Multiple sequence alignment - TraesCS4A01G222500

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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 TraesCS4A01G222500 chr4A 100.000 4227 0 0 1 4227 529632972 529628746 0.000000e+00 7806.0
1 TraesCS4A01G222500 chr4D 95.904 3882 108 15 372 4227 65933700 65937556 0.000000e+00 6240.0
2 TraesCS4A01G222500 chr4D 94.150 359 18 3 33 389 65933328 65933685 1.030000e-150 544.0
3 TraesCS4A01G222500 chr4D 84.722 72 9 2 1870 1939 302003439 302003510 2.110000e-08 71.3
4 TraesCS4A01G222500 chr4B 94.840 1841 58 11 2404 4227 96637887 96639707 0.000000e+00 2839.0
5 TraesCS4A01G222500 chr4B 93.507 1417 68 14 386 1780 96635956 96637370 0.000000e+00 2085.0
6 TraesCS4A01G222500 chr4B 93.450 458 17 11 1955 2402 96637394 96637848 0.000000e+00 667.0
7 TraesCS4A01G222500 chr6D 77.551 245 51 4 139 379 455095383 455095139 1.220000e-30 145.0
8 TraesCS4A01G222500 chr6D 94.231 52 3 0 1866 1917 90111206 90111257 3.500000e-11 80.5
9 TraesCS4A01G222500 chr2D 78.333 240 40 11 146 380 1664487 1664255 1.220000e-30 145.0
10 TraesCS4A01G222500 chr2D 80.916 131 23 2 201 330 461798078 461798207 7.480000e-18 102.0
11 TraesCS4A01G222500 chr3A 76.419 229 44 9 147 371 95943798 95943576 9.600000e-22 115.0
12 TraesCS4A01G222500 chr6B 77.711 166 32 5 139 300 532150250 532150414 3.480000e-16 97.1
13 TraesCS4A01G222500 chr6B 77.612 134 23 5 226 357 459382759 459382887 1.630000e-09 75.0
14 TraesCS4A01G222500 chr6B 90.741 54 3 2 146 197 504724535 504724482 2.110000e-08 71.3
15 TraesCS4A01G222500 chr2A 97.917 48 1 0 1871 1918 11993637 11993684 2.710000e-12 84.2
16 TraesCS4A01G222500 chr2A 85.135 74 9 2 1974 2046 507640488 507640560 1.630000e-09 75.0
17 TraesCS4A01G222500 chr7D 94.118 51 3 0 1870 1920 514658866 514658916 1.260000e-10 78.7
18 TraesCS4A01G222500 chr7B 88.235 68 5 3 1977 2044 106117995 106118059 1.260000e-10 78.7
19 TraesCS4A01G222500 chr7B 95.833 48 2 0 1868 1915 447707462 447707415 1.260000e-10 78.7
20 TraesCS4A01G222500 chr3B 88.235 68 5 3 1977 2044 487558840 487558776 1.260000e-10 78.7
21 TraesCS4A01G222500 chr3B 87.692 65 6 2 1836 1899 46030809 46030872 1.630000e-09 75.0
22 TraesCS4A01G222500 chr6A 94.000 50 3 0 1870 1919 222554945 222554896 4.530000e-10 76.8
23 TraesCS4A01G222500 chr1D 83.750 80 10 2 1837 1916 10647464 10647388 5.860000e-09 73.1
24 TraesCS4A01G222500 chr1D 85.455 55 7 1 269 323 458683929 458683876 5.900000e-04 56.5
25 TraesCS4A01G222500 chr2B 86.667 60 7 1 139 197 162395011 162394952 9.810000e-07 65.8
26 TraesCS4A01G222500 chrUn 95.000 40 2 0 269 308 32082978 32082939 3.530000e-06 63.9


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 TraesCS4A01G222500 chr4A 529628746 529632972 4226 True 7806.000000 7806 100.000000 1 4227 1 chr4A.!!$R1 4226
1 TraesCS4A01G222500 chr4D 65933328 65937556 4228 False 3392.000000 6240 95.027000 33 4227 2 chr4D.!!$F2 4194
2 TraesCS4A01G222500 chr4B 96635956 96639707 3751 False 1863.666667 2839 93.932333 386 4227 3 chr4B.!!$F1 3841

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
735 772 0.914644 CAATCAGAGAGGCCCCTCAA 59.085 55.000 17.59 4.36 44.99 3.02 F
871 908 2.288395 CCGCCAGATTAAATTCCCATGC 60.288 50.000 0.00 0.00 0.00 4.06 F
1362 1403 3.834610 CATCAAGAACTACGACGACCTT 58.165 45.455 0.00 0.00 0.00 3.50 F
2735 2854 2.501316 TCGCAGGATTCTGATGGAAGAA 59.499 45.455 4.75 0.00 43.49 2.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2456 2575 0.178533 TTTTCGGGACACGTTGAGGT 59.821 50.000 0.0 0.0 44.69 3.85 R
2735 2854 1.066605 GCATCTTGCTCGCCATCATTT 59.933 47.619 0.0 0.0 40.96 2.32 R
3145 3264 1.522569 GTCCCCGACCTTGATCCTG 59.477 63.158 0.0 0.0 0.00 3.86 R
4033 4170 2.034305 ACGCAGTGAATACCCTATCGTC 59.966 50.000 0.0 0.0 42.51 4.20 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
23 24 6.581171 ATTTGAGGGAATGACAGTTTCTTC 57.419 37.500 0.00 0.00 0.00 2.87
24 25 4.705110 TGAGGGAATGACAGTTTCTTCA 57.295 40.909 0.00 0.00 0.00 3.02
25 26 4.389374 TGAGGGAATGACAGTTTCTTCAC 58.611 43.478 0.00 0.00 0.00 3.18
26 27 4.141505 TGAGGGAATGACAGTTTCTTCACA 60.142 41.667 0.00 0.00 0.00 3.58
27 28 4.392940 AGGGAATGACAGTTTCTTCACAG 58.607 43.478 0.00 0.00 0.00 3.66
28 29 4.137543 GGGAATGACAGTTTCTTCACAGT 58.862 43.478 0.00 0.00 0.00 3.55
29 30 4.023707 GGGAATGACAGTTTCTTCACAGTG 60.024 45.833 0.00 0.00 0.00 3.66
30 31 4.816385 GGAATGACAGTTTCTTCACAGTGA 59.184 41.667 0.00 0.00 0.00 3.41
31 32 5.277538 GGAATGACAGTTTCTTCACAGTGAC 60.278 44.000 1.52 0.00 0.00 3.67
146 147 1.208052 ACCTCTATGAATGCACGCACT 59.792 47.619 0.00 0.00 0.00 4.40
165 166 2.968574 ACTACCCATATGAGCACCTCTG 59.031 50.000 3.65 0.00 0.00 3.35
167 168 2.481441 ACCCATATGAGCACCTCTGAA 58.519 47.619 3.65 0.00 0.00 3.02
176 177 3.326006 TGAGCACCTCTGAAAGACTGAAT 59.674 43.478 0.00 0.00 38.67 2.57
179 180 4.067896 GCACCTCTGAAAGACTGAATCAA 58.932 43.478 0.00 0.00 38.67 2.57
198 199 6.694877 ATCAACACATCATCTTGAGATTGG 57.305 37.500 0.00 0.00 31.21 3.16
252 254 1.559682 ACATCCCCTCGCACTAAATGT 59.440 47.619 0.00 0.00 0.00 2.71
254 256 2.973694 TCCCCTCGCACTAAATGTAC 57.026 50.000 0.00 0.00 0.00 2.90
303 305 1.076332 AAAATACGAGCGCCAGTGTC 58.924 50.000 14.57 0.00 0.00 3.67
308 310 2.375766 CGAGCGCCAGTGTCAAGTC 61.376 63.158 2.29 0.00 0.00 3.01
316 318 2.353208 GCCAGTGTCAAGTCTAGGTCTG 60.353 54.545 0.00 0.00 0.00 3.51
325 327 3.818295 AGTCTAGGTCTGGAACTCTGT 57.182 47.619 0.00 0.00 0.00 3.41
351 353 3.733337 CTGTGGGCATACTATTGTCCTC 58.267 50.000 0.00 0.00 42.12 3.71
376 379 2.227194 CCACCACCACAAGTTAGTTCC 58.773 52.381 0.00 0.00 0.00 3.62
378 381 1.847737 ACCACCACAAGTTAGTTCCCA 59.152 47.619 0.00 0.00 0.00 4.37
465 500 2.885266 AGAACGCTCTAGATGCCGAATA 59.115 45.455 12.64 0.00 0.00 1.75
623 660 7.965107 CCAAATAATCAAAGAGTCTAACTGTGC 59.035 37.037 0.00 0.00 0.00 4.57
735 772 0.914644 CAATCAGAGAGGCCCCTCAA 59.085 55.000 17.59 4.36 44.99 3.02
851 888 3.703052 AGAAATGAAGCCATTCCATGACC 59.297 43.478 0.00 0.00 41.84 4.02
871 908 2.288395 CCGCCAGATTAAATTCCCATGC 60.288 50.000 0.00 0.00 0.00 4.06
1362 1403 3.834610 CATCAAGAACTACGACGACCTT 58.165 45.455 0.00 0.00 0.00 3.50
1529 1573 5.734498 GCAAAGATATCACGTCACAATTGTC 59.266 40.000 8.48 0.00 0.00 3.18
1597 1643 6.092122 TGAAGTATGATCACACGATGGAAAAC 59.908 38.462 0.00 0.00 29.66 2.43
1797 1868 7.639113 AAAAAGCGTAGGATCCATATTGAAA 57.361 32.000 15.82 0.00 0.00 2.69
1798 1869 7.639113 AAAAGCGTAGGATCCATATTGAAAA 57.361 32.000 15.82 0.00 0.00 2.29
1799 1870 6.619801 AAGCGTAGGATCCATATTGAAAAC 57.380 37.500 15.82 0.00 0.00 2.43
1800 1871 5.930135 AGCGTAGGATCCATATTGAAAACT 58.070 37.500 15.82 0.00 0.00 2.66
1801 1872 7.062749 AGCGTAGGATCCATATTGAAAACTA 57.937 36.000 15.82 0.00 0.00 2.24
1802 1873 6.929606 AGCGTAGGATCCATATTGAAAACTAC 59.070 38.462 15.82 2.02 0.00 2.73
1803 1874 6.929606 GCGTAGGATCCATATTGAAAACTACT 59.070 38.462 15.82 0.00 0.00 2.57
1910 1981 4.321008 GCGACAACTAATATGGATCGGAGA 60.321 45.833 0.00 0.00 45.75 3.71
1913 1984 6.334102 ACAACTAATATGGATCGGAGAGAC 57.666 41.667 0.00 0.00 43.63 3.36
1923 1994 4.282449 TGGATCGGAGAGACTACAAACAAA 59.718 41.667 0.00 0.00 43.63 2.83
1928 1999 5.713389 TCGGAGAGACTACAAACAAATCCTA 59.287 40.000 0.00 0.00 0.00 2.94
2556 2675 8.769891 TGTAAACAAATCTGCACATATATACCG 58.230 33.333 0.00 0.00 0.00 4.02
2735 2854 2.501316 TCGCAGGATTCTGATGGAAGAA 59.499 45.455 4.75 0.00 43.49 2.52
3010 3129 3.771577 AACATCGGGAAGAAGTTCTGT 57.228 42.857 6.06 0.00 36.14 3.41
3145 3264 2.358737 CACTTCTCCGGCCACCAC 60.359 66.667 2.24 0.00 0.00 4.16
3146 3265 2.847234 ACTTCTCCGGCCACCACA 60.847 61.111 2.24 0.00 0.00 4.17
3215 3334 2.301870 ACCTTCAACGTCAGCATAAGGA 59.698 45.455 13.88 0.00 37.51 3.36
3304 3423 4.662278 TGTCTTGGATTTGTCCCTTTAGG 58.338 43.478 0.00 0.00 0.00 2.69
3348 3475 0.534203 TCTCGGGTTCCAAACAGCAC 60.534 55.000 0.00 0.00 0.00 4.40
3418 3545 7.701539 ACAGAGCAACAAATGAAACCATATA 57.298 32.000 0.00 0.00 0.00 0.86
3558 3685 8.361139 CCATACAGGACTAGTTTATACTTCCAG 58.639 40.741 0.00 2.25 41.22 3.86
3559 3686 6.793505 ACAGGACTAGTTTATACTTCCAGG 57.206 41.667 0.00 2.30 34.85 4.45
3648 3781 8.997323 TGCAAAAATAATTTGGTGATGGTTTAG 58.003 29.630 3.41 0.00 0.00 1.85
3683 3816 6.040842 TCAAAATCTTAAGAAAAGGCAGCAGT 59.959 34.615 9.71 0.00 0.00 4.40
3774 3908 9.598517 TTTCTTTCATTGGCATACATATTTTCC 57.401 29.630 0.00 0.00 0.00 3.13
3781 3915 7.473735 TTGGCATACATATTTTCCTCAAACA 57.526 32.000 0.00 0.00 0.00 2.83
3783 3917 6.096705 TGGCATACATATTTTCCTCAAACAGG 59.903 38.462 0.00 0.00 45.15 4.00
3809 3943 3.088532 TGCTGTTACATGATGTTTCCCC 58.911 45.455 2.29 0.00 0.00 4.81
3947 4084 1.089112 CGCATCATGTCTGGAGCAAA 58.911 50.000 0.00 0.00 0.00 3.68
4033 4170 5.173673 CACACAAAATTTGAACTCCATGACG 59.826 40.000 13.19 0.00 0.00 4.35
4040 4177 3.692791 TGAACTCCATGACGACGATAG 57.307 47.619 0.00 0.00 46.19 2.08
4060 4197 2.997986 AGGGTATTCACTGCGTTAAACG 59.002 45.455 0.00 0.00 45.88 3.60
4136 4273 9.639563 TGGAATGCTAATAATCACTTGGATTTA 57.360 29.630 0.00 0.00 43.76 1.40
4203 4340 2.553904 CCAGGCAAAGATCACTTCCTGT 60.554 50.000 17.23 0.00 42.05 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.015940 GTGAAGAAACTGTCATTCCCTCAAAT 60.016 38.462 0.00 0.00 0.00 2.32
1 2 5.299279 GTGAAGAAACTGTCATTCCCTCAAA 59.701 40.000 0.00 0.00 0.00 2.69
2 3 4.821805 GTGAAGAAACTGTCATTCCCTCAA 59.178 41.667 0.00 0.00 0.00 3.02
3 4 4.141505 TGTGAAGAAACTGTCATTCCCTCA 60.142 41.667 0.00 0.00 0.00 3.86
4 5 4.389374 TGTGAAGAAACTGTCATTCCCTC 58.611 43.478 0.00 0.00 0.00 4.30
5 6 4.141390 ACTGTGAAGAAACTGTCATTCCCT 60.141 41.667 0.00 0.00 0.00 4.20
6 7 4.023707 CACTGTGAAGAAACTGTCATTCCC 60.024 45.833 0.32 0.00 30.69 3.97
7 8 4.816385 TCACTGTGAAGAAACTGTCATTCC 59.184 41.667 8.27 0.00 30.69 3.01
8 9 5.294306 TGTCACTGTGAAGAAACTGTCATTC 59.706 40.000 12.81 0.00 30.69 2.67
9 10 5.185454 TGTCACTGTGAAGAAACTGTCATT 58.815 37.500 12.81 0.00 30.69 2.57
10 11 4.769688 TGTCACTGTGAAGAAACTGTCAT 58.230 39.130 12.81 0.00 30.69 3.06
11 12 4.200838 TGTCACTGTGAAGAAACTGTCA 57.799 40.909 12.81 0.00 30.69 3.58
12 13 4.631813 AGTTGTCACTGTGAAGAAACTGTC 59.368 41.667 23.17 7.74 30.49 3.51
13 14 4.393062 CAGTTGTCACTGTGAAGAAACTGT 59.607 41.667 30.48 15.03 44.96 3.55
14 15 4.901814 CAGTTGTCACTGTGAAGAAACTG 58.098 43.478 28.58 28.58 44.96 3.16
26 27 5.891551 ACCCTTTTTGATAACAGTTGTCACT 59.108 36.000 12.00 0.00 30.13 3.41
27 28 6.144078 ACCCTTTTTGATAACAGTTGTCAC 57.856 37.500 12.00 0.00 30.13 3.67
28 29 6.459024 CGAACCCTTTTTGATAACAGTTGTCA 60.459 38.462 8.58 8.58 0.00 3.58
29 30 5.912955 CGAACCCTTTTTGATAACAGTTGTC 59.087 40.000 3.12 3.12 0.00 3.18
30 31 5.735070 GCGAACCCTTTTTGATAACAGTTGT 60.735 40.000 0.00 0.00 0.00 3.32
31 32 4.679654 GCGAACCCTTTTTGATAACAGTTG 59.320 41.667 0.00 0.00 0.00 3.16
36 37 3.743886 CGAGCGAACCCTTTTTGATAAC 58.256 45.455 0.00 0.00 0.00 1.89
105 106 4.261867 GGTATGTGTATGTATGAGCGTCCA 60.262 45.833 0.00 0.00 0.00 4.02
146 147 3.328535 TCAGAGGTGCTCATATGGGTA 57.671 47.619 4.11 0.00 32.06 3.69
165 166 7.375106 AGATGATGTGTTGATTCAGTCTTTC 57.625 36.000 0.00 0.00 0.00 2.62
167 168 6.938596 TCAAGATGATGTGTTGATTCAGTCTT 59.061 34.615 0.00 0.00 35.40 3.01
176 177 4.945543 CCCAATCTCAAGATGATGTGTTGA 59.054 41.667 0.00 0.00 37.73 3.18
179 180 4.849813 TCCCAATCTCAAGATGATGTGT 57.150 40.909 0.00 0.00 34.49 3.72
198 199 3.241177 GGCGTTGTGTCGACTTCC 58.759 61.111 17.92 5.35 35.78 3.46
228 230 1.568504 TAGTGCGAGGGGATGTTTCT 58.431 50.000 0.00 0.00 0.00 2.52
252 254 1.271856 TCAGTCCTTCCGGCAATGTA 58.728 50.000 0.00 0.00 0.00 2.29
254 256 1.533625 TTTCAGTCCTTCCGGCAATG 58.466 50.000 0.00 0.00 0.00 2.82
303 305 3.829601 ACAGAGTTCCAGACCTAGACTTG 59.170 47.826 0.00 0.00 0.00 3.16
308 310 2.234908 CCCAACAGAGTTCCAGACCTAG 59.765 54.545 0.00 0.00 0.00 3.02
316 318 0.890996 CCACAGCCCAACAGAGTTCC 60.891 60.000 0.00 0.00 0.00 3.62
325 327 1.221635 ATAGTATGCCCACAGCCCAA 58.778 50.000 0.00 0.00 42.71 4.12
351 353 2.358322 AACTTGTGGTGGTGGTTAGG 57.642 50.000 0.00 0.00 0.00 2.69
376 379 6.970613 CACATGTAACATCATCTCAACATTGG 59.029 38.462 0.00 0.00 0.00 3.16
378 381 7.692460 ACACATGTAACATCATCTCAACATT 57.308 32.000 0.00 0.00 0.00 2.71
426 461 7.989826 AGCGTTCTATTCTTTAGCATTGAAAT 58.010 30.769 0.00 0.00 0.00 2.17
465 500 1.459455 CGTCGGCAGATCTCCCTCAT 61.459 60.000 0.06 0.00 0.00 2.90
590 627 8.744568 AGACTCTTTGATTATTTGGAGGATTC 57.255 34.615 0.00 0.00 0.00 2.52
623 660 3.000041 TGGTAGCAAAGCGATTACACAG 59.000 45.455 0.00 0.00 0.00 3.66
704 741 6.183360 GGCCTCTCTGATTGGAAGATTTTTAC 60.183 42.308 0.00 0.00 0.00 2.01
851 888 2.624838 AGCATGGGAATTTAATCTGGCG 59.375 45.455 0.00 0.00 0.00 5.69
871 908 4.262164 GGGGCCAATATGTTTAGCATTGAG 60.262 45.833 4.39 0.00 38.94 3.02
993 1030 2.669391 GCTGTCGGAAGCCATTTTTCTG 60.669 50.000 0.00 0.00 37.20 3.02
1139 1180 4.864334 GGCTCATCAGGGTGGCCG 62.864 72.222 0.00 0.00 33.30 6.13
1176 1217 2.281002 TCTCGGACCACGTCGACA 60.281 61.111 17.16 0.00 44.69 4.35
1205 1246 0.165511 GAAGTAGACGTCGCTGTCGT 59.834 55.000 10.46 0.00 43.70 4.34
1614 1660 5.139435 TCATGAGGTGTACTTCTGTTGAG 57.861 43.478 0.00 0.00 0.00 3.02
1616 1662 6.618287 TTTTCATGAGGTGTACTTCTGTTG 57.382 37.500 0.00 0.00 0.00 3.33
1783 1854 8.571336 CAATCCAGTAGTTTTCAATATGGATCC 58.429 37.037 4.20 4.20 43.49 3.36
1784 1855 9.125026 ACAATCCAGTAGTTTTCAATATGGATC 57.875 33.333 4.41 0.00 43.49 3.36
1785 1856 9.479549 AACAATCCAGTAGTTTTCAATATGGAT 57.520 29.630 0.00 0.00 45.58 3.41
1786 1857 8.877864 AACAATCCAGTAGTTTTCAATATGGA 57.122 30.769 0.00 0.00 39.52 3.41
1787 1858 8.739039 TGAACAATCCAGTAGTTTTCAATATGG 58.261 33.333 0.00 0.00 0.00 2.74
1788 1859 9.559958 GTGAACAATCCAGTAGTTTTCAATATG 57.440 33.333 0.00 0.00 0.00 1.78
1789 1860 9.295825 TGTGAACAATCCAGTAGTTTTCAATAT 57.704 29.630 0.00 0.00 0.00 1.28
1790 1861 8.684386 TGTGAACAATCCAGTAGTTTTCAATA 57.316 30.769 0.00 0.00 0.00 1.90
1791 1862 7.581213 TGTGAACAATCCAGTAGTTTTCAAT 57.419 32.000 0.00 0.00 0.00 2.57
1792 1863 7.284261 TCATGTGAACAATCCAGTAGTTTTCAA 59.716 33.333 0.00 0.00 0.00 2.69
1793 1864 6.770303 TCATGTGAACAATCCAGTAGTTTTCA 59.230 34.615 0.00 0.00 0.00 2.69
1794 1865 7.202016 TCATGTGAACAATCCAGTAGTTTTC 57.798 36.000 0.00 0.00 0.00 2.29
1795 1866 7.765695 ATCATGTGAACAATCCAGTAGTTTT 57.234 32.000 0.00 0.00 0.00 2.43
1796 1867 7.765695 AATCATGTGAACAATCCAGTAGTTT 57.234 32.000 0.00 0.00 0.00 2.66
1797 1868 7.094205 GGAAATCATGTGAACAATCCAGTAGTT 60.094 37.037 0.00 0.00 0.00 2.24
1798 1869 6.375455 GGAAATCATGTGAACAATCCAGTAGT 59.625 38.462 0.00 0.00 0.00 2.73
1799 1870 6.600822 AGGAAATCATGTGAACAATCCAGTAG 59.399 38.462 0.00 0.00 0.00 2.57
1800 1871 6.484288 AGGAAATCATGTGAACAATCCAGTA 58.516 36.000 0.00 0.00 0.00 2.74
1801 1872 5.327732 AGGAAATCATGTGAACAATCCAGT 58.672 37.500 0.00 0.00 0.00 4.00
1802 1873 5.909621 AGGAAATCATGTGAACAATCCAG 57.090 39.130 0.00 0.00 0.00 3.86
1803 1874 6.244654 TGTAGGAAATCATGTGAACAATCCA 58.755 36.000 0.00 0.00 0.00 3.41
1952 2023 5.470437 TCCTACGTATGTTGTTTCATTTGCA 59.530 36.000 0.00 0.00 0.00 4.08
2076 2147 9.449719 AGTTAGTGAAATTAACATCCCAAGTAG 57.550 33.333 0.00 0.00 40.99 2.57
2456 2575 0.178533 TTTTCGGGACACGTTGAGGT 59.821 50.000 0.00 0.00 44.69 3.85
2457 2576 1.519408 ATTTTCGGGACACGTTGAGG 58.481 50.000 0.00 0.00 44.69 3.86
2556 2675 2.613133 CGCTCGCTATATCTACCTACCC 59.387 54.545 0.00 0.00 0.00 3.69
2735 2854 1.066605 GCATCTTGCTCGCCATCATTT 59.933 47.619 0.00 0.00 40.96 2.32
3010 3129 2.451990 CGCGATGCCGTTCATGACA 61.452 57.895 0.00 0.00 35.05 3.58
3145 3264 1.522569 GTCCCCGACCTTGATCCTG 59.477 63.158 0.00 0.00 0.00 3.86
3146 3265 4.051932 GTCCCCGACCTTGATCCT 57.948 61.111 0.00 0.00 0.00 3.24
3215 3334 3.454812 ACACTTCATTATTACTCGGCCCT 59.545 43.478 0.00 0.00 0.00 5.19
3348 3475 6.905076 GTGTATGTGGTTACATCTAAAATGCG 59.095 38.462 0.00 0.00 44.00 4.73
3376 3503 1.668751 TGTTTGTCAGCGAGTTTCCAC 59.331 47.619 0.00 0.00 0.00 4.02
3400 3527 6.757947 CCTGCCTTATATGGTTTCATTTGTTG 59.242 38.462 6.53 0.00 34.96 3.33
3402 3529 5.957774 ACCTGCCTTATATGGTTTCATTTGT 59.042 36.000 6.53 0.00 34.96 2.83
3406 3533 5.387113 TCACCTGCCTTATATGGTTTCAT 57.613 39.130 6.53 0.00 37.40 2.57
3418 3545 3.173953 TCCATTTCATTCACCTGCCTT 57.826 42.857 0.00 0.00 0.00 4.35
3501 3628 7.043565 AGCAATGTCACATTCTTGTTCTTTTT 58.956 30.769 0.00 0.00 32.34 1.94
3558 3685 3.018856 TCAGATGGTGAAATCATGTGCC 58.981 45.455 0.00 0.00 36.31 5.01
3559 3686 4.397103 TCTTCAGATGGTGAAATCATGTGC 59.603 41.667 0.00 0.00 44.83 4.57
3683 3816 6.000840 TGTAGATTTGTGTTGAACAGGCATA 58.999 36.000 0.00 0.00 40.74 3.14
3692 3825 5.011635 TGCCTACTCTGTAGATTTGTGTTGA 59.988 40.000 6.33 0.00 0.00 3.18
3781 3915 7.362920 GGAAACATCATGTAACAGCATTAACCT 60.363 37.037 0.00 0.00 0.00 3.50
3783 3917 6.751888 GGGAAACATCATGTAACAGCATTAAC 59.248 38.462 0.00 0.00 0.00 2.01
3816 3950 5.888691 TGTGAAGCGGCAGAAAAATAATA 57.111 34.783 1.45 0.00 0.00 0.98
3908 4045 3.447742 CGCACACTGCAGTATAAGATCA 58.552 45.455 21.20 0.00 45.36 2.92
3947 4084 5.826737 GTGTGATGATTTGATCAGGATCCTT 59.173 40.000 13.00 0.00 43.53 3.36
4033 4170 2.034305 ACGCAGTGAATACCCTATCGTC 59.966 50.000 0.00 0.00 42.51 4.20
4040 4177 2.995258 TCGTTTAACGCAGTGAATACCC 59.005 45.455 13.06 0.00 45.00 3.69
4136 4273 6.209192 TGAATATTATTTGGATGGCGCTGATT 59.791 34.615 7.64 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.