Multiple sequence alignment - TraesCS7B01G360300

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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 TraesCS7B01G360300 chr7B 100.000 3654 0 0 1 3654 622628296 622624643 0.000000e+00 6748
1 TraesCS7B01G360300 chr7B 88.144 835 53 19 4 816 106779117 106778307 0.000000e+00 952
2 TraesCS7B01G360300 chr7A 91.886 2428 143 17 1248 3654 655372671 655370277 0.000000e+00 3343
3 TraesCS7B01G360300 chr7A 88.345 429 42 5 816 1241 655373546 655373123 3.260000e-140 508
4 TraesCS7B01G360300 chr7D 93.581 1994 102 12 1671 3654 568013848 568011871 0.000000e+00 2950
5 TraesCS7B01G360300 chr7D 83.879 825 97 26 4 816 9299826 9300626 0.000000e+00 754
6 TraesCS7B01G360300 chr7D 95.627 343 15 0 1245 1587 568014307 568013965 5.330000e-153 551
7 TraesCS7B01G360300 chr7D 85.714 511 43 11 816 1307 568016581 568016082 2.520000e-141 512
8 TraesCS7B01G360300 chr7D 89.655 348 30 4 816 1161 568014772 568014429 4.330000e-119 438
9 TraesCS7B01G360300 chr4A 89.189 814 61 13 4 816 541923576 541922789 0.000000e+00 990
10 TraesCS7B01G360300 chr4A 88.823 841 45 18 4 816 675174144 675174963 0.000000e+00 987
11 TraesCS7B01G360300 chr4A 88.347 841 48 21 4 816 675151595 675152413 0.000000e+00 965
12 TraesCS7B01G360300 chr4B 88.767 819 61 15 4 820 625377231 625378020 0.000000e+00 974
13 TraesCS7B01G360300 chr3B 87.799 836 56 20 4 815 135747508 135748321 0.000000e+00 937
14 TraesCS7B01G360300 chr3B 86.397 816 57 24 4 816 387198102 387197338 0.000000e+00 843
15 TraesCS7B01G360300 chr2B 87.264 848 50 19 4 816 677026839 677026015 0.000000e+00 915
16 TraesCS7B01G360300 chr2B 86.240 843 70 21 4 810 82711495 82712327 0.000000e+00 872
17 TraesCS7B01G360300 chr2B 76.250 240 44 7 1932 2169 77917397 77917169 8.290000e-22 115
18 TraesCS7B01G360300 chr5B 87.277 841 53 21 6 819 626343012 626342199 0.000000e+00 911
19 TraesCS7B01G360300 chr6B 86.848 844 62 18 1 816 685015492 685016314 0.000000e+00 898
20 TraesCS7B01G360300 chr1B 87.039 841 52 27 4 815 566707162 566707974 0.000000e+00 896
21 TraesCS7B01G360300 chr1A 85.887 829 64 22 4 819 42559849 42559061 0.000000e+00 833
22 TraesCS7B01G360300 chr6A 89.221 603 53 5 4 602 89975233 89974639 0.000000e+00 743
23 TraesCS7B01G360300 chr2A 94.416 197 8 3 620 816 660551659 660551852 2.130000e-77 300


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 TraesCS7B01G360300 chr7B 622624643 622628296 3653 True 6748.00 6748 100.00000 1 3654 1 chr7B.!!$R2 3653
1 TraesCS7B01G360300 chr7B 106778307 106779117 810 True 952.00 952 88.14400 4 816 1 chr7B.!!$R1 812
2 TraesCS7B01G360300 chr7A 655370277 655373546 3269 True 1925.50 3343 90.11550 816 3654 2 chr7A.!!$R1 2838
3 TraesCS7B01G360300 chr7D 568011871 568016581 4710 True 1112.75 2950 91.14425 816 3654 4 chr7D.!!$R1 2838
4 TraesCS7B01G360300 chr7D 9299826 9300626 800 False 754.00 754 83.87900 4 816 1 chr7D.!!$F1 812
5 TraesCS7B01G360300 chr4A 541922789 541923576 787 True 990.00 990 89.18900 4 816 1 chr4A.!!$R1 812
6 TraesCS7B01G360300 chr4A 675174144 675174963 819 False 987.00 987 88.82300 4 816 1 chr4A.!!$F2 812
7 TraesCS7B01G360300 chr4A 675151595 675152413 818 False 965.00 965 88.34700 4 816 1 chr4A.!!$F1 812
8 TraesCS7B01G360300 chr4B 625377231 625378020 789 False 974.00 974 88.76700 4 820 1 chr4B.!!$F1 816
9 TraesCS7B01G360300 chr3B 135747508 135748321 813 False 937.00 937 87.79900 4 815 1 chr3B.!!$F1 811
10 TraesCS7B01G360300 chr3B 387197338 387198102 764 True 843.00 843 86.39700 4 816 1 chr3B.!!$R1 812
11 TraesCS7B01G360300 chr2B 677026015 677026839 824 True 915.00 915 87.26400 4 816 1 chr2B.!!$R2 812
12 TraesCS7B01G360300 chr2B 82711495 82712327 832 False 872.00 872 86.24000 4 810 1 chr2B.!!$F1 806
13 TraesCS7B01G360300 chr5B 626342199 626343012 813 True 911.00 911 87.27700 6 819 1 chr5B.!!$R1 813
14 TraesCS7B01G360300 chr6B 685015492 685016314 822 False 898.00 898 86.84800 1 816 1 chr6B.!!$F1 815
15 TraesCS7B01G360300 chr1B 566707162 566707974 812 False 896.00 896 87.03900 4 815 1 chr1B.!!$F1 811
16 TraesCS7B01G360300 chr1A 42559061 42559849 788 True 833.00 833 85.88700 4 819 1 chr1A.!!$R1 815
17 TraesCS7B01G360300 chr6A 89974639 89975233 594 True 743.00 743 89.22100 4 602 1 chr6A.!!$R1 598

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
616 688 1.490621 TTTTTCCTTCGGTCGTCGTC 58.509 50.0 0.0 0.0 40.32 4.20 F
2272 4701 0.033601 ACCAACAAGAGCCACAACCA 60.034 50.0 0.0 0.0 0.00 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2401 4830 0.107643 TTGGTCACTGTTGCCATCGA 59.892 50.0 0.00 0.0 31.52 3.59 R
3295 5734 0.469705 TTGTGTCCCCTTGCTGCAAT 60.470 50.0 16.38 0.0 0.00 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
33 34 2.286365 TGCCCTTCCAAAATCTCGTT 57.714 45.000 0.00 0.00 0.00 3.85
281 299 2.722201 GGGAATGGGAGCTCGTCGT 61.722 63.158 7.83 0.93 0.00 4.34
336 356 2.887568 GGCGCATCGACTGGAGTG 60.888 66.667 10.83 0.00 0.00 3.51
341 361 1.990060 CATCGACTGGAGTGGGGGT 60.990 63.158 0.00 0.00 0.00 4.95
615 687 3.665544 TTTTTCCTTCGGTCGTCGT 57.334 47.368 0.00 0.00 40.32 4.34
616 688 1.490621 TTTTTCCTTCGGTCGTCGTC 58.509 50.000 0.00 0.00 40.32 4.20
795 901 1.970092 CCGTTGTTGTGTTTAGGGGA 58.030 50.000 0.00 0.00 0.00 4.81
846 952 7.865706 ACTAAGAATTTGATAACCAGCGAAT 57.134 32.000 0.00 0.00 0.00 3.34
847 953 8.281212 ACTAAGAATTTGATAACCAGCGAATT 57.719 30.769 0.00 0.00 36.96 2.17
906 1012 3.306641 GCCAAATTATGTGTTGCTGGGAA 60.307 43.478 0.00 0.00 0.00 3.97
947 1053 1.916506 TGGAAATCCGCCATGTTCAA 58.083 45.000 0.00 0.00 39.43 2.69
979 1085 1.529438 GATTTGTCGTGGTTGCGAAGA 59.471 47.619 0.00 0.00 42.82 2.87
987 1093 2.742774 GTGGTTGCGAAGAAAATTGCT 58.257 42.857 0.00 0.00 0.00 3.91
996 1102 3.250762 CGAAGAAAATTGCTGTCCTCACA 59.749 43.478 0.00 0.00 0.00 3.58
1014 1120 7.538678 GTCCTCACAACAACATAAATTGCTTAG 59.461 37.037 0.00 0.00 32.47 2.18
1090 1196 6.018751 TCTGAATTATAGAATGCGCTTCACAC 60.019 38.462 9.73 0.00 36.24 3.82
1091 1197 5.584251 TGAATTATAGAATGCGCTTCACACA 59.416 36.000 9.73 3.16 36.24 3.72
1130 1238 0.462759 ATGGACTCTGCGGCTAAAGC 60.463 55.000 0.00 0.00 41.14 3.51
1148 1256 3.623906 AGCTGCTCTAATGAAAGCTCA 57.376 42.857 0.00 0.00 37.61 4.26
1165 1273 7.173218 TGAAAGCTCAGGTTGATTAGTAGTTTG 59.827 37.037 0.00 0.00 0.00 2.93
1169 1277 7.048512 GCTCAGGTTGATTAGTAGTTTGGTAT 58.951 38.462 0.00 0.00 0.00 2.73
1175 1283 7.498239 GGTTGATTAGTAGTTTGGTATTCCCTC 59.502 40.741 0.00 0.00 0.00 4.30
1176 1284 7.989947 TGATTAGTAGTTTGGTATTCCCTCT 57.010 36.000 0.00 0.00 0.00 3.69
1179 1287 5.422214 AGTAGTTTGGTATTCCCTCTGTG 57.578 43.478 0.00 0.00 0.00 3.66
1180 1288 4.844655 AGTAGTTTGGTATTCCCTCTGTGT 59.155 41.667 0.00 0.00 0.00 3.72
1182 1290 3.650942 AGTTTGGTATTCCCTCTGTGTCA 59.349 43.478 0.00 0.00 0.00 3.58
1188 1296 6.785076 TGGTATTCCCTCTGTGTCAAATTAA 58.215 36.000 0.00 0.00 0.00 1.40
1191 1299 9.403583 GGTATTCCCTCTGTGTCAAATTAATTA 57.596 33.333 0.01 0.00 0.00 1.40
1195 1303 9.699410 TTCCCTCTGTGTCAAATTAATTATCAT 57.301 29.630 0.01 0.00 0.00 2.45
1252 3635 4.336532 AATCCATTTTCGCGACAAGTAC 57.663 40.909 9.15 0.00 0.00 2.73
1258 3641 1.415374 TTCGCGACAAGTACTTCAGC 58.585 50.000 9.15 10.37 0.00 4.26
1261 3644 0.435008 GCGACAAGTACTTCAGCACG 59.565 55.000 4.77 8.31 0.00 5.34
1308 3691 2.957006 AGATAGGTTAATGAGTCGCCGT 59.043 45.455 0.00 0.00 0.00 5.68
1333 3716 0.179111 CGCTAAATGACAGCTCCGGA 60.179 55.000 2.93 2.93 36.86 5.14
1428 3811 7.900782 ATTAGTAGCAAAACACGTGTTAGAT 57.099 32.000 32.47 26.65 37.25 1.98
1619 4030 9.571810 CTACTACTTAGATTCTGATGATGCATC 57.428 37.037 20.14 20.14 40.88 3.91
1697 4123 2.038689 CTGTCTGATGATGCTAGCCCAT 59.961 50.000 13.29 15.28 0.00 4.00
1718 4144 0.107945 GCCAAGAAGACGAGCAGGAT 60.108 55.000 0.00 0.00 0.00 3.24
1808 4234 1.217882 GGATCGAACTAACATGCCGG 58.782 55.000 0.00 0.00 0.00 6.13
1861 4287 6.243216 TCTTGATGATCTTGGTGATGATGA 57.757 37.500 0.00 0.00 35.14 2.92
1863 4289 6.935208 TCTTGATGATCTTGGTGATGATGATC 59.065 38.462 0.00 0.00 35.10 2.92
1873 4299 3.690139 GGTGATGATGATCATGATGGAGC 59.310 47.826 14.30 5.17 40.78 4.70
1876 4302 1.972795 TGATGATCATGATGGAGCGGA 59.027 47.619 14.30 0.00 0.00 5.54
1878 4304 2.756840 TGATCATGATGGAGCGGATC 57.243 50.000 14.30 0.00 35.95 3.36
1971 4397 1.975327 GTGCTCCTGCTCCACTGTA 59.025 57.895 0.00 0.00 40.48 2.74
2171 4600 2.357881 CACCGCAAGCTGCTCTCA 60.358 61.111 1.00 0.00 42.25 3.27
2225 4654 2.675423 CCACTGCCAGCATGCTGT 60.675 61.111 38.22 22.38 43.15 4.40
2272 4701 0.033601 ACCAACAAGAGCCACAACCA 60.034 50.000 0.00 0.00 0.00 3.67
2273 4702 0.385390 CCAACAAGAGCCACAACCAC 59.615 55.000 0.00 0.00 0.00 4.16
2274 4703 0.385390 CAACAAGAGCCACAACCACC 59.615 55.000 0.00 0.00 0.00 4.61
2275 4704 0.033601 AACAAGAGCCACAACCACCA 60.034 50.000 0.00 0.00 0.00 4.17
2276 4705 0.751643 ACAAGAGCCACAACCACCAC 60.752 55.000 0.00 0.00 0.00 4.16
2277 4706 1.152756 AAGAGCCACAACCACCACC 60.153 57.895 0.00 0.00 0.00 4.61
2278 4707 1.932156 AAGAGCCACAACCACCACCA 61.932 55.000 0.00 0.00 0.00 4.17
2279 4708 2.123897 AGCCACAACCACCACCAC 60.124 61.111 0.00 0.00 0.00 4.16
2280 4709 3.223589 GCCACAACCACCACCACC 61.224 66.667 0.00 0.00 0.00 4.61
2401 4830 4.511246 CCTGGCCGCCACCATCAT 62.511 66.667 8.43 0.00 39.54 2.45
2405 4834 2.281070 GCCGCCACCATCATCGAT 60.281 61.111 0.00 0.00 0.00 3.59
2406 4835 2.610694 GCCGCCACCATCATCGATG 61.611 63.158 19.61 19.61 39.52 3.84
2426 4855 1.334869 GGCAACAGTGACCAAGACAAG 59.665 52.381 0.00 0.00 0.00 3.16
2440 4869 4.093998 CCAAGACAAGATGAAACTGGATCG 59.906 45.833 0.00 0.00 0.00 3.69
2494 4926 4.121669 GCTCGAGCTGTCAGCCGA 62.122 66.667 29.88 26.25 43.77 5.54
2513 4945 1.594293 CACCACCACCTGTGTCGAC 60.594 63.158 9.11 9.11 43.85 4.20
2514 4946 1.760875 ACCACCACCTGTGTCGACT 60.761 57.895 17.92 0.00 43.85 4.18
2558 4990 3.194968 ACCTATACCTGGACAAACTCGTG 59.805 47.826 0.00 0.00 0.00 4.35
2609 5041 0.960364 GCACCGCTCATCTTCCCAAA 60.960 55.000 0.00 0.00 0.00 3.28
2630 5062 1.608696 TGCTGCTGCATCCCATGTA 59.391 52.632 14.93 0.00 45.31 2.29
2640 5072 5.922544 GCTGCATCCCATGTAAATTATTGAC 59.077 40.000 0.00 0.00 0.00 3.18
2677 5109 8.593945 AAATTAAGATGCCAGTTTCCTGAATA 57.406 30.769 0.00 0.00 41.50 1.75
2691 5123 6.839124 TTCCTGAATATCATGTGCACTTTT 57.161 33.333 19.41 2.66 0.00 2.27
2745 5180 7.053498 TGTAATGTGCATTTTGGATCTAGCTA 58.947 34.615 2.56 0.00 32.50 3.32
2855 5293 3.118847 GGCAGGAACCCAAGTAGTAGTAC 60.119 52.174 0.00 0.00 0.00 2.73
2868 5306 8.253113 CCAAGTAGTAGTACCGAAAATTAAGGA 58.747 37.037 4.02 0.00 0.00 3.36
2965 5404 4.829064 TTGTACAACAACTCATCTTGCC 57.171 40.909 3.59 0.00 32.34 4.52
3102 5541 6.497259 TCAGAGTAGACTCACCAAAATAAGGT 59.503 38.462 12.09 0.00 45.21 3.50
3190 5629 1.478510 TCTCCTTCATTCACGCTCCTC 59.521 52.381 0.00 0.00 0.00 3.71
3193 5632 1.404181 CCTTCATTCACGCTCCTCGAA 60.404 52.381 0.00 0.00 41.67 3.71
3205 5644 0.251474 TCCTCGAACCCTCTTTCGGA 60.251 55.000 5.50 0.00 46.77 4.55
3235 5674 5.470047 CCAGGAAGGCGAAGTATATAAGT 57.530 43.478 0.00 0.00 0.00 2.24
3244 5683 6.213600 AGGCGAAGTATATAAGTCCCATCATT 59.786 38.462 0.00 0.00 0.00 2.57
3250 5689 2.734755 TAAGTCCCATCATTGCCTGG 57.265 50.000 0.00 0.00 0.00 4.45
3295 5734 5.496556 TCTGACTTGAGAAACCACAGAAAA 58.503 37.500 0.00 0.00 31.51 2.29
3310 5749 1.620323 AGAAAATTGCAGCAAGGGGAC 59.380 47.619 14.47 4.26 0.00 4.46
3323 5762 1.456705 GGGGACACAACAGGGCAAA 60.457 57.895 0.00 0.00 0.00 3.68
3324 5763 1.463553 GGGGACACAACAGGGCAAAG 61.464 60.000 0.00 0.00 0.00 2.77
3418 5857 9.733556 AGGACACATTGTTAATTATGAGTTGTA 57.266 29.630 6.73 0.00 0.00 2.41
3426 5865 7.974675 TGTTAATTATGAGTTGTAAGCTGAGC 58.025 34.615 0.00 0.00 0.00 4.26
3538 5978 2.002505 ATGTCACGCCTATCCTAGCT 57.997 50.000 0.00 0.00 0.00 3.32
3564 6004 0.105964 CGTGGAACTGAACCCTGTCA 59.894 55.000 0.00 0.00 31.75 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 2.039418 GGAAGGGCAAAAACTTCTGGT 58.961 47.619 0.00 0.00 42.05 4.00
178 187 1.135731 CGGAGACAGACGAGCTCAC 59.864 63.158 15.40 7.17 0.00 3.51
265 283 1.586564 CGACGACGAGCTCCCATTC 60.587 63.158 8.47 0.00 42.66 2.67
297 316 4.109675 CCCGCTTACCCCACCCAG 62.110 72.222 0.00 0.00 0.00 4.45
324 344 0.397254 CTACCCCCACTCCAGTCGAT 60.397 60.000 0.00 0.00 0.00 3.59
329 349 2.285368 TGCCTACCCCCACTCCAG 60.285 66.667 0.00 0.00 0.00 3.86
570 640 4.456253 ACGTGTCGAGCGGCGTAG 62.456 66.667 9.37 0.00 41.80 3.51
575 645 4.678269 ACGTGACGTGTCGAGCGG 62.678 66.667 10.91 0.00 39.18 5.52
603 675 0.179194 GAAGGAGACGACGACCGAAG 60.179 60.000 0.00 0.00 41.76 3.79
604 676 1.871772 GAAGGAGACGACGACCGAA 59.128 57.895 0.00 0.00 41.76 4.30
605 677 2.385875 CGAAGGAGACGACGACCGA 61.386 63.158 0.00 0.00 41.76 4.69
606 678 2.097918 CGAAGGAGACGACGACCG 59.902 66.667 0.00 0.00 45.44 4.79
710 815 1.211709 GCACATAAAAAGCCGCCGT 59.788 52.632 0.00 0.00 0.00 5.68
762 867 2.351244 AACGGCTGAGATCGCTCCA 61.351 57.895 0.00 0.00 40.55 3.86
795 901 5.209818 TGACACTTCTTCTTCGGTACAAT 57.790 39.130 0.00 0.00 0.00 2.71
906 1012 6.991531 TCCATGTTTGCTAAAAGAAATTGCTT 59.008 30.769 0.00 0.00 0.00 3.91
947 1053 3.190535 CACGACAAATCCTCCCGAAAAAT 59.809 43.478 0.00 0.00 0.00 1.82
979 1085 4.734398 TTGTTGTGAGGACAGCAATTTT 57.266 36.364 0.00 0.00 45.25 1.82
987 1093 5.301551 AGCAATTTATGTTGTTGTGAGGACA 59.698 36.000 0.00 0.00 0.00 4.02
1014 1120 6.758416 GGTGAGGATGGCAAATTAGAAATTTC 59.242 38.462 10.33 10.33 0.00 2.17
1023 1129 1.901833 GTTGGGTGAGGATGGCAAATT 59.098 47.619 0.00 0.00 0.00 1.82
1090 1196 5.163652 CCATATCAGCAGCCATCATAATGTG 60.164 44.000 0.00 0.00 0.00 3.21
1091 1197 4.948004 CCATATCAGCAGCCATCATAATGT 59.052 41.667 0.00 0.00 0.00 2.71
1130 1238 3.871485 ACCTGAGCTTTCATTAGAGCAG 58.129 45.455 0.00 0.00 41.31 4.24
1148 1256 7.184022 AGGGAATACCAAACTACTAATCAACCT 59.816 37.037 0.00 0.00 43.89 3.50
1165 1273 7.881775 ATTAATTTGACACAGAGGGAATACC 57.118 36.000 0.00 0.00 40.67 2.73
1169 1277 9.699410 ATGATAATTAATTTGACACAGAGGGAA 57.301 29.630 5.91 0.00 0.00 3.97
1234 1342 3.185594 TGAAGTACTTGTCGCGAAAATGG 59.814 43.478 14.14 4.35 0.00 3.16
1236 1344 3.120649 GCTGAAGTACTTGTCGCGAAAAT 60.121 43.478 14.14 5.74 0.00 1.82
1241 1349 0.435008 GTGCTGAAGTACTTGTCGCG 59.565 55.000 14.14 0.00 0.00 5.87
1243 3626 1.060713 CCGTGCTGAAGTACTTGTCG 58.939 55.000 14.14 9.62 0.00 4.35
1252 3635 1.323271 TAGCTCCCTCCGTGCTGAAG 61.323 60.000 0.00 0.00 41.35 3.02
1258 3641 0.108615 CACTTGTAGCTCCCTCCGTG 60.109 60.000 0.00 0.00 0.00 4.94
1261 3644 1.903183 ACTTCACTTGTAGCTCCCTCC 59.097 52.381 0.00 0.00 0.00 4.30
1308 3691 1.086696 GCTGTCATTTAGCGGCAAGA 58.913 50.000 1.45 0.00 37.00 3.02
1333 3716 1.218316 GTCGGCATCGGACCTTTCT 59.782 57.895 0.00 0.00 36.95 2.52
1534 3917 0.608582 AAGTGCGAGTACGGAGAGGT 60.609 55.000 0.00 0.00 41.00 3.85
1697 4123 1.004560 CTGCTCGTCTTCTTGGCCA 60.005 57.895 0.00 0.00 0.00 5.36
1788 4214 1.217882 CGGCATGTTAGTTCGATCCC 58.782 55.000 0.00 0.00 0.00 3.85
1789 4215 1.217882 CCGGCATGTTAGTTCGATCC 58.782 55.000 0.00 0.00 0.00 3.36
1796 4222 1.165270 GAACAAGCCGGCATGTTAGT 58.835 50.000 40.60 25.67 37.87 2.24
1852 4278 3.371285 CGCTCCATCATGATCATCATCAC 59.629 47.826 4.86 0.00 42.05 3.06
1853 4279 3.596214 CGCTCCATCATGATCATCATCA 58.404 45.455 4.86 0.00 43.45 3.07
1861 4287 3.715638 AATGATCCGCTCCATCATGAT 57.284 42.857 1.18 1.18 39.61 2.45
1863 4289 4.510571 TGATAATGATCCGCTCCATCATG 58.489 43.478 3.44 0.00 39.61 3.07
1873 4299 4.155462 CCCTTGCTTCATGATAATGATCCG 59.845 45.833 0.00 0.00 0.00 4.18
1876 4302 3.504906 CGCCCTTGCTTCATGATAATGAT 59.495 43.478 0.00 0.00 34.43 2.45
1878 4304 2.030540 CCGCCCTTGCTTCATGATAATG 60.031 50.000 0.00 0.00 34.43 1.90
2171 4600 1.827399 CGGTAGAAGGTGGTGGCAGT 61.827 60.000 0.00 0.00 0.00 4.40
2272 4701 4.962836 GCTGCTGCTGGTGGTGGT 62.963 66.667 8.53 0.00 36.03 4.16
2273 4702 4.960866 TGCTGCTGCTGGTGGTGG 62.961 66.667 17.00 0.00 40.48 4.61
2274 4703 3.362797 CTGCTGCTGCTGGTGGTG 61.363 66.667 17.00 0.00 40.48 4.17
2277 4706 3.738246 CTGCTGCTGCTGCTGGTG 61.738 66.667 27.67 13.98 40.48 4.17
2330 4759 2.715749 TGATGATGAAACCAGCCGAT 57.284 45.000 0.00 0.00 0.00 4.18
2339 4768 4.100653 AGCTCCTTCTCGATGATGATGAAA 59.899 41.667 0.00 0.00 0.00 2.69
2388 4817 2.281070 ATCGATGATGGTGGCGGC 60.281 61.111 0.00 0.00 0.00 6.53
2397 4826 2.283298 GTCACTGTTGCCATCGATGAT 58.717 47.619 26.86 0.26 0.00 2.45
2398 4827 1.675714 GGTCACTGTTGCCATCGATGA 60.676 52.381 26.86 4.68 0.00 2.92
2401 4830 0.107643 TTGGTCACTGTTGCCATCGA 59.892 50.000 0.00 0.00 31.52 3.59
2405 4834 0.254462 TGTCTTGGTCACTGTTGCCA 59.746 50.000 0.00 0.00 0.00 4.92
2406 4835 1.334869 CTTGTCTTGGTCACTGTTGCC 59.665 52.381 0.00 0.00 0.00 4.52
2413 4842 4.023707 CCAGTTTCATCTTGTCTTGGTCAC 60.024 45.833 0.00 0.00 0.00 3.67
2426 4855 3.868077 CCAGTTCTCGATCCAGTTTCATC 59.132 47.826 0.00 0.00 0.00 2.92
2440 4869 0.528470 CTCGACCCTGTCCAGTTCTC 59.472 60.000 0.00 0.00 0.00 2.87
2630 5062 4.250116 TGCCTGTTTGCGTCAATAATTT 57.750 36.364 0.00 0.00 0.00 1.82
2640 5072 4.434593 GCATCTTAATTTTGCCTGTTTGCG 60.435 41.667 0.00 0.00 0.00 4.85
2691 5123 5.335348 GCTAGAAACCGTATGCTTCCAAAAA 60.335 40.000 0.00 0.00 0.00 1.94
2696 5128 2.866762 CAGCTAGAAACCGTATGCTTCC 59.133 50.000 0.00 0.00 0.00 3.46
2745 5180 2.680370 GGGAGGGGGACTGCGAATT 61.680 63.158 0.00 0.00 38.63 2.17
2855 5293 2.414957 GGCGGTGTTCCTTAATTTTCGG 60.415 50.000 0.00 0.00 0.00 4.30
2868 5306 0.396435 TTCAGAGACATGGCGGTGTT 59.604 50.000 0.00 0.00 31.16 3.32
3102 5541 8.924511 AATGGAGAAATACAAGTGAAGAAGAA 57.075 30.769 0.00 0.00 0.00 2.52
3180 5619 2.282958 AGGGTTCGAGGAGCGTGA 60.283 61.111 0.00 0.00 41.80 4.35
3193 5632 1.473434 GCGATGAATCCGAAAGAGGGT 60.473 52.381 0.00 0.00 0.00 4.34
3235 5674 1.380246 GTGCCAGGCAATGATGGGA 60.380 57.895 18.28 1.61 41.47 4.37
3244 5683 2.352422 GTCTGATGGTGCCAGGCA 59.648 61.111 11.22 11.22 36.35 4.75
3250 5689 2.646930 TGATGATTGGTCTGATGGTGC 58.353 47.619 0.00 0.00 0.00 5.01
3295 5734 0.469705 TTGTGTCCCCTTGCTGCAAT 60.470 50.000 16.38 0.00 0.00 3.56
3310 5749 2.629617 AGAATTCCTTTGCCCTGTTGTG 59.370 45.455 0.65 0.00 0.00 3.33
3366 5805 7.388224 TGCACAATGCTCAATGTCAATAATTTT 59.612 29.630 2.02 0.00 45.31 1.82
3373 5812 2.029739 CCTGCACAATGCTCAATGTCAA 60.030 45.455 2.02 0.00 45.31 3.18
3377 5816 1.542472 TGTCCTGCACAATGCTCAATG 59.458 47.619 2.02 0.00 45.31 2.82
3403 5842 7.109501 TGGCTCAGCTTACAACTCATAATTAA 58.890 34.615 0.00 0.00 0.00 1.40
3410 5849 2.038952 ACATGGCTCAGCTTACAACTCA 59.961 45.455 0.00 0.00 0.00 3.41
3418 5857 2.157738 GTTCTTGACATGGCTCAGCTT 58.842 47.619 0.00 0.00 0.00 3.74
3426 5865 1.266718 CCCACAACGTTCTTGACATGG 59.733 52.381 0.00 0.00 0.00 3.66
3538 5978 1.612199 GGTTCAGTTCCACGCCCAATA 60.612 52.381 0.00 0.00 0.00 1.90
3564 6004 1.421268 TGGCCTTCTGTTCTGATGTGT 59.579 47.619 3.32 0.00 0.00 3.72


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

AutoCloner maintained by Alex Coulton.