Multiple sequence alignment - TraesCS5D01G146400

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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 TraesCS5D01G146400 chr5D 100.000 3527 0 0 1 3527 233035029 233038555 0.000000e+00 6514
1 TraesCS5D01G146400 chr5D 90.288 278 23 4 3045 3320 287426640 287426915 9.310000e-96 361
2 TraesCS5D01G146400 chr5B 95.134 3514 109 24 62 3527 271953495 271949996 0.000000e+00 5485
3 TraesCS5D01G146400 chr5A 94.638 3133 116 25 61 3159 321928379 321925265 0.000000e+00 4807
4 TraesCS5D01G146400 chr5A 95.166 331 11 2 3198 3527 321924763 321924437 5.220000e-143 518
5 TraesCS5D01G146400 chr5A 90.253 277 21 3 3044 3319 581626793 581626522 1.200000e-94 357
6 TraesCS5D01G146400 chr5A 88.356 292 29 1 3044 3335 352899992 352899706 2.610000e-91 346
7 TraesCS5D01G146400 chr6A 89.189 296 25 4 3045 3338 591650320 591650030 2.590000e-96 363
8 TraesCS5D01G146400 chr7A 90.217 276 23 3 3045 3319 503448774 503449046 1.200000e-94 357
9 TraesCS5D01G146400 chr7A 89.568 278 25 3 3044 3320 307960199 307959925 2.010000e-92 350
10 TraesCS5D01G146400 chr3A 89.324 281 24 4 3041 3320 424662400 424662675 7.250000e-92 348
11 TraesCS5D01G146400 chr2D 88.581 289 28 4 3045 3332 554047925 554047641 2.610000e-91 346


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 TraesCS5D01G146400 chr5D 233035029 233038555 3526 False 6514.0 6514 100.000 1 3527 1 chr5D.!!$F1 3526
1 TraesCS5D01G146400 chr5B 271949996 271953495 3499 True 5485.0 5485 95.134 62 3527 1 chr5B.!!$R1 3465
2 TraesCS5D01G146400 chr5A 321924437 321928379 3942 True 2662.5 4807 94.902 61 3527 2 chr5A.!!$R3 3466

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
51 52 0.035439 CTTTTCTCCCGCTGCCCTAA 60.035 55.000 0.00 0.0 0.0 2.69 F
534 559 0.247460 TGTCTGCGTGGATCTCTTGG 59.753 55.000 0.00 0.0 0.0 3.61 F
1314 1369 1.074405 AGACAAGGCCATGAAGCAGAA 59.926 47.619 16.33 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1041 1096 0.035630 GAGCATCTGGTTGACTGGCT 60.036 55.0 0.00 0.0 34.16 4.75 R
1395 1450 0.749049 TGAGGCCATCACTCTCATCG 59.251 55.0 5.01 0.0 35.98 3.84 R
2857 2912 1.343069 GTGAACTGGAGACTGGAGGT 58.657 55.0 0.00 0.0 0.00 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
17 18 2.202756 CTACTCGAACAGGCCCGC 60.203 66.667 0.00 0.00 0.00 6.13
18 19 3.718210 CTACTCGAACAGGCCCGCC 62.718 68.421 0.00 0.00 0.00 6.13
32 33 3.080647 CCGCCAGGGTTGTTATCTC 57.919 57.895 0.00 0.00 0.00 2.75
33 34 0.541863 CCGCCAGGGTTGTTATCTCT 59.458 55.000 0.00 0.00 0.00 3.10
34 35 1.065418 CCGCCAGGGTTGTTATCTCTT 60.065 52.381 0.00 0.00 0.00 2.85
35 36 2.618045 CCGCCAGGGTTGTTATCTCTTT 60.618 50.000 0.00 0.00 0.00 2.52
36 37 3.081804 CGCCAGGGTTGTTATCTCTTTT 58.918 45.455 0.00 0.00 0.00 2.27
37 38 3.127030 CGCCAGGGTTGTTATCTCTTTTC 59.873 47.826 0.00 0.00 0.00 2.29
38 39 4.336280 GCCAGGGTTGTTATCTCTTTTCT 58.664 43.478 0.00 0.00 0.00 2.52
39 40 4.396478 GCCAGGGTTGTTATCTCTTTTCTC 59.604 45.833 0.00 0.00 0.00 2.87
40 41 4.944317 CCAGGGTTGTTATCTCTTTTCTCC 59.056 45.833 0.00 0.00 0.00 3.71
41 42 4.944317 CAGGGTTGTTATCTCTTTTCTCCC 59.056 45.833 0.00 0.00 0.00 4.30
42 43 3.939592 GGGTTGTTATCTCTTTTCTCCCG 59.060 47.826 0.00 0.00 0.00 5.14
43 44 3.374367 GGTTGTTATCTCTTTTCTCCCGC 59.626 47.826 0.00 0.00 0.00 6.13
44 45 4.254492 GTTGTTATCTCTTTTCTCCCGCT 58.746 43.478 0.00 0.00 0.00 5.52
45 46 3.861840 TGTTATCTCTTTTCTCCCGCTG 58.138 45.455 0.00 0.00 0.00 5.18
46 47 2.604046 TATCTCTTTTCTCCCGCTGC 57.396 50.000 0.00 0.00 0.00 5.25
47 48 0.107459 ATCTCTTTTCTCCCGCTGCC 60.107 55.000 0.00 0.00 0.00 4.85
48 49 1.746991 CTCTTTTCTCCCGCTGCCC 60.747 63.158 0.00 0.00 0.00 5.36
49 50 2.190488 CTCTTTTCTCCCGCTGCCCT 62.190 60.000 0.00 0.00 0.00 5.19
50 51 0.907704 TCTTTTCTCCCGCTGCCCTA 60.908 55.000 0.00 0.00 0.00 3.53
51 52 0.035439 CTTTTCTCCCGCTGCCCTAA 60.035 55.000 0.00 0.00 0.00 2.69
52 53 0.402504 TTTTCTCCCGCTGCCCTAAA 59.597 50.000 0.00 0.00 0.00 1.85
53 54 0.402504 TTTCTCCCGCTGCCCTAAAA 59.597 50.000 0.00 0.00 0.00 1.52
54 55 0.402504 TTCTCCCGCTGCCCTAAAAA 59.597 50.000 0.00 0.00 0.00 1.94
120 121 5.039333 CCTGCAACTGTTCAAGAAAAAGAG 58.961 41.667 0.00 0.00 0.00 2.85
125 126 7.655328 TGCAACTGTTCAAGAAAAAGAGAAAAA 59.345 29.630 0.00 0.00 0.00 1.94
126 127 7.952101 GCAACTGTTCAAGAAAAAGAGAAAAAC 59.048 33.333 0.00 0.00 0.00 2.43
127 128 7.796958 ACTGTTCAAGAAAAAGAGAAAAACG 57.203 32.000 1.96 0.00 0.00 3.60
157 158 2.109181 CCTTTCCTCCGCGATCCC 59.891 66.667 8.23 0.00 0.00 3.85
159 160 2.685743 TTTCCTCCGCGATCCCCA 60.686 61.111 8.23 0.00 0.00 4.96
161 162 3.976490 TTCCTCCGCGATCCCCAGT 62.976 63.158 8.23 0.00 0.00 4.00
165 166 4.891727 CCGCGATCCCCAGTTCCG 62.892 72.222 8.23 0.00 0.00 4.30
166 167 3.833645 CGCGATCCCCAGTTCCGA 61.834 66.667 0.00 0.00 0.00 4.55
167 168 2.202892 GCGATCCCCAGTTCCGAC 60.203 66.667 0.00 0.00 0.00 4.79
168 169 2.104331 CGATCCCCAGTTCCGACG 59.896 66.667 0.00 0.00 0.00 5.12
177 187 3.745803 GTTCCGACGCCGTCCTCT 61.746 66.667 12.26 0.00 0.00 3.69
219 235 0.311165 CGCCGAGATTGGTCTACGAT 59.689 55.000 0.00 0.00 33.97 3.73
360 385 2.796651 CAAATGGCTGCGGCTCTC 59.203 61.111 18.85 0.70 38.73 3.20
382 407 3.252215 CCTCCAAATCCGCGCAAAATATA 59.748 43.478 8.75 0.00 0.00 0.86
383 408 4.082787 CCTCCAAATCCGCGCAAAATATAT 60.083 41.667 8.75 0.00 0.00 0.86
390 415 5.250235 TCCGCGCAAAATATATTTTTCCA 57.750 34.783 18.72 0.68 37.86 3.53
398 423 7.273659 GCAAAATATATTTTTCCATCGCGTTC 58.726 34.615 18.72 0.00 37.86 3.95
411 436 1.713830 GCGTTCGATTTTAGCGCCT 59.286 52.632 2.29 0.00 41.93 5.52
460 485 1.469917 CTGCTTTTGTGAAGCGTGTG 58.530 50.000 6.31 0.00 45.80 3.82
534 559 0.247460 TGTCTGCGTGGATCTCTTGG 59.753 55.000 0.00 0.00 0.00 3.61
670 697 5.246307 GTTGCTGGTCCTCAGTAGTAAAAT 58.754 41.667 0.00 0.00 45.08 1.82
748 775 4.993584 AGACATGCTTAATCGCTTATCCAG 59.006 41.667 0.00 0.00 0.00 3.86
775 805 9.904198 TTTGATCATAGTCATCTGGTTTAATGA 57.096 29.630 0.00 0.00 0.00 2.57
813 844 2.679837 CTGCGTCATAACTGGAGCAATT 59.320 45.455 0.00 0.00 35.74 2.32
863 894 3.349022 TGGGAAGAACTTTTGTGACGTT 58.651 40.909 0.00 0.00 0.00 3.99
929 960 6.294731 GCAAGACATACCTCTGTTTCCATTTT 60.295 38.462 0.00 0.00 0.00 1.82
974 1027 2.670414 GCACTGCTTACACATCTCAGTC 59.330 50.000 0.00 0.00 36.01 3.51
994 1049 8.282455 TCAGTCTCAGATTTACTAGTACAAGG 57.718 38.462 0.91 0.00 0.00 3.61
1037 1092 2.976509 CACAATCTAGCGACTATGAGCG 59.023 50.000 0.00 0.00 38.61 5.03
1293 1348 3.055094 TCTCCCAACTGATCAACTTAGCC 60.055 47.826 0.00 0.00 0.00 3.93
1314 1369 1.074405 AGACAAGGCCATGAAGCAGAA 59.926 47.619 16.33 0.00 0.00 3.02
1321 1376 3.132289 AGGCCATGAAGCAGAAATTGATG 59.868 43.478 5.01 0.00 0.00 3.07
1322 1377 3.131577 GGCCATGAAGCAGAAATTGATGA 59.868 43.478 0.00 0.00 0.00 2.92
1395 1450 1.068055 CAAAGGTGGCATGCTTCAGAC 60.068 52.381 18.92 6.71 0.00 3.51
1566 1621 5.298197 AGAGCTACATGAATACCGATACG 57.702 43.478 0.00 0.00 0.00 3.06
1731 1786 1.780309 AGTGAATTGACTGGGTGGGAA 59.220 47.619 0.00 0.00 0.00 3.97
1793 1848 1.843368 ATGACCAACTTGATGGCAGG 58.157 50.000 0.00 0.00 44.75 4.85
1935 1990 1.376424 ACCTGCAGCGACATCCTTG 60.376 57.895 8.66 0.00 0.00 3.61
1965 2020 4.890499 TCTTCCCTCTCTGGTTATCTCT 57.110 45.455 0.00 0.00 0.00 3.10
2069 2124 7.201794 GCTACCATGCATGCATCTATATCATTT 60.202 37.037 30.07 2.89 33.90 2.32
2192 2247 4.583907 TGCAACAAATGAAAGAGATGTCCA 59.416 37.500 0.00 0.00 0.00 4.02
2193 2248 4.919754 GCAACAAATGAAAGAGATGTCCAC 59.080 41.667 0.00 0.00 0.00 4.02
2238 2293 2.353109 GCAGGAAATTGGTGAAGAAGGC 60.353 50.000 0.00 0.00 0.00 4.35
2305 2360 4.820897 TGCAGTGGAAGTGACTAATACAG 58.179 43.478 0.00 0.00 40.62 2.74
2318 2373 4.261801 ACTAATACAGGTGAACATGGTGC 58.738 43.478 0.00 0.00 30.95 5.01
2355 2410 1.228245 AAACAGAGCACGTGCCCAT 60.228 52.632 35.51 19.09 43.38 4.00
2560 2615 6.049149 ACATGTGTACTGATCCCGAATTTAG 58.951 40.000 0.00 0.00 0.00 1.85
2724 2779 4.275689 TCAGTTCAGCAAAGTGTGTATTGG 59.724 41.667 6.58 0.00 39.06 3.16
2865 2920 4.678256 TGAAGACTCAAGATACCTCCAGT 58.322 43.478 0.00 0.00 0.00 4.00
2899 2954 7.942341 TCACCTCATGTTAGAAATTTAACCAGT 59.058 33.333 0.00 0.00 33.56 4.00
3058 3113 2.509964 CAGGTATAGGCCTCCTTTGGTT 59.490 50.000 9.68 0.00 36.58 3.67
3190 3439 7.432148 TTTCCATTGAGTCTAGGCTAATGTA 57.568 36.000 17.62 6.70 0.00 2.29
3192 3441 7.618019 TCCATTGAGTCTAGGCTAATGTATT 57.382 36.000 17.62 0.00 0.00 1.89
3193 3442 8.721133 TCCATTGAGTCTAGGCTAATGTATTA 57.279 34.615 17.62 5.63 0.00 0.98
3268 3787 6.834168 GAATCCATTCCTACAAACCAAAGA 57.166 37.500 0.00 0.00 0.00 2.52
3285 3805 6.653020 ACCAAAGAGCTCCAAAGAAATTTTT 58.347 32.000 10.93 0.00 0.00 1.94
3287 3807 6.203530 CCAAAGAGCTCCAAAGAAATTTTTCC 59.796 38.462 10.93 0.00 37.92 3.13
3362 3882 4.566004 TGTGGTAGCTTGTATGTTCTCAC 58.434 43.478 0.00 0.00 0.00 3.51
3414 3934 1.268079 GCAGAAGGCAGAAACCAGTTC 59.732 52.381 0.00 0.00 43.97 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.202756 GCGGGCCTGTTCGAGTAG 60.203 66.667 14.55 0.00 0.00 2.57
1 2 3.766691 GGCGGGCCTGTTCGAGTA 61.767 66.667 14.55 0.00 0.00 2.59
14 15 0.541863 AGAGATAACAACCCTGGCGG 59.458 55.000 0.00 0.00 37.81 6.13
15 16 2.403252 AAGAGATAACAACCCTGGCG 57.597 50.000 0.00 0.00 0.00 5.69
16 17 4.336280 AGAAAAGAGATAACAACCCTGGC 58.664 43.478 0.00 0.00 0.00 4.85
17 18 4.944317 GGAGAAAAGAGATAACAACCCTGG 59.056 45.833 0.00 0.00 0.00 4.45
18 19 4.944317 GGGAGAAAAGAGATAACAACCCTG 59.056 45.833 0.00 0.00 0.00 4.45
19 20 4.323562 CGGGAGAAAAGAGATAACAACCCT 60.324 45.833 0.00 0.00 0.00 4.34
20 21 3.939592 CGGGAGAAAAGAGATAACAACCC 59.060 47.826 0.00 0.00 0.00 4.11
21 22 3.374367 GCGGGAGAAAAGAGATAACAACC 59.626 47.826 0.00 0.00 0.00 3.77
22 23 4.093556 CAGCGGGAGAAAAGAGATAACAAC 59.906 45.833 0.00 0.00 0.00 3.32
23 24 4.253685 CAGCGGGAGAAAAGAGATAACAA 58.746 43.478 0.00 0.00 0.00 2.83
24 25 3.861840 CAGCGGGAGAAAAGAGATAACA 58.138 45.455 0.00 0.00 0.00 2.41
25 26 2.609916 GCAGCGGGAGAAAAGAGATAAC 59.390 50.000 0.00 0.00 0.00 1.89
26 27 2.420129 GGCAGCGGGAGAAAAGAGATAA 60.420 50.000 0.00 0.00 0.00 1.75
27 28 1.139058 GGCAGCGGGAGAAAAGAGATA 59.861 52.381 0.00 0.00 0.00 1.98
28 29 0.107459 GGCAGCGGGAGAAAAGAGAT 60.107 55.000 0.00 0.00 0.00 2.75
29 30 1.296715 GGCAGCGGGAGAAAAGAGA 59.703 57.895 0.00 0.00 0.00 3.10
30 31 1.746991 GGGCAGCGGGAGAAAAGAG 60.747 63.158 0.00 0.00 0.00 2.85
31 32 0.907704 TAGGGCAGCGGGAGAAAAGA 60.908 55.000 0.00 0.00 0.00 2.52
32 33 0.035439 TTAGGGCAGCGGGAGAAAAG 60.035 55.000 0.00 0.00 0.00 2.27
33 34 0.402504 TTTAGGGCAGCGGGAGAAAA 59.597 50.000 0.00 0.00 0.00 2.29
34 35 0.402504 TTTTAGGGCAGCGGGAGAAA 59.597 50.000 0.00 0.00 0.00 2.52
35 36 0.402504 TTTTTAGGGCAGCGGGAGAA 59.597 50.000 0.00 0.00 0.00 2.87
36 37 2.071502 TTTTTAGGGCAGCGGGAGA 58.928 52.632 0.00 0.00 0.00 3.71
37 38 4.734652 TTTTTAGGGCAGCGGGAG 57.265 55.556 0.00 0.00 0.00 4.30
52 53 6.329496 TGCGTGAGAAAAGAGATTTGTTTTT 58.671 32.000 0.00 0.00 30.71 1.94
53 54 5.890334 TGCGTGAGAAAAGAGATTTGTTTT 58.110 33.333 0.00 0.00 32.98 2.43
54 55 5.296780 TCTGCGTGAGAAAAGAGATTTGTTT 59.703 36.000 0.00 0.00 0.00 2.83
55 56 4.816385 TCTGCGTGAGAAAAGAGATTTGTT 59.184 37.500 0.00 0.00 0.00 2.83
56 57 4.380531 TCTGCGTGAGAAAAGAGATTTGT 58.619 39.130 0.00 0.00 0.00 2.83
57 58 4.997905 TCTGCGTGAGAAAAGAGATTTG 57.002 40.909 0.00 0.00 0.00 2.32
85 86 3.499918 ACAGTTGCAGGATTTCTTTCGAG 59.500 43.478 0.00 0.00 0.00 4.04
92 93 4.836125 TCTTGAACAGTTGCAGGATTTC 57.164 40.909 0.00 0.00 0.00 2.17
120 121 2.545113 GGGAAAGGTTGGAGCGTTTTTC 60.545 50.000 0.00 0.00 0.00 2.29
125 126 0.185175 AAAGGGAAAGGTTGGAGCGT 59.815 50.000 0.00 0.00 0.00 5.07
126 127 0.881796 GAAAGGGAAAGGTTGGAGCG 59.118 55.000 0.00 0.00 0.00 5.03
127 128 1.203063 AGGAAAGGGAAAGGTTGGAGC 60.203 52.381 0.00 0.00 0.00 4.70
159 160 3.745803 GAGGACGGCGTCGGAACT 61.746 66.667 31.02 22.75 41.39 3.01
161 162 2.986306 GAAGAGGACGGCGTCGGAA 61.986 63.158 31.02 0.00 41.39 4.30
165 166 4.144703 GGGGAAGAGGACGGCGTC 62.145 72.222 30.72 30.72 0.00 5.19
168 169 3.787001 CTGGGGGAAGAGGACGGC 61.787 72.222 0.00 0.00 0.00 5.68
172 182 3.984186 CTCGGCTGGGGGAAGAGGA 62.984 68.421 0.00 0.00 0.00 3.71
174 184 4.168291 GCTCGGCTGGGGGAAGAG 62.168 72.222 0.00 0.00 0.00 2.85
219 235 2.582436 GGAACGGCGATCTGGGAA 59.418 61.111 16.62 0.00 0.00 3.97
360 385 0.173255 ATTTTGCGCGGATTTGGAGG 59.827 50.000 8.83 0.00 0.00 4.30
398 423 0.719465 ACAACGAGGCGCTAAAATCG 59.281 50.000 7.64 12.17 40.86 3.34
411 436 1.066716 CCCCGATTTCCACTACAACGA 60.067 52.381 0.00 0.00 0.00 3.85
444 469 0.027455 TCGCACACGCTTCACAAAAG 59.973 50.000 0.00 0.00 39.84 2.27
460 485 0.535553 AGGAGAGGTACCGAGATCGC 60.536 60.000 6.18 0.00 38.18 4.58
534 559 2.252072 TATCACGGAACAGCCTGCCC 62.252 60.000 0.00 0.00 0.00 5.36
670 697 7.402054 AGTATTCACATGACCAAACTGGATAA 58.598 34.615 0.00 0.00 40.96 1.75
728 755 5.679734 AACTGGATAAGCGATTAAGCATG 57.320 39.130 0.00 0.00 40.15 4.06
748 775 9.941664 CATTAAACCAGATGACTATGATCAAAC 57.058 33.333 0.00 0.00 30.82 2.93
775 805 3.379372 ACGCAGAAGAAATATGCAGCATT 59.621 39.130 14.58 0.00 46.69 3.56
777 807 2.352651 GACGCAGAAGAAATATGCAGCA 59.647 45.455 0.00 0.00 46.69 4.41
813 844 4.470334 ACCTGAAAAAGAAAAGCAAGCA 57.530 36.364 0.00 0.00 0.00 3.91
828 859 2.978978 TCTTCCCAGATGTCAACCTGAA 59.021 45.455 7.06 0.00 32.37 3.02
863 894 8.321353 AGGTGTTTATCAGATACATTGTTGAGA 58.679 33.333 0.00 0.00 0.00 3.27
929 960 6.092092 CGCTGGTGAAAATAACAAATGATCA 58.908 36.000 0.00 0.00 0.00 2.92
974 1027 6.043411 GGCACCTTGTACTAGTAAATCTGAG 58.957 44.000 3.61 0.00 0.00 3.35
1037 1092 0.543749 ATCTGGTTGACTGGCTAGGC 59.456 55.000 9.85 9.85 0.00 3.93
1041 1096 0.035630 GAGCATCTGGTTGACTGGCT 60.036 55.000 0.00 0.00 34.16 4.75
1293 1348 0.809385 CTGCTTCATGGCCTTGTCTG 59.191 55.000 17.54 10.24 0.00 3.51
1314 1369 2.677836 CACAACGGTCGGATCATCAATT 59.322 45.455 0.00 0.00 0.00 2.32
1338 1393 3.134458 AGAATTATAAGACGCCAGCTGC 58.866 45.455 8.66 2.87 0.00 5.25
1347 1402 8.788325 ACTGGTTTGGTGTAGAATTATAAGAC 57.212 34.615 0.00 0.00 0.00 3.01
1395 1450 0.749049 TGAGGCCATCACTCTCATCG 59.251 55.000 5.01 0.00 35.98 3.84
1731 1786 3.946824 AGTCCATACCCCATCTTCAGAT 58.053 45.455 0.00 0.00 34.56 2.90
1793 1848 1.076485 ACATCTGGCCCTTCCATGC 60.076 57.895 0.00 0.00 45.50 4.06
2192 2247 2.446994 TGTGTTCCTCCACCCCGT 60.447 61.111 0.00 0.00 34.35 5.28
2193 2248 2.032071 GTGTGTTCCTCCACCCCG 59.968 66.667 0.00 0.00 34.35 5.73
2238 2293 1.829849 TCAGCCTCAGGTTCATCAGAG 59.170 52.381 0.00 0.00 0.00 3.35
2355 2410 1.663643 GCAATAAACAGCCATCGACGA 59.336 47.619 0.00 0.00 0.00 4.20
2560 2615 2.066262 CAATCGAGTACCACCACACAC 58.934 52.381 0.00 0.00 0.00 3.82
2724 2779 3.641437 TTGAATAACAACAGCAGGCAC 57.359 42.857 0.00 0.00 33.18 5.01
2857 2912 1.343069 GTGAACTGGAGACTGGAGGT 58.657 55.000 0.00 0.00 0.00 3.85
2865 2920 4.416516 TCTAACATGAGGTGAACTGGAGA 58.583 43.478 0.00 0.00 0.00 3.71
2899 2954 1.630369 AGAAATACCTCACAGCCAGCA 59.370 47.619 0.00 0.00 0.00 4.41
3026 3081 6.228977 AGGCCTATACCTGAATACCTCTAA 57.771 41.667 1.29 0.00 39.13 2.10
3027 3082 5.281611 GGAGGCCTATACCTGAATACCTCTA 60.282 48.000 4.42 0.00 41.32 2.43
3160 3409 6.248433 AGCCTAGACTCAATGGAAAAATTCA 58.752 36.000 0.00 0.00 0.00 2.57
3268 3787 9.679661 TTTTTAAGGAAAAATTTCTTTGGAGCT 57.320 25.926 12.01 0.00 39.16 4.09
3358 3878 1.270625 TGCCCTGTTTTACCTCGTGAG 60.271 52.381 0.00 0.00 0.00 3.51
3362 3882 0.676782 CCCTGCCCTGTTTTACCTCG 60.677 60.000 0.00 0.00 0.00 4.63


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

AutoCloner maintained by Alex Coulton.