Multiple sequence alignment - TraesCS6A01G174800

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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 TraesCS6A01G174800 chr6A 100.000 3053 0 0 1 3053 188252979 188249927 0.000000e+00 5638
1 TraesCS6A01G174800 chr6D 92.189 1754 95 14 770 2509 143083453 143081728 0.000000e+00 2442
2 TraesCS6A01G174800 chr6D 94.340 530 22 5 2529 3053 143081741 143081215 0.000000e+00 806
3 TraesCS6A01G174800 chr7A 99.183 734 6 0 1 734 690858799 690858066 0.000000e+00 1323
4 TraesCS6A01G174800 chr7A 96.717 731 24 0 4 734 686924671 686923941 0.000000e+00 1218
5 TraesCS6A01G174800 chr4B 98.774 734 9 0 1 734 519801514 519800781 0.000000e+00 1306
6 TraesCS6A01G174800 chr4B 86.555 119 16 0 2726 2844 463575264 463575146 6.870000e-27 132
7 TraesCS6A01G174800 chr6B 91.438 911 49 9 1196 2106 255005404 255004523 0.000000e+00 1223
8 TraesCS6A01G174800 chr6B 91.841 429 28 2 770 1191 255013436 255013008 2.620000e-165 592
9 TraesCS6A01G174800 chr1A 93.445 717 42 3 19 735 4658762 4659473 0.000000e+00 1059
10 TraesCS6A01G174800 chr1A 91.146 768 48 15 4 764 561215205 561214451 0.000000e+00 1024
11 TraesCS6A01G174800 chr5A 90.781 781 48 17 4 773 620408262 620407495 0.000000e+00 1022
12 TraesCS6A01G174800 chr3B 90.605 777 49 18 4 769 788208932 788208169 0.000000e+00 1009
13 TraesCS6A01G174800 chr2D 90.519 770 64 9 4 768 647698774 647698009 0.000000e+00 1009
14 TraesCS6A01G174800 chr5B 90.385 780 50 19 1 771 11553869 11554632 0.000000e+00 1002
15 TraesCS6A01G174800 chr2A 78.298 235 33 5 2628 2849 778615528 778615757 5.310000e-28 135
16 TraesCS6A01G174800 chr2B 85.593 118 17 0 2726 2843 777996349 777996232 1.150000e-24 124
17 TraesCS6A01G174800 chr2B 84.746 118 18 0 2726 2843 777948207 777948090 5.350000e-23 119
18 TraesCS6A01G174800 chr2B 84.746 118 18 0 2726 2843 777953632 777953515 5.350000e-23 119
19 TraesCS6A01G174800 chrUn 84.746 118 18 0 2726 2843 242571312 242571429 5.350000e-23 119
20 TraesCS6A01G174800 chrUn 84.746 118 18 0 2726 2843 283601578 283601461 5.350000e-23 119
21 TraesCS6A01G174800 chrUn 84.746 118 18 0 2726 2843 369116036 369115919 5.350000e-23 119
22 TraesCS6A01G174800 chr4A 85.149 101 10 3 2623 2720 617085327 617085229 6.970000e-17 99


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 TraesCS6A01G174800 chr6A 188249927 188252979 3052 True 5638 5638 100.0000 1 3053 1 chr6A.!!$R1 3052
1 TraesCS6A01G174800 chr6D 143081215 143083453 2238 True 1624 2442 93.2645 770 3053 2 chr6D.!!$R1 2283
2 TraesCS6A01G174800 chr7A 690858066 690858799 733 True 1323 1323 99.1830 1 734 1 chr7A.!!$R2 733
3 TraesCS6A01G174800 chr7A 686923941 686924671 730 True 1218 1218 96.7170 4 734 1 chr7A.!!$R1 730
4 TraesCS6A01G174800 chr4B 519800781 519801514 733 True 1306 1306 98.7740 1 734 1 chr4B.!!$R2 733
5 TraesCS6A01G174800 chr6B 255004523 255005404 881 True 1223 1223 91.4380 1196 2106 1 chr6B.!!$R1 910
6 TraesCS6A01G174800 chr1A 4658762 4659473 711 False 1059 1059 93.4450 19 735 1 chr1A.!!$F1 716
7 TraesCS6A01G174800 chr1A 561214451 561215205 754 True 1024 1024 91.1460 4 764 1 chr1A.!!$R1 760
8 TraesCS6A01G174800 chr5A 620407495 620408262 767 True 1022 1022 90.7810 4 773 1 chr5A.!!$R1 769
9 TraesCS6A01G174800 chr3B 788208169 788208932 763 True 1009 1009 90.6050 4 769 1 chr3B.!!$R1 765
10 TraesCS6A01G174800 chr2D 647698009 647698774 765 True 1009 1009 90.5190 4 768 1 chr2D.!!$R1 764
11 TraesCS6A01G174800 chr5B 11553869 11554632 763 False 1002 1002 90.3850 1 771 1 chr5B.!!$F1 770

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
362 365 0.307760 GGCAACAACTCCAGTCAACG 59.692 55.0 0.0 0.0 0.00 4.10 F
1578 1593 0.320374 CCGACCAGAAGTACTGCCAA 59.680 55.0 0.0 0.0 44.52 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1623 1638 0.039708 GCTGGTGCTGTTGCTTTCTC 60.040 55.0 0.00 0.0 40.48 2.87 R
2918 2961 0.837691 TCACCTCATGACCCTGCAGT 60.838 55.0 13.81 0.0 29.99 4.40 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
362 365 0.307760 GGCAACAACTCCAGTCAACG 59.692 55.000 0.00 0.00 0.00 4.10
738 748 6.033341 GTGAGAGCAATACAACAACAACAAA 58.967 36.000 0.00 0.00 0.00 2.83
739 749 6.020678 GTGAGAGCAATACAACAACAACAAAC 60.021 38.462 0.00 0.00 0.00 2.93
740 750 5.960113 AGAGCAATACAACAACAACAAACA 58.040 33.333 0.00 0.00 0.00 2.83
741 751 6.572519 AGAGCAATACAACAACAACAAACAT 58.427 32.000 0.00 0.00 0.00 2.71
807 817 1.107945 CATGCATCAAGCCCATGACA 58.892 50.000 0.00 0.00 44.83 3.58
860 873 9.852091 CTTTATCTTTTGGTAGTCTACGTAGTT 57.148 33.333 21.53 13.66 37.78 2.24
865 878 8.076178 TCTTTTGGTAGTCTACGTAGTTTGTAC 58.924 37.037 21.53 16.51 37.78 2.90
876 889 1.613836 AGTTTGTACGGTCGGTCTCT 58.386 50.000 0.00 0.00 0.00 3.10
900 915 2.606751 ACAGTGGTACTCCTACTGCT 57.393 50.000 15.12 5.44 41.75 4.24
919 934 5.534654 ACTGCTTGGCTTGTTTATAAAGACA 59.465 36.000 0.00 0.00 40.95 3.41
993 1008 1.227527 CCAAGGTGACAGCACGTGA 60.228 57.895 22.23 0.00 46.09 4.35
997 1012 1.109920 AGGTGACAGCACGTGAGACT 61.110 55.000 22.23 3.67 46.09 3.24
1005 1020 3.243737 ACAGCACGTGAGACTGTATGAAA 60.244 43.478 22.23 0.00 45.30 2.69
1166 1181 3.405170 GCGCATGCACTATGTTACTTT 57.595 42.857 19.57 0.00 42.15 2.66
1185 1200 1.736612 TCATAGTTTCGCTGCATGCA 58.263 45.000 21.29 21.29 43.06 3.96
1186 1201 2.291365 TCATAGTTTCGCTGCATGCAT 58.709 42.857 22.97 6.91 43.06 3.96
1187 1202 2.032426 TCATAGTTTCGCTGCATGCATG 59.968 45.455 22.97 22.70 43.06 4.06
1188 1203 1.452110 TAGTTTCGCTGCATGCATGT 58.548 45.000 26.79 7.19 43.06 3.21
1189 1204 0.599558 AGTTTCGCTGCATGCATGTT 59.400 45.000 26.79 0.00 43.06 2.71
1190 1205 0.711670 GTTTCGCTGCATGCATGTTG 59.288 50.000 26.79 19.70 43.06 3.33
1191 1206 0.388778 TTTCGCTGCATGCATGTTGG 60.389 50.000 26.79 17.35 43.06 3.77
1252 1267 2.188469 GGGGCTTATTCACGGCGA 59.812 61.111 16.62 0.00 0.00 5.54
1254 1269 1.153429 GGGCTTATTCACGGCGACT 60.153 57.895 16.62 0.00 0.00 4.18
1284 1299 4.081030 CTGCAACGCCAGTCGCTG 62.081 66.667 0.00 0.52 43.23 5.18
1302 1317 2.292267 CTGATCTACAACCACATGGCC 58.708 52.381 0.00 0.00 39.32 5.36
1310 1325 3.133464 CCACATGGCCGCATCGTT 61.133 61.111 0.00 0.00 0.00 3.85
1338 1353 2.091055 CCCCTCATACCTCCTCTTCTCA 60.091 54.545 0.00 0.00 0.00 3.27
1393 1408 3.741476 CGCCTTCCCAAGCTGCAC 61.741 66.667 1.02 0.00 0.00 4.57
1396 1411 3.741476 CTTCCCAAGCTGCACCGC 61.741 66.667 1.02 0.00 0.00 5.68
1578 1593 0.320374 CCGACCAGAAGTACTGCCAA 59.680 55.000 0.00 0.00 44.52 4.52
1751 1766 2.764572 ACAAGTCTTCCGGGAATACGAT 59.235 45.455 16.70 9.34 35.47 3.73
1752 1767 3.123804 CAAGTCTTCCGGGAATACGATG 58.876 50.000 16.70 15.61 35.47 3.84
1753 1768 1.068741 AGTCTTCCGGGAATACGATGC 59.931 52.381 16.70 0.00 35.47 3.91
1816 1831 2.742372 CCGGTGGAGTTTGCCTCG 60.742 66.667 0.00 0.00 41.46 4.63
1953 1968 1.809619 CATGGACGACGACGCCATT 60.810 57.895 24.22 13.00 45.93 3.16
1954 1969 1.518572 ATGGACGACGACGCCATTC 60.519 57.895 22.30 8.29 45.93 2.67
2058 2073 1.965754 CTGGCTCCACCTAGCTCCAC 61.966 65.000 0.00 0.00 42.37 4.02
2160 2175 4.126520 AGGAAAGGGGTTCAAAATAGCA 57.873 40.909 0.00 0.00 38.06 3.49
2323 2341 3.119708 GGTGACACATCAAATGCTCCTTC 60.120 47.826 8.08 0.00 36.31 3.46
2344 2362 3.084786 CCTCTCCATTGAACTCCAAACC 58.915 50.000 0.00 0.00 38.43 3.27
2345 2363 3.498481 CCTCTCCATTGAACTCCAAACCA 60.498 47.826 0.00 0.00 38.43 3.67
2346 2364 4.144297 CTCTCCATTGAACTCCAAACCAA 58.856 43.478 0.00 0.00 38.43 3.67
2347 2365 4.541705 TCTCCATTGAACTCCAAACCAAA 58.458 39.130 0.00 0.00 38.43 3.28
2348 2366 5.147032 TCTCCATTGAACTCCAAACCAAAT 58.853 37.500 0.00 0.00 38.43 2.32
2349 2367 6.310941 TCTCCATTGAACTCCAAACCAAATA 58.689 36.000 0.00 0.00 38.43 1.40
2350 2368 6.953520 TCTCCATTGAACTCCAAACCAAATAT 59.046 34.615 0.00 0.00 38.43 1.28
2351 2369 7.122650 TCTCCATTGAACTCCAAACCAAATATC 59.877 37.037 0.00 0.00 38.43 1.63
2352 2370 6.154363 TCCATTGAACTCCAAACCAAATATCC 59.846 38.462 0.00 0.00 38.43 2.59
2353 2371 5.993748 TTGAACTCCAAACCAAATATCCC 57.006 39.130 0.00 0.00 0.00 3.85
2354 2372 5.269554 TGAACTCCAAACCAAATATCCCT 57.730 39.130 0.00 0.00 0.00 4.20
2355 2373 6.395780 TGAACTCCAAACCAAATATCCCTA 57.604 37.500 0.00 0.00 0.00 3.53
2356 2374 6.795590 TGAACTCCAAACCAAATATCCCTAA 58.204 36.000 0.00 0.00 0.00 2.69
2357 2375 7.242359 TGAACTCCAAACCAAATATCCCTAAA 58.758 34.615 0.00 0.00 0.00 1.85
2358 2376 7.730784 TGAACTCCAAACCAAATATCCCTAAAA 59.269 33.333 0.00 0.00 0.00 1.52
2359 2377 8.499288 AACTCCAAACCAAATATCCCTAAAAA 57.501 30.769 0.00 0.00 0.00 1.94
2421 2463 3.181492 TGCTGCGTTCAAATTCTTCACAA 60.181 39.130 0.00 0.00 0.00 3.33
2492 2534 2.262211 GGTGCCGCATTCAAATTCTTC 58.738 47.619 0.00 0.00 0.00 2.87
2518 2560 5.726980 TTTTTGTGAGGGAAGATTCATGG 57.273 39.130 0.00 0.00 0.00 3.66
2519 2561 4.656100 TTTGTGAGGGAAGATTCATGGA 57.344 40.909 0.00 0.00 0.00 3.41
2520 2562 3.920231 TGTGAGGGAAGATTCATGGAG 57.080 47.619 0.00 0.00 0.00 3.86
2521 2563 3.453868 TGTGAGGGAAGATTCATGGAGA 58.546 45.455 0.00 0.00 0.00 3.71
2522 2564 3.453717 TGTGAGGGAAGATTCATGGAGAG 59.546 47.826 0.00 0.00 0.00 3.20
2523 2565 3.454082 GTGAGGGAAGATTCATGGAGAGT 59.546 47.826 0.00 0.00 0.00 3.24
2524 2566 4.080638 GTGAGGGAAGATTCATGGAGAGTT 60.081 45.833 0.00 0.00 0.00 3.01
2525 2567 4.163078 TGAGGGAAGATTCATGGAGAGTTC 59.837 45.833 0.00 0.00 0.00 3.01
2526 2568 3.457749 AGGGAAGATTCATGGAGAGTTCC 59.542 47.826 3.97 3.97 44.31 3.62
2527 2569 3.457749 GGGAAGATTCATGGAGAGTTCCT 59.542 47.826 10.29 0.00 44.36 3.36
2528 2570 4.080072 GGGAAGATTCATGGAGAGTTCCTT 60.080 45.833 10.29 0.00 44.36 3.36
2529 2571 5.504853 GGAAGATTCATGGAGAGTTCCTTT 58.495 41.667 5.03 0.00 44.36 3.11
2530 2572 5.948758 GGAAGATTCATGGAGAGTTCCTTTT 59.051 40.000 5.03 0.00 44.36 2.27
2531 2573 6.435591 GGAAGATTCATGGAGAGTTCCTTTTT 59.564 38.462 5.03 0.00 44.36 1.94
2590 2632 3.561143 TCCAAAGGTTACACATTGCACT 58.439 40.909 0.00 0.00 0.00 4.40
2600 2642 0.692476 ACATTGCACTGGGCTGTCTA 59.308 50.000 9.06 0.00 45.15 2.59
2602 2644 2.291153 ACATTGCACTGGGCTGTCTAAT 60.291 45.455 9.06 0.00 45.15 1.73
2603 2645 1.825090 TTGCACTGGGCTGTCTAATG 58.175 50.000 2.50 0.00 45.15 1.90
2604 2646 0.677731 TGCACTGGGCTGTCTAATGC 60.678 55.000 2.50 0.00 45.15 3.56
2605 2647 1.709147 GCACTGGGCTGTCTAATGCG 61.709 60.000 0.00 0.00 40.25 4.73
2607 2649 1.264749 ACTGGGCTGTCTAATGCGGA 61.265 55.000 0.00 0.00 0.00 5.54
2630 2673 0.592637 TGATGTTGTCGCAAAGCAGG 59.407 50.000 0.00 0.00 0.00 4.85
2642 2685 2.159198 GCAAAGCAGGGTGGTGAATATG 60.159 50.000 0.00 0.00 0.00 1.78
2646 2689 1.678101 GCAGGGTGGTGAATATGAAGC 59.322 52.381 0.00 0.00 0.00 3.86
2746 2789 2.099921 TCTAGCTAGGCTTGCTTCTTCG 59.900 50.000 27.34 11.78 40.44 3.79
2782 2825 2.292267 CACACATGGCTTGGTCTATCC 58.708 52.381 5.31 0.00 0.00 2.59
2794 2837 5.012561 GCTTGGTCTATCCCATGATACTCTT 59.987 44.000 0.00 0.00 33.60 2.85
2795 2838 6.465035 GCTTGGTCTATCCCATGATACTCTTT 60.465 42.308 0.00 0.00 33.60 2.52
2954 2997 1.078214 GAGCCTAGCCACACATGCA 60.078 57.895 0.00 0.00 0.00 3.96
2975 3018 3.088789 TCCCTAGAGGAAGAGACACAC 57.911 52.381 0.00 0.00 43.78 3.82
2976 3019 2.650322 TCCCTAGAGGAAGAGACACACT 59.350 50.000 0.00 0.00 43.78 3.55
2991 3034 5.848406 AGACACACTAAATCTAGCTATGCC 58.152 41.667 0.00 0.00 0.00 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
741 751 9.391006 GTGGAAATTGTAGGATGACTAATGTTA 57.609 33.333 0.00 0.00 32.37 2.41
837 847 8.796475 ACAAACTACGTAGACTACCAAAAGATA 58.204 33.333 28.74 0.00 0.00 1.98
860 873 0.594602 CACAGAGACCGACCGTACAA 59.405 55.000 0.00 0.00 0.00 2.41
861 874 0.535780 ACACAGAGACCGACCGTACA 60.536 55.000 0.00 0.00 0.00 2.90
865 878 0.168348 CTGTACACAGAGACCGACCG 59.832 60.000 3.14 0.00 46.59 4.79
900 915 5.064558 TCGGTGTCTTTATAAACAAGCCAA 58.935 37.500 0.00 0.00 0.00 4.52
968 983 0.615331 GCTGTCACCTTGGATCCTCA 59.385 55.000 14.23 0.00 0.00 3.86
970 985 0.326264 GTGCTGTCACCTTGGATCCT 59.674 55.000 14.23 0.00 37.24 3.24
971 986 1.021390 CGTGCTGTCACCTTGGATCC 61.021 60.000 4.20 4.20 40.04 3.36
1005 1020 0.600255 CGTCGTCCAGCTCCAGTTTT 60.600 55.000 0.00 0.00 0.00 2.43
1008 1023 3.374402 CCGTCGTCCAGCTCCAGT 61.374 66.667 0.00 0.00 0.00 4.00
1060 1075 4.341502 CAAAGTTGCCACGCCCGG 62.342 66.667 0.00 0.00 0.00 5.73
1062 1077 1.080569 CATCAAAGTTGCCACGCCC 60.081 57.895 0.00 0.00 0.00 6.13
1064 1079 3.846754 GCATCAAAGTTGCCACGC 58.153 55.556 0.00 0.00 33.95 5.34
1159 1174 5.277601 TGCAGCGAAACTATGAAAGTAAC 57.722 39.130 0.00 0.00 37.50 2.50
1176 1191 0.174845 ACATCCAACATGCATGCAGC 59.825 50.000 26.69 0.00 45.96 5.25
1185 1200 2.559668 CCAAGTCAGCAACATCCAACAT 59.440 45.455 0.00 0.00 0.00 2.71
1186 1201 1.955778 CCAAGTCAGCAACATCCAACA 59.044 47.619 0.00 0.00 0.00 3.33
1187 1202 2.229792 TCCAAGTCAGCAACATCCAAC 58.770 47.619 0.00 0.00 0.00 3.77
1188 1203 2.655090 TCCAAGTCAGCAACATCCAA 57.345 45.000 0.00 0.00 0.00 3.53
1189 1204 2.618816 GGATCCAAGTCAGCAACATCCA 60.619 50.000 6.95 0.00 30.56 3.41
1190 1205 2.019984 GGATCCAAGTCAGCAACATCC 58.980 52.381 6.95 0.00 0.00 3.51
1191 1206 2.715046 TGGATCCAAGTCAGCAACATC 58.285 47.619 13.46 0.00 0.00 3.06
1252 1267 1.001641 GCAGCTCCACCCATTGAGT 60.002 57.895 0.00 0.00 0.00 3.41
1254 1269 0.895100 GTTGCAGCTCCACCCATTGA 60.895 55.000 0.00 0.00 0.00 2.57
1284 1299 1.299541 CGGCCATGTGGTTGTAGATC 58.700 55.000 2.24 0.00 37.57 2.75
1310 1325 0.768221 GAGGTATGAGGGGATGGGCA 60.768 60.000 0.00 0.00 0.00 5.36
1338 1353 1.101049 CGGCTGCCGGGTTGATATTT 61.101 55.000 32.37 0.00 44.15 1.40
1376 1391 3.741476 GTGCAGCTTGGGAAGGCG 61.741 66.667 0.00 0.00 0.00 5.52
1377 1392 3.376918 GGTGCAGCTTGGGAAGGC 61.377 66.667 9.07 0.00 0.00 4.35
1393 1408 1.721664 TAGCAGCAGTAGTACGGCGG 61.722 60.000 18.31 18.31 44.04 6.13
1396 1411 2.094906 TGTTGTAGCAGCAGTAGTACGG 60.095 50.000 0.00 0.00 0.00 4.02
1618 1633 0.532640 TGCTGTTGCTTTCTCGCAGA 60.533 50.000 0.00 0.00 41.55 4.26
1623 1638 0.039708 GCTGGTGCTGTTGCTTTCTC 60.040 55.000 0.00 0.00 40.48 2.87
1661 1676 0.460109 CCGGTCACGATGATGAGCAA 60.460 55.000 0.00 0.00 45.46 3.91
1751 1766 4.147449 CGTCATCCTCCCGCAGCA 62.147 66.667 0.00 0.00 0.00 4.41
1752 1767 3.838271 TCGTCATCCTCCCGCAGC 61.838 66.667 0.00 0.00 0.00 5.25
1753 1768 2.105128 GTCGTCATCCTCCCGCAG 59.895 66.667 0.00 0.00 0.00 5.18
1816 1831 2.883253 GTTCTCTCGCTGCTCCGC 60.883 66.667 0.00 0.00 0.00 5.54
1953 1968 2.124024 GCTGCTGCCCCATGATGA 60.124 61.111 3.85 0.00 0.00 2.92
1954 1969 2.055633 TTGCTGCTGCCCCATGATG 61.056 57.895 13.47 0.00 38.71 3.07
2184 2199 4.974645 TGGGGATATTTATCGAGCACTT 57.025 40.909 0.00 0.00 33.52 3.16
2228 2243 2.403259 CAAACGGGGTTGAGCATTTTC 58.597 47.619 0.00 0.00 0.00 2.29
2234 2252 2.420466 CTTGGCAAACGGGGTTGAGC 62.420 60.000 0.00 0.00 0.00 4.26
2279 2297 5.235616 ACCACACAACAGTAAACTGATTACG 59.764 40.000 16.74 4.00 46.97 3.18
2323 2341 3.084786 GGTTTGGAGTTCAATGGAGAGG 58.915 50.000 0.00 0.00 34.98 3.69
2357 2375 7.279981 GTGTTCCTTATTTGCTTTGGAGTTTTT 59.720 33.333 0.00 0.00 0.00 1.94
2358 2376 6.761242 GTGTTCCTTATTTGCTTTGGAGTTTT 59.239 34.615 0.00 0.00 0.00 2.43
2359 2377 6.127196 TGTGTTCCTTATTTGCTTTGGAGTTT 60.127 34.615 0.00 0.00 0.00 2.66
2360 2378 5.362430 TGTGTTCCTTATTTGCTTTGGAGTT 59.638 36.000 0.00 0.00 0.00 3.01
2361 2379 4.892934 TGTGTTCCTTATTTGCTTTGGAGT 59.107 37.500 0.00 0.00 0.00 3.85
2362 2380 5.452078 TGTGTTCCTTATTTGCTTTGGAG 57.548 39.130 0.00 0.00 0.00 3.86
2363 2381 5.860941 TTGTGTTCCTTATTTGCTTTGGA 57.139 34.783 0.00 0.00 0.00 3.53
2364 2382 6.760770 TCTTTTGTGTTCCTTATTTGCTTTGG 59.239 34.615 0.00 0.00 0.00 3.28
2365 2383 7.769272 TCTTTTGTGTTCCTTATTTGCTTTG 57.231 32.000 0.00 0.00 0.00 2.77
2366 2384 8.040727 ACTTCTTTTGTGTTCCTTATTTGCTTT 58.959 29.630 0.00 0.00 0.00 3.51
2367 2385 7.492344 CACTTCTTTTGTGTTCCTTATTTGCTT 59.508 33.333 0.00 0.00 0.00 3.91
2368 2386 6.980397 CACTTCTTTTGTGTTCCTTATTTGCT 59.020 34.615 0.00 0.00 0.00 3.91
2369 2387 6.756542 ACACTTCTTTTGTGTTCCTTATTTGC 59.243 34.615 0.00 0.00 45.11 3.68
2396 2414 1.317613 AGAATTTGAACGCAGCACCA 58.682 45.000 0.00 0.00 0.00 4.17
2397 2415 2.287547 TGAAGAATTTGAACGCAGCACC 60.288 45.455 0.00 0.00 0.00 5.01
2399 2417 2.357323 TGTGAAGAATTTGAACGCAGCA 59.643 40.909 0.00 0.00 0.00 4.41
2465 2507 2.203337 AATGCGGCACCACACACT 60.203 55.556 4.03 0.00 0.00 3.55
2529 2571 4.640789 ACGCAATACCTTCACACAAAAA 57.359 36.364 0.00 0.00 0.00 1.94
2530 2572 4.640789 AACGCAATACCTTCACACAAAA 57.359 36.364 0.00 0.00 0.00 2.44
2531 2573 4.319911 GCTAACGCAATACCTTCACACAAA 60.320 41.667 0.00 0.00 35.78 2.83
2532 2574 3.187637 GCTAACGCAATACCTTCACACAA 59.812 43.478 0.00 0.00 35.78 3.33
2533 2575 2.739913 GCTAACGCAATACCTTCACACA 59.260 45.455 0.00 0.00 35.78 3.72
2534 2576 2.095372 GGCTAACGCAATACCTTCACAC 59.905 50.000 0.00 0.00 38.10 3.82
2535 2577 2.289756 TGGCTAACGCAATACCTTCACA 60.290 45.455 0.00 0.00 38.10 3.58
2536 2578 2.352388 TGGCTAACGCAATACCTTCAC 58.648 47.619 0.00 0.00 38.10 3.18
2537 2579 2.772077 TGGCTAACGCAATACCTTCA 57.228 45.000 0.00 0.00 38.10 3.02
2538 2580 2.290641 CCATGGCTAACGCAATACCTTC 59.709 50.000 0.00 0.00 38.10 3.46
2539 2581 2.092646 TCCATGGCTAACGCAATACCTT 60.093 45.455 6.96 0.00 38.10 3.50
2590 2632 1.220749 GTCCGCATTAGACAGCCCA 59.779 57.895 0.00 0.00 34.27 5.36
2600 2642 1.665679 GACAACATCATCGTCCGCATT 59.334 47.619 0.00 0.00 0.00 3.56
2602 2644 1.075979 CGACAACATCATCGTCCGCA 61.076 55.000 0.00 0.00 33.63 5.69
2603 2645 1.631072 CGACAACATCATCGTCCGC 59.369 57.895 0.00 0.00 33.63 5.54
2604 2646 1.075979 TGCGACAACATCATCGTCCG 61.076 55.000 0.00 0.00 40.49 4.79
2605 2647 1.075542 TTGCGACAACATCATCGTCC 58.924 50.000 0.00 0.00 40.49 4.79
2607 2649 1.135972 GCTTTGCGACAACATCATCGT 60.136 47.619 0.00 0.00 40.49 3.73
2630 2673 3.609853 TCACAGCTTCATATTCACCACC 58.390 45.455 0.00 0.00 0.00 4.61
2642 2685 7.041576 TGCTACAATATCATTGATCACAGCTTC 60.042 37.037 1.55 0.00 0.00 3.86
2646 2689 8.549338 AGATGCTACAATATCATTGATCACAG 57.451 34.615 1.55 0.00 0.00 3.66
2724 2767 3.453424 GAAGAAGCAAGCCTAGCTAGAC 58.547 50.000 22.70 11.05 42.53 2.59
2746 2789 6.223852 CCATGTGTGTCTACCCTGATATAAC 58.776 44.000 0.00 0.00 0.00 1.89
2830 2873 7.246674 TCTCCGTGATATTTTTAGCACAATC 57.753 36.000 2.79 0.00 36.25 2.67
2866 2909 5.667539 AGAGACTAGCTATGTTTTGCTCA 57.332 39.130 0.00 0.00 40.35 4.26
2916 2959 1.278985 CACCTCATGACCCTGCAGTTA 59.721 52.381 13.81 0.00 0.00 2.24
2918 2961 0.837691 TCACCTCATGACCCTGCAGT 60.838 55.000 13.81 0.00 29.99 4.40
2954 2997 3.270960 AGTGTGTCTCTTCCTCTAGGGAT 59.729 47.826 0.00 0.00 44.66 3.85
2991 3034 2.223203 GCCTCGAATGTTGAAGCTCATG 60.223 50.000 0.00 0.00 0.00 3.07


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

AutoCloner maintained by Alex Coulton.