Multiple sequence alignment - TraesCS5A01G461800

Loading Multiple Alignment...

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 TraesCS5A01G461800 chr5A 100.000 3022 0 0 1 3022 641782581 641779560 0.000000e+00 5581
1 TraesCS5A01G461800 chr5A 84.607 1754 208 21 960 2668 642905610 642907346 0.000000e+00 1687
2 TraesCS5A01G461800 chr5A 82.242 1115 178 13 846 1947 642502596 642503703 0.000000e+00 944
3 TraesCS5A01G461800 chr5A 91.881 505 18 6 1 497 459489051 459488562 0.000000e+00 684
4 TraesCS5A01G461800 chr5A 88.690 504 48 3 1 496 80922439 80921937 9.270000e-170 606
5 TraesCS5A01G461800 chr5A 81.868 546 46 23 1 494 442427793 442427249 7.800000e-111 411
6 TraesCS5A01G461800 chr5A 86.722 241 30 2 2339 2579 642697267 642697505 1.790000e-67 267
7 TraesCS5A01G461800 chr5A 86.957 184 16 2 1982 2157 642695536 642695719 1.840000e-47 200
8 TraesCS5A01G461800 chr5B 94.609 2189 101 10 844 3022 645063156 645060975 0.000000e+00 3373
9 TraesCS5A01G461800 chr5B 85.151 1852 203 29 1074 2877 646627111 646628938 0.000000e+00 1831
10 TraesCS5A01G461800 chr5B 85.414 953 135 2 999 1947 646376155 646377107 0.000000e+00 987
11 TraesCS5A01G461800 chr5B 82.301 1130 178 17 846 1959 645993331 645992208 0.000000e+00 959
12 TraesCS5A01G461800 chr5B 79.790 856 97 31 1951 2755 646267715 646268545 1.220000e-153 553
13 TraesCS5A01G461800 chr5B 90.076 393 25 8 1 389 658170792 658171174 5.820000e-137 497
14 TraesCS5A01G461800 chr5B 85.974 385 19 16 497 847 645063570 645063187 2.200000e-101 379
15 TraesCS5A01G461800 chr5B 80.398 352 37 7 1954 2275 645992183 645991834 3.890000e-59 239
16 TraesCS5A01G461800 chr5B 84.937 239 27 3 1954 2184 645980524 645980287 1.810000e-57 233
17 TraesCS5A01G461800 chr5D 85.585 1762 204 15 953 2668 514515184 514516941 0.000000e+00 1801
18 TraesCS5A01G461800 chr5D 82.796 1116 173 15 846 1947 514294480 514295590 0.000000e+00 979
19 TraesCS5A01G461800 chr5D 84.902 967 132 9 999 1959 514412810 514411852 0.000000e+00 965
20 TraesCS5A01G461800 chr5D 81.289 962 101 30 1951 2876 514295624 514296542 0.000000e+00 706
21 TraesCS5A01G461800 chr5D 88.554 166 14 5 2713 2878 514516948 514517108 2.380000e-46 196
22 TraesCS5A01G461800 chr1A 90.354 508 33 10 1 497 21149854 21149352 0.000000e+00 652
23 TraesCS5A01G461800 chr1A 85.788 387 32 13 133 500 473487052 473487434 3.650000e-104 388
24 TraesCS5A01G461800 chr2A 90.258 503 36 6 1 493 2946784 2946285 0.000000e+00 645
25 TraesCS5A01G461800 chr2A 86.266 466 38 16 52 496 751633887 751633427 1.630000e-132 483
26 TraesCS5A01G461800 chr7A 93.720 414 17 3 88 493 562700299 562700711 1.990000e-171 612
27 TraesCS5A01G461800 chr4A 95.251 379 14 3 118 493 176811356 176810979 5.580000e-167 597
28 TraesCS5A01G461800 chr6A 87.814 517 38 16 1 496 555413541 555414053 1.560000e-162 582
29 TraesCS5A01G461800 chr6A 85.958 527 37 17 1 494 121918551 121919073 2.060000e-146 529
30 TraesCS5A01G461800 chr1B 91.379 406 23 6 1 404 637325547 637325942 2.050000e-151 545
31 TraesCS5A01G461800 chr7B 90.423 355 23 5 52 404 739400138 739399793 9.870000e-125 457
32 TraesCS5A01G461800 chr7B 79.335 421 58 16 1 404 634057944 634058352 4.970000e-68 268
33 TraesCS5A01G461800 chr7B 78.230 418 62 16 1 401 634057402 634056997 1.080000e-59 241
34 TraesCS5A01G461800 chr7B 78.161 435 52 19 1 404 704163306 704162884 1.400000e-58 237
35 TraesCS5A01G461800 chr7B 81.166 223 14 5 1 195 696288908 696288686 1.450000e-33 154


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 TraesCS5A01G461800 chr5A 641779560 641782581 3021 True 5581.0 5581 100.0000 1 3022 1 chr5A.!!$R4 3021
1 TraesCS5A01G461800 chr5A 642905610 642907346 1736 False 1687.0 1687 84.6070 960 2668 1 chr5A.!!$F2 1708
2 TraesCS5A01G461800 chr5A 642502596 642503703 1107 False 944.0 944 82.2420 846 1947 1 chr5A.!!$F1 1101
3 TraesCS5A01G461800 chr5A 80921937 80922439 502 True 606.0 606 88.6900 1 496 1 chr5A.!!$R1 495
4 TraesCS5A01G461800 chr5A 442427249 442427793 544 True 411.0 411 81.8680 1 494 1 chr5A.!!$R2 493
5 TraesCS5A01G461800 chr5A 642695536 642697505 1969 False 233.5 267 86.8395 1982 2579 2 chr5A.!!$F3 597
6 TraesCS5A01G461800 chr5B 645060975 645063570 2595 True 1876.0 3373 90.2915 497 3022 2 chr5B.!!$R2 2525
7 TraesCS5A01G461800 chr5B 646627111 646628938 1827 False 1831.0 1831 85.1510 1074 2877 1 chr5B.!!$F3 1803
8 TraesCS5A01G461800 chr5B 646376155 646377107 952 False 987.0 987 85.4140 999 1947 1 chr5B.!!$F2 948
9 TraesCS5A01G461800 chr5B 645991834 645993331 1497 True 599.0 959 81.3495 846 2275 2 chr5B.!!$R3 1429
10 TraesCS5A01G461800 chr5B 646267715 646268545 830 False 553.0 553 79.7900 1951 2755 1 chr5B.!!$F1 804
11 TraesCS5A01G461800 chr5D 514515184 514517108 1924 False 998.5 1801 87.0695 953 2878 2 chr5D.!!$F2 1925
12 TraesCS5A01G461800 chr5D 514411852 514412810 958 True 965.0 965 84.9020 999 1959 1 chr5D.!!$R1 960
13 TraesCS5A01G461800 chr5D 514294480 514296542 2062 False 842.5 979 82.0425 846 2876 2 chr5D.!!$F1 2030
14 TraesCS5A01G461800 chr1A 21149352 21149854 502 True 652.0 652 90.3540 1 497 1 chr1A.!!$R1 496
15 TraesCS5A01G461800 chr6A 555413541 555414053 512 False 582.0 582 87.8140 1 496 1 chr6A.!!$F2 495
16 TraesCS5A01G461800 chr6A 121918551 121919073 522 False 529.0 529 85.9580 1 494 1 chr6A.!!$F1 493

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
66 81 0.034863 GTATGGCGGGAAAGGGTTGA 60.035 55.0 0.00 0.0 0.00 3.18 F
517 634 0.386476 TGTTACGCAGGAGTCGTGTT 59.614 50.0 13.97 4.8 40.69 3.32 F
1757 1954 0.037232 ACTCTTTGCCTAGCGGTGAC 60.037 55.0 0.00 0.0 0.00 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1613 1810 0.941542 CTTTCAAAACAGGCGACCGA 59.058 50.0 0.0 0.0 0.00 4.69 R
1772 1969 2.670229 CGCAGCCACTAGTAAAAGTCGA 60.670 50.0 0.0 0.0 0.00 4.20 R
2854 4548 0.461548 GTGGGATGACGCAGATCAGA 59.538 55.0 0.0 0.0 39.53 3.27 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
66 81 0.034863 GTATGGCGGGAAAGGGTTGA 60.035 55.000 0.00 0.00 0.00 3.18
69 84 3.053896 GCGGGAAAGGGTTGACGG 61.054 66.667 0.00 0.00 0.00 4.79
70 85 3.053896 CGGGAAAGGGTTGACGGC 61.054 66.667 0.00 0.00 0.00 5.68
71 86 2.114411 GGGAAAGGGTTGACGGCA 59.886 61.111 0.00 0.00 0.00 5.69
72 87 1.529713 GGGAAAGGGTTGACGGCAA 60.530 57.895 0.00 0.00 0.00 4.52
73 88 1.110518 GGGAAAGGGTTGACGGCAAA 61.111 55.000 4.55 0.00 35.42 3.68
74 89 0.747852 GGAAAGGGTTGACGGCAAAA 59.252 50.000 4.55 0.00 35.42 2.44
75 90 1.343142 GGAAAGGGTTGACGGCAAAAT 59.657 47.619 4.55 0.00 35.42 1.82
76 91 2.559231 GGAAAGGGTTGACGGCAAAATA 59.441 45.455 4.55 0.00 35.42 1.40
77 92 3.006003 GGAAAGGGTTGACGGCAAAATAA 59.994 43.478 4.55 0.00 35.42 1.40
78 93 3.934457 AAGGGTTGACGGCAAAATAAG 57.066 42.857 4.55 0.00 35.42 1.73
79 94 2.167662 AGGGTTGACGGCAAAATAAGG 58.832 47.619 4.55 0.00 35.42 2.69
80 95 1.403647 GGGTTGACGGCAAAATAAGGC 60.404 52.381 4.55 0.00 35.42 4.35
170 227 0.472471 GAACATATGGCGGGAAGGGA 59.528 55.000 7.80 0.00 0.00 4.20
173 230 2.344592 ACATATGGCGGGAAGGGATTA 58.655 47.619 7.80 0.00 0.00 1.75
193 264 2.747686 GGGAAACAGGTGGCGAGA 59.252 61.111 0.00 0.00 0.00 4.04
201 272 2.433436 ACAGGTGGCGAGAAAAATACC 58.567 47.619 0.00 0.00 0.00 2.73
269 369 4.473199 CAAAAAGTACTTTTCGGCCTAGC 58.527 43.478 28.90 0.00 41.45 3.42
517 634 0.386476 TGTTACGCAGGAGTCGTGTT 59.614 50.000 13.97 4.80 40.69 3.32
560 677 2.333417 ACGGTGAGATCGTGACGCT 61.333 57.895 0.00 0.00 39.55 5.07
585 702 3.240134 GAGTTGGCAGGAGACCGCA 62.240 63.158 0.00 0.00 0.00 5.69
602 719 1.448540 CAGTCGGTGCAGGATGGTC 60.449 63.158 0.00 0.00 35.86 4.02
606 723 1.671054 CGGTGCAGGATGGTCGTTT 60.671 57.895 0.00 0.00 35.86 3.60
613 730 1.056660 AGGATGGTCGTTTGTGAGGT 58.943 50.000 0.00 0.00 0.00 3.85
627 769 4.877378 TGTGAGGTGTACGTATCCTTTT 57.123 40.909 18.67 2.88 0.00 2.27
650 792 6.946229 TGTATTTGAAGTAGAGAGCGTTTC 57.054 37.500 0.00 0.00 0.00 2.78
653 795 6.713792 ATTTGAAGTAGAGAGCGTTTCTTC 57.286 37.500 0.00 0.00 35.87 2.87
656 798 5.844004 TGAAGTAGAGAGCGTTTCTTCTTT 58.156 37.500 0.00 0.00 35.87 2.52
657 799 5.921408 TGAAGTAGAGAGCGTTTCTTCTTTC 59.079 40.000 0.00 4.85 35.87 2.62
660 802 6.517605 AGTAGAGAGCGTTTCTTCTTTCTTT 58.482 36.000 0.00 0.00 35.87 2.52
661 803 5.915812 AGAGAGCGTTTCTTCTTTCTTTC 57.084 39.130 0.00 0.00 35.87 2.62
664 806 6.540551 AGAGAGCGTTTCTTCTTTCTTTCTTT 59.459 34.615 0.00 0.00 35.87 2.52
752 897 0.533755 CAAATCCAGGCCTAGCGAGG 60.534 60.000 3.98 8.78 46.93 4.63
756 901 2.501610 CAGGCCTAGCGAGGTTCC 59.498 66.667 14.88 8.02 45.78 3.62
771 916 3.827302 GAGGTTCCTTTCCTTTTTCCTCC 59.173 47.826 0.00 0.00 35.56 4.30
773 918 2.897969 GTTCCTTTCCTTTTTCCTCCCC 59.102 50.000 0.00 0.00 0.00 4.81
791 936 3.640029 TCCCCACACGGATAGTAATTCTC 59.360 47.826 0.00 0.00 0.00 2.87
861 1045 0.527817 CGGCCTGAAGGTACGATCAC 60.528 60.000 0.00 0.00 39.05 3.06
865 1049 2.379972 CCTGAAGGTACGATCACTCCT 58.620 52.381 0.00 0.00 0.00 3.69
870 1054 3.827008 AGGTACGATCACTCCTACGTA 57.173 47.619 0.00 0.00 39.59 3.57
872 1057 4.314121 AGGTACGATCACTCCTACGTATC 58.686 47.826 0.00 0.00 41.77 2.24
886 1071 6.366340 TCCTACGTATCCTGATTCTCTTTCT 58.634 40.000 0.00 0.00 0.00 2.52
889 1074 6.783708 ACGTATCCTGATTCTCTTTCTCTT 57.216 37.500 0.00 0.00 0.00 2.85
894 1079 7.920160 ATCCTGATTCTCTTTCTCTTTGTTC 57.080 36.000 0.00 0.00 0.00 3.18
901 1086 6.678568 TCTCTTTCTCTTTGTTCTCCTCAT 57.321 37.500 0.00 0.00 0.00 2.90
922 1109 5.128499 TCATGGATTAATGCGTTTTCCCATT 59.872 36.000 14.48 0.00 35.90 3.16
992 1184 1.377202 GTGCCGGCAATCTTCCTCA 60.377 57.895 34.66 0.00 0.00 3.86
997 1189 0.531532 CGGCAATCTTCCTCATCGCT 60.532 55.000 0.00 0.00 0.00 4.93
1018 1210 5.504173 CGCTAGATGAAGACATGTAAGACGA 60.504 44.000 0.00 0.00 36.82 4.20
1035 1227 0.937304 CGATGTCTATTTGCACCCCG 59.063 55.000 0.00 0.00 0.00 5.73
1041 1233 0.451783 CTATTTGCACCCCGCTTGAC 59.548 55.000 0.00 0.00 43.06 3.18
1123 1315 3.932710 CCACGACAACAACAGCTACATAT 59.067 43.478 0.00 0.00 0.00 1.78
1266 1463 1.153289 GCATCCTGCGACATGAGGT 60.153 57.895 0.00 0.00 31.71 3.85
1318 1515 7.716799 ATTCAATGCATAAAACAGGACCTAA 57.283 32.000 0.00 0.00 0.00 2.69
1421 1618 2.696526 ACCTTAGGGATGATCGCCTA 57.303 50.000 2.32 5.82 36.25 3.93
1566 1763 3.696548 GGAGGGATTTGATGTCAGTTTCC 59.303 47.826 0.00 0.00 0.00 3.13
1613 1810 4.438744 GCGCATAGGTTTGTTCTTGCTATT 60.439 41.667 0.30 0.00 0.00 1.73
1716 1913 0.396974 ACCTGCTGTTTTCAAGGCCA 60.397 50.000 5.01 0.00 32.59 5.36
1729 1926 1.136305 CAAGGCCATGCTCCATTTCAG 59.864 52.381 5.01 0.00 0.00 3.02
1757 1954 0.037232 ACTCTTTGCCTAGCGGTGAC 60.037 55.000 0.00 0.00 0.00 3.67
1772 1969 3.802948 GGTGACGATACTGAGATGGTT 57.197 47.619 0.00 0.00 0.00 3.67
2024 2251 8.214721 AGAAGAGAAGAAAATTTTCGTGAAGT 57.785 30.769 21.63 9.74 41.92 3.01
2029 2264 9.535270 GAGAAGAAAATTTTCGTGAAGTCTATG 57.465 33.333 21.63 0.00 41.92 2.23
2083 2318 4.257267 TGTCATAGGGATAATCAGCACG 57.743 45.455 0.00 0.00 0.00 5.34
2213 2468 5.877564 GCTTCTCTGCTACCTGTAAGATTTT 59.122 40.000 0.00 0.00 34.07 1.82
2459 4115 1.608283 GCTCCACGGTAGCTTGACTTT 60.608 52.381 0.00 0.00 37.01 2.66
2487 4143 9.612620 CATAATTGTAACACAAGAGAAAGAACC 57.387 33.333 0.00 0.00 41.94 3.62
2491 4147 0.875059 CACAAGAGAAAGAACCGGCC 59.125 55.000 0.00 0.00 0.00 6.13
2696 4386 3.555139 GTGATGCAAGCTGTAGATCAGAC 59.445 47.826 0.00 0.00 46.27 3.51
2868 4562 2.232208 TCACAAGTCTGATCTGCGTCAT 59.768 45.455 0.00 0.00 0.00 3.06
2884 4578 1.978617 CATCCCACCCCACAAGTGC 60.979 63.158 0.00 0.00 33.75 4.40
2894 4588 0.751277 CCACAAGTGCAGGTGTTCCA 60.751 55.000 10.98 0.00 35.89 3.53
2904 4598 1.270550 CAGGTGTTCCAAGTTGATGGC 59.729 52.381 3.87 0.00 40.46 4.40
2906 4600 1.234821 GTGTTCCAAGTTGATGGCGA 58.765 50.000 3.87 0.00 40.46 5.54
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
66 81 0.808755 CTTCCGCCTTATTTTGCCGT 59.191 50.000 0.00 0.00 0.00 5.68
69 84 0.459899 CCCCTTCCGCCTTATTTTGC 59.540 55.000 0.00 0.00 0.00 3.68
70 85 1.847328 ACCCCTTCCGCCTTATTTTG 58.153 50.000 0.00 0.00 0.00 2.44
71 86 2.176045 CAACCCCTTCCGCCTTATTTT 58.824 47.619 0.00 0.00 0.00 1.82
72 87 1.618616 CCAACCCCTTCCGCCTTATTT 60.619 52.381 0.00 0.00 0.00 1.40
73 88 0.033503 CCAACCCCTTCCGCCTTATT 60.034 55.000 0.00 0.00 0.00 1.40
74 89 1.613061 CCAACCCCTTCCGCCTTAT 59.387 57.895 0.00 0.00 0.00 1.73
75 90 3.083386 CCAACCCCTTCCGCCTTA 58.917 61.111 0.00 0.00 0.00 2.69
76 91 4.678743 GCCAACCCCTTCCGCCTT 62.679 66.667 0.00 0.00 0.00 4.35
170 227 0.679960 GCCACCTGTTTCCCGCTAAT 60.680 55.000 0.00 0.00 0.00 1.73
193 264 9.474313 TCATACATTAGGCTGAAAGGTATTTTT 57.526 29.630 4.95 0.00 33.01 1.94
201 272 4.454678 TGGCTCATACATTAGGCTGAAAG 58.545 43.478 0.00 0.00 38.97 2.62
269 369 5.699839 CCGAAATAGACTTTTTGGTCAAGG 58.300 41.667 0.00 0.00 38.57 3.61
517 634 2.104281 CAGGCAGGAGATGATGATGTCA 59.896 50.000 0.00 0.00 42.06 3.58
560 677 4.680237 CCTGCCAACTCGCGTCCA 62.680 66.667 5.77 0.00 0.00 4.02
585 702 2.982130 GACCATCCTGCACCGACT 59.018 61.111 0.00 0.00 0.00 4.18
602 719 2.919229 GGATACGTACACCTCACAAACG 59.081 50.000 0.00 0.00 39.37 3.60
606 723 4.039488 ACAAAAGGATACGTACACCTCACA 59.961 41.667 19.12 0.00 46.39 3.58
613 730 8.836268 ACTTCAAATACAAAAGGATACGTACA 57.164 30.769 0.00 0.00 46.39 2.90
627 769 6.688578 AGAAACGCTCTCTACTTCAAATACA 58.311 36.000 0.00 0.00 0.00 2.29
640 782 5.915812 AGAAAGAAAGAAGAAACGCTCTC 57.084 39.130 0.00 0.00 31.02 3.20
667 809 1.384989 TTTGAAACGCTCCCGGCAAA 61.385 50.000 0.00 0.00 41.91 3.68
712 855 1.615107 GCGACTAGTGCACGTTCCAC 61.615 60.000 12.01 7.80 0.00 4.02
752 897 2.897969 GGGGAGGAAAAAGGAAAGGAAC 59.102 50.000 0.00 0.00 0.00 3.62
756 901 2.628178 GTGTGGGGAGGAAAAAGGAAAG 59.372 50.000 0.00 0.00 0.00 2.62
771 916 4.142026 TGTGAGAATTACTATCCGTGTGGG 60.142 45.833 0.00 0.00 35.24 4.61
773 918 6.961359 TTTGTGAGAATTACTATCCGTGTG 57.039 37.500 0.00 0.00 0.00 3.82
791 936 8.555361 TCAACTTTCCTTTGTTTTTCTTTTGTG 58.445 29.630 0.00 0.00 0.00 3.33
805 950 2.640316 AGTCGCCTCAACTTTCCTTT 57.360 45.000 0.00 0.00 0.00 3.11
861 1045 6.488683 AGAAAGAGAATCAGGATACGTAGGAG 59.511 42.308 0.08 0.00 46.39 3.69
865 1049 7.883391 AAGAGAAAGAGAATCAGGATACGTA 57.117 36.000 0.00 0.00 46.39 3.57
870 1054 7.688343 AGAACAAAGAGAAAGAGAATCAGGAT 58.312 34.615 0.00 0.00 37.82 3.24
872 1057 6.371271 GGAGAACAAAGAGAAAGAGAATCAGG 59.629 42.308 0.00 0.00 37.82 3.86
901 1086 5.419155 TGTAATGGGAAAACGCATTAATCCA 59.581 36.000 16.80 10.77 29.82 3.41
922 1109 4.136796 GCCAATGCTAATCTGATGGTGTA 58.863 43.478 0.00 0.00 33.53 2.90
972 1161 0.960364 GAGGAAGATTGCCGGCACAA 60.960 55.000 32.95 17.67 0.00 3.33
976 1165 1.502163 CGATGAGGAAGATTGCCGGC 61.502 60.000 22.73 22.73 0.00 6.13
992 1184 6.442952 GTCTTACATGTCTTCATCTAGCGAT 58.557 40.000 0.00 0.00 31.15 4.58
997 1189 7.334844 ACATCGTCTTACATGTCTTCATCTA 57.665 36.000 0.00 0.00 31.15 1.98
1018 1210 2.793831 GCGGGGTGCAAATAGACAT 58.206 52.632 0.00 0.00 45.45 3.06
1041 1233 1.376424 ATGTGTGCCTTGAGCCTCG 60.376 57.895 0.00 0.00 42.71 4.63
1065 1257 3.248602 GCTTGCTGTAACCCAAGATATCG 59.751 47.826 4.70 0.00 40.59 2.92
1123 1315 1.075836 CCATGAAAACCCCGGACCA 59.924 57.895 0.73 0.00 0.00 4.02
1266 1463 1.152984 CAGTGCACTGGTCCACCAA 60.153 57.895 34.65 0.00 46.97 3.67
1318 1515 5.373812 AATATCACCGGACCTGAAAATCT 57.626 39.130 9.46 0.00 0.00 2.40
1566 1763 5.095145 TCAATCATCTCTCCTCCAACAAG 57.905 43.478 0.00 0.00 0.00 3.16
1613 1810 0.941542 CTTTCAAAACAGGCGACCGA 59.058 50.000 0.00 0.00 0.00 4.69
1729 1926 4.303282 GCTAGGCAAAGAGTCAGTATAGC 58.697 47.826 0.00 0.00 0.00 2.97
1757 1954 3.972950 AGTCGAACCATCTCAGTATCG 57.027 47.619 0.00 0.00 0.00 2.92
1772 1969 2.670229 CGCAGCCACTAGTAAAAGTCGA 60.670 50.000 0.00 0.00 0.00 4.20
1973 2200 4.007581 TGGGTCCTCTATGAAAGATGGA 57.992 45.455 0.00 0.00 32.41 3.41
2083 2318 7.383102 ACCACTCTTGAATTCATGTAACATC 57.617 36.000 17.97 0.00 0.00 3.06
2238 2494 6.214191 TCAATAAAGGTTGCACACAAGAAA 57.786 33.333 0.00 0.00 36.16 2.52
2491 4147 2.806945 TCTCTTACCCCTGCCAATTG 57.193 50.000 0.00 0.00 0.00 2.32
2767 4461 9.264719 GGAACATTTTCTTTTCAGTTGAATGAT 57.735 29.630 0.00 0.00 31.25 2.45
2768 4462 7.434897 CGGAACATTTTCTTTTCAGTTGAATGA 59.565 33.333 0.00 0.00 31.25 2.57
2854 4548 0.461548 GTGGGATGACGCAGATCAGA 59.538 55.000 0.00 0.00 39.53 3.27
2868 4562 3.099841 TGCACTTGTGGGGTGGGA 61.100 61.111 2.81 0.00 35.47 4.37
2884 4578 1.270550 GCCATCAACTTGGAACACCTG 59.729 52.381 0.00 0.00 39.29 4.00
2894 4588 1.278985 TGGACAGATCGCCATCAACTT 59.721 47.619 0.00 0.00 0.00 2.66
2904 4598 5.062683 CAGTTACACTCAAATGGACAGATCG 59.937 44.000 0.00 0.00 0.00 3.69
2906 4600 6.114187 TCAGTTACACTCAAATGGACAGAT 57.886 37.500 0.00 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.