Multiple sequence alignment - TraesCS2D01G053100

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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 TraesCS2D01G053100 chr2D 100.000 3539 0 0 1 3539 20660350 20663888 0.000000e+00 6536.0
1 TraesCS2D01G053100 chr2D 98.459 1103 9 2 899 1993 20778778 20779880 0.000000e+00 1936.0
2 TraesCS2D01G053100 chr2D 88.483 1068 78 18 1993 3035 20780259 20781306 0.000000e+00 1249.0
3 TraesCS2D01G053100 chr2D 85.135 370 34 4 209 568 20778235 20778593 3.360000e-95 359.0
4 TraesCS2D01G053100 chr2B 92.916 1581 69 10 1993 3539 33907797 33909368 0.000000e+00 2259.0
5 TraesCS2D01G053100 chr2B 90.915 1431 70 20 375 1789 33848747 33850133 0.000000e+00 1868.0
6 TraesCS2D01G053100 chr2B 89.343 1004 94 7 1993 2988 33876874 33877872 0.000000e+00 1249.0
7 TraesCS2D01G053100 chr2B 89.343 1004 94 7 1993 2988 33892600 33893598 0.000000e+00 1249.0
8 TraesCS2D01G053100 chr2B 91.026 702 57 4 1294 1993 33906715 33907412 0.000000e+00 942.0
9 TraesCS2D01G053100 chr2B 87.820 821 70 13 1986 2788 33850662 33851470 0.000000e+00 935.0
10 TraesCS2D01G053100 chr2B 86.724 821 74 16 1986 2788 33855448 33856251 0.000000e+00 880.0
11 TraesCS2D01G053100 chr2B 86.513 823 79 18 1986 2791 33860252 33861059 0.000000e+00 876.0
12 TraesCS2D01G053100 chr2B 90.237 379 34 3 1549 1926 33876390 33876766 3.170000e-135 492.0
13 TraesCS2D01G053100 chr2B 90.237 379 34 3 1549 1926 33892116 33892492 3.170000e-135 492.0
14 TraesCS2D01G053100 chr2B 89.974 379 35 3 1549 1926 33873275 33873651 1.480000e-133 486.0
15 TraesCS2D01G053100 chr2B 89.974 379 35 3 1549 1926 33885776 33886152 1.480000e-133 486.0
16 TraesCS2D01G053100 chr2B 92.195 205 12 1 2535 2739 33903151 33903351 1.610000e-73 287.0
17 TraesCS2D01G053100 chr2B 78.914 479 44 15 3083 3539 33877874 33878317 4.500000e-69 272.0
18 TraesCS2D01G053100 chr2B 78.288 479 45 16 3083 3539 33893600 33894041 1.630000e-63 254.0
19 TraesCS2D01G053100 chr2B 85.714 245 20 8 990 1220 33906432 33906675 9.810000e-61 244.0
20 TraesCS2D01G053100 chr2B 90.698 172 4 1 1822 1993 33850133 33850292 5.950000e-53 219.0
21 TraesCS2D01G053100 chr2B 97.115 104 3 0 209 312 33848619 33848722 3.630000e-40 176.0
22 TraesCS2D01G053100 chr2B 92.035 113 5 1 447 555 33871854 33871966 4.730000e-34 156.0
23 TraesCS2D01G053100 chr2B 90.991 111 6 1 447 553 33887470 33887580 2.850000e-31 147.0
24 TraesCS2D01G053100 chr2B 90.991 111 6 1 447 553 33890695 33890805 2.850000e-31 147.0
25 TraesCS2D01G053100 chr2B 90.090 111 7 1 447 553 33874969 33875079 1.320000e-29 141.0
26 TraesCS2D01G053100 chr2B 90.426 94 7 2 1441 1533 33873192 33873284 4.800000e-24 122.0
27 TraesCS2D01G053100 chr2B 90.426 94 7 2 1441 1533 33876307 33876399 4.800000e-24 122.0
28 TraesCS2D01G053100 chr2B 90.426 94 7 2 1441 1533 33885693 33885785 4.800000e-24 122.0
29 TraesCS2D01G053100 chr2B 90.426 94 7 2 1441 1533 33888807 33888899 4.800000e-24 122.0
30 TraesCS2D01G053100 chr2B 90.426 94 7 2 1441 1533 33892033 33892125 4.800000e-24 122.0
31 TraesCS2D01G053100 chr2B 85.526 76 11 0 571 646 33875173 33875248 2.930000e-11 80.5
32 TraesCS2D01G053100 chr2B 85.526 76 11 0 571 646 33887673 33887748 2.930000e-11 80.5
33 TraesCS2D01G053100 chr2B 85.526 76 11 0 571 646 33890899 33890974 2.930000e-11 80.5
34 TraesCS2D01G053100 chr2A 91.773 1568 84 13 1993 3539 21263843 21265386 0.000000e+00 2139.0
35 TraesCS2D01G053100 chr2A 94.915 590 19 3 899 1477 21262389 21262978 0.000000e+00 913.0
36 TraesCS2D01G053100 chr2A 97.541 488 10 1 1508 1993 21262976 21263463 0.000000e+00 833.0
37 TraesCS2D01G053100 chr2A 88.133 691 54 9 209 894 21261265 21261932 0.000000e+00 797.0
38 TraesCS2D01G053100 chrUn 89.931 437 40 3 2051 2487 476104113 476103681 8.580000e-156 560.0
39 TraesCS2D01G053100 chr4D 92.045 88 5 2 3033 3119 366323103 366323017 4.800000e-24 122.0
40 TraesCS2D01G053100 chr7A 83.019 106 6 4 3021 3117 717038980 717039082 6.290000e-13 86.1
41 TraesCS2D01G053100 chr6B 100.000 38 0 0 507 544 157016796 157016759 1.760000e-08 71.3
42 TraesCS2D01G053100 chr6B 100.000 38 0 0 507 544 380978662 380978625 1.760000e-08 71.3
43 TraesCS2D01G053100 chr6B 100.000 38 0 0 507 544 399170078 399170041 1.760000e-08 71.3
44 TraesCS2D01G053100 chr5A 84.722 72 9 2 3047 3116 448620316 448620245 1.760000e-08 71.3
45 TraesCS2D01G053100 chr5D 100.000 30 0 0 3043 3072 422035055 422035026 4.940000e-04 56.5


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 TraesCS2D01G053100 chr2D 20660350 20663888 3538 False 6536.000000 6536 100.000000 1 3539 1 chr2D.!!$F1 3538
1 TraesCS2D01G053100 chr2D 20778235 20781306 3071 False 1181.333333 1936 90.692333 209 3035 3 chr2D.!!$F2 2826
2 TraesCS2D01G053100 chr2B 33903151 33909368 6217 False 933.000000 2259 90.462750 990 3539 4 chr2B.!!$F5 2549
3 TraesCS2D01G053100 chr2B 33860252 33861059 807 False 876.000000 876 86.513000 1986 2791 1 chr2B.!!$F1 805
4 TraesCS2D01G053100 chr2B 33848619 33856251 7632 False 815.600000 1868 90.654400 209 2788 5 chr2B.!!$F2 2579
5 TraesCS2D01G053100 chr2B 33871854 33878317 6463 False 346.722222 1249 88.552333 447 3539 9 chr2B.!!$F3 3092
6 TraesCS2D01G053100 chr2B 33885693 33894041 8348 False 300.181818 1249 88.377636 447 3539 11 chr2B.!!$F4 3092
7 TraesCS2D01G053100 chr2A 21261265 21265386 4121 False 1170.500000 2139 93.090500 209 3539 4 chr2A.!!$F1 3330

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
450 468 1.129437 GAGCTGAAACGCATTGGAGTC 59.871 52.381 0.0 0.0 0.0 3.36 F
1135 3463 5.815233 TTCAGTCAATATCCTCCCATCTC 57.185 43.478 0.0 0.0 0.0 2.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1647 7276 1.004610 CATCGAATGGCAGTGTAAGCG 60.005 52.381 0.0 0.0 0.00 4.68 R
2626 11799 0.543883 TTGCCCTGCAATAGCCCAAA 60.544 50.000 0.0 0.0 43.99 3.28 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
23 24 6.642683 ACTGTACTAACATAATTCGTGCAC 57.357 37.500 6.82 6.82 34.37 4.57
24 25 6.395629 ACTGTACTAACATAATTCGTGCACT 58.604 36.000 16.19 0.00 34.37 4.40
25 26 7.541162 ACTGTACTAACATAATTCGTGCACTA 58.459 34.615 16.19 0.00 34.37 2.74
28 29 9.205719 TGTACTAACATAATTCGTGCACTAAAA 57.794 29.630 16.19 6.95 0.00 1.52
30 31 8.944212 ACTAACATAATTCGTGCACTAAAAAC 57.056 30.769 16.19 0.00 0.00 2.43
35 36 9.554724 ACATAATTCGTGCACTAAAAACTAATG 57.445 29.630 16.19 10.86 0.00 1.90
40 41 8.722342 TTCGTGCACTAAAAACTAATGAATTC 57.278 30.769 16.19 0.00 0.00 2.17
42 43 7.012943 CGTGCACTAAAAACTAATGAATTCGA 58.987 34.615 16.19 0.00 0.00 3.71
43 44 7.532546 CGTGCACTAAAAACTAATGAATTCGAA 59.467 33.333 16.19 0.00 0.00 3.71
44 45 8.627428 GTGCACTAAAAACTAATGAATTCGAAC 58.373 33.333 10.32 0.00 0.00 3.95
45 46 8.346300 TGCACTAAAAACTAATGAATTCGAACA 58.654 29.630 0.00 0.00 0.00 3.18
46 47 9.176181 GCACTAAAAACTAATGAATTCGAACAA 57.824 29.630 0.00 0.00 0.00 2.83
48 49 9.673454 ACTAAAAACTAATGAATTCGAACAACC 57.327 29.630 0.00 0.00 0.00 3.77
50 51 8.574196 AAAAACTAATGAATTCGAACAACCAG 57.426 30.769 0.00 0.00 0.00 4.00
51 52 5.880054 ACTAATGAATTCGAACAACCAGG 57.120 39.130 0.00 0.00 0.00 4.45
52 53 5.556915 ACTAATGAATTCGAACAACCAGGA 58.443 37.500 0.00 0.00 0.00 3.86
57 58 4.642885 TGAATTCGAACAACCAGGAAGTTT 59.357 37.500 0.00 0.00 0.00 2.66
59 60 4.364415 TTCGAACAACCAGGAAGTTTTG 57.636 40.909 0.00 0.00 0.00 2.44
61 62 4.011023 TCGAACAACCAGGAAGTTTTGAA 58.989 39.130 0.00 0.00 0.00 2.69
63 64 5.047943 TCGAACAACCAGGAAGTTTTGAAAA 60.048 36.000 0.00 0.00 0.00 2.29
66 67 6.109156 ACAACCAGGAAGTTTTGAAAAAGT 57.891 33.333 0.00 0.00 33.16 2.66
181 182 9.877137 AAAACTCACAAATTTGAAAAAGTTCAC 57.123 25.926 24.64 0.00 43.52 3.18
183 184 8.600449 ACTCACAAATTTGAAAAAGTTCACAA 57.400 26.923 24.64 0.00 43.52 3.33
185 186 9.875675 CTCACAAATTTGAAAAAGTTCACAAAA 57.124 25.926 24.64 0.00 43.52 2.44
199 200 8.926715 AAGTTCACAAAATTTGAAAGTAGTCC 57.073 30.769 13.19 0.00 34.78 3.85
201 202 8.406297 AGTTCACAAAATTTGAAAGTAGTCCTC 58.594 33.333 13.19 0.00 34.78 3.71
202 203 7.272037 TCACAAAATTTGAAAGTAGTCCTCC 57.728 36.000 13.19 0.00 0.00 4.30
206 207 1.272807 TTGAAAGTAGTCCTCCCCCG 58.727 55.000 0.00 0.00 0.00 5.73
209 210 3.997756 AAGTAGTCCTCCCCCGCCC 62.998 68.421 0.00 0.00 0.00 6.13
282 283 1.134280 CGGGTCATCTCTTCTTGCCAT 60.134 52.381 0.00 0.00 0.00 4.40
291 292 3.084039 CTCTTCTTGCCATGGTAAGCAA 58.916 45.455 31.39 24.20 46.26 3.91
317 318 2.421424 AGCTTGCTTCGATGGATTGTTC 59.579 45.455 0.00 0.00 0.00 3.18
350 351 2.253603 GCGGACAATTGCAGATTGTTC 58.746 47.619 20.64 18.67 41.76 3.18
351 352 2.351641 GCGGACAATTGCAGATTGTTCA 60.352 45.455 22.14 0.00 41.76 3.18
432 437 6.645415 ACTGTCTACAAAAATTAGTGGTCGAG 59.355 38.462 0.00 0.00 0.00 4.04
438 443 5.298276 ACAAAAATTAGTGGTCGAGCTGAAA 59.702 36.000 16.64 7.30 0.00 2.69
450 468 1.129437 GAGCTGAAACGCATTGGAGTC 59.871 52.381 0.00 0.00 0.00 3.36
578 1916 6.761099 ACTGTGACTGGTAGATAGTACTTG 57.239 41.667 0.00 0.00 0.00 3.16
586 1924 7.942990 ACTGGTAGATAGTACTTGCTGTATTC 58.057 38.462 0.00 0.00 33.23 1.75
650 1989 9.612066 AACTCAGAATAAAAGAATCCAGAGATC 57.388 33.333 0.00 0.00 0.00 2.75
1135 3463 5.815233 TTCAGTCAATATCCTCCCATCTC 57.185 43.478 0.00 0.00 0.00 2.75
1995 11138 6.402226 GGTTCTTTCGAGGTACAAATGCTAAG 60.402 42.308 0.00 0.00 0.00 2.18
2231 11385 5.047943 CCCACATTTCCGTAACCACAATTTA 60.048 40.000 0.00 0.00 0.00 1.40
2597 11762 7.503566 TCTTCCTTGTCATTTTCTCTTGTTCAT 59.496 33.333 0.00 0.00 0.00 2.57
2598 11763 7.206981 TCCTTGTCATTTTCTCTTGTTCATC 57.793 36.000 0.00 0.00 0.00 2.92
2599 11764 6.207417 TCCTTGTCATTTTCTCTTGTTCATCC 59.793 38.462 0.00 0.00 0.00 3.51
2600 11765 6.208204 CCTTGTCATTTTCTCTTGTTCATCCT 59.792 38.462 0.00 0.00 0.00 3.24
2601 11766 6.564709 TGTCATTTTCTCTTGTTCATCCTG 57.435 37.500 0.00 0.00 0.00 3.86
2602 11767 6.064060 TGTCATTTTCTCTTGTTCATCCTGT 58.936 36.000 0.00 0.00 0.00 4.00
2603 11768 6.547141 TGTCATTTTCTCTTGTTCATCCTGTT 59.453 34.615 0.00 0.00 0.00 3.16
2604 11769 7.080724 GTCATTTTCTCTTGTTCATCCTGTTC 58.919 38.462 0.00 0.00 0.00 3.18
2605 11770 6.772233 TCATTTTCTCTTGTTCATCCTGTTCA 59.228 34.615 0.00 0.00 0.00 3.18
2606 11771 6.624352 TTTTCTCTTGTTCATCCTGTTCAG 57.376 37.500 0.00 0.00 0.00 3.02
2626 11799 7.665559 TGTTCAGCTGAATAAAATGTTAGGAGT 59.334 33.333 30.65 0.00 36.33 3.85
2681 11864 3.077484 AGCATACAGTTTGAGCATGGT 57.923 42.857 0.00 0.00 0.00 3.55
2988 12271 8.947115 GTGCACTACCTAGATTAATTTTGAAGT 58.053 33.333 10.32 0.00 0.00 3.01
3007 12381 9.886132 TTTGAAGTCTAAATAGTAGGGATTGAC 57.114 33.333 0.00 0.00 0.00 3.18
3014 12388 6.652205 AAATAGTAGGGATTGACAGGGAAA 57.348 37.500 0.00 0.00 0.00 3.13
3016 12390 3.256704 AGTAGGGATTGACAGGGAAACA 58.743 45.455 0.00 0.00 0.00 2.83
3017 12391 3.852578 AGTAGGGATTGACAGGGAAACAT 59.147 43.478 0.00 0.00 0.00 2.71
3057 12431 9.440761 ACACCCTCTGTTCTCTAAATATAAGAT 57.559 33.333 0.00 0.00 0.00 2.40
3058 12432 9.703892 CACCCTCTGTTCTCTAAATATAAGATG 57.296 37.037 0.00 0.00 0.00 2.90
3096 12470 7.901002 AGTTTAAACTGCCAAAACGTTTTATG 58.099 30.769 24.79 19.08 37.98 1.90
3121 12495 8.166061 TGTTTAGAAACAGAGGTAGTACCTAGA 58.834 37.037 22.12 0.00 45.47 2.43
3122 12496 9.018582 GTTTAGAAACAGAGGTAGTACCTAGAA 57.981 37.037 22.12 5.29 42.77 2.10
3140 12520 6.096282 ACCTAGAACTAGAAGAGAGAACATGC 59.904 42.308 10.04 0.00 35.21 4.06
3174 12554 4.433283 GCGTATGCTTCATTTGTTTTGCTG 60.433 41.667 0.00 0.00 38.39 4.41
3175 12555 4.681025 CGTATGCTTCATTTGTTTTGCTGT 59.319 37.500 0.00 0.00 0.00 4.40
3176 12556 5.175491 CGTATGCTTCATTTGTTTTGCTGTT 59.825 36.000 0.00 0.00 0.00 3.16
3177 12557 6.292274 CGTATGCTTCATTTGTTTTGCTGTTT 60.292 34.615 0.00 0.00 0.00 2.83
3387 12794 8.859090 CCCCAATATGTATTTCTTTTATCTGCA 58.141 33.333 0.00 0.00 0.00 4.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 8.780249 AGTTTTTAGTGCACGAATTATGTTAGT 58.220 29.630 13.36 0.00 0.00 2.24
10 11 9.767684 TCATTAGTTTTTAGTGCACGAATTATG 57.232 29.630 13.36 8.12 0.00 1.90
14 15 9.341899 GAATTCATTAGTTTTTAGTGCACGAAT 57.658 29.630 13.36 7.64 0.00 3.34
18 19 8.627428 GTTCGAATTCATTAGTTTTTAGTGCAC 58.373 33.333 9.40 9.40 0.00 4.57
22 23 9.673454 GGTTGTTCGAATTCATTAGTTTTTAGT 57.327 29.630 0.00 0.00 0.00 2.24
23 24 9.672086 TGGTTGTTCGAATTCATTAGTTTTTAG 57.328 29.630 0.00 0.00 0.00 1.85
24 25 9.672086 CTGGTTGTTCGAATTCATTAGTTTTTA 57.328 29.630 0.00 0.00 0.00 1.52
25 26 7.651704 CCTGGTTGTTCGAATTCATTAGTTTTT 59.348 33.333 0.00 0.00 0.00 1.94
28 29 6.001460 TCCTGGTTGTTCGAATTCATTAGTT 58.999 36.000 0.00 0.00 0.00 2.24
30 31 6.149474 ACTTCCTGGTTGTTCGAATTCATTAG 59.851 38.462 0.00 0.00 0.00 1.73
34 35 3.815809 ACTTCCTGGTTGTTCGAATTCA 58.184 40.909 0.00 0.00 0.00 2.57
35 36 4.830826 AACTTCCTGGTTGTTCGAATTC 57.169 40.909 0.00 0.00 0.00 2.17
40 41 4.364415 TTCAAAACTTCCTGGTTGTTCG 57.636 40.909 7.32 3.84 0.00 3.95
42 43 6.530120 ACTTTTTCAAAACTTCCTGGTTGTT 58.470 32.000 0.00 0.00 0.00 2.83
43 44 6.109156 ACTTTTTCAAAACTTCCTGGTTGT 57.891 33.333 0.00 0.00 0.00 3.32
44 45 6.648725 TGAACTTTTTCAAAACTTCCTGGTTG 59.351 34.615 0.00 0.00 38.87 3.77
45 46 6.764379 TGAACTTTTTCAAAACTTCCTGGTT 58.236 32.000 0.00 0.00 38.87 3.67
46 47 6.353404 TGAACTTTTTCAAAACTTCCTGGT 57.647 33.333 0.00 0.00 38.87 4.00
156 157 9.050601 TGTGAACTTTTTCAAATTTGTGAGTTT 57.949 25.926 17.47 5.88 43.52 2.66
159 160 9.875675 TTTTGTGAACTTTTTCAAATTTGTGAG 57.124 25.926 17.47 12.73 43.52 3.51
173 174 9.366216 GGACTACTTTCAAATTTTGTGAACTTT 57.634 29.630 8.89 0.00 34.78 2.66
176 177 7.648112 GGAGGACTACTTTCAAATTTTGTGAAC 59.352 37.037 8.89 0.00 34.78 3.18
178 179 6.264518 GGGAGGACTACTTTCAAATTTTGTGA 59.735 38.462 8.89 0.00 0.00 3.58
179 180 6.447162 GGGAGGACTACTTTCAAATTTTGTG 58.553 40.000 8.89 4.14 0.00 3.33
181 182 5.047306 GGGGGAGGACTACTTTCAAATTTTG 60.047 44.000 2.59 2.59 0.00 2.44
183 184 4.673968 GGGGGAGGACTACTTTCAAATTT 58.326 43.478 0.00 0.00 0.00 1.82
185 186 2.238898 CGGGGGAGGACTACTTTCAAAT 59.761 50.000 0.00 0.00 0.00 2.32
187 188 1.272807 CGGGGGAGGACTACTTTCAA 58.727 55.000 0.00 0.00 0.00 2.69
189 190 1.521141 GCGGGGGAGGACTACTTTC 59.479 63.158 0.00 0.00 0.00 2.62
190 191 1.993948 GGCGGGGGAGGACTACTTT 60.994 63.158 0.00 0.00 0.00 2.66
192 193 4.477119 GGGCGGGGGAGGACTACT 62.477 72.222 0.00 0.00 0.00 2.57
193 194 4.791069 TGGGCGGGGGAGGACTAC 62.791 72.222 0.00 0.00 0.00 2.73
206 207 2.811542 GAAGGTGGAGTGAGCTGGGC 62.812 65.000 0.00 0.00 0.00 5.36
209 210 0.108898 CTCGAAGGTGGAGTGAGCTG 60.109 60.000 0.00 0.00 0.00 4.24
291 292 2.103373 TCCATCGAAGCAAGCTAGAGT 58.897 47.619 0.00 0.00 0.00 3.24
317 318 3.431922 TTGTCCGCGTAGAATAAGAGG 57.568 47.619 4.92 0.00 40.99 3.69
350 351 1.447838 AGGTCCTACGCACGCATTG 60.448 57.895 0.00 0.00 0.00 2.82
351 352 1.447838 CAGGTCCTACGCACGCATT 60.448 57.895 0.00 0.00 0.00 3.56
405 410 8.143193 TCGACCACTAATTTTTGTAGACAGTAA 58.857 33.333 0.00 0.00 0.00 2.24
432 437 0.169009 GGACTCCAATGCGTTTCAGC 59.831 55.000 0.00 0.00 37.71 4.26
438 443 4.778143 GGGCGGACTCCAATGCGT 62.778 66.667 0.00 0.00 35.60 5.24
450 468 2.271173 GTCCTTAACAGGGGGCGG 59.729 66.667 0.00 0.00 41.25 6.13
578 1916 3.567478 ACCCTGATTCCAGAATACAGC 57.433 47.619 11.31 0.00 43.02 4.40
616 1954 9.495754 GATTCTTTTATTCTGAGTTTTCCATCG 57.504 33.333 0.00 0.00 0.00 3.84
650 1989 6.819649 ACAATTTGGATGGTCATTTGCTATTG 59.180 34.615 0.78 0.00 0.00 1.90
707 2046 8.617290 ATTTCGGGTTTAAGATGACATATACC 57.383 34.615 0.00 0.00 0.00 2.73
721 2060 4.310769 CACAAATGGCAATTTCGGGTTTA 58.689 39.130 0.00 0.00 33.59 2.01
1647 7276 1.004610 CATCGAATGGCAGTGTAAGCG 60.005 52.381 0.00 0.00 0.00 4.68
1995 11138 7.141363 AGCTGTTGTTTTGATCATAGACAAAC 58.859 34.615 16.04 13.84 36.06 2.93
2241 11395 8.336806 TCAGTAATACGGTTAAAAGTTGTGTTG 58.663 33.333 0.00 0.00 0.00 3.33
2413 11569 9.906660 CTGTAAGAAAAATATGGTGCTTTTGTA 57.093 29.630 0.00 0.00 34.07 2.41
2597 11762 6.899393 AACATTTTATTCAGCTGAACAGGA 57.101 33.333 30.66 17.29 36.80 3.86
2598 11763 7.121168 TCCTAACATTTTATTCAGCTGAACAGG 59.879 37.037 30.66 21.39 36.80 4.00
2599 11764 8.044060 TCCTAACATTTTATTCAGCTGAACAG 57.956 34.615 30.66 17.80 36.80 3.16
2600 11765 7.665559 ACTCCTAACATTTTATTCAGCTGAACA 59.334 33.333 30.66 18.28 36.80 3.18
2601 11766 8.045176 ACTCCTAACATTTTATTCAGCTGAAC 57.955 34.615 30.66 0.00 36.80 3.18
2602 11767 8.635765 AACTCCTAACATTTTATTCAGCTGAA 57.364 30.769 30.23 30.23 38.56 3.02
2603 11768 8.514594 CAAACTCCTAACATTTTATTCAGCTGA 58.485 33.333 13.74 13.74 0.00 4.26
2604 11769 7.756722 CCAAACTCCTAACATTTTATTCAGCTG 59.243 37.037 7.63 7.63 0.00 4.24
2605 11770 7.093771 CCCAAACTCCTAACATTTTATTCAGCT 60.094 37.037 0.00 0.00 0.00 4.24
2606 11771 7.035612 CCCAAACTCCTAACATTTTATTCAGC 58.964 38.462 0.00 0.00 0.00 4.26
2626 11799 0.543883 TTGCCCTGCAATAGCCCAAA 60.544 50.000 0.00 0.00 43.99 3.28
2681 11864 6.045813 TCCCATGATCATCCAAGGATTTGATA 59.954 38.462 4.86 0.00 36.36 2.15
2841 12108 1.523758 AGGGATCGTGTGAAAGTTGC 58.476 50.000 0.00 0.00 0.00 4.17
2988 12271 6.689561 TCCCTGTCAATCCCTACTATTTAGA 58.310 40.000 0.00 0.00 0.00 2.10
2996 12370 3.713826 TGTTTCCCTGTCAATCCCTAC 57.286 47.619 0.00 0.00 0.00 3.18
3057 12431 6.031751 AGTTTAAACTGAACTGCCAAAACA 57.968 33.333 19.94 0.00 37.98 2.83
3072 12446 7.677309 ACATAAAACGTTTTGGCAGTTTAAAC 58.323 30.769 31.26 10.47 37.13 2.01
3121 12495 3.056536 TGCGCATGTTCTCTCTTCTAGTT 60.057 43.478 5.66 0.00 0.00 2.24
3122 12496 2.493675 TGCGCATGTTCTCTCTTCTAGT 59.506 45.455 5.66 0.00 0.00 2.57
3123 12497 3.156511 TGCGCATGTTCTCTCTTCTAG 57.843 47.619 5.66 0.00 0.00 2.43
3124 12498 3.056536 AGTTGCGCATGTTCTCTCTTCTA 60.057 43.478 12.75 0.00 0.00 2.10
3125 12499 2.072298 GTTGCGCATGTTCTCTCTTCT 58.928 47.619 12.75 0.00 0.00 2.85
3126 12500 2.072298 AGTTGCGCATGTTCTCTCTTC 58.928 47.619 12.75 0.00 0.00 2.87
3337 12744 7.118390 GGGACAATATCAGATAAAATCCACTCG 59.882 40.741 14.70 0.00 0.00 4.18
3387 12794 8.206867 TGATCTATACTTGCTGCTCTAATTTGT 58.793 33.333 0.00 0.00 0.00 2.83
3461 12948 8.641498 AGTTCTACAAGAATGTTCCATGAAAT 57.359 30.769 0.00 0.00 41.05 2.17
3492 12979 9.906111 GAGAAAGTTAAATGCTTTTGTTCAAAG 57.094 29.630 7.78 0.00 44.44 2.77


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

AutoCloner maintained by Alex Coulton.