Multiple sequence alignment - TraesCS6B01G189300

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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 TraesCS6B01G189300 chr6B 100.000 3461 0 0 389 3849 219095222 219098682 0.000000e+00 6392.0
1 TraesCS6B01G189300 chr6B 100.000 170 0 0 1 170 219094834 219095003 8.030000e-82 315.0
2 TraesCS6B01G189300 chr6D 94.899 1431 58 10 1654 3081 123967544 123968962 0.000000e+00 2224.0
3 TraesCS6B01G189300 chr6D 89.167 1320 79 23 389 1666 123965888 123967185 0.000000e+00 1587.0
4 TraesCS6B01G189300 chr6D 87.729 546 26 11 3161 3697 123968952 123969465 1.980000e-167 599.0
5 TraesCS6B01G189300 chr6D 94.981 259 11 2 389 645 123965413 123965671 4.630000e-109 405.0
6 TraesCS6B01G189300 chr6D 94.706 170 7 2 1 170 123964764 123964931 2.950000e-66 263.0
7 TraesCS6B01G189300 chr6D 95.238 147 7 0 24 170 123965668 123965814 2.310000e-57 233.0
8 TraesCS6B01G189300 chr6D 90.909 154 12 2 3695 3847 123969495 123969647 5.040000e-49 206.0
9 TraesCS6B01G189300 chr6A 96.406 1252 34 5 1788 3031 157135634 157134386 0.000000e+00 2052.0
10 TraesCS6B01G189300 chr6A 89.926 814 56 5 741 1532 157138287 157137478 0.000000e+00 1026.0
11 TraesCS6B01G189300 chr6A 91.971 548 28 5 3159 3697 157134365 157133825 0.000000e+00 754.0
12 TraesCS6B01G189300 chr6A 87.719 342 17 9 433 749 157140691 157140350 3.630000e-100 375.0
13 TraesCS6B01G189300 chr6A 90.498 221 14 5 1586 1802 157137329 157137112 6.290000e-73 285.0
14 TraesCS6B01G189300 chr6A 94.872 156 6 2 3695 3849 157133795 157133641 3.840000e-60 243.0
15 TraesCS6B01G189300 chr6A 85.455 110 5 3 694 795 157140565 157140459 1.890000e-18 104.0
16 TraesCS6B01G189300 chr6A 91.667 60 2 2 1533 1589 617537613 617537554 3.190000e-11 80.5
17 TraesCS6B01G189300 chr6A 89.231 65 1 5 1533 1594 12423620 12423681 4.120000e-10 76.8
18 TraesCS6B01G189300 chr6A 95.556 45 2 0 610 654 157139078 157139034 5.330000e-09 73.1
19 TraesCS6B01G189300 chr1A 96.190 105 4 0 790 894 52054514 52054618 5.110000e-39 172.0
20 TraesCS6B01G189300 chr2A 95.327 107 3 2 790 894 715780604 715780710 6.610000e-38 169.0
21 TraesCS6B01G189300 chr2A 92.857 112 7 1 784 895 120049753 120049863 1.110000e-35 161.0
22 TraesCS6B01G189300 chr2A 94.444 54 1 2 1531 1582 702146103 702146156 8.860000e-12 82.4
23 TraesCS6B01G189300 chr2A 92.727 55 2 1 1536 1588 43181008 43181062 1.150000e-10 78.7
24 TraesCS6B01G189300 chr2B 94.444 108 4 2 786 893 694614217 694614322 8.550000e-37 165.0
25 TraesCS6B01G189300 chr2B 94.286 105 6 0 790 894 166854415 166854311 1.110000e-35 161.0
26 TraesCS6B01G189300 chr2B 95.098 102 3 2 790 889 694880981 694881082 3.980000e-35 159.0
27 TraesCS6B01G189300 chr2B 92.105 76 1 1 3084 3159 118695222 118695152 6.800000e-18 102.0
28 TraesCS6B01G189300 chr2D 92.727 110 6 2 786 894 116619070 116618962 1.430000e-34 158.0
29 TraesCS6B01G189300 chr2D 91.358 81 2 1 3078 3158 201192702 201192627 5.260000e-19 106.0
30 TraesCS6B01G189300 chr2D 92.105 76 1 1 3084 3159 435051492 435051422 6.800000e-18 102.0
31 TraesCS6B01G189300 chr2D 89.744 78 2 2 3084 3160 67596261 67596333 1.140000e-15 95.3
32 TraesCS6B01G189300 chr3B 90.244 82 3 1 3078 3159 671154679 671154603 6.800000e-18 102.0
33 TraesCS6B01G189300 chr7D 92.000 75 1 1 3084 3158 20666312 20666243 2.450000e-17 100.0
34 TraesCS6B01G189300 chr7D 92.000 75 1 1 3084 3158 188392953 188392884 2.450000e-17 100.0
35 TraesCS6B01G189300 chr7D 88.889 81 4 1 3077 3157 471971199 471971124 1.140000e-15 95.3
36 TraesCS6B01G189300 chr4B 89.744 78 1 3 3079 3155 615396633 615396704 4.090000e-15 93.5
37 TraesCS6B01G189300 chr7B 92.982 57 2 1 1531 1585 598832890 598832946 8.860000e-12 82.4
38 TraesCS6B01G189300 chr5A 94.444 54 1 2 1531 1582 142800604 142800657 8.860000e-12 82.4
39 TraesCS6B01G189300 chr4D 91.803 61 1 3 1531 1587 509649290 509649350 8.860000e-12 82.4
40 TraesCS6B01G189300 chr1B 90.323 62 4 1 1533 1592 222302403 222302342 3.190000e-11 80.5
41 TraesCS6B01G189300 chr1B 87.879 66 4 3 1533 1594 102141218 102141153 1.480000e-09 75.0


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 TraesCS6B01G189300 chr6B 219094834 219098682 3848 False 3353.500000 6392 100.000000 1 3849 2 chr6B.!!$F1 3848
1 TraesCS6B01G189300 chr6D 123964764 123969647 4883 False 788.142857 2224 92.518429 1 3847 7 chr6D.!!$F1 3846
2 TraesCS6B01G189300 chr6A 157133641 157140691 7050 True 614.012500 2052 91.550375 433 3849 8 chr6A.!!$R2 3416

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
985 3991 1.005037 CCACTGCGACACTGCCTTA 60.005 57.895 0.0 0.0 0.00 2.69 F
1290 4304 0.392327 GAGGAGAGCTGTTTCAGGGC 60.392 60.000 0.0 0.0 31.21 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2437 7425 1.207329 ACTATGACGTCTTTGAGGCCC 59.793 52.381 17.92 0.0 0.0 5.8 R
3244 8239 0.036010 CTGTGTTCCCTGGCTAGTGG 60.036 60.000 0.00 0.0 0.0 4.0 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
55 937 8.951787 TGTTATGTATTAAAAGCGATGGTACT 57.048 30.769 0.00 0.00 0.00 2.73
60 942 6.987992 TGTATTAAAAGCGATGGTACTAAGGG 59.012 38.462 0.00 0.00 0.00 3.95
71 953 6.929606 CGATGGTACTAAGGGGAAAGATAAAG 59.070 42.308 0.00 0.00 0.00 1.85
415 1297 5.473504 TGATGGTAGCAAGGAGAAAGAAAAC 59.526 40.000 0.00 0.00 0.00 2.43
416 1298 4.142038 TGGTAGCAAGGAGAAAGAAAACC 58.858 43.478 0.00 0.00 0.00 3.27
574 1470 6.986904 ACTTTTTAGAAGCGAAATCTAGGG 57.013 37.500 0.00 0.00 31.41 3.53
660 1556 6.319141 AGAGAAATATAAATTCGCCAAGGC 57.681 37.500 0.00 0.00 37.85 4.35
882 3888 5.144692 CCAACTCGGTCATCTGATCATAT 57.855 43.478 0.00 0.00 0.00 1.78
883 3889 5.545588 CCAACTCGGTCATCTGATCATATT 58.454 41.667 0.00 0.00 0.00 1.28
887 3893 5.219343 TCGGTCATCTGATCATATTTGCT 57.781 39.130 0.00 0.00 0.00 3.91
944 3950 2.796383 CGGTTCTCAGTTCTATCCGCAG 60.796 54.545 0.00 0.00 0.00 5.18
945 3951 2.197577 GTTCTCAGTTCTATCCGCAGC 58.802 52.381 0.00 0.00 0.00 5.25
985 3991 1.005037 CCACTGCGACACTGCCTTA 60.005 57.895 0.00 0.00 0.00 2.69
1059 4065 4.742649 TGCGCCTCTCCGTCTCCT 62.743 66.667 4.18 0.00 0.00 3.69
1087 4093 4.168014 CAGGTACTAACGCATAACACGAA 58.832 43.478 0.00 0.00 36.02 3.85
1105 4111 3.445805 ACGAACAAATCCTCTCTCTCTCC 59.554 47.826 0.00 0.00 0.00 3.71
1106 4112 3.181480 CGAACAAATCCTCTCTCTCTCCC 60.181 52.174 0.00 0.00 0.00 4.30
1107 4113 3.774842 ACAAATCCTCTCTCTCTCCCT 57.225 47.619 0.00 0.00 0.00 4.20
1108 4114 3.642141 ACAAATCCTCTCTCTCTCCCTC 58.358 50.000 0.00 0.00 0.00 4.30
1109 4115 2.965147 CAAATCCTCTCTCTCTCCCTCC 59.035 54.545 0.00 0.00 0.00 4.30
1134 4140 7.969690 AAACAGATTTGATCCTCTCTCTCTA 57.030 36.000 0.00 0.00 0.00 2.43
1142 4156 5.579047 TGATCCTCTCTCTCTATGGGAATC 58.421 45.833 0.00 0.00 0.00 2.52
1210 4224 4.457496 CAGACGCCCGCATCCACT 62.457 66.667 0.00 0.00 0.00 4.00
1217 4231 2.819595 CCGCATCCACTGGAACCG 60.820 66.667 0.66 7.71 34.34 4.44
1290 4304 0.392327 GAGGAGAGCTGTTTCAGGGC 60.392 60.000 0.00 0.00 31.21 5.19
1419 4434 1.208776 GTTATGAACCACTACCGCCCT 59.791 52.381 0.00 0.00 0.00 5.19
1481 4496 2.322355 ATCTGGCTCATACTGCACAC 57.678 50.000 0.00 0.00 0.00 3.82
1504 4519 6.209391 CACAAGGGTATTCAGATTGGTTTCTT 59.791 38.462 0.00 0.00 0.00 2.52
1532 4547 9.594478 GAATAAATGGTTGGGTTAAAATGGTAG 57.406 33.333 0.00 0.00 0.00 3.18
1537 4552 9.771140 AATGGTTGGGTTAAAATGGTAGTATAA 57.229 29.630 0.00 0.00 0.00 0.98
1538 4553 9.771140 ATGGTTGGGTTAAAATGGTAGTATAAA 57.229 29.630 0.00 0.00 0.00 1.40
1540 4555 9.246670 GGTTGGGTTAAAATGGTAGTATAAACT 57.753 33.333 0.00 0.00 39.91 2.66
1594 4704 7.288389 ACGGAGGGAGTATTATATACACAACAA 59.712 37.037 0.00 0.00 0.00 2.83
1655 4769 8.817100 TCACTGCTCAAAATATCGTTTAGTATG 58.183 33.333 0.00 0.00 0.00 2.39
1783 5268 8.862325 AGATGGACTAATTATGTTTGTGTGAA 57.138 30.769 0.00 0.00 0.00 3.18
1934 6919 5.417580 TGCCATTAGTGGGATCTTTTTACAC 59.582 40.000 6.38 0.00 46.14 2.90
1960 6945 3.106054 ACTCCAGTTGCTGAGATGAGAT 58.894 45.455 0.00 0.00 32.44 2.75
2101 7086 4.471904 TTCGTGCATAGGTCAAGAGAAT 57.528 40.909 0.00 0.00 0.00 2.40
2351 7338 3.822735 TCTCTTGGCAATTGACCTTTCTG 59.177 43.478 9.30 0.00 0.00 3.02
2437 7425 9.443283 GAATCATTTTTCTTGTAGATGATTCGG 57.557 33.333 16.73 0.00 45.98 4.30
2456 7444 1.473434 GGGGCCTCAAAGACGTCATAG 60.473 57.143 19.50 8.73 0.00 2.23
2514 7502 4.746611 GGCATTTTCTGACAGTTTTCTTGG 59.253 41.667 1.59 0.00 30.81 3.61
2763 7751 4.935352 TCTTGTGCTTTATTTGGTTGCT 57.065 36.364 0.00 0.00 0.00 3.91
2854 7842 3.754850 TGCTCAAAGTCCTGTGATCATTG 59.245 43.478 0.00 0.00 0.00 2.82
2936 7924 6.603201 TGAAGAGAACCACAGTGATTCTTTTT 59.397 34.615 11.79 9.40 0.00 1.94
3055 8044 7.327214 AGGTATAGAAGAGAAGAAAGCACAAG 58.673 38.462 0.00 0.00 0.00 3.16
3075 8064 2.887152 AGGATTTCCTTCACAACAGCAC 59.113 45.455 0.00 0.00 46.09 4.40
3081 8070 4.350368 TCCTTCACAACAGCACTATCAA 57.650 40.909 0.00 0.00 0.00 2.57
3082 8071 4.065088 TCCTTCACAACAGCACTATCAAC 58.935 43.478 0.00 0.00 0.00 3.18
3083 8072 4.067896 CCTTCACAACAGCACTATCAACT 58.932 43.478 0.00 0.00 0.00 3.16
3084 8073 4.083643 CCTTCACAACAGCACTATCAACTG 60.084 45.833 0.00 0.00 37.45 3.16
3085 8074 4.071961 TCACAACAGCACTATCAACTGT 57.928 40.909 0.00 0.00 46.27 3.55
3086 8075 3.809279 TCACAACAGCACTATCAACTGTG 59.191 43.478 0.00 0.00 43.63 3.66
3087 8076 3.058708 CACAACAGCACTATCAACTGTGG 60.059 47.826 0.00 0.00 43.63 4.17
3088 8077 3.181455 ACAACAGCACTATCAACTGTGGA 60.181 43.478 3.86 0.00 43.63 4.02
3089 8078 3.325293 ACAGCACTATCAACTGTGGAG 57.675 47.619 0.00 0.00 42.83 3.86
3090 8079 2.027745 ACAGCACTATCAACTGTGGAGG 60.028 50.000 0.00 0.00 42.83 4.30
3091 8080 1.556911 AGCACTATCAACTGTGGAGGG 59.443 52.381 0.00 0.00 34.99 4.30
3092 8081 1.279271 GCACTATCAACTGTGGAGGGT 59.721 52.381 0.00 0.00 34.99 4.34
3093 8082 2.290323 GCACTATCAACTGTGGAGGGTT 60.290 50.000 0.00 0.00 34.99 4.11
3094 8083 3.810743 GCACTATCAACTGTGGAGGGTTT 60.811 47.826 0.00 0.00 34.99 3.27
3095 8084 4.003648 CACTATCAACTGTGGAGGGTTTC 58.996 47.826 0.00 0.00 0.00 2.78
3096 8085 3.910627 ACTATCAACTGTGGAGGGTTTCT 59.089 43.478 0.00 0.00 0.00 2.52
3097 8086 5.046591 CACTATCAACTGTGGAGGGTTTCTA 60.047 44.000 0.00 0.00 0.00 2.10
3098 8087 3.764237 TCAACTGTGGAGGGTTTCTAC 57.236 47.619 0.00 0.00 37.76 2.59
3099 8088 2.370849 TCAACTGTGGAGGGTTTCTACC 59.629 50.000 0.00 0.00 44.22 3.18
3116 8105 9.775854 GGTTTCTACCCTTTCCTTCTATAATAC 57.224 37.037 0.00 0.00 38.60 1.89
3119 8108 9.725206 TTCTACCCTTTCCTTCTATAATACAGT 57.275 33.333 0.00 0.00 0.00 3.55
3137 8126 4.784329 ACAGTATATGATACGCACACTCG 58.216 43.478 0.00 0.00 0.00 4.18
3138 8127 4.275196 ACAGTATATGATACGCACACTCGT 59.725 41.667 0.00 0.00 45.49 4.18
3139 8128 4.613031 CAGTATATGATACGCACACTCGTG 59.387 45.833 0.00 0.00 46.56 4.35
3140 8129 3.710326 ATATGATACGCACACTCGTGT 57.290 42.857 0.00 0.00 45.50 4.49
3213 8208 5.515184 ACGTTTCTGATCTATCTGTCGATG 58.485 41.667 0.00 0.00 0.00 3.84
3244 8239 2.735762 GCAGTGTAGTACAGGCAGTAGC 60.736 54.545 17.66 6.07 41.10 3.58
3382 8389 3.531207 CCTCTCATCGGCGAGCCA 61.531 66.667 17.22 0.00 35.37 4.75
3495 8502 2.799371 GATGCTGAAGCTGCTGCC 59.201 61.111 19.99 2.73 42.66 4.85
3506 8513 3.315142 CTGCTGCCCAGGACGCTAA 62.315 63.158 0.00 0.00 37.93 3.09
3521 8528 3.841379 CTAAGCCATAGCCGCGCGA 62.841 63.158 34.63 12.79 41.25 5.87
3572 8579 1.911766 TTCCCGCCGAAGAAGGAGT 60.912 57.895 0.00 0.00 0.00 3.85
3573 8580 2.125512 CCCGCCGAAGAAGGAGTG 60.126 66.667 0.00 0.00 0.00 3.51
3729 8771 0.896940 TACGACGACCTTGCTCCCTT 60.897 55.000 0.00 0.00 0.00 3.95
3790 8832 4.404654 CTGCCTTTTGCGCGGGTC 62.405 66.667 8.83 0.00 45.60 4.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
415 1297 8.854614 TCTCTTCTCAAAAGATCTTAAAAGGG 57.145 34.615 8.75 8.25 0.00 3.95
449 1331 4.832248 TGATCTGACACCTTGGTGATTAC 58.168 43.478 24.67 13.17 0.00 1.89
499 1382 5.873164 AGTATCGTCCTAAAAACGCAAGAAT 59.127 36.000 0.00 0.00 39.90 2.40
515 1398 5.831702 TCTTTCTCCTTGGTAGTATCGTC 57.168 43.478 0.00 0.00 0.00 4.20
563 1459 3.134804 AGTCCCAACATCCCTAGATTTCG 59.865 47.826 0.00 0.00 0.00 3.46
646 1542 2.975266 TCTAACGCCTTGGCGAATTTA 58.025 42.857 35.96 23.04 36.94 1.40
909 3915 4.742438 GAGAACCGCTCATAGAGAGTAG 57.258 50.000 0.00 0.00 46.47 2.57
921 3927 1.405821 CGGATAGAACTGAGAACCGCT 59.594 52.381 0.00 0.00 33.03 5.52
944 3950 1.467920 AAGGCAAGTGCTTATCTGGC 58.532 50.000 2.85 0.00 41.70 4.85
945 3951 2.821969 ACAAAGGCAAGTGCTTATCTGG 59.178 45.455 2.85 0.00 41.70 3.86
985 3991 4.785376 AGACTCCATTGTAAAGGTCAGGAT 59.215 41.667 0.00 0.00 0.00 3.24
1059 4065 2.512692 TGCGTTAGTACCTGGGACTA 57.487 50.000 14.96 14.96 0.00 2.59
1087 4093 3.629796 GGAGGGAGAGAGAGAGGATTTGT 60.630 52.174 0.00 0.00 0.00 2.83
1105 4111 4.853007 AGAGGATCAAATCTGTTTGGAGG 58.147 43.478 0.00 0.00 43.85 4.30
1106 4112 5.743117 AGAGAGGATCAAATCTGTTTGGAG 58.257 41.667 0.00 0.00 43.85 3.86
1107 4113 5.486775 AGAGAGAGGATCAAATCTGTTTGGA 59.513 40.000 0.00 0.00 43.85 3.53
1108 4114 5.743117 AGAGAGAGGATCAAATCTGTTTGG 58.257 41.667 0.00 0.00 43.85 3.28
1109 4115 6.642430 AGAGAGAGAGGATCAAATCTGTTTG 58.358 40.000 0.00 0.00 44.81 2.93
1134 4140 5.427806 TGAGTCTTTGAGATGAGATTCCCAT 59.572 40.000 0.00 0.00 30.24 4.00
1142 4156 5.407995 GGTCAGTTTGAGTCTTTGAGATGAG 59.592 44.000 0.00 0.00 0.00 2.90
1210 4224 3.234630 CTGGTCGCCTTCGGTTCCA 62.235 63.158 0.00 0.00 36.13 3.53
1280 4294 0.250901 GAAGAGCCAGCCCTGAAACA 60.251 55.000 0.00 0.00 0.00 2.83
1414 4429 5.581085 GCCATCTATATTTAGTAACAGGGCG 59.419 44.000 0.00 0.00 0.00 6.13
1481 4496 6.350445 CCAAGAAACCAATCTGAATACCCTTG 60.350 42.308 0.00 0.00 0.00 3.61
1504 4519 7.017651 ACCATTTTAACCCAACCATTTATTCCA 59.982 33.333 0.00 0.00 0.00 3.53
1545 4560 8.504005 CCGTTAAAATAGATGACTCAACTTTGT 58.496 33.333 0.00 0.00 0.00 2.83
1546 4561 8.717821 TCCGTTAAAATAGATGACTCAACTTTG 58.282 33.333 0.00 0.00 0.00 2.77
1550 4565 6.258068 CCCTCCGTTAAAATAGATGACTCAAC 59.742 42.308 0.00 0.00 0.00 3.18
1551 4566 6.155565 TCCCTCCGTTAAAATAGATGACTCAA 59.844 38.462 0.00 0.00 0.00 3.02
1552 4567 5.659525 TCCCTCCGTTAAAATAGATGACTCA 59.340 40.000 0.00 0.00 0.00 3.41
1553 4568 6.158023 TCCCTCCGTTAAAATAGATGACTC 57.842 41.667 0.00 0.00 0.00 3.36
1554 4569 5.661759 ACTCCCTCCGTTAAAATAGATGACT 59.338 40.000 0.00 0.00 0.00 3.41
1555 4570 5.915175 ACTCCCTCCGTTAAAATAGATGAC 58.085 41.667 0.00 0.00 0.00 3.06
1565 4580 8.938801 TGTGTATATAATACTCCCTCCGTTAA 57.061 34.615 0.00 0.00 0.00 2.01
1567 4582 7.288389 TGTTGTGTATATAATACTCCCTCCGTT 59.712 37.037 0.00 0.00 0.00 4.44
1594 4704 7.523293 TCCAACACATAATTTTGACAGTCAT 57.477 32.000 3.45 0.00 0.00 3.06
1655 4769 2.681591 GCCCCCAACCCTTAGGAC 59.318 66.667 0.00 0.00 36.73 3.85
1723 5208 4.099170 CGACTCGTCCCTCGCGTT 62.099 66.667 5.77 0.00 37.62 4.84
1725 5210 3.606065 AAACGACTCGTCCCTCGCG 62.606 63.158 4.17 0.00 39.99 5.87
1842 6827 7.920151 TGAACACTTCAAACATAAATCAACCAG 59.080 33.333 0.00 0.00 36.59 4.00
1921 6906 8.336801 ACTGGAGTATTTGTGTAAAAAGATCC 57.663 34.615 0.00 0.00 0.00 3.36
1934 6919 5.181009 TCATCTCAGCAACTGGAGTATTTG 58.819 41.667 0.00 0.00 31.51 2.32
2101 7086 5.508567 TCAAGGATTCAGTCAATGGCAATA 58.491 37.500 0.00 0.00 0.00 1.90
2150 7136 8.370493 ACACATATATGCACTTTACAAGCTAG 57.630 34.615 12.79 0.00 0.00 3.42
2437 7425 1.207329 ACTATGACGTCTTTGAGGCCC 59.793 52.381 17.92 0.00 0.00 5.80
2763 7751 1.301087 CGTGGTCCAAACTGCGGTA 60.301 57.895 0.00 0.00 0.00 4.02
2854 7842 3.473625 TGGCATGTGATGATCATGAGAC 58.526 45.455 14.30 7.48 43.47 3.36
3055 8044 2.887152 AGTGCTGTTGTGAAGGAAATCC 59.113 45.455 0.00 0.00 0.00 3.01
3061 8050 4.067896 AGTTGATAGTGCTGTTGTGAAGG 58.932 43.478 0.00 0.00 0.00 3.46
3069 8058 2.027745 CCTCCACAGTTGATAGTGCTGT 60.028 50.000 0.00 0.00 43.37 4.40
3075 8064 4.559862 AGAAACCCTCCACAGTTGATAG 57.440 45.455 0.00 0.00 0.00 2.08
3090 8079 9.775854 GTATTATAGAAGGAAAGGGTAGAAACC 57.224 37.037 0.00 0.00 45.97 3.27
3093 8082 9.725206 ACTGTATTATAGAAGGAAAGGGTAGAA 57.275 33.333 0.00 0.00 0.00 2.10
3111 8100 8.173130 CGAGTGTGCGTATCATATACTGTATTA 58.827 37.037 5.52 0.00 0.00 0.98
3112 8101 7.021790 CGAGTGTGCGTATCATATACTGTATT 58.978 38.462 5.52 0.00 0.00 1.89
3113 8102 6.148976 ACGAGTGTGCGTATCATATACTGTAT 59.851 38.462 5.53 5.53 43.61 2.29
3114 8103 5.467735 ACGAGTGTGCGTATCATATACTGTA 59.532 40.000 0.00 0.00 43.61 2.74
3115 8104 4.275196 ACGAGTGTGCGTATCATATACTGT 59.725 41.667 0.00 0.00 43.61 3.55
3116 8105 4.613031 CACGAGTGTGCGTATCATATACTG 59.387 45.833 0.00 0.00 43.59 2.74
3117 8106 4.784329 CACGAGTGTGCGTATCATATACT 58.216 43.478 0.00 0.00 43.59 2.12
3155 8144 5.594317 AGTTCCAGTTGATAGTGCTGTTTTT 59.406 36.000 0.00 0.00 0.00 1.94
3156 8145 5.009010 CAGTTCCAGTTGATAGTGCTGTTTT 59.991 40.000 0.00 0.00 0.00 2.43
3157 8146 4.516698 CAGTTCCAGTTGATAGTGCTGTTT 59.483 41.667 0.00 0.00 0.00 2.83
3162 8151 3.003480 GGACAGTTCCAGTTGATAGTGC 58.997 50.000 0.00 0.00 42.30 4.40
3190 8179 5.506483 CCATCGACAGATAGATCAGAAACGT 60.506 44.000 0.00 0.00 34.85 3.99
3192 8181 5.689514 CACCATCGACAGATAGATCAGAAAC 59.310 44.000 0.00 0.00 34.85 2.78
3196 8185 3.005155 TGCACCATCGACAGATAGATCAG 59.995 47.826 0.00 0.00 34.85 2.90
3197 8186 2.958355 TGCACCATCGACAGATAGATCA 59.042 45.455 0.00 0.00 34.85 2.92
3198 8187 3.650070 TGCACCATCGACAGATAGATC 57.350 47.619 0.00 0.00 34.85 2.75
3199 8188 4.313282 CATTGCACCATCGACAGATAGAT 58.687 43.478 0.00 0.00 34.85 1.98
3200 8189 3.493176 CCATTGCACCATCGACAGATAGA 60.493 47.826 0.00 0.00 34.85 1.98
3201 8190 2.804527 CCATTGCACCATCGACAGATAG 59.195 50.000 0.00 0.00 34.85 2.08
3203 8192 1.671979 CCATTGCACCATCGACAGAT 58.328 50.000 0.00 0.00 37.65 2.90
3244 8239 0.036010 CTGTGTTCCCTGGCTAGTGG 60.036 60.000 0.00 0.00 0.00 4.00
3245 8240 0.976641 TCTGTGTTCCCTGGCTAGTG 59.023 55.000 0.00 0.00 0.00 2.74
3246 8241 0.977395 GTCTGTGTTCCCTGGCTAGT 59.023 55.000 0.00 0.00 0.00 2.57
3247 8242 1.270907 AGTCTGTGTTCCCTGGCTAG 58.729 55.000 0.00 0.00 0.00 3.42
3248 8243 1.347707 CAAGTCTGTGTTCCCTGGCTA 59.652 52.381 0.00 0.00 0.00 3.93
3249 8244 0.109342 CAAGTCTGTGTTCCCTGGCT 59.891 55.000 0.00 0.00 0.00 4.75
3250 8245 1.518903 GCAAGTCTGTGTTCCCTGGC 61.519 60.000 0.00 0.00 0.00 4.85
3302 8297 4.351938 TTGTCCAGACGACGGCGG 62.352 66.667 18.49 0.00 45.23 6.13
3303 8298 2.805353 CTTGTCCAGACGACGGCG 60.805 66.667 10.39 10.39 45.23 6.46
3304 8299 2.432628 CCTTGTCCAGACGACGGC 60.433 66.667 0.00 0.00 45.23 5.68
3346 8353 0.528684 GGCTCGTCGGAATCCAAGAG 60.529 60.000 0.00 5.74 0.00 2.85
3382 8389 4.406173 CGCTGCGTCACCGTCTCT 62.406 66.667 14.93 0.00 36.15 3.10
3404 8411 4.552365 CCTCCCGCGGCATGTGAT 62.552 66.667 22.85 0.00 0.00 3.06
3495 8502 0.601311 GCTATGGCTTAGCGTCCTGG 60.601 60.000 15.51 0.00 43.73 4.45
3682 8692 2.789203 GACACCGATCGTTCTGCGC 61.789 63.158 15.09 0.00 41.07 6.09
3697 8707 3.293714 TCGTAACCGGGCACGACA 61.294 61.111 23.77 7.80 41.89 4.35
3699 8709 4.403137 CGTCGTAACCGGGCACGA 62.403 66.667 23.77 23.77 44.32 4.35
3702 8712 4.054825 GGTCGTCGTAACCGGGCA 62.055 66.667 6.32 0.00 33.95 5.36
3704 8714 1.444895 CAAGGTCGTCGTAACCGGG 60.445 63.158 6.32 0.00 41.89 5.73
3705 8715 2.090524 GCAAGGTCGTCGTAACCGG 61.091 63.158 0.00 0.00 41.89 5.28
3706 8716 1.069378 GAGCAAGGTCGTCGTAACCG 61.069 60.000 0.00 0.00 41.89 4.44


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

AutoCloner maintained by Alex Coulton.