Multiple sequence alignment - TraesCS7B01G124800

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 TraesCS7B01G124800 chr7B 100.000 3911 0 0 1 3911 145972662 145976572 0.000000e+00 7223.0
1 TraesCS7B01G124800 chr7B 90.230 1525 123 13 96 1614 145828063 145829567 0.000000e+00 1967.0
2 TraesCS7B01G124800 chr7B 85.691 1237 160 11 676 1898 145936887 145938120 0.000000e+00 1288.0
3 TraesCS7B01G124800 chr7B 83.219 727 103 8 1647 2365 145829694 145830409 0.000000e+00 649.0
4 TraesCS7B01G124800 chr7B 76.160 948 194 27 2721 3653 145825871 145826801 1.650000e-128 470.0
5 TraesCS7B01G124800 chr7B 94.444 90 5 0 11 100 84555848 84555759 5.270000e-29 139.0
6 TraesCS7B01G124800 chr7B 93.182 88 6 0 9 96 110870925 110871012 3.170000e-26 130.0
7 TraesCS7B01G124800 chr7A 96.271 3084 103 4 838 3911 184342788 184345869 0.000000e+00 5048.0
8 TraesCS7B01G124800 chr7A 85.168 3270 394 47 676 3911 184338410 184341622 0.000000e+00 3267.0
9 TraesCS7B01G124800 chr7A 90.164 1525 126 13 96 1614 184173510 184175016 0.000000e+00 1964.0
10 TraesCS7B01G124800 chr7A 85.287 1237 164 11 676 1900 184321070 184322300 0.000000e+00 1260.0
11 TraesCS7B01G124800 chr7A 93.313 643 34 8 241 881 184342149 184342784 0.000000e+00 941.0
12 TraesCS7B01G124800 chr7A 76.030 947 197 25 2721 3653 184171517 184172447 7.650000e-127 464.0
13 TraesCS7B01G124800 chr7A 85.774 239 28 5 222 457 184338039 184338274 8.390000e-62 248.0
14 TraesCS7B01G124800 chr7A 90.116 172 10 5 91 261 184341966 184342131 2.370000e-52 217.0
15 TraesCS7B01G124800 chr7A 96.629 89 3 0 8 96 398971554 398971466 8.760000e-32 148.0
16 TraesCS7B01G124800 chr7D 95.981 3085 112 5 838 3911 180085141 180088224 0.000000e+00 5000.0
17 TraesCS7B01G124800 chr7D 85.104 3229 400 43 676 3874 180080869 180084046 0.000000e+00 3223.0
18 TraesCS7B01G124800 chr7D 91.803 793 56 9 91 881 180084352 180085137 0.000000e+00 1096.0
19 TraesCS7B01G124800 chr5A 88.424 622 62 5 1205 1824 473333950 473334563 0.000000e+00 741.0
20 TraesCS7B01G124800 chr5B 84.890 589 69 9 1248 1835 440029759 440030328 9.420000e-161 577.0
21 TraesCS7B01G124800 chr5B 85.375 547 67 11 676 1212 440028179 440028722 4.420000e-154 555.0
22 TraesCS7B01G124800 chr5D 91.892 185 12 2 1574 1756 370750206 370750389 5.010000e-64 255.0
23 TraesCS7B01G124800 chr1B 91.566 83 7 0 14 96 229234853 229234935 8.880000e-22 115.0
24 TraesCS7B01G124800 chr1A 98.214 56 1 0 44 99 490128686 490128631 8.940000e-17 99.0
25 TraesCS7B01G124800 chr1D 92.857 56 4 0 14 69 128295587 128295642 9.010000e-12 82.4


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 TraesCS7B01G124800 chr7B 145972662 145976572 3910 False 7223.000000 7223 100.000000 1 3911 1 chr7B.!!$F3 3910
1 TraesCS7B01G124800 chr7B 145936887 145938120 1233 False 1288.000000 1288 85.691000 676 1898 1 chr7B.!!$F2 1222
2 TraesCS7B01G124800 chr7B 145825871 145830409 4538 False 1028.666667 1967 83.203000 96 3653 3 chr7B.!!$F4 3557
3 TraesCS7B01G124800 chr7A 184338039 184345869 7830 False 1944.200000 5048 90.128400 91 3911 5 chr7A.!!$F3 3820
4 TraesCS7B01G124800 chr7A 184321070 184322300 1230 False 1260.000000 1260 85.287000 676 1900 1 chr7A.!!$F1 1224
5 TraesCS7B01G124800 chr7A 184171517 184175016 3499 False 1214.000000 1964 83.097000 96 3653 2 chr7A.!!$F2 3557
6 TraesCS7B01G124800 chr7D 180080869 180088224 7355 False 3106.333333 5000 90.962667 91 3911 3 chr7D.!!$F1 3820
7 TraesCS7B01G124800 chr5A 473333950 473334563 613 False 741.000000 741 88.424000 1205 1824 1 chr5A.!!$F1 619
8 TraesCS7B01G124800 chr5B 440028179 440030328 2149 False 566.000000 577 85.132500 676 1835 2 chr5B.!!$F1 1159

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
19 20 0.529337 CCGAGCAGATGTGAATCGCT 60.529 55.0 11.04 5.25 34.68 4.93 F
20 21 0.575859 CGAGCAGATGTGAATCGCTG 59.424 55.0 5.24 0.00 33.21 5.18 F
77 78 0.615850 GGAGTTGGGAGAGTTGGGAG 59.384 60.0 0.00 0.00 0.00 4.30 F
1377 11234 0.807275 GGAATGCAATTTGGCTCCGC 60.807 55.0 0.00 0.00 36.07 5.54 F
2602 12569 0.680921 TGTTGGCAGCAGCTTATCCC 60.681 55.0 0.00 0.00 41.70 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1658 11611 1.203441 ATTCTGCTCCAGTGCCTCCA 61.203 55.000 0.00 0.00 32.61 3.86 R
1788 11748 2.938539 GATCTCGAAGCACCGGGTCG 62.939 65.000 6.32 9.62 0.00 4.79 R
1848 11808 3.064900 AGTGATCCAGAAAAGGCAGTC 57.935 47.619 0.00 0.00 0.00 3.51 R
2695 12662 0.323957 TCATCTTGCTGCTGAGCTGT 59.676 50.000 12.89 0.00 46.39 4.40 R
3560 13528 4.488136 CCTGCAGCATACGCCCCA 62.488 66.667 8.66 0.00 39.83 4.96 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
18 19 1.930100 CCGAGCAGATGTGAATCGC 59.070 57.895 11.04 0.00 34.68 4.58
19 20 0.529337 CCGAGCAGATGTGAATCGCT 60.529 55.000 11.04 5.25 34.68 4.93
20 21 0.575859 CGAGCAGATGTGAATCGCTG 59.424 55.000 5.24 0.00 33.21 5.18
21 22 4.991760 GCAGATGTGAATCGCTGC 57.008 55.556 0.00 0.00 45.64 5.25
23 24 1.011463 CAGATGTGAATCGCTGCGC 60.011 57.895 18.65 0.00 0.00 6.09
34 35 3.184683 GCTGCGCGGAGTGAGAAG 61.185 66.667 28.57 2.63 43.07 2.85
35 36 3.184683 CTGCGCGGAGTGAGAAGC 61.185 66.667 20.53 0.00 43.07 3.86
37 38 3.184683 GCGCGGAGTGAGAAGCTG 61.185 66.667 8.83 0.00 43.07 4.24
38 39 2.507992 CGCGGAGTGAGAAGCTGG 60.508 66.667 0.00 0.00 43.07 4.85
39 40 2.125350 GCGGAGTGAGAAGCTGGG 60.125 66.667 0.00 0.00 0.00 4.45
41 42 1.674057 CGGAGTGAGAAGCTGGGTT 59.326 57.895 0.00 0.00 0.00 4.11
42 43 0.671781 CGGAGTGAGAAGCTGGGTTG 60.672 60.000 0.00 0.00 0.00 3.77
43 44 0.687354 GGAGTGAGAAGCTGGGTTGA 59.313 55.000 0.00 0.00 0.00 3.18
45 46 1.620819 GAGTGAGAAGCTGGGTTGAGA 59.379 52.381 0.00 0.00 0.00 3.27
48 49 1.271054 TGAGAAGCTGGGTTGAGAAGC 60.271 52.381 0.00 0.00 37.20 3.86
50 51 1.163554 GAAGCTGGGTTGAGAAGCTG 58.836 55.000 0.00 0.00 46.36 4.24
51 52 0.767375 AAGCTGGGTTGAGAAGCTGA 59.233 50.000 0.00 0.00 46.36 4.26
53 54 1.353694 AGCTGGGTTGAGAAGCTGAAT 59.646 47.619 0.00 0.00 45.36 2.57
54 55 2.165998 GCTGGGTTGAGAAGCTGAATT 58.834 47.619 0.00 0.00 34.05 2.17
55 56 2.560105 GCTGGGTTGAGAAGCTGAATTT 59.440 45.455 0.00 0.00 34.05 1.82
57 58 4.502087 GCTGGGTTGAGAAGCTGAATTTTT 60.502 41.667 0.00 0.00 34.05 1.94
58 59 4.947645 TGGGTTGAGAAGCTGAATTTTTG 58.052 39.130 0.00 0.00 0.00 2.44
61 62 5.225642 GGTTGAGAAGCTGAATTTTTGGAG 58.774 41.667 0.00 0.00 0.00 3.86
63 64 6.276091 GTTGAGAAGCTGAATTTTTGGAGTT 58.724 36.000 0.00 0.00 0.00 3.01
64 65 5.835257 TGAGAAGCTGAATTTTTGGAGTTG 58.165 37.500 0.00 0.00 0.00 3.16
65 66 5.205759 AGAAGCTGAATTTTTGGAGTTGG 57.794 39.130 0.00 0.00 0.00 3.77
66 67 4.039609 AGAAGCTGAATTTTTGGAGTTGGG 59.960 41.667 0.00 0.00 0.00 4.12
67 68 3.575805 AGCTGAATTTTTGGAGTTGGGA 58.424 40.909 0.00 0.00 0.00 4.37
68 69 3.575687 AGCTGAATTTTTGGAGTTGGGAG 59.424 43.478 0.00 0.00 0.00 4.30
69 70 3.573967 GCTGAATTTTTGGAGTTGGGAGA 59.426 43.478 0.00 0.00 0.00 3.71
70 71 4.321527 GCTGAATTTTTGGAGTTGGGAGAG 60.322 45.833 0.00 0.00 0.00 3.20
74 75 2.656947 TTTGGAGTTGGGAGAGTTGG 57.343 50.000 0.00 0.00 0.00 3.77
75 76 0.771127 TTGGAGTTGGGAGAGTTGGG 59.229 55.000 0.00 0.00 0.00 4.12
77 78 0.615850 GGAGTTGGGAGAGTTGGGAG 59.384 60.000 0.00 0.00 0.00 4.30
78 79 1.645710 GAGTTGGGAGAGTTGGGAGA 58.354 55.000 0.00 0.00 0.00 3.71
79 80 1.978580 GAGTTGGGAGAGTTGGGAGAA 59.021 52.381 0.00 0.00 0.00 2.87
80 81 1.700186 AGTTGGGAGAGTTGGGAGAAC 59.300 52.381 0.00 0.00 0.00 3.01
82 83 2.106684 GTTGGGAGAGTTGGGAGAACTT 59.893 50.000 0.00 0.00 0.00 2.66
83 84 1.978580 TGGGAGAGTTGGGAGAACTTC 59.021 52.381 0.00 0.00 0.00 3.01
84 85 1.978580 GGGAGAGTTGGGAGAACTTCA 59.021 52.381 0.00 0.00 0.00 3.02
85 86 2.027653 GGGAGAGTTGGGAGAACTTCAG 60.028 54.545 0.00 0.00 0.00 3.02
86 87 2.900546 GGAGAGTTGGGAGAACTTCAGA 59.099 50.000 0.00 0.00 0.00 3.27
87 88 3.325135 GGAGAGTTGGGAGAACTTCAGAA 59.675 47.826 0.00 0.00 0.00 3.02
90 91 4.061596 GAGTTGGGAGAACTTCAGAACAG 58.938 47.826 0.00 0.00 0.00 3.16
93 94 1.611936 GGGAGAACTTCAGAACAGGCC 60.612 57.143 0.00 0.00 0.00 5.19
94 95 1.611936 GGAGAACTTCAGAACAGGCCC 60.612 57.143 0.00 0.00 0.00 5.80
95 96 1.349357 GAGAACTTCAGAACAGGCCCT 59.651 52.381 0.00 0.00 0.00 5.19
96 97 2.567615 GAGAACTTCAGAACAGGCCCTA 59.432 50.000 0.00 0.00 0.00 3.53
97 98 2.979678 AGAACTTCAGAACAGGCCCTAA 59.020 45.455 0.00 0.00 0.00 2.69
98 99 3.394606 AGAACTTCAGAACAGGCCCTAAA 59.605 43.478 0.00 0.00 0.00 1.85
99 100 3.425162 ACTTCAGAACAGGCCCTAAAG 57.575 47.619 0.00 0.00 0.00 1.85
101 102 3.908103 ACTTCAGAACAGGCCCTAAAGTA 59.092 43.478 0.00 0.00 0.00 2.24
103 104 4.553330 TCAGAACAGGCCCTAAAGTAAG 57.447 45.455 0.00 0.00 0.00 2.34
108 4666 5.783875 AGAACAGGCCCTAAAGTAAGTAGAA 59.216 40.000 0.00 0.00 0.00 2.10
147 4705 6.238320 GCACTTCTTGACTGGCAATAAGATAG 60.238 42.308 23.35 14.77 40.96 2.08
254 4813 8.536175 TGAATATCTGATAAATGTACGCCCATA 58.464 33.333 0.81 0.00 0.00 2.74
364 4923 6.128172 ACACTGCTATCAACAATAAGCTCAAC 60.128 38.462 0.00 0.00 0.00 3.18
395 4954 6.458342 CCAGGTCAACTAAAAGACAAGAACAC 60.458 42.308 0.00 0.00 36.50 3.32
402 4961 1.871080 AAGACAAGAACACGCAGGAG 58.129 50.000 0.00 0.00 0.00 3.69
640 5200 4.517832 AGGATTCAAACCCGTTTTACTGTC 59.482 41.667 0.00 0.00 0.00 3.51
683 5243 7.041780 AAGAGATACTTTGCAACTGTTACACAG 60.042 37.037 0.00 5.58 42.96 3.66
714 5274 7.497909 GGAAATCGACTAGGAATAACCAAATGA 59.502 37.037 0.00 0.00 42.04 2.57
721 5281 7.892609 ACTAGGAATAACCAAATGAAAACACC 58.107 34.615 0.00 0.00 42.04 4.16
725 5285 8.217111 AGGAATAACCAAATGAAAACACCATTT 58.783 29.630 0.00 0.00 42.88 2.32
834 5398 5.820947 ACTGTTTCTGTCGGTAAATTTGTCT 59.179 36.000 0.00 0.00 0.00 3.41
887 5498 3.579151 ACACCCTCTTAACTTCTGGAGAC 59.421 47.826 0.00 0.00 0.00 3.36
898 5509 4.911390 ACTTCTGGAGACAATAACAAGGG 58.089 43.478 0.00 0.00 42.06 3.95
931 5542 5.528690 TGGAAATATTCTGAATCCGAAGCAG 59.471 40.000 6.10 0.00 32.72 4.24
1377 11234 0.807275 GGAATGCAATTTGGCTCCGC 60.807 55.000 0.00 0.00 36.07 5.54
1614 11473 4.660789 AGCACAAATTTTCAGCAGAAGT 57.339 36.364 8.45 0.00 34.71 3.01
1624 11483 2.407090 TCAGCAGAAGTCACAACATCG 58.593 47.619 0.00 0.00 0.00 3.84
1658 11611 4.906664 AGATGCTCCTCTCCATGATAAAGT 59.093 41.667 0.00 0.00 0.00 2.66
1848 11808 3.569701 AGGTATTTATGGCCTGCAATTCG 59.430 43.478 3.32 0.00 0.00 3.34
1866 11826 1.623311 TCGACTGCCTTTTCTGGATCA 59.377 47.619 0.00 0.00 0.00 2.92
2034 11995 1.495584 TTGTGTTCTCGCTTGTCGGC 61.496 55.000 0.00 0.00 39.05 5.54
2484 12445 4.581824 GTGGCATCATTGGTTATCATCACT 59.418 41.667 0.00 0.00 0.00 3.41
2585 12546 3.593328 AGTATAATGGGGGCATATGCTGT 59.407 43.478 26.12 7.20 41.70 4.40
2602 12569 0.680921 TGTTGGCAGCAGCTTATCCC 60.681 55.000 0.00 0.00 41.70 3.85
2610 12577 3.811810 GCAGCAGCTTATCCCCATCAATA 60.812 47.826 0.00 0.00 37.91 1.90
2625 12592 8.496916 TCCCCATCAATATATGTGATAATCCTG 58.503 37.037 8.93 1.40 33.91 3.86
2664 12631 8.565896 TCTCTTATGTTGTGCTTCATATTGTT 57.434 30.769 0.00 0.00 0.00 2.83
2675 12642 7.176515 TGTGCTTCATATTGTTCTATTTGTGGT 59.823 33.333 0.00 0.00 0.00 4.16
2695 12662 3.401033 TCGCAAGAGTTCCTGATGAAA 57.599 42.857 0.00 0.00 45.01 2.69
3162 13130 6.096846 ACTGACTTTTGCAAAAGATAAGGTGT 59.903 34.615 43.34 29.35 46.39 4.16
3362 13330 1.002134 CCTTTGGCCTGATGACCGT 60.002 57.895 3.32 0.00 0.00 4.83
3485 13453 5.704515 GGTTATAGTCATCATGCTGCTGAAT 59.295 40.000 0.00 0.00 0.00 2.57
3560 13528 0.183492 TGGACTTGCTTGGTCTGCTT 59.817 50.000 0.00 0.00 34.47 3.91
3817 13785 4.633565 GCTTCTAGCTGTGCATCTTAACTT 59.366 41.667 0.00 0.00 38.45 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.529337 AGCGATTCACATCTGCTCGG 60.529 55.000 0.00 0.00 35.62 4.63
1 2 0.575859 CAGCGATTCACATCTGCTCG 59.424 55.000 0.00 0.00 37.25 5.03
2 3 0.304098 GCAGCGATTCACATCTGCTC 59.696 55.000 5.89 0.00 46.00 4.26
4 5 1.011463 CGCAGCGATTCACATCTGC 60.011 57.895 9.98 3.24 46.01 4.26
18 19 3.184683 GCTTCTCACTCCGCGCAG 61.185 66.667 8.75 0.00 0.00 5.18
19 20 3.684990 AGCTTCTCACTCCGCGCA 61.685 61.111 8.75 0.00 0.00 6.09
20 21 3.184683 CAGCTTCTCACTCCGCGC 61.185 66.667 0.00 0.00 0.00 6.86
21 22 2.507992 CCAGCTTCTCACTCCGCG 60.508 66.667 0.00 0.00 0.00 6.46
23 24 0.671781 CAACCCAGCTTCTCACTCCG 60.672 60.000 0.00 0.00 0.00 4.63
24 25 0.687354 TCAACCCAGCTTCTCACTCC 59.313 55.000 0.00 0.00 0.00 3.85
25 26 1.620819 TCTCAACCCAGCTTCTCACTC 59.379 52.381 0.00 0.00 0.00 3.51
27 28 2.421619 CTTCTCAACCCAGCTTCTCAC 58.578 52.381 0.00 0.00 0.00 3.51
28 29 1.271054 GCTTCTCAACCCAGCTTCTCA 60.271 52.381 0.00 0.00 0.00 3.27
29 30 1.003003 AGCTTCTCAACCCAGCTTCTC 59.997 52.381 0.00 0.00 41.24 2.87
31 32 1.163554 CAGCTTCTCAACCCAGCTTC 58.836 55.000 0.00 0.00 41.24 3.86
33 34 0.767375 TTCAGCTTCTCAACCCAGCT 59.233 50.000 0.00 0.00 45.02 4.24
34 35 1.831580 ATTCAGCTTCTCAACCCAGC 58.168 50.000 0.00 0.00 0.00 4.85
35 36 4.861102 AAAATTCAGCTTCTCAACCCAG 57.139 40.909 0.00 0.00 0.00 4.45
37 38 4.039124 TCCAAAAATTCAGCTTCTCAACCC 59.961 41.667 0.00 0.00 0.00 4.11
38 39 5.200368 TCCAAAAATTCAGCTTCTCAACC 57.800 39.130 0.00 0.00 0.00 3.77
39 40 5.836347 ACTCCAAAAATTCAGCTTCTCAAC 58.164 37.500 0.00 0.00 0.00 3.18
41 42 5.221303 CCAACTCCAAAAATTCAGCTTCTCA 60.221 40.000 0.00 0.00 0.00 3.27
42 43 5.225642 CCAACTCCAAAAATTCAGCTTCTC 58.774 41.667 0.00 0.00 0.00 2.87
43 44 4.039609 CCCAACTCCAAAAATTCAGCTTCT 59.960 41.667 0.00 0.00 0.00 2.85
45 46 3.966665 TCCCAACTCCAAAAATTCAGCTT 59.033 39.130 0.00 0.00 0.00 3.74
48 49 4.829492 ACTCTCCCAACTCCAAAAATTCAG 59.171 41.667 0.00 0.00 0.00 3.02
50 51 5.509670 CCAACTCTCCCAACTCCAAAAATTC 60.510 44.000 0.00 0.00 0.00 2.17
51 52 4.344968 CCAACTCTCCCAACTCCAAAAATT 59.655 41.667 0.00 0.00 0.00 1.82
53 54 3.295973 CCAACTCTCCCAACTCCAAAAA 58.704 45.455 0.00 0.00 0.00 1.94
54 55 2.424234 CCCAACTCTCCCAACTCCAAAA 60.424 50.000 0.00 0.00 0.00 2.44
55 56 1.144913 CCCAACTCTCCCAACTCCAAA 59.855 52.381 0.00 0.00 0.00 3.28
57 58 0.104672 TCCCAACTCTCCCAACTCCA 60.105 55.000 0.00 0.00 0.00 3.86
58 59 0.615850 CTCCCAACTCTCCCAACTCC 59.384 60.000 0.00 0.00 0.00 3.85
61 62 1.700186 AGTTCTCCCAACTCTCCCAAC 59.300 52.381 0.00 0.00 0.00 3.77
63 64 1.978580 GAAGTTCTCCCAACTCTCCCA 59.021 52.381 0.00 0.00 0.00 4.37
64 65 1.978580 TGAAGTTCTCCCAACTCTCCC 59.021 52.381 4.17 0.00 0.00 4.30
65 66 2.900546 TCTGAAGTTCTCCCAACTCTCC 59.099 50.000 4.17 0.00 0.00 3.71
66 67 4.202264 TGTTCTGAAGTTCTCCCAACTCTC 60.202 45.833 4.17 0.00 0.00 3.20
67 68 3.711704 TGTTCTGAAGTTCTCCCAACTCT 59.288 43.478 4.17 0.00 0.00 3.24
68 69 4.061596 CTGTTCTGAAGTTCTCCCAACTC 58.938 47.826 4.17 0.00 0.00 3.01
69 70 3.181450 CCTGTTCTGAAGTTCTCCCAACT 60.181 47.826 4.17 0.00 0.00 3.16
70 71 3.142174 CCTGTTCTGAAGTTCTCCCAAC 58.858 50.000 4.17 2.80 0.00 3.77
74 75 1.611936 GGGCCTGTTCTGAAGTTCTCC 60.612 57.143 0.84 0.00 0.00 3.71
75 76 1.349357 AGGGCCTGTTCTGAAGTTCTC 59.651 52.381 4.50 0.00 0.00 2.87
77 78 3.418684 TTAGGGCCTGTTCTGAAGTTC 57.581 47.619 18.53 0.00 0.00 3.01
78 79 3.138468 ACTTTAGGGCCTGTTCTGAAGTT 59.862 43.478 18.53 0.00 36.76 2.66
79 80 2.711547 ACTTTAGGGCCTGTTCTGAAGT 59.288 45.455 18.53 12.80 35.78 3.01
80 81 3.425162 ACTTTAGGGCCTGTTCTGAAG 57.575 47.619 18.53 12.20 34.20 3.02
82 83 3.908103 ACTTACTTTAGGGCCTGTTCTGA 59.092 43.478 18.53 0.00 0.00 3.27
83 84 4.287766 ACTTACTTTAGGGCCTGTTCTG 57.712 45.455 18.53 4.32 0.00 3.02
84 85 5.339477 TCTACTTACTTTAGGGCCTGTTCT 58.661 41.667 18.53 0.00 0.00 3.01
85 86 5.672421 TCTACTTACTTTAGGGCCTGTTC 57.328 43.478 18.53 0.00 0.00 3.18
86 87 5.045797 CCTTCTACTTACTTTAGGGCCTGTT 60.046 44.000 18.53 0.00 0.00 3.16
87 88 4.470304 CCTTCTACTTACTTTAGGGCCTGT 59.530 45.833 18.53 8.43 0.00 4.00
90 91 5.454897 CCATCCTTCTACTTACTTTAGGGCC 60.455 48.000 0.00 0.00 0.00 5.80
93 94 7.419711 TGTCCATCCTTCTACTTACTTTAGG 57.580 40.000 0.00 0.00 0.00 2.69
94 95 9.968870 GTATGTCCATCCTTCTACTTACTTTAG 57.031 37.037 0.00 0.00 0.00 1.85
95 96 9.483489 TGTATGTCCATCCTTCTACTTACTTTA 57.517 33.333 0.00 0.00 0.00 1.85
96 97 8.375493 TGTATGTCCATCCTTCTACTTACTTT 57.625 34.615 0.00 0.00 0.00 2.66
97 98 7.418025 GCTGTATGTCCATCCTTCTACTTACTT 60.418 40.741 0.00 0.00 0.00 2.24
98 99 6.041069 GCTGTATGTCCATCCTTCTACTTACT 59.959 42.308 0.00 0.00 0.00 2.24
99 100 6.183360 TGCTGTATGTCCATCCTTCTACTTAC 60.183 42.308 0.00 0.00 0.00 2.34
101 102 4.716784 TGCTGTATGTCCATCCTTCTACTT 59.283 41.667 0.00 0.00 0.00 2.24
103 104 4.100189 AGTGCTGTATGTCCATCCTTCTAC 59.900 45.833 0.00 0.00 0.00 2.59
108 4666 3.110705 AGAAGTGCTGTATGTCCATCCT 58.889 45.455 0.00 0.00 0.00 3.24
289 4848 4.935205 TCCAGATTACATATGGCGCAATAC 59.065 41.667 6.65 0.00 41.37 1.89
341 4900 5.939883 TGTTGAGCTTATTGTTGATAGCAGT 59.060 36.000 0.00 0.00 0.00 4.40
395 4954 1.337260 ACAAAGTAGACAGCTCCTGCG 60.337 52.381 0.00 0.00 45.42 5.18
402 4961 2.169832 TCCTGCACAAAGTAGACAGC 57.830 50.000 0.00 0.00 30.56 4.40
640 5200 1.378911 TTGCAGTGGCCCAGCATAG 60.379 57.895 13.65 0.00 40.13 2.23
683 5243 3.802948 TTCCTAGTCGATTTCCAGCTC 57.197 47.619 0.00 0.00 0.00 4.09
690 5250 8.801882 TTCATTTGGTTATTCCTAGTCGATTT 57.198 30.769 0.00 0.00 37.07 2.17
744 5304 4.051237 CGATCATGCTATCGTCAAAAGGA 58.949 43.478 8.28 0.00 42.93 3.36
834 5398 8.558973 AAACAAACAGTGAAATCAAATCCAAA 57.441 26.923 0.00 0.00 0.00 3.28
887 5498 2.493278 CAGGTTCTGGCCCTTGTTATTG 59.507 50.000 0.00 0.00 0.00 1.90
910 5521 5.529060 GTCCTGCTTCGGATTCAGAATATTT 59.471 40.000 0.00 0.00 35.11 1.40
931 5542 0.109319 ATTGCCGCGTTCATTTGTCC 60.109 50.000 4.92 0.00 0.00 4.02
1106 9939 4.135747 AGCTTCCATAGAAACTCTGCTC 57.864 45.455 0.00 0.00 0.00 4.26
1305 11162 4.157289 AGAACAATGAGTGATGCCATGAAC 59.843 41.667 0.00 0.00 0.00 3.18
1614 11473 2.301583 TGGTTCATCTCCGATGTTGTGA 59.698 45.455 4.01 0.00 0.00 3.58
1624 11483 1.767681 AGGAGCATCTGGTTCATCTCC 59.232 52.381 0.00 0.00 40.16 3.71
1658 11611 1.203441 ATTCTGCTCCAGTGCCTCCA 61.203 55.000 0.00 0.00 32.61 3.86
1788 11748 2.938539 GATCTCGAAGCACCGGGTCG 62.939 65.000 6.32 9.62 0.00 4.79
1848 11808 3.064900 AGTGATCCAGAAAAGGCAGTC 57.935 47.619 0.00 0.00 0.00 3.51
1866 11826 4.135306 GGAGCATGATGATGATGACAAGT 58.865 43.478 0.00 0.00 0.00 3.16
1893 11853 4.229096 CAATGTGATTCACTCCCGTTTTG 58.771 43.478 17.26 6.65 35.11 2.44
2034 11995 3.127352 GAGGTAGAGCAGGACCGCG 62.127 68.421 0.00 0.00 40.91 6.46
2484 12445 2.604912 TCAACTGGCTCTGGAGTAGA 57.395 50.000 9.64 0.00 0.00 2.59
2585 12546 1.076777 GGGGATAAGCTGCTGCCAA 60.077 57.895 12.44 0.64 40.80 4.52
2602 12569 9.334947 GACCAGGATTATCACATATATTGATGG 57.665 37.037 15.14 12.04 35.31 3.51
2610 12577 7.017950 ACAAGGATGACCAGGATTATCACATAT 59.982 37.037 0.00 0.00 38.94 1.78
2623 12590 6.656693 ACATAAGAGAAAACAAGGATGACCAG 59.343 38.462 0.00 0.00 38.94 4.00
2625 12592 7.040409 ACAACATAAGAGAAAACAAGGATGACC 60.040 37.037 0.00 0.00 0.00 4.02
2664 12631 3.678056 ACTCTTGCGACCACAAATAGA 57.322 42.857 0.00 0.00 0.00 1.98
2675 12642 3.067106 GTTTCATCAGGAACTCTTGCGA 58.933 45.455 0.00 0.00 34.60 5.10
2688 12655 1.162698 GCTGCTGAGCTGTTTCATCA 58.837 50.000 12.89 0.00 42.52 3.07
2695 12662 0.323957 TCATCTTGCTGCTGAGCTGT 59.676 50.000 12.89 0.00 46.39 4.40
2820 12787 1.768275 TCTCTGTTGTCAGCCCAGAAA 59.232 47.619 0.00 0.00 41.10 2.52
3162 13130 8.188139 GTGAAACATCCAGTTAAAGAAGTTGAA 58.812 33.333 0.00 0.00 40.26 2.69
3209 13177 6.914665 TCTATCATGATTCTTGGGTGGATTT 58.085 36.000 14.65 0.00 0.00 2.17
3362 13330 1.075212 TCACCTGTGAAATGGCCATCA 59.925 47.619 21.08 12.43 36.53 3.07
3560 13528 4.488136 CCTGCAGCATACGCCCCA 62.488 66.667 8.66 0.00 39.83 4.96


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

AutoCloner maintained by Alex Coulton.