Multiple sequence alignment - TraesCS4A01G385500

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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 TraesCS4A01G385500 chr4A 100.000 3037 0 0 730 3766 662626830 662623794 0.000000e+00 5609.0
1 TraesCS4A01G385500 chr4A 100.000 346 0 0 1 346 662627559 662627214 1.140000e-179 640.0
2 TraesCS4A01G385500 chr4A 81.416 226 41 1 2315 2540 662604030 662603806 2.310000e-42 183.0
3 TraesCS4A01G385500 chrUn 93.403 1622 85 10 936 2540 49378780 49380396 0.000000e+00 2383.0
4 TraesCS4A01G385500 chrUn 87.979 1148 93 23 2593 3723 317813464 317814583 0.000000e+00 1314.0
5 TraesCS4A01G385500 chrUn 88.658 723 38 14 2542 3262 138455222 138454542 0.000000e+00 841.0
6 TraesCS4A01G385500 chrUn 88.658 723 38 14 2542 3262 274996154 274996834 0.000000e+00 841.0
7 TraesCS4A01G385500 chrUn 80.769 936 139 24 1634 2541 82309300 82310222 0.000000e+00 693.0
8 TraesCS4A01G385500 chrUn 80.724 939 140 24 1634 2544 286813069 286812144 0.000000e+00 693.0
9 TraesCS4A01G385500 chrUn 80.522 919 152 22 1634 2540 49323210 49324113 0.000000e+00 680.0
10 TraesCS4A01G385500 chrUn 93.429 350 17 4 1 346 49378382 49378729 7.210000e-142 514.0
11 TraesCS4A01G385500 chrUn 84.106 453 66 4 1111 1557 82308854 82309306 2.080000e-117 433.0
12 TraesCS4A01G385500 chrUn 84.106 453 66 4 1111 1557 286813515 286813063 2.080000e-117 433.0
13 TraesCS4A01G385500 chrUn 96.970 33 0 1 2780 2812 275328969 275329000 2.000000e-03 54.7
14 TraesCS4A01G385500 chrUn 96.970 33 0 1 2780 2812 393314952 393314983 2.000000e-03 54.7
15 TraesCS4A01G385500 chrUn 96.970 33 0 1 2780 2812 454685026 454685057 2.000000e-03 54.7
16 TraesCS4A01G385500 chr7D 90.633 1580 124 12 946 2522 47648584 47650142 0.000000e+00 2076.0
17 TraesCS4A01G385500 chr7D 81.769 927 140 15 1634 2541 47609462 47610378 0.000000e+00 749.0
18 TraesCS4A01G385500 chr7D 85.746 456 65 0 1102 1557 47609013 47609468 2.030000e-132 483.0
19 TraesCS4A01G385500 chr7D 93.023 258 17 1 5 262 47647665 47647921 3.550000e-100 375.0
20 TraesCS4A01G385500 chr7D 90.526 190 10 4 730 911 47648329 47648518 1.040000e-60 244.0
21 TraesCS4A01G385500 chr7D 76.761 142 29 3 2050 2189 174793878 174793739 4.030000e-10 76.8
22 TraesCS4A01G385500 chr7A 88.568 1627 134 25 938 2540 50182753 50181155 0.000000e+00 1927.0
23 TraesCS4A01G385500 chr3B 95.819 1196 33 12 2543 3726 817962006 817963196 0.000000e+00 1916.0
24 TraesCS4A01G385500 chr3B 88.777 1194 90 22 2545 3722 819913694 819912529 0.000000e+00 1423.0
25 TraesCS4A01G385500 chr3B 88.260 1201 96 23 2543 3726 14307961 14306789 0.000000e+00 1395.0
26 TraesCS4A01G385500 chr3B 88.177 1201 97 23 2543 3726 14304674 14303502 0.000000e+00 1389.0
27 TraesCS4A01G385500 chr3B 88.186 1202 93 27 2543 3726 14293780 14292610 0.000000e+00 1387.0
28 TraesCS4A01G385500 chr3B 87.677 1201 101 24 2543 3726 14306391 14305221 0.000000e+00 1354.0
29 TraesCS4A01G385500 chr3B 87.825 1191 96 24 2543 3713 14309365 14308204 0.000000e+00 1351.0
30 TraesCS4A01G385500 chr3B 87.594 1201 102 24 2543 3726 14285085 14283915 0.000000e+00 1349.0
31 TraesCS4A01G385500 chr1B 89.059 1179 90 17 2542 3716 660074543 660075686 0.000000e+00 1426.0
32 TraesCS4A01G385500 chr1B 80.346 926 156 11 1634 2540 562564468 562563550 0.000000e+00 678.0
33 TraesCS4A01G385500 chr1B 79.935 927 158 13 1634 2540 562545440 562544522 0.000000e+00 656.0
34 TraesCS4A01G385500 chr1B 85.523 449 45 9 1107 1554 562564894 562564465 5.740000e-123 451.0
35 TraesCS4A01G385500 chr1B 84.314 357 42 5 1199 1554 562545780 562545437 1.680000e-88 337.0
36 TraesCS4A01G385500 chr6D 89.507 934 70 15 2543 3472 312141842 312142751 0.000000e+00 1157.0
37 TraesCS4A01G385500 chr6A 88.935 723 36 14 2542 3262 558256123 558256803 0.000000e+00 852.0
38 TraesCS4A01G385500 chr6A 88.797 723 36 15 2542 3262 558578625 558579304 0.000000e+00 845.0
39 TraesCS4A01G385500 chr6A 88.658 723 38 14 2542 3262 558327799 558328479 0.000000e+00 841.0
40 TraesCS4A01G385500 chr6A 87.573 515 23 13 2542 3056 558258886 558259359 3.290000e-155 558.0
41 TraesCS4A01G385500 chr1A 81.109 667 106 8 1893 2540 513685737 513685072 2.010000e-142 516.0
42 TraesCS4A01G385500 chr1A 85.843 445 43 8 1111 1554 513686450 513686025 4.430000e-124 455.0
43 TraesCS4A01G385500 chr5B 75.486 926 173 36 1636 2534 638304148 638303250 1.630000e-108 403.0
44 TraesCS4A01G385500 chr5A 74.569 928 175 34 1636 2534 635381015 635380120 2.150000e-92 350.0
45 TraesCS4A01G385500 chr5D 74.246 928 171 44 1636 2534 507768665 507767777 1.010000e-85 327.0
46 TraesCS4A01G385500 chr7B 77.465 142 28 4 2050 2189 139431091 139430952 8.670000e-12 82.4
47 TraesCS4A01G385500 chr4D 96.970 33 0 1 2780 2812 123301183 123301152 2.000000e-03 54.7
48 TraesCS4A01G385500 chr1D 96.970 33 0 1 2780 2812 141311843 141311874 2.000000e-03 54.7
49 TraesCS4A01G385500 chr1D 96.970 33 0 1 2780 2812 298814689 298814720 2.000000e-03 54.7
50 TraesCS4A01G385500 chr1D 96.970 33 0 1 2780 2812 388621862 388621893 2.000000e-03 54.7
51 TraesCS4A01G385500 chr1D 96.970 33 0 1 2780 2812 461634096 461634065 2.000000e-03 54.7


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 TraesCS4A01G385500 chr4A 662623794 662627559 3765 True 3124.500000 5609 100.00000 1 3766 2 chr4A.!!$R2 3765
1 TraesCS4A01G385500 chrUn 49378382 49380396 2014 False 1448.500000 2383 93.41600 1 2540 2 chrUn.!!$F7 2539
2 TraesCS4A01G385500 chrUn 317813464 317814583 1119 False 1314.000000 1314 87.97900 2593 3723 1 chrUn.!!$F4 1130
3 TraesCS4A01G385500 chrUn 138454542 138455222 680 True 841.000000 841 88.65800 2542 3262 1 chrUn.!!$R1 720
4 TraesCS4A01G385500 chrUn 274996154 274996834 680 False 841.000000 841 88.65800 2542 3262 1 chrUn.!!$F2 720
5 TraesCS4A01G385500 chrUn 49323210 49324113 903 False 680.000000 680 80.52200 1634 2540 1 chrUn.!!$F1 906
6 TraesCS4A01G385500 chrUn 82308854 82310222 1368 False 563.000000 693 82.43750 1111 2541 2 chrUn.!!$F8 1430
7 TraesCS4A01G385500 chrUn 286812144 286813515 1371 True 563.000000 693 82.41500 1111 2544 2 chrUn.!!$R2 1433
8 TraesCS4A01G385500 chr7D 47647665 47650142 2477 False 898.333333 2076 91.39400 5 2522 3 chr7D.!!$F2 2517
9 TraesCS4A01G385500 chr7D 47609013 47610378 1365 False 616.000000 749 83.75750 1102 2541 2 chr7D.!!$F1 1439
10 TraesCS4A01G385500 chr7A 50181155 50182753 1598 True 1927.000000 1927 88.56800 938 2540 1 chr7A.!!$R1 1602
11 TraesCS4A01G385500 chr3B 817962006 817963196 1190 False 1916.000000 1916 95.81900 2543 3726 1 chr3B.!!$F1 1183
12 TraesCS4A01G385500 chr3B 819912529 819913694 1165 True 1423.000000 1423 88.77700 2545 3722 1 chr3B.!!$R3 1177
13 TraesCS4A01G385500 chr3B 14292610 14293780 1170 True 1387.000000 1387 88.18600 2543 3726 1 chr3B.!!$R2 1183
14 TraesCS4A01G385500 chr3B 14303502 14309365 5863 True 1372.250000 1395 87.98475 2543 3726 4 chr3B.!!$R4 1183
15 TraesCS4A01G385500 chr3B 14283915 14285085 1170 True 1349.000000 1349 87.59400 2543 3726 1 chr3B.!!$R1 1183
16 TraesCS4A01G385500 chr1B 660074543 660075686 1143 False 1426.000000 1426 89.05900 2542 3716 1 chr1B.!!$F1 1174
17 TraesCS4A01G385500 chr1B 562563550 562564894 1344 True 564.500000 678 82.93450 1107 2540 2 chr1B.!!$R2 1433
18 TraesCS4A01G385500 chr1B 562544522 562545780 1258 True 496.500000 656 82.12450 1199 2540 2 chr1B.!!$R1 1341
19 TraesCS4A01G385500 chr6D 312141842 312142751 909 False 1157.000000 1157 89.50700 2543 3472 1 chr6D.!!$F1 929
20 TraesCS4A01G385500 chr6A 558578625 558579304 679 False 845.000000 845 88.79700 2542 3262 1 chr6A.!!$F2 720
21 TraesCS4A01G385500 chr6A 558327799 558328479 680 False 841.000000 841 88.65800 2542 3262 1 chr6A.!!$F1 720
22 TraesCS4A01G385500 chr6A 558256123 558259359 3236 False 705.000000 852 88.25400 2542 3262 2 chr6A.!!$F3 720
23 TraesCS4A01G385500 chr1A 513685072 513686450 1378 True 485.500000 516 83.47600 1111 2540 2 chr1A.!!$R1 1429
24 TraesCS4A01G385500 chr5B 638303250 638304148 898 True 403.000000 403 75.48600 1636 2534 1 chr5B.!!$R1 898
25 TraesCS4A01G385500 chr5A 635380120 635381015 895 True 350.000000 350 74.56900 1636 2534 1 chr5A.!!$R1 898
26 TraesCS4A01G385500 chr5D 507767777 507768665 888 True 327.000000 327 74.24600 1636 2534 1 chr5D.!!$R1 898

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
52 53 0.030235 CGCAATGATCCTCCGTCGTA 59.970 55.0 0.0 0.0 0.0 3.43 F
926 955 0.034767 GGCCCACCCTTGTAACTACC 60.035 60.0 0.0 0.0 0.0 3.18 F
1579 1653 0.103208 CTGTACGCCATCTCCACCTC 59.897 60.0 0.0 0.0 0.0 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1817 1910 0.311790 ACGCGTTCTCACCGAAGTTA 59.688 50.0 5.58 0.00 30.85 2.24 R
2000 2123 0.391263 GGTGGTCTTGATCACGGTCC 60.391 60.0 7.79 1.25 34.93 4.46 R
3366 9886 1.013596 TCCGCTGTTTGTTCAGTGTG 58.986 50.0 6.53 0.04 42.30 3.82 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
52 53 0.030235 CGCAATGATCCTCCGTCGTA 59.970 55.000 0.00 0.00 0.00 3.43
67 68 1.521457 CGTACGCACCATGGAGCAT 60.521 57.895 29.93 20.41 0.00 3.79
72 73 2.541120 GCACCATGGAGCATCTCGC 61.541 63.158 26.94 8.47 42.91 5.03
109 110 3.222855 CCCCCGTTTGCAACAGCA 61.223 61.111 0.00 0.00 36.26 4.41
140 143 0.698238 CATCCCCTCAGAACCCAACA 59.302 55.000 0.00 0.00 0.00 3.33
141 144 1.285962 CATCCCCTCAGAACCCAACAT 59.714 52.381 0.00 0.00 0.00 2.71
147 150 2.439409 CTCAGAACCCAACATGATGCA 58.561 47.619 0.00 0.00 0.00 3.96
148 151 2.821378 CTCAGAACCCAACATGATGCAA 59.179 45.455 0.00 0.00 0.00 4.08
266 269 4.071423 TCAGAGCTAGAGAGGATTCGATG 58.929 47.826 0.00 0.00 0.00 3.84
308 313 0.264359 AGAGAGGAGAGATGTGGGGG 59.736 60.000 0.00 0.00 0.00 5.40
754 759 2.485814 GCAAGCTGTGAAGGAGGTTTAG 59.514 50.000 0.00 0.00 0.00 1.85
770 775 7.127955 AGGAGGTTTAGGTGACTGAATAATCAT 59.872 37.037 0.00 0.00 43.88 2.45
796 803 5.504994 CGGTTGAAATGGAGTTTTTCGAGAA 60.505 40.000 0.00 0.00 36.16 2.87
801 808 6.972328 TGAAATGGAGTTTTTCGAGAACTTTG 59.028 34.615 14.87 0.00 37.46 2.77
864 871 8.870116 GGATAATAAACAAAATAGCCCCAGATT 58.130 33.333 0.00 0.00 0.00 2.40
902 915 1.808411 ATGTTGCGTCGGAATCTTGT 58.192 45.000 1.49 0.00 0.00 3.16
920 949 1.464395 TTCCAGGCCCACCCTTGTA 60.464 57.895 0.00 0.00 43.06 2.41
923 952 1.767692 CAGGCCCACCCTTGTAACT 59.232 57.895 0.00 0.00 43.06 2.24
926 955 0.034767 GGCCCACCCTTGTAACTACC 60.035 60.000 0.00 0.00 0.00 3.18
927 956 0.694196 GCCCACCCTTGTAACTACCA 59.306 55.000 0.00 0.00 0.00 3.25
928 957 1.612462 GCCCACCCTTGTAACTACCAC 60.612 57.143 0.00 0.00 0.00 4.16
929 958 1.003928 CCCACCCTTGTAACTACCACC 59.996 57.143 0.00 0.00 0.00 4.61
930 959 1.982958 CCACCCTTGTAACTACCACCT 59.017 52.381 0.00 0.00 0.00 4.00
931 960 2.027469 CCACCCTTGTAACTACCACCTC 60.027 54.545 0.00 0.00 0.00 3.85
932 961 2.904434 CACCCTTGTAACTACCACCTCT 59.096 50.000 0.00 0.00 0.00 3.69
933 962 3.326880 CACCCTTGTAACTACCACCTCTT 59.673 47.826 0.00 0.00 0.00 2.85
934 963 3.978672 ACCCTTGTAACTACCACCTCTTT 59.021 43.478 0.00 0.00 0.00 2.52
1000 1052 2.135933 AGTTAGCTCGTGTTGCTCAAC 58.864 47.619 5.84 5.84 41.46 3.18
1007 1059 4.275936 AGCTCGTGTTGCTCAACTTTTTAT 59.724 37.500 13.16 0.00 41.67 1.40
1044 1106 0.745845 GCTCGTGTCCATCAGGCAAT 60.746 55.000 0.00 0.00 33.74 3.56
1269 1337 2.654912 CGTCGCCTTCGTGTCAACC 61.655 63.158 0.00 0.00 36.96 3.77
1579 1653 0.103208 CTGTACGCCATCTCCACCTC 59.897 60.000 0.00 0.00 0.00 3.85
1718 1800 3.593551 GAACGACGACGCGTACCCA 62.594 63.158 13.97 0.00 44.86 4.51
1751 1841 2.110213 GACTTCACCGTGCCACCA 59.890 61.111 0.00 0.00 0.00 4.17
1884 1977 1.729838 GACGTCTTCGAGCGTTGCT 60.730 57.895 8.70 0.00 43.88 3.91
2069 2207 2.752238 CTCGACGACCAGCCTCCT 60.752 66.667 0.00 0.00 0.00 3.69
2242 2407 3.905678 CGGCTTCGAGGAGCGGAT 61.906 66.667 10.27 0.00 43.33 4.18
2256 2421 3.458163 GGATGCAGGACCGTCGGA 61.458 66.667 20.51 0.00 0.00 4.55
2296 2461 1.153823 CGCAGGTGAAGGTACTCGG 60.154 63.158 0.00 0.00 38.49 4.63
2419 2584 1.227527 CGCCTATGATTGCACGGGA 60.228 57.895 0.00 0.00 0.00 5.14
2499 2664 3.986006 GGGACGGTGTCGCAGTGA 61.986 66.667 8.87 0.00 43.51 3.41
2500 2665 2.028484 GGACGGTGTCGCAGTGAA 59.972 61.111 0.00 0.00 40.63 3.18
2534 2699 2.879103 TGGTGGAGGATGAAGGAAAC 57.121 50.000 0.00 0.00 0.00 2.78
2861 6003 1.546476 TGGTGTTTGGCGACACTTTTT 59.454 42.857 19.12 0.00 47.00 1.94
2978 6141 0.860533 GATCGAGATGAGCAAGCAGC 59.139 55.000 0.00 0.00 46.19 5.25
3338 8499 6.830912 TCCAGGTGAAACTATGATCTAATGG 58.169 40.000 0.00 0.00 36.74 3.16
3362 9882 2.676748 CTCCTCCTTCTGCCATAGTCT 58.323 52.381 0.00 0.00 0.00 3.24
3366 9886 4.406003 TCCTCCTTCTGCCATAGTCTTTAC 59.594 45.833 0.00 0.00 0.00 2.01
3392 9914 2.948979 TGAACAAACAGCGGACAAAGAT 59.051 40.909 0.00 0.00 0.00 2.40
3417 9947 0.532862 ATCAACGCAGCCGATAAGGG 60.533 55.000 0.00 0.00 41.48 3.95
3418 9948 2.180204 CAACGCAGCCGATAAGGGG 61.180 63.158 0.00 0.00 41.48 4.79
3503 10034 2.048877 GCGGCAGCTGCAAACAAT 60.049 55.556 37.63 0.00 44.36 2.71
3548 10079 2.029728 GCGAGGACACGATCAAAGAATG 59.970 50.000 0.00 0.00 35.09 2.67
3694 10789 6.059787 AGGCTAATGATGTGATTATCTCCC 57.940 41.667 0.00 0.00 0.00 4.30
3726 10821 7.265647 AGCACATCTACAGTACACTACATAG 57.734 40.000 0.00 0.00 0.00 2.23
3727 10822 6.829298 AGCACATCTACAGTACACTACATAGT 59.171 38.462 0.00 0.00 36.90 2.12
3736 10831 2.512973 ACTACATAGTGGGGTCGCC 58.487 57.895 0.00 0.00 34.72 5.54
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 1.746239 TGCGTACGACGGAGGATCA 60.746 57.895 21.65 0.30 42.82 2.92
42 43 3.060020 ATGGTGCGTACGACGGAGG 62.060 63.158 21.65 0.00 44.00 4.30
52 53 1.153289 GAGATGCTCCATGGTGCGT 60.153 57.895 28.93 28.93 37.43 5.24
109 110 2.981784 TGAGGGGATGCTGCTATGTAAT 59.018 45.455 0.00 0.00 0.00 1.89
266 269 0.326618 TCACCCCTCTCTCAATCCCC 60.327 60.000 0.00 0.00 0.00 4.81
308 313 2.479275 GGTTTTGCCACGTTCTACTCTC 59.521 50.000 0.00 0.00 37.17 3.20
754 759 5.584649 TCAACCGAATGATTATTCAGTCACC 59.415 40.000 13.58 0.00 45.08 4.02
770 775 4.335874 TCGAAAAACTCCATTTCAACCGAA 59.664 37.500 0.00 0.00 36.75 4.30
796 803 3.791973 TTGAACATGAAACCGCAAAGT 57.208 38.095 0.00 0.00 0.00 2.66
801 808 5.610975 CAATTTCATTGAACATGAAACCGC 58.389 37.500 11.27 0.00 46.67 5.68
872 879 2.695359 GACGCAACATTACAAGGAGGA 58.305 47.619 0.00 0.00 0.00 3.71
873 880 1.393539 CGACGCAACATTACAAGGAGG 59.606 52.381 0.00 0.00 0.00 4.30
879 892 2.967362 AGATTCCGACGCAACATTACA 58.033 42.857 0.00 0.00 0.00 2.41
881 894 3.331150 ACAAGATTCCGACGCAACATTA 58.669 40.909 0.00 0.00 0.00 1.90
902 915 1.068943 TTACAAGGGTGGGCCTGGAA 61.069 55.000 4.53 0.00 34.45 3.53
920 949 4.520179 ACGAAAACAAAGAGGTGGTAGTT 58.480 39.130 0.00 0.00 0.00 2.24
923 952 3.125316 CGACGAAAACAAAGAGGTGGTA 58.875 45.455 0.00 0.00 0.00 3.25
926 955 2.286184 CCACGACGAAAACAAAGAGGTG 60.286 50.000 0.00 0.00 0.00 4.00
927 956 1.937899 CCACGACGAAAACAAAGAGGT 59.062 47.619 0.00 0.00 0.00 3.85
928 957 1.263217 CCCACGACGAAAACAAAGAGG 59.737 52.381 0.00 0.00 0.00 3.69
929 958 1.937899 ACCCACGACGAAAACAAAGAG 59.062 47.619 0.00 0.00 0.00 2.85
930 959 2.027003 ACCCACGACGAAAACAAAGA 57.973 45.000 0.00 0.00 0.00 2.52
931 960 2.349155 GCTACCCACGACGAAAACAAAG 60.349 50.000 0.00 0.00 0.00 2.77
932 961 1.598601 GCTACCCACGACGAAAACAAA 59.401 47.619 0.00 0.00 0.00 2.83
933 962 1.219646 GCTACCCACGACGAAAACAA 58.780 50.000 0.00 0.00 0.00 2.83
934 963 0.600782 GGCTACCCACGACGAAAACA 60.601 55.000 0.00 0.00 0.00 2.83
1044 1106 0.970640 TGTCGCTGTTGCCTACCTAA 59.029 50.000 0.00 0.00 35.36 2.69
1114 1176 0.822164 GCTGCCATTTCCATCTGCTT 59.178 50.000 0.00 0.00 0.00 3.91
1159 1227 4.394712 GACCACCACCTCCAGCCG 62.395 72.222 0.00 0.00 0.00 5.52
1498 1566 0.532573 TGGCAGAAGTCGAGGATGAC 59.467 55.000 0.00 0.00 39.21 3.06
1534 1608 3.414700 CTTGTGCTGGTCGGCGAC 61.415 66.667 30.72 30.72 34.52 5.19
1718 1800 3.303135 TCCTCTGGCTTCGTGCGT 61.303 61.111 0.00 0.00 44.05 5.24
1751 1841 0.845102 ACGGGAAGGGGATCCACTTT 60.845 55.000 29.90 11.87 41.55 2.66
1817 1910 0.311790 ACGCGTTCTCACCGAAGTTA 59.688 50.000 5.58 0.00 30.85 2.24
1884 1977 3.716195 CCGGTGGATGGTGAGGCA 61.716 66.667 0.00 0.00 0.00 4.75
2000 2123 0.391263 GGTGGTCTTGATCACGGTCC 60.391 60.000 7.79 1.25 34.93 4.46
2069 2207 2.005451 GCGACGTAGAGGACAGACTTA 58.995 52.381 0.00 0.00 0.00 2.24
2242 2407 3.770040 CCATCCGACGGTCCTGCA 61.770 66.667 14.79 0.00 0.00 4.41
2253 2418 2.124983 CCCTGTGCAGACCATCCG 60.125 66.667 0.02 0.00 0.00 4.18
2256 2421 2.759114 CCACCCTGTGCAGACCAT 59.241 61.111 0.02 0.00 31.34 3.55
2419 2584 1.202580 CGATCCCTCTTTTCGCCATCT 60.203 52.381 0.00 0.00 0.00 2.90
2499 2664 2.689785 CCATGACATGCCGCACGTT 61.690 57.895 10.10 0.00 0.00 3.99
2500 2665 3.126879 CCATGACATGCCGCACGT 61.127 61.111 10.10 0.00 0.00 4.49
2534 2699 2.281208 TCCGCCCCTGAAAACACG 60.281 61.111 0.00 0.00 0.00 4.49
3317 8478 6.465035 GGCTCCATTAGATCATAGTTTCACCT 60.465 42.308 0.00 0.00 0.00 4.00
3338 8499 1.344191 ATGGCAGAAGGAGGAGGCTC 61.344 60.000 5.78 5.78 0.00 4.70
3350 9860 4.526650 TCAGTGTGTAAAGACTATGGCAGA 59.473 41.667 0.00 0.00 0.00 4.26
3362 9882 3.181505 CCGCTGTTTGTTCAGTGTGTAAA 60.182 43.478 6.53 0.00 42.30 2.01
3366 9886 1.013596 TCCGCTGTTTGTTCAGTGTG 58.986 50.000 6.53 0.04 42.30 3.82
3392 9914 1.737735 CGGCTGCGTTGATCTGTCA 60.738 57.895 0.00 0.00 0.00 3.58
3503 10034 1.756950 CGCACTAGGGTCTAGGGCA 60.757 63.158 23.57 0.00 43.81 5.36
3548 10079 2.132740 TTTGTTGTTTGCCTCATCGC 57.867 45.000 0.00 0.00 0.00 4.58
3671 10766 5.337894 CGGGAGATAATCACATCATTAGCCT 60.338 44.000 0.00 0.00 0.00 4.58
3694 10789 3.198068 ACTGTAGATGTGCTAATTGGCG 58.802 45.455 9.40 0.00 34.52 5.69


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

AutoCloner maintained by Alex Coulton.