Multiple sequence alignment - TraesCS7A01G342700

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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 TraesCS7A01G342700 chr7A 100.000 2770 0 0 1 2770 502626139 502623370 0.000000e+00 5116.0
1 TraesCS7A01G342700 chr7A 85.840 1815 138 51 1005 2770 502383472 502381728 0.000000e+00 1818.0
2 TraesCS7A01G342700 chr7A 88.285 239 22 3 2210 2443 665377218 665376981 5.840000e-72 281.0
3 TraesCS7A01G342700 chr7A 89.024 164 15 3 2609 2770 665376708 665376546 1.680000e-47 200.0
4 TraesCS7A01G342700 chr7D 86.199 1797 116 50 1006 2770 430093818 430095514 0.000000e+00 1823.0
5 TraesCS7A01G342700 chr7D 92.320 1276 74 7 1028 2296 429491660 429492918 0.000000e+00 1792.0
6 TraesCS7A01G342700 chr7D 88.757 756 82 2 1 755 490898436 490897683 0.000000e+00 922.0
7 TraesCS7A01G342700 chr7D 90.683 161 14 1 764 923 429491426 429491586 2.160000e-51 213.0
8 TraesCS7A01G342700 chr7D 89.333 150 11 3 2539 2686 429709824 429709970 1.690000e-42 183.0
9 TraesCS7A01G342700 chr7B 90.015 1322 86 11 1005 2296 447216367 447217672 0.000000e+00 1668.0
10 TraesCS7A01G342700 chr7B 89.536 927 70 4 1029 1931 447450997 447451920 0.000000e+00 1149.0
11 TraesCS7A01G342700 chr7B 86.427 361 28 10 2412 2770 447476142 447476483 2.600000e-100 375.0
12 TraesCS7A01G342700 chr7B 90.256 195 16 2 2076 2268 386556504 386556311 4.580000e-63 252.0
13 TraesCS7A01G342700 chr7B 88.152 211 14 5 1788 1998 447451920 447452119 9.910000e-60 241.0
14 TraesCS7A01G342700 chr7B 93.519 108 7 0 2126 2233 447460609 447460716 7.940000e-36 161.0
15 TraesCS7A01G342700 chr7B 88.462 130 11 2 2558 2686 447218272 447218398 1.330000e-33 154.0
16 TraesCS7A01G342700 chr7B 92.857 70 4 1 2618 2686 386555739 386555670 1.760000e-17 100.0
17 TraesCS7A01G342700 chr7B 89.231 65 2 3 925 988 447216326 447216386 2.960000e-10 76.8
18 TraesCS7A01G342700 chr3B 88.815 751 75 8 1 747 3627504 3628249 0.000000e+00 913.0
19 TraesCS7A01G342700 chr5D 88.212 755 77 9 1 751 12039241 12039987 0.000000e+00 891.0
20 TraesCS7A01G342700 chr4D 88.196 754 75 8 1 751 13340884 13340142 0.000000e+00 887.0
21 TraesCS7A01G342700 chr4D 87.599 758 86 6 1 755 460586891 460586139 0.000000e+00 872.0
22 TraesCS7A01G342700 chr5A 87.995 758 79 8 1 756 74699221 74699968 0.000000e+00 885.0
23 TraesCS7A01G342700 chr1A 87.815 755 87 5 1 751 521875715 521876468 0.000000e+00 880.0
24 TraesCS7A01G342700 chr1B 87.517 753 91 3 4 755 552854999 552854249 0.000000e+00 867.0
25 TraesCS7A01G342700 chrUn 87.434 756 79 10 1 751 94299257 94300001 0.000000e+00 856.0


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 TraesCS7A01G342700 chr7A 502623370 502626139 2769 True 5116.000000 5116 100.0000 1 2770 1 chr7A.!!$R2 2769
1 TraesCS7A01G342700 chr7A 502381728 502383472 1744 True 1818.000000 1818 85.8400 1005 2770 1 chr7A.!!$R1 1765
2 TraesCS7A01G342700 chr7A 665376546 665377218 672 True 240.500000 281 88.6545 2210 2770 2 chr7A.!!$R3 560
3 TraesCS7A01G342700 chr7D 430093818 430095514 1696 False 1823.000000 1823 86.1990 1006 2770 1 chr7D.!!$F2 1764
4 TraesCS7A01G342700 chr7D 429491426 429492918 1492 False 1002.500000 1792 91.5015 764 2296 2 chr7D.!!$F3 1532
5 TraesCS7A01G342700 chr7D 490897683 490898436 753 True 922.000000 922 88.7570 1 755 1 chr7D.!!$R1 754
6 TraesCS7A01G342700 chr7B 447450997 447452119 1122 False 695.000000 1149 88.8440 1029 1998 2 chr7B.!!$F4 969
7 TraesCS7A01G342700 chr7B 447216326 447218398 2072 False 632.933333 1668 89.2360 925 2686 3 chr7B.!!$F3 1761
8 TraesCS7A01G342700 chr3B 3627504 3628249 745 False 913.000000 913 88.8150 1 747 1 chr3B.!!$F1 746
9 TraesCS7A01G342700 chr5D 12039241 12039987 746 False 891.000000 891 88.2120 1 751 1 chr5D.!!$F1 750
10 TraesCS7A01G342700 chr4D 13340142 13340884 742 True 887.000000 887 88.1960 1 751 1 chr4D.!!$R1 750
11 TraesCS7A01G342700 chr4D 460586139 460586891 752 True 872.000000 872 87.5990 1 755 1 chr4D.!!$R2 754
12 TraesCS7A01G342700 chr5A 74699221 74699968 747 False 885.000000 885 87.9950 1 756 1 chr5A.!!$F1 755
13 TraesCS7A01G342700 chr1A 521875715 521876468 753 False 880.000000 880 87.8150 1 751 1 chr1A.!!$F1 750
14 TraesCS7A01G342700 chr1B 552854249 552854999 750 True 867.000000 867 87.5170 4 755 1 chr1B.!!$R1 751
15 TraesCS7A01G342700 chrUn 94299257 94300001 744 False 856.000000 856 87.4340 1 751 1 chrUn.!!$F1 750

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
757 769 0.036388 CGCTGGAGTTGGCTTTAGGA 60.036 55.000 0.0 0.0 0.0 2.94 F
758 770 1.407437 CGCTGGAGTTGGCTTTAGGAT 60.407 52.381 0.0 0.0 0.0 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1727 1818 0.040514 TTTCCGCGCAATGAACACAG 60.041 50.0 8.75 0.0 0.0 3.66 R
2546 2992 0.396435 ACGGTGTGCAGGAAGAATGA 59.604 50.0 0.00 0.0 0.0 2.57 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
65 66 2.126596 CCAGTGCAGCCACCACAAA 61.127 57.895 0.00 0.00 43.09 2.83
216 217 0.466963 TGATCACCTCGATGCAGCAT 59.533 50.000 7.91 7.91 33.17 3.79
382 383 2.822255 GAAAGCGCGGGCATGGTA 60.822 61.111 27.20 0.00 43.41 3.25
398 400 0.179045 GGTAGCGGCCATGTTGAGAT 60.179 55.000 2.24 0.00 0.00 2.75
449 455 3.385384 CTGTGAGGAGGCGGCTGA 61.385 66.667 19.63 0.00 0.00 4.26
558 569 3.961414 GGCCACGGGGAGGACAAA 61.961 66.667 8.67 0.00 35.59 2.83
569 580 2.970324 GGACAAAGGCGTGCGTCA 60.970 61.111 9.77 0.00 0.00 4.35
589 600 4.039357 CCCGTCCGCGCGATATCT 62.039 66.667 34.63 0.00 36.67 1.98
696 708 3.279875 GGCCGCATCATTCGTCCC 61.280 66.667 0.00 0.00 0.00 4.46
697 709 3.279875 GCCGCATCATTCGTCCCC 61.280 66.667 0.00 0.00 0.00 4.81
734 746 0.324275 CACCCGGATGAAATGGGGTT 60.324 55.000 0.73 0.00 45.03 4.11
756 768 1.648467 GCGCTGGAGTTGGCTTTAGG 61.648 60.000 0.00 0.00 0.00 2.69
757 769 0.036388 CGCTGGAGTTGGCTTTAGGA 60.036 55.000 0.00 0.00 0.00 2.94
758 770 1.407437 CGCTGGAGTTGGCTTTAGGAT 60.407 52.381 0.00 0.00 0.00 3.24
759 771 2.293170 GCTGGAGTTGGCTTTAGGATC 58.707 52.381 0.00 0.00 0.00 3.36
760 772 2.356125 GCTGGAGTTGGCTTTAGGATCA 60.356 50.000 0.00 0.00 0.00 2.92
761 773 3.873801 GCTGGAGTTGGCTTTAGGATCAA 60.874 47.826 0.00 0.00 0.00 2.57
762 774 3.686016 TGGAGTTGGCTTTAGGATCAAC 58.314 45.455 0.00 0.00 39.57 3.18
776 788 3.012959 AGGATCAACCCTTCTCTCCACTA 59.987 47.826 0.00 0.00 40.05 2.74
779 791 5.280521 GGATCAACCCTTCTCTCCACTAAAA 60.281 44.000 0.00 0.00 0.00 1.52
784 796 2.354805 CCTTCTCTCCACTAAAACCGGG 60.355 54.545 6.32 0.00 0.00 5.73
800 812 3.828657 GGGTTTCACCGACTAGACC 57.171 57.895 0.00 0.00 39.83 3.85
811 823 3.899980 ACCGACTAGACCTGGTTTTTACT 59.100 43.478 0.00 0.00 0.00 2.24
855 867 2.417339 TGTCAGCGTAGTCACTCAAC 57.583 50.000 0.00 0.00 0.00 3.18
864 876 4.783242 CGTAGTCACTCAACCCATTTTTG 58.217 43.478 0.00 0.00 0.00 2.44
871 883 6.370166 GTCACTCAACCCATTTTTGTTCAAAA 59.630 34.615 6.61 6.61 38.76 2.44
909 922 9.565213 GAATGGAAGTAAGAATTCTCAATTGTG 57.435 33.333 8.78 2.93 0.00 3.33
911 924 8.690203 TGGAAGTAAGAATTCTCAATTGTGAA 57.310 30.769 21.50 21.50 31.88 3.18
914 927 8.463930 AAGTAAGAATTCTCAATTGTGAACCA 57.536 30.769 21.63 4.28 31.88 3.67
1156 1199 2.303175 GAGAGAGGATCAAGTACCGCT 58.697 52.381 0.00 0.00 38.88 5.52
1320 1369 2.753043 GACGTAGGGGCCGAGACA 60.753 66.667 0.00 0.00 0.00 3.41
1485 1534 2.125106 GAGGTGGATGTGGACGCC 60.125 66.667 0.00 0.00 37.53 5.68
1488 1537 2.351276 GTGGATGTGGACGCCCTT 59.649 61.111 0.00 0.00 0.00 3.95
1719 1809 7.921786 ATAGCAAGATGTTACAACTTTAGCA 57.078 32.000 15.83 6.45 0.00 3.49
1727 1818 9.846248 AGATGTTACAACTTTAGCATGAATTTC 57.154 29.630 0.00 0.00 0.00 2.17
1762 1854 4.201950 CGCGGAAAATCTTCTCCATGATTT 60.202 41.667 0.00 0.00 42.52 2.17
1767 1859 8.623903 CGGAAAATCTTCTCCATGATTTTATCA 58.376 33.333 11.90 0.00 46.44 2.15
1808 2040 5.411669 AGGAATGACGTGGTAGAACAAATTC 59.588 40.000 0.00 0.00 34.78 2.17
1829 2061 2.561209 TGCTCCCTGGAGTATGGTTA 57.439 50.000 14.45 0.00 43.70 2.85
1905 2150 5.652994 AGTTCAGAGTGTCCTTGATCTAC 57.347 43.478 0.00 0.00 0.00 2.59
1913 2175 1.751924 GTCCTTGATCTACGGCAGTCT 59.248 52.381 0.00 0.00 0.00 3.24
1919 2194 2.025155 GATCTACGGCAGTCTGGAAGA 58.975 52.381 1.14 0.00 43.69 2.87
1964 2239 3.069586 TGGTCACAGTACTTTGGTCAGAG 59.930 47.826 9.10 0.00 0.00 3.35
1967 2242 5.116882 GTCACAGTACTTTGGTCAGAGTTT 58.883 41.667 9.10 0.00 0.00 2.66
1976 2251 6.049790 ACTTTGGTCAGAGTTTAGAGTGTTC 58.950 40.000 0.00 0.00 0.00 3.18
2030 2307 3.954258 AGGAACAAGGAACAAGGAACAAG 59.046 43.478 0.00 0.00 0.00 3.16
2031 2308 3.068165 GGAACAAGGAACAAGGAACAAGG 59.932 47.826 0.00 0.00 0.00 3.61
2032 2309 3.662759 ACAAGGAACAAGGAACAAGGA 57.337 42.857 0.00 0.00 0.00 3.36
2033 2310 3.976015 ACAAGGAACAAGGAACAAGGAA 58.024 40.909 0.00 0.00 0.00 3.36
2034 2311 3.699538 ACAAGGAACAAGGAACAAGGAAC 59.300 43.478 0.00 0.00 0.00 3.62
2035 2312 3.662759 AGGAACAAGGAACAAGGAACA 57.337 42.857 0.00 0.00 0.00 3.18
2036 2313 3.976015 AGGAACAAGGAACAAGGAACAA 58.024 40.909 0.00 0.00 0.00 2.83
2107 2384 7.292713 TGTCTAAGTGTAGTTAACATGTGGA 57.707 36.000 8.61 0.00 41.10 4.02
2117 2394 5.601662 AGTTAACATGTGGACGATGATAGG 58.398 41.667 8.61 0.00 0.00 2.57
2163 2448 8.784043 CAACTAAGTTTCCTGTTAACTATGCTT 58.216 33.333 7.22 6.57 34.88 3.91
2197 2482 8.918116 TCATAGTTGTGATAGAAGCTTCATAGT 58.082 33.333 27.57 10.06 0.00 2.12
2208 2493 3.221771 AGCTTCATAGTGTTTGGTTGCA 58.778 40.909 0.00 0.00 0.00 4.08
2313 2606 5.674052 AAAGAGAGATGATATAGCCGCAT 57.326 39.130 0.00 0.00 0.00 4.73
2360 2653 8.090788 ACTCTAATAATGCAACCTCCTCTTTA 57.909 34.615 0.00 0.00 0.00 1.85
2362 2655 9.566432 CTCTAATAATGCAACCTCCTCTTTATT 57.434 33.333 0.00 0.00 0.00 1.40
2422 2715 7.444183 TGCTAGTTACTATCCATAACCATTTGC 59.556 37.037 0.00 0.00 33.74 3.68
2429 2722 2.752354 TCCATAACCATTTGCGAAGTGG 59.248 45.455 11.50 11.50 38.96 4.00
2431 2724 0.885196 TAACCATTTGCGAAGTGGCC 59.115 50.000 12.51 0.00 36.47 5.36
2433 2726 2.179018 CATTTGCGAAGTGGCCGG 59.821 61.111 0.00 0.00 0.00 6.13
2443 2736 2.203153 GTGGCCGGGCGTAATCAT 60.203 61.111 24.45 0.00 0.00 2.45
2466 2911 7.650104 TCATGCATGTATGAAATAAGCACATTG 59.350 33.333 25.43 0.00 36.58 2.82
2484 2929 4.955450 ACATTGGCTATCTTACATGGCAAA 59.045 37.500 0.00 0.00 45.40 3.68
2535 2981 1.425448 CTCCAAGTCTCCCCAAAAGGT 59.575 52.381 0.00 0.00 0.00 3.50
2536 2982 1.144913 TCCAAGTCTCCCCAAAAGGTG 59.855 52.381 0.00 0.00 0.00 4.00
2541 2987 3.296854 AGTCTCCCCAAAAGGTGAAAAC 58.703 45.455 0.00 0.00 31.50 2.43
2544 2990 3.053245 TCTCCCCAAAAGGTGAAAACTCA 60.053 43.478 0.00 0.00 0.00 3.41
2545 2991 3.897505 CTCCCCAAAAGGTGAAAACTCAT 59.102 43.478 0.00 0.00 0.00 2.90
2546 2992 4.294347 TCCCCAAAAGGTGAAAACTCATT 58.706 39.130 0.00 0.00 0.00 2.57
2547 2993 4.343814 TCCCCAAAAGGTGAAAACTCATTC 59.656 41.667 0.00 0.00 0.00 2.67
2548 2994 4.100808 CCCCAAAAGGTGAAAACTCATTCA 59.899 41.667 0.00 0.00 36.99 2.57
2549 2995 5.221702 CCCCAAAAGGTGAAAACTCATTCAT 60.222 40.000 0.00 0.00 41.09 2.57
2550 2996 6.290605 CCCAAAAGGTGAAAACTCATTCATT 58.709 36.000 0.00 0.00 41.09 2.57
2551 2997 6.424812 CCCAAAAGGTGAAAACTCATTCATTC 59.575 38.462 0.00 0.00 41.09 2.67
2571 3349 2.037902 TCTTCCTGCACACCGTTATTCA 59.962 45.455 0.00 0.00 0.00 2.57
2607 3385 0.171231 CTGCCATCGTCGAAGTCTCA 59.829 55.000 0.00 0.00 0.00 3.27
2686 3505 0.759959 TACTGCCGTTTGAGGTTGGA 59.240 50.000 0.00 0.00 0.00 3.53
2689 3508 1.600916 GCCGTTTGAGGTTGGAGCT 60.601 57.895 0.00 0.00 0.00 4.09
2696 3515 1.376466 GAGGTTGGAGCTGAGGCAA 59.624 57.895 0.00 0.00 41.70 4.52
2711 3530 2.509052 GGCAAAACCTTGAAGACCAC 57.491 50.000 0.00 0.00 34.14 4.16
2714 3533 2.365293 GCAAAACCTTGAAGACCACCAT 59.635 45.455 0.00 0.00 34.14 3.55
2728 3547 1.677576 CCACCATCAATTCACATCGGG 59.322 52.381 0.00 0.00 0.00 5.14
2749 3568 5.511729 CGGGAATATTTTCGAAACAGAAAGC 59.488 40.000 10.79 0.00 40.66 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
234 235 3.019003 GCTCCAGAGCGGCCAGTAA 62.019 63.158 2.24 0.00 45.29 2.24
382 383 1.028330 CACATCTCAACATGGCCGCT 61.028 55.000 0.00 0.00 0.00 5.52
398 400 0.606944 GCCGTCCATACCAAACCACA 60.607 55.000 0.00 0.00 0.00 4.17
426 432 3.791586 GCCTCCTCACAGCTCCCC 61.792 72.222 0.00 0.00 0.00 4.81
427 433 4.154347 CGCCTCCTCACAGCTCCC 62.154 72.222 0.00 0.00 0.00 4.30
428 434 4.154347 CCGCCTCCTCACAGCTCC 62.154 72.222 0.00 0.00 0.00 4.70
433 439 2.922503 TTCAGCCGCCTCCTCACA 60.923 61.111 0.00 0.00 0.00 3.58
507 518 0.905357 ACTAGCACTCCATTCGCCTT 59.095 50.000 0.00 0.00 0.00 4.35
589 600 1.440938 CGCCGAGTTTGGGTGAAACA 61.441 55.000 0.00 0.00 45.69 2.83
665 677 3.522731 GGCCCAACACGCAACACA 61.523 61.111 0.00 0.00 0.00 3.72
686 698 5.221185 CGTTTAGAATAGAGGGGACGAATGA 60.221 44.000 0.00 0.00 0.00 2.57
687 699 4.982916 CGTTTAGAATAGAGGGGACGAATG 59.017 45.833 0.00 0.00 0.00 2.67
696 708 4.058817 GGTGCATCCGTTTAGAATAGAGG 58.941 47.826 0.00 0.00 0.00 3.69
697 709 4.058817 GGGTGCATCCGTTTAGAATAGAG 58.941 47.826 0.00 0.00 37.00 2.43
751 763 4.225267 GTGGAGAGAAGGGTTGATCCTAAA 59.775 45.833 0.00 0.00 35.80 1.85
756 768 5.422214 TTTAGTGGAGAGAAGGGTTGATC 57.578 43.478 0.00 0.00 0.00 2.92
757 769 5.515008 GGTTTTAGTGGAGAGAAGGGTTGAT 60.515 44.000 0.00 0.00 0.00 2.57
758 770 4.202430 GGTTTTAGTGGAGAGAAGGGTTGA 60.202 45.833 0.00 0.00 0.00 3.18
759 771 4.072839 GGTTTTAGTGGAGAGAAGGGTTG 58.927 47.826 0.00 0.00 0.00 3.77
760 772 3.244457 CGGTTTTAGTGGAGAGAAGGGTT 60.244 47.826 0.00 0.00 0.00 4.11
761 773 2.302157 CGGTTTTAGTGGAGAGAAGGGT 59.698 50.000 0.00 0.00 0.00 4.34
762 774 2.354805 CCGGTTTTAGTGGAGAGAAGGG 60.355 54.545 0.00 0.00 0.00 3.95
784 796 1.617357 ACCAGGTCTAGTCGGTGAAAC 59.383 52.381 0.00 0.00 0.00 2.78
794 806 4.689345 CCAACGAGTAAAAACCAGGTCTAG 59.311 45.833 0.00 0.00 0.00 2.43
800 812 2.031157 CCAGCCAACGAGTAAAAACCAG 60.031 50.000 0.00 0.00 0.00 4.00
811 823 1.591703 CTGACTAGCCAGCCAACGA 59.408 57.895 0.00 0.00 0.00 3.85
855 867 8.976986 TTTGACAAATTTTGAACAAAAATGGG 57.023 26.923 22.69 13.38 45.73 4.00
882 894 9.525826 ACAATTGAGAATTCTTACTTCCATTCT 57.474 29.630 13.59 0.00 38.44 2.40
923 936 7.391833 AGACAAGCTTTATTTTTCTTCCGAGAT 59.608 33.333 0.00 0.00 0.00 2.75
986 1025 5.104735 ACTTTTTATGCCCCTCACACAAAAA 60.105 36.000 0.00 0.00 0.00 1.94
987 1026 4.407296 ACTTTTTATGCCCCTCACACAAAA 59.593 37.500 0.00 0.00 0.00 2.44
988 1027 3.964031 ACTTTTTATGCCCCTCACACAAA 59.036 39.130 0.00 0.00 0.00 2.83
989 1028 3.571590 ACTTTTTATGCCCCTCACACAA 58.428 40.909 0.00 0.00 0.00 3.33
990 1029 3.153919 GACTTTTTATGCCCCTCACACA 58.846 45.455 0.00 0.00 0.00 3.72
991 1030 2.492088 GGACTTTTTATGCCCCTCACAC 59.508 50.000 0.00 0.00 0.00 3.82
992 1031 2.556559 GGGACTTTTTATGCCCCTCACA 60.557 50.000 0.00 0.00 34.39 3.58
993 1032 2.100197 GGGACTTTTTATGCCCCTCAC 58.900 52.381 0.00 0.00 34.39 3.51
994 1033 1.713647 TGGGACTTTTTATGCCCCTCA 59.286 47.619 0.00 0.00 39.93 3.86
995 1034 2.525105 TGGGACTTTTTATGCCCCTC 57.475 50.000 0.00 0.00 39.93 4.30
996 1035 3.490060 AATGGGACTTTTTATGCCCCT 57.510 42.857 0.00 0.00 39.93 4.79
997 1036 3.517500 TGAAATGGGACTTTTTATGCCCC 59.482 43.478 0.00 0.00 39.93 5.80
998 1037 4.817318 TGAAATGGGACTTTTTATGCCC 57.183 40.909 0.00 0.00 41.08 5.36
999 1038 6.035975 CGAAATGAAATGGGACTTTTTATGCC 59.964 38.462 0.00 0.00 0.00 4.40
1000 1039 6.589907 ACGAAATGAAATGGGACTTTTTATGC 59.410 34.615 0.00 0.00 0.00 3.14
1001 1040 9.072294 GTACGAAATGAAATGGGACTTTTTATG 57.928 33.333 0.00 0.00 0.00 1.90
1002 1041 8.248253 GGTACGAAATGAAATGGGACTTTTTAT 58.752 33.333 0.00 0.00 0.00 1.40
1003 1042 7.309316 GGGTACGAAATGAAATGGGACTTTTTA 60.309 37.037 0.00 0.00 0.00 1.52
1719 1809 3.922240 GCGCAATGAACACAGAAATTCAT 59.078 39.130 0.30 0.00 45.36 2.57
1727 1818 0.040514 TTTCCGCGCAATGAACACAG 60.041 50.000 8.75 0.00 0.00 3.66
1767 1859 9.322773 CGTCATTCCTGATTATGCATATATTCT 57.677 33.333 7.36 0.00 32.98 2.40
1808 2040 1.207791 ACCATACTCCAGGGAGCAAG 58.792 55.000 15.18 5.08 45.54 4.01
1829 2061 5.068198 ACGCATCAGCAAAAATTCAGGATAT 59.932 36.000 0.00 0.00 42.27 1.63
1878 2110 6.601613 AGATCAAGGACACTCTGAACTAGTAG 59.398 42.308 0.00 0.00 0.00 2.57
1879 2111 6.486056 AGATCAAGGACACTCTGAACTAGTA 58.514 40.000 0.00 0.00 0.00 1.82
1880 2112 5.329399 AGATCAAGGACACTCTGAACTAGT 58.671 41.667 0.00 0.00 0.00 2.57
1881 2113 5.913137 AGATCAAGGACACTCTGAACTAG 57.087 43.478 0.00 0.00 0.00 2.57
1882 2114 5.354513 CGTAGATCAAGGACACTCTGAACTA 59.645 44.000 0.00 0.00 0.00 2.24
1883 2115 4.156922 CGTAGATCAAGGACACTCTGAACT 59.843 45.833 0.00 0.00 0.00 3.01
1894 2139 1.751351 CAGACTGCCGTAGATCAAGGA 59.249 52.381 0.00 0.00 0.00 3.36
1895 2140 1.202463 CCAGACTGCCGTAGATCAAGG 60.202 57.143 0.00 0.00 0.00 3.61
1905 2150 3.185246 ACAATATCTTCCAGACTGCCG 57.815 47.619 0.00 0.00 0.00 5.69
1976 2251 1.736126 AGATGTCAATTGAGCTGTGCG 59.264 47.619 8.80 0.00 0.00 5.34
1981 2256 5.191426 AGTGCAATAGATGTCAATTGAGCT 58.809 37.500 8.80 9.26 35.53 4.09
2083 2360 7.149973 GTCCACATGTTAACTACACTTAGACA 58.850 38.462 7.22 0.00 40.19 3.41
2086 2363 6.384224 TCGTCCACATGTTAACTACACTTAG 58.616 40.000 7.22 0.00 40.19 2.18
2107 2384 5.692928 ACTTAGTGGAGTACCTATCATCGT 58.307 41.667 0.00 0.00 37.04 3.73
2117 2394 9.918630 TTAGTTGACAAATACTTAGTGGAGTAC 57.081 33.333 0.00 0.00 35.12 2.73
2163 2448 5.269189 TCTATCACAACTATGACACCTGGA 58.731 41.667 0.00 0.00 0.00 3.86
2197 2482 4.774124 TCCATTTCAAATGCAACCAAACA 58.226 34.783 4.40 0.00 0.00 2.83
2282 2575 7.545265 GCTATATCATCTCTCTTTAAGCACCAG 59.455 40.741 0.00 0.00 0.00 4.00
2339 2632 7.505585 CCCAATAAAGAGGAGGTTGCATTATTA 59.494 37.037 0.00 0.00 0.00 0.98
2385 2678 9.011095 TGGATAGTAACTAGCACTGATGTATAC 57.989 37.037 7.66 0.00 0.00 1.47
2387 2680 8.657387 ATGGATAGTAACTAGCACTGATGTAT 57.343 34.615 7.66 0.00 0.00 2.29
2422 2715 4.745751 TTACGCCCGGCCACTTCG 62.746 66.667 2.24 2.52 0.00 3.79
2429 2722 2.260869 ATGCATGATTACGCCCGGC 61.261 57.895 0.00 0.00 0.00 6.13
2431 2724 1.507562 TACATGCATGATTACGCCCG 58.492 50.000 32.75 2.55 0.00 6.13
2433 2726 4.747540 TTCATACATGCATGATTACGCC 57.252 40.909 32.75 0.00 34.95 5.68
2443 2736 6.274579 CCAATGTGCTTATTTCATACATGCA 58.725 36.000 0.00 0.00 32.75 3.96
2466 2911 5.835113 TCTTTTTGCCATGTAAGATAGCC 57.165 39.130 0.00 0.00 0.00 3.93
2484 2929 8.308207 TGCTTAACTAAAACAAACTGGTTCTTT 58.692 29.630 0.00 0.00 0.00 2.52
2516 2961 1.529744 ACCTTTTGGGGAGACTTGGA 58.470 50.000 0.00 0.00 46.08 3.53
2535 2981 5.535783 TGCAGGAAGAATGAATGAGTTTTCA 59.464 36.000 0.00 0.00 39.77 2.69
2536 2982 5.860716 GTGCAGGAAGAATGAATGAGTTTTC 59.139 40.000 0.00 0.00 0.00 2.29
2541 2987 3.128242 GGTGTGCAGGAAGAATGAATGAG 59.872 47.826 0.00 0.00 0.00 2.90
2544 2990 2.086869 CGGTGTGCAGGAAGAATGAAT 58.913 47.619 0.00 0.00 0.00 2.57
2545 2991 1.202758 ACGGTGTGCAGGAAGAATGAA 60.203 47.619 0.00 0.00 0.00 2.57
2546 2992 0.396435 ACGGTGTGCAGGAAGAATGA 59.604 50.000 0.00 0.00 0.00 2.57
2547 2993 1.238439 AACGGTGTGCAGGAAGAATG 58.762 50.000 0.00 0.00 0.00 2.67
2548 2994 2.851263 TAACGGTGTGCAGGAAGAAT 57.149 45.000 0.00 0.00 0.00 2.40
2549 2995 2.851263 ATAACGGTGTGCAGGAAGAA 57.149 45.000 0.00 0.00 0.00 2.52
2550 2996 2.037902 TGAATAACGGTGTGCAGGAAGA 59.962 45.455 0.00 0.00 0.00 2.87
2551 2997 2.159627 GTGAATAACGGTGTGCAGGAAG 59.840 50.000 0.00 0.00 0.00 3.46
2571 3349 2.225467 GCAGCACAAAAGAGAGAAGGT 58.775 47.619 0.00 0.00 0.00 3.50
2607 3385 2.353269 TCGCAACGAAACAAATGTCACT 59.647 40.909 0.00 0.00 31.06 3.41
2696 3515 3.593442 TGATGGTGGTCTTCAAGGTTT 57.407 42.857 0.00 0.00 0.00 3.27
2711 3530 6.579666 AATATTCCCGATGTGAATTGATGG 57.420 37.500 0.00 0.00 34.43 3.51
2714 3533 6.540551 TCGAAAATATTCCCGATGTGAATTGA 59.459 34.615 7.72 0.00 34.43 2.57
2728 3547 7.015877 ACTCGCTTTCTGTTTCGAAAATATTC 58.984 34.615 13.10 0.00 32.95 1.75


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

AutoCloner maintained by Alex Coulton.