Multiple sequence alignment - TraesCS2B01G134000

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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 TraesCS2B01G134000 chr2B 100.000 4430 0 0 1 4430 100093709 100089280 0.000000e+00 8181.0
1 TraesCS2B01G134000 chr2B 92.747 1365 89 6 433 1795 392029279 392030635 0.000000e+00 1964.0
2 TraesCS2B01G134000 chr2B 90.314 1084 85 8 1949 3023 392030684 392031756 0.000000e+00 1402.0
3 TraesCS2B01G134000 chr2B 92.523 428 31 1 1 427 392028212 392028639 2.930000e-171 612.0
4 TraesCS2B01G134000 chr2B 91.633 251 21 0 1796 2046 392030477 392030727 9.120000e-92 348.0
5 TraesCS2B01G134000 chr2B 100.000 44 0 0 3738 3781 100089903 100089860 1.020000e-11 82.4
6 TraesCS2B01G134000 chr2B 100.000 44 0 0 3807 3850 100089972 100089929 1.020000e-11 82.4
7 TraesCS2B01G134000 chr5A 96.708 2187 68 2 940 3124 470941655 470943839 0.000000e+00 3637.0
8 TraesCS2B01G134000 chr5A 97.066 1227 27 3 3207 4430 470943841 470945061 0.000000e+00 2058.0
9 TraesCS2B01G134000 chr5A 93.478 460 30 0 1587 2046 3909851 3909392 0.000000e+00 684.0
10 TraesCS2B01G134000 chr5A 92.955 440 27 2 503 941 470941088 470941524 4.830000e-179 638.0
11 TraesCS2B01G134000 chr5A 97.126 348 9 1 4074 4420 3895763 3895416 1.780000e-163 586.0
12 TraesCS2B01G134000 chr5A 97.872 47 1 0 3735 3781 470944432 470944478 1.020000e-11 82.4
13 TraesCS2B01G134000 chr5A 100.000 33 0 0 3818 3850 470944377 470944409 1.330000e-05 62.1
14 TraesCS2B01G134000 chr3A 96.527 2188 71 3 940 3124 662573606 662571421 0.000000e+00 3615.0
15 TraesCS2B01G134000 chr3A 97.229 1227 29 2 3207 4430 662571419 662570195 0.000000e+00 2073.0
16 TraesCS2B01G134000 chr3A 92.727 440 28 2 503 941 662574174 662573738 2.250000e-177 632.0
17 TraesCS2B01G134000 chr3A 91.829 257 15 5 174 428 25054037 25054289 1.960000e-93 353.0
18 TraesCS2B01G134000 chr3A 100.000 44 0 0 3738 3781 662570821 662570778 1.020000e-11 82.4
19 TraesCS2B01G134000 chr3A 100.000 44 0 0 3807 3850 662570890 662570847 1.020000e-11 82.4
20 TraesCS2B01G134000 chr5D 92.846 2013 122 5 994 2997 127930672 127928673 0.000000e+00 2900.0
21 TraesCS2B01G134000 chr5D 93.182 528 23 3 427 953 127931301 127930786 0.000000e+00 763.0
22 TraesCS2B01G134000 chr5D 93.931 379 20 2 3364 3741 510560153 510560529 1.790000e-158 569.0
23 TraesCS2B01G134000 chr5D 95.265 359 14 3 4074 4430 127927368 127927011 2.310000e-157 566.0
24 TraesCS2B01G134000 chr5D 91.228 342 21 4 3033 3366 510559771 510560111 1.450000e-124 457.0
25 TraesCS2B01G134000 chr5D 90.643 342 23 4 3033 3366 445019018 445018678 3.140000e-121 446.0
26 TraesCS2B01G134000 chr5D 87.970 266 22 6 170 427 320323942 320324205 5.570000e-79 305.0
27 TraesCS2B01G134000 chr1D 92.747 2013 123 6 994 2997 415604968 415606966 0.000000e+00 2887.0
28 TraesCS2B01G134000 chr1D 95.265 359 14 3 4074 4430 415608272 415608629 2.310000e-157 566.0
29 TraesCS2B01G134000 chr1D 96.923 65 2 0 889 953 415604790 415604854 4.680000e-20 110.0
30 TraesCS2B01G134000 chr6D 92.673 2020 118 10 994 2997 450179895 450177890 0.000000e+00 2883.0
31 TraesCS2B01G134000 chr6D 95.543 359 13 3 4074 4430 450176584 450176227 4.970000e-159 571.0
32 TraesCS2B01G134000 chr6D 95.455 330 15 0 624 953 450180338 450180009 1.090000e-145 527.0
33 TraesCS2B01G134000 chr6D 86.628 172 10 3 427 597 450180479 450180320 1.270000e-40 178.0
34 TraesCS2B01G134000 chr7D 92.499 2013 129 5 994 2997 340191324 340193323 0.000000e+00 2861.0
35 TraesCS2B01G134000 chr7D 94.348 1610 79 5 438 2046 449486406 449484808 0.000000e+00 2459.0
36 TraesCS2B01G134000 chr7D 90.884 1086 79 8 1949 3023 449484851 449483775 0.000000e+00 1439.0
37 TraesCS2B01G134000 chr7D 93.182 528 23 3 427 953 340190695 340191210 0.000000e+00 763.0
38 TraesCS2B01G134000 chr7D 94.986 359 15 3 4074 4430 340194628 340194985 1.080000e-155 560.0
39 TraesCS2B01G134000 chr7D 94.163 257 13 2 174 428 600498418 600498674 1.490000e-104 390.0
40 TraesCS2B01G134000 chr7D 91.489 235 18 2 194 427 7603853 7604086 5.530000e-84 322.0
41 TraesCS2B01G134000 chr7D 94.798 173 9 0 1 173 449486915 449486743 2.030000e-68 270.0
42 TraesCS2B01G134000 chr7B 94.843 1629 79 4 1964 3590 593329040 593327415 0.000000e+00 2538.0
43 TraesCS2B01G134000 chr7B 93.997 633 37 1 940 1572 593330163 593329532 0.000000e+00 957.0
44 TraesCS2B01G134000 chr7B 96.919 357 11 0 4074 4430 593326864 593326508 2.280000e-167 599.0
45 TraesCS2B01G134000 chr7B 95.686 255 10 1 174 427 719160906 719160652 4.120000e-110 409.0
46 TraesCS2B01G134000 chr7B 87.079 356 40 4 465 818 593339667 593339316 8.930000e-107 398.0
47 TraesCS2B01G134000 chr7B 97.714 175 4 0 3656 3830 593327416 593327242 7.200000e-78 302.0
48 TraesCS2B01G134000 chr7B 89.062 128 14 0 814 941 593330422 593330295 4.590000e-35 159.0
49 TraesCS2B01G134000 chr7B 93.421 76 3 2 3929 4003 593327244 593327170 1.300000e-20 111.0
50 TraesCS2B01G134000 chr7B 100.000 44 0 0 3807 3850 593327334 593327291 1.020000e-11 82.4
51 TraesCS2B01G134000 chr1B 90.404 990 78 9 2760 3741 289695736 289696716 0.000000e+00 1286.0
52 TraesCS2B01G134000 chr1B 89.736 341 24 6 3035 3366 680992291 680992629 4.100000e-115 425.0
53 TraesCS2B01G134000 chr3B 86.752 1019 71 28 2754 3741 775656712 775655727 0.000000e+00 1075.0
54 TraesCS2B01G134000 chr3B 94.902 255 11 2 174 427 66600758 66601011 8.930000e-107 398.0
55 TraesCS2B01G134000 chr7A 92.991 428 23 5 3315 3741 41462592 41462171 6.300000e-173 617.0
56 TraesCS2B01G134000 chr7A 92.740 427 25 3 3315 3741 617600706 617601126 2.930000e-171 612.0
57 TraesCS2B01G134000 chr7A 90.671 343 21 6 3033 3366 576789566 576789226 3.140000e-121 446.0
58 TraesCS2B01G134000 chr7A 90.087 343 23 6 3033 3366 658275468 658275808 6.800000e-118 435.0
59 TraesCS2B01G134000 chr7A 81.991 422 42 14 547 941 28894225 28893811 1.190000e-85 327.0
60 TraesCS2B01G134000 chr7A 81.754 422 43 14 547 941 28865324 28864910 5.530000e-84 322.0
61 TraesCS2B01G134000 chr7A 91.111 90 8 0 37 126 28989239 28989150 6.020000e-24 122.0
62 TraesCS2B01G134000 chr7A 89.362 94 9 1 37 130 28825520 28825428 2.800000e-22 117.0
63 TraesCS2B01G134000 chr2A 92.523 428 25 4 3315 3741 756526673 756527094 1.360000e-169 606.0
64 TraesCS2B01G134000 chr2A 89.504 343 25 6 3033 3366 764886287 764886627 1.470000e-114 424.0
65 TraesCS2B01G134000 chr4B 91.120 259 23 0 4171 4429 3319516 3319258 7.050000e-93 351.0
66 TraesCS2B01G134000 chr6B 87.687 268 23 6 168 427 22247478 22247743 2.000000e-78 303.0
67 TraesCS2B01G134000 chrUn 87.594 266 23 6 170 427 348381773 348382036 2.590000e-77 300.0
68 TraesCS2B01G134000 chrUn 90.000 90 9 0 37 126 324331261 324331350 2.800000e-22 117.0
69 TraesCS2B01G134000 chrUn 90.000 90 9 0 37 126 324334415 324334504 2.800000e-22 117.0
70 TraesCS2B01G134000 chrUn 90.000 90 9 0 37 126 340811440 340811351 2.800000e-22 117.0


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 TraesCS2B01G134000 chr2B 100089280 100093709 4429 True 2781.933333 8181 100.000000 1 4430 3 chr2B.!!$R1 4429
1 TraesCS2B01G134000 chr2B 392028212 392031756 3544 False 1081.500000 1964 91.804250 1 3023 4 chr2B.!!$F1 3022
2 TraesCS2B01G134000 chr5A 470941088 470945061 3973 False 1295.500000 3637 96.920200 503 4430 5 chr5A.!!$F1 3927
3 TraesCS2B01G134000 chr3A 662570195 662574174 3979 True 1296.960000 3615 97.296600 503 4430 5 chr3A.!!$R1 3927
4 TraesCS2B01G134000 chr5D 127927011 127931301 4290 True 1409.666667 2900 93.764333 427 4430 3 chr5D.!!$R2 4003
5 TraesCS2B01G134000 chr5D 510559771 510560529 758 False 513.000000 569 92.579500 3033 3741 2 chr5D.!!$F2 708
6 TraesCS2B01G134000 chr1D 415604790 415608629 3839 False 1187.666667 2887 94.978333 889 4430 3 chr1D.!!$F1 3541
7 TraesCS2B01G134000 chr6D 450176227 450180479 4252 True 1039.750000 2883 92.574750 427 4430 4 chr6D.!!$R1 4003
8 TraesCS2B01G134000 chr7D 340190695 340194985 4290 False 1394.666667 2861 93.555667 427 4430 3 chr7D.!!$F3 4003
9 TraesCS2B01G134000 chr7D 449483775 449486915 3140 True 1389.333333 2459 93.343333 1 3023 3 chr7D.!!$R1 3022
10 TraesCS2B01G134000 chr7B 593326508 593330422 3914 True 678.342857 2538 95.136571 814 4430 7 chr7B.!!$R3 3616
11 TraesCS2B01G134000 chr1B 289695736 289696716 980 False 1286.000000 1286 90.404000 2760 3741 1 chr1B.!!$F1 981
12 TraesCS2B01G134000 chr3B 775655727 775656712 985 True 1075.000000 1075 86.752000 2754 3741 1 chr3B.!!$R1 987

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
387 389 1.073216 CTAGCACTTCAGGTGTCGCG 61.073 60.000 0.00 0.0 46.86 5.87 F
431 1067 2.222508 GGAATGTGACGACGACGATTTG 60.223 50.000 15.32 0.0 42.66 2.32 F
819 1483 3.453353 TGTTTCCCTCCCTCTTATTACCG 59.547 47.826 0.00 0.0 0.00 4.02 F
1134 2004 3.640029 GGATCATGGATTCAAAGGCACAT 59.360 43.478 0.00 0.0 0.00 3.21 F
2374 3477 1.281577 TGTTAGGCCAGCATGATGTCA 59.718 47.619 10.55 0.0 39.69 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1307 2177 0.106868 CCTCTGATCCATGGCTGCAA 60.107 55.000 6.96 0.0 0.00 4.08 R
1497 2367 0.399454 CCATGCGGATCTCCTCCATT 59.601 55.000 0.00 0.0 45.24 3.16 R
1787 2664 0.747283 GCCTTGTCATCCTGCTGAGG 60.747 60.000 0.00 0.0 41.39 3.86 R
2699 3802 1.221293 GAGGCTCATCACAGCTGCT 59.779 57.895 15.27 0.0 39.58 4.24 R
4014 5666 0.995024 CTGGGAGGTCCTTTGTCCAT 59.005 55.000 0.00 0.0 36.20 3.41 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
69 70 2.263077 GTAGTTGTGAGTCATCCGCTG 58.737 52.381 0.00 0.00 0.00 5.18
118 119 8.432013 TCTTTACATCTAGTACTACGGGTCATA 58.568 37.037 0.00 0.00 30.91 2.15
144 145 5.594725 AGATACATCACTACCACGATGAGTT 59.405 40.000 6.40 0.00 41.28 3.01
147 148 3.297830 TCACTACCACGATGAGTTGTG 57.702 47.619 0.00 0.00 39.89 3.33
183 184 7.176690 CAGTACCACTATTGATGAAAAAGGGTT 59.823 37.037 0.00 0.00 0.00 4.11
302 303 4.853924 AAGAGAAACAAATGCCGACAAT 57.146 36.364 0.00 0.00 0.00 2.71
335 336 3.058914 CGAAACAAAGATGACCAGTGACC 60.059 47.826 0.00 0.00 0.00 4.02
341 342 2.786539 GATGACCAGTGACCGCTGCA 62.787 60.000 0.00 0.00 35.28 4.41
347 348 4.626081 GTGACCGCTGCACCCACT 62.626 66.667 0.00 0.00 0.00 4.00
348 349 2.920384 TGACCGCTGCACCCACTA 60.920 61.111 0.00 0.00 0.00 2.74
362 363 2.111255 ACCCACTAGAGAAGTACCACCA 59.889 50.000 0.00 0.00 35.76 4.17
387 389 1.073216 CTAGCACTTCAGGTGTCGCG 61.073 60.000 0.00 0.00 46.86 5.87
422 424 2.743636 TCAGGAAGGAATGTGACGAC 57.256 50.000 0.00 0.00 0.00 4.34
431 1067 2.222508 GGAATGTGACGACGACGATTTG 60.223 50.000 15.32 0.00 42.66 2.32
589 1253 7.455008 AGCACAATAGCCCATATAGTACTTACT 59.545 37.037 0.00 0.00 36.34 2.24
819 1483 3.453353 TGTTTCCCTCCCTCTTATTACCG 59.547 47.826 0.00 0.00 0.00 4.02
918 1582 7.279981 TCGCATGCACTAAACTAAAATACAGAT 59.720 33.333 19.57 0.00 0.00 2.90
1115 1985 7.993183 CACTGTTATGTTGGTTTCTATAGGGAT 59.007 37.037 0.00 0.00 0.00 3.85
1134 2004 3.640029 GGATCATGGATTCAAAGGCACAT 59.360 43.478 0.00 0.00 0.00 3.21
1307 2177 4.383989 GGAACAGATGATGAAAGAGGAGCT 60.384 45.833 0.00 0.00 0.00 4.09
1492 2362 4.937620 AGCGTAATGACATGAATCACAAGT 59.062 37.500 0.00 0.00 32.95 3.16
1497 2367 6.653526 AATGACATGAATCACAAGTCCAAA 57.346 33.333 0.00 0.00 43.74 3.28
1787 2664 1.946768 TCAGTTTGTAACCACAGCAGC 59.053 47.619 0.00 0.00 35.67 5.25
1874 2914 2.361438 GCTAGTACAGGCACGAAGGTAT 59.639 50.000 0.00 0.00 0.00 2.73
1954 2994 2.275134 TCAACAGCATGCTCAGGAAA 57.725 45.000 19.68 0.00 42.53 3.13
2006 3046 7.999891 TCTGTCTCATCAGTACCTCTACAGGT 62.000 46.154 0.00 0.00 43.43 4.00
2007 3047 9.387681 TCTGTCTCATCAGTACCTCTACAGGTT 62.388 44.444 0.00 0.00 41.90 3.50
2084 3187 8.301002 GTTTTACAAATGGTAAGCACATCCTAA 58.699 33.333 0.00 0.00 42.63 2.69
2256 3359 2.036256 GCCAAGGTGGACTGGCAT 59.964 61.111 8.19 0.00 40.96 4.40
2370 3473 3.589951 AAGATGTTAGGCCAGCATGAT 57.410 42.857 5.01 0.00 39.69 2.45
2374 3477 1.281577 TGTTAGGCCAGCATGATGTCA 59.718 47.619 10.55 0.00 39.69 3.58
2386 3489 5.867174 CAGCATGATGTCAATGAAATGTTGT 59.133 36.000 1.88 0.00 39.69 3.32
2602 3705 5.390251 CGAAGAAGACATATATGCATGTGGC 60.390 44.000 10.16 7.86 39.25 5.01
2705 3808 1.848652 AGCATTGGATTTCAGCAGCT 58.151 45.000 0.00 0.00 0.00 4.24
2796 3901 8.998377 GTCCCAATTAGTGTTTGCATTATTTTT 58.002 29.630 0.00 0.00 0.00 1.94
2969 4076 1.813513 CTGCACTAGTCCAAACCAGG 58.186 55.000 0.00 0.00 0.00 4.45
3191 4302 5.885352 TGGTTGAATCAGTTTCAGAGTTCAA 59.115 36.000 0.00 0.00 44.90 2.69
3197 4308 4.442706 TCAGTTTCAGAGTTCAAGGTCAC 58.557 43.478 0.00 0.00 0.00 3.67
3261 4406 4.141482 GGATAAGCCCCAACATGAAGTCTA 60.141 45.833 0.00 0.00 0.00 2.59
3389 4579 7.826690 AGACCAATTCCACAAATAATGTACAC 58.173 34.615 0.00 0.00 41.46 2.90
3390 4580 7.450014 AGACCAATTCCACAAATAATGTACACA 59.550 33.333 0.00 0.00 41.46 3.72
3626 5192 5.683876 AGTAAGGAAATGCAGCTCTCTTA 57.316 39.130 0.00 0.00 0.00 2.10
3672 5243 4.209538 CATCCAAAAGCTCCCACATATCA 58.790 43.478 0.00 0.00 0.00 2.15
3920 5569 8.476657 AAAAGAAGTAACGCTAGAAATACTCC 57.523 34.615 0.00 0.00 0.00 3.85
4014 5666 9.116067 CCAAAAACAGATAGACCGGATTAATTA 57.884 33.333 9.46 0.00 0.00 1.40
4050 5702 3.951563 CCAGGTTATCATTTGGGAGGA 57.048 47.619 0.00 0.00 0.00 3.71
4416 6306 4.077184 CGGTGCACCTCGGCCTTA 62.077 66.667 32.28 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 0.251297 CTGCCCACCCATGTGAAAGA 60.251 55.000 0.00 0.00 45.76 2.52
42 43 2.304092 TGACTCACAACTACCAGTCGT 58.696 47.619 0.00 0.00 38.52 4.34
58 59 0.972983 ACTACCTGCAGCGGATGACT 60.973 55.000 8.66 0.00 0.00 3.41
69 70 0.822164 ATGGTCGTGGTACTACCTGC 59.178 55.000 3.52 0.00 39.58 4.85
118 119 4.887655 TCATCGTGGTAGTGATGTATCTGT 59.112 41.667 2.53 0.00 42.05 3.41
243 244 0.461693 TTTGGGCTTGTTTGTGCTGC 60.462 50.000 0.00 0.00 0.00 5.25
246 247 2.307934 TCTTTTGGGCTTGTTTGTGC 57.692 45.000 0.00 0.00 0.00 4.57
302 303 0.462225 TTTGTTTCGTCGACCTGCCA 60.462 50.000 10.58 0.00 0.00 4.92
335 336 0.459237 CTTCTCTAGTGGGTGCAGCG 60.459 60.000 10.24 0.00 0.00 5.18
341 342 2.111255 TGGTGGTACTTCTCTAGTGGGT 59.889 50.000 0.00 0.00 37.73 4.51
347 348 2.211250 AGCGTGGTGGTACTTCTCTA 57.789 50.000 0.00 0.00 0.00 2.43
348 349 1.272769 GAAGCGTGGTGGTACTTCTCT 59.727 52.381 0.00 0.00 36.45 3.10
362 363 0.969894 ACCTGAAGTGCTAGAAGCGT 59.030 50.000 0.00 0.00 46.26 5.07
387 389 0.737715 CTGAAGGTGCTGCTCGGTAC 60.738 60.000 0.00 0.00 0.00 3.34
416 418 4.043750 ACTAAAACAAATCGTCGTCGTCA 58.956 39.130 1.33 0.00 38.33 4.35
556 1220 1.425428 GGCTATTGTGCTCACGTGC 59.575 57.895 11.67 0.00 0.00 5.34
570 1234 6.011362 TGGGCTAGTAAGTACTATATGGGCTA 60.011 42.308 0.00 0.00 38.06 3.93
589 1253 6.250711 TCTATTACGTATCTGGATTGGGCTA 58.749 40.000 0.00 0.00 0.00 3.93
720 1384 4.430765 ATGTCGTCGGGCGTGGAC 62.431 66.667 0.49 0.00 42.13 4.02
736 1400 2.519780 GGACGCGGAGGAGAGGAT 60.520 66.667 12.47 0.00 0.00 3.24
769 1433 3.061322 GTGTACATACAGTTCGGTTGCA 58.939 45.455 0.00 0.00 36.78 4.08
931 1595 7.380423 ACTCCCATACTGCTACAATTTAGAT 57.620 36.000 0.00 0.00 0.00 1.98
1115 1985 3.444742 GTGATGTGCCTTTGAATCCATGA 59.555 43.478 0.00 0.00 0.00 3.07
1134 2004 3.244044 TGTCATCATTCACTCGGTTGTGA 60.244 43.478 3.43 3.43 44.17 3.58
1175 2045 6.598503 TGCATATTCTTGTCCATCTCTTGAT 58.401 36.000 0.00 0.00 0.00 2.57
1307 2177 0.106868 CCTCTGATCCATGGCTGCAA 60.107 55.000 6.96 0.00 0.00 4.08
1492 2362 1.134098 GCGGATCTCCTCCATTTTGGA 60.134 52.381 0.00 0.00 45.98 3.53
1497 2367 0.399454 CCATGCGGATCTCCTCCATT 59.601 55.000 0.00 0.00 45.24 3.16
1744 2620 6.645827 TGATTTTGCTTTGTGTGTGGATAATG 59.354 34.615 0.00 0.00 0.00 1.90
1745 2621 6.757237 TGATTTTGCTTTGTGTGTGGATAAT 58.243 32.000 0.00 0.00 0.00 1.28
1787 2664 0.747283 GCCTTGTCATCCTGCTGAGG 60.747 60.000 0.00 0.00 41.39 3.86
1954 2994 3.650942 TCTGGTGTAGGGATGTCTTGTTT 59.349 43.478 0.00 0.00 0.00 2.83
2006 3046 3.322541 TGGTGTACGGATCTCTTGTTCAA 59.677 43.478 0.00 0.00 0.00 2.69
2007 3047 2.894765 TGGTGTACGGATCTCTTGTTCA 59.105 45.455 0.00 0.00 0.00 3.18
2016 3056 2.101582 AGATTGCTCTGGTGTACGGATC 59.898 50.000 0.00 0.00 33.01 3.36
2073 3176 5.683876 AGTGTTCATACTTAGGATGTGCT 57.316 39.130 4.16 0.00 0.00 4.40
2107 3210 4.148891 CGGCTCGTTGACATTAGTTTTTC 58.851 43.478 0.00 0.00 0.00 2.29
2115 3218 2.380084 ACATACGGCTCGTTGACATT 57.620 45.000 5.57 0.00 41.54 2.71
2256 3359 8.304596 TGGTAACGCAAATTTTTCACCATTATA 58.695 29.630 0.00 0.00 42.51 0.98
2357 3460 2.173143 TCATTGACATCATGCTGGCCTA 59.827 45.455 3.32 0.00 0.00 3.93
2370 3473 9.114952 TCTAAAGTGTACAACATTTCATTGACA 57.885 29.630 0.00 0.00 27.43 3.58
2374 3477 8.576442 CCCTTCTAAAGTGTACAACATTTCATT 58.424 33.333 0.00 0.00 27.43 2.57
2602 3705 2.098280 CCTCTCGCCGATATCCATGTAG 59.902 54.545 0.00 0.00 0.00 2.74
2699 3802 1.221293 GAGGCTCATCACAGCTGCT 59.779 57.895 15.27 0.00 39.58 4.24
2705 3808 2.762887 CCTACTGAAGAGGCTCATCACA 59.237 50.000 17.76 8.40 0.00 3.58
2796 3901 8.298854 CACTTGAATGAAGTTATTGTTGGATCA 58.701 33.333 0.00 0.00 42.70 2.92
2990 4097 9.326339 GACATTCTTAATAAAACTGGTCGTTTC 57.674 33.333 0.00 0.00 44.77 2.78
3128 4239 5.364446 TGGTTATACCCAGGTACATGTACAG 59.636 44.000 31.52 23.62 37.50 2.74
3197 4308 5.587443 TGATCATTTCTGGCTTGTCATGTAG 59.413 40.000 0.00 0.00 0.00 2.74
3229 4374 1.133792 TGGGGCTTATCCTAAGCTTGC 60.134 52.381 9.86 1.18 42.62 4.01
3261 4406 1.000955 CTTGTACGGAAGGAGCACTGT 59.999 52.381 0.00 0.00 0.00 3.55
3389 4579 4.115401 TGTGCTTGCTCTACTACATCTG 57.885 45.455 0.00 0.00 0.00 2.90
3390 4580 4.021104 TGTTGTGCTTGCTCTACTACATCT 60.021 41.667 9.64 0.00 0.00 2.90
3532 5093 5.438761 AAAAACTTGTAGAGTGTGATGGC 57.561 39.130 0.00 0.00 39.00 4.40
3672 5243 3.647590 AGGGTTGCCATGTGAAGAAAAAT 59.352 39.130 0.00 0.00 0.00 1.82
3920 5569 5.878332 TTAGGTTGTATGTTGCATCACTG 57.122 39.130 0.00 0.00 0.00 3.66
4014 5666 0.995024 CTGGGAGGTCCTTTGTCCAT 59.005 55.000 0.00 0.00 36.20 3.41
4050 5702 3.417069 TGACCACCTGATGAAAACGAT 57.583 42.857 0.00 0.00 0.00 3.73


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

AutoCloner maintained by Alex Coulton.