Multiple sequence alignment - TraesCS4A01G094300

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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 TraesCS4A01G094300 chr4A 100.000 3471 0 0 1 3471 102448674 102445204 0.000000e+00 6410.0
1 TraesCS4A01G094300 chr4B 89.786 3593 171 58 3 3471 448800741 448804261 0.000000e+00 4421.0
2 TraesCS4A01G094300 chr4D 90.995 3076 136 42 473 3471 363246211 363249222 0.000000e+00 4015.0
3 TraesCS4A01G094300 chr4D 93.976 498 29 1 1561 2057 350259463 350258966 0.000000e+00 752.0
4 TraesCS4A01G094300 chr4D 88.825 519 49 8 1048 1563 350265857 350265345 2.270000e-176 628.0
5 TraesCS4A01G094300 chr4D 94.652 187 7 3 299 484 363245518 363245702 1.580000e-73 287.0
6 TraesCS4A01G094300 chr4D 86.975 238 23 5 3 238 363245167 363245398 9.560000e-66 261.0
7 TraesCS4A01G094300 chr5A 90.847 1027 73 7 1045 2054 52485071 52484049 0.000000e+00 1356.0
8 TraesCS4A01G094300 chr1B 100.000 34 0 0 1655 1688 536124041 536124074 2.890000e-06 63.9


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 TraesCS4A01G094300 chr4A 102445204 102448674 3470 True 6410 6410 100.000 1 3471 1 chr4A.!!$R1 3470
1 TraesCS4A01G094300 chr4B 448800741 448804261 3520 False 4421 4421 89.786 3 3471 1 chr4B.!!$F1 3468
2 TraesCS4A01G094300 chr4D 363245167 363249222 4055 False 1521 4015 90.874 3 3471 3 chr4D.!!$F1 3468
3 TraesCS4A01G094300 chr4D 350265345 350265857 512 True 628 628 88.825 1048 1563 1 chr4D.!!$R2 515
4 TraesCS4A01G094300 chr5A 52484049 52485071 1022 True 1356 1356 90.847 1045 2054 1 chr5A.!!$R1 1009

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
93 95 0.247814 CGTGATTCGCATGGCACTTC 60.248 55.000 0.00 0.0 0.00 3.01 F
131 133 0.474660 GAGGGAGGCATGGGGTAGAT 60.475 60.000 0.00 0.0 0.00 1.98 F
132 134 0.769776 AGGGAGGCATGGGGTAGATG 60.770 60.000 0.00 0.0 0.00 2.90 F
159 162 0.876342 CGCCCGATTGCTCTTAGGAC 60.876 60.000 0.00 0.0 0.00 3.85 F
342 403 0.933097 CAAGTCGGATTGGCATCGAG 59.067 55.000 8.05 0.0 33.41 4.04 F
358 422 1.487976 TCGAGGGATCCACGTAGTACT 59.512 52.381 23.10 0.0 41.61 2.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1402 2046 0.248702 GCTCTCCTTTCGGCGTAGAG 60.249 60.000 6.85 13.00 37.37 2.43 R
1466 2110 0.457035 ACGCACATGCAATTCCATCC 59.543 50.000 4.49 0.00 42.21 3.51 R
2066 2726 0.687757 TCCTTCCTCTCCATGACCCG 60.688 60.000 0.00 0.00 0.00 5.28 R
2072 2732 2.427245 CGCCGTCCTTCCTCTCCAT 61.427 63.158 0.00 0.00 0.00 3.41 R
2233 2893 1.599047 GCTTCCACTGCTCTGCCTA 59.401 57.895 0.00 0.00 0.00 3.93 R
2507 3176 1.226802 CGCTGAGTCAGGGATCACG 60.227 63.158 28.35 14.97 45.41 4.35 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
31 33 2.420022 GAGTACATGGCATTGTCACCAC 59.580 50.000 0.00 0.00 39.19 4.16
62 64 2.580867 GCAGCTAGCGTGGTCTCG 60.581 66.667 9.55 0.00 0.00 4.04
93 95 0.247814 CGTGATTCGCATGGCACTTC 60.248 55.000 0.00 0.00 0.00 3.01
111 113 5.220931 GCACTTCCATATTTCTTCGAGCATT 60.221 40.000 0.00 0.00 0.00 3.56
116 118 4.214971 CCATATTTCTTCGAGCATTGAGGG 59.785 45.833 0.00 0.00 0.00 4.30
117 119 3.634397 ATTTCTTCGAGCATTGAGGGA 57.366 42.857 0.00 0.00 0.00 4.20
118 120 2.680312 TTCTTCGAGCATTGAGGGAG 57.320 50.000 0.00 0.00 0.00 4.30
119 121 0.826715 TCTTCGAGCATTGAGGGAGG 59.173 55.000 0.00 0.00 0.00 4.30
129 131 0.988145 TTGAGGGAGGCATGGGGTAG 60.988 60.000 0.00 0.00 0.00 3.18
130 132 1.074471 GAGGGAGGCATGGGGTAGA 60.074 63.158 0.00 0.00 0.00 2.59
131 133 0.474660 GAGGGAGGCATGGGGTAGAT 60.475 60.000 0.00 0.00 0.00 1.98
132 134 0.769776 AGGGAGGCATGGGGTAGATG 60.770 60.000 0.00 0.00 0.00 2.90
149 152 2.126502 GTGTTTGCCGCCCGATTG 60.127 61.111 0.00 0.00 0.00 2.67
151 154 3.747976 GTTTGCCGCCCGATTGCT 61.748 61.111 0.00 0.00 0.00 3.91
153 156 3.918253 TTTGCCGCCCGATTGCTCT 62.918 57.895 0.00 0.00 0.00 4.09
159 162 0.876342 CGCCCGATTGCTCTTAGGAC 60.876 60.000 0.00 0.00 0.00 3.85
226 229 3.506067 TGTGAAAGAGACGACAGAGCATA 59.494 43.478 0.00 0.00 0.00 3.14
227 230 4.158579 TGTGAAAGAGACGACAGAGCATAT 59.841 41.667 0.00 0.00 0.00 1.78
228 231 5.105752 GTGAAAGAGACGACAGAGCATATT 58.894 41.667 0.00 0.00 0.00 1.28
229 232 5.231147 GTGAAAGAGACGACAGAGCATATTC 59.769 44.000 0.00 0.00 0.00 1.75
230 233 4.314740 AAGAGACGACAGAGCATATTCC 57.685 45.455 0.00 0.00 0.00 3.01
233 236 4.160439 AGAGACGACAGAGCATATTCCAAA 59.840 41.667 0.00 0.00 0.00 3.28
234 237 4.832248 AGACGACAGAGCATATTCCAAAA 58.168 39.130 0.00 0.00 0.00 2.44
291 322 5.349543 TCATCATGATTCTGACGAACACAAG 59.650 40.000 5.16 0.00 30.67 3.16
295 326 3.802139 TGATTCTGACGAACACAAGTCAC 59.198 43.478 0.00 0.00 41.81 3.67
321 382 2.957402 TCAAGCCTGTGGAAGAACAT 57.043 45.000 0.00 0.00 0.00 2.71
322 383 2.507484 TCAAGCCTGTGGAAGAACATG 58.493 47.619 0.00 0.00 0.00 3.21
323 384 1.068055 CAAGCCTGTGGAAGAACATGC 60.068 52.381 0.00 0.00 40.68 4.06
340 401 1.353103 GCAAGTCGGATTGGCATCG 59.647 57.895 0.00 0.00 0.00 3.84
342 403 0.933097 CAAGTCGGATTGGCATCGAG 59.067 55.000 8.05 0.00 33.41 4.04
358 422 1.487976 TCGAGGGATCCACGTAGTACT 59.512 52.381 23.10 0.00 41.61 2.73
359 423 2.700371 TCGAGGGATCCACGTAGTACTA 59.300 50.000 23.10 0.00 41.61 1.82
360 424 2.805099 CGAGGGATCCACGTAGTACTAC 59.195 54.545 21.06 21.06 41.61 2.73
678 1283 3.434319 GTCCGCCCGACTCGTGTA 61.434 66.667 0.00 0.00 38.57 2.90
943 1550 3.578272 CGTCGGAGGAGCGGAGAG 61.578 72.222 0.00 0.00 0.00 3.20
944 1551 3.213402 GTCGGAGGAGCGGAGAGG 61.213 72.222 0.00 0.00 0.00 3.69
945 1552 3.408853 TCGGAGGAGCGGAGAGGA 61.409 66.667 0.00 0.00 0.00 3.71
946 1553 2.904866 CGGAGGAGCGGAGAGGAG 60.905 72.222 0.00 0.00 0.00 3.69
947 1554 2.598467 GGAGGAGCGGAGAGGAGA 59.402 66.667 0.00 0.00 0.00 3.71
966 1573 9.389755 AGAGGAGAAATATTTAGCTCTTTGTTC 57.610 33.333 13.63 7.03 0.00 3.18
1209 1841 1.500512 CGACGGACGAGGAGGAGATC 61.501 65.000 0.00 0.00 45.77 2.75
1220 1852 4.292178 GGAGATCGAGCCCGCCAG 62.292 72.222 0.00 0.00 35.37 4.85
1233 1865 4.065281 GCCAGGTACGGCGTGACT 62.065 66.667 24.86 17.39 43.52 3.41
1269 1901 3.083997 AGGGACATGGAGGACGCC 61.084 66.667 0.00 0.00 0.00 5.68
1348 1987 2.459442 GGCTGCTCGCATGTGAGTC 61.459 63.158 31.23 24.18 41.67 3.36
1357 2000 4.675671 GCTCGCATGTGAGTCCCTATATAC 60.676 50.000 31.23 11.65 38.28 1.47
1360 2003 4.097418 GCATGTGAGTCCCTATATACCCT 58.903 47.826 0.00 0.00 0.00 4.34
1382 2026 7.503902 ACCCTTGCTTCAAATAATCTATCCTTC 59.496 37.037 0.00 0.00 0.00 3.46
1402 2046 9.627123 ATCCTTCTGATCTACTAGTAGCATATC 57.373 37.037 22.87 19.68 33.32 1.63
1466 2110 6.978343 TGTTTTGACTCGGGAGTATTTATG 57.022 37.500 0.48 0.00 42.66 1.90
1470 2114 5.468540 TGACTCGGGAGTATTTATGGATG 57.531 43.478 0.48 0.00 42.66 3.51
2051 2711 3.185246 ACCTGAAGCCATTCGTGATAG 57.815 47.619 0.00 0.00 38.34 2.08
2233 2893 1.920835 GACCTCCAACCTGAGCCCT 60.921 63.158 0.00 0.00 0.00 5.19
2299 2965 2.434359 GAAGCCCAGAACGACGGG 60.434 66.667 0.00 0.00 46.15 5.28
2507 3176 3.162666 TGGATCCACCATACTATCGTCC 58.837 50.000 11.44 0.00 44.64 4.79
2657 3337 0.312729 TTTTCCTTTCGAAAGCCGGC 59.687 50.000 28.68 21.89 41.47 6.13
2662 3342 2.309764 CTTTCGAAAGCCGGCGATGG 62.310 60.000 23.91 15.33 39.14 3.51
2681 3361 0.234884 GTTTCCGGCGTGTCAAGAAG 59.765 55.000 6.01 0.00 0.00 2.85
2682 3362 1.503818 TTTCCGGCGTGTCAAGAAGC 61.504 55.000 6.01 0.00 0.00 3.86
2683 3363 2.357517 CCGGCGTGTCAAGAAGCT 60.358 61.111 6.01 0.00 0.00 3.74
2684 3364 1.961277 CCGGCGTGTCAAGAAGCTT 60.961 57.895 6.01 0.00 0.00 3.74
2685 3365 1.507141 CCGGCGTGTCAAGAAGCTTT 61.507 55.000 6.01 0.00 0.00 3.51
2701 3381 1.996191 GCTTTCTTTCTCGAGCGTCAT 59.004 47.619 7.81 0.00 0.00 3.06
2713 3393 2.594654 CGAGCGTCATGAGAAACTGTAC 59.405 50.000 0.00 0.00 0.00 2.90
2745 3425 3.004315 GTGGAAACGATCAAAGCTTCCAA 59.996 43.478 0.00 0.00 43.04 3.53
2746 3426 3.826157 TGGAAACGATCAAAGCTTCCAAT 59.174 39.130 0.00 0.00 39.88 3.16
2747 3427 4.082787 TGGAAACGATCAAAGCTTCCAATC 60.083 41.667 0.00 2.59 39.88 2.67
2764 3444 3.390135 CAATCTTCCATTCCATGCATGC 58.610 45.455 21.69 11.82 0.00 4.06
2765 3445 2.146920 TCTTCCATTCCATGCATGCA 57.853 45.000 25.04 25.04 0.00 3.96
2795 3475 1.529438 CTCCTCTGACTAGATCGCGAC 59.471 57.143 12.93 5.67 31.21 5.19
2804 3484 2.099427 ACTAGATCGCGACCTTCTTTCC 59.901 50.000 11.02 0.00 0.00 3.13
2807 3487 1.927838 GATCGCGACCTTCTTTCCTTC 59.072 52.381 12.93 0.00 0.00 3.46
2811 3491 2.096218 CGCGACCTTCTTTCCTTCTTTG 60.096 50.000 0.00 0.00 0.00 2.77
2813 3493 3.315470 GCGACCTTCTTTCCTTCTTTGTT 59.685 43.478 0.00 0.00 0.00 2.83
2814 3494 4.202020 GCGACCTTCTTTCCTTCTTTGTTT 60.202 41.667 0.00 0.00 0.00 2.83
2815 3495 5.008316 GCGACCTTCTTTCCTTCTTTGTTTA 59.992 40.000 0.00 0.00 0.00 2.01
2816 3496 6.294010 GCGACCTTCTTTCCTTCTTTGTTTAT 60.294 38.462 0.00 0.00 0.00 1.40
2817 3497 7.298854 CGACCTTCTTTCCTTCTTTGTTTATC 58.701 38.462 0.00 0.00 0.00 1.75
2818 3498 7.041372 CGACCTTCTTTCCTTCTTTGTTTATCA 60.041 37.037 0.00 0.00 0.00 2.15
2819 3499 8.712228 ACCTTCTTTCCTTCTTTGTTTATCAT 57.288 30.769 0.00 0.00 0.00 2.45
2820 3500 9.807921 ACCTTCTTTCCTTCTTTGTTTATCATA 57.192 29.630 0.00 0.00 0.00 2.15
2841 3521 1.472662 ATATGCTTCCTCCGGTCGGG 61.473 60.000 9.68 2.68 35.59 5.14
2926 3606 4.506654 CCTCGACTACAATAATGTTTCGGG 59.493 45.833 12.25 9.86 40.97 5.14
2927 3607 3.866910 TCGACTACAATAATGTTTCGGGC 59.133 43.478 12.25 0.00 41.04 6.13
2936 3616 0.035439 ATGTTTCGGGCGGATGTTCT 60.035 50.000 0.00 0.00 0.00 3.01
2941 3621 2.124278 GGGCGGATGTTCTTCCCC 60.124 66.667 0.00 0.00 31.61 4.81
2986 3666 3.012518 AGCTCGCATTGTTAATTCAGCT 58.987 40.909 0.00 0.00 0.00 4.24
2992 3672 3.438360 CATTGTTAATTCAGCTTCCGGC 58.562 45.455 0.00 0.00 42.19 6.13
2993 3673 2.192664 TGTTAATTCAGCTTCCGGCA 57.807 45.000 0.00 0.00 44.79 5.69
3002 3682 1.302511 GCTTCCGGCAGAACCTTCA 60.303 57.895 4.87 0.00 41.35 3.02
3045 3733 2.202987 CTGCCATGCTCTCCGTCC 60.203 66.667 0.00 0.00 0.00 4.79
3263 3972 2.223377 ACCGCTGAAATCACGTTTTCTC 59.777 45.455 12.58 5.37 36.71 2.87
3264 3973 2.223144 CCGCTGAAATCACGTTTTCTCA 59.777 45.455 12.58 1.63 36.71 3.27
3293 4002 4.988598 ACCTGTTGCGCTGTCCCG 62.989 66.667 9.73 0.00 0.00 5.14
3307 4016 2.510691 CCCGGGTTTGGTCGATCG 60.511 66.667 14.18 9.36 0.00 3.69
3327 4041 2.730672 CTTTGGCCGCGTCGAAGAG 61.731 63.158 16.91 0.00 36.95 2.85
3328 4042 3.215597 TTTGGCCGCGTCGAAGAGA 62.216 57.895 4.92 0.00 36.95 3.10
3329 4043 2.702751 TTTGGCCGCGTCGAAGAGAA 62.703 55.000 4.92 0.00 36.95 2.87
3330 4044 2.881352 GGCCGCGTCGAAGAGAAG 60.881 66.667 4.92 0.00 36.95 2.85
3331 4045 2.178521 GCCGCGTCGAAGAGAAGA 59.821 61.111 4.92 0.00 36.95 2.87
3332 4046 1.226717 GCCGCGTCGAAGAGAAGAT 60.227 57.895 4.92 0.00 36.95 2.40
3333 4047 0.802607 GCCGCGTCGAAGAGAAGATT 60.803 55.000 4.92 0.00 36.95 2.40
3334 4048 1.192793 CCGCGTCGAAGAGAAGATTC 58.807 55.000 4.92 0.00 36.95 2.52
3335 4049 1.202200 CCGCGTCGAAGAGAAGATTCT 60.202 52.381 4.92 0.00 41.00 2.40
3356 4070 4.275936 TCTTTCTTTCTTTCTTTCTGGGCG 59.724 41.667 0.00 0.00 0.00 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.128692 GCCATGTACTCAACTGAACGC 59.871 52.381 0.00 0.00 0.00 4.84
1 2 2.412870 TGCCATGTACTCAACTGAACG 58.587 47.619 0.00 0.00 0.00 3.95
5 6 3.752747 TGACAATGCCATGTACTCAACTG 59.247 43.478 0.00 0.00 32.57 3.16
31 33 1.444895 GCTGCTGGCGTCCATTTTG 60.445 57.895 0.00 0.00 30.82 2.44
59 61 1.268265 TCACGTGAAATCGCATCGAG 58.732 50.000 17.62 0.00 39.91 4.04
62 64 2.618419 CGAATCACGTGAAATCGCATC 58.382 47.619 30.90 17.10 37.22 3.91
93 95 4.214971 CCCTCAATGCTCGAAGAAATATGG 59.785 45.833 0.00 0.00 34.09 2.74
96 98 4.443457 CCTCCCTCAATGCTCGAAGAAATA 60.443 45.833 0.00 0.00 34.09 1.40
111 113 1.384502 CTACCCCATGCCTCCCTCA 60.385 63.158 0.00 0.00 0.00 3.86
116 118 0.839946 ACACATCTACCCCATGCCTC 59.160 55.000 0.00 0.00 0.00 4.70
117 119 1.298953 AACACATCTACCCCATGCCT 58.701 50.000 0.00 0.00 0.00 4.75
118 120 1.750778 CAAACACATCTACCCCATGCC 59.249 52.381 0.00 0.00 0.00 4.40
119 121 1.134946 GCAAACACATCTACCCCATGC 59.865 52.381 0.00 0.00 0.00 4.06
129 131 1.933115 AATCGGGCGGCAAACACATC 61.933 55.000 12.47 0.00 0.00 3.06
130 132 1.976474 AATCGGGCGGCAAACACAT 60.976 52.632 12.47 0.00 0.00 3.21
131 133 2.596046 AATCGGGCGGCAAACACA 60.596 55.556 12.47 0.00 0.00 3.72
132 134 2.126502 CAATCGGGCGGCAAACAC 60.127 61.111 12.47 0.00 0.00 3.32
149 152 2.278923 GAGCGCGGTCCTAAGAGC 60.279 66.667 27.12 0.00 37.15 4.09
151 154 2.042259 TTCGAGCGCGGTCCTAAGA 61.042 57.895 30.42 19.46 38.28 2.10
153 156 2.180017 GTTCGAGCGCGGTCCTAA 59.820 61.111 30.42 21.91 38.28 2.69
173 176 2.809601 CACGAGAAAGGACCCGCG 60.810 66.667 0.00 0.00 0.00 6.46
178 181 0.603569 TCCTCTGCACGAGAAAGGAC 59.396 55.000 12.91 0.00 42.62 3.85
226 229 5.104735 TGCTGTTTTACCTTGGTTTTGGAAT 60.105 36.000 0.00 0.00 0.00 3.01
227 230 4.223032 TGCTGTTTTACCTTGGTTTTGGAA 59.777 37.500 0.00 0.00 0.00 3.53
228 231 3.769844 TGCTGTTTTACCTTGGTTTTGGA 59.230 39.130 0.00 0.00 0.00 3.53
229 232 4.130286 TGCTGTTTTACCTTGGTTTTGG 57.870 40.909 0.00 0.00 0.00 3.28
230 233 5.415221 TCTTGCTGTTTTACCTTGGTTTTG 58.585 37.500 0.00 0.00 0.00 2.44
233 236 3.636764 CCTCTTGCTGTTTTACCTTGGTT 59.363 43.478 0.00 0.00 0.00 3.67
234 237 3.117663 TCCTCTTGCTGTTTTACCTTGGT 60.118 43.478 0.00 0.00 0.00 3.67
291 322 3.366679 CCACAGGCTTGATGATTTGTGAC 60.367 47.826 1.40 0.00 38.47 3.67
295 326 3.760151 TCTTCCACAGGCTTGATGATTTG 59.240 43.478 1.40 0.00 0.00 2.32
321 382 1.368345 CGATGCCAATCCGACTTGCA 61.368 55.000 0.00 0.00 0.00 4.08
322 383 1.089481 TCGATGCCAATCCGACTTGC 61.089 55.000 0.00 0.00 0.00 4.01
323 384 0.933097 CTCGATGCCAATCCGACTTG 59.067 55.000 0.00 0.00 0.00 3.16
358 422 2.359354 GGCCACACCATGCACGTA 60.359 61.111 0.00 0.00 38.86 3.57
571 1170 3.443925 CTCCGTGGCTGCTCTCGA 61.444 66.667 12.02 0.00 0.00 4.04
662 1267 3.129502 CTACACGAGTCGGGCGGA 61.130 66.667 16.31 0.00 31.12 5.54
943 1550 9.780413 CAAGAACAAAGAGCTAAATATTTCTCC 57.220 33.333 3.39 0.00 0.00 3.71
944 1551 9.283420 GCAAGAACAAAGAGCTAAATATTTCTC 57.717 33.333 3.39 6.39 0.00 2.87
945 1552 8.246871 GGCAAGAACAAAGAGCTAAATATTTCT 58.753 33.333 3.39 0.00 0.00 2.52
946 1553 8.246871 AGGCAAGAACAAAGAGCTAAATATTTC 58.753 33.333 3.39 0.00 0.00 2.17
947 1554 8.031277 CAGGCAAGAACAAAGAGCTAAATATTT 58.969 33.333 5.89 5.89 0.00 1.40
966 1573 0.035630 ACCAAGCTAGAGCAGGCAAG 60.036 55.000 11.60 0.00 45.16 4.01
1152 1784 1.519719 CTTCCGCCTCTTCCTGGAG 59.480 63.158 0.00 0.00 0.00 3.86
1220 1852 2.505557 CCGAAGTCACGCCGTACC 60.506 66.667 0.00 0.00 0.00 3.34
1269 1901 3.195591 CTCGGGCCGGATAGACACG 62.196 68.421 27.98 0.00 0.00 4.49
1348 1987 9.178758 GATTATTTGAAGCAAGGGTATATAGGG 57.821 37.037 0.00 0.00 0.00 3.53
1357 2000 7.723172 AGAAGGATAGATTATTTGAAGCAAGGG 59.277 37.037 0.00 0.00 0.00 3.95
1360 2003 9.857656 ATCAGAAGGATAGATTATTTGAAGCAA 57.142 29.630 0.00 0.00 33.37 3.91
1382 2026 9.244799 CGTAGAGATATGCTACTAGTAGATCAG 57.755 40.741 30.09 9.52 36.85 2.90
1402 2046 0.248702 GCTCTCCTTTCGGCGTAGAG 60.249 60.000 6.85 13.00 37.37 2.43
1439 2083 1.947456 ACTCCCGAGTCAAAACAAAGC 59.053 47.619 0.00 0.00 36.92 3.51
1466 2110 0.457035 ACGCACATGCAATTCCATCC 59.543 50.000 4.49 0.00 42.21 3.51
1470 2114 1.202177 CCTACACGCACATGCAATTCC 60.202 52.381 4.49 0.00 42.21 3.01
1807 2459 2.550978 CATACCTTGTGGTCGGATGAC 58.449 52.381 0.00 0.00 44.78 3.06
1934 2594 2.202743 CGCTTGGATCCGCTCGAA 60.203 61.111 7.39 0.00 0.00 3.71
2066 2726 0.687757 TCCTTCCTCTCCATGACCCG 60.688 60.000 0.00 0.00 0.00 5.28
2072 2732 2.427245 CGCCGTCCTTCCTCTCCAT 61.427 63.158 0.00 0.00 0.00 3.41
2233 2893 1.599047 GCTTCCACTGCTCTGCCTA 59.401 57.895 0.00 0.00 0.00 3.93
2507 3176 1.226802 CGCTGAGTCAGGGATCACG 60.227 63.158 28.35 14.97 45.41 4.35
2657 3337 2.736682 GACACGCCGGAAACCATCG 61.737 63.158 5.05 0.00 0.00 3.84
2662 3342 0.234884 CTTCTTGACACGCCGGAAAC 59.765 55.000 5.05 0.00 0.00 2.78
2681 3361 1.419374 TGACGCTCGAGAAAGAAAGC 58.581 50.000 18.75 0.00 0.00 3.51
2682 3362 3.245797 TCATGACGCTCGAGAAAGAAAG 58.754 45.455 18.75 0.00 0.00 2.62
2683 3363 3.057526 TCTCATGACGCTCGAGAAAGAAA 60.058 43.478 18.75 0.00 32.96 2.52
2684 3364 2.488153 TCTCATGACGCTCGAGAAAGAA 59.512 45.455 18.75 0.00 32.96 2.52
2685 3365 2.084546 TCTCATGACGCTCGAGAAAGA 58.915 47.619 18.75 4.33 32.96 2.52
2701 3381 6.183360 CCACCGGATTATAGTACAGTTTCTCA 60.183 42.308 9.46 0.00 0.00 3.27
2713 3393 4.878439 TGATCGTTTCCACCGGATTATAG 58.122 43.478 9.46 0.00 0.00 1.31
2764 3444 4.959560 AGTCAGAGGAGGATGAATCATG 57.040 45.455 0.00 0.00 0.00 3.07
2765 3445 5.963092 TCTAGTCAGAGGAGGATGAATCAT 58.037 41.667 0.00 0.00 0.00 2.45
2767 3447 5.123820 CGATCTAGTCAGAGGAGGATGAATC 59.876 48.000 0.00 0.00 33.22 2.52
2769 3449 4.393834 CGATCTAGTCAGAGGAGGATGAA 58.606 47.826 0.00 0.00 33.22 2.57
2811 3491 7.295952 CGGAGGAAGCATATGTATGATAAAC 57.704 40.000 4.29 0.00 35.75 2.01
2842 3522 1.253116 CTCACAATTGCGCAATCACG 58.747 50.000 33.93 25.76 0.00 4.35
2843 3523 1.068333 ACCTCACAATTGCGCAATCAC 60.068 47.619 33.93 0.00 0.00 3.06
2986 3666 0.534203 GTGTGAAGGTTCTGCCGGAA 60.534 55.000 5.05 0.00 43.70 4.30
2992 3672 2.653890 CATTTGCGTGTGAAGGTTCTG 58.346 47.619 0.00 0.00 0.00 3.02
2993 3673 1.001378 GCATTTGCGTGTGAAGGTTCT 60.001 47.619 0.00 0.00 0.00 3.01
3119 3807 1.419922 CCGCGGATTTGTTGACTCG 59.580 57.895 24.07 0.00 0.00 4.18
3141 3829 1.065199 TGTCCACCATGATCAGGCTTC 60.065 52.381 0.73 0.00 0.00 3.86
3142 3830 0.994247 TGTCCACCATGATCAGGCTT 59.006 50.000 0.73 0.00 0.00 4.35
3175 3863 0.457853 TCGTCAAGTCGCAGCATACC 60.458 55.000 0.00 0.00 0.00 2.73
3214 3921 2.644798 CTCCCTCCTTTCTTTTCTCCCA 59.355 50.000 0.00 0.00 0.00 4.37
3293 4002 1.463444 CAAAGACGATCGACCAAACCC 59.537 52.381 24.34 0.27 0.00 4.11
3294 4003 1.463444 CCAAAGACGATCGACCAAACC 59.537 52.381 24.34 1.66 0.00 3.27
3307 4016 3.011760 CTTCGACGCGGCCAAAGAC 62.012 63.158 14.90 0.00 0.00 3.01
3329 4043 7.255766 GCCCAGAAAGAAAGAAAGAAAGAATCT 60.256 37.037 0.00 0.00 41.32 2.40
3330 4044 6.865726 GCCCAGAAAGAAAGAAAGAAAGAATC 59.134 38.462 0.00 0.00 0.00 2.52
3331 4045 6.515696 CGCCCAGAAAGAAAGAAAGAAAGAAT 60.516 38.462 0.00 0.00 0.00 2.40
3332 4046 5.221048 CGCCCAGAAAGAAAGAAAGAAAGAA 60.221 40.000 0.00 0.00 0.00 2.52
3333 4047 4.275936 CGCCCAGAAAGAAAGAAAGAAAGA 59.724 41.667 0.00 0.00 0.00 2.52
3334 4048 4.540824 CGCCCAGAAAGAAAGAAAGAAAG 58.459 43.478 0.00 0.00 0.00 2.62
3335 4049 3.317993 CCGCCCAGAAAGAAAGAAAGAAA 59.682 43.478 0.00 0.00 0.00 2.52
3356 4070 5.673337 TCAAGCGAAACTATTATCATGCC 57.327 39.130 0.00 0.00 0.00 4.40


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

AutoCloner maintained by Alex Coulton.