Multiple sequence alignment - TraesCS1D01G218000

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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 TraesCS1D01G218000 chr1D 100.000 4134 0 0 1 4134 303519315 303515182 0.000000e+00 7635.0
1 TraesCS1D01G218000 chr1A 95.900 1951 55 12 1635 3571 381097850 381095911 0.000000e+00 3136.0
2 TraesCS1D01G218000 chr1A 87.905 1604 117 32 9 1587 381099406 381097855 0.000000e+00 1816.0
3 TraesCS1D01G218000 chr1A 92.401 579 35 3 3565 4134 381095870 381095292 0.000000e+00 817.0
4 TraesCS1D01G218000 chr1A 75.415 602 116 28 2406 2988 254351398 254351986 3.170000e-66 263.0
5 TraesCS1D01G218000 chr1A 74.597 248 45 16 2313 2551 102167826 102168064 4.400000e-15 93.5
6 TraesCS1D01G218000 chr1B 95.754 1672 50 11 1679 3343 411155426 411153769 0.000000e+00 2675.0
7 TraesCS1D01G218000 chr1B 91.823 1333 59 19 245 1547 411156739 411155427 0.000000e+00 1812.0
8 TraesCS1D01G218000 chr1B 87.634 372 41 3 3565 3932 411153253 411152883 1.060000e-115 427.0
9 TraesCS1D01G218000 chr1B 75.162 616 117 31 2406 3000 288757736 288758336 1.470000e-64 257.0
10 TraesCS1D01G218000 chr1B 79.111 225 33 9 3349 3571 411153506 411153294 4.310000e-30 143.0
11 TraesCS1D01G218000 chr7A 77.246 334 60 8 2669 2989 718489527 718489857 9.130000e-42 182.0
12 TraesCS1D01G218000 chr2D 84.921 126 15 3 14 138 172988448 172988326 1.560000e-24 124.0
13 TraesCS1D01G218000 chr2D 73.186 317 63 20 2313 2618 71759076 71759381 1.220000e-15 95.3
14 TraesCS1D01G218000 chr7B 83.582 134 19 3 7 140 717374634 717374764 5.610000e-24 122.0
15 TraesCS1D01G218000 chr7B 74.194 248 46 16 2313 2551 747591913 747592151 2.050000e-13 87.9
16 TraesCS1D01G218000 chr2B 74.528 318 57 21 2313 2618 108230838 108231143 2.610000e-22 117.0
17 TraesCS1D01G218000 chr6B 85.455 110 14 2 31 139 568469947 568469839 3.380000e-21 113.0
18 TraesCS1D01G218000 chr3D 84.211 114 17 1 62 174 81200920 81200807 4.370000e-20 110.0
19 TraesCS1D01G218000 chr3D 100.000 43 0 0 1590 1632 108380163 108380205 3.430000e-11 80.5
20 TraesCS1D01G218000 chr2A 73.899 318 59 21 2313 2618 70870136 70870441 5.650000e-19 106.0
21 TraesCS1D01G218000 chr5B 73.203 306 58 21 2313 2607 319886618 319886326 5.690000e-14 89.8
22 TraesCS1D01G218000 chr7D 75.484 155 37 1 1061 1215 618864823 618864976 1.590000e-09 75.0
23 TraesCS1D01G218000 chr6A 97.436 39 0 1 102 139 522206149 522206187 9.590000e-07 65.8


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 TraesCS1D01G218000 chr1D 303515182 303519315 4133 True 7635.00 7635 100.000000 1 4134 1 chr1D.!!$R1 4133
1 TraesCS1D01G218000 chr1A 381095292 381099406 4114 True 1923.00 3136 92.068667 9 4134 3 chr1A.!!$R1 4125
2 TraesCS1D01G218000 chr1A 254351398 254351986 588 False 263.00 263 75.415000 2406 2988 1 chr1A.!!$F2 582
3 TraesCS1D01G218000 chr1B 411152883 411156739 3856 True 1264.25 2675 88.580500 245 3932 4 chr1B.!!$R1 3687
4 TraesCS1D01G218000 chr1B 288757736 288758336 600 False 257.00 257 75.162000 2406 3000 1 chr1B.!!$F1 594

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
941 978 0.105778 GCAATCCCCTCTCCTCTTCG 59.894 60.0 0.0 0.0 0.00 3.79 F
1584 1633 0.179048 TAACTCGCCAGCATCATGGG 60.179 55.0 0.0 0.0 40.97 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1876 1928 2.309613 TGATGCTTCACTTGCCACTTT 58.690 42.857 0.0 0.0 0.00 2.66 R
3458 3780 0.179111 CTTCGCTCGATAGCCCAACA 60.179 55.000 0.0 0.0 46.68 3.33 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
41 42 7.375834 CGGAAGCATGACATATACTACCTTTA 58.624 38.462 0.00 0.00 0.00 1.85
144 145 6.702723 TCAAAGTTGAATCTGAAAAAGCATGG 59.297 34.615 0.00 0.00 33.55 3.66
145 146 5.143376 AGTTGAATCTGAAAAAGCATGGG 57.857 39.130 0.00 0.00 0.00 4.00
146 147 3.598019 TGAATCTGAAAAAGCATGGGC 57.402 42.857 0.00 0.00 41.61 5.36
163 164 7.219484 GCATGGGCTAACTACATTATGAAAT 57.781 36.000 0.00 0.00 36.96 2.17
169 170 7.040409 GGGCTAACTACATTATGAAATGAAGGG 60.040 40.741 0.00 0.00 44.50 3.95
171 172 8.560374 GCTAACTACATTATGAAATGAAGGGAC 58.440 37.037 0.00 0.00 44.50 4.46
217 218 1.381872 AGGCTCAGGCGTGTAGGAT 60.382 57.895 6.26 0.00 39.81 3.24
220 221 0.528684 GCTCAGGCGTGTAGGATGTC 60.529 60.000 6.26 0.00 0.00 3.06
229 230 3.518590 CGTGTAGGATGTCTGGGTTAAC 58.481 50.000 0.00 0.00 0.00 2.01
272 274 0.174845 TAAGCCAATCCAGTCGACCG 59.825 55.000 13.01 0.70 0.00 4.79
317 319 1.305201 TCCGAAAACACTCCAGTTGC 58.695 50.000 0.00 0.00 0.00 4.17
325 327 0.588252 CACTCCAGTTGCAAAGGACG 59.412 55.000 15.82 14.02 0.00 4.79
375 377 1.251527 ATGCTCGTCACCCGACTTCT 61.252 55.000 0.00 0.00 41.60 2.85
377 379 0.524862 GCTCGTCACCCGACTTCTTA 59.475 55.000 0.00 0.00 41.60 2.10
378 380 1.467713 GCTCGTCACCCGACTTCTTAG 60.468 57.143 0.00 0.00 41.60 2.18
379 381 0.524862 TCGTCACCCGACTTCTTAGC 59.475 55.000 0.00 0.00 41.60 3.09
380 382 0.242825 CGTCACCCGACTTCTTAGCA 59.757 55.000 0.00 0.00 40.23 3.49
381 383 1.135083 CGTCACCCGACTTCTTAGCAT 60.135 52.381 0.00 0.00 40.23 3.79
485 487 2.677228 CCTTGGCCCAACCGATCT 59.323 61.111 0.00 0.00 43.94 2.75
507 509 1.607628 ACTCACTCACCTACACGTGTC 59.392 52.381 27.16 0.00 35.18 3.67
508 510 0.956633 TCACTCACCTACACGTGTCC 59.043 55.000 27.16 0.00 35.18 4.02
539 544 8.175716 GTGGTGCTAATTAGTCATGAAACTAAC 58.824 37.037 13.91 0.00 42.78 2.34
570 575 1.369983 ACCTCCCAACTAATCTCCCCT 59.630 52.381 0.00 0.00 0.00 4.79
609 614 6.515272 TCCTTGCAAATGGATAAACTTCTC 57.485 37.500 0.00 0.00 0.00 2.87
618 623 6.765915 ATGGATAAACTTCTCCTCAAAAGC 57.234 37.500 0.00 0.00 32.47 3.51
637 642 7.701924 TCAAAAGCGCAAATGGAAAAGATATAG 59.298 33.333 11.47 0.00 0.00 1.31
642 650 6.299604 CGCAAATGGAAAAGATATAGTAGCG 58.700 40.000 0.00 0.00 0.00 4.26
670 678 5.766174 GGAGACTACTGGTAGAATGGAGTAG 59.234 48.000 13.83 0.00 42.40 2.57
671 679 5.134661 AGACTACTGGTAGAATGGAGTAGC 58.865 45.833 13.83 0.00 41.03 3.58
674 682 2.427453 ACTGGTAGAATGGAGTAGCGTG 59.573 50.000 0.00 0.00 0.00 5.34
682 690 1.360911 GGAGTAGCGTGGCTCTAGC 59.639 63.158 0.00 0.00 40.44 3.42
693 701 2.532256 GCTCTAGCCGTGCATGCAG 61.532 63.158 23.41 11.99 34.31 4.41
718 726 2.143925 GAGGAAAAGTGTCAACCCGAG 58.856 52.381 0.00 0.00 0.00 4.63
941 978 0.105778 GCAATCCCCTCTCCTCTTCG 59.894 60.000 0.00 0.00 0.00 3.79
1070 1107 1.376466 GCTCCAAGCTCCTCCACAA 59.624 57.895 0.00 0.00 38.45 3.33
1218 1267 2.270205 CAGGTCCAGCAGGCGAAT 59.730 61.111 0.00 0.00 33.74 3.34
1549 1598 2.594303 CAACACCTCGCCTTGCCA 60.594 61.111 0.00 0.00 0.00 4.92
1552 1601 1.244019 AACACCTCGCCTTGCCAATC 61.244 55.000 0.00 0.00 0.00 2.67
1559 1608 0.748450 CGCCTTGCCAATCATCCATT 59.252 50.000 0.00 0.00 0.00 3.16
1563 1612 3.181458 GCCTTGCCAATCATCCATTTCAT 60.181 43.478 0.00 0.00 0.00 2.57
1566 1615 6.584488 CCTTGCCAATCATCCATTTCATTTA 58.416 36.000 0.00 0.00 0.00 1.40
1570 1619 7.267128 TGCCAATCATCCATTTCATTTAACTC 58.733 34.615 0.00 0.00 0.00 3.01
1584 1633 0.179048 TAACTCGCCAGCATCATGGG 60.179 55.000 0.00 0.00 40.97 4.00
1587 1636 2.111669 CGCCAGCATCATGGGCTA 59.888 61.111 11.62 0.00 45.53 3.93
1589 1638 1.900498 GCCAGCATCATGGGCTACC 60.900 63.158 11.62 3.85 44.32 3.18
1601 1650 3.630625 TGGGCTACCATAGTCTACCAT 57.369 47.619 0.00 0.00 43.37 3.55
1602 1651 4.752621 TGGGCTACCATAGTCTACCATA 57.247 45.455 0.00 0.00 43.37 2.74
1603 1652 5.285317 TGGGCTACCATAGTCTACCATAT 57.715 43.478 0.00 0.00 43.37 1.78
1604 1653 6.411675 TGGGCTACCATAGTCTACCATATA 57.588 41.667 0.00 0.00 43.37 0.86
1605 1654 6.192773 TGGGCTACCATAGTCTACCATATAC 58.807 44.000 0.00 0.00 43.37 1.47
1606 1655 6.192773 GGGCTACCATAGTCTACCATATACA 58.807 44.000 0.00 0.00 36.50 2.29
1607 1656 6.666546 GGGCTACCATAGTCTACCATATACAA 59.333 42.308 0.00 0.00 36.50 2.41
1608 1657 7.179694 GGGCTACCATAGTCTACCATATACAAA 59.820 40.741 0.00 0.00 36.50 2.83
1609 1658 8.759782 GGCTACCATAGTCTACCATATACAAAT 58.240 37.037 0.00 0.00 0.00 2.32
1657 1706 7.039504 GGGTGCAATAGAATCAATCAACCATAT 60.040 37.037 0.00 0.00 30.63 1.78
1663 1712 4.697352 AGAATCAATCAACCATATAGCGCC 59.303 41.667 2.29 0.00 0.00 6.53
1697 1746 8.905103 ATCGAAGTTAAATTGGTTTAATTCGG 57.095 30.769 21.11 12.64 42.15 4.30
1711 1761 7.105588 GGTTTAATTCGGTTAGGTTTCCTCTA 58.894 38.462 0.00 0.00 34.61 2.43
1759 1810 2.730094 CCCTGGTTGTGCAAGTGC 59.270 61.111 0.00 0.00 42.50 4.40
1805 1857 4.006989 TCAGTTATGCTACATGGCGTTTT 58.993 39.130 0.00 0.00 33.19 2.43
1876 1928 1.144708 TCCACTTGGACAAGCAATCCA 59.855 47.619 11.73 0.00 44.74 3.41
1892 1944 1.032014 TCCAAAGTGGCAAGTGAAGC 58.968 50.000 0.00 0.00 37.47 3.86
1955 2007 2.050691 GTTATTGTTTGCGTGTGCCAG 58.949 47.619 0.00 0.00 41.78 4.85
1961 2013 1.535462 GTTTGCGTGTGCCAGATTAGT 59.465 47.619 0.00 0.00 41.78 2.24
2051 2106 1.566298 GCCATGGGTTCTGGAGGAGT 61.566 60.000 15.13 0.00 35.70 3.85
3016 3080 3.310860 GAAGACCATGGCCGACGGT 62.311 63.158 16.73 10.14 35.12 4.83
3180 3244 3.716353 TCACATCCCCTTGTGTATATGCT 59.284 43.478 4.67 0.00 45.73 3.79
3224 3288 5.044105 GGGAAGGGGGCTGTATATTATGATT 60.044 44.000 0.00 0.00 0.00 2.57
3380 3702 6.003950 CCTCCTTCAAGGACTCAAACAATTA 58.996 40.000 0.34 0.00 40.06 1.40
3458 3780 1.884579 TCGAGAAGGCGAGTTTACAGT 59.115 47.619 0.00 0.00 35.01 3.55
3471 3797 3.259876 AGTTTACAGTGTTGGGCTATCGA 59.740 43.478 0.00 0.00 0.00 3.59
3637 4018 8.525290 ACTTGATCTTATTTGTCCCATTAAGG 57.475 34.615 0.00 0.00 37.03 2.69
3683 4064 5.981315 GGATCGTATCACCATTAACTTTCGA 59.019 40.000 0.00 0.00 0.00 3.71
3685 4066 5.712004 TCGTATCACCATTAACTTTCGACA 58.288 37.500 0.00 0.00 0.00 4.35
3691 4072 5.995282 TCACCATTAACTTTCGACACAATCT 59.005 36.000 0.00 0.00 0.00 2.40
3742 4123 5.769484 TCTTTATGACCCACTACTCGATC 57.231 43.478 0.00 0.00 0.00 3.69
3860 4244 2.993899 CAACTAGTACTTGAAGCGTGGG 59.006 50.000 11.43 0.00 0.00 4.61
3868 4252 2.000447 CTTGAAGCGTGGGTAAGTAGC 59.000 52.381 0.00 0.00 0.00 3.58
3886 4275 0.107214 GCCATCTTGGATGGTCGGAA 60.107 55.000 22.50 0.00 40.96 4.30
3894 4283 1.142060 TGGATGGTCGGAAAAGTGTGT 59.858 47.619 0.00 0.00 0.00 3.72
3896 4285 2.031157 GGATGGTCGGAAAAGTGTGTTG 60.031 50.000 0.00 0.00 0.00 3.33
3929 4318 3.574354 ATTGATCTCCTGCCTTCTTCC 57.426 47.619 0.00 0.00 0.00 3.46
4039 4428 2.035832 TCGACTTGAACACTCTGCATCA 59.964 45.455 0.00 0.00 0.00 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 2.585791 TATGTCATGCTTCCGCCGCA 62.586 55.000 0.00 0.00 42.25 5.69
118 119 7.386848 CCATGCTTTTTCAGATTCAACTTTGAT 59.613 33.333 0.00 0.00 37.00 2.57
124 125 3.681417 GCCCATGCTTTTTCAGATTCAAC 59.319 43.478 0.00 0.00 33.53 3.18
139 140 6.633500 TTTCATAATGTAGTTAGCCCATGC 57.367 37.500 0.00 0.00 37.95 4.06
144 145 7.719633 TCCCTTCATTTCATAATGTAGTTAGCC 59.280 37.037 0.00 0.00 41.54 3.93
145 146 8.560374 GTCCCTTCATTTCATAATGTAGTTAGC 58.440 37.037 0.00 0.00 41.54 3.09
146 147 9.838339 AGTCCCTTCATTTCATAATGTAGTTAG 57.162 33.333 0.00 0.00 41.54 2.34
153 154 7.014518 TGCCAATAGTCCCTTCATTTCATAATG 59.985 37.037 0.00 0.00 42.06 1.90
160 161 4.141869 GCATTGCCAATAGTCCCTTCATTT 60.142 41.667 0.00 0.00 0.00 2.32
163 164 2.378038 GCATTGCCAATAGTCCCTTCA 58.622 47.619 0.00 0.00 0.00 3.02
213 214 2.915869 TCCTGTTAACCCAGACATCCT 58.084 47.619 2.48 0.00 34.23 3.24
217 218 3.248024 AGTGATCCTGTTAACCCAGACA 58.752 45.455 2.48 0.00 34.23 3.41
220 221 2.496070 TCGAGTGATCCTGTTAACCCAG 59.504 50.000 2.48 0.00 0.00 4.45
229 230 1.354040 GTGCAGTTCGAGTGATCCTG 58.646 55.000 0.00 0.00 0.00 3.86
317 319 2.599973 GCTAAATGCATTGCGTCCTTTG 59.400 45.455 13.82 0.00 42.31 2.77
325 327 4.354587 GGTGACTAAGCTAAATGCATTGC 58.645 43.478 13.82 13.10 45.94 3.56
375 377 0.472044 TGGCGGGATGCTAATGCTAA 59.528 50.000 0.00 0.00 45.43 3.09
377 379 1.526917 GTGGCGGGATGCTAATGCT 60.527 57.895 0.00 0.00 45.43 3.79
378 380 1.823470 TGTGGCGGGATGCTAATGC 60.823 57.895 0.00 0.00 45.43 3.56
379 381 1.775039 CGTGTGGCGGGATGCTAATG 61.775 60.000 0.00 0.00 45.43 1.90
380 382 1.523711 CGTGTGGCGGGATGCTAAT 60.524 57.895 0.00 0.00 45.43 1.73
381 383 2.125310 CGTGTGGCGGGATGCTAA 60.125 61.111 0.00 0.00 45.43 3.09
402 404 3.253677 GGGAAGCGAAGATTATCTCTCGA 59.746 47.826 21.54 0.00 34.67 4.04
404 406 3.570559 CGGGAAGCGAAGATTATCTCTC 58.429 50.000 0.00 0.00 34.67 3.20
485 487 1.607148 CACGTGTAGGTGAGTGAGTGA 59.393 52.381 7.58 0.00 40.38 3.41
508 510 3.322369 TGACTAATTAGCACCACACGTG 58.678 45.455 15.48 15.48 46.03 4.49
570 575 6.159299 TGCAAGGATTCAATTTGTTTCTCA 57.841 33.333 0.00 0.00 0.00 3.27
609 614 2.437200 TTCCATTTGCGCTTTTGAGG 57.563 45.000 9.73 3.26 0.00 3.86
618 623 6.299604 CGCTACTATATCTTTTCCATTTGCG 58.700 40.000 0.00 0.00 0.00 4.85
637 642 1.874872 CCAGTAGTCTCCTAGCGCTAC 59.125 57.143 14.45 6.03 35.37 3.58
642 650 4.521256 CCATTCTACCAGTAGTCTCCTAGC 59.479 50.000 4.81 0.00 34.84 3.42
682 690 4.100084 TCTCCCCTGCATGCACGG 62.100 66.667 24.18 24.18 0.00 4.94
693 701 2.505405 GTTGACACTTTTCCTCTCCCC 58.495 52.381 0.00 0.00 0.00 4.81
718 726 1.482593 CTGTGGAGTGGAGTGGATACC 59.517 57.143 0.00 0.00 0.00 2.73
941 978 1.027792 AGAGAGTCGTCGGAGGAAGC 61.028 60.000 1.41 0.00 0.00 3.86
1549 1598 6.096705 TGGCGAGTTAAATGAAATGGATGATT 59.903 34.615 0.00 0.00 0.00 2.57
1552 1601 5.247507 TGGCGAGTTAAATGAAATGGATG 57.752 39.130 0.00 0.00 0.00 3.51
1559 1608 3.342719 TGATGCTGGCGAGTTAAATGAA 58.657 40.909 0.00 0.00 0.00 2.57
1563 1612 2.016318 CCATGATGCTGGCGAGTTAAA 58.984 47.619 0.00 0.00 0.00 1.52
1566 1615 1.452651 CCCATGATGCTGGCGAGTT 60.453 57.895 0.00 0.00 34.77 3.01
1609 1658 9.642343 CACCCTGTTAGAGTATATAGGCATATA 57.358 37.037 0.00 0.00 0.00 0.86
1610 1659 7.070074 GCACCCTGTTAGAGTATATAGGCATAT 59.930 40.741 0.00 0.00 0.00 1.78
1611 1660 6.380274 GCACCCTGTTAGAGTATATAGGCATA 59.620 42.308 0.00 0.00 0.00 3.14
1612 1661 5.187967 GCACCCTGTTAGAGTATATAGGCAT 59.812 44.000 0.00 0.00 0.00 4.40
1613 1662 4.527038 GCACCCTGTTAGAGTATATAGGCA 59.473 45.833 0.00 0.00 0.00 4.75
1614 1663 4.527038 TGCACCCTGTTAGAGTATATAGGC 59.473 45.833 0.00 0.00 0.00 3.93
1615 1664 6.665992 TTGCACCCTGTTAGAGTATATAGG 57.334 41.667 0.00 0.00 0.00 2.57
1616 1665 9.244292 TCTATTGCACCCTGTTAGAGTATATAG 57.756 37.037 0.00 0.00 0.00 1.31
1617 1666 9.596308 TTCTATTGCACCCTGTTAGAGTATATA 57.404 33.333 0.00 0.00 0.00 0.86
1618 1667 8.492415 TTCTATTGCACCCTGTTAGAGTATAT 57.508 34.615 0.00 0.00 0.00 0.86
1619 1668 7.907841 TTCTATTGCACCCTGTTAGAGTATA 57.092 36.000 0.00 0.00 0.00 1.47
1620 1669 6.808321 TTCTATTGCACCCTGTTAGAGTAT 57.192 37.500 0.00 0.00 0.00 2.12
1621 1670 6.382859 TGATTCTATTGCACCCTGTTAGAGTA 59.617 38.462 0.00 0.00 0.00 2.59
1622 1671 5.189736 TGATTCTATTGCACCCTGTTAGAGT 59.810 40.000 0.00 0.00 0.00 3.24
1623 1672 5.674525 TGATTCTATTGCACCCTGTTAGAG 58.325 41.667 0.00 0.00 0.00 2.43
1624 1673 5.692115 TGATTCTATTGCACCCTGTTAGA 57.308 39.130 0.00 0.00 0.00 2.10
1625 1674 6.543465 TGATTGATTCTATTGCACCCTGTTAG 59.457 38.462 0.00 0.00 0.00 2.34
1626 1675 6.422333 TGATTGATTCTATTGCACCCTGTTA 58.578 36.000 0.00 0.00 0.00 2.41
1627 1676 5.263599 TGATTGATTCTATTGCACCCTGTT 58.736 37.500 0.00 0.00 0.00 3.16
1628 1677 4.858850 TGATTGATTCTATTGCACCCTGT 58.141 39.130 0.00 0.00 0.00 4.00
1629 1678 5.450965 GGTTGATTGATTCTATTGCACCCTG 60.451 44.000 0.00 0.00 0.00 4.45
1630 1679 4.646492 GGTTGATTGATTCTATTGCACCCT 59.354 41.667 0.00 0.00 0.00 4.34
1631 1680 4.402155 TGGTTGATTGATTCTATTGCACCC 59.598 41.667 0.00 0.00 0.00 4.61
1632 1681 5.581126 TGGTTGATTGATTCTATTGCACC 57.419 39.130 0.00 0.00 0.00 5.01
1673 1722 7.873910 ACCGAATTAAACCAATTTAACTTCGA 58.126 30.769 21.90 0.00 43.30 3.71
1676 1725 9.917129 CCTAACCGAATTAAACCAATTTAACTT 57.083 29.630 0.00 0.00 41.84 2.66
1697 1746 6.718294 TCCCAAATTCTAGAGGAAACCTAAC 58.282 40.000 0.00 0.00 37.49 2.34
1711 1761 5.545063 ACCGACAAATTTTCCCAAATTCT 57.455 34.783 0.00 0.00 41.02 2.40
1805 1857 5.880332 GGAATGACAAAGTGAGCCTGTAATA 59.120 40.000 0.00 0.00 0.00 0.98
1876 1928 2.309613 TGATGCTTCACTTGCCACTTT 58.690 42.857 0.00 0.00 0.00 2.66
1955 2007 6.891624 TCATTCGCTAATCATGCAACTAATC 58.108 36.000 0.00 0.00 0.00 1.75
1961 2013 6.203647 CAATTCTCATTCGCTAATCATGCAA 58.796 36.000 0.00 0.00 0.00 4.08
3224 3288 1.163420 CCTGTAACCTGCACGCACAA 61.163 55.000 0.00 0.00 0.00 3.33
3415 3737 3.181521 CGCTGTGATTAACGCATTTGAGA 60.182 43.478 0.00 0.00 38.38 3.27
3417 3739 2.482336 ACGCTGTGATTAACGCATTTGA 59.518 40.909 0.00 0.00 38.38 2.69
3455 3777 1.148157 CGCTCGATAGCCCAACACTG 61.148 60.000 0.00 0.00 46.68 3.66
3458 3780 0.179111 CTTCGCTCGATAGCCCAACA 60.179 55.000 0.00 0.00 46.68 3.33
3471 3797 1.202698 GCATCAATACCTCCCTTCGCT 60.203 52.381 0.00 0.00 0.00 4.93
3474 3800 3.152341 CATGGCATCAATACCTCCCTTC 58.848 50.000 0.00 0.00 0.00 3.46
3477 3803 1.915141 CCATGGCATCAATACCTCCC 58.085 55.000 0.00 0.00 0.00 4.30
3637 4018 9.651913 GATCCTATCACCATTCTCTATTTTCTC 57.348 37.037 0.00 0.00 0.00 2.87
3683 4064 1.068434 CGGTTGCCCAAAAGATTGTGT 59.932 47.619 0.00 0.00 34.60 3.72
3685 4066 1.339929 GACGGTTGCCCAAAAGATTGT 59.660 47.619 0.00 0.00 34.60 2.71
3691 4072 1.395826 CCAAGGACGGTTGCCCAAAA 61.396 55.000 0.00 0.00 0.00 2.44
3756 4137 7.386851 CAACTCTGAAAGTTAGAATCCTGGTA 58.613 38.462 0.00 0.00 46.69 3.25
3803 4187 7.510549 TTTCTGGGTGAAATCAAGAGTTAAG 57.489 36.000 0.00 0.00 39.50 1.85
3860 4244 4.381411 GACCATCCAAGATGGCTACTTAC 58.619 47.826 20.93 3.69 42.82 2.34
3868 4252 2.418368 TTTCCGACCATCCAAGATGG 57.582 50.000 19.71 19.71 44.54 3.51
3886 4275 8.567948 CAATAAATGACTCCTACAACACACTTT 58.432 33.333 0.00 0.00 0.00 2.66
3929 4318 4.999950 GCAACATATGATTAGAGGTGGGAG 59.000 45.833 10.38 0.00 0.00 4.30
4039 4428 5.988310 TCAGCATCTCATTCAAACCAATT 57.012 34.783 0.00 0.00 0.00 2.32
4058 4447 1.522580 GGCCTCCGCTAGCTTTCAG 60.523 63.158 13.93 2.81 34.44 3.02
4069 4458 4.248859 CATCTATAAAGTGATGGCCTCCG 58.751 47.826 3.32 0.00 37.13 4.63


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

AutoCloner maintained by Alex Coulton.