Multiple sequence alignment - TraesCS6B01G246800

Loading Multiple Alignment...

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 TraesCS6B01G246800 chr6B 100.000 2912 0 0 1 2912 439075236 439078147 0.000000e+00 5378.0
1 TraesCS6B01G246800 chr6B 88.916 406 26 11 2363 2753 715015596 715015997 1.570000e-132 483.0
2 TraesCS6B01G246800 chr6A 92.897 1633 66 20 427 2040 398168509 398166908 0.000000e+00 2327.0
3 TraesCS6B01G246800 chr6D 92.544 1368 56 20 699 2033 277267624 277266270 0.000000e+00 1919.0
4 TraesCS6B01G246800 chr6D 94.834 271 13 1 427 697 277269548 277269279 3.470000e-114 422.0
5 TraesCS6B01G246800 chr1B 95.857 700 26 3 2213 2912 298094673 298093977 0.000000e+00 1129.0
6 TraesCS6B01G246800 chr1B 90.411 146 5 4 2034 2172 298094983 298094840 1.780000e-42 183.0
7 TraesCS6B01G246800 chr1B 90.291 103 8 2 2069 2170 599241345 599241244 1.820000e-27 134.0
8 TraesCS6B01G246800 chr1B 83.212 137 14 6 2040 2169 298093740 298093874 1.830000e-22 117.0
9 TraesCS6B01G246800 chr1A 90.977 399 26 10 2363 2755 558706473 558706867 1.990000e-146 529.0
10 TraesCS6B01G246800 chr1A 89.681 407 24 8 2365 2755 492619316 492618912 1.200000e-138 503.0
11 TraesCS6B01G246800 chr1A 89.242 409 23 11 2363 2755 75803015 75802612 2.610000e-135 492.0
12 TraesCS6B01G246800 chr1A 89.356 404 24 9 2366 2754 492429491 492429092 9.380000e-135 490.0
13 TraesCS6B01G246800 chr1A 88.206 407 29 10 2363 2753 104828572 104828169 4.390000e-128 468.0
14 TraesCS6B01G246800 chr1A 80.412 194 32 2 2178 2365 558705884 558706077 3.020000e-30 143.0
15 TraesCS6B01G246800 chr1A 76.087 184 29 9 2183 2365 441843616 441843785 6.690000e-12 82.4
16 TraesCS6B01G246800 chr4B 90.099 404 22 11 2366 2754 602729697 602729297 2.590000e-140 508.0
17 TraesCS6B01G246800 chr2D 90.957 376 28 3 1 370 648274780 648275155 4.330000e-138 501.0
18 TraesCS6B01G246800 chr2D 78.922 408 75 10 1505 1911 446652681 446652284 1.720000e-67 267.0
19 TraesCS6B01G246800 chr2D 77.129 411 77 14 1505 1911 446932523 446932920 3.780000e-54 222.0
20 TraesCS6B01G246800 chr2D 93.506 77 5 0 1 77 648274528 648274604 6.590000e-22 115.0
21 TraesCS6B01G246800 chr7B 89.435 407 25 10 2363 2754 33627375 33627778 5.600000e-137 497.0
22 TraesCS6B01G246800 chr4A 88.561 271 23 2 1622 1892 590305517 590305779 3.620000e-84 322.0
23 TraesCS6B01G246800 chr2B 78.431 408 77 10 1505 1911 526670424 526670027 3.720000e-64 255.0
24 TraesCS6B01G246800 chr2B 82.639 144 16 6 2034 2170 757000398 757000257 5.100000e-23 119.0
25 TraesCS6B01G246800 chr2A 77.696 408 80 10 1505 1911 590817273 590816876 3.750000e-59 239.0
26 TraesCS6B01G246800 chr2A 77.427 412 74 16 1505 1911 590974473 590974076 8.120000e-56 228.0
27 TraesCS6B01G246800 chr2A 86.577 149 11 5 2034 2175 10990120 10989974 3.890000e-34 156.0
28 TraesCS6B01G246800 chr2A 88.722 133 6 5 2034 2159 601329403 601329273 1.400000e-33 154.0
29 TraesCS6B01G246800 chr5D 84.768 151 14 5 2034 2177 410380207 410380355 3.020000e-30 143.0
30 TraesCS6B01G246800 chr3D 85.034 147 13 5 2038 2177 46523819 46523675 1.090000e-29 141.0
31 TraesCS6B01G246800 chr3D 88.462 104 8 4 2069 2170 383114034 383114135 3.940000e-24 122.0


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 TraesCS6B01G246800 chr6B 439075236 439078147 2911 False 5378.0 5378 100.0000 1 2912 1 chr6B.!!$F1 2911
1 TraesCS6B01G246800 chr6A 398166908 398168509 1601 True 2327.0 2327 92.8970 427 2040 1 chr6A.!!$R1 1613
2 TraesCS6B01G246800 chr6D 277266270 277269548 3278 True 1170.5 1919 93.6890 427 2033 2 chr6D.!!$R1 1606
3 TraesCS6B01G246800 chr1B 298093977 298094983 1006 True 656.0 1129 93.1340 2034 2912 2 chr1B.!!$R2 878
4 TraesCS6B01G246800 chr1A 558705884 558706867 983 False 336.0 529 85.6945 2178 2755 2 chr1A.!!$F2 577
5 TraesCS6B01G246800 chr2D 648274528 648275155 627 False 308.0 501 92.2315 1 370 2 chr2D.!!$F2 369

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
685 2618 0.249615 TCGCAGGCTGCTCATCATAC 60.250 55.0 34.17 5.44 42.25 2.39 F
1545 3531 0.037232 GGCCGAGCAAGAACTACTGT 60.037 55.0 0.00 0.00 0.00 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1899 3885 1.274728 CAGTGAGCTTAGCAGGTGAGT 59.725 52.381 7.07 0.0 0.00 3.41 R
2866 5398 1.058404 GCGTGAGTCGAACCTGTTAC 58.942 55.000 0.00 0.0 42.86 2.50 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
25 26 3.810743 GCTCACAGAAACCTGTAATGGGT 60.811 47.826 0.00 0.00 42.60 4.51
29 30 2.742053 CAGAAACCTGTAATGGGTCGTG 59.258 50.000 0.00 0.00 35.83 4.35
66 319 1.071605 CTCACCGCGAGAAGGAAAAG 58.928 55.000 8.23 0.00 45.45 2.27
68 321 0.602905 CACCGCGAGAAGGAAAAGGT 60.603 55.000 8.23 0.00 0.00 3.50
77 330 6.543736 GCGAGAAGGAAAAGGTTTTACATAG 58.456 40.000 0.34 0.00 33.35 2.23
78 331 6.403309 GCGAGAAGGAAAAGGTTTTACATAGG 60.403 42.308 0.34 0.00 33.35 2.57
80 333 7.360946 CGAGAAGGAAAAGGTTTTACATAGGTG 60.361 40.741 0.34 0.00 33.35 4.00
83 336 6.008331 AGGAAAAGGTTTTACATAGGTGGAC 58.992 40.000 0.34 0.00 33.35 4.02
86 339 3.951663 AGGTTTTACATAGGTGGACTGC 58.048 45.455 0.00 0.00 0.00 4.40
103 361 1.512310 GCGAGTCGAACTCCAGTCG 60.512 63.158 18.61 0.00 42.12 4.18
124 382 2.837498 CCAGCGTCCATATCAATCACA 58.163 47.619 0.00 0.00 0.00 3.58
136 394 2.364632 TCAATCACATTAACCAGCCGG 58.635 47.619 0.00 0.00 38.77 6.13
144 402 0.468400 TTAACCAGCCGGCCAAACTT 60.468 50.000 26.15 10.20 34.57 2.66
156 414 3.058501 CGGCCAAACTTAGTTCGTTGATT 60.059 43.478 2.24 0.00 0.00 2.57
164 422 5.990408 ACTTAGTTCGTTGATTGCTTGAAG 58.010 37.500 0.00 0.00 0.00 3.02
180 438 5.764686 TGCTTGAAGAAACAGCTCTATTTGA 59.235 36.000 0.00 0.00 0.00 2.69
185 443 6.767902 TGAAGAAACAGCTCTATTTGACACTT 59.232 34.615 0.00 0.00 0.00 3.16
216 474 8.728833 CCGTACAAACCTTAAAACATATACCAA 58.271 33.333 0.00 0.00 0.00 3.67
412 671 3.802948 AATCACTAGTGGTCGTCATCC 57.197 47.619 22.48 0.00 0.00 3.51
413 672 1.471119 TCACTAGTGGTCGTCATCCC 58.529 55.000 22.48 0.00 0.00 3.85
414 673 1.005569 TCACTAGTGGTCGTCATCCCT 59.994 52.381 22.48 0.00 0.00 4.20
415 674 1.405821 CACTAGTGGTCGTCATCCCTC 59.594 57.143 15.49 0.00 0.00 4.30
416 675 1.005569 ACTAGTGGTCGTCATCCCTCA 59.994 52.381 0.00 0.00 0.00 3.86
417 676 2.100197 CTAGTGGTCGTCATCCCTCAA 58.900 52.381 0.00 0.00 0.00 3.02
418 677 1.348064 AGTGGTCGTCATCCCTCAAA 58.652 50.000 0.00 0.00 0.00 2.69
419 678 1.697432 AGTGGTCGTCATCCCTCAAAA 59.303 47.619 0.00 0.00 0.00 2.44
420 679 2.105821 AGTGGTCGTCATCCCTCAAAAA 59.894 45.455 0.00 0.00 0.00 1.94
512 771 9.278734 GTCCAGATTTTTCTTTTCGTATCAATC 57.721 33.333 0.00 0.00 0.00 2.67
595 854 2.652530 CAAAATGCAGCAGCCGGT 59.347 55.556 1.90 0.00 41.13 5.28
651 910 3.315191 ACGCTTCTCTTCTCTAGATGCTC 59.685 47.826 0.00 0.00 40.28 4.26
685 2618 0.249615 TCGCAGGCTGCTCATCATAC 60.250 55.000 34.17 5.44 42.25 2.39
686 2619 0.249784 CGCAGGCTGCTCATCATACT 60.250 55.000 34.17 0.00 42.25 2.12
689 2622 3.672808 GCAGGCTGCTCATCATACTAAT 58.327 45.455 31.37 0.00 40.96 1.73
691 2624 5.240891 GCAGGCTGCTCATCATACTAATAA 58.759 41.667 31.37 0.00 40.96 1.40
692 2625 5.702670 GCAGGCTGCTCATCATACTAATAAA 59.297 40.000 31.37 0.00 40.96 1.40
693 2626 6.205464 GCAGGCTGCTCATCATACTAATAAAA 59.795 38.462 31.37 0.00 40.96 1.52
694 2627 7.255242 GCAGGCTGCTCATCATACTAATAAAAA 60.255 37.037 31.37 0.00 40.96 1.94
761 2694 1.633852 GCTGGAGTGAAGCTCGCAAG 61.634 60.000 0.00 0.00 45.03 4.01
832 2765 0.476338 TGCAGTTTGACCAAGCCCTA 59.524 50.000 0.00 0.00 0.00 3.53
882 2816 4.129380 CTCACACAAAGAGGTCATGTCAA 58.871 43.478 0.00 0.00 0.00 3.18
982 2941 0.318699 CCACAGAGCAACGAACTCGA 60.319 55.000 6.05 0.00 43.02 4.04
1359 3318 2.504244 GACGACGACTCCAAGCGG 60.504 66.667 0.00 0.00 0.00 5.52
1434 3393 2.256158 CACGCCGACTGGAACGTA 59.744 61.111 0.00 0.00 37.49 3.57
1435 3394 2.084681 CACGCCGACTGGAACGTAC 61.085 63.158 0.00 0.00 37.49 3.67
1436 3395 2.263741 ACGCCGACTGGAACGTACT 61.264 57.895 0.00 0.00 37.49 2.73
1437 3396 1.513586 CGCCGACTGGAACGTACTC 60.514 63.158 0.00 0.00 37.49 2.59
1438 3397 1.153881 GCCGACTGGAACGTACTCC 60.154 63.158 0.00 0.00 37.49 3.85
1439 3398 1.870055 GCCGACTGGAACGTACTCCA 61.870 60.000 8.65 8.65 43.45 3.86
1440 3399 0.815734 CCGACTGGAACGTACTCCAT 59.184 55.000 9.38 0.98 44.59 3.41
1441 3400 1.202268 CCGACTGGAACGTACTCCATC 60.202 57.143 9.38 8.46 44.59 3.51
1462 3442 1.837051 TTCACCACGCCTCCTGAGT 60.837 57.895 0.00 0.00 0.00 3.41
1474 3454 1.755959 CTCCTGAGTCCTGACCATGAG 59.244 57.143 0.00 1.41 0.00 2.90
1475 3455 0.177604 CCTGAGTCCTGACCATGAGC 59.822 60.000 0.00 0.00 0.00 4.26
1476 3456 1.193323 CTGAGTCCTGACCATGAGCT 58.807 55.000 0.00 0.00 0.00 4.09
1477 3457 1.554160 CTGAGTCCTGACCATGAGCTT 59.446 52.381 0.00 0.00 0.00 3.74
1478 3458 1.277273 TGAGTCCTGACCATGAGCTTG 59.723 52.381 0.00 0.00 0.00 4.01
1545 3531 0.037232 GGCCGAGCAAGAACTACTGT 60.037 55.000 0.00 0.00 0.00 3.55
1551 3537 2.300437 GAGCAAGAACTACTGTGACCCT 59.700 50.000 0.00 0.00 0.00 4.34
1887 3873 2.507102 CAGCAGTTCGGCGTCGAT 60.507 61.111 15.13 0.00 45.51 3.59
1931 3921 4.899352 AAGCTCACTGTTTAGGACATCT 57.101 40.909 0.00 0.00 37.69 2.90
1935 3925 4.416620 CTCACTGTTTAGGACATCTCGTC 58.583 47.826 0.00 0.00 44.57 4.20
1936 3926 4.079970 TCACTGTTTAGGACATCTCGTCT 58.920 43.478 0.00 0.00 44.70 4.18
1938 3928 5.123502 TCACTGTTTAGGACATCTCGTCTAC 59.876 44.000 0.00 0.00 44.70 2.59
1939 3929 5.124138 CACTGTTTAGGACATCTCGTCTACT 59.876 44.000 0.00 0.00 44.70 2.57
1940 3930 5.711036 ACTGTTTAGGACATCTCGTCTACTT 59.289 40.000 0.00 0.00 44.70 2.24
1941 3931 6.883217 ACTGTTTAGGACATCTCGTCTACTTA 59.117 38.462 0.00 0.00 44.70 2.24
1942 3932 7.556996 ACTGTTTAGGACATCTCGTCTACTTAT 59.443 37.037 0.00 0.00 44.70 1.73
1943 3933 8.289939 TGTTTAGGACATCTCGTCTACTTATT 57.710 34.615 0.00 0.00 44.70 1.40
1953 3943 6.989659 TCTCGTCTACTTATTCTTGGTTGTT 58.010 36.000 0.00 0.00 0.00 2.83
1981 3971 1.766143 GCGTGCATCTGATTCGGACC 61.766 60.000 0.00 0.00 0.00 4.46
2054 4044 4.617959 TGAGATAAATACGCTAGTGGTGC 58.382 43.478 8.42 0.00 0.00 5.01
2082 4078 3.821033 ACTTGTCATTCACTTTAGTGCCC 59.179 43.478 5.00 0.00 45.25 5.36
2083 4079 3.788227 TGTCATTCACTTTAGTGCCCT 57.212 42.857 5.00 0.00 45.25 5.19
2084 4080 4.901197 TGTCATTCACTTTAGTGCCCTA 57.099 40.909 5.00 0.00 45.25 3.53
2122 4118 3.304458 CCGAACTGGTTCTAAAACTTGGC 60.304 47.826 11.03 0.00 37.44 4.52
2148 4144 2.969055 CGTGCAAATACGGTGCTAATC 58.031 47.619 0.00 0.00 42.69 1.75
2169 4166 7.566760 AATCAATCCGTAGACATAAAATGCA 57.433 32.000 0.00 0.00 0.00 3.96
2172 4169 3.537580 TCCGTAGACATAAAATGCACCC 58.462 45.455 0.00 0.00 0.00 4.61
2174 4171 3.064820 CCGTAGACATAAAATGCACCCAC 59.935 47.826 0.00 0.00 0.00 4.61
2225 4348 2.056906 ATGACTAATGAGCCCGCCCC 62.057 60.000 0.00 0.00 0.00 5.80
2746 5278 9.113838 CTGAAGCCAATTTATGTACATAAGAGT 57.886 33.333 23.65 13.82 35.02 3.24
2803 5335 9.778741 TGTTTAAATACATAATAGCAGAGGGAG 57.221 33.333 0.00 0.00 0.00 4.30
2815 5347 3.327757 AGCAGAGGGAGTATGTTTGTCAA 59.672 43.478 0.00 0.00 0.00 3.18
2866 5398 3.411517 ATCGCCCCAAGGGTCAGG 61.412 66.667 4.11 0.00 46.51 3.86
2885 5417 1.058404 GTAACAGGTTCGACTCACGC 58.942 55.000 0.00 0.00 42.26 5.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
66 319 2.676342 CGCAGTCCACCTATGTAAAACC 59.324 50.000 0.00 0.00 0.00 3.27
68 321 3.259876 ACTCGCAGTCCACCTATGTAAAA 59.740 43.478 0.00 0.00 0.00 1.52
77 330 1.733399 GTTCGACTCGCAGTCCACC 60.733 63.158 9.71 0.00 42.12 4.61
78 331 0.729816 GAGTTCGACTCGCAGTCCAC 60.730 60.000 9.71 7.52 42.12 4.02
80 333 1.153997 GGAGTTCGACTCGCAGTCC 60.154 63.158 8.89 8.89 45.96 3.85
83 336 0.455295 GACTGGAGTTCGACTCGCAG 60.455 60.000 19.40 19.40 45.96 5.18
86 339 1.512310 GCGACTGGAGTTCGACTCG 60.512 63.158 8.33 0.00 45.96 4.18
103 361 1.532868 GTGATTGATATGGACGCTGGC 59.467 52.381 0.00 0.00 0.00 4.85
124 382 0.251608 AGTTTGGCCGGCTGGTTAAT 60.252 50.000 28.56 3.99 37.67 1.40
136 394 3.668656 GCAATCAACGAACTAAGTTTGGC 59.331 43.478 0.00 0.00 31.68 4.52
144 402 6.037720 TGTTTCTTCAAGCAATCAACGAACTA 59.962 34.615 0.00 0.00 0.00 2.24
156 414 5.764686 TCAAATAGAGCTGTTTCTTCAAGCA 59.235 36.000 0.00 0.00 0.00 3.91
164 422 6.793492 AGAAGTGTCAAATAGAGCTGTTTC 57.207 37.500 0.00 0.00 0.00 2.78
180 438 4.146745 AGGTTTGTACGGAAAGAAGTGT 57.853 40.909 0.00 0.00 0.00 3.55
185 443 6.998968 TGTTTTAAGGTTTGTACGGAAAGA 57.001 33.333 0.00 0.00 0.00 2.52
392 651 2.431057 GGGATGACGACCACTAGTGATT 59.569 50.000 24.68 10.51 0.00 2.57
393 652 2.032620 GGGATGACGACCACTAGTGAT 58.967 52.381 24.68 7.04 0.00 3.06
394 653 1.005569 AGGGATGACGACCACTAGTGA 59.994 52.381 24.68 3.09 0.00 3.41
395 654 1.405821 GAGGGATGACGACCACTAGTG 59.594 57.143 16.34 16.34 0.00 2.74
396 655 1.005569 TGAGGGATGACGACCACTAGT 59.994 52.381 0.00 0.00 0.00 2.57
397 656 1.763968 TGAGGGATGACGACCACTAG 58.236 55.000 0.00 0.00 0.00 2.57
398 657 2.225382 TTGAGGGATGACGACCACTA 57.775 50.000 0.00 0.00 0.00 2.74
399 658 1.348064 TTTGAGGGATGACGACCACT 58.652 50.000 0.00 0.00 0.00 4.00
400 659 2.178912 TTTTGAGGGATGACGACCAC 57.821 50.000 0.00 0.00 0.00 4.16
401 660 2.940994 TTTTTGAGGGATGACGACCA 57.059 45.000 0.00 0.00 0.00 4.02
422 681 2.735134 GCGACGACCACTAGTGATTTTT 59.265 45.455 24.68 4.14 0.00 1.94
423 682 2.334838 GCGACGACCACTAGTGATTTT 58.665 47.619 24.68 5.61 0.00 1.82
424 683 1.403780 GGCGACGACCACTAGTGATTT 60.404 52.381 24.68 7.85 0.00 2.17
425 684 0.172803 GGCGACGACCACTAGTGATT 59.827 55.000 24.68 10.51 0.00 2.57
430 689 1.136984 GACAGGCGACGACCACTAG 59.863 63.158 0.00 0.00 0.00 2.57
492 751 9.696917 AAGCAAGATTGATACGAAAAGAAAAAT 57.303 25.926 0.00 0.00 0.00 1.82
512 771 1.073177 CCCCGTTACGTACAAGCAAG 58.927 55.000 3.52 0.00 0.00 4.01
595 854 3.687698 GTCGGACTAGCCAAAATAAGCAA 59.312 43.478 0.00 0.00 35.94 3.91
651 910 4.742201 CGAGCCACACACTCCCCG 62.742 72.222 0.00 0.00 0.00 5.73
694 2627 9.692749 ACGTTCTTTCTTCTTTTTCTTTTTCTT 57.307 25.926 0.00 0.00 0.00 2.52
695 2628 9.129209 CACGTTCTTTCTTCTTTTTCTTTTTCT 57.871 29.630 0.00 0.00 0.00 2.52
696 2629 9.124807 TCACGTTCTTTCTTCTTTTTCTTTTTC 57.875 29.630 0.00 0.00 0.00 2.29
697 2630 9.471084 TTCACGTTCTTTCTTCTTTTTCTTTTT 57.529 25.926 0.00 0.00 0.00 1.94
698 2631 9.471084 TTTCACGTTCTTTCTTCTTTTTCTTTT 57.529 25.926 0.00 0.00 0.00 2.27
699 2632 8.912658 GTTTCACGTTCTTTCTTCTTTTTCTTT 58.087 29.630 0.00 0.00 0.00 2.52
700 2633 7.270579 CGTTTCACGTTCTTTCTTCTTTTTCTT 59.729 33.333 0.00 0.00 36.74 2.52
701 2634 6.741358 CGTTTCACGTTCTTTCTTCTTTTTCT 59.259 34.615 0.00 0.00 36.74 2.52
702 2635 6.504335 GCGTTTCACGTTCTTTCTTCTTTTTC 60.504 38.462 0.00 0.00 44.73 2.29
703 2636 5.285370 GCGTTTCACGTTCTTTCTTCTTTTT 59.715 36.000 0.00 0.00 44.73 1.94
704 2637 4.791676 GCGTTTCACGTTCTTTCTTCTTTT 59.208 37.500 0.00 0.00 44.73 2.27
705 2638 4.142773 TGCGTTTCACGTTCTTTCTTCTTT 60.143 37.500 0.00 0.00 44.73 2.52
706 2639 3.372822 TGCGTTTCACGTTCTTTCTTCTT 59.627 39.130 0.00 0.00 44.73 2.52
707 2640 2.933906 TGCGTTTCACGTTCTTTCTTCT 59.066 40.909 0.00 0.00 44.73 2.85
708 2641 3.280775 CTGCGTTTCACGTTCTTTCTTC 58.719 45.455 0.00 0.00 44.73 2.87
709 2642 2.031683 CCTGCGTTTCACGTTCTTTCTT 59.968 45.455 0.00 0.00 44.73 2.52
710 2643 1.597663 CCTGCGTTTCACGTTCTTTCT 59.402 47.619 0.00 0.00 44.73 2.52
711 2644 1.920272 GCCTGCGTTTCACGTTCTTTC 60.920 52.381 0.00 0.00 44.73 2.62
808 2741 1.299541 CTTGGTCAAACTGCAGTCGT 58.700 50.000 21.95 8.64 0.00 4.34
832 2765 2.024369 ACCCTTTTGTCCAAGTCCAACT 60.024 45.455 0.00 0.00 0.00 3.16
936 2871 2.345641 CCGTGTGATCGATGTCAAGTTC 59.654 50.000 0.54 0.00 0.00 3.01
982 2941 2.079158 CATGGTTCGTTGCTGATGACT 58.921 47.619 0.00 0.00 0.00 3.41
1036 2995 2.365586 CCACTGCCAGGAGGAGGAG 61.366 68.421 0.00 0.00 36.89 3.69
1359 3318 1.592939 GAAGAAGGCGGCGATCTCC 60.593 63.158 12.98 1.02 0.00 3.71
1427 3386 3.251571 GTGAACTGATGGAGTACGTTCC 58.748 50.000 0.00 0.00 34.58 3.62
1428 3387 3.251571 GGTGAACTGATGGAGTACGTTC 58.748 50.000 0.00 0.00 33.09 3.95
1429 3388 2.631062 TGGTGAACTGATGGAGTACGTT 59.369 45.455 0.00 0.00 33.09 3.99
1430 3389 2.029290 GTGGTGAACTGATGGAGTACGT 60.029 50.000 0.00 0.00 33.09 3.57
1431 3390 2.607187 GTGGTGAACTGATGGAGTACG 58.393 52.381 0.00 0.00 33.09 3.67
1432 3391 2.607187 CGTGGTGAACTGATGGAGTAC 58.393 52.381 0.00 0.00 33.09 2.73
1433 3392 1.067142 GCGTGGTGAACTGATGGAGTA 60.067 52.381 0.00 0.00 33.09 2.59
1434 3393 0.320771 GCGTGGTGAACTGATGGAGT 60.321 55.000 0.00 0.00 35.94 3.85
1435 3394 1.021390 GGCGTGGTGAACTGATGGAG 61.021 60.000 0.00 0.00 0.00 3.86
1436 3395 1.003839 GGCGTGGTGAACTGATGGA 60.004 57.895 0.00 0.00 0.00 3.41
1437 3396 1.003355 AGGCGTGGTGAACTGATGG 60.003 57.895 0.00 0.00 0.00 3.51
1438 3397 1.021390 GGAGGCGTGGTGAACTGATG 61.021 60.000 0.00 0.00 0.00 3.07
1439 3398 1.194781 AGGAGGCGTGGTGAACTGAT 61.195 55.000 0.00 0.00 0.00 2.90
1440 3399 1.837051 AGGAGGCGTGGTGAACTGA 60.837 57.895 0.00 0.00 0.00 3.41
1441 3400 1.669115 CAGGAGGCGTGGTGAACTG 60.669 63.158 0.00 0.00 0.00 3.16
1462 3442 2.540383 AGTACAAGCTCATGGTCAGGA 58.460 47.619 0.00 0.00 0.00 3.86
1474 3454 5.627172 TGCAATTCATTTCGTAGTACAAGC 58.373 37.500 0.38 0.00 0.00 4.01
1475 3455 7.060600 TCTGCAATTCATTTCGTAGTACAAG 57.939 36.000 0.38 0.00 0.00 3.16
1476 3456 6.649141 ACTCTGCAATTCATTTCGTAGTACAA 59.351 34.615 0.38 0.00 0.00 2.41
1477 3457 6.163476 ACTCTGCAATTCATTTCGTAGTACA 58.837 36.000 0.38 0.00 0.00 2.90
1478 3458 6.648725 ACTCTGCAATTCATTTCGTAGTAC 57.351 37.500 0.00 0.00 0.00 2.73
1545 3531 2.672651 TCCGCGTTCGTAGGGTCA 60.673 61.111 4.92 0.00 0.00 4.02
1551 3537 4.424566 GGCCACTCCGCGTTCGTA 62.425 66.667 4.92 0.00 0.00 3.43
1720 3706 2.353704 CGCTGTTCATCCAGTACCAGAA 60.354 50.000 0.00 0.00 34.84 3.02
1887 3873 2.283676 GTGAGTCTGGTCCCCGGA 60.284 66.667 0.73 0.00 36.43 5.14
1899 3885 1.274728 CAGTGAGCTTAGCAGGTGAGT 59.725 52.381 7.07 0.00 0.00 3.41
1931 3921 5.407387 GCAACAACCAAGAATAAGTAGACGA 59.593 40.000 0.00 0.00 0.00 4.20
1935 3925 8.677300 ACATATGCAACAACCAAGAATAAGTAG 58.323 33.333 1.58 0.00 0.00 2.57
1936 3926 8.458052 CACATATGCAACAACCAAGAATAAGTA 58.542 33.333 1.58 0.00 0.00 2.24
1938 3928 7.745022 CACATATGCAACAACCAAGAATAAG 57.255 36.000 1.58 0.00 0.00 1.73
1981 3971 9.173939 GAAAGCAATTTTATCCTGAATATGTCG 57.826 33.333 0.00 0.00 0.00 4.35
2040 4030 4.828829 AGTTAAAAGCACCACTAGCGTAT 58.171 39.130 0.00 0.00 37.01 3.06
2082 4078 7.007697 CAGTTCGGTGTATTTTTCGAGTTTAG 58.992 38.462 0.00 0.00 33.11 1.85
2083 4079 6.073657 CCAGTTCGGTGTATTTTTCGAGTTTA 60.074 38.462 0.00 0.00 33.11 2.01
2084 4080 5.277634 CCAGTTCGGTGTATTTTTCGAGTTT 60.278 40.000 0.00 0.00 33.11 2.66
2148 4144 5.505654 GGGTGCATTTTATGTCTACGGATTG 60.506 44.000 0.00 0.00 0.00 2.67
2208 4297 2.111251 GGGGCGGGCTCATTAGTC 59.889 66.667 0.26 0.00 0.00 2.59
2264 4393 1.808411 TGCTTGTTCGATTCCTGTCC 58.192 50.000 0.00 0.00 0.00 4.02
2457 4984 8.497554 CAAAAATTGAAAATACACAGTCATGGG 58.502 33.333 0.00 0.00 35.24 4.00
2778 5310 9.780186 ACTCCCTCTGCTATTATGTATTTAAAC 57.220 33.333 0.00 0.00 0.00 2.01
2794 5326 3.334583 TGACAAACATACTCCCTCTGC 57.665 47.619 0.00 0.00 0.00 4.26
2815 5347 4.614306 GCCGCTTAATCCAACGTACTTTTT 60.614 41.667 0.00 0.00 0.00 1.94
2821 5353 2.800629 GCTAGCCGCTTAATCCAACGTA 60.801 50.000 2.29 0.00 35.14 3.57
2856 5388 2.779506 GAACCTGTTACCTGACCCTTG 58.220 52.381 0.00 0.00 0.00 3.61
2866 5398 1.058404 GCGTGAGTCGAACCTGTTAC 58.942 55.000 0.00 0.00 42.86 2.50
2885 5417 8.261492 ACTGACTAAGATAAAAATGAGCACTG 57.739 34.615 0.00 0.00 0.00 3.66


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

AutoCloner maintained by Alex Coulton.