGTCGTTAGATGACCAAAGACG 59.407 50.000 8.03 8.03 45.22 4.18
3103 4202 6.240894 ACACCTGCATATCTTCTTTCTTGAA 58.759 36.000 0.00 0.00 0.00 2.69
3154 4253 3.381335 GGTCCCTAGGTCTTACCATCAA 58.619 50.000 8.29 0.00 41.95 2.57
3162 4261 8.478877 CCCTAGGTCTTACCATCAATGATATAC 58.521 40.741 8.29 0.00 41.95 1.47
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 3.198853 AGGTGCCTAAAGATGGAGAACTC 59.801 47.826 0.00 0.00 0.00 3.01
19 20 3.185455 AGGTGCCTAAAGATGGAGAACT 58.815 45.455 0.00 0.00 0.00 3.01
20 21 3.198853 AGAGGTGCCTAAAGATGGAGAAC 59.801 47.826 0.00 0.00 0.00 3.01
21 22 3.454858 AGAGGTGCCTAAAGATGGAGAA 58.545 45.455 0.00 0.00 0.00 2.87
22 23 3.121929 AGAGGTGCCTAAAGATGGAGA 57.878 47.619 0.00 0.00 0.00 3.71
23 24 3.922171 AAGAGGTGCCTAAAGATGGAG 57.078 47.619 0.00 0.00 0.00 3.86
24 25 3.587061 TCAAAGAGGTGCCTAAAGATGGA 59.413 43.478 0.00 0.00 0.00 3.41
25 26 3.944015 CTCAAAGAGGTGCCTAAAGATGG 59.056 47.826 0.00 0.00 0.00 3.51
26 27 4.836825 TCTCAAAGAGGTGCCTAAAGATG 58.163 43.478 0.00 0.00 0.00 2.90
81 82 0.248990 CGGTTTGTGTGCATGTGCTT 60.249 50.000 6.55 0.00 42.66 3.91
96 97 0.819259 ACATGCTGTGTTCTGCGGTT 60.819 50.000 0.00 0.00 38.01 4.44
97 98 1.227943 ACATGCTGTGTTCTGCGGT 60.228 52.632 0.00 0.00 38.01 5.68
174 175 4.164981 TGCCCCGTATCCATTTATAGAGT 58.835 43.478 0.00 0.00 0.00 3.24
181 182 2.958355 CAGAATTGCCCCGTATCCATTT 59.042 45.455 0.00 0.00 0.00 2.32
189 190 0.474184 CCTATCCAGAATTGCCCCGT 59.526 55.000 0.00 0.00 0.00 5.28
199 200 4.346730 TCTCGGTTTGTTACCTATCCAGA 58.653 43.478 0.00 0.00 45.40 3.86
211 212 4.041198 TGGAATCCTACTTTCTCGGTTTGT 59.959 41.667 0.00 0.00 0.00 2.83
212 213 4.575885 TGGAATCCTACTTTCTCGGTTTG 58.424 43.478 0.00 0.00 0.00 2.93
213 214 4.903045 TGGAATCCTACTTTCTCGGTTT 57.097 40.909 0.00 0.00 0.00 3.27
214 215 4.903045 TTGGAATCCTACTTTCTCGGTT 57.097 40.909 0.00 0.00 0.00 4.44
215 216 5.024785 GATTGGAATCCTACTTTCTCGGT 57.975 43.478 0.00 0.00 0.00 4.69
267 268 0.109597 CGTTGAGAATGTGCTTGGGC 60.110 55.000 0.00 0.00 39.26 5.36
336 337 7.335171 TGTGCAAGAATATATATGTGGCTGATC 59.665 37.037 0.00 0.00 0.00 2.92
398 399 6.800408 GCAGAAAATCCATATGATTGATCGTG 59.200 38.462 3.65 6.64 42.97 4.35
399 400 6.072286 GGCAGAAAATCCATATGATTGATCGT 60.072 38.462 3.65 0.00 42.97 3.73
400 401 6.320171 GGCAGAAAATCCATATGATTGATCG 58.680 40.000 3.65 4.09 42.97 3.69
401 402 6.350780 GGGGCAGAAAATCCATATGATTGATC 60.351 42.308 3.65 5.42 42.97 2.92
408 409 2.961510 TGGGGGCAGAAAATCCATATG 58.038 47.619 0.00 0.00 0.00 1.78
474 477 5.049828 CGATGGATATCTTGCAGTGTGTAA 58.950 41.667 2.05 0.00 0.00 2.41
477 480 3.721035 TCGATGGATATCTTGCAGTGTG 58.279 45.455 2.05 0.00 0.00 3.82
493 496 4.396166 AGTTAGCTTGGAACCAAATCGATG 59.604 41.667 0.00 0.00 35.33 3.84
521 528 5.372343 AAGCTTGGAACCAAATCCTTTTT 57.628 34.783 0.00 0.00 40.35 1.94
526 533 4.021192 TGATCAAAGCTTGGAACCAAATCC 60.021 41.667 7.83 0.24 40.10 3.01
532 539 3.149196 TCAGTGATCAAAGCTTGGAACC 58.851 45.455 7.83 3.71 0.00 3.62
593 600 8.470805 TCTTCTGCCTGTATAGTTTTCTTAGAG 58.529 37.037 0.00 0.00 0.00 2.43
594 601 8.362464 TCTTCTGCCTGTATAGTTTTCTTAGA 57.638 34.615 0.00 0.00 0.00 2.10
595 602 7.223777 GCTCTTCTGCCTGTATAGTTTTCTTAG 59.776 40.741 0.00 0.00 0.00 2.18
596 603 7.042335 GCTCTTCTGCCTGTATAGTTTTCTTA 58.958 38.462 0.00 0.00 0.00 2.10
597 604 5.877564 GCTCTTCTGCCTGTATAGTTTTCTT 59.122 40.000 0.00 0.00 0.00 2.52
598 605 5.046304 TGCTCTTCTGCCTGTATAGTTTTCT 60.046 40.000 0.00 0.00 0.00 2.52
606 613 4.760530 TTATGTGCTCTTCTGCCTGTAT 57.239 40.909 0.00 0.00 0.00 2.29
742 1448 8.454106 ACTCATGTCAACATTTATTTGCTAGAC 58.546 33.333 0.00 0.00 33.61 2.59
755 1461 7.765695 ACTTGGAAATTACTCATGTCAACAT 57.234 32.000 0.00 0.00 36.96 2.71
1041 1770 1.554160 GATGGCGATGGAGATGGAGAT 59.446 52.381 0.00 0.00 0.00 2.75
1042 1771 0.972134 GATGGCGATGGAGATGGAGA 59.028 55.000 0.00 0.00 0.00 3.71
1043 1772 0.389556 CGATGGCGATGGAGATGGAG 60.390 60.000 0.00 0.00 40.82 3.86
1044 1773 1.667722 CGATGGCGATGGAGATGGA 59.332 57.895 0.00 0.00 40.82 3.41
1045 1774 2.031516 GCGATGGCGATGGAGATGG 61.032 63.158 0.00 0.00 40.82 3.51
1046 1775 2.031516 GGCGATGGCGATGGAGATG 61.032 63.158 0.00 0.00 41.24 2.90
1047 1776 1.834856 ATGGCGATGGCGATGGAGAT 61.835 55.000 0.00 0.00 41.24 2.75
1048 1777 2.440385 GATGGCGATGGCGATGGAGA 62.440 60.000 1.13 0.00 37.76 3.71
1049 1778 2.031516 GATGGCGATGGCGATGGAG 61.032 63.158 1.13 0.00 37.76 3.86
1050 1779 2.031012 GATGGCGATGGCGATGGA 59.969 61.111 1.13 0.00 37.76 3.41
1051 1780 3.417224 CGATGGCGATGGCGATGG 61.417 66.667 1.13 0.00 37.76 3.51
1052 1781 4.081030 GCGATGGCGATGGCGATG 62.081 66.667 1.13 0.00 37.76 3.84
1056 1785 3.730761 GATGGCGATGGCGATGGC 61.731 66.667 7.17 7.17 37.76 4.40
1057 1786 3.417224 CGATGGCGATGGCGATGG 61.417 66.667 1.13 0.00 37.76 3.51
1058 1787 2.356194 TCGATGGCGATGGCGATG 60.356 61.111 1.13 0.00 42.51 3.84
2061 2859 1.165284 CGCCGTAGAGGTAGGAGGAC 61.165 65.000 0.00 0.00 43.70 3.85
2129 2927 4.610714 GGGCGGCGGAGAGGATTC 62.611 72.222 9.78 0.00 0.00 2.52
2246 3056 1.351430 CGATCACATGGTTCGTGCGT 61.351 55.000 0.00 0.00 34.27 5.24
2250 3060 2.288825 ACTTGTCGATCACATGGTTCGT 60.289 45.455 12.06 0.00 34.98 3.85
2251 3061 2.092681 CACTTGTCGATCACATGGTTCG 59.907 50.000 0.00 2.70 34.98 3.95
2267 3077 1.790623 GCTCTTGTTGCAATGCACTTG 59.209 47.619 7.72 0.00 38.71 3.16
2284 3124 7.307573 CCAAGAAAATTTCAGTTTCCATTGCTC 60.308 37.037 8.55 0.00 35.92 4.26
2313 3160 4.141574 ACTTTGCTTTCTGGTGGTACTACA 60.142 41.667 11.80 0.00 0.00 2.74
2409 3264 7.120285 CACCACATCATTCTTGTCTCTTTGTAT 59.880 37.037 0.00 0.00 0.00 2.29
2428 3284 3.154710 GCATCCATCATCATCACCACAT 58.845 45.455 0.00 0.00 0.00 3.21
2504 3402 9.672086 GTACTACATTATTGTGCAAGTTTTTCA 57.328 29.630 0.00 0.00 36.53 2.69
2505 3403 9.124807 GGTACTACATTATTGTGCAAGTTTTTC 57.875 33.333 0.00 0.00 36.53 2.29
2519 3417 6.385759 TGTCCCTGTTGATGGTACTACATTAT 59.614 38.462 0.00 0.00 0.00 1.28
2592 3494 3.383825 GCATTGCAGGAAGAAATCAGGAT 59.616 43.478 3.15 0.00 0.00 3.24
2602 3504 3.194861 CCAATTGATGCATTGCAGGAAG 58.805 45.455 17.52 4.80 43.65 3.46
2647 3549 0.827368 AGAGCAGGCCAGTTAGCTAC 59.173 55.000 5.01 1.22 37.48 3.58
2668 3570 1.179174 GGGGAAAGGCCACACAGTTC 61.179 60.000 5.01 0.00 41.00 3.01
2731 3656 5.136068 TGGGGAAATGTAATGCAGGAATA 57.864 39.130 0.00 0.00 0.00 1.75
2902 4000 4.502016 CTTCTGTTGCTGCTCTGAAGATA 58.498 43.478 24.44 6.67 39.93 1.98
2951 4049 3.813166 TGAGAAACAAGTGAATTCCGGTC 59.187 43.478 0.00 0.00 0.00 4.79
2998 4096 4.084537 AGTTTACAGAGCGACAAATGTTCG 60.085 41.667 0.00 0.00 0.00 3.95
2999 4097 5.344207 AGTTTACAGAGCGACAAATGTTC 57.656 39.130 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.