Multiple sequence alignment - TraesCS2D01G023000

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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 TraesCS2D01G023000 chr2D 100.000 3952 0 0 895 4846 10426547 10430498 0.000000e+00 7299.0
1 TraesCS2D01G023000 chr2D 97.689 2164 44 4 2193 4352 10523600 10525761 0.000000e+00 3714.0
2 TraesCS2D01G023000 chr2D 100.000 568 0 0 1 568 10425653 10426220 0.000000e+00 1050.0
3 TraesCS2D01G023000 chr2D 87.702 496 31 12 4355 4846 10525812 10526281 7.090000e-153 551.0
4 TraesCS2D01G023000 chr2A 91.069 3471 202 50 895 4291 10728984 10732420 0.000000e+00 4593.0
5 TraesCS2D01G023000 chr2A 94.455 1028 46 6 2405 3429 10834538 10835557 0.000000e+00 1572.0
6 TraesCS2D01G023000 chr2A 88.303 872 53 12 3472 4296 10733378 10734247 0.000000e+00 1000.0
7 TraesCS2D01G023000 chr2A 84.237 793 67 26 3427 4187 10842385 10843151 0.000000e+00 719.0
8 TraesCS2D01G023000 chr2A 94.937 158 8 0 63 220 10728060 10728217 1.040000e-61 248.0
9 TraesCS2D01G023000 chr2A 96.454 141 4 1 380 519 10728763 10728903 1.050000e-56 231.0
10 TraesCS2D01G023000 chr2A 92.500 160 11 1 61 220 10727005 10727163 1.360000e-55 228.0
11 TraesCS2D01G023000 chr2A 96.190 105 3 1 3334 3438 10733285 10733388 2.320000e-38 171.0
12 TraesCS2D01G023000 chr2A 96.491 57 2 0 270 326 10728695 10728751 1.440000e-15 95.3
13 TraesCS2D01G023000 chr2A 91.667 48 4 0 1665 1712 10729922 10729969 3.130000e-07 67.6
14 TraesCS2D01G023000 chr2B 90.146 2740 165 49 1643 4317 13915546 13912847 0.000000e+00 3467.0
15 TraesCS2D01G023000 chr2B 89.632 2122 134 31 2137 4220 14334012 14336085 0.000000e+00 2621.0
16 TraesCS2D01G023000 chr2B 94.813 482 25 0 3755 4236 14498997 14499478 0.000000e+00 752.0
17 TraesCS2D01G023000 chr2B 94.606 482 26 0 3755 4236 14470612 14471093 0.000000e+00 747.0
18 TraesCS2D01G023000 chr2B 93.793 435 24 1 896 1330 13916127 13915696 0.000000e+00 651.0
19 TraesCS2D01G023000 chr2B 86.029 408 33 6 4355 4756 14445852 14446241 2.700000e-112 416.0
20 TraesCS2D01G023000 chr2B 86.029 408 33 6 4355 4756 14472351 14472740 2.700000e-112 416.0
21 TraesCS2D01G023000 chr2B 85.784 408 34 6 4355 4756 14500736 14501125 1.260000e-110 411.0
22 TraesCS2D01G023000 chr2B 88.163 245 23 3 280 524 13916459 13916221 2.210000e-73 287.0
23 TraesCS2D01G023000 chr2B 95.312 64 3 0 4223 4286 14445700 14445763 8.580000e-18 102.0
24 TraesCS2D01G023000 chr2B 95.312 64 3 0 4223 4286 14472199 14472262 8.580000e-18 102.0
25 TraesCS2D01G023000 chr2B 95.312 64 3 0 4223 4286 14500584 14500647 8.580000e-18 102.0
26 TraesCS2D01G023000 chr2B 96.226 53 2 0 5 57 13916693 13916641 2.400000e-13 87.9
27 TraesCS2D01G023000 chr2B 89.091 55 5 1 4270 4324 15464653 15464600 3.130000e-07 67.6
28 TraesCS2D01G023000 chr2B 100.000 33 0 0 1680 1712 13915342 13915310 1.460000e-05 62.1
29 TraesCS2D01G023000 chr5A 84.952 1143 136 20 2587 3721 555070250 555069136 0.000000e+00 1125.0
30 TraesCS2D01G023000 chr5A 83.178 749 107 12 1720 2463 555074986 555074252 0.000000e+00 667.0
31 TraesCS2D01G023000 chr5A 75.681 477 74 27 895 1353 555075592 555075140 2.960000e-47 200.0
32 TraesCS2D01G023000 chrUn 94.813 482 25 0 3755 4236 453944155 453944636 0.000000e+00 752.0
33 TraesCS2D01G023000 chr4B 82.308 520 60 16 895 1396 458893923 458894428 5.800000e-114 422.0
34 TraesCS2D01G023000 chr4D 80.110 362 38 13 960 1312 100202236 100202572 6.270000e-59 239.0


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 TraesCS2D01G023000 chr2D 10425653 10430498 4845 False 4174.500000 7299 100.000000 1 4846 2 chr2D.!!$F1 4845
1 TraesCS2D01G023000 chr2D 10523600 10526281 2681 False 2132.500000 3714 92.695500 2193 4846 2 chr2D.!!$F2 2653
2 TraesCS2D01G023000 chr2A 10834538 10835557 1019 False 1572.000000 1572 94.455000 2405 3429 1 chr2A.!!$F1 1024
3 TraesCS2D01G023000 chr2A 10727005 10734247 7242 False 829.237500 4593 93.451375 61 4296 8 chr2A.!!$F3 4235
4 TraesCS2D01G023000 chr2A 10842385 10843151 766 False 719.000000 719 84.237000 3427 4187 1 chr2A.!!$F2 760
5 TraesCS2D01G023000 chr2B 14334012 14336085 2073 False 2621.000000 2621 89.632000 2137 4220 1 chr2B.!!$F1 2083
6 TraesCS2D01G023000 chr2B 13912847 13916693 3846 True 911.000000 3467 93.665600 5 4317 5 chr2B.!!$R2 4312
7 TraesCS2D01G023000 chr2B 14470612 14472740 2128 False 421.666667 747 91.982333 3755 4756 3 chr2B.!!$F3 1001
8 TraesCS2D01G023000 chr2B 14498997 14501125 2128 False 421.666667 752 91.969667 3755 4756 3 chr2B.!!$F4 1001
9 TraesCS2D01G023000 chr2B 14445700 14446241 541 False 259.000000 416 90.670500 4223 4756 2 chr2B.!!$F2 533
10 TraesCS2D01G023000 chr5A 555069136 555070250 1114 True 1125.000000 1125 84.952000 2587 3721 1 chr5A.!!$R1 1134
11 TraesCS2D01G023000 chr5A 555074252 555075592 1340 True 433.500000 667 79.429500 895 2463 2 chr5A.!!$R2 1568
12 TraesCS2D01G023000 chr4B 458893923 458894428 505 False 422.000000 422 82.308000 895 1396 1 chr4B.!!$F1 501

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
61 62 0.039978 AACATCGAGCGAGCGGATAG 60.040 55.0 0.0 3.64 0.0 2.08 F
913 2388 0.984230 ATCCAAGAAGCCCAGAACGA 59.016 50.0 0.0 0.00 0.0 3.85 F
2274 3879 1.453155 ACAAGATCCTTTTGCGCGAT 58.547 45.0 12.1 0.00 0.0 4.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1474 3036 0.827368 TGGGGGCACAAACAAGAAAC 59.173 50.0 0.00 0.00 0.00 2.78 R
2333 3938 1.446907 CTTCTGCATCACACTGTCCC 58.553 55.0 0.00 0.00 0.00 4.46 R
4119 7603 0.537188 TTGAGGCCGAGATCAAGGAC 59.463 55.0 10.26 7.39 35.21 3.85 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
46 47 2.612212 AGTTGAGCGAACGAACAAACAT 59.388 40.909 0.00 0.00 39.80 2.71
57 58 1.626654 AACAAACATCGAGCGAGCGG 61.627 55.000 0.00 0.00 0.00 5.52
58 59 1.805539 CAAACATCGAGCGAGCGGA 60.806 57.895 0.00 0.00 0.00 5.54
59 60 1.141881 AAACATCGAGCGAGCGGAT 59.858 52.632 0.00 0.15 0.00 4.18
60 61 0.384309 AAACATCGAGCGAGCGGATA 59.616 50.000 0.00 0.00 0.00 2.59
61 62 0.039978 AACATCGAGCGAGCGGATAG 60.040 55.000 0.00 3.64 0.00 2.08
64 65 1.902716 ATCGAGCGAGCGGATAGACG 61.903 60.000 0.00 0.00 0.00 4.18
201 1201 2.677003 GCCACTGTTGCGCGTACAT 61.677 57.895 14.45 4.23 0.00 2.29
246 1246 2.622942 ACATGCATTCGGTTCACTTTGT 59.377 40.909 0.00 0.00 0.00 2.83
314 1756 1.866853 CTTCTTTCGGCCCTGCAACC 61.867 60.000 0.00 0.00 0.00 3.77
315 1757 2.282462 CTTTCGGCCCTGCAACCT 60.282 61.111 0.00 0.00 0.00 3.50
316 1758 2.282180 TTTCGGCCCTGCAACCTC 60.282 61.111 0.00 0.00 0.00 3.85
321 1763 2.674380 GCCCTGCAACCTCCACTG 60.674 66.667 0.00 0.00 0.00 3.66
376 1818 3.774702 GCGAACGCCACCGAGAAC 61.775 66.667 8.03 0.00 38.29 3.01
458 1901 1.539869 CCCCCATGGATCCCGATCT 60.540 63.158 15.22 0.00 37.92 2.75
504 1947 7.989947 AGTTATAAACACCTCCCTAATCTGA 57.010 36.000 0.00 0.00 0.00 3.27
550 2022 2.202570 CGAGTGCCGAACCCTACG 60.203 66.667 0.00 0.00 41.76 3.51
913 2388 0.984230 ATCCAAGAAGCCCAGAACGA 59.016 50.000 0.00 0.00 0.00 3.85
1344 2861 1.868713 TACGCCCAGGAAATCCAGTA 58.131 50.000 1.67 0.00 38.89 2.74
1428 2990 4.071423 TCGCCTGAAACTGAATCATTCAA 58.929 39.130 0.75 0.00 39.58 2.69
1430 2992 4.618489 CGCCTGAAACTGAATCATTCAAAC 59.382 41.667 0.75 0.00 39.58 2.93
1507 3069 2.985311 TGCCCCCAAATTCAATCCTTTT 59.015 40.909 0.00 0.00 0.00 2.27
1514 3076 7.147897 CCCCCAAATTCAATCCTTTTAGTACTC 60.148 40.741 0.00 0.00 0.00 2.59
1536 3098 6.150307 ACTCTGTATATCAGACCATCATCGTC 59.850 42.308 2.01 0.00 46.77 4.20
1538 3100 6.717084 TCTGTATATCAGACCATCATCGTCTT 59.283 38.462 2.01 0.00 46.77 3.01
1552 3114 7.094975 CCATCATCGTCTTAGTAAAACCAACAA 60.095 37.037 0.00 0.00 0.00 2.83
1562 3124 9.878599 CTTAGTAAAACCAACAACAATCTGTAG 57.121 33.333 0.00 0.00 0.00 2.74
1619 3181 6.936279 TCTTCTCTCATTAACGTTGGATCTT 58.064 36.000 11.99 0.00 0.00 2.40
1623 3185 6.037786 TCTCATTAACGTTGGATCTTGTCT 57.962 37.500 11.99 0.00 0.00 3.41
1838 3422 7.537306 CCATCATCGTTTTAGTAAAACCAACAG 59.463 37.037 25.58 15.08 46.12 3.16
1883 3480 8.429493 TTCTGCAACTGACATTAGATGATTAG 57.571 34.615 0.00 0.00 0.00 1.73
1924 3524 7.049754 GCAAAATTCACCCTGATAATTTCCAT 58.950 34.615 0.00 0.00 32.98 3.41
1945 3546 7.728148 TCCATCATATTTTTACCGCACTAGTA 58.272 34.615 0.00 0.00 0.00 1.82
1948 3549 8.700644 CATCATATTTTTACCGCACTAGTACTC 58.299 37.037 0.00 0.00 0.00 2.59
1985 3590 9.056005 TGGTTTATGTCATTGATAATCAGCTAC 57.944 33.333 0.00 0.00 0.00 3.58
1997 3602 6.488344 TGATAATCAGCTACGAGATTCTCTGT 59.512 38.462 11.75 12.57 36.07 3.41
2274 3879 1.453155 ACAAGATCCTTTTGCGCGAT 58.547 45.000 12.10 0.00 0.00 4.58
2505 4113 6.806739 TGTCATATGAGAACAGTTCAGTAACG 59.193 38.462 15.85 0.37 40.73 3.18
3745 5364 4.382345 AACGTGCTACTATTACACTCCC 57.618 45.455 0.00 0.00 32.07 4.30
3766 5385 5.535406 TCCCTCATTCTTAGACGTCCTAATC 59.465 44.000 13.01 0.00 36.80 1.75
4119 7603 6.805271 GTCTCTGGATGAAATGATGTTTGTTG 59.195 38.462 0.00 0.00 0.00 3.33
4130 7614 5.947228 TGATGTTTGTTGTCCTTGATCTC 57.053 39.130 0.00 0.00 0.00 2.75
4144 7629 1.069204 TGATCTCGGCCTCAACTATGC 59.931 52.381 0.00 0.00 0.00 3.14
4333 8952 1.900545 GAGGCCCTGTTCGGTAGCTT 61.901 60.000 0.00 0.00 0.00 3.74
4355 8974 4.527583 GCTCCCAGCTCCGCTCTG 62.528 72.222 0.00 0.00 36.40 3.35
4387 9056 2.362503 ATCGGAGAGGCGTCCACA 60.363 61.111 2.06 0.00 43.63 4.17
4391 9060 1.442148 GGAGAGGCGTCCACATACC 59.558 63.158 2.06 0.00 36.51 2.73
4395 9064 1.559682 AGAGGCGTCCACATACCAAAT 59.440 47.619 2.06 0.00 0.00 2.32
4397 9066 3.131396 GAGGCGTCCACATACCAAATAG 58.869 50.000 0.00 0.00 0.00 1.73
4428 9097 0.254747 TTTCGGCGATCCCAGGAATT 59.745 50.000 11.76 0.00 0.00 2.17
4465 9134 7.558604 AGTTGGCATTATTTATGAGCAAATGT 58.441 30.769 0.00 0.00 36.26 2.71
4553 9225 1.608717 CCTGCTCGTCAACCCTAGCT 61.609 60.000 0.00 0.00 35.95 3.32
4598 9270 4.891727 CGCCGCCGCCATCTACTT 62.892 66.667 0.00 0.00 0.00 2.24
4599 9271 3.272334 GCCGCCGCCATCTACTTG 61.272 66.667 0.00 0.00 0.00 3.16
4600 9272 3.272334 CCGCCGCCATCTACTTGC 61.272 66.667 0.00 0.00 0.00 4.01
4601 9273 3.272334 CGCCGCCATCTACTTGCC 61.272 66.667 0.00 0.00 0.00 4.52
4602 9274 3.272334 GCCGCCATCTACTTGCCG 61.272 66.667 0.00 0.00 0.00 5.69
4603 9275 3.272334 CCGCCATCTACTTGCCGC 61.272 66.667 0.00 0.00 0.00 6.53
4604 9276 3.272334 CGCCATCTACTTGCCGCC 61.272 66.667 0.00 0.00 0.00 6.13
4605 9277 3.272334 GCCATCTACTTGCCGCCG 61.272 66.667 0.00 0.00 0.00 6.46
4620 9292 2.646719 CCGGTGAACGTCTTCCGA 59.353 61.111 20.99 0.00 44.86 4.55
4622 9294 1.008194 CGGTGAACGTCTTCCGACA 60.008 57.895 16.47 0.00 44.86 4.35
4723 9399 4.767255 GGGCACTCCTGCTGTCGG 62.767 72.222 0.00 0.00 43.66 4.79
4746 9422 2.685380 CTGCTCCTCTCCCCCGTT 60.685 66.667 0.00 0.00 0.00 4.44
4776 9452 2.499289 TCCAGAATCTCAAGGTGAGCTC 59.501 50.000 6.82 6.82 43.95 4.09
4778 9454 1.134848 AGAATCTCAAGGTGAGCTCGC 60.135 52.381 19.20 19.20 43.95 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 1.328279 CCTTTCTCGGCCCTGTTTTT 58.672 50.000 0.00 0.00 0.00 1.94
12 13 1.355066 CTCAACTCGCCTTTCTCGGC 61.355 60.000 0.00 0.00 46.68 5.54
46 47 2.595878 CGTCTATCCGCTCGCTCGA 61.596 63.158 0.00 0.00 0.00 4.04
57 58 0.248539 ACGAGAAAGCGGCGTCTATC 60.249 55.000 9.37 2.28 31.98 2.08
58 59 0.172803 AACGAGAAAGCGGCGTCTAT 59.827 50.000 9.37 0.00 37.26 1.98
59 60 0.038892 AAACGAGAAAGCGGCGTCTA 60.039 50.000 9.37 0.00 37.26 2.59
60 61 1.282930 GAAACGAGAAAGCGGCGTCT 61.283 55.000 9.37 2.92 37.26 4.18
61 62 1.130009 GAAACGAGAAAGCGGCGTC 59.870 57.895 9.37 0.13 37.26 5.19
64 65 2.474712 CCGAAACGAGAAAGCGGC 59.525 61.111 0.00 0.00 35.17 6.53
65 66 2.474712 GCCGAAACGAGAAAGCGG 59.525 61.111 0.00 0.00 44.47 5.52
66 67 2.093983 CGCCGAAACGAGAAAGCG 59.906 61.111 0.00 0.00 37.39 4.68
68 69 0.365859 GTAGCGCCGAAACGAGAAAG 59.634 55.000 2.29 0.00 34.06 2.62
162 1162 1.005394 GCGACGTTCCTTCCTTGGA 60.005 57.895 0.00 0.00 0.00 3.53
217 1217 7.217200 AGTGAACCGAATGCATGTAGTATAAT 58.783 34.615 0.00 0.00 0.00 1.28
218 1218 6.578944 AGTGAACCGAATGCATGTAGTATAA 58.421 36.000 0.00 0.00 0.00 0.98
219 1219 6.156748 AGTGAACCGAATGCATGTAGTATA 57.843 37.500 0.00 0.00 0.00 1.47
220 1220 5.023533 AGTGAACCGAATGCATGTAGTAT 57.976 39.130 0.00 0.00 0.00 2.12
221 1221 4.465632 AGTGAACCGAATGCATGTAGTA 57.534 40.909 0.00 0.00 0.00 1.82
222 1222 3.334583 AGTGAACCGAATGCATGTAGT 57.665 42.857 0.00 0.00 0.00 2.73
223 1223 4.083324 ACAAAGTGAACCGAATGCATGTAG 60.083 41.667 0.00 0.00 0.00 2.74
224 1224 3.818210 ACAAAGTGAACCGAATGCATGTA 59.182 39.130 0.00 0.00 0.00 2.29
225 1225 2.622942 ACAAAGTGAACCGAATGCATGT 59.377 40.909 0.00 0.00 0.00 3.21
226 1226 3.236816 GACAAAGTGAACCGAATGCATG 58.763 45.455 0.00 0.00 0.00 4.06
227 1227 2.884012 TGACAAAGTGAACCGAATGCAT 59.116 40.909 0.00 0.00 0.00 3.96
228 1228 2.290367 CTGACAAAGTGAACCGAATGCA 59.710 45.455 0.00 0.00 0.00 3.96
229 1229 2.350772 CCTGACAAAGTGAACCGAATGC 60.351 50.000 0.00 0.00 0.00 3.56
230 1230 2.350772 GCCTGACAAAGTGAACCGAATG 60.351 50.000 0.00 0.00 0.00 2.67
246 1246 1.553690 GCCCAGACCTACTTGCCTGA 61.554 60.000 0.00 0.00 0.00 3.86
314 1756 1.512996 CCAAGTGCAGTGCAGTGGAG 61.513 60.000 31.29 21.44 43.55 3.86
315 1757 1.526686 CCAAGTGCAGTGCAGTGGA 60.527 57.895 31.29 17.90 43.55 4.02
316 1758 3.036577 CCAAGTGCAGTGCAGTGG 58.963 61.111 25.71 25.74 41.77 4.00
318 1760 3.282157 CGCCAAGTGCAGTGCAGT 61.282 61.111 20.42 20.16 44.78 4.40
366 1808 4.388499 CGTGGGGGTTCTCGGTGG 62.388 72.222 0.00 0.00 0.00 4.61
368 1810 3.622826 CACGTGGGGGTTCTCGGT 61.623 66.667 7.95 0.00 0.00 4.69
372 1814 4.265056 GTGCCACGTGGGGGTTCT 62.265 66.667 34.58 0.00 37.04 3.01
504 1947 1.619669 GGGTGGGGTGGAGGATCTT 60.620 63.158 0.00 0.00 33.73 2.40
537 2009 1.005867 GTTGTCGTAGGGTTCGGCA 60.006 57.895 0.00 0.00 41.07 5.69
541 2013 1.297689 GGGGGTTGTCGTAGGGTTC 59.702 63.158 0.00 0.00 0.00 3.62
1173 2672 4.088351 TCCTCCTCCCCGGCATCA 62.088 66.667 0.00 0.00 0.00 3.07
1344 2861 4.151867 GCGATCTGAAACTAAGAAAACGGT 59.848 41.667 0.00 0.00 0.00 4.83
1417 2979 4.455190 TGTCTGCATCGTTTGAATGATTCA 59.545 37.500 3.29 3.29 38.04 2.57
1474 3036 0.827368 TGGGGGCACAAACAAGAAAC 59.173 50.000 0.00 0.00 0.00 2.78
1475 3037 1.573108 TTGGGGGCACAAACAAGAAA 58.427 45.000 0.00 0.00 0.00 2.52
1478 3040 2.158842 TGAATTTGGGGGCACAAACAAG 60.159 45.455 8.46 0.00 42.51 3.16
1514 3076 6.507958 AGACGATGATGGTCTGATATACAG 57.492 41.667 9.36 0.00 42.87 2.74
1536 3098 9.878599 CTACAGATTGTTGTTGGTTTTACTAAG 57.121 33.333 0.00 0.00 32.56 2.18
1538 3100 9.616156 TTCTACAGATTGTTGTTGGTTTTACTA 57.384 29.630 0.00 0.00 32.56 1.82
1587 3149 5.163953 ACGTTAATGAGAGAAGATGTTTGCG 60.164 40.000 0.58 0.00 0.00 4.85
1619 3181 4.162131 TCAGGATTCGATGGAAATCAGACA 59.838 41.667 0.00 0.00 35.40 3.41
1623 3185 4.760530 AGTCAGGATTCGATGGAAATCA 57.239 40.909 0.00 0.00 35.40 2.57
1859 3456 7.785033 TCTAATCATCTAATGTCAGTTGCAGA 58.215 34.615 0.00 0.00 0.00 4.26
1883 3480 9.455847 GTGAATTTTGCATCCAGATAACTATTC 57.544 33.333 0.00 0.00 0.00 1.75
1887 3484 5.127682 GGGTGAATTTTGCATCCAGATAACT 59.872 40.000 0.00 0.00 36.52 2.24
1924 3524 8.004087 AGAGTACTAGTGCGGTAAAAATATGA 57.996 34.615 5.39 0.00 0.00 2.15
1936 3537 7.331193 ACCAAATTAGAAAAGAGTACTAGTGCG 59.669 37.037 5.39 0.00 0.00 5.34
1985 3590 6.789822 AGTTGAAGAACTCACAGAGAATCTCG 60.790 42.308 4.42 2.85 40.50 4.04
1997 3602 3.068165 TCTCGAAGCAGTTGAAGAACTCA 59.932 43.478 0.00 0.00 40.68 3.41
2183 3788 2.269940 AGGTAAACCTCCTGCAGACAT 58.730 47.619 17.39 0.00 44.77 3.06
2274 3879 2.259266 TCATGCAGCAAGTCTTGTCA 57.741 45.000 14.03 9.87 0.00 3.58
2333 3938 1.446907 CTTCTGCATCACACTGTCCC 58.553 55.000 0.00 0.00 0.00 4.46
2505 4113 7.504911 TCCTTGACTAGTACCAGTAATCATACC 59.495 40.741 0.00 0.00 32.08 2.73
2576 4184 9.218525 TCCCTGAAAGATAAATTACAGAGAGAT 57.781 33.333 0.00 0.00 34.07 2.75
3745 5364 6.915300 CACAGATTAGGACGTCTAAGAATGAG 59.085 42.308 16.46 3.81 40.85 2.90
3766 5385 7.201291 CGATGCTGAAAATCAACATTAACACAG 60.201 37.037 0.00 0.00 33.74 3.66
4119 7603 0.537188 TTGAGGCCGAGATCAAGGAC 59.463 55.000 10.26 7.39 35.21 3.85
4130 7614 1.164411 TGTTTGCATAGTTGAGGCCG 58.836 50.000 0.00 0.00 32.41 6.13
4144 7629 5.920273 ACGACAGCCAGAATTAAAATGTTTG 59.080 36.000 0.00 0.00 0.00 2.93
4372 9041 1.065928 GTATGTGGACGCCTCTCCG 59.934 63.158 0.00 0.00 32.22 4.63
4387 9056 0.602905 GCCGCTCCGCTATTTGGTAT 60.603 55.000 0.00 0.00 0.00 2.73
4391 9060 0.381801 AAATGCCGCTCCGCTATTTG 59.618 50.000 0.00 0.00 0.00 2.32
4395 9064 2.171079 CGAAAATGCCGCTCCGCTA 61.171 57.895 0.00 0.00 0.00 4.26
4397 9066 4.536687 CCGAAAATGCCGCTCCGC 62.537 66.667 0.00 0.00 0.00 5.54
4428 9097 1.139498 TGCCAACTCCAGGATTCCCA 61.139 55.000 0.00 0.00 33.88 4.37
4441 9110 7.492020 TGACATTTGCTCATAAATAATGCCAAC 59.508 33.333 0.00 0.00 35.38 3.77
4553 9225 4.680237 CTCGTCCGTTGGCTGGCA 62.680 66.667 0.00 0.00 0.00 4.92
4589 9261 2.588877 CCGGCGGCAAGTAGATGG 60.589 66.667 15.42 0.00 0.00 3.51
4590 9262 2.173669 CACCGGCGGCAAGTAGATG 61.174 63.158 28.71 10.48 0.00 2.90
4591 9263 1.895020 TTCACCGGCGGCAAGTAGAT 61.895 55.000 28.71 0.00 0.00 1.98
4592 9264 2.575893 TTCACCGGCGGCAAGTAGA 61.576 57.895 28.71 11.63 0.00 2.59
4593 9265 2.047655 TTCACCGGCGGCAAGTAG 60.048 61.111 28.71 9.29 0.00 2.57
4594 9266 2.357760 GTTCACCGGCGGCAAGTA 60.358 61.111 28.71 7.39 0.00 2.24
4603 9275 2.646719 TCGGAAGACGTTCACCGG 59.353 61.111 21.26 0.00 44.57 5.28
4620 9292 4.309950 GACTGTCGGCGGGGTTGT 62.310 66.667 7.21 0.00 0.00 3.32
4622 9294 3.692406 GAGACTGTCGGCGGGGTT 61.692 66.667 7.21 0.00 0.00 4.11
4660 9332 2.282958 AGGAAGGACTCGCGGTCA 60.283 61.111 23.07 0.00 46.16 4.02
4724 9400 2.125350 GGGAGAGGAGCAGCGTTG 60.125 66.667 0.00 0.00 0.00 4.10
4725 9401 3.394836 GGGGAGAGGAGCAGCGTT 61.395 66.667 0.00 0.00 0.00 4.84
4746 9422 0.174389 GAGATTCTGGAGCTGCGACA 59.826 55.000 0.00 0.00 0.00 4.35
4778 9454 0.962356 GGTGAGGTTGCACATCTGGG 60.962 60.000 0.00 0.00 40.52 4.45


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

AutoCloner maintained by Alex Coulton.