Multiple sequence alignment - TraesCS2D01G057400

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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 TraesCS2D01G057400 chr2D 100.000 4643 0 0 1 4643 22839295 22843937 0.000000e+00 8575.0
1 TraesCS2D01G057400 chr2A 94.311 2074 78 18 2587 4643 24431706 24433756 0.000000e+00 3140.0
2 TraesCS2D01G057400 chr2A 96.407 1336 48 0 1257 2592 24430282 24431617 0.000000e+00 2202.0
3 TraesCS2D01G057400 chr2A 92.427 581 27 6 187 764 24429084 24429650 0.000000e+00 813.0
4 TraesCS2D01G057400 chr2A 94.805 462 19 2 798 1259 24429649 24430105 0.000000e+00 715.0
5 TraesCS2D01G057400 chr2A 92.105 76 5 1 1 76 24423895 24423969 6.350000e-19 106.0
6 TraesCS2D01G057400 chr6D 91.289 1653 107 20 2585 4223 5575581 5577210 0.000000e+00 2220.0
7 TraesCS2D01G057400 chrUn 93.609 1330 83 2 1264 2592 62613843 62615171 0.000000e+00 1984.0
8 TraesCS2D01G057400 chrUn 93.534 1330 84 2 1264 2592 62497944 62499272 0.000000e+00 1978.0
9 TraesCS2D01G057400 chrUn 93.308 1330 87 2 1264 2592 62429563 62430891 0.000000e+00 1962.0
10 TraesCS2D01G057400 chrUn 93.233 1330 88 2 1264 2592 62557904 62559232 0.000000e+00 1956.0
11 TraesCS2D01G057400 chrUn 92.857 1330 93 2 1264 2592 62362489 62363817 0.000000e+00 1929.0
12 TraesCS2D01G057400 chrUn 88.098 857 71 14 3084 3936 62560040 62560869 0.000000e+00 989.0
13 TraesCS2D01G057400 chrUn 87.865 857 74 13 3084 3936 62500080 62500910 0.000000e+00 979.0
14 TraesCS2D01G057400 chrUn 87.865 857 74 13 3084 3936 62615980 62616810 0.000000e+00 979.0
15 TraesCS2D01G057400 chrUn 87.748 857 74 14 3084 3936 62364625 62365454 0.000000e+00 972.0
16 TraesCS2D01G057400 chrUn 87.646 858 74 16 3084 3936 62314546 62315376 0.000000e+00 968.0
17 TraesCS2D01G057400 chrUn 88.269 520 51 5 227 745 62612763 62613273 8.540000e-172 614.0
18 TraesCS2D01G057400 chrUn 88.077 520 52 5 227 745 62556824 62557334 3.970000e-170 608.0
19 TraesCS2D01G057400 chrUn 87.885 520 53 5 227 745 62361409 62361919 1.850000e-168 603.0
20 TraesCS2D01G057400 chrUn 87.308 520 56 5 227 745 62428469 62428979 1.860000e-163 586.0
21 TraesCS2D01G057400 chrUn 87.140 521 56 7 227 745 62496863 62497374 8.660000e-162 580.0
22 TraesCS2D01G057400 chrUn 90.452 398 22 8 2586 2983 62364246 62364627 1.150000e-140 510.0
23 TraesCS2D01G057400 chrUn 90.452 398 22 8 2586 2983 62431320 62431701 1.150000e-140 510.0
24 TraesCS2D01G057400 chrUn 90.452 398 22 8 2586 2983 62559661 62560042 1.150000e-140 510.0
25 TraesCS2D01G057400 chrUn 90.476 399 21 9 2586 2983 62615600 62615982 1.150000e-140 510.0
26 TraesCS2D01G057400 chrUn 89.975 399 23 9 2586 2983 62314166 62314548 2.490000e-137 499.0
27 TraesCS2D01G057400 chrUn 89.724 399 23 9 2586 2983 62499701 62500082 1.160000e-135 494.0
28 TraesCS2D01G057400 chrUn 90.855 339 31 0 3935 4273 62432469 62432807 5.480000e-124 455.0
29 TraesCS2D01G057400 chrUn 90.855 339 31 0 3935 4273 62616891 62617229 5.480000e-124 455.0
30 TraesCS2D01G057400 chrUn 90.560 339 32 0 3935 4273 62560950 62561288 2.550000e-122 449.0
31 TraesCS2D01G057400 chrUn 90.265 339 33 0 3935 4273 62315457 62315795 1.190000e-120 444.0
32 TraesCS2D01G057400 chrUn 90.909 275 21 1 762 1032 62311826 62312100 2.640000e-97 366.0
33 TraesCS2D01G057400 chrUn 90.909 275 21 1 762 1032 62428965 62429239 2.640000e-97 366.0
34 TraesCS2D01G057400 chrUn 90.909 275 21 1 762 1032 62557320 62557594 2.640000e-97 366.0
35 TraesCS2D01G057400 chrUn 90.545 275 22 1 762 1032 62361905 62362179 1.230000e-95 361.0
36 TraesCS2D01G057400 chrUn 90.545 275 22 1 762 1032 62613259 62613533 1.230000e-95 361.0
37 TraesCS2D01G057400 chrUn 89.818 275 24 1 762 1032 62497360 62497634 2.660000e-92 350.0
38 TraesCS2D01G057400 chrUn 96.154 52 2 0 1160 1211 62312183 62312234 8.280000e-13 86.1
39 TraesCS2D01G057400 chrUn 96.154 52 2 0 1160 1211 62362262 62362313 8.280000e-13 86.1
40 TraesCS2D01G057400 chrUn 96.154 52 2 0 1160 1211 62613616 62613667 8.280000e-13 86.1
41 TraesCS2D01G057400 chrUn 100.000 45 0 0 1059 1103 62497634 62497678 2.980000e-12 84.2
42 TraesCS2D01G057400 chrUn 100.000 45 0 0 1059 1103 62557594 62557638 2.980000e-12 84.2
43 TraesCS2D01G057400 chr6A 93.534 1330 84 2 1264 2592 4270085 4268757 0.000000e+00 1978.0
44 TraesCS2D01G057400 chr6A 93.308 1330 87 2 1264 2592 4390102 4388774 0.000000e+00 1962.0
45 TraesCS2D01G057400 chr6A 92.992 1327 89 4 1268 2592 4335647 4334323 0.000000e+00 1932.0
46 TraesCS2D01G057400 chr6A 87.995 858 72 21 3084 3936 4387965 4387134 0.000000e+00 985.0
47 TraesCS2D01G057400 chr6A 87.879 858 73 14 3084 3936 4333513 4332682 0.000000e+00 979.0
48 TraesCS2D01G057400 chr6A 87.748 857 74 12 3084 3936 4267949 4267120 0.000000e+00 972.0
49 TraesCS2D01G057400 chr6A 82.750 800 84 23 227 1021 4336722 4335972 0.000000e+00 664.0
50 TraesCS2D01G057400 chr6A 87.692 520 54 5 227 745 4391182 4390672 8.600000e-167 597.0
51 TraesCS2D01G057400 chr6A 87.500 520 55 5 227 745 4271165 4270655 4.000000e-165 592.0
52 TraesCS2D01G057400 chr6A 90.201 398 23 8 2586 2983 4268328 4267947 5.360000e-139 505.0
53 TraesCS2D01G057400 chr6A 90.560 339 32 0 3935 4273 4332601 4332263 2.550000e-122 449.0
54 TraesCS2D01G057400 chr6A 90.173 346 33 1 3935 4279 4387053 4386708 2.550000e-122 449.0
55 TraesCS2D01G057400 chr6A 90.182 275 23 1 762 1032 4390686 4390412 5.710000e-94 355.0
56 TraesCS2D01G057400 chr6A 89.773 264 23 1 762 1021 4270669 4270406 7.440000e-88 335.0
57 TraesCS2D01G057400 chr2B 93.526 1282 70 9 2917 4188 37581339 37580061 0.000000e+00 1895.0
58 TraesCS2D01G057400 chr2B 91.987 1248 74 11 1 1245 37641624 37640400 0.000000e+00 1727.0
59 TraesCS2D01G057400 chr2B 94.550 367 19 1 4277 4642 37741971 37741605 2.420000e-157 566.0
60 TraesCS2D01G057400 chr2B 94.278 367 20 1 4277 4642 37576885 37576519 1.130000e-155 560.0
61 TraesCS2D01G057400 chr2B 94.022 368 21 1 4277 4643 38401160 38400793 1.460000e-154 556.0
62 TraesCS2D01G057400 chr2B 93.671 316 18 2 4277 4590 38460801 38460486 5.440000e-129 472.0
63 TraesCS2D01G057400 chr2B 94.218 294 14 2 2586 2876 37638844 37638551 3.300000e-121 446.0


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 TraesCS2D01G057400 chr2D 22839295 22843937 4642 False 8575.000000 8575 100.000000 1 4643 1 chr2D.!!$F1 4642
1 TraesCS2D01G057400 chr2A 24429084 24433756 4672 False 1717.500000 3140 94.487500 187 4643 4 chr2A.!!$F2 4456
2 TraesCS2D01G057400 chr6D 5575581 5577210 1629 False 2220.000000 2220 91.289000 2585 4223 1 chr6D.!!$F1 1638
3 TraesCS2D01G057400 chrUn 62428469 62432807 4338 False 775.800000 1962 90.566400 227 4273 5 chrUn.!!$F3 4046
4 TraesCS2D01G057400 chrUn 62496863 62500910 4047 False 744.200000 1978 91.346833 227 3936 6 chrUn.!!$F4 3709
5 TraesCS2D01G057400 chrUn 62361409 62365454 4045 False 743.516667 1929 90.940167 227 3936 6 chrUn.!!$F2 3709
6 TraesCS2D01G057400 chrUn 62612763 62617229 4466 False 712.728571 1984 91.110429 227 4273 7 chrUn.!!$F6 4046
7 TraesCS2D01G057400 chrUn 62556824 62561288 4464 False 708.885714 1956 91.618429 227 4273 7 chrUn.!!$F5 4046
8 TraesCS2D01G057400 chrUn 62311826 62315795 3969 False 472.620000 968 90.989800 762 4273 5 chrUn.!!$F1 3511
9 TraesCS2D01G057400 chr6A 4332263 4336722 4459 True 1006.000000 1932 88.545250 227 4273 4 chr6A.!!$R2 4046
10 TraesCS2D01G057400 chr6A 4267120 4271165 4045 True 876.400000 1978 89.751200 227 3936 5 chr6A.!!$R1 3709
11 TraesCS2D01G057400 chr6A 4386708 4391182 4474 True 869.600000 1962 89.870000 227 4279 5 chr6A.!!$R3 4052
12 TraesCS2D01G057400 chr2B 37576519 37581339 4820 True 1227.500000 1895 93.902000 2917 4642 2 chr2B.!!$R4 1725
13 TraesCS2D01G057400 chr2B 37638551 37641624 3073 True 1086.500000 1727 93.102500 1 2876 2 chr2B.!!$R5 2875

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
147 148 1.202336 GCTCTGCCAATGGTGTATTGC 60.202 52.381 0.0 0.0 43.90 3.56 F
884 894 1.811679 GCGAGGAGAAAGAAGGCGG 60.812 63.158 0.0 0.0 0.00 6.13 F
2229 2447 0.032952 TAGAGACACCACGTTGGCAC 59.967 55.000 0.0 0.0 42.67 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1115 1140 0.880278 TGCTCCGCACTCAACAAGTC 60.880 55.0 0.0 0.0 35.45 3.01 R
2402 2620 1.106944 CCCCCACATGGTTTATCCGC 61.107 60.0 0.0 0.0 39.52 5.54 R
3857 4533 1.741327 TACGAGGCGGGATAGCAACC 61.741 60.0 0.0 0.0 39.27 3.77 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
33 34 1.542108 GCCTGGAGCAAGGTATAGCTG 60.542 57.143 4.96 1.45 42.04 4.24
72 73 3.582998 CCCCCTGAGATTGAAATAGCA 57.417 47.619 0.00 0.00 0.00 3.49
73 74 3.217626 CCCCCTGAGATTGAAATAGCAC 58.782 50.000 0.00 0.00 0.00 4.40
113 114 2.608988 CCTGCACCCTGTCTCCCT 60.609 66.667 0.00 0.00 0.00 4.20
117 118 1.298014 GCACCCTGTCTCCCTTGAG 59.702 63.158 0.00 0.00 40.17 3.02
139 140 6.263842 TGAGATTTATTTAGCTCTGCCAATGG 59.736 38.462 0.00 0.00 0.00 3.16
147 148 1.202336 GCTCTGCCAATGGTGTATTGC 60.202 52.381 0.00 0.00 43.90 3.56
364 370 3.411517 CACCTCCTTCCCCGGCAT 61.412 66.667 0.00 0.00 0.00 4.40
407 413 7.663081 TGATTATCTCATTTGACCTTAGATGGC 59.337 37.037 0.00 0.00 0.00 4.40
444 450 8.828688 AGTGTAGGAATACAAACTACAAACTC 57.171 34.615 5.45 0.00 45.90 3.01
453 460 8.876275 ATACAAACTACAAACTCAACTACGAA 57.124 30.769 0.00 0.00 0.00 3.85
460 467 6.481954 ACAAACTCAACTACGAATGGAATC 57.518 37.500 0.00 0.00 0.00 2.52
513 520 8.647143 CACAAGTGGAATTATTTGTGTTTCTT 57.353 30.769 7.92 0.00 43.19 2.52
514 521 8.755018 CACAAGTGGAATTATTTGTGTTTCTTC 58.245 33.333 7.92 0.00 43.19 2.87
649 658 9.662947 TGATATACTTGGCTCATGAGAATAATG 57.337 33.333 27.04 12.09 0.00 1.90
868 878 2.825836 GGATGGGCCTTCAGTGCG 60.826 66.667 19.83 0.00 0.00 5.34
884 894 1.811679 GCGAGGAGAAAGAAGGCGG 60.812 63.158 0.00 0.00 0.00 6.13
1037 1051 2.537143 TCCTGTACTCTCCCAGTTTCC 58.463 52.381 0.00 0.00 36.43 3.13
1115 1140 4.980434 CCCCAATCTAAACATCTACGTACG 59.020 45.833 15.01 15.01 0.00 3.67
1116 1141 5.221106 CCCCAATCTAAACATCTACGTACGA 60.221 44.000 24.41 4.69 0.00 3.43
1117 1142 5.684626 CCCAATCTAAACATCTACGTACGAC 59.315 44.000 24.41 0.00 0.00 4.34
1155 1180 1.204113 AGCTGAGGTGGGAAGGAAGG 61.204 60.000 0.00 0.00 0.00 3.46
1231 1256 2.916553 ATCTACCCCTGTCCCCCAGC 62.917 65.000 0.00 0.00 40.06 4.85
1432 1649 0.521450 CTGACGACATCGACGACAGG 60.521 60.000 15.07 0.00 44.51 4.00
1539 1756 2.948720 GCCTCCCTCGTCTGCAAGT 61.949 63.158 0.00 0.00 33.76 3.16
1590 1808 2.772739 CTCAGCCGTTTCCATGAGG 58.227 57.895 0.00 0.00 36.39 3.86
1790 2008 3.525537 CAACGTCCTCATCAGCTTGTAT 58.474 45.455 0.00 0.00 0.00 2.29
2133 2351 1.819288 TCTATATAGCGAGTGCCCAGC 59.181 52.381 4.75 0.00 44.31 4.85
2135 2353 1.179174 ATATAGCGAGTGCCCAGCGA 61.179 55.000 0.00 0.00 44.31 4.93
2229 2447 0.032952 TAGAGACACCACGTTGGCAC 59.967 55.000 0.00 0.00 42.67 5.01
2246 2464 0.385390 CACGGGCCAATAATGCTTCC 59.615 55.000 4.39 0.00 0.00 3.46
2277 2495 2.097036 TCATCCATGCCAAGAAGCTTG 58.903 47.619 2.10 0.00 37.59 4.01
2359 2577 2.622942 GTGAGATGGTTGCTGGTTTGAA 59.377 45.455 0.00 0.00 0.00 2.69
2402 2620 1.412079 ATGAGGCTACTGCTCCTCTG 58.588 55.000 9.38 0.00 46.90 3.35
2451 2669 5.123227 ACGAGTTTGTTTTCTTGGAGATGA 58.877 37.500 0.00 0.00 0.00 2.92
2508 2726 4.384846 AGAAACTGCGTAAAGTGTATGACG 59.615 41.667 0.00 0.00 38.32 4.35
2527 2745 3.724374 ACGTGGAAGAAAAAGATCGACA 58.276 40.909 0.00 0.00 0.00 4.35
2760 3418 4.053295 CAAAGCTTTGTGATGGAACCAAG 58.947 43.478 27.59 0.30 33.59 3.61
2766 3424 4.782019 TTGTGATGGAACCAAGCATAAC 57.218 40.909 0.00 0.00 0.00 1.89
2878 3538 3.646162 TGGACCTCACATTCTGTTGTAGT 59.354 43.478 0.00 0.00 0.00 2.73
2906 3566 6.635239 TGTTTTCTGAACTATTAGCGCAAAAC 59.365 34.615 11.47 13.11 33.69 2.43
2907 3567 5.933187 TTCTGAACTATTAGCGCAAAACA 57.067 34.783 11.47 0.00 0.00 2.83
2978 3638 5.398236 AGAGCAGGAAGATGTATAGCCTTA 58.602 41.667 0.00 0.00 0.00 2.69
3007 3668 9.260002 ACCATGTTGACAACAATATTTTTCTTC 57.740 29.630 24.00 0.00 45.86 2.87
3043 3704 2.442236 TCCCATCAAGCCTGGAATTC 57.558 50.000 0.00 0.00 35.70 2.17
3061 3724 8.455903 TGGAATTCAGCTTCCTATTTCATAAG 57.544 34.615 7.93 0.00 44.27 1.73
3174 3837 1.000233 TTGCTTCGCGAGTCGTACAC 61.000 55.000 15.08 1.27 39.67 2.90
3194 3857 2.870411 ACGTTTTCTGGAACACTAGTGC 59.130 45.455 22.90 7.36 0.00 4.40
3229 3892 8.696043 TTTATGTGGATATGCTTGAGCTTATT 57.304 30.769 11.30 1.06 40.19 1.40
3317 3980 6.069331 TCTAGTCCAAGCTAATAGTGGGTAG 58.931 44.000 1.57 4.12 32.95 3.18
3368 4033 2.325484 TGGAGTTCTGCTGTAACTGGA 58.675 47.619 11.23 0.00 37.31 3.86
3445 4112 5.009610 CCTGTACTGTTGTAGCATTTTTGGT 59.990 40.000 0.00 0.00 0.00 3.67
3521 4191 5.276067 GCACGCGGTTTTAGTATAGTTGTAG 60.276 44.000 12.47 0.00 0.00 2.74
3604 4274 6.767902 TGATGCTAAATTACCTTCATCCTGAC 59.232 38.462 0.00 0.00 31.85 3.51
3857 4533 2.029739 TGACTTCCTGCATGCATGTTTG 60.030 45.455 26.79 16.42 0.00 2.93
4337 8188 2.552743 GGTTTCAGCAGAGTTACAACCC 59.447 50.000 0.00 0.00 0.00 4.11
4513 8365 4.562347 CCACTAGATCTGTATGACCATGGC 60.562 50.000 13.04 5.35 0.00 4.40
4628 8486 2.482374 GCTGCAATGGTGTCGCTC 59.518 61.111 0.00 0.00 0.00 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 0.601311 GCTATACCTTGCTCCAGGCG 60.601 60.000 0.00 0.00 45.43 5.52
13 14 0.761802 AGCTATACCTTGCTCCAGGC 59.238 55.000 0.00 0.00 37.47 4.85
26 27 4.124910 GCGCAAGGCACAGCTATA 57.875 55.556 0.30 0.00 42.87 1.31
54 55 3.314635 GCAGTGCTATTTCAATCTCAGGG 59.685 47.826 8.18 0.00 0.00 4.45
55 56 3.314635 GGCAGTGCTATTTCAATCTCAGG 59.685 47.826 16.11 0.00 0.00 3.86
113 114 7.201848 CCATTGGCAGAGCTAAATAAATCTCAA 60.202 37.037 0.00 0.00 31.91 3.02
117 118 6.183360 ACACCATTGGCAGAGCTAAATAAATC 60.183 38.462 1.54 0.00 31.91 2.17
123 124 2.584835 ACACCATTGGCAGAGCTAAA 57.415 45.000 1.54 0.00 31.91 1.85
124 125 3.931907 ATACACCATTGGCAGAGCTAA 57.068 42.857 1.54 0.00 32.83 3.09
139 140 1.508088 GCAGGGCACAGCAATACAC 59.492 57.895 0.00 0.00 0.00 2.90
198 199 2.417516 CCCACACTATCGGCTCCG 59.582 66.667 1.14 1.14 41.35 4.63
364 370 2.914695 TCATCATCATGTCCGATGCA 57.085 45.000 13.45 0.00 42.15 3.96
404 410 4.534500 TCCTACACTAAGGAAATCTTGCCA 59.466 41.667 0.00 0.00 42.83 4.92
444 450 3.065371 GCCTTGGATTCCATTCGTAGTTG 59.935 47.826 6.15 0.00 31.53 3.16
453 460 0.031817 CTTGGGGCCTTGGATTCCAT 60.032 55.000 6.15 0.00 31.53 3.41
460 467 2.532250 AATTACTCTTGGGGCCTTGG 57.468 50.000 0.84 0.00 0.00 3.61
511 518 9.485206 AATTCATCATCTCCAAAACAAAAGAAG 57.515 29.630 0.00 0.00 0.00 2.85
513 520 9.480053 GAAATTCATCATCTCCAAAACAAAAGA 57.520 29.630 0.00 0.00 0.00 2.52
514 521 9.263538 TGAAATTCATCATCTCCAAAACAAAAG 57.736 29.630 0.00 0.00 0.00 2.27
558 567 5.343307 AATCCACTACAAAATTCCCATGC 57.657 39.130 0.00 0.00 0.00 4.06
566 575 8.220559 ACATAGCATCCTAATCCACTACAAAAT 58.779 33.333 0.00 0.00 0.00 1.82
617 626 6.121590 TCATGAGCCAAGTATATCAAAGCAA 58.878 36.000 0.00 0.00 0.00 3.91
663 673 9.783256 AGTACAAAACTTAAATGAACTTGTGAC 57.217 29.630 0.00 0.00 33.35 3.67
776 786 2.022195 CTGCAATGATTCCCTGGTCAG 58.978 52.381 0.00 0.00 0.00 3.51
868 878 1.811679 CGCCGCCTTCTTTCTCCTC 60.812 63.158 0.00 0.00 0.00 3.71
884 894 0.169009 GGAGTGAGAAACCAATGCGC 59.831 55.000 0.00 0.00 0.00 6.09
966 976 0.974383 GGGGAGGAAAAGTCGTCAGA 59.026 55.000 0.00 0.00 39.88 3.27
1037 1051 1.131037 CGCGAGCAGAGAAGAGAACG 61.131 60.000 0.00 0.00 0.00 3.95
1115 1140 0.880278 TGCTCCGCACTCAACAAGTC 60.880 55.000 0.00 0.00 35.45 3.01
1116 1141 1.146041 TGCTCCGCACTCAACAAGT 59.854 52.632 0.00 0.00 39.44 3.16
1117 1142 4.047834 TGCTCCGCACTCAACAAG 57.952 55.556 0.00 0.00 31.71 3.16
1155 1180 1.022735 CCAGAGCATCCATTGTCTGC 58.977 55.000 0.00 0.69 34.67 4.26
1231 1256 1.079127 AGCCGTGGGACGAAATGAG 60.079 57.895 0.00 0.00 46.05 2.90
1259 1291 4.650377 GCATCCATCCGCCCCTCC 62.650 72.222 0.00 0.00 0.00 4.30
1590 1808 4.717313 GAGGTGGGACGGGTTGCC 62.717 72.222 0.00 0.00 35.82 4.52
1790 2008 3.678056 ACTGTAAAATCTCTGCCGTCA 57.322 42.857 0.00 0.00 0.00 4.35
2229 2447 1.654220 CGGAAGCATTATTGGCCCG 59.346 57.895 0.00 0.00 31.60 6.13
2246 2464 2.138320 GCATGGATGAGATACACACCG 58.862 52.381 0.00 0.00 33.33 4.94
2277 2495 2.224018 TGTGGAGCCAAATGCAAAGTTC 60.224 45.455 0.00 0.00 44.83 3.01
2359 2577 1.134580 CATCCTCGCAACCTGTCATCT 60.135 52.381 0.00 0.00 0.00 2.90
2402 2620 1.106944 CCCCCACATGGTTTATCCGC 61.107 60.000 0.00 0.00 39.52 5.54
2451 2669 2.125912 GTGGAGTGCGCATCGACT 60.126 61.111 15.91 5.43 0.00 4.18
2508 2726 5.858581 CCAAATGTCGATCTTTTTCTTCCAC 59.141 40.000 0.00 0.00 0.00 4.02
2527 2745 6.029492 TGAAAGGATGGATATCACCCAAAT 57.971 37.500 4.83 0.00 37.22 2.32
2749 3407 2.475200 GCGTTATGCTTGGTTCCATC 57.525 50.000 0.00 0.00 41.73 3.51
2878 3538 7.603963 TGCGCTAATAGTTCAGAAAACAATA 57.396 32.000 9.73 0.00 0.00 1.90
3007 3668 6.351711 TGATGGGATGATACTGTTTCAAGAG 58.648 40.000 5.07 0.00 0.00 2.85
3043 3704 9.006839 TGATTATGCTTATGAAATAGGAAGCTG 57.993 33.333 6.97 0.00 43.75 4.24
3076 3739 4.648651 TCAAAGGTAGGCAGTAGAAAACC 58.351 43.478 0.00 0.00 0.00 3.27
3174 3837 2.869801 TGCACTAGTGTTCCAGAAAACG 59.130 45.455 23.44 0.00 33.81 3.60
3229 3892 8.615211 GTTACATATCTGAATCACAAAGCATGA 58.385 33.333 0.00 0.00 0.00 3.07
3317 3980 3.163630 AGATGCCACACAAACACAAAC 57.836 42.857 0.00 0.00 0.00 2.93
3463 4132 6.470556 CGAATAATGATCTGCTACGACCATAG 59.529 42.308 0.00 0.00 0.00 2.23
3548 4218 5.664294 TTCTGCCACTTTATGCATCAAAT 57.336 34.783 0.19 0.00 36.79 2.32
3604 4274 6.572519 TGTTCCAAAGAAAACAGAGGAAATG 58.427 36.000 0.00 0.00 36.95 2.32
3857 4533 1.741327 TACGAGGCGGGATAGCAACC 61.741 60.000 0.00 0.00 39.27 3.77
4337 8188 2.436646 AGAGGTTCCATTGCGGCG 60.437 61.111 0.51 0.51 33.14 6.46
4467 8318 5.007034 GCATCTCTATCACAGCTAGGTCTA 58.993 45.833 0.00 0.00 0.00 2.59
4468 8319 3.826157 GCATCTCTATCACAGCTAGGTCT 59.174 47.826 0.00 0.00 0.00 3.85
4513 8365 3.618351 AGTCATGAAGGAGCTGGATTTG 58.382 45.455 0.00 0.00 0.00 2.32


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

AutoCloner maintained by Alex Coulton.