Multiple sequence alignment - TraesCS7A01G376700

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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 TraesCS7A01G376700 chr7A 100.000 2570 0 0 1 2570 549749263 549751832 0.000000e+00 4747
1 TraesCS7A01G376700 chr7D 86.082 2644 143 69 39 2570 483296994 483299524 0.000000e+00 2636
2 TraesCS7A01G376700 chr7B 87.801 1246 75 32 642 1850 508979160 508980365 0.000000e+00 1387
3 TraesCS7A01G376700 chr7B 87.948 614 33 19 1975 2565 508980901 508981496 0.000000e+00 686
4 TraesCS7A01G376700 chr7B 82.635 668 39 20 39 650 508977243 508977889 1.050000e-143 520
5 TraesCS7A01G376700 chr6D 92.593 81 5 1 1488 1568 154359875 154359954 5.810000e-22 115
6 TraesCS7A01G376700 chr6B 92.593 81 5 1 1488 1568 277849034 277849113 5.810000e-22 115


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 TraesCS7A01G376700 chr7A 549749263 549751832 2569 False 4747.000000 4747 100.000 1 2570 1 chr7A.!!$F1 2569
1 TraesCS7A01G376700 chr7D 483296994 483299524 2530 False 2636.000000 2636 86.082 39 2570 1 chr7D.!!$F1 2531
2 TraesCS7A01G376700 chr7B 508977243 508981496 4253 False 864.333333 1387 86.128 39 2565 3 chr7B.!!$F1 2526

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
703 2063 0.466922 CCCACTCCAATGATCCCAGC 60.467 60.0 0.0 0.0 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1950 3621 0.036732 AATCGAAGCTTGGAGCACCA 59.963 50.0 16.55 0.0 45.56 4.17 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
17 18 2.736236 CTGCTGAGTGCGAGCGTT 60.736 61.111 0.00 0.00 46.63 4.84
18 19 1.444383 CTGCTGAGTGCGAGCGTTA 60.444 57.895 0.00 0.00 46.63 3.18
19 20 1.006688 TGCTGAGTGCGAGCGTTAA 60.007 52.632 0.00 0.00 46.63 2.01
20 21 0.598942 TGCTGAGTGCGAGCGTTAAA 60.599 50.000 0.00 0.00 46.63 1.52
21 22 0.511221 GCTGAGTGCGAGCGTTAAAA 59.489 50.000 0.00 0.00 0.00 1.52
22 23 1.070175 GCTGAGTGCGAGCGTTAAAAA 60.070 47.619 0.00 0.00 0.00 1.94
54 55 1.746470 AAAAATAGGGCCCTCGTTCG 58.254 50.000 32.80 0.00 0.00 3.95
163 165 3.716006 GAAGCAACGCAGCGCAGA 61.716 61.111 16.61 0.00 40.15 4.26
164 166 3.642008 GAAGCAACGCAGCGCAGAG 62.642 63.158 16.61 5.95 40.15 3.35
228 253 2.029649 GGCCGGATTGATTGAATGGATG 60.030 50.000 5.05 0.00 0.00 3.51
230 255 3.489355 CCGGATTGATTGAATGGATGGA 58.511 45.455 0.00 0.00 0.00 3.41
231 256 4.084287 CCGGATTGATTGAATGGATGGAT 58.916 43.478 0.00 0.00 0.00 3.41
232 257 5.255687 CCGGATTGATTGAATGGATGGATA 58.744 41.667 0.00 0.00 0.00 2.59
233 258 5.889853 CCGGATTGATTGAATGGATGGATAT 59.110 40.000 0.00 0.00 0.00 1.63
234 259 7.056006 CCGGATTGATTGAATGGATGGATATA 58.944 38.462 0.00 0.00 0.00 0.86
235 260 7.012704 CCGGATTGATTGAATGGATGGATATAC 59.987 40.741 0.00 0.00 0.00 1.47
236 261 7.772292 CGGATTGATTGAATGGATGGATATACT 59.228 37.037 0.00 0.00 0.00 2.12
237 262 9.118300 GGATTGATTGAATGGATGGATATACTC 57.882 37.037 0.00 0.00 0.00 2.59
271 296 1.303317 GGATGACGCTGGGTGGTTT 60.303 57.895 0.70 0.00 0.00 3.27
274 299 2.203294 GACGCTGGGTGGTTTGGT 60.203 61.111 0.70 0.00 0.00 3.67
351 379 2.043941 GGATAGGTGGGGTGGGGT 59.956 66.667 0.00 0.00 0.00 4.95
433 495 1.115930 AGAGTTCTGAGGCGTGTGGT 61.116 55.000 0.00 0.00 0.00 4.16
449 514 2.368875 TGTGGTTTCTGGTCTTCTCTCC 59.631 50.000 0.00 0.00 0.00 3.71
478 543 1.882167 GAGCATCCAGTGAGCTCGC 60.882 63.158 19.76 19.76 44.37 5.03
479 544 2.186384 GCATCCAGTGAGCTCGCT 59.814 61.111 24.06 24.06 37.13 4.93
480 545 1.882167 GCATCCAGTGAGCTCGCTC 60.882 63.158 26.70 11.75 43.01 5.03
481 546 1.588403 CATCCAGTGAGCTCGCTCG 60.588 63.158 26.70 20.63 45.48 5.03
504 569 1.651138 CGAGTCGAGCAGTTCATGAAC 59.349 52.381 27.69 27.69 41.45 3.18
563 633 4.996758 CAGAATTGTGTACAGTCCATGTCA 59.003 41.667 0.00 0.00 42.70 3.58
584 667 2.227626 ACAGATATCAGACGGCGATGAG 59.772 50.000 16.62 7.61 0.00 2.90
689 2049 3.728373 GACCATTCGGCCCCCACT 61.728 66.667 0.00 0.00 34.57 4.00
698 2058 1.152673 GGCCCCCACTCCAATGATC 60.153 63.158 0.00 0.00 0.00 2.92
703 2063 0.466922 CCCACTCCAATGATCCCAGC 60.467 60.000 0.00 0.00 0.00 4.85
751 2112 2.380084 TCTGCCAGTCGATAAACCAC 57.620 50.000 0.00 0.00 0.00 4.16
808 2175 4.596585 CCCAACGGCCACCAAGGT 62.597 66.667 2.24 0.00 40.61 3.50
809 2176 2.983592 CCAACGGCCACCAAGGTC 60.984 66.667 2.24 0.00 40.61 3.85
917 2287 0.813610 TCACAGGACGCAACAACCAG 60.814 55.000 0.00 0.00 0.00 4.00
918 2288 2.186826 ACAGGACGCAACAACCAGC 61.187 57.895 0.00 0.00 0.00 4.85
1021 2409 4.063230 CGTCGTCGTCGTCGTCCA 62.063 66.667 12.51 0.00 41.73 4.02
1023 2411 3.716006 TCGTCGTCGTCGTCCACC 61.716 66.667 11.41 0.00 38.33 4.61
1107 2495 4.135153 CTCTCCGGCACCCTCGTG 62.135 72.222 0.00 0.00 43.35 4.35
1287 2684 2.534019 CGTCCGCACAGCACAGTTT 61.534 57.895 0.00 0.00 0.00 2.66
1297 2694 3.613737 CACAGCACAGTTTTTGGTTCTTG 59.386 43.478 0.00 0.00 0.00 3.02
1298 2695 3.189285 CAGCACAGTTTTTGGTTCTTGG 58.811 45.455 0.00 0.00 0.00 3.61
1299 2696 2.831526 AGCACAGTTTTTGGTTCTTGGT 59.168 40.909 0.00 0.00 0.00 3.67
1301 2698 3.616821 GCACAGTTTTTGGTTCTTGGTTC 59.383 43.478 0.00 0.00 0.00 3.62
1302 2699 4.620567 GCACAGTTTTTGGTTCTTGGTTCT 60.621 41.667 0.00 0.00 0.00 3.01
1304 2701 6.626302 CACAGTTTTTGGTTCTTGGTTCTTA 58.374 36.000 0.00 0.00 0.00 2.10
1305 2702 6.530181 CACAGTTTTTGGTTCTTGGTTCTTAC 59.470 38.462 0.00 0.00 0.00 2.34
1306 2703 6.209788 ACAGTTTTTGGTTCTTGGTTCTTACA 59.790 34.615 0.00 0.00 0.00 2.41
1307 2704 7.093509 ACAGTTTTTGGTTCTTGGTTCTTACAT 60.094 33.333 0.00 0.00 0.00 2.29
1308 2705 7.222611 CAGTTTTTGGTTCTTGGTTCTTACATG 59.777 37.037 0.00 0.00 0.00 3.21
1312 2709 4.578516 TGGTTCTTGGTTCTTACATGTGTG 59.421 41.667 9.11 0.77 0.00 3.82
1331 2728 3.632145 TGTGCCCTGTTTCTTTCTTTCTC 59.368 43.478 0.00 0.00 0.00 2.87
1332 2729 3.004839 GTGCCCTGTTTCTTTCTTTCTCC 59.995 47.826 0.00 0.00 0.00 3.71
1425 2822 4.643387 GTTGACCACGGCCCAGCT 62.643 66.667 0.00 0.00 0.00 4.24
1573 2970 0.249238 CGCCTGCTCCTACTAAGCTG 60.249 60.000 0.00 0.00 40.50 4.24
1592 2989 2.116533 CCGGCGTCAATTAACCCCC 61.117 63.158 6.01 0.00 0.00 5.40
1593 2990 2.466140 CGGCGTCAATTAACCCCCG 61.466 63.158 0.00 0.00 0.00 5.73
1595 2992 2.767445 GCGTCAATTAACCCCCGCC 61.767 63.158 0.00 0.00 35.45 6.13
1596 2993 2.466140 CGTCAATTAACCCCCGCCG 61.466 63.158 0.00 0.00 0.00 6.46
1599 2996 0.251253 TCAATTAACCCCCGCCGTTT 60.251 50.000 0.00 0.00 0.00 3.60
1607 3014 1.170290 CCCCCGCCGTTTAATCCATC 61.170 60.000 0.00 0.00 0.00 3.51
1627 3034 1.740285 CATCCCCGTCTTAGTCCGG 59.260 63.158 0.00 0.00 43.82 5.14
1672 3080 3.153735 GTTTCTTGTTCATTAGCGTCGC 58.846 45.455 9.80 9.80 0.00 5.19
1743 3151 2.730672 GCGATCTGTGTGGTGCGTC 61.731 63.158 0.00 0.00 0.00 5.19
1745 3153 0.667487 CGATCTGTGTGGTGCGTCTT 60.667 55.000 0.00 0.00 0.00 3.01
1746 3154 1.402325 CGATCTGTGTGGTGCGTCTTA 60.402 52.381 0.00 0.00 0.00 2.10
1760 3168 7.064253 GTGGTGCGTCTTATTAATTGTTCTACT 59.936 37.037 0.00 0.00 0.00 2.57
1766 3174 8.857216 CGTCTTATTAATTGTTCTACTCGTTGT 58.143 33.333 0.00 0.00 0.00 3.32
1768 3176 9.069078 TCTTATTAATTGTTCTACTCGTTGTCG 57.931 33.333 0.00 0.00 38.55 4.35
1769 3177 8.746922 TTATTAATTGTTCTACTCGTTGTCGT 57.253 30.769 0.00 0.00 38.33 4.34
1770 3178 9.838975 TTATTAATTGTTCTACTCGTTGTCGTA 57.161 29.630 0.00 0.00 38.33 3.43
1771 3179 8.746922 ATTAATTGTTCTACTCGTTGTCGTAA 57.253 30.769 0.00 0.00 38.33 3.18
1772 3180 6.443876 AATTGTTCTACTCGTTGTCGTAAC 57.556 37.500 0.00 0.00 38.33 2.50
1801 3209 1.725164 GTGCGTACTGTTTCTACCTGC 59.275 52.381 0.00 0.00 0.00 4.85
1866 3274 9.613428 CATTGTTCTACCTGATCTAATGGTTAA 57.387 33.333 0.00 0.00 35.48 2.01
1898 3306 5.047802 TGCCTTTGATCCTGTTCTTCATTTC 60.048 40.000 0.00 0.00 0.00 2.17
1902 3310 7.758528 CCTTTGATCCTGTTCTTCATTTCATTC 59.241 37.037 0.00 0.00 0.00 2.67
1904 3312 6.247676 TGATCCTGTTCTTCATTTCATTCCA 58.752 36.000 0.00 0.00 0.00 3.53
1905 3313 5.964958 TCCTGTTCTTCATTTCATTCCAC 57.035 39.130 0.00 0.00 0.00 4.02
1906 3314 4.455533 TCCTGTTCTTCATTTCATTCCACG 59.544 41.667 0.00 0.00 0.00 4.94
1961 3632 7.967890 AAATTTATTTTTCTGGTGCTCCAAG 57.032 32.000 9.14 3.70 43.81 3.61
1962 3633 4.519540 TTATTTTTCTGGTGCTCCAAGC 57.480 40.909 9.14 0.00 43.81 4.01
1965 3636 1.609208 TTTCTGGTGCTCCAAGCTTC 58.391 50.000 9.14 0.00 43.81 3.86
1968 3639 0.392193 CTGGTGCTCCAAGCTTCGAT 60.392 55.000 9.14 0.00 43.81 3.59
1969 3640 0.036732 TGGTGCTCCAAGCTTCGATT 59.963 50.000 4.68 0.00 42.97 3.34
1971 3642 1.135575 GGTGCTCCAAGCTTCGATTTG 60.136 52.381 0.00 0.00 42.97 2.32
1972 3643 1.806542 GTGCTCCAAGCTTCGATTTGA 59.193 47.619 0.00 0.00 42.97 2.69
1973 3644 1.806542 TGCTCCAAGCTTCGATTTGAC 59.193 47.619 0.00 0.00 42.97 3.18
1980 3801 1.808945 AGCTTCGATTTGACTGCTTGG 59.191 47.619 0.00 0.00 34.23 3.61
2045 3867 0.531753 GCCCGCCAATTTTGTGTTGT 60.532 50.000 0.00 0.00 0.00 3.32
2047 3869 1.472376 CCCGCCAATTTTGTGTTGTGT 60.472 47.619 0.00 0.00 0.00 3.72
2048 3870 2.275318 CCGCCAATTTTGTGTTGTGTT 58.725 42.857 0.00 0.00 0.00 3.32
2049 3871 2.030213 CCGCCAATTTTGTGTTGTGTTG 59.970 45.455 0.00 0.00 0.00 3.33
2050 3872 2.536529 CGCCAATTTTGTGTTGTGTTGC 60.537 45.455 0.00 0.00 0.00 4.17
2059 3881 2.159128 TGTGTTGTGTTGCTGGATTTGG 60.159 45.455 0.00 0.00 0.00 3.28
2110 3935 2.356553 GGCGTTGCTGTCGTGGTA 60.357 61.111 0.00 0.00 0.00 3.25
2112 3937 1.663702 GCGTTGCTGTCGTGGTAGT 60.664 57.895 0.00 0.00 0.00 2.73
2113 3938 1.886861 GCGTTGCTGTCGTGGTAGTG 61.887 60.000 0.00 0.00 0.00 2.74
2114 3939 1.860078 GTTGCTGTCGTGGTAGTGC 59.140 57.895 0.00 0.00 0.00 4.40
2115 3940 0.878523 GTTGCTGTCGTGGTAGTGCA 60.879 55.000 0.00 0.00 0.00 4.57
2116 3941 0.599991 TTGCTGTCGTGGTAGTGCAG 60.600 55.000 0.00 0.00 0.00 4.41
2117 3942 1.738099 GCTGTCGTGGTAGTGCAGG 60.738 63.158 0.00 0.00 0.00 4.85
2118 3943 1.079819 CTGTCGTGGTAGTGCAGGG 60.080 63.158 0.00 0.00 0.00 4.45
2119 3944 2.434359 GTCGTGGTAGTGCAGGGC 60.434 66.667 0.00 0.00 0.00 5.19
2120 3945 2.603473 TCGTGGTAGTGCAGGGCT 60.603 61.111 0.00 0.00 0.00 5.19
2141 3966 0.594796 CAGGCAACGAAACACAAGGC 60.595 55.000 0.00 0.00 46.39 4.35
2146 3971 0.663153 AACGAAACACAAGGCTCAGC 59.337 50.000 0.00 0.00 0.00 4.26
2225 4050 2.113860 TTTCCGGCCAGATTCTTCAG 57.886 50.000 2.24 0.00 0.00 3.02
2234 4061 4.082517 GGCCAGATTCTTCAGTTTTTCCTC 60.083 45.833 0.00 0.00 0.00 3.71
2254 4081 4.325658 CCTCCCCTGGATTTTGAATCTTCT 60.326 45.833 0.00 0.00 0.00 2.85
2256 4083 4.541714 TCCCCTGGATTTTGAATCTTCTCT 59.458 41.667 0.00 0.00 0.00 3.10
2269 4096 5.242615 TGAATCTTCTCTGGAGATATGGTCG 59.757 44.000 0.88 0.00 37.29 4.79
2270 4097 4.439253 TCTTCTCTGGAGATATGGTCGA 57.561 45.455 0.88 0.00 37.29 4.20
2271 4098 4.138290 TCTTCTCTGGAGATATGGTCGAC 58.862 47.826 7.13 7.13 37.29 4.20
2272 4099 2.495084 TCTCTGGAGATATGGTCGACG 58.505 52.381 9.92 0.00 31.41 5.12
2274 4101 0.386100 CTGGAGATATGGTCGACGCG 60.386 60.000 9.92 3.53 0.00 6.01
2275 4102 0.816421 TGGAGATATGGTCGACGCGA 60.816 55.000 15.93 0.00 0.00 5.87
2525 4376 2.105466 GGGCAAAGCTCTGCTCGAG 61.105 63.158 12.63 8.45 42.25 4.04
2533 4384 3.429080 CTCTGCTCGAGCTGGCCTC 62.429 68.421 34.73 10.29 42.66 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.008875 TTAACGCTCGCACTCAGCAG 61.009 55.000 0.00 0.00 46.13 4.24
1 2 0.598942 TTTAACGCTCGCACTCAGCA 60.599 50.000 0.00 0.00 46.13 4.41
2 3 0.511221 TTTTAACGCTCGCACTCAGC 59.489 50.000 0.00 0.00 40.87 4.26
3 4 2.941891 TTTTTAACGCTCGCACTCAG 57.058 45.000 0.00 0.00 0.00 3.35
35 36 1.003928 ACGAACGAGGGCCCTATTTTT 59.996 47.619 28.78 15.51 0.00 1.94
36 37 0.616891 ACGAACGAGGGCCCTATTTT 59.383 50.000 28.78 18.36 0.00 1.82
37 38 0.616891 AACGAACGAGGGCCCTATTT 59.383 50.000 28.78 21.26 0.00 1.40
38 39 0.177373 GAACGAACGAGGGCCCTATT 59.823 55.000 28.78 22.91 0.00 1.73
39 40 0.686769 AGAACGAACGAGGGCCCTAT 60.687 55.000 28.78 14.30 0.00 2.57
40 41 1.304713 AGAACGAACGAGGGCCCTA 60.305 57.895 28.78 0.00 0.00 3.53
41 42 2.603776 AGAACGAACGAGGGCCCT 60.604 61.111 29.18 29.18 0.00 5.19
42 43 2.125633 GAGAACGAACGAGGGCCC 60.126 66.667 16.46 16.46 0.00 5.80
43 44 2.506438 CGAGAACGAACGAGGGCC 60.506 66.667 0.00 0.00 42.66 5.80
44 45 0.109597 TAACGAGAACGAACGAGGGC 60.110 55.000 0.14 0.00 42.66 5.19
54 55 1.390463 CGCTTTGGAGCTAACGAGAAC 59.610 52.381 0.00 0.00 46.96 3.01
228 253 8.452534 CCGACAATTAGTGAGTAGAGTATATCC 58.547 40.741 0.00 0.00 0.00 2.59
230 255 9.742144 ATCCGACAATTAGTGAGTAGAGTATAT 57.258 33.333 0.00 0.00 0.00 0.86
231 256 9.000486 CATCCGACAATTAGTGAGTAGAGTATA 58.000 37.037 0.00 0.00 0.00 1.47
232 257 7.720074 TCATCCGACAATTAGTGAGTAGAGTAT 59.280 37.037 0.00 0.00 0.00 2.12
233 258 7.012138 GTCATCCGACAATTAGTGAGTAGAGTA 59.988 40.741 0.00 0.00 42.13 2.59
234 259 5.886474 TCATCCGACAATTAGTGAGTAGAGT 59.114 40.000 0.00 0.00 0.00 3.24
235 260 6.202937 GTCATCCGACAATTAGTGAGTAGAG 58.797 44.000 0.00 0.00 42.13 2.43
236 261 5.220796 CGTCATCCGACAATTAGTGAGTAGA 60.221 44.000 0.00 0.00 42.74 2.59
237 262 4.970611 CGTCATCCGACAATTAGTGAGTAG 59.029 45.833 0.00 0.00 42.74 2.57
282 308 0.107017 ATTCCTCCAATCCACGGCAG 60.107 55.000 0.00 0.00 0.00 4.85
387 433 2.661675 CGATTAATCTATGCACCCGACG 59.338 50.000 13.45 0.00 0.00 5.12
433 495 2.689658 TGGTGGAGAGAAGACCAGAAA 58.310 47.619 0.00 0.00 34.75 2.52
449 514 1.227380 GGATGCTCGTAGGCTGGTG 60.227 63.158 0.00 0.00 0.00 4.17
454 519 0.249238 CTCACTGGATGCTCGTAGGC 60.249 60.000 0.00 0.00 0.00 3.93
481 546 2.115595 CATGAACTGCTCGACTCGATC 58.884 52.381 0.62 0.00 34.61 3.69
504 569 1.365999 GCCCAAAAGGTTCCCAACG 59.634 57.895 0.00 0.00 38.26 4.10
521 586 1.680735 TGTGAAGTGTCCACAATTGGC 59.319 47.619 10.83 0.00 43.56 4.52
563 633 2.227626 CTCATCGCCGTCTGATATCTGT 59.772 50.000 3.98 0.00 0.00 3.41
584 667 1.986575 GAAAGGCCTGATGCTCGTGC 61.987 60.000 5.69 1.71 40.92 5.34
616 699 1.001520 ACCGCCACAAAATTAAAGCCC 59.998 47.619 0.00 0.00 0.00 5.19
689 2049 1.000590 ATGGGGCTGGGATCATTGGA 61.001 55.000 0.00 0.00 0.00 3.53
698 2058 4.201122 GCTGGAGATGGGGCTGGG 62.201 72.222 0.00 0.00 0.00 4.45
703 2063 1.478288 GGAAAGATGCTGGAGATGGGG 60.478 57.143 0.00 0.00 0.00 4.96
808 2175 2.989253 TGTGAGAAGGGCGAGCGA 60.989 61.111 0.00 0.00 0.00 4.93
809 2176 2.507992 CTGTGAGAAGGGCGAGCG 60.508 66.667 0.00 0.00 0.00 5.03
810 2177 2.817396 GCTGTGAGAAGGGCGAGC 60.817 66.667 0.00 0.00 0.00 5.03
811 2178 2.125350 GGCTGTGAGAAGGGCGAG 60.125 66.667 0.00 0.00 0.00 5.03
836 2203 2.223735 TGCTCCGGCTATAATATAGCGC 60.224 50.000 21.75 19.31 41.24 5.92
907 2277 3.977244 CGGTGGGCTGGTTGTTGC 61.977 66.667 0.00 0.00 0.00 4.17
928 2298 3.245315 GACGACGGCGACAATCGG 61.245 66.667 22.49 0.00 41.54 4.18
949 2319 1.077357 GGGAGACGGAGAGCAGAGA 60.077 63.158 0.00 0.00 0.00 3.10
1107 2495 2.581953 CGGCAGAGCGAGAAGAGC 60.582 66.667 0.00 0.00 0.00 4.09
1230 2621 2.670934 GCTGTGGAGGTGCAGGTG 60.671 66.667 0.00 0.00 33.62 4.00
1233 2624 3.644606 AGGGCTGTGGAGGTGCAG 61.645 66.667 0.00 0.00 35.93 4.41
1234 2625 3.957586 CAGGGCTGTGGAGGTGCA 61.958 66.667 0.00 0.00 0.00 4.57
1287 2684 5.654650 ACACATGTAAGAACCAAGAACCAAA 59.345 36.000 0.00 0.00 0.00 3.28
1297 2694 1.812571 CAGGGCACACATGTAAGAACC 59.187 52.381 0.00 0.00 0.00 3.62
1298 2695 2.504367 ACAGGGCACACATGTAAGAAC 58.496 47.619 0.00 0.00 43.24 3.01
1299 2696 2.949177 ACAGGGCACACATGTAAGAA 57.051 45.000 0.00 0.00 43.24 2.52
1301 2698 3.149196 AGAAACAGGGCACACATGTAAG 58.851 45.455 0.00 0.00 44.50 2.34
1302 2699 3.222173 AGAAACAGGGCACACATGTAA 57.778 42.857 0.00 0.00 44.50 2.41
1305 2702 2.624838 AGAAAGAAACAGGGCACACATG 59.375 45.455 0.00 0.00 36.81 3.21
1306 2703 2.949447 AGAAAGAAACAGGGCACACAT 58.051 42.857 0.00 0.00 0.00 3.21
1307 2704 2.435372 AGAAAGAAACAGGGCACACA 57.565 45.000 0.00 0.00 0.00 3.72
1308 2705 3.381590 AGAAAGAAAGAAACAGGGCACAC 59.618 43.478 0.00 0.00 0.00 3.82
1312 2709 2.226674 CGGAGAAAGAAAGAAACAGGGC 59.773 50.000 0.00 0.00 0.00 5.19
1331 2728 3.782244 GCTTCTCTGCACGCACGG 61.782 66.667 0.00 0.00 0.00 4.94
1332 2729 4.126390 CGCTTCTCTGCACGCACG 62.126 66.667 0.00 0.00 0.00 5.34
1573 2970 2.767445 GGGGTTAATTGACGCCGGC 61.767 63.158 19.07 19.07 41.88 6.13
1592 2989 1.535462 GATGGGATGGATTAAACGGCG 59.465 52.381 4.80 4.80 0.00 6.46
1593 2990 1.886542 GGATGGGATGGATTAAACGGC 59.113 52.381 0.00 0.00 0.00 5.68
1595 2992 2.514803 GGGGATGGGATGGATTAAACG 58.485 52.381 0.00 0.00 0.00 3.60
1596 2993 2.158519 ACGGGGATGGGATGGATTAAAC 60.159 50.000 0.00 0.00 0.00 2.01
1599 2996 1.132527 AGACGGGGATGGGATGGATTA 60.133 52.381 0.00 0.00 0.00 1.75
1607 3014 1.745320 CGGACTAAGACGGGGATGGG 61.745 65.000 0.00 0.00 0.00 4.00
1672 3080 2.493278 ACAAAAATCTCCCAATCAGCGG 59.507 45.455 0.00 0.00 0.00 5.52
1743 3151 8.857216 ACGACAACGAGTAGAACAATTAATAAG 58.143 33.333 0.00 0.00 42.66 1.73
1745 3153 9.838975 TTACGACAACGAGTAGAACAATTAATA 57.161 29.630 0.00 0.00 42.66 0.98
1746 3154 8.642020 GTTACGACAACGAGTAGAACAATTAAT 58.358 33.333 0.00 0.00 42.66 1.40
1801 3209 3.340034 TGGACCAATTTGGCTACTTACG 58.660 45.455 15.49 0.00 42.67 3.18
1898 3306 4.506255 GGAGGGGGCCGTGGAATG 62.506 72.222 0.00 0.00 0.00 2.67
1906 3314 4.299796 TTGCACAAGGAGGGGGCC 62.300 66.667 0.00 0.00 0.00 5.80
1950 3621 0.036732 AATCGAAGCTTGGAGCACCA 59.963 50.000 16.55 0.00 45.56 4.17
1951 3622 1.135575 CAAATCGAAGCTTGGAGCACC 60.136 52.381 16.55 0.00 45.56 5.01
1954 3625 2.079925 AGTCAAATCGAAGCTTGGAGC 58.920 47.619 16.55 4.89 42.84 4.70
1956 3627 1.806542 GCAGTCAAATCGAAGCTTGGA 59.193 47.619 13.88 13.88 0.00 3.53
1957 3628 1.808945 AGCAGTCAAATCGAAGCTTGG 59.191 47.619 2.10 1.69 34.53 3.61
1958 3629 3.549299 AAGCAGTCAAATCGAAGCTTG 57.451 42.857 2.10 0.00 42.49 4.01
1961 3632 1.537202 ACCAAGCAGTCAAATCGAAGC 59.463 47.619 0.00 0.00 0.00 3.86
1962 3633 3.904136 AACCAAGCAGTCAAATCGAAG 57.096 42.857 0.00 0.00 0.00 3.79
1965 3636 3.624326 TCAAACCAAGCAGTCAAATCG 57.376 42.857 0.00 0.00 0.00 3.34
1968 3639 3.243501 GCAGATCAAACCAAGCAGTCAAA 60.244 43.478 0.00 0.00 0.00 2.69
1969 3640 2.294233 GCAGATCAAACCAAGCAGTCAA 59.706 45.455 0.00 0.00 0.00 3.18
1971 3642 1.200948 GGCAGATCAAACCAAGCAGTC 59.799 52.381 0.00 0.00 0.00 3.51
1972 3643 1.251251 GGCAGATCAAACCAAGCAGT 58.749 50.000 0.00 0.00 0.00 4.40
1973 3644 0.529378 GGGCAGATCAAACCAAGCAG 59.471 55.000 0.00 0.00 0.00 4.24
1980 3801 3.071580 CGAGAGGGGCAGATCAAAC 57.928 57.895 0.00 0.00 0.00 2.93
2045 3867 3.181467 CCAAAGAACCAAATCCAGCAACA 60.181 43.478 0.00 0.00 0.00 3.33
2047 3869 2.368221 CCCAAAGAACCAAATCCAGCAA 59.632 45.455 0.00 0.00 0.00 3.91
2048 3870 1.969923 CCCAAAGAACCAAATCCAGCA 59.030 47.619 0.00 0.00 0.00 4.41
2049 3871 2.247358 TCCCAAAGAACCAAATCCAGC 58.753 47.619 0.00 0.00 0.00 4.85
2050 3872 3.834231 ACATCCCAAAGAACCAAATCCAG 59.166 43.478 0.00 0.00 0.00 3.86
2059 3881 4.024556 CGCTGATATGACATCCCAAAGAAC 60.025 45.833 0.00 0.00 0.00 3.01
2115 3940 3.790416 TTTCGTTGCCTGCAGCCCT 62.790 57.895 8.66 0.00 42.71 5.19
2116 3941 3.294493 TTTCGTTGCCTGCAGCCC 61.294 61.111 8.66 1.51 42.71 5.19
2117 3942 2.050077 GTTTCGTTGCCTGCAGCC 60.050 61.111 8.66 0.00 42.71 4.85
2118 3943 1.658409 GTGTTTCGTTGCCTGCAGC 60.658 57.895 8.66 4.57 44.14 5.25
2119 3944 0.100325 TTGTGTTTCGTTGCCTGCAG 59.900 50.000 6.78 6.78 0.00 4.41
2120 3945 0.100325 CTTGTGTTTCGTTGCCTGCA 59.900 50.000 0.00 0.00 0.00 4.41
2124 3949 0.317854 GAGCCTTGTGTTTCGTTGCC 60.318 55.000 0.00 0.00 0.00 4.52
2225 4050 3.901222 TCAAAATCCAGGGGAGGAAAAAC 59.099 43.478 0.00 0.00 41.92 2.43
2234 4061 4.643784 CAGAGAAGATTCAAAATCCAGGGG 59.356 45.833 0.00 0.00 0.00 4.79
2254 4081 0.952280 GCGTCGACCATATCTCCAGA 59.048 55.000 10.58 0.00 0.00 3.86
2256 4083 0.816421 TCGCGTCGACCATATCTCCA 60.816 55.000 10.58 0.00 0.00 3.86
2274 4101 2.717809 GACACCGAGCTTTCGCGTC 61.718 63.158 5.77 0.00 42.32 5.19
2275 4102 2.694829 AAGACACCGAGCTTTCGCGT 62.695 55.000 5.77 0.00 42.32 6.01
2323 4159 3.825160 TTCACCTGTCACTGCCGGC 62.825 63.158 22.73 22.73 0.00 6.13
2337 4173 1.486726 CACCACCCTATCTCCCTTCAC 59.513 57.143 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.