Multiple sequence alignment - TraesCS3A01G124400

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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 TraesCS3A01G124400 chr3A 100.000 3890 0 0 1 3890 100428928 100432817 0.000000e+00 7184.0
1 TraesCS3A01G124400 chr3A 94.498 2072 86 11 1298 3364 100415324 100417372 0.000000e+00 3169.0
2 TraesCS3A01G124400 chr3A 92.190 525 20 5 3364 3888 100417427 100417930 0.000000e+00 723.0
3 TraesCS3A01G124400 chr3A 90.632 459 33 2 852 1300 100408847 100409305 5.560000e-168 601.0
4 TraesCS3A01G124400 chr3A 86.892 473 14 8 409 860 100408449 100408894 1.620000e-133 486.0
5 TraesCS3A01G124400 chr3D 95.404 2524 98 8 857 3364 84115992 84118513 0.000000e+00 4002.0
6 TraesCS3A01G124400 chr3D 95.248 2525 99 8 856 3364 84107249 84109768 0.000000e+00 3978.0
7 TraesCS3A01G124400 chr3D 88.285 828 37 17 70 860 84115230 84116034 0.000000e+00 937.0
8 TraesCS3A01G124400 chr3D 94.667 525 20 2 3364 3888 84118568 84119084 0.000000e+00 808.0
9 TraesCS3A01G124400 chr3D 90.299 536 33 5 3364 3888 84109823 84110350 0.000000e+00 684.0
10 TraesCS3A01G124400 chr3D 95.833 48 1 1 1 48 27896466 27896512 4.170000e-10 76.8
11 TraesCS3A01G124400 chr3B 95.257 2530 103 7 852 3364 132523842 132521313 0.000000e+00 3991.0
12 TraesCS3A01G124400 chr3B 94.656 524 21 1 3365 3888 132521258 132520742 0.000000e+00 806.0
13 TraesCS3A01G124400 chr3B 78.767 292 42 17 583 860 132524080 132523795 1.110000e-40 178.0
14 TraesCS3A01G124400 chr1A 91.250 80 7 0 3722 3801 357767128 357767207 4.110000e-20 110.0
15 TraesCS3A01G124400 chr5B 92.000 75 6 0 3724 3798 20822250 20822324 5.320000e-19 106.0
16 TraesCS3A01G124400 chr5A 91.026 78 7 0 3724 3801 19105072 19104995 5.320000e-19 106.0
17 TraesCS3A01G124400 chr7A 94.118 68 4 0 1 68 338628349 338628282 1.910000e-18 104.0
18 TraesCS3A01G124400 chr4D 94.118 68 4 0 1 68 333063791 333063858 1.910000e-18 104.0
19 TraesCS3A01G124400 chr4D 94.118 68 4 0 1 68 342531393 342531326 1.910000e-18 104.0
20 TraesCS3A01G124400 chr4D 97.436 39 1 0 30 68 12596061 12596023 2.510000e-07 67.6
21 TraesCS3A01G124400 chr4A 94.118 68 3 1 2 68 140289532 140289465 6.880000e-18 102.0
22 TraesCS3A01G124400 chr5D 89.744 78 8 0 3724 3801 28480029 28479952 2.470000e-17 100.0
23 TraesCS3A01G124400 chr5D 93.750 48 1 2 2 48 344564565 344564519 1.940000e-08 71.3
24 TraesCS3A01G124400 chr2A 89.873 79 7 1 3722 3800 778918558 778918481 2.470000e-17 100.0
25 TraesCS3A01G124400 chr7D 91.176 68 6 0 2 69 121903762 121903829 4.140000e-15 93.5


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 TraesCS3A01G124400 chr3A 100428928 100432817 3889 False 7184.000000 7184 100.000000 1 3890 1 chr3A.!!$F1 3889
1 TraesCS3A01G124400 chr3A 100415324 100417930 2606 False 1946.000000 3169 93.344000 1298 3888 2 chr3A.!!$F3 2590
2 TraesCS3A01G124400 chr3A 100408449 100409305 856 False 543.500000 601 88.762000 409 1300 2 chr3A.!!$F2 891
3 TraesCS3A01G124400 chr3D 84107249 84110350 3101 False 2331.000000 3978 92.773500 856 3888 2 chr3D.!!$F2 3032
4 TraesCS3A01G124400 chr3D 84115230 84119084 3854 False 1915.666667 4002 92.785333 70 3888 3 chr3D.!!$F3 3818
5 TraesCS3A01G124400 chr3B 132520742 132524080 3338 True 1658.333333 3991 89.560000 583 3888 3 chr3B.!!$R1 3305

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
758 811 0.240411 GTTCGTAGACCAGACGTGCT 59.760 55.0 0.00 0.0 41.11 4.40 F
1321 1385 0.036022 GAGAAGCAGGCAGTTCAGGT 59.964 55.0 0.00 0.0 0.00 4.00 F
1497 1561 0.036732 TCAAGGTGGAGAATGCGCTT 59.963 50.0 9.73 0.0 37.02 4.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1881 1945 0.829990 TGTCTATGAGCGCATTCCCA 59.170 50.000 11.47 0.0 35.94 4.37 R
2379 2443 2.093341 GGACAAAAGGACGTAGGCCATA 60.093 50.000 5.01 0.0 0.00 2.74 R
3414 3540 3.153919 GACACCCAGATTTGCTACCAAA 58.846 45.455 0.00 0.0 44.39 3.28 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
28 29 3.856508 GCGTTTAGCTGTCGCTCA 58.143 55.556 19.26 0.00 45.15 4.26
29 30 1.704582 GCGTTTAGCTGTCGCTCAG 59.295 57.895 19.26 3.64 45.15 3.35
54 55 4.812308 GCGACGCTTAAAAACGCT 57.188 50.000 13.73 0.00 44.67 5.07
55 56 3.067132 GCGACGCTTAAAAACGCTT 57.933 47.368 13.73 0.00 44.67 4.68
56 57 1.391787 GCGACGCTTAAAAACGCTTT 58.608 45.000 13.73 0.00 44.67 3.51
57 58 1.377830 GCGACGCTTAAAAACGCTTTC 59.622 47.619 13.73 0.00 44.67 2.62
58 59 2.899977 CGACGCTTAAAAACGCTTTCT 58.100 42.857 0.00 0.00 0.00 2.52
59 60 3.285745 CGACGCTTAAAAACGCTTTCTT 58.714 40.909 0.00 0.00 0.00 2.52
60 61 3.115736 CGACGCTTAAAAACGCTTTCTTG 59.884 43.478 0.00 0.00 0.00 3.02
61 62 4.276460 GACGCTTAAAAACGCTTTCTTGA 58.724 39.130 0.00 0.00 0.00 3.02
62 63 4.664188 ACGCTTAAAAACGCTTTCTTGAA 58.336 34.783 0.00 0.00 0.00 2.69
63 64 4.497966 ACGCTTAAAAACGCTTTCTTGAAC 59.502 37.500 0.00 0.00 0.00 3.18
64 65 4.497608 CGCTTAAAAACGCTTTCTTGAACA 59.502 37.500 0.00 0.00 0.00 3.18
65 66 5.173131 CGCTTAAAAACGCTTTCTTGAACAT 59.827 36.000 0.00 0.00 0.00 2.71
66 67 6.291585 CGCTTAAAAACGCTTTCTTGAACATT 60.292 34.615 0.00 0.00 0.00 2.71
67 68 6.840789 GCTTAAAAACGCTTTCTTGAACATTG 59.159 34.615 0.00 0.00 0.00 2.82
68 69 7.253950 GCTTAAAAACGCTTTCTTGAACATTGA 60.254 33.333 0.00 0.00 0.00 2.57
69 70 6.959671 AAAAACGCTTTCTTGAACATTGAA 57.040 29.167 0.00 0.00 0.00 2.69
70 71 6.959671 AAAACGCTTTCTTGAACATTGAAA 57.040 29.167 0.00 0.00 0.00 2.69
71 72 6.959671 AAACGCTTTCTTGAACATTGAAAA 57.040 29.167 0.00 0.00 30.67 2.29
72 73 6.959671 AACGCTTTCTTGAACATTGAAAAA 57.040 29.167 0.00 0.00 30.67 1.94
178 179 8.700051 TCAAAGGACCATAAAGTGAATTTTTGA 58.300 29.630 0.00 0.00 33.18 2.69
179 180 9.323985 CAAAGGACCATAAAGTGAATTTTTGAA 57.676 29.630 0.00 0.00 33.18 2.69
180 181 9.898152 AAAGGACCATAAAGTGAATTTTTGAAA 57.102 25.926 0.00 0.00 33.18 2.69
208 209 2.542597 ACAAATTTATGGCGCATGCAG 58.457 42.857 19.57 11.69 45.35 4.41
214 215 3.857549 TTATGGCGCATGCAGTTTTTA 57.142 38.095 19.57 0.00 45.35 1.52
216 217 5.506686 TTATGGCGCATGCAGTTTTTATA 57.493 34.783 19.57 3.43 45.35 0.98
218 219 4.383850 TGGCGCATGCAGTTTTTATAAT 57.616 36.364 19.57 0.00 45.35 1.28
223 224 7.493971 TGGCGCATGCAGTTTTTATAATATTTT 59.506 29.630 19.57 0.00 45.35 1.82
255 256 3.904800 TCTGAAAATAGATGGGTGCGA 57.095 42.857 0.00 0.00 0.00 5.10
355 356 4.202461 ACACATATTCTATCCATGCGGGTT 60.202 41.667 0.00 0.00 38.11 4.11
357 358 2.276732 ATTCTATCCATGCGGGTTGG 57.723 50.000 0.00 0.00 38.11 3.77
515 527 6.591834 CCGATTCCAAACAGCCTCTTATATAG 59.408 42.308 0.00 0.00 0.00 1.31
516 528 7.378966 CGATTCCAAACAGCCTCTTATATAGA 58.621 38.462 0.00 0.00 0.00 1.98
575 593 0.970937 AGTCTTCATTCCCCGCTCGA 60.971 55.000 0.00 0.00 0.00 4.04
617 636 4.586235 AAGGCCACCGCTGCTGTT 62.586 61.111 5.01 0.00 34.44 3.16
758 811 0.240411 GTTCGTAGACCAGACGTGCT 59.760 55.000 0.00 0.00 41.11 4.40
804 857 0.671251 ATCTCGTCGGCTCATCCTTC 59.329 55.000 0.00 0.00 0.00 3.46
815 868 1.563410 CTCATCCTTCCTTTCCCTGCT 59.437 52.381 0.00 0.00 0.00 4.24
877 930 2.800629 CGGTAAATCAATCTACCCGCGT 60.801 50.000 4.92 0.00 35.13 6.01
892 945 2.383862 CGTTTAACGCGACGACGG 59.616 61.111 15.93 1.93 41.53 4.79
982 1046 4.204028 AGCCCACGGTGCTGGTTT 62.204 61.111 1.68 0.00 37.76 3.27
1321 1385 0.036022 GAGAAGCAGGCAGTTCAGGT 59.964 55.000 0.00 0.00 0.00 4.00
1389 1453 1.594833 GCCGGTCACCTACATCACA 59.405 57.895 1.90 0.00 0.00 3.58
1398 1462 1.067565 ACCTACATCACAGTGCTGTCG 60.068 52.381 13.31 7.61 42.83 4.35
1497 1561 0.036732 TCAAGGTGGAGAATGCGCTT 59.963 50.000 9.73 0.00 37.02 4.68
1502 1566 0.109597 GTGGAGAATGCGCTTGTTGG 60.110 55.000 9.73 0.00 32.59 3.77
1575 1639 1.896220 TGCAGGTGAGGAACATTGTC 58.104 50.000 0.00 0.00 0.00 3.18
1632 1696 1.153289 CCAGGTTGATCGAGCCAGG 60.153 63.158 8.57 7.58 0.00 4.45
1638 1702 1.112113 TTGATCGAGCCAGGGTACTC 58.888 55.000 0.00 0.00 0.00 2.59
1680 1744 1.807165 CACCGTCTCATGGACTGCG 60.807 63.158 11.12 2.23 42.44 5.18
1881 1945 6.493166 TGGGATCAAGATGGATACTTTTGTT 58.507 36.000 0.00 0.00 37.61 2.83
1968 2032 7.432059 TCAATGAGATGCACAGTAGAGATAAG 58.568 38.462 0.00 0.00 0.00 1.73
1984 2048 5.655532 AGAGATAAGTTTACTTGGACCGCTA 59.344 40.000 5.41 0.00 37.40 4.26
2029 2093 1.427809 CCATGGTGAGGAGGCTATCA 58.572 55.000 2.57 0.00 0.00 2.15
2379 2443 3.242867 TGAGTTGGATCCAGAGAACAGT 58.757 45.455 15.53 1.26 0.00 3.55
2385 2449 2.224402 GGATCCAGAGAACAGTATGGCC 60.224 54.545 6.95 0.00 43.62 5.36
2508 2572 7.230849 TGGTTGCAGTCTTATTGAAATGAAT 57.769 32.000 0.00 0.00 0.00 2.57
2610 2674 4.842574 TCACGGATTTGAAGAATGATGGA 58.157 39.130 0.00 0.00 0.00 3.41
2730 2794 5.069119 TGCATTACTCGTATCAGAATCCAGT 59.931 40.000 0.00 0.00 0.00 4.00
2769 2833 6.316640 TCGTGAAAAACTTGAGGATGTGTTTA 59.683 34.615 0.00 0.00 33.07 2.01
2868 2932 6.070021 TCCATCATTTTAGACATGGACTCTGT 60.070 38.462 0.00 0.00 39.95 3.41
2919 2983 5.878332 TGCATCGATGATGTAAAACAAGT 57.122 34.783 29.20 0.00 41.60 3.16
2995 3059 4.669206 TTGTTTCAAATGATGCACTGGT 57.331 36.364 0.00 0.00 0.00 4.00
3074 3138 7.068103 CCAATGGAAGCCATACATGTTAAGTTA 59.932 37.037 2.30 0.00 44.40 2.24
3104 3168 1.851304 TCATCCCCAAACATCTTGGC 58.149 50.000 0.00 0.00 38.23 4.52
3248 3313 1.074752 GTTTTGCTCTGCTCCTCTCG 58.925 55.000 0.00 0.00 0.00 4.04
3259 3324 3.596214 TGCTCCTCTCGGTAATTTGTTC 58.404 45.455 0.00 0.00 0.00 3.18
3262 3327 5.046878 TGCTCCTCTCGGTAATTTGTTCTTA 60.047 40.000 0.00 0.00 0.00 2.10
3263 3328 5.520649 GCTCCTCTCGGTAATTTGTTCTTAG 59.479 44.000 0.00 0.00 0.00 2.18
3264 3329 6.627508 GCTCCTCTCGGTAATTTGTTCTTAGA 60.628 42.308 0.00 0.00 0.00 2.10
3265 3330 6.628185 TCCTCTCGGTAATTTGTTCTTAGAC 58.372 40.000 0.00 0.00 0.00 2.59
3266 3331 6.436532 TCCTCTCGGTAATTTGTTCTTAGACT 59.563 38.462 0.00 0.00 0.00 3.24
3267 3332 6.531948 CCTCTCGGTAATTTGTTCTTAGACTG 59.468 42.308 0.00 0.00 0.00 3.51
3288 3357 6.176183 ACTGTATTTGAGAGAGGTTCCAATG 58.824 40.000 0.00 0.00 0.00 2.82
3333 3403 6.003950 CCAAAGGAATTTGTCTGGTCTTCTA 58.996 40.000 0.57 0.00 0.00 2.10
3457 3583 3.287222 TGCTGAAGCTTTACTGTTTGGT 58.713 40.909 0.00 0.00 42.66 3.67
3458 3584 3.066621 TGCTGAAGCTTTACTGTTTGGTG 59.933 43.478 0.00 0.00 42.66 4.17
3459 3585 3.632189 CTGAAGCTTTACTGTTTGGTGC 58.368 45.455 0.00 0.00 0.00 5.01
3460 3586 3.287222 TGAAGCTTTACTGTTTGGTGCT 58.713 40.909 0.00 0.00 0.00 4.40
3461 3587 3.699038 TGAAGCTTTACTGTTTGGTGCTT 59.301 39.130 0.00 0.00 41.18 3.91
3462 3588 4.884744 TGAAGCTTTACTGTTTGGTGCTTA 59.115 37.500 0.00 0.00 39.04 3.09
3463 3589 4.830826 AGCTTTACTGTTTGGTGCTTAC 57.169 40.909 0.00 0.00 0.00 2.34
3752 3889 9.763465 CCGTATCAAAATATAAGACGTTTTTGT 57.237 29.630 16.32 9.41 39.13 2.83
3778 3915 6.809196 AGTTCAAATTGAAGTGCAAAAACGTA 59.191 30.769 14.59 0.00 38.51 3.57
3880 4018 3.153919 GGAATGTGGCACCTGAAGTAAA 58.846 45.455 16.26 0.00 0.00 2.01
3883 4021 3.222173 TGTGGCACCTGAAGTAAATGT 57.778 42.857 16.26 0.00 0.00 2.71
3888 4026 4.892934 TGGCACCTGAAGTAAATGTTTTCT 59.107 37.500 0.00 0.00 0.00 2.52
3889 4027 5.362430 TGGCACCTGAAGTAAATGTTTTCTT 59.638 36.000 0.00 0.00 31.67 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 4.812308 GCGTTTTTAAGCGTCGCT 57.188 50.000 15.47 15.47 42.56 4.93
37 38 1.377830 GAAAGCGTTTTTAAGCGTCGC 59.622 47.619 9.80 9.80 45.82 5.19
38 39 2.899977 AGAAAGCGTTTTTAAGCGTCG 58.100 42.857 0.00 0.00 38.61 5.12
39 40 4.276460 TCAAGAAAGCGTTTTTAAGCGTC 58.724 39.130 0.00 0.00 38.61 5.19
40 41 4.281525 TCAAGAAAGCGTTTTTAAGCGT 57.718 36.364 0.00 0.00 38.61 5.07
41 42 4.497608 TGTTCAAGAAAGCGTTTTTAAGCG 59.502 37.500 0.00 0.00 38.61 4.68
42 43 5.942325 TGTTCAAGAAAGCGTTTTTAAGC 57.058 34.783 0.00 0.00 0.00 3.09
43 44 8.114359 TCAATGTTCAAGAAAGCGTTTTTAAG 57.886 30.769 0.00 0.00 0.00 1.85
44 45 8.467402 TTCAATGTTCAAGAAAGCGTTTTTAA 57.533 26.923 0.00 0.00 0.00 1.52
45 46 8.467402 TTTCAATGTTCAAGAAAGCGTTTTTA 57.533 26.923 0.00 0.00 0.00 1.52
46 47 6.959671 TTCAATGTTCAAGAAAGCGTTTTT 57.040 29.167 0.00 0.00 0.00 1.94
47 48 6.959671 TTTCAATGTTCAAGAAAGCGTTTT 57.040 29.167 0.00 0.00 0.00 2.43
48 49 6.959671 TTTTCAATGTTCAAGAAAGCGTTT 57.040 29.167 0.00 0.00 33.35 3.60
49 50 6.959671 TTTTTCAATGTTCAAGAAAGCGTT 57.040 29.167 0.00 0.00 33.35 4.84
70 71 7.872113 TTAACATCAAATGGCTTTGGTTTTT 57.128 28.000 8.76 2.56 41.74 1.94
71 72 7.718753 TCATTAACATCAAATGGCTTTGGTTTT 59.281 29.630 8.76 5.10 41.74 2.43
72 73 7.222872 TCATTAACATCAAATGGCTTTGGTTT 58.777 30.769 8.76 3.99 41.74 3.27
73 74 6.767456 TCATTAACATCAAATGGCTTTGGTT 58.233 32.000 8.76 8.40 41.74 3.67
74 75 6.357579 TCATTAACATCAAATGGCTTTGGT 57.642 33.333 8.76 0.90 41.74 3.67
75 76 7.852971 AATCATTAACATCAAATGGCTTTGG 57.147 32.000 8.76 0.00 41.74 3.28
99 100 8.241367 GCTCAAGGTAATCGGAGATTTTAAAAA 58.759 33.333 4.44 0.00 45.12 1.94
105 106 4.762289 AGCTCAAGGTAATCGGAGATTT 57.238 40.909 0.34 0.00 45.12 2.17
111 112 3.119849 CCAAACAAGCTCAAGGTAATCGG 60.120 47.826 0.00 0.00 0.00 4.18
113 114 3.255642 TGCCAAACAAGCTCAAGGTAATC 59.744 43.478 0.00 0.00 0.00 1.75
156 157 9.898152 TTTTTCAAAAATTCACTTTATGGTCCT 57.102 25.926 0.00 0.00 0.00 3.85
186 187 4.111198 CTGCATGCGCCATAAATTTGTTA 58.889 39.130 14.09 0.00 37.32 2.41
188 189 2.094078 ACTGCATGCGCCATAAATTTGT 60.094 40.909 14.09 0.00 37.32 2.83
238 239 4.601019 CATTGTCGCACCCATCTATTTTC 58.399 43.478 0.00 0.00 0.00 2.29
255 256 1.237533 TCACTGATTGCGTGCATTGT 58.762 45.000 0.00 0.00 32.54 2.71
355 356 7.619965 TGTGTGTATGATTTTGTAGATCTCCA 58.380 34.615 0.00 0.00 0.00 3.86
450 462 6.398095 GCCACCAATATTTAGCTCAAACTTT 58.602 36.000 0.00 0.00 0.00 2.66
516 528 9.144747 GCTCTGTTTTTCTTTTTCTTTTTCTCT 57.855 29.630 0.00 0.00 0.00 3.10
517 529 8.104530 CGCTCTGTTTTTCTTTTTCTTTTTCTC 58.895 33.333 0.00 0.00 0.00 2.87
518 530 7.063426 CCGCTCTGTTTTTCTTTTTCTTTTTCT 59.937 33.333 0.00 0.00 0.00 2.52
519 531 7.062956 TCCGCTCTGTTTTTCTTTTTCTTTTTC 59.937 33.333 0.00 0.00 0.00 2.29
520 532 6.871492 TCCGCTCTGTTTTTCTTTTTCTTTTT 59.129 30.769 0.00 0.00 0.00 1.94
521 533 6.394809 TCCGCTCTGTTTTTCTTTTTCTTTT 58.605 32.000 0.00 0.00 0.00 2.27
522 534 5.961272 TCCGCTCTGTTTTTCTTTTTCTTT 58.039 33.333 0.00 0.00 0.00 2.52
575 593 3.861797 CGGGATAGCGGTGGCCTT 61.862 66.667 3.32 0.00 41.24 4.35
804 857 0.608035 TTTACCGCAGCAGGGAAAGG 60.608 55.000 8.98 0.00 39.08 3.11
815 868 2.828877 CGGGTAGATTGATTTACCGCA 58.171 47.619 5.05 0.00 40.19 5.69
877 930 3.460278 CGCCGTCGTCGCGTTAAA 61.460 61.111 5.77 0.00 34.17 1.52
1321 1385 2.089201 CAGGAATGAGCAGCATGACAA 58.911 47.619 0.00 0.00 39.69 3.18
1398 1462 1.668793 GTTGCCTTTGCCACATGCC 60.669 57.895 0.00 0.00 40.16 4.40
1497 1561 2.235155 ACACTCGGCATACATACCAACA 59.765 45.455 0.00 0.00 0.00 3.33
1575 1639 1.334243 GAGATTACCGACGTCCAGGAG 59.666 57.143 15.42 0.00 0.00 3.69
1632 1696 4.051922 CAGGCATACGATCAAAGAGTACC 58.948 47.826 0.00 0.00 0.00 3.34
1638 1702 3.388308 CCTCTCAGGCATACGATCAAAG 58.612 50.000 0.00 0.00 0.00 2.77
1680 1744 7.358066 CAGCTTGTACATAACCATCAATCATC 58.642 38.462 0.00 0.00 0.00 2.92
1881 1945 0.829990 TGTCTATGAGCGCATTCCCA 59.170 50.000 11.47 0.00 35.94 4.37
1968 2032 7.042254 CCAAGTATAATAGCGGTCCAAGTAAAC 60.042 40.741 0.00 0.00 0.00 2.01
1984 2048 6.319658 CCATTCACTGCAAGACCAAGTATAAT 59.680 38.462 0.00 0.00 37.43 1.28
2029 2093 5.829924 CCCTAAGCATCCTGTCAAACATATT 59.170 40.000 0.00 0.00 0.00 1.28
2379 2443 2.093341 GGACAAAAGGACGTAGGCCATA 60.093 50.000 5.01 0.00 0.00 2.74
2385 2449 4.315803 ACAGATTGGACAAAAGGACGTAG 58.684 43.478 0.00 0.00 0.00 3.51
2508 2572 3.724508 ACAAATTCGTGAATTGTGCCA 57.275 38.095 8.49 0.00 40.57 4.92
2610 2674 5.145564 ACCTCGGTTACATCAGGTACATAT 58.854 41.667 0.00 0.00 37.50 1.78
2730 2794 6.485313 AGTTTTTCACGATCCTTATTGTCACA 59.515 34.615 0.00 0.00 0.00 3.58
2769 2833 4.870123 TTTAATTGCATTGTGGCAGTCT 57.130 36.364 0.00 0.00 45.88 3.24
2868 2932 8.197592 TGAGTTACCAATAGTCCTTACAAGAA 57.802 34.615 0.00 0.00 0.00 2.52
2975 3039 4.370049 CAACCAGTGCATCATTTGAAACA 58.630 39.130 0.00 0.00 0.00 2.83
2976 3040 4.977741 CAACCAGTGCATCATTTGAAAC 57.022 40.909 0.00 0.00 0.00 2.78
3104 3168 6.111382 TCATTCAGCAACAGAGAAGATTAGG 58.889 40.000 0.00 0.00 0.00 2.69
3259 3324 7.093727 TGGAACCTCTCTCAAATACAGTCTAAG 60.094 40.741 0.00 0.00 0.00 2.18
3262 3327 5.087323 TGGAACCTCTCTCAAATACAGTCT 58.913 41.667 0.00 0.00 0.00 3.24
3263 3328 5.407407 TGGAACCTCTCTCAAATACAGTC 57.593 43.478 0.00 0.00 0.00 3.51
3264 3329 5.825593 TTGGAACCTCTCTCAAATACAGT 57.174 39.130 0.00 0.00 0.00 3.55
3265 3330 5.065731 GCATTGGAACCTCTCTCAAATACAG 59.934 44.000 0.00 0.00 0.00 2.74
3266 3331 4.943705 GCATTGGAACCTCTCTCAAATACA 59.056 41.667 0.00 0.00 0.00 2.29
3267 3332 4.943705 TGCATTGGAACCTCTCTCAAATAC 59.056 41.667 0.00 0.00 0.00 1.89
3414 3540 3.153919 GACACCCAGATTTGCTACCAAA 58.846 45.455 0.00 0.00 44.39 3.28
3752 3889 6.809196 ACGTTTTTGCACTTCAATTTGAACTA 59.191 30.769 7.74 0.00 34.12 2.24
3783 3920 7.242359 TGTATTTTCTCCCTCCATACCAAAAA 58.758 34.615 0.00 0.00 0.00 1.94


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

AutoCloner maintained by Alex Coulton.