Multiple sequence alignment - TraesCS1A01G122600

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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 TraesCS1A01G122600 chr1A 100.000 3349 0 0 1 3349 139552024 139555372 0.000000e+00 6185.0
1 TraesCS1A01G122600 chr1D 94.952 2932 79 34 10 2902 125821582 125824483 0.000000e+00 4530.0
2 TraesCS1A01G122600 chr1D 90.975 277 11 5 3078 3349 125824481 125824748 8.830000e-96 361.0
3 TraesCS1A01G122600 chr1D 91.304 92 8 0 2938 3029 464031194 464031285 3.510000e-25 126.0
4 TraesCS1A01G122600 chr1B 93.906 1887 63 19 1011 2866 189583733 189585598 0.000000e+00 2800.0
5 TraesCS1A01G122600 chr1B 95.225 712 22 4 10 719 189582175 189582876 0.000000e+00 1116.0
6 TraesCS1A01G122600 chr1B 91.289 287 20 4 3067 3349 189596340 189596625 1.460000e-103 387.0
7 TraesCS1A01G122600 chr1B 96.059 203 4 2 745 947 189583154 189583352 8.960000e-86 327.0
8 TraesCS1A01G122600 chr1B 90.187 214 14 2 2735 2946 189586188 189586396 4.260000e-69 272.0
9 TraesCS1A01G122600 chr1B 93.103 87 6 0 2943 3029 190318917 190318831 9.750000e-26 128.0
10 TraesCS1A01G122600 chr1B 92.188 64 5 0 3030 3093 189592895 189592958 1.280000e-14 91.6
11 TraesCS1A01G122600 chr3B 87.786 131 16 0 1658 1788 106120507 106120637 1.610000e-33 154.0
12 TraesCS1A01G122600 chr3B 89.247 93 10 0 2942 3034 805351605 805351697 2.110000e-22 117.0
13 TraesCS1A01G122600 chr4D 93.103 87 5 1 2949 3035 94698258 94698343 3.510000e-25 126.0
14 TraesCS1A01G122600 chr6A 89.583 96 10 0 2941 3036 51480531 51480626 4.540000e-24 122.0
15 TraesCS1A01G122600 chr5B 89.362 94 10 0 2936 3029 271181467 271181560 5.870000e-23 119.0
16 TraesCS1A01G122600 chr3D 90.000 90 9 0 2939 3028 67632198 67632287 2.110000e-22 117.0
17 TraesCS1A01G122600 chr2A 89.247 93 8 2 2940 3031 734391667 734391576 7.590000e-22 115.0
18 TraesCS1A01G122600 chr4A 86.408 103 13 1 2935 3036 595990141 595990243 9.820000e-21 111.0


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 TraesCS1A01G122600 chr1A 139552024 139555372 3348 False 6185.00 6185 100.00000 1 3349 1 chr1A.!!$F1 3348
1 TraesCS1A01G122600 chr1D 125821582 125824748 3166 False 2445.50 4530 92.96350 10 3349 2 chr1D.!!$F2 3339
2 TraesCS1A01G122600 chr1B 189582175 189586396 4221 False 1128.75 2800 93.84425 10 2946 4 chr1B.!!$F1 2936
3 TraesCS1A01G122600 chr1B 189592895 189596625 3730 False 239.30 387 91.73850 3030 3349 2 chr1B.!!$F2 319

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
317 320 1.066929 GGGCATTGGGTGTGATTTGTC 60.067 52.381 0.0 0.0 0.00 3.18 F
637 642 1.134220 CCTCCGCTACAGAGAGAGAGT 60.134 57.143 0.0 0.0 32.86 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2148 2772 0.101759 GGCGATGAACATGCTGCAAT 59.898 50.0 6.36 0.00 0.0 3.56 R
2601 3234 0.533531 TCACAGAGGCAGCAACAGTG 60.534 55.0 0.00 1.07 0.0 3.66 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 32 1.341080 TGCATCAGCGGATCTATGGA 58.659 50.000 0.00 0.00 46.23 3.41
119 120 3.143807 TGTTCAAAAGACTTGTTGCCG 57.856 42.857 0.00 0.00 0.00 5.69
317 320 1.066929 GGGCATTGGGTGTGATTTGTC 60.067 52.381 0.00 0.00 0.00 3.18
498 501 3.586618 AGAGAGAGAGTGGAAAAGGCAAT 59.413 43.478 0.00 0.00 0.00 3.56
503 506 2.232941 AGAGTGGAAAAGGCAATGCATG 59.767 45.455 7.79 0.00 0.00 4.06
517 522 3.908643 ATGCATGCAAGAGAAGAGAGA 57.091 42.857 26.68 0.00 0.00 3.10
518 523 3.248495 TGCATGCAAGAGAAGAGAGAG 57.752 47.619 20.30 0.00 0.00 3.20
519 524 2.830321 TGCATGCAAGAGAAGAGAGAGA 59.170 45.455 20.30 0.00 0.00 3.10
520 525 3.119065 TGCATGCAAGAGAAGAGAGAGAG 60.119 47.826 20.30 0.00 0.00 3.20
521 526 3.130869 GCATGCAAGAGAAGAGAGAGAGA 59.869 47.826 14.21 0.00 0.00 3.10
522 527 4.735578 GCATGCAAGAGAAGAGAGAGAGAG 60.736 50.000 14.21 0.00 0.00 3.20
523 528 4.299586 TGCAAGAGAAGAGAGAGAGAGA 57.700 45.455 0.00 0.00 0.00 3.10
524 529 4.264253 TGCAAGAGAAGAGAGAGAGAGAG 58.736 47.826 0.00 0.00 0.00 3.20
637 642 1.134220 CCTCCGCTACAGAGAGAGAGT 60.134 57.143 0.00 0.00 32.86 3.24
730 1006 6.222038 CTCTGTAGAGTAGAGAGAGAGTGT 57.778 45.833 2.64 0.00 46.05 3.55
890 1167 3.941483 GACTCAACAGAGAGAGAGAGAGG 59.059 52.174 0.00 0.00 38.98 3.69
1173 1771 1.196127 GCTTCATGCTTTGCCTTTTGC 59.804 47.619 0.00 0.00 38.95 3.68
1195 1793 1.544825 TTCGTCTCAGGCTTGGAGGG 61.545 60.000 0.00 0.00 33.18 4.30
1310 1913 7.059156 TGGTATAGTAGAGTAGTTCCTCCAAC 58.941 42.308 0.00 0.00 34.86 3.77
1404 2007 1.801178 GAAACTGTCACTGCCACTAGC 59.199 52.381 0.00 0.00 44.14 3.42
1472 2082 3.054166 CAATGTGTGCAAGTGGAACATG 58.946 45.455 0.00 0.00 44.52 3.21
1476 2086 4.140536 TGTGTGCAAGTGGAACATGATTA 58.859 39.130 0.00 0.00 44.52 1.75
1502 2112 9.965902 AAAGATTTTACTGATCCATGTTCTACT 57.034 29.630 0.00 0.00 0.00 2.57
1511 2125 4.808414 TCCATGTTCTACTTGTCTCTGG 57.192 45.455 0.00 0.00 0.00 3.86
1584 2198 3.372554 CTCCTTCCGGCGGAACCTC 62.373 68.421 35.71 0.00 36.71 3.85
1605 2222 3.869473 TTCCTCGTCCAAACCGCCG 62.869 63.158 0.00 0.00 0.00 6.46
1856 2476 2.379634 CGTGCGCTTTGGTCGATCA 61.380 57.895 9.73 0.00 0.00 2.92
1886 2506 2.202730 GCTCTGTCCGCTCTGCTC 60.203 66.667 0.00 0.00 0.00 4.26
2148 2772 1.662629 GACGACGATCTCTGGACGTTA 59.337 52.381 0.00 0.00 40.29 3.18
2230 2859 0.879765 CGTCCTCGGTCAGTACAACT 59.120 55.000 0.00 0.00 0.00 3.16
2232 2861 0.601558 TCCTCGGTCAGTACAACTGC 59.398 55.000 2.12 0.00 45.54 4.40
2236 2865 3.067106 CTCGGTCAGTACAACTGCAAAT 58.933 45.455 2.12 0.00 45.54 2.32
2256 2888 2.362736 TGCTGATGCTTTCTCCACATC 58.637 47.619 0.00 0.00 40.48 3.06
2260 2892 3.614092 TGATGCTTTCTCCACATCCTTC 58.386 45.455 0.00 0.00 39.55 3.46
2371 3004 5.826643 AGCCATTTATTTAGGGAGAACACA 58.173 37.500 0.00 0.00 0.00 3.72
2372 3005 6.435164 AGCCATTTATTTAGGGAGAACACAT 58.565 36.000 0.00 0.00 0.00 3.21
2601 3234 4.155280 TGCTAAGTTTGGCTTTTATCGACC 59.845 41.667 1.96 0.00 38.57 4.79
2650 3283 1.003580 CTTGGTCAGTGCCCATGTACT 59.996 52.381 0.00 0.00 38.01 2.73
2651 3284 1.945580 TGGTCAGTGCCCATGTACTA 58.054 50.000 0.00 0.00 34.98 1.82
2671 3304 4.452753 CAGCGATGTTGCTTGCTG 57.547 55.556 0.00 0.00 44.46 4.41
2803 3436 5.065731 TGCGCCAAAATGTTTTTGAAATTCT 59.934 32.000 4.18 0.00 0.00 2.40
2836 3469 8.754080 TCAAGTAAGGATTTTCTTTTTCAACCA 58.246 29.630 0.00 0.00 0.00 3.67
2850 4204 7.340743 TCTTTTTCAACCATGTGAAAGGAAGTA 59.659 33.333 15.69 6.93 45.62 2.24
2858 4212 9.927668 AACCATGTGAAAGGAAGTAAAAATATG 57.072 29.630 0.00 0.00 0.00 1.78
2887 4243 5.459110 GGATTTTATGCGACGTTCTACAA 57.541 39.130 0.00 0.00 0.00 2.41
2899 4255 7.009815 TGCGACGTTCTACAAGAATTTTATAGG 59.990 37.037 0.00 0.00 36.50 2.57
2904 4260 9.765795 CGTTCTACAAGAATTTTATAGGGATCT 57.234 33.333 0.00 0.00 36.50 2.75
2913 4269 9.804977 AGAATTTTATAGGGATCTGAAGGATTG 57.195 33.333 0.00 0.00 34.33 2.67
2914 4270 9.799106 GAATTTTATAGGGATCTGAAGGATTGA 57.201 33.333 0.00 0.00 34.33 2.57
2952 4308 8.859090 ACAGGAATTTCTCATATACTCTCTCTG 58.141 37.037 0.00 0.00 0.00 3.35
2953 4309 8.859090 CAGGAATTTCTCATATACTCTCTCTGT 58.141 37.037 0.00 0.00 0.00 3.41
2989 4345 8.828688 AAAAGCGTTTAGATCACTAAAGTACT 57.171 30.769 0.00 0.00 45.42 2.73
2990 4346 9.918630 AAAAGCGTTTAGATCACTAAAGTACTA 57.081 29.630 0.00 0.00 45.42 1.82
2991 4347 9.570488 AAAGCGTTTAGATCACTAAAGTACTAG 57.430 33.333 0.00 0.00 45.42 2.57
2992 4348 8.278729 AGCGTTTAGATCACTAAAGTACTAGT 57.721 34.615 0.00 0.00 45.42 2.57
2993 4349 8.397148 AGCGTTTAGATCACTAAAGTACTAGTC 58.603 37.037 0.00 0.00 45.42 2.59
2994 4350 8.397148 GCGTTTAGATCACTAAAGTACTAGTCT 58.603 37.037 0.00 0.00 45.42 3.24
3000 4356 8.397148 AGATCACTAAAGTACTAGTCTAAACGC 58.603 37.037 0.00 0.00 29.36 4.84
3001 4357 7.678947 TCACTAAAGTACTAGTCTAAACGCT 57.321 36.000 0.00 0.00 29.36 5.07
3002 4358 7.746929 TCACTAAAGTACTAGTCTAAACGCTC 58.253 38.462 0.00 0.00 29.36 5.03
3003 4359 7.605691 TCACTAAAGTACTAGTCTAAACGCTCT 59.394 37.037 0.00 0.00 29.36 4.09
3004 4360 8.235905 CACTAAAGTACTAGTCTAAACGCTCTT 58.764 37.037 0.00 0.00 29.36 2.85
3005 4361 9.442047 ACTAAAGTACTAGTCTAAACGCTCTTA 57.558 33.333 0.00 0.00 0.00 2.10
3021 4377 9.530633 AAACGCTCTTATATTAAGTTACAGAGG 57.469 33.333 0.00 0.00 0.00 3.69
3022 4378 7.659186 ACGCTCTTATATTAAGTTACAGAGGG 58.341 38.462 8.36 8.36 42.53 4.30
3023 4379 7.504911 ACGCTCTTATATTAAGTTACAGAGGGA 59.495 37.037 14.96 1.56 40.49 4.20
3024 4380 8.024285 CGCTCTTATATTAAGTTACAGAGGGAG 58.976 40.741 4.76 0.00 40.49 4.30
3025 4381 8.862085 GCTCTTATATTAAGTTACAGAGGGAGT 58.138 37.037 0.00 0.00 0.00 3.85
3063 4419 5.653255 ATAGGAATGGATTAGTTGTGCCT 57.347 39.130 0.00 0.00 0.00 4.75
3064 4420 6.763715 ATAGGAATGGATTAGTTGTGCCTA 57.236 37.500 0.00 0.00 0.00 3.93
3065 4421 5.653255 AGGAATGGATTAGTTGTGCCTAT 57.347 39.130 0.00 0.00 0.00 2.57
3066 4422 6.763715 AGGAATGGATTAGTTGTGCCTATA 57.236 37.500 0.00 0.00 0.00 1.31
3115 7882 8.159229 ACTAGTTTCCTATAAACACATTCCCT 57.841 34.615 0.00 0.00 32.81 4.20
3188 7958 1.153881 GTCCGAGGCAACGTAGTCC 60.154 63.158 0.00 0.00 45.00 3.85
3269 8039 5.793030 AAAATCACGGGTATTTTCAACCA 57.207 34.783 3.05 0.00 38.87 3.67
3337 8108 4.171234 ACATGAATCTAAGGGATCGGGAT 58.829 43.478 0.00 0.00 32.76 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.480037 CGCTGATGCAACTTGTTGAGTA 59.520 45.455 16.57 3.44 37.72 2.59
1 2 1.265095 CGCTGATGCAACTTGTTGAGT 59.735 47.619 16.57 4.54 41.47 3.41
2 3 1.400629 CCGCTGATGCAACTTGTTGAG 60.401 52.381 16.57 6.62 39.64 3.02
3 4 0.592637 CCGCTGATGCAACTTGTTGA 59.407 50.000 16.57 3.48 39.64 3.18
4 5 0.592637 TCCGCTGATGCAACTTGTTG 59.407 50.000 8.95 8.95 39.64 3.33
5 6 1.470098 GATCCGCTGATGCAACTTGTT 59.530 47.619 0.00 0.00 39.64 2.83
6 7 1.089920 GATCCGCTGATGCAACTTGT 58.910 50.000 0.00 0.00 39.64 3.16
7 8 1.376543 AGATCCGCTGATGCAACTTG 58.623 50.000 0.00 0.00 39.64 3.16
8 9 2.988010 TAGATCCGCTGATGCAACTT 57.012 45.000 0.00 0.00 39.64 2.66
20 21 4.520111 TGAATGCCAAAATCCATAGATCCG 59.480 41.667 0.00 0.00 0.00 4.18
31 32 6.350906 CAATCCAAGGTATGAATGCCAAAAT 58.649 36.000 0.06 0.00 34.71 1.82
96 97 4.566360 CGGCAACAAGTCTTTTGAACAATT 59.434 37.500 10.05 0.00 0.00 2.32
163 164 1.605710 GCAAGATAGTAGCCCGTCGTA 59.394 52.381 0.00 0.00 0.00 3.43
317 320 1.741327 AAAGCCAGCCAAGCACACAG 61.741 55.000 0.00 0.00 0.00 3.66
498 501 2.830321 TCTCTCTCTTCTCTTGCATGCA 59.170 45.455 18.46 18.46 0.00 3.96
503 506 4.517285 TCTCTCTCTCTCTCTTCTCTTGC 58.483 47.826 0.00 0.00 0.00 4.01
517 522 1.006519 TGGCAGCCTTACTCTCTCTCT 59.993 52.381 14.15 0.00 0.00 3.10
518 523 1.408702 CTGGCAGCCTTACTCTCTCTC 59.591 57.143 14.15 0.00 0.00 3.20
519 524 1.006519 TCTGGCAGCCTTACTCTCTCT 59.993 52.381 14.15 0.00 0.00 3.10
520 525 1.479709 TCTGGCAGCCTTACTCTCTC 58.520 55.000 14.15 0.00 0.00 3.20
521 526 1.944177 TTCTGGCAGCCTTACTCTCT 58.056 50.000 14.15 0.00 0.00 3.10
522 527 2.998316 ATTCTGGCAGCCTTACTCTC 57.002 50.000 14.15 0.00 0.00 3.20
523 528 3.728385 AAATTCTGGCAGCCTTACTCT 57.272 42.857 14.15 0.00 0.00 3.24
524 529 3.758554 TGAAAATTCTGGCAGCCTTACTC 59.241 43.478 14.15 6.75 0.00 2.59
637 642 1.459348 TGCCCCTCTCTCACACACA 60.459 57.895 0.00 0.00 0.00 3.72
728 1004 3.879998 ACTACATTTCCACACACACACA 58.120 40.909 0.00 0.00 0.00 3.72
729 1005 5.054477 AGTACTACATTTCCACACACACAC 58.946 41.667 0.00 0.00 0.00 3.82
730 1006 5.284861 AGTACTACATTTCCACACACACA 57.715 39.130 0.00 0.00 0.00 3.72
890 1167 2.703007 AGCTCTCTCTCTCTCTCTCTCC 59.297 54.545 0.00 0.00 0.00 3.71
988 1265 2.503356 TCCAAGCCATCTTTCTCTCTCC 59.497 50.000 0.00 0.00 0.00 3.71
997 1282 0.322546 GACCCGTTCCAAGCCATCTT 60.323 55.000 0.00 0.00 0.00 2.40
1173 1771 0.318441 TCCAAGCCTGAGACGAACAG 59.682 55.000 0.00 0.00 35.43 3.16
1266 1864 3.585289 ACCAAGGAAAACCAAACCAAACT 59.415 39.130 0.00 0.00 0.00 2.66
1310 1913 7.814264 AAAATCTCATATTTACTCCAGCAGG 57.186 36.000 0.00 0.00 0.00 4.85
1404 2007 6.630444 AACAGATAAATTATGGAGCTGCTG 57.370 37.500 7.01 0.00 0.00 4.41
1405 2008 6.712547 GGTAACAGATAAATTATGGAGCTGCT 59.287 38.462 6.82 0.00 0.00 4.24
1406 2009 6.712547 AGGTAACAGATAAATTATGGAGCTGC 59.287 38.462 0.00 0.00 41.41 5.25
1409 2012 8.989980 GTACAGGTAACAGATAAATTATGGAGC 58.010 37.037 0.00 0.00 41.41 4.70
1476 2086 9.965902 AGTAGAACATGGATCAGTAAAATCTTT 57.034 29.630 0.00 0.00 0.00 2.52
1495 2105 3.982058 CACGTTCCAGAGACAAGTAGAAC 59.018 47.826 0.00 0.00 0.00 3.01
1498 2108 2.288213 TGCACGTTCCAGAGACAAGTAG 60.288 50.000 0.00 0.00 0.00 2.57
1499 2109 1.684450 TGCACGTTCCAGAGACAAGTA 59.316 47.619 0.00 0.00 0.00 2.24
1500 2110 0.464036 TGCACGTTCCAGAGACAAGT 59.536 50.000 0.00 0.00 0.00 3.16
1501 2111 1.143305 CTGCACGTTCCAGAGACAAG 58.857 55.000 7.09 0.00 32.03 3.16
1502 2112 0.880278 GCTGCACGTTCCAGAGACAA 60.880 55.000 15.22 0.00 32.03 3.18
1578 2192 1.153804 GGACGAGGAAGCGAGGTTC 60.154 63.158 6.49 6.49 34.83 3.62
1584 2198 2.380410 CGGTTTGGACGAGGAAGCG 61.380 63.158 0.00 0.00 37.82 4.68
1587 2201 2.031465 GGCGGTTTGGACGAGGAA 59.969 61.111 0.00 0.00 0.00 3.36
1856 2476 3.084786 GGACAGAGCAAAGTTAGCCAAT 58.915 45.455 0.00 0.00 0.00 3.16
2106 2730 5.692654 GTCAGTAAGTTCAGAACAAGAGGAC 59.307 44.000 15.85 12.36 0.00 3.85
2148 2772 0.101759 GGCGATGAACATGCTGCAAT 59.898 50.000 6.36 0.00 0.00 3.56
2230 2859 2.094390 GGAGAAAGCATCAGCATTTGCA 60.094 45.455 5.20 0.00 45.49 4.08
2232 2861 3.057104 TGTGGAGAAAGCATCAGCATTTG 60.057 43.478 0.00 0.00 45.49 2.32
2236 2865 2.362736 GATGTGGAGAAAGCATCAGCA 58.637 47.619 0.00 0.00 45.49 4.41
2601 3234 0.533531 TCACAGAGGCAGCAACAGTG 60.534 55.000 0.00 1.07 0.00 3.66
2650 3283 2.609002 CAGCAAGCAACATCGCTGTATA 59.391 45.455 0.00 0.00 45.34 1.47
2651 3284 1.399440 CAGCAAGCAACATCGCTGTAT 59.601 47.619 0.00 0.00 45.34 2.29
2671 3304 5.049129 GCTAGCATTCATGATAACCCAGTTC 60.049 44.000 10.63 0.00 0.00 3.01
2850 4204 9.445786 CGCATAAAATCCGTACTTCATATTTTT 57.554 29.630 0.00 0.00 33.24 1.94
2858 4212 3.549070 ACGTCGCATAAAATCCGTACTTC 59.451 43.478 0.00 0.00 0.00 3.01
2887 4243 9.804977 CAATCCTTCAGATCCCTATAAAATTCT 57.195 33.333 0.00 0.00 32.47 2.40
2963 4319 9.918630 AGTACTTTAGTGATCTAAACGCTTTTA 57.081 29.630 0.00 0.00 40.05 1.52
2964 4320 8.828688 AGTACTTTAGTGATCTAAACGCTTTT 57.171 30.769 0.00 0.00 40.05 2.27
2965 4321 9.570488 CTAGTACTTTAGTGATCTAAACGCTTT 57.430 33.333 0.00 0.00 40.05 3.51
2966 4322 8.738106 ACTAGTACTTTAGTGATCTAAACGCTT 58.262 33.333 0.00 0.00 40.05 4.68
2967 4323 8.278729 ACTAGTACTTTAGTGATCTAAACGCT 57.721 34.615 0.00 0.00 40.05 5.07
2968 4324 8.397148 AGACTAGTACTTTAGTGATCTAAACGC 58.603 37.037 0.00 0.00 40.05 4.84
2974 4330 8.397148 GCGTTTAGACTAGTACTTTAGTGATCT 58.603 37.037 0.00 0.00 34.13 2.75
2975 4331 8.397148 AGCGTTTAGACTAGTACTTTAGTGATC 58.603 37.037 0.00 0.00 34.13 2.92
2976 4332 8.278729 AGCGTTTAGACTAGTACTTTAGTGAT 57.721 34.615 0.00 0.00 34.13 3.06
2977 4333 7.605691 AGAGCGTTTAGACTAGTACTTTAGTGA 59.394 37.037 0.00 0.00 34.13 3.41
2978 4334 7.750769 AGAGCGTTTAGACTAGTACTTTAGTG 58.249 38.462 0.00 0.00 34.13 2.74
2979 4335 7.920160 AGAGCGTTTAGACTAGTACTTTAGT 57.080 36.000 0.00 0.00 36.61 2.24
2995 4351 9.530633 CCTCTGTAACTTAATATAAGAGCGTTT 57.469 33.333 4.24 0.00 0.00 3.60
2996 4352 8.142551 CCCTCTGTAACTTAATATAAGAGCGTT 58.857 37.037 4.24 0.00 0.00 4.84
2997 4353 7.504911 TCCCTCTGTAACTTAATATAAGAGCGT 59.495 37.037 4.24 0.00 0.00 5.07
2998 4354 7.883217 TCCCTCTGTAACTTAATATAAGAGCG 58.117 38.462 4.24 0.00 0.00 5.03
2999 4355 8.862085 ACTCCCTCTGTAACTTAATATAAGAGC 58.138 37.037 4.24 0.00 0.00 4.09
3007 4363 9.544579 AAAGTAGTACTCCCTCTGTAACTTAAT 57.455 33.333 2.58 0.00 0.00 1.40
3008 4364 8.946797 AAAGTAGTACTCCCTCTGTAACTTAA 57.053 34.615 2.58 0.00 0.00 1.85
3009 4365 8.800332 CAAAAGTAGTACTCCCTCTGTAACTTA 58.200 37.037 2.58 0.00 0.00 2.24
3010 4366 7.256225 CCAAAAGTAGTACTCCCTCTGTAACTT 60.256 40.741 2.58 0.00 0.00 2.66
3011 4367 6.210984 CCAAAAGTAGTACTCCCTCTGTAACT 59.789 42.308 2.58 0.00 0.00 2.24
3012 4368 6.396450 CCAAAAGTAGTACTCCCTCTGTAAC 58.604 44.000 2.58 0.00 0.00 2.50
3013 4369 5.046807 GCCAAAAGTAGTACTCCCTCTGTAA 60.047 44.000 2.58 0.00 0.00 2.41
3014 4370 4.465305 GCCAAAAGTAGTACTCCCTCTGTA 59.535 45.833 2.58 0.00 0.00 2.74
3015 4371 3.261137 GCCAAAAGTAGTACTCCCTCTGT 59.739 47.826 2.58 0.00 0.00 3.41
3016 4372 3.676324 CGCCAAAAGTAGTACTCCCTCTG 60.676 52.174 2.58 0.00 0.00 3.35
3017 4373 2.496470 CGCCAAAAGTAGTACTCCCTCT 59.504 50.000 2.58 0.00 0.00 3.69
3018 4374 2.889852 CGCCAAAAGTAGTACTCCCTC 58.110 52.381 2.58 0.00 0.00 4.30
3019 4375 1.066358 GCGCCAAAAGTAGTACTCCCT 60.066 52.381 2.58 0.00 0.00 4.20
3020 4376 1.066358 AGCGCCAAAAGTAGTACTCCC 60.066 52.381 2.29 0.00 0.00 4.30
3021 4377 2.381725 AGCGCCAAAAGTAGTACTCC 57.618 50.000 2.29 0.00 0.00 3.85
3022 4378 5.009410 TCCTATAGCGCCAAAAGTAGTACTC 59.991 44.000 2.29 0.00 0.00 2.59
3023 4379 4.891756 TCCTATAGCGCCAAAAGTAGTACT 59.108 41.667 2.29 0.00 0.00 2.73
3024 4380 5.192327 TCCTATAGCGCCAAAAGTAGTAC 57.808 43.478 2.29 0.00 0.00 2.73
3025 4381 5.857471 TTCCTATAGCGCCAAAAGTAGTA 57.143 39.130 2.29 0.00 0.00 1.82
3026 4382 4.748277 TTCCTATAGCGCCAAAAGTAGT 57.252 40.909 2.29 0.00 0.00 2.73
3027 4383 4.452455 CCATTCCTATAGCGCCAAAAGTAG 59.548 45.833 2.29 0.00 0.00 2.57
3028 4384 4.101898 TCCATTCCTATAGCGCCAAAAGTA 59.898 41.667 2.29 0.00 0.00 2.24
3071 4427 9.862149 AAACTAGTCCATTCTCTTTCCTTTTTA 57.138 29.630 0.00 0.00 0.00 1.52
3105 7870 8.250143 AGAATTTGTAGAAAAAGGGAATGTGT 57.750 30.769 0.00 0.00 0.00 3.72
3106 7871 9.846248 CTAGAATTTGTAGAAAAAGGGAATGTG 57.154 33.333 0.00 0.00 0.00 3.21
3134 7901 1.003223 GCAAAGTACCTCGCGTTTTGT 60.003 47.619 5.77 1.76 32.75 2.83
3135 7902 1.003331 TGCAAAGTACCTCGCGTTTTG 60.003 47.619 5.77 9.72 33.18 2.44
3247 8017 5.069251 TGTGGTTGAAAATACCCGTGATTTT 59.931 36.000 0.00 0.00 38.81 1.82
3313 8084 4.772624 TCCCGATCCCTTAGATTCATGTAG 59.227 45.833 0.00 0.00 34.42 2.74


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

AutoCloner maintained by Alex Coulton.