Multiple sequence alignment - TraesCS3A01G215400

Loading Multiple Alignment...

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 TraesCS3A01G215400 chr3A 100.000 3382 0 0 1 3382 392804989 392801608 0.000000e+00 6246.0
1 TraesCS3A01G215400 chr3A 90.000 120 9 3 1801 1918 64055751 64055633 5.840000e-33 152.0
2 TraesCS3A01G215400 chr3D 92.760 1837 71 20 1 1788 295146179 295144356 0.000000e+00 2599.0
3 TraesCS3A01G215400 chr3D 95.902 1464 46 6 1931 3382 295144371 295142910 0.000000e+00 2359.0
4 TraesCS3A01G215400 chr3D 95.960 99 4 0 1801 1899 462197510 462197412 9.710000e-36 161.0
5 TraesCS3A01G215400 chr3B 92.716 1112 37 12 674 1773 389264809 389263730 0.000000e+00 1565.0
6 TraesCS3A01G215400 chr3B 97.033 910 25 2 1894 2803 389263647 389262740 0.000000e+00 1530.0
7 TraesCS3A01G215400 chr3B 98.170 601 11 0 2782 3382 389262692 389262092 0.000000e+00 1050.0
8 TraesCS3A01G215400 chr3B 86.765 408 37 8 1 393 389290530 389290125 4.010000e-119 438.0
9 TraesCS3A01G215400 chr3B 91.882 271 15 4 410 674 389266408 389266139 4.120000e-99 372.0
10 TraesCS3A01G215400 chr3B 100.000 30 0 0 1916 1945 389263692 389263663 4.710000e-04 56.5
11 TraesCS3A01G215400 chr4D 96.939 98 3 0 1801 1898 122272834 122272737 7.510000e-37 165.0
12 TraesCS3A01G215400 chr1D 96.000 100 4 0 1800 1899 190767377 190767278 2.700000e-36 163.0
13 TraesCS3A01G215400 chr5B 95.146 103 4 1 1801 1902 82746599 82746497 9.710000e-36 161.0
14 TraesCS3A01G215400 chr7D 95.918 98 4 0 1801 1898 60439692 60439595 3.490000e-35 159.0
15 TraesCS3A01G215400 chr1B 95.960 99 3 1 1801 1898 55423969 55424067 3.490000e-35 159.0
16 TraesCS3A01G215400 chr1A 92.105 114 6 3 1784 1897 577759781 577759891 1.260000e-34 158.0
17 TraesCS3A01G215400 chr6D 90.517 116 9 2 1800 1913 35700821 35700706 5.840000e-33 152.0


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 TraesCS3A01G215400 chr3A 392801608 392804989 3381 True 6246.0 6246 100.0000 1 3382 1 chr3A.!!$R2 3381
1 TraesCS3A01G215400 chr3D 295142910 295146179 3269 True 2479.0 2599 94.3310 1 3382 2 chr3D.!!$R2 3381
2 TraesCS3A01G215400 chr3B 389262092 389266408 4316 True 914.7 1565 95.9602 410 3382 5 chr3B.!!$R2 2972

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
97 98 0.447801 CTGCCAGGTGTTCGTTATGC 59.552 55.0 0.00 0.0 0.0 3.14 F
1417 2791 0.958382 TTCTTGATTTCCCCACGCGG 60.958 55.0 12.47 0.0 0.0 6.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1419 2793 0.25589 AGATCCAATCCAACCACCCG 59.744 55.0 0.00 0.0 0.00 5.28 R
2733 4170 0.45339 GCAGGCTGATACAAAGTGCC 59.547 55.0 20.86 0.0 43.52 5.01 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
20 21 2.749839 GCCCGGCTGCAACACATA 60.750 61.111 0.71 0.00 0.00 2.29
21 22 2.120909 GCCCGGCTGCAACACATAT 61.121 57.895 0.71 0.00 0.00 1.78
44 45 7.886629 ATGCATTCATACACCACTATCTTTT 57.113 32.000 0.00 0.00 0.00 2.27
71 72 4.218635 TCTGGCTATATCGGTGTCTTCATC 59.781 45.833 0.00 0.00 0.00 2.92
74 75 4.021894 GGCTATATCGGTGTCTTCATCAGT 60.022 45.833 0.00 0.00 0.00 3.41
79 80 1.280457 GGTGTCTTCATCAGTCCCCT 58.720 55.000 0.00 0.00 0.00 4.79
90 91 2.034221 GTCCCCTGCCAGGTGTTC 59.966 66.667 10.47 0.00 31.93 3.18
97 98 0.447801 CTGCCAGGTGTTCGTTATGC 59.552 55.000 0.00 0.00 0.00 3.14
121 122 2.683768 ACCTTTTAAACCCATGGTGCA 58.316 42.857 11.73 0.00 35.34 4.57
139 140 3.004106 GTGCATTGGATTCCACTATCTGC 59.996 47.826 4.45 10.01 30.78 4.26
148 149 1.630369 TCCACTATCTGCAGGCTTTGT 59.370 47.619 15.13 3.85 0.00 2.83
163 170 3.127030 GGCTTTGTAAAAGTCGATGGAGG 59.873 47.826 0.00 0.00 0.00 4.30
200 207 7.769044 ACTACCAACATGAGATTTATTAGCGTT 59.231 33.333 0.00 0.00 0.00 4.84
206 213 6.371548 ACATGAGATTTATTAGCGTTGTGTGT 59.628 34.615 0.00 0.00 0.00 3.72
255 262 6.147821 CAGTTCTTCGGCAATTTCTTTCTCTA 59.852 38.462 0.00 0.00 0.00 2.43
272 279 7.453126 TCTTTCTCTAGTATGATTGATCCTCCC 59.547 40.741 0.00 0.00 0.00 4.30
279 286 6.334296 AGTATGATTGATCCTCCCATCCTTA 58.666 40.000 0.00 0.00 0.00 2.69
299 306 3.277133 GCATTGGCTTGCCGAGAA 58.723 55.556 7.70 0.00 36.60 2.87
326 333 6.399459 CGCTCGCTCTAGCTTTAGATTTAATG 60.399 42.308 0.00 0.00 40.49 1.90
331 338 6.567511 GCTCTAGCTTTAGATTTAATGCAGGC 60.568 42.308 14.01 9.21 40.52 4.85
334 341 4.098501 AGCTTTAGATTTAATGCAGGCCAC 59.901 41.667 5.01 0.00 40.52 5.01
335 342 4.142182 GCTTTAGATTTAATGCAGGCCACA 60.142 41.667 5.01 2.37 38.88 4.17
337 344 3.874392 AGATTTAATGCAGGCCACAAC 57.126 42.857 5.01 0.00 0.00 3.32
338 345 2.497273 AGATTTAATGCAGGCCACAACC 59.503 45.455 5.01 0.00 0.00 3.77
341 358 2.796734 TAATGCAGGCCACAACCCCC 62.797 60.000 5.01 0.00 0.00 5.40
365 382 1.742831 TGCAAGGGCGTTATTGATGAC 59.257 47.619 0.00 0.00 45.35 3.06
381 398 1.608055 TGACATCAACAAGGGCACAG 58.392 50.000 0.00 0.00 0.00 3.66
385 402 1.067295 ATCAACAAGGGCACAGGAGA 58.933 50.000 0.00 0.00 0.00 3.71
395 412 1.065126 GGCACAGGAGAAAGCTATGGT 60.065 52.381 0.00 0.00 0.00 3.55
406 423 8.884323 AGGAGAAAGCTATGGTAATATCATTCA 58.116 33.333 0.00 0.00 0.00 2.57
452 470 3.300388 TCTTCGGGCTGTATCTTCATCT 58.700 45.455 0.00 0.00 0.00 2.90
574 597 6.633500 ATTGTATCCCCATAAACATTGTCG 57.367 37.500 0.00 0.00 0.00 4.35
639 662 2.288213 GCCAAAGGAGGTGTAAACTTGC 60.288 50.000 0.00 0.00 0.00 4.01
648 671 5.234116 GGAGGTGTAAACTTGCACAAAATTG 59.766 40.000 11.91 0.00 44.20 2.32
655 678 4.846779 ACTTGCACAAAATTGTATCGGT 57.153 36.364 0.00 0.00 39.91 4.69
757 2110 1.398390 CAAAGGCAGCCAATCGAGTAC 59.602 52.381 15.80 0.00 0.00 2.73
772 2125 4.482386 TCGAGTACAGACAACAGTTATGC 58.518 43.478 0.00 0.00 0.00 3.14
857 2213 2.002625 GGAAGCCTTCCCAGGTCAT 58.997 57.895 12.76 0.00 44.30 3.06
1098 2466 2.109126 GGTCATCACCAAGCTCGGC 61.109 63.158 0.00 0.00 43.17 5.54
1156 2524 1.134371 GCTGGAACTCCCTCATGGTAC 60.134 57.143 0.00 0.00 35.38 3.34
1157 2525 1.137086 CTGGAACTCCCTCATGGTACG 59.863 57.143 0.00 0.00 35.38 3.67
1158 2526 1.272816 TGGAACTCCCTCATGGTACGA 60.273 52.381 0.00 0.00 35.38 3.43
1159 2527 1.829222 GGAACTCCCTCATGGTACGAA 59.171 52.381 0.00 0.00 34.77 3.85
1160 2528 2.418334 GGAACTCCCTCATGGTACGAAC 60.418 54.545 0.00 0.00 34.77 3.95
1161 2529 1.933021 ACTCCCTCATGGTACGAACA 58.067 50.000 0.00 0.00 34.77 3.18
1162 2530 1.825474 ACTCCCTCATGGTACGAACAG 59.175 52.381 0.00 0.00 34.77 3.16
1163 2531 1.825474 CTCCCTCATGGTACGAACAGT 59.175 52.381 0.00 0.00 34.77 3.55
1223 2591 2.581354 CTTCTCCCGGCTGAGTGG 59.419 66.667 0.00 0.00 33.93 4.00
1411 2785 2.423538 CCGATGTGTTCTTGATTTCCCC 59.576 50.000 0.00 0.00 0.00 4.81
1412 2786 3.081061 CGATGTGTTCTTGATTTCCCCA 58.919 45.455 0.00 0.00 0.00 4.96
1413 2787 3.119849 CGATGTGTTCTTGATTTCCCCAC 60.120 47.826 0.00 0.00 0.00 4.61
1414 2788 2.226330 TGTGTTCTTGATTTCCCCACG 58.774 47.619 0.00 0.00 0.00 4.94
1415 2789 1.068541 GTGTTCTTGATTTCCCCACGC 60.069 52.381 0.00 0.00 0.00 5.34
1417 2791 0.958382 TTCTTGATTTCCCCACGCGG 60.958 55.000 12.47 0.00 0.00 6.46
1442 2816 3.628257 GGGTGGTTGGATTGGATCTTGAT 60.628 47.826 0.00 0.00 0.00 2.57
1524 2898 2.418910 CGAGACCGTCCTGGAGCAT 61.419 63.158 0.00 0.00 42.00 3.79
1620 2994 1.823899 GCCGTTCCATGATCCCACC 60.824 63.158 0.00 0.00 0.00 4.61
1622 2996 0.464373 CCGTTCCATGATCCCACCAG 60.464 60.000 0.00 0.00 0.00 4.00
1765 3139 8.560576 ACAAAAGAAACAATTTATGTCACTCG 57.439 30.769 0.00 0.00 42.99 4.18
1796 3222 5.536554 AACGATGTGTTCTGCATTTAGAG 57.463 39.130 0.00 0.00 35.27 2.43
1801 3227 6.531594 CGATGTGTTCTGCATTTAGAGTCTTA 59.468 38.462 0.00 0.00 0.00 2.10
1802 3228 7.463383 CGATGTGTTCTGCATTTAGAGTCTTAC 60.463 40.741 0.00 0.00 0.00 2.34
1803 3229 6.759272 TGTGTTCTGCATTTAGAGTCTTACT 58.241 36.000 0.00 0.00 0.00 2.24
1804 3230 6.868864 TGTGTTCTGCATTTAGAGTCTTACTC 59.131 38.462 0.00 0.00 45.38 2.59
1805 3231 6.311690 GTGTTCTGCATTTAGAGTCTTACTCC 59.688 42.308 0.00 0.00 46.18 3.85
1806 3232 5.599999 TCTGCATTTAGAGTCTTACTCCC 57.400 43.478 0.00 0.00 46.18 4.30
1807 3233 5.273208 TCTGCATTTAGAGTCTTACTCCCT 58.727 41.667 0.00 0.00 46.18 4.20
1808 3234 5.361285 TCTGCATTTAGAGTCTTACTCCCTC 59.639 44.000 0.00 0.00 46.18 4.30
1809 3235 4.406003 TGCATTTAGAGTCTTACTCCCTCC 59.594 45.833 0.00 0.00 46.18 4.30
1810 3236 4.406003 GCATTTAGAGTCTTACTCCCTCCA 59.594 45.833 0.00 0.00 46.18 3.86
1811 3237 5.071115 GCATTTAGAGTCTTACTCCCTCCAT 59.929 44.000 0.00 0.00 46.18 3.41
1812 3238 6.408662 GCATTTAGAGTCTTACTCCCTCCATT 60.409 42.308 0.00 0.00 46.18 3.16
1813 3239 7.202011 GCATTTAGAGTCTTACTCCCTCCATTA 60.202 40.741 0.00 0.00 46.18 1.90
1814 3240 7.657023 TTTAGAGTCTTACTCCCTCCATTAC 57.343 40.000 0.00 0.00 46.18 1.89
1815 3241 5.208294 AGAGTCTTACTCCCTCCATTACA 57.792 43.478 3.49 0.00 46.18 2.41
1816 3242 5.590818 AGAGTCTTACTCCCTCCATTACAA 58.409 41.667 3.49 0.00 46.18 2.41
1817 3243 6.023603 AGAGTCTTACTCCCTCCATTACAAA 58.976 40.000 3.49 0.00 46.18 2.83
1818 3244 6.500751 AGAGTCTTACTCCCTCCATTACAAAA 59.499 38.462 3.49 0.00 46.18 2.44
1819 3245 7.182930 AGAGTCTTACTCCCTCCATTACAAAAT 59.817 37.037 3.49 0.00 46.18 1.82
1820 3246 8.388656 AGTCTTACTCCCTCCATTACAAAATA 57.611 34.615 0.00 0.00 0.00 1.40
1821 3247 8.487028 AGTCTTACTCCCTCCATTACAAAATAG 58.513 37.037 0.00 0.00 0.00 1.73
1822 3248 8.483758 GTCTTACTCCCTCCATTACAAAATAGA 58.516 37.037 0.00 0.00 0.00 1.98
1823 3249 9.225682 TCTTACTCCCTCCATTACAAAATAGAT 57.774 33.333 0.00 0.00 0.00 1.98
1824 3250 9.277783 CTTACTCCCTCCATTACAAAATAGATG 57.722 37.037 0.00 0.00 0.00 2.90
1825 3251 7.451731 ACTCCCTCCATTACAAAATAGATGA 57.548 36.000 0.00 0.00 0.00 2.92
1826 3252 7.283329 ACTCCCTCCATTACAAAATAGATGAC 58.717 38.462 0.00 0.00 0.00 3.06
1827 3253 7.127955 ACTCCCTCCATTACAAAATAGATGACT 59.872 37.037 0.00 0.00 0.00 3.41
1828 3254 7.509546 TCCCTCCATTACAAAATAGATGACTC 58.490 38.462 0.00 0.00 0.00 3.36
1829 3255 7.127186 TCCCTCCATTACAAAATAGATGACTCA 59.873 37.037 0.00 0.00 0.00 3.41
1830 3256 7.775093 CCCTCCATTACAAAATAGATGACTCAA 59.225 37.037 0.00 0.00 0.00 3.02
1831 3257 8.616076 CCTCCATTACAAAATAGATGACTCAAC 58.384 37.037 0.00 0.00 0.00 3.18
1832 3258 9.388506 CTCCATTACAAAATAGATGACTCAACT 57.611 33.333 0.00 0.00 0.00 3.16
1833 3259 9.739276 TCCATTACAAAATAGATGACTCAACTT 57.261 29.630 0.00 0.00 0.00 2.66
1839 3265 9.561069 ACAAAATAGATGACTCAACTTTGTACT 57.439 29.630 4.04 0.00 0.00 2.73
1883 3309 9.408648 AGTATAAAGTTGGGTCATCTATTTTGG 57.591 33.333 0.00 0.00 0.00 3.28
1884 3310 9.403583 GTATAAAGTTGGGTCATCTATTTTGGA 57.596 33.333 0.00 0.00 0.00 3.53
1885 3311 8.893563 ATAAAGTTGGGTCATCTATTTTGGAA 57.106 30.769 0.00 0.00 0.00 3.53
1886 3312 6.590234 AAGTTGGGTCATCTATTTTGGAAC 57.410 37.500 0.00 0.00 0.00 3.62
1887 3313 4.700213 AGTTGGGTCATCTATTTTGGAACG 59.300 41.667 0.00 0.00 0.00 3.95
1888 3314 3.616219 TGGGTCATCTATTTTGGAACGG 58.384 45.455 0.00 0.00 0.00 4.44
1889 3315 3.264706 TGGGTCATCTATTTTGGAACGGA 59.735 43.478 0.00 0.00 0.00 4.69
1890 3316 4.263550 TGGGTCATCTATTTTGGAACGGAA 60.264 41.667 0.00 0.00 0.00 4.30
1891 3317 4.335594 GGGTCATCTATTTTGGAACGGAAG 59.664 45.833 0.00 0.00 0.00 3.46
1892 3318 4.335594 GGTCATCTATTTTGGAACGGAAGG 59.664 45.833 0.00 0.00 0.00 3.46
1920 3346 4.621068 AGGCATGATGTATTGTCAAACG 57.379 40.909 0.00 0.00 0.00 3.60
2009 3444 2.493278 CCTTGCCACCCATGAACTAAAG 59.507 50.000 0.00 0.00 0.00 1.85
2084 3520 2.294233 TGCCAAGAACAAGCACTTCATC 59.706 45.455 0.00 0.00 0.00 2.92
2165 3601 7.293073 ACTATGTCATGCCAAAGGAGAATTAT 58.707 34.615 0.00 0.00 0.00 1.28
2285 3721 2.771089 GTGAACAAGCTGATCACCTCA 58.229 47.619 13.19 0.00 42.20 3.86
2334 3770 4.281435 ACAAATGTGACATGAGCAATCCAA 59.719 37.500 0.00 0.00 0.00 3.53
2341 3777 6.548251 TGTGACATGAGCAATCCAATATCAAT 59.452 34.615 0.00 0.00 0.00 2.57
2370 3806 2.358300 GGTCACCATCAGACTCTCCCTA 60.358 54.545 0.00 0.00 36.29 3.53
2396 3832 5.183140 CCCAAATTGATCCGTAACCATATCC 59.817 44.000 0.00 0.00 0.00 2.59
2406 3842 3.252701 CGTAACCATATCCTAGCTCACGT 59.747 47.826 0.00 0.00 0.00 4.49
2564 4001 5.039920 TCAAACTGCAGGATAGCATATGT 57.960 39.130 19.93 0.00 44.68 2.29
2709 4146 4.218200 CAGGTGTGGCATTTTCAGTAATCA 59.782 41.667 0.00 0.00 0.00 2.57
2835 4340 2.498481 CCATGGTGGCATTTCAGATTGT 59.502 45.455 2.57 0.00 0.00 2.71
3063 4568 5.723887 AGAAACATCCTGTGGATCTAACTCT 59.276 40.000 0.00 0.00 40.98 3.24
3189 4694 5.536260 TGATTGATAAGAGATTCAGCCTCG 58.464 41.667 0.00 0.00 35.88 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 7.886629 AAAAGATAGTGGTGTATGAATGCAT 57.113 32.000 0.00 0.00 38.54 3.96
21 22 7.392953 TCAAAAAGATAGTGGTGTATGAATGCA 59.607 33.333 0.00 0.00 0.00 3.96
31 32 4.946157 AGCCAGATCAAAAAGATAGTGGTG 59.054 41.667 0.00 0.00 40.64 4.17
44 45 4.152647 AGACACCGATATAGCCAGATCAA 58.847 43.478 0.00 0.00 0.00 2.57
74 75 3.636231 CGAACACCTGGCAGGGGA 61.636 66.667 41.21 0.00 43.10 4.81
79 80 0.036164 AGCATAACGAACACCTGGCA 59.964 50.000 0.00 0.00 0.00 4.92
90 91 5.158494 GGGTTTAAAAGGTTCAGCATAACG 58.842 41.667 0.00 0.00 0.00 3.18
97 98 4.799255 GCACCATGGGTTTAAAAGGTTCAG 60.799 45.833 18.09 0.00 31.02 3.02
121 122 3.749954 GCCTGCAGATAGTGGAATCCAAT 60.750 47.826 17.39 7.58 34.18 3.16
139 140 3.751175 TCCATCGACTTTTACAAAGCCTG 59.249 43.478 0.00 0.00 0.00 4.85
148 149 2.093658 GCCACTCCTCCATCGACTTTTA 60.094 50.000 0.00 0.00 0.00 1.52
200 207 6.042781 ACACTCCCTCTAAATTTCTACACACA 59.957 38.462 0.00 0.00 0.00 3.72
206 213 9.137459 CTGAGATACACTCCCTCTAAATTTCTA 57.863 37.037 0.00 0.00 44.34 2.10
255 262 4.772483 AGGATGGGAGGATCAATCATACT 58.228 43.478 0.00 0.00 36.25 2.12
307 314 6.072783 GGCCTGCATTAAATCTAAAGCTAGAG 60.073 42.308 0.00 0.00 37.58 2.43
309 316 5.532406 TGGCCTGCATTAAATCTAAAGCTAG 59.468 40.000 3.32 0.00 33.76 3.42
316 323 3.699038 GGTTGTGGCCTGCATTAAATCTA 59.301 43.478 3.32 0.00 0.00 1.98
326 333 2.514516 AATAGGGGGTTGTGGCCTGC 62.515 60.000 3.32 0.00 0.00 4.85
331 338 1.185315 CTTGCAATAGGGGGTTGTGG 58.815 55.000 0.00 0.00 0.00 4.17
341 358 4.275689 TCATCAATAACGCCCTTGCAATAG 59.724 41.667 0.00 0.00 37.32 1.73
359 376 2.161855 GTGCCCTTGTTGATGTCATCA 58.838 47.619 11.62 11.62 37.55 3.07
365 382 1.171308 CTCCTGTGCCCTTGTTGATG 58.829 55.000 0.00 0.00 0.00 3.07
381 398 8.940952 GTGAATGATATTACCATAGCTTTCTCC 58.059 37.037 0.00 0.00 36.81 3.71
385 402 8.367911 TCTCGTGAATGATATTACCATAGCTTT 58.632 33.333 0.00 0.00 0.00 3.51
395 412 9.249457 GACAAACTGATCTCGTGAATGATATTA 57.751 33.333 0.00 0.00 0.00 0.98
406 423 0.389948 GGCCGACAAACTGATCTCGT 60.390 55.000 0.00 0.00 0.00 4.18
452 470 6.658849 TGATATCGGATTTTCTCCCTTCAAA 58.341 36.000 0.00 0.00 41.49 2.69
574 597 5.482908 ACACACTCCACTCTATTGAACATC 58.517 41.667 0.00 0.00 0.00 3.06
613 636 0.909623 TACACCTCCTTTGGCTAGCC 59.090 55.000 27.71 27.71 0.00 3.93
639 662 6.241207 AGAGTTGACCGATACAATTTTGTG 57.759 37.500 6.21 0.00 42.31 3.33
648 671 4.098044 TCCATCAGAAGAGTTGACCGATAC 59.902 45.833 0.00 0.00 0.00 2.24
687 2040 3.802139 TCACGATAAAGATGGTTCATCGC 59.198 43.478 0.00 0.00 44.67 4.58
757 2110 2.348666 GCCGTAGCATAACTGTTGTCTG 59.651 50.000 2.69 0.00 39.53 3.51
772 2125 2.884207 GTTCGCCCTTCGCCGTAG 60.884 66.667 0.00 0.00 38.27 3.51
814 2167 0.389166 GCCACTTGTGACCTCTCTCG 60.389 60.000 1.89 0.00 0.00 4.04
979 2341 3.528370 CGGGAAGAGACGGCGGAT 61.528 66.667 13.24 0.00 0.00 4.18
1068 2436 2.104267 GATGACCCAGTCGTCGCTA 58.896 57.895 1.45 0.00 38.54 4.26
1223 2591 0.394899 CCTGGAAGACATCAAGGCCC 60.395 60.000 0.00 0.00 42.50 5.80
1415 2789 4.733542 AATCCAACCACCCGGCCG 62.734 66.667 21.04 21.04 34.57 6.13
1417 2791 2.854300 ATCCAATCCAACCACCCGGC 62.854 60.000 0.00 0.00 34.57 6.13
1419 2793 0.255890 AGATCCAATCCAACCACCCG 59.744 55.000 0.00 0.00 0.00 5.28
1420 2794 2.102578 CAAGATCCAATCCAACCACCC 58.897 52.381 0.00 0.00 0.00 4.61
1442 2816 2.738480 GACGCACACCTACCACCA 59.262 61.111 0.00 0.00 0.00 4.17
1620 2994 3.136123 CAACCATGGGGCGAGCTG 61.136 66.667 18.09 0.00 37.90 4.24
1765 3139 8.703604 ATGCAGAACACATCGTTATATATACC 57.296 34.615 0.00 0.00 38.19 2.73
1775 3149 4.569943 ACTCTAAATGCAGAACACATCGT 58.430 39.130 0.00 0.00 0.00 3.73
1784 3210 5.273208 AGGGAGTAAGACTCTAAATGCAGA 58.727 41.667 6.58 0.00 44.46 4.26
1796 3222 8.483758 TCTATTTTGTAATGGAGGGAGTAAGAC 58.516 37.037 0.00 0.00 29.14 3.01
1801 3227 7.127955 AGTCATCTATTTTGTAATGGAGGGAGT 59.872 37.037 0.00 0.00 35.12 3.85
1802 3228 7.512992 AGTCATCTATTTTGTAATGGAGGGAG 58.487 38.462 0.00 0.00 35.12 4.30
1803 3229 7.127186 TGAGTCATCTATTTTGTAATGGAGGGA 59.873 37.037 0.00 0.00 35.12 4.20
1804 3230 7.282585 TGAGTCATCTATTTTGTAATGGAGGG 58.717 38.462 0.00 0.00 35.12 4.30
1805 3231 8.616076 GTTGAGTCATCTATTTTGTAATGGAGG 58.384 37.037 0.00 0.00 35.12 4.30
1806 3232 9.388506 AGTTGAGTCATCTATTTTGTAATGGAG 57.611 33.333 1.70 0.00 35.12 3.86
1807 3233 9.739276 AAGTTGAGTCATCTATTTTGTAATGGA 57.261 29.630 4.14 0.00 35.96 3.41
1813 3239 9.561069 AGTACAAAGTTGAGTCATCTATTTTGT 57.439 29.630 17.58 17.58 45.59 2.83
1857 3283 9.408648 CCAAAATAGATGACCCAACTTTATACT 57.591 33.333 0.00 0.00 0.00 2.12
1858 3284 9.403583 TCCAAAATAGATGACCCAACTTTATAC 57.596 33.333 0.00 0.00 0.00 1.47
1859 3285 9.983024 TTCCAAAATAGATGACCCAACTTTATA 57.017 29.630 0.00 0.00 0.00 0.98
1860 3286 8.749354 GTTCCAAAATAGATGACCCAACTTTAT 58.251 33.333 0.00 0.00 0.00 1.40
1861 3287 7.094549 CGTTCCAAAATAGATGACCCAACTTTA 60.095 37.037 0.00 0.00 0.00 1.85
1862 3288 6.294508 CGTTCCAAAATAGATGACCCAACTTT 60.295 38.462 0.00 0.00 0.00 2.66
1863 3289 5.183140 CGTTCCAAAATAGATGACCCAACTT 59.817 40.000 0.00 0.00 0.00 2.66
1864 3290 4.700213 CGTTCCAAAATAGATGACCCAACT 59.300 41.667 0.00 0.00 0.00 3.16
1865 3291 4.142469 CCGTTCCAAAATAGATGACCCAAC 60.142 45.833 0.00 0.00 0.00 3.77
1866 3292 4.013728 CCGTTCCAAAATAGATGACCCAA 58.986 43.478 0.00 0.00 0.00 4.12
1867 3293 3.264706 TCCGTTCCAAAATAGATGACCCA 59.735 43.478 0.00 0.00 0.00 4.51
1868 3294 3.881220 TCCGTTCCAAAATAGATGACCC 58.119 45.455 0.00 0.00 0.00 4.46
1869 3295 4.335594 CCTTCCGTTCCAAAATAGATGACC 59.664 45.833 0.00 0.00 0.00 4.02
1870 3296 5.183228 TCCTTCCGTTCCAAAATAGATGAC 58.817 41.667 0.00 0.00 0.00 3.06
1871 3297 5.045869 ACTCCTTCCGTTCCAAAATAGATGA 60.046 40.000 0.00 0.00 0.00 2.92
1872 3298 5.186198 ACTCCTTCCGTTCCAAAATAGATG 58.814 41.667 0.00 0.00 0.00 2.90
1873 3299 5.437191 ACTCCTTCCGTTCCAAAATAGAT 57.563 39.130 0.00 0.00 0.00 1.98
1874 3300 4.903045 ACTCCTTCCGTTCCAAAATAGA 57.097 40.909 0.00 0.00 0.00 1.98
1875 3301 7.441458 CCTAATACTCCTTCCGTTCCAAAATAG 59.559 40.741 0.00 0.00 0.00 1.73
1876 3302 7.277396 CCTAATACTCCTTCCGTTCCAAAATA 58.723 38.462 0.00 0.00 0.00 1.40
1877 3303 6.120220 CCTAATACTCCTTCCGTTCCAAAAT 58.880 40.000 0.00 0.00 0.00 1.82
1878 3304 5.493809 CCTAATACTCCTTCCGTTCCAAAA 58.506 41.667 0.00 0.00 0.00 2.44
1879 3305 4.624604 GCCTAATACTCCTTCCGTTCCAAA 60.625 45.833 0.00 0.00 0.00 3.28
1880 3306 3.118519 GCCTAATACTCCTTCCGTTCCAA 60.119 47.826 0.00 0.00 0.00 3.53
1881 3307 2.433239 GCCTAATACTCCTTCCGTTCCA 59.567 50.000 0.00 0.00 0.00 3.53
1882 3308 2.433239 TGCCTAATACTCCTTCCGTTCC 59.567 50.000 0.00 0.00 0.00 3.62
1883 3309 3.814005 TGCCTAATACTCCTTCCGTTC 57.186 47.619 0.00 0.00 0.00 3.95
1884 3310 3.709653 TCATGCCTAATACTCCTTCCGTT 59.290 43.478 0.00 0.00 0.00 4.44
1885 3311 3.305720 TCATGCCTAATACTCCTTCCGT 58.694 45.455 0.00 0.00 0.00 4.69
1886 3312 4.248859 CATCATGCCTAATACTCCTTCCG 58.751 47.826 0.00 0.00 0.00 4.30
1887 3313 5.234466 ACATCATGCCTAATACTCCTTCC 57.766 43.478 0.00 0.00 0.00 3.46
1888 3314 7.880195 ACAATACATCATGCCTAATACTCCTTC 59.120 37.037 0.00 0.00 0.00 3.46
1889 3315 7.749666 ACAATACATCATGCCTAATACTCCTT 58.250 34.615 0.00 0.00 0.00 3.36
1890 3316 7.016563 TGACAATACATCATGCCTAATACTCCT 59.983 37.037 0.00 0.00 0.00 3.69
1891 3317 7.161404 TGACAATACATCATGCCTAATACTCC 58.839 38.462 0.00 0.00 0.00 3.85
1892 3318 8.607441 TTGACAATACATCATGCCTAATACTC 57.393 34.615 0.00 0.00 0.00 2.59
1920 3346 9.571810 TTCAGCACACACAATATTTTATCAATC 57.428 29.630 0.00 0.00 0.00 2.67
2084 3520 1.070758 CCCTTCCCATCACCGATGTAG 59.929 57.143 3.47 0.00 38.28 2.74
2165 3601 1.010795 TGATGAGACTCCAGAGGGGA 58.989 55.000 0.00 0.00 45.89 4.81
2176 3612 0.599728 GGGATCGCTGCTGATGAGAC 60.600 60.000 10.76 0.00 0.00 3.36
2285 3721 1.803453 ATTGGGACCCCTGTGCATGT 61.803 55.000 8.45 0.00 33.90 3.21
2318 3754 6.015772 CCATTGATATTGGATTGCTCATGTCA 60.016 38.462 0.00 0.00 36.26 3.58
2334 3770 3.527253 TGGTGACCCACTTCCATTGATAT 59.473 43.478 0.00 0.00 35.17 1.63
2341 3777 0.692476 CTGATGGTGACCCACTTCCA 59.308 55.000 0.00 0.00 45.65 3.53
2370 3806 4.243793 TGGTTACGGATCAATTTGGGAT 57.756 40.909 0.00 0.00 0.00 3.85
2396 3832 2.094700 TCTTGCCTGTAACGTGAGCTAG 60.095 50.000 0.00 0.00 0.00 3.42
2503 3940 4.503910 CAGAAAATCCACCGACATAGTCA 58.496 43.478 0.00 0.00 32.09 3.41
2733 4170 0.453390 GCAGGCTGATACAAAGTGCC 59.547 55.000 20.86 0.00 43.52 5.01
2835 4340 1.228003 AACGTGCATTCGGTTCCCA 60.228 52.632 1.59 0.00 34.94 4.37
2842 4347 4.909305 AGAATTTGTTACAACGTGCATTCG 59.091 37.500 11.41 0.00 0.00 3.34
3063 4568 5.157940 AGAGAGCAGCAGAAAGATTGTTA 57.842 39.130 0.00 0.00 0.00 2.41
3252 4757 5.521906 TGCTGAGTAGTGTCTATGGAATC 57.478 43.478 0.00 0.00 0.00 2.52


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

AutoCloner maintained by Alex Coulton.