Multiple sequence alignment - TraesCS7D01G293100

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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 TraesCS7D01G293100 chr7D 100.000 3574 0 0 1 3574 362377527 362373954 0.000000e+00 6601
1 TraesCS7D01G293100 chr7D 94.968 616 25 5 2964 3574 590576360 590576974 0.000000e+00 961
2 TraesCS7D01G293100 chr7D 95.261 612 17 7 2964 3574 550682861 550682261 0.000000e+00 959
3 TraesCS7D01G293100 chr7B 96.328 2097 54 7 881 2963 324388152 324390239 0.000000e+00 3424
4 TraesCS7D01G293100 chr7B 93.269 104 6 1 781 883 324382389 324382492 6.180000e-33 152
5 TraesCS7D01G293100 chr7A 96.760 2006 45 8 866 2871 380516977 380514992 0.000000e+00 3326
6 TraesCS7D01G293100 chr7A 93.964 613 21 6 2964 3574 19963092 19962494 0.000000e+00 913
7 TraesCS7D01G293100 chr6D 95.277 614 25 4 2964 3574 102245273 102245885 0.000000e+00 970
8 TraesCS7D01G293100 chr6D 74.334 413 69 23 346 744 86715097 86714708 1.340000e-29 141
9 TraesCS7D01G293100 chr3D 94.472 615 18 4 2964 3574 53814858 53814256 0.000000e+00 933
10 TraesCS7D01G293100 chr3D 89.564 527 48 7 1 523 41046533 41047056 0.000000e+00 662
11 TraesCS7D01G293100 chr3D 89.928 139 11 2 643 779 41047344 41047481 3.670000e-40 176
12 TraesCS7D01G293100 chr5D 94.127 613 23 5 2964 3574 42995509 42994908 0.000000e+00 920
13 TraesCS7D01G293100 chr5D 81.467 518 87 7 1 512 525187456 525187970 1.980000e-112 416
14 TraesCS7D01G293100 chr5D 81.385 231 24 4 1583 1812 451908498 451908710 1.710000e-38 171
15 TraesCS7D01G293100 chr4D 94.137 614 17 6 2964 3574 122719661 122720258 0.000000e+00 917
16 TraesCS7D01G293100 chr4D 85.417 144 20 1 28 170 508264146 508264289 7.990000e-32 148
17 TraesCS7D01G293100 chr2A 92.007 613 31 9 2964 3574 712847305 712847901 0.000000e+00 845
18 TraesCS7D01G293100 chr2A 91.028 613 34 7 2964 3574 2362926 2362333 0.000000e+00 808
19 TraesCS7D01G293100 chr2A 79.141 326 53 11 16 330 19595611 19595290 1.010000e-50 211
20 TraesCS7D01G293100 chr1D 87.722 619 45 13 2959 3574 80643206 80643796 0.000000e+00 693
21 TraesCS7D01G293100 chr5A 88.582 543 41 8 1 542 44185825 44185303 1.080000e-179 640
22 TraesCS7D01G293100 chr5A 89.062 128 11 2 1690 1814 570777584 570777711 4.780000e-34 156
23 TraesCS7D01G293100 chr1B 83.929 448 34 22 349 779 656519216 656518790 9.300000e-106 394
24 TraesCS7D01G293100 chr1B 87.805 328 32 2 25 352 656519802 656519483 9.370000e-101 377
25 TraesCS7D01G293100 chr2B 80.665 331 57 4 15 340 767463157 767462829 2.130000e-62 250
26 TraesCS7D01G293100 chrUn 75.152 330 74 6 16 338 350741576 350741248 7.990000e-32 148
27 TraesCS7D01G293100 chr5B 78.298 235 45 5 14 247 704898968 704898739 2.880000e-31 147


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 TraesCS7D01G293100 chr7D 362373954 362377527 3573 True 6601.0 6601 100.000 1 3574 1 chr7D.!!$R1 3573
1 TraesCS7D01G293100 chr7D 590576360 590576974 614 False 961.0 961 94.968 2964 3574 1 chr7D.!!$F1 610
2 TraesCS7D01G293100 chr7D 550682261 550682861 600 True 959.0 959 95.261 2964 3574 1 chr7D.!!$R2 610
3 TraesCS7D01G293100 chr7B 324388152 324390239 2087 False 3424.0 3424 96.328 881 2963 1 chr7B.!!$F2 2082
4 TraesCS7D01G293100 chr7A 380514992 380516977 1985 True 3326.0 3326 96.760 866 2871 1 chr7A.!!$R2 2005
5 TraesCS7D01G293100 chr7A 19962494 19963092 598 True 913.0 913 93.964 2964 3574 1 chr7A.!!$R1 610
6 TraesCS7D01G293100 chr6D 102245273 102245885 612 False 970.0 970 95.277 2964 3574 1 chr6D.!!$F1 610
7 TraesCS7D01G293100 chr3D 53814256 53814858 602 True 933.0 933 94.472 2964 3574 1 chr3D.!!$R1 610
8 TraesCS7D01G293100 chr3D 41046533 41047481 948 False 419.0 662 89.746 1 779 2 chr3D.!!$F1 778
9 TraesCS7D01G293100 chr5D 42994908 42995509 601 True 920.0 920 94.127 2964 3574 1 chr5D.!!$R1 610
10 TraesCS7D01G293100 chr5D 525187456 525187970 514 False 416.0 416 81.467 1 512 1 chr5D.!!$F2 511
11 TraesCS7D01G293100 chr4D 122719661 122720258 597 False 917.0 917 94.137 2964 3574 1 chr4D.!!$F1 610
12 TraesCS7D01G293100 chr2A 712847305 712847901 596 False 845.0 845 92.007 2964 3574 1 chr2A.!!$F1 610
13 TraesCS7D01G293100 chr2A 2362333 2362926 593 True 808.0 808 91.028 2964 3574 1 chr2A.!!$R1 610
14 TraesCS7D01G293100 chr1D 80643206 80643796 590 False 693.0 693 87.722 2959 3574 1 chr1D.!!$F1 615
15 TraesCS7D01G293100 chr5A 44185303 44185825 522 True 640.0 640 88.582 1 542 1 chr5A.!!$R1 541
16 TraesCS7D01G293100 chr1B 656518790 656519802 1012 True 385.5 394 85.867 25 779 2 chr1B.!!$R1 754

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
732 1185 0.108520 CGGCGGCTAGTTTTACCTCA 60.109 55.0 7.61 0.0 0.00 3.86 F
821 1276 0.604578 CGGAAAGTAACGGAGGTCCA 59.395 55.0 0.00 0.0 35.14 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2091 2549 0.035458 GTGTGTTGCTCTAGCCTGGT 59.965 55.0 0.0 0.0 41.18 4.00 R
2650 3113 0.250467 ACCACTGCGTTGAGAGCAAT 60.250 50.0 0.0 0.0 44.67 3.56 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
104 106 8.824781 CGATGAGAATCTTGATTTAGACATGTT 58.175 33.333 0.00 0.00 34.92 2.71
152 155 4.552278 CGCCGCGCTATCATAAGA 57.448 55.556 5.56 0.00 0.00 2.10
242 248 5.769367 CCAATTTGTATAGATCTCCGACGA 58.231 41.667 0.00 0.00 0.00 4.20
269 275 1.918253 GGACCTCATCAGTGGCCAT 59.082 57.895 9.72 0.00 31.50 4.40
308 314 2.147436 GGCAAAAAGACGAATTGGCA 57.853 45.000 6.44 0.00 45.70 4.92
309 315 2.687370 GGCAAAAAGACGAATTGGCAT 58.313 42.857 6.44 0.00 45.70 4.40
339 353 0.988832 CTAGGGCCAAACCACCACTA 59.011 55.000 6.18 0.00 42.05 2.74
466 751 1.595109 CAGATCGCAATAGCCGGCA 60.595 57.895 31.54 15.56 37.52 5.69
574 872 2.747460 GCCAACGCAGCATCCAGA 60.747 61.111 0.00 0.00 34.03 3.86
577 875 1.376424 CAACGCAGCATCCAGACCT 60.376 57.895 0.00 0.00 0.00 3.85
588 886 3.385384 CAGACCTGGCAGCCTCGA 61.385 66.667 14.15 0.00 0.00 4.04
603 901 4.194720 CGACCCGCGCTAGAAGCT 62.195 66.667 5.56 0.00 39.60 3.74
608 906 2.181777 CGCGCTAGAAGCTCCACA 59.818 61.111 5.56 0.00 39.60 4.17
610 908 1.079819 GCGCTAGAAGCTCCACACA 60.080 57.895 0.00 0.00 39.60 3.72
732 1185 0.108520 CGGCGGCTAGTTTTACCTCA 60.109 55.000 7.61 0.00 0.00 3.86
782 1237 2.724977 GATCGCCGATCCTGTTATCA 57.275 50.000 16.12 0.00 33.37 2.15
783 1238 3.238108 GATCGCCGATCCTGTTATCAT 57.762 47.619 16.12 0.00 33.37 2.45
784 1239 2.724977 TCGCCGATCCTGTTATCATC 57.275 50.000 0.00 0.00 0.00 2.92
785 1240 1.068541 TCGCCGATCCTGTTATCATCG 60.069 52.381 0.00 0.00 34.86 3.84
793 1248 7.226757 CGATCCTGTTATCATCGGATATTTG 57.773 40.000 0.00 0.00 36.44 2.32
794 1249 6.813649 CGATCCTGTTATCATCGGATATTTGT 59.186 38.462 0.00 0.00 36.44 2.83
795 1250 7.973944 CGATCCTGTTATCATCGGATATTTGTA 59.026 37.037 0.00 0.00 36.44 2.41
796 1251 9.653287 GATCCTGTTATCATCGGATATTTGTAA 57.347 33.333 0.00 0.00 36.44 2.41
804 1259 7.595311 TCATCGGATATTTGTAAATCATCGG 57.405 36.000 0.00 2.26 0.00 4.18
805 1260 7.382898 TCATCGGATATTTGTAAATCATCGGA 58.617 34.615 0.00 13.01 31.32 4.55
806 1261 7.875554 TCATCGGATATTTGTAAATCATCGGAA 59.124 33.333 13.78 0.00 31.00 4.30
807 1262 8.503196 CATCGGATATTTGTAAATCATCGGAAA 58.497 33.333 13.78 0.00 31.00 3.13
808 1263 8.083462 TCGGATATTTGTAAATCATCGGAAAG 57.917 34.615 0.00 0.00 0.00 2.62
809 1264 7.713507 TCGGATATTTGTAAATCATCGGAAAGT 59.286 33.333 0.00 0.00 0.00 2.66
810 1265 8.984764 CGGATATTTGTAAATCATCGGAAAGTA 58.015 33.333 0.00 0.00 0.00 2.24
814 1269 6.411630 TTGTAAATCATCGGAAAGTAACGG 57.588 37.500 0.00 0.00 0.00 4.44
815 1270 5.722263 TGTAAATCATCGGAAAGTAACGGA 58.278 37.500 0.00 0.00 0.00 4.69
816 1271 5.808540 TGTAAATCATCGGAAAGTAACGGAG 59.191 40.000 0.00 0.00 0.00 4.63
817 1272 2.953466 TCATCGGAAAGTAACGGAGG 57.047 50.000 0.00 0.00 0.00 4.30
818 1273 2.173519 TCATCGGAAAGTAACGGAGGT 58.826 47.619 0.00 0.00 0.00 3.85
819 1274 2.165030 TCATCGGAAAGTAACGGAGGTC 59.835 50.000 0.00 0.00 0.00 3.85
820 1275 0.890683 TCGGAAAGTAACGGAGGTCC 59.109 55.000 0.00 0.00 0.00 4.46
821 1276 0.604578 CGGAAAGTAACGGAGGTCCA 59.395 55.000 0.00 0.00 35.14 4.02
822 1277 1.001181 CGGAAAGTAACGGAGGTCCAA 59.999 52.381 0.00 0.00 35.14 3.53
823 1278 2.548493 CGGAAAGTAACGGAGGTCCAAA 60.548 50.000 0.00 0.00 35.14 3.28
824 1279 3.479489 GGAAAGTAACGGAGGTCCAAAA 58.521 45.455 0.00 0.00 35.14 2.44
825 1280 3.501062 GGAAAGTAACGGAGGTCCAAAAG 59.499 47.826 0.00 0.00 35.14 2.27
826 1281 4.383173 GAAAGTAACGGAGGTCCAAAAGA 58.617 43.478 0.00 0.00 35.14 2.52
827 1282 4.426736 AAGTAACGGAGGTCCAAAAGAA 57.573 40.909 0.00 0.00 35.14 2.52
828 1283 4.426736 AGTAACGGAGGTCCAAAAGAAA 57.573 40.909 0.00 0.00 35.14 2.52
829 1284 4.784177 AGTAACGGAGGTCCAAAAGAAAA 58.216 39.130 0.00 0.00 35.14 2.29
830 1285 4.577693 AGTAACGGAGGTCCAAAAGAAAAC 59.422 41.667 0.00 0.00 35.14 2.43
831 1286 2.304092 ACGGAGGTCCAAAAGAAAACC 58.696 47.619 0.00 0.00 35.14 3.27
832 1287 1.265905 CGGAGGTCCAAAAGAAAACCG 59.734 52.381 0.00 0.00 36.87 4.44
833 1288 1.611977 GGAGGTCCAAAAGAAAACCGG 59.388 52.381 0.00 0.00 36.87 5.28
834 1289 2.578786 GAGGTCCAAAAGAAAACCGGA 58.421 47.619 9.46 0.00 36.87 5.14
835 1290 3.154710 GAGGTCCAAAAGAAAACCGGAT 58.845 45.455 9.46 0.00 36.87 4.18
836 1291 2.890945 AGGTCCAAAAGAAAACCGGATG 59.109 45.455 9.46 0.00 36.87 3.51
837 1292 2.029380 GGTCCAAAAGAAAACCGGATGG 60.029 50.000 9.46 3.27 42.84 3.51
838 1293 1.616374 TCCAAAAGAAAACCGGATGGC 59.384 47.619 9.46 0.00 39.70 4.40
839 1294 1.618343 CCAAAAGAAAACCGGATGGCT 59.382 47.619 9.46 0.00 39.70 4.75
840 1295 2.610232 CCAAAAGAAAACCGGATGGCTG 60.610 50.000 9.46 0.00 39.70 4.85
841 1296 1.256812 AAAGAAAACCGGATGGCTGG 58.743 50.000 9.46 0.00 46.62 4.85
842 1297 1.250840 AAGAAAACCGGATGGCTGGC 61.251 55.000 9.46 0.00 44.98 4.85
843 1298 1.678970 GAAAACCGGATGGCTGGCT 60.679 57.895 9.46 0.00 44.98 4.75
844 1299 1.937546 GAAAACCGGATGGCTGGCTG 61.938 60.000 9.46 0.00 44.98 4.85
845 1300 2.713531 AAAACCGGATGGCTGGCTGT 62.714 55.000 9.46 0.00 44.98 4.40
846 1301 3.925630 AACCGGATGGCTGGCTGTG 62.926 63.158 9.46 0.00 44.98 3.66
847 1302 4.100084 CCGGATGGCTGGCTGTGA 62.100 66.667 0.00 0.00 32.79 3.58
848 1303 2.191375 CGGATGGCTGGCTGTGAT 59.809 61.111 2.00 0.00 0.00 3.06
849 1304 1.452651 CGGATGGCTGGCTGTGATT 60.453 57.895 2.00 0.00 0.00 2.57
850 1305 1.033746 CGGATGGCTGGCTGTGATTT 61.034 55.000 2.00 0.00 0.00 2.17
851 1306 0.743097 GGATGGCTGGCTGTGATTTC 59.257 55.000 2.00 0.00 0.00 2.17
852 1307 1.684248 GGATGGCTGGCTGTGATTTCT 60.684 52.381 2.00 0.00 0.00 2.52
853 1308 2.097825 GATGGCTGGCTGTGATTTCTT 58.902 47.619 2.00 0.00 0.00 2.52
854 1309 1.538047 TGGCTGGCTGTGATTTCTTC 58.462 50.000 2.00 0.00 0.00 2.87
855 1310 1.202915 TGGCTGGCTGTGATTTCTTCA 60.203 47.619 2.00 0.00 0.00 3.02
856 1311 2.097825 GGCTGGCTGTGATTTCTTCAT 58.902 47.619 0.00 0.00 36.54 2.57
857 1312 2.159282 GGCTGGCTGTGATTTCTTCATG 60.159 50.000 0.00 0.00 36.54 3.07
858 1313 2.490903 GCTGGCTGTGATTTCTTCATGT 59.509 45.455 0.00 0.00 36.54 3.21
859 1314 3.427233 GCTGGCTGTGATTTCTTCATGTC 60.427 47.826 0.00 0.00 36.54 3.06
860 1315 3.753815 TGGCTGTGATTTCTTCATGTCA 58.246 40.909 0.00 0.00 36.54 3.58
861 1316 3.754850 TGGCTGTGATTTCTTCATGTCAG 59.245 43.478 0.00 0.00 36.54 3.51
862 1317 3.755378 GGCTGTGATTTCTTCATGTCAGT 59.245 43.478 0.00 0.00 36.54 3.41
863 1318 4.379186 GGCTGTGATTTCTTCATGTCAGTG 60.379 45.833 0.00 0.00 36.54 3.66
864 1319 4.214971 GCTGTGATTTCTTCATGTCAGTGT 59.785 41.667 0.00 0.00 36.54 3.55
875 1330 2.445565 TGTCAGTGTCATGCTCACTC 57.554 50.000 16.54 9.91 43.14 3.51
879 1334 1.001746 CAGTGTCATGCTCACTCTGGT 59.998 52.381 16.54 0.00 43.14 4.00
935 1390 2.724977 TCACTCTTGTCTTAGCCACG 57.275 50.000 0.00 0.00 0.00 4.94
972 1427 2.305853 CGCGCATCATCTTCCTCCG 61.306 63.158 8.75 0.00 0.00 4.63
977 1432 0.877649 CATCATCTTCCTCCGCACCG 60.878 60.000 0.00 0.00 0.00 4.94
1075 1530 4.074526 TCAGGGCTCAGCACTCGC 62.075 66.667 0.00 0.00 38.16 5.03
1093 1548 0.620556 GCCACTTCCTTCCATCCTCA 59.379 55.000 0.00 0.00 0.00 3.86
1380 1835 4.796231 GGCGGCGTCGTCATCACT 62.796 66.667 10.16 0.00 41.24 3.41
1820 2275 5.745227 ACTTTGTAGTAAGCAGGTATGCAT 58.255 37.500 3.79 3.79 43.52 3.96
1922 2377 7.809806 GTGGAGTTTACAAGATTCTCATTTTGG 59.190 37.037 0.00 0.00 30.25 3.28
2057 2515 1.411246 TGGTCGCTACAGTGTGACTTT 59.589 47.619 5.88 0.00 44.27 2.66
2256 2719 1.414181 AGCCTGATGACTTATGACCGG 59.586 52.381 0.00 0.00 0.00 5.28
2419 2882 1.069090 GGTTATCGGCATCGCTGGA 59.931 57.895 0.00 0.00 35.34 3.86
2495 2958 2.325583 TTGTTCTGGTCGACAAGCTT 57.674 45.000 18.91 0.00 32.43 3.74
2719 3182 6.471233 TTCATGTGGTGTTGGTATTGAAAA 57.529 33.333 0.00 0.00 0.00 2.29
2745 3208 1.945394 CCTCATCTTGGCATGCACTAC 59.055 52.381 21.36 1.89 0.00 2.73
2863 3332 3.857665 TCGATTAGCTAAGCTTTGTCACG 59.142 43.478 18.84 6.53 40.44 4.35
2883 3352 7.039011 TGTCACGCCCTCTTAGATAATCATTAT 60.039 37.037 0.00 0.00 0.00 1.28
2884 3353 8.467598 GTCACGCCCTCTTAGATAATCATTATA 58.532 37.037 0.00 0.00 0.00 0.98
2956 3425 5.431765 CATAACTGCTTCCACTATGGTTCT 58.568 41.667 0.00 0.00 39.03 3.01
3001 3470 0.984995 ACCAGTTTGAGGGCTAGGTC 59.015 55.000 0.00 0.00 0.00 3.85
3565 4089 1.004044 CAGGTCCCTGCTTCAACTGAT 59.996 52.381 0.00 0.00 37.24 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 11 4.985413 TGAAGCTTTGGCGAAAGAATATG 58.015 39.130 23.51 0.00 41.12 1.78
18 20 2.350522 GAGATCTTGAAGCTTTGGCGA 58.649 47.619 0.00 0.00 44.37 5.54
104 106 3.531538 GCTTTCTTATCGGTGTCATGGA 58.468 45.455 0.00 0.00 0.00 3.41
152 155 1.873903 GCGATTATCAGCCATCACGGT 60.874 52.381 0.00 0.00 36.97 4.83
211 217 7.885399 GGAGATCTATACAAATTGGCCTATGTT 59.115 37.037 3.32 0.00 0.00 2.71
242 248 1.759445 CTGATGAGGTCCGATGTTCCT 59.241 52.381 0.00 0.00 0.00 3.36
249 255 2.359169 GGCCACTGATGAGGTCCGA 61.359 63.158 0.00 0.00 0.00 4.55
269 275 3.557054 GCCATATGCCAACCTCTTCGATA 60.557 47.826 0.00 0.00 0.00 2.92
293 299 6.311200 GCTTTTCATATGCCAATTCGTCTTTT 59.689 34.615 0.00 0.00 0.00 2.27
308 314 1.142870 TGGCCCTAGCGCTTTTCATAT 59.857 47.619 18.68 0.00 41.24 1.78
309 315 0.544223 TGGCCCTAGCGCTTTTCATA 59.456 50.000 18.68 0.00 41.24 2.15
339 353 3.833645 TGGAGTTAGCGGCGCGAT 61.834 61.111 27.59 13.08 0.00 4.58
457 742 2.426023 GTCGGGATTGCCGGCTAT 59.574 61.111 29.70 26.60 34.68 2.97
466 751 0.532862 CTTGCATAGCGGTCGGGATT 60.533 55.000 0.00 0.00 0.00 3.01
557 855 2.747460 TCTGGATGCTGCGTTGGC 60.747 61.111 0.00 0.00 40.52 4.52
558 856 2.401766 GGTCTGGATGCTGCGTTGG 61.402 63.158 0.00 0.00 0.00 3.77
594 892 1.276421 TCCTTGTGTGGAGCTTCTAGC 59.724 52.381 0.00 0.00 42.84 3.42
603 901 0.959553 GTCTCGTCTCCTTGTGTGGA 59.040 55.000 0.00 0.00 34.52 4.02
608 906 1.186267 GGGTGGTCTCGTCTCCTTGT 61.186 60.000 0.00 0.00 0.00 3.16
610 908 1.977544 CGGGTGGTCTCGTCTCCTT 60.978 63.158 0.00 0.00 0.00 3.36
755 1210 4.916314 ATCGGCGATCCCTCCCGT 62.916 66.667 18.14 0.00 42.48 5.28
779 1234 8.040727 TCCGATGATTTACAAATATCCGATGAT 58.959 33.333 0.00 0.00 34.87 2.45
780 1235 7.382898 TCCGATGATTTACAAATATCCGATGA 58.617 34.615 0.00 0.00 0.00 2.92
781 1236 7.595311 TCCGATGATTTACAAATATCCGATG 57.405 36.000 0.00 0.00 0.00 3.84
782 1237 8.615878 TTTCCGATGATTTACAAATATCCGAT 57.384 30.769 0.00 0.00 0.00 4.18
783 1238 7.713507 ACTTTCCGATGATTTACAAATATCCGA 59.286 33.333 0.00 0.00 0.00 4.55
784 1239 7.861630 ACTTTCCGATGATTTACAAATATCCG 58.138 34.615 0.00 0.00 0.00 4.18
788 1243 8.605746 CCGTTACTTTCCGATGATTTACAAATA 58.394 33.333 0.00 0.00 0.00 1.40
789 1244 7.334921 TCCGTTACTTTCCGATGATTTACAAAT 59.665 33.333 0.00 0.00 0.00 2.32
790 1245 6.649973 TCCGTTACTTTCCGATGATTTACAAA 59.350 34.615 0.00 0.00 0.00 2.83
791 1246 6.164876 TCCGTTACTTTCCGATGATTTACAA 58.835 36.000 0.00 0.00 0.00 2.41
792 1247 5.722263 TCCGTTACTTTCCGATGATTTACA 58.278 37.500 0.00 0.00 0.00 2.41
793 1248 5.233689 CCTCCGTTACTTTCCGATGATTTAC 59.766 44.000 0.00 0.00 0.00 2.01
794 1249 5.105228 ACCTCCGTTACTTTCCGATGATTTA 60.105 40.000 0.00 0.00 0.00 1.40
795 1250 4.189231 CCTCCGTTACTTTCCGATGATTT 58.811 43.478 0.00 0.00 0.00 2.17
796 1251 3.197116 ACCTCCGTTACTTTCCGATGATT 59.803 43.478 0.00 0.00 0.00 2.57
797 1252 2.764572 ACCTCCGTTACTTTCCGATGAT 59.235 45.455 0.00 0.00 0.00 2.45
798 1253 2.165030 GACCTCCGTTACTTTCCGATGA 59.835 50.000 0.00 0.00 0.00 2.92
799 1254 2.537401 GACCTCCGTTACTTTCCGATG 58.463 52.381 0.00 0.00 0.00 3.84
800 1255 1.479730 GGACCTCCGTTACTTTCCGAT 59.520 52.381 0.00 0.00 0.00 4.18
801 1256 0.890683 GGACCTCCGTTACTTTCCGA 59.109 55.000 0.00 0.00 0.00 4.55
802 1257 0.604578 TGGACCTCCGTTACTTTCCG 59.395 55.000 0.00 0.00 39.43 4.30
803 1258 2.845363 TTGGACCTCCGTTACTTTCC 57.155 50.000 0.00 0.00 39.43 3.13
804 1259 4.383173 TCTTTTGGACCTCCGTTACTTTC 58.617 43.478 0.00 0.00 39.43 2.62
805 1260 4.426736 TCTTTTGGACCTCCGTTACTTT 57.573 40.909 0.00 0.00 39.43 2.66
806 1261 4.426736 TTCTTTTGGACCTCCGTTACTT 57.573 40.909 0.00 0.00 39.43 2.24
807 1262 4.426736 TTTCTTTTGGACCTCCGTTACT 57.573 40.909 0.00 0.00 39.43 2.24
808 1263 4.261322 GGTTTTCTTTTGGACCTCCGTTAC 60.261 45.833 0.00 0.00 39.43 2.50
809 1264 3.884693 GGTTTTCTTTTGGACCTCCGTTA 59.115 43.478 0.00 0.00 39.43 3.18
810 1265 2.691526 GGTTTTCTTTTGGACCTCCGTT 59.308 45.455 0.00 0.00 39.43 4.44
811 1266 2.304092 GGTTTTCTTTTGGACCTCCGT 58.696 47.619 0.00 0.00 39.43 4.69
812 1267 1.265905 CGGTTTTCTTTTGGACCTCCG 59.734 52.381 0.00 0.00 39.43 4.63
813 1268 1.611977 CCGGTTTTCTTTTGGACCTCC 59.388 52.381 0.00 0.00 0.00 4.30
814 1269 2.578786 TCCGGTTTTCTTTTGGACCTC 58.421 47.619 0.00 0.00 0.00 3.85
815 1270 2.740506 TCCGGTTTTCTTTTGGACCT 57.259 45.000 0.00 0.00 0.00 3.85
816 1271 2.029380 CCATCCGGTTTTCTTTTGGACC 60.029 50.000 0.00 0.00 0.00 4.46
817 1272 2.609491 GCCATCCGGTTTTCTTTTGGAC 60.609 50.000 0.00 0.00 33.28 4.02
818 1273 1.616374 GCCATCCGGTTTTCTTTTGGA 59.384 47.619 0.00 0.00 33.28 3.53
819 1274 1.618343 AGCCATCCGGTTTTCTTTTGG 59.382 47.619 0.00 0.00 33.28 3.28
820 1275 2.610232 CCAGCCATCCGGTTTTCTTTTG 60.610 50.000 0.00 0.00 33.28 2.44
821 1276 1.618343 CCAGCCATCCGGTTTTCTTTT 59.382 47.619 0.00 0.00 33.28 2.27
822 1277 1.256812 CCAGCCATCCGGTTTTCTTT 58.743 50.000 0.00 0.00 33.28 2.52
823 1278 1.250840 GCCAGCCATCCGGTTTTCTT 61.251 55.000 0.00 0.00 33.28 2.52
824 1279 1.678970 GCCAGCCATCCGGTTTTCT 60.679 57.895 0.00 0.00 33.28 2.52
825 1280 1.678970 AGCCAGCCATCCGGTTTTC 60.679 57.895 0.00 0.00 33.28 2.29
826 1281 1.978617 CAGCCAGCCATCCGGTTTT 60.979 57.895 0.00 0.00 33.28 2.43
827 1282 2.361610 CAGCCAGCCATCCGGTTT 60.362 61.111 0.00 0.00 33.28 3.27
828 1283 3.650950 ACAGCCAGCCATCCGGTT 61.651 61.111 0.00 0.00 33.28 4.44
829 1284 4.415150 CACAGCCAGCCATCCGGT 62.415 66.667 0.00 0.00 33.28 5.28
830 1285 2.898920 AATCACAGCCAGCCATCCGG 62.899 60.000 0.00 0.00 0.00 5.14
831 1286 1.033746 AAATCACAGCCAGCCATCCG 61.034 55.000 0.00 0.00 0.00 4.18
832 1287 0.743097 GAAATCACAGCCAGCCATCC 59.257 55.000 0.00 0.00 0.00 3.51
833 1288 1.760192 AGAAATCACAGCCAGCCATC 58.240 50.000 0.00 0.00 0.00 3.51
834 1289 2.097825 GAAGAAATCACAGCCAGCCAT 58.902 47.619 0.00 0.00 0.00 4.40
835 1290 1.202915 TGAAGAAATCACAGCCAGCCA 60.203 47.619 0.00 0.00 31.50 4.75
836 1291 1.538047 TGAAGAAATCACAGCCAGCC 58.462 50.000 0.00 0.00 31.50 4.85
837 1292 2.490903 ACATGAAGAAATCACAGCCAGC 59.509 45.455 0.00 0.00 41.93 4.85
838 1293 3.754850 TGACATGAAGAAATCACAGCCAG 59.245 43.478 0.00 0.00 41.93 4.85
839 1294 3.753815 TGACATGAAGAAATCACAGCCA 58.246 40.909 0.00 0.00 41.93 4.75
840 1295 3.755378 ACTGACATGAAGAAATCACAGCC 59.245 43.478 0.00 0.00 41.93 4.85
841 1296 4.214971 ACACTGACATGAAGAAATCACAGC 59.785 41.667 0.00 0.00 41.93 4.40
842 1297 5.467735 TGACACTGACATGAAGAAATCACAG 59.532 40.000 0.00 0.00 41.93 3.66
843 1298 5.367302 TGACACTGACATGAAGAAATCACA 58.633 37.500 0.00 0.00 41.93 3.58
844 1299 5.929697 TGACACTGACATGAAGAAATCAC 57.070 39.130 0.00 0.00 41.93 3.06
845 1300 5.106436 GCATGACACTGACATGAAGAAATCA 60.106 40.000 21.12 4.39 45.22 2.57
846 1301 5.123502 AGCATGACACTGACATGAAGAAATC 59.876 40.000 21.12 5.62 45.22 2.17
847 1302 5.008331 AGCATGACACTGACATGAAGAAAT 58.992 37.500 21.12 1.63 45.22 2.17
848 1303 4.392047 AGCATGACACTGACATGAAGAAA 58.608 39.130 21.12 0.00 45.22 2.52
849 1304 3.999001 GAGCATGACACTGACATGAAGAA 59.001 43.478 21.12 0.00 45.22 2.52
850 1305 3.007182 TGAGCATGACACTGACATGAAGA 59.993 43.478 21.12 4.77 45.22 2.87
851 1306 3.124806 GTGAGCATGACACTGACATGAAG 59.875 47.826 21.12 0.00 45.22 3.02
852 1307 3.069289 GTGAGCATGACACTGACATGAA 58.931 45.455 21.12 6.72 45.22 2.57
853 1308 2.301009 AGTGAGCATGACACTGACATGA 59.699 45.455 21.12 2.41 45.22 3.07
854 1309 2.671888 GAGTGAGCATGACACTGACATG 59.328 50.000 23.67 14.82 45.19 3.21
855 1310 2.566279 AGAGTGAGCATGACACTGACAT 59.434 45.455 23.67 9.54 0.00 3.06
856 1311 1.966354 AGAGTGAGCATGACACTGACA 59.034 47.619 23.67 0.27 0.00 3.58
857 1312 2.335752 CAGAGTGAGCATGACACTGAC 58.664 52.381 23.67 13.91 42.80 3.51
858 1313 1.274447 CCAGAGTGAGCATGACACTGA 59.726 52.381 23.67 0.00 42.80 3.41
859 1314 1.001746 ACCAGAGTGAGCATGACACTG 59.998 52.381 23.67 14.33 40.22 3.66
860 1315 1.346062 ACCAGAGTGAGCATGACACT 58.654 50.000 20.41 20.41 0.00 3.55
861 1316 2.175878 AACCAGAGTGAGCATGACAC 57.824 50.000 13.20 13.20 0.00 3.67
862 1317 2.936919 AAACCAGAGTGAGCATGACA 57.063 45.000 0.00 0.00 0.00 3.58
863 1318 2.485814 GGAAAACCAGAGTGAGCATGAC 59.514 50.000 0.00 0.00 0.00 3.06
864 1319 2.106338 TGGAAAACCAGAGTGAGCATGA 59.894 45.455 0.00 0.00 0.00 3.07
875 1330 1.226746 GAGGTCGTGTGGAAAACCAG 58.773 55.000 0.00 0.00 34.09 4.00
879 1334 1.124780 TCAGGAGGTCGTGTGGAAAA 58.875 50.000 0.00 0.00 33.80 2.29
972 1427 3.127533 GATGACTGGTGGCGGTGC 61.128 66.667 0.00 0.00 0.00 5.01
977 1432 2.262774 CTGGGAGGATGACTGGTGGC 62.263 65.000 0.00 0.00 0.00 5.01
985 1440 3.092511 GCTGGGCTGGGAGGATGA 61.093 66.667 0.00 0.00 0.00 2.92
1075 1530 1.630369 TGTGAGGATGGAAGGAAGTGG 59.370 52.381 0.00 0.00 0.00 4.00
1124 1579 7.341769 TGAAAGAAACATCAAGAGGGAGAAAAA 59.658 33.333 0.00 0.00 0.00 1.94
1125 1580 6.833416 TGAAAGAAACATCAAGAGGGAGAAAA 59.167 34.615 0.00 0.00 0.00 2.29
1126 1581 6.364701 TGAAAGAAACATCAAGAGGGAGAAA 58.635 36.000 0.00 0.00 0.00 2.52
1211 1666 2.575290 TCCACCAAGGAAACCCCAT 58.425 52.632 0.00 0.00 45.65 4.00
1380 1835 1.601419 GGCGGCTGGTAGTACTGACA 61.601 60.000 5.39 3.37 0.00 3.58
1820 2275 3.843027 AGGCAGAAAATGAGGAGAAGAGA 59.157 43.478 0.00 0.00 0.00 3.10
1922 2377 3.661648 ACCACCCCTGCCATGGAC 61.662 66.667 18.40 7.64 36.94 4.02
2022 2480 2.614057 GCGACCAGGGACTATTTTGATG 59.386 50.000 0.00 0.00 36.02 3.07
2057 2515 9.784376 AGGTATATATTGAGTGAGGCCTATAAA 57.216 33.333 4.42 0.00 0.00 1.40
2091 2549 0.035458 GTGTGTTGCTCTAGCCTGGT 59.965 55.000 0.00 0.00 41.18 4.00
2419 2882 6.246163 GCCATATACAAGTAAAGCCCCTATT 58.754 40.000 0.00 0.00 0.00 1.73
2485 2948 1.730064 GCAATCGGTTAAGCTTGTCGA 59.270 47.619 9.86 15.10 0.00 4.20
2495 2958 6.490381 AGATAGAGTACATGAGCAATCGGTTA 59.510 38.462 0.00 0.00 0.00 2.85
2650 3113 0.250467 ACCACTGCGTTGAGAGCAAT 60.250 50.000 0.00 0.00 44.67 3.56
2745 3208 4.762289 AAGGGGCTTCTGTCTTACATAG 57.238 45.455 0.00 0.00 0.00 2.23
2925 3394 4.072131 GTGGAAGCAGTTATGGACTTTCA 58.928 43.478 0.00 0.00 36.10 2.69
2956 3425 3.500448 TCTGCAATTTACTCCCACACA 57.500 42.857 0.00 0.00 0.00 3.72
3001 3470 4.923871 ACTGTAACGTAGTGATTTCTGCTG 59.076 41.667 0.00 0.00 45.00 4.41
3099 3570 2.424812 GCCCCACCTGTCATAAATCCAT 60.425 50.000 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.