Multiple sequence alignment - TraesCS2A01G269400

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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 TraesCS2A01G269400 chr2A 100.000 3288 0 0 1 3288 434983676 434986963 0.000000e+00 6072.0
1 TraesCS2A01G269400 chr2D 89.342 1792 65 31 5 1724 328467887 328469624 0.000000e+00 2135.0
2 TraesCS2A01G269400 chr2D 94.049 1294 40 13 1609 2872 328469626 328470912 0.000000e+00 1929.0
3 TraesCS2A01G269400 chr2D 79.259 135 25 3 349 483 5240390 5240259 1.260000e-14 91.6
4 TraesCS2A01G269400 chr2B 92.990 1184 35 14 594 1737 397604052 397605227 0.000000e+00 1683.0
5 TraesCS2A01G269400 chr2B 95.464 926 31 5 1747 2665 397606062 397606983 0.000000e+00 1467.0
6 TraesCS2A01G269400 chr2B 88.033 610 41 17 1 593 397603157 397603751 0.000000e+00 693.0
7 TraesCS2A01G269400 chr2B 85.851 629 53 15 2664 3287 397607158 397607755 1.290000e-178 636.0
8 TraesCS2A01G269400 chr3B 81.016 374 41 24 146 499 633132373 633132736 1.500000e-68 270.0
9 TraesCS2A01G269400 chr3B 78.442 385 45 22 146 500 785200427 785200803 1.990000e-52 217.0
10 TraesCS2A01G269400 chr6B 79.357 373 50 19 146 500 396502009 396501646 1.530000e-58 237.0
11 TraesCS2A01G269400 chr4A 80.508 354 28 24 146 462 655628532 655628183 1.970000e-57 233.0
12 TraesCS2A01G269400 chr3D 78.261 391 42 22 146 500 45667534 45667917 9.240000e-51 211.0
13 TraesCS2A01G269400 chr3D 77.865 384 45 23 146 494 506005816 506006194 5.560000e-48 202.0
14 TraesCS2A01G269400 chr4D 82.819 227 30 9 3061 3282 374301097 374301319 9.310000e-46 195.0
15 TraesCS2A01G269400 chr4B 77.586 348 50 20 165 499 32902319 32901987 5.600000e-43 185.0
16 TraesCS2A01G269400 chr6D 78.893 289 38 15 146 418 221003372 221003091 1.210000e-39 174.0
17 TraesCS2A01G269400 chr6A 78.788 297 34 17 146 420 302773986 302774275 4.360000e-39 172.0
18 TraesCS2A01G269400 chr5D 84.000 150 16 8 146 289 354499497 354499350 1.590000e-28 137.0
19 TraesCS2A01G269400 chr1A 100.000 28 0 0 2644 2671 564398974 564398947 6.000000e-03 52.8


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 TraesCS2A01G269400 chr2A 434983676 434986963 3287 False 6072.00 6072 100.0000 1 3288 1 chr2A.!!$F1 3287
1 TraesCS2A01G269400 chr2D 328467887 328470912 3025 False 2032.00 2135 91.6955 5 2872 2 chr2D.!!$F1 2867
2 TraesCS2A01G269400 chr2B 397603157 397607755 4598 False 1119.75 1683 90.5845 1 3287 4 chr2B.!!$F1 3286

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
509 532 0.768622 TCCACGTCCCAAGGATTTGT 59.231 50.0 0.0 0.0 32.73 2.83 F
1505 1879 0.455410 CTCTCCTCTGCCTTCACGAG 59.545 60.0 0.0 0.0 0.00 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1840 3167 0.034896 AATTATGTCCGGGGCTAGCG 59.965 55.0 9.0 0.0 0.0 4.26 R
3224 4744 0.171231 GGCCGCAACAATCTTTCTCC 59.829 55.0 0.0 0.0 0.0 3.71 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
123 124 6.296026 CCATGGATTTTCGGAAGTCCTATTA 58.704 40.000 18.03 0.00 41.07 0.98
157 158 8.011844 AGAAATACTTAATTCAAATGCTCCCC 57.988 34.615 0.00 0.00 0.00 4.81
176 177 7.039644 TGCTCCCCGATGAAAAGTAAAATAAAA 60.040 33.333 0.00 0.00 0.00 1.52
177 178 7.979537 GCTCCCCGATGAAAAGTAAAATAAAAT 59.020 33.333 0.00 0.00 0.00 1.82
279 282 3.992943 AATGACATTCGTGGAAGGGTA 57.007 42.857 0.00 0.00 0.00 3.69
335 343 3.941483 ACTAAGCATTTCTGGAACATCGG 59.059 43.478 0.00 0.00 38.20 4.18
379 397 4.712191 CAATTCGTGCTGAAATTTTGCA 57.288 36.364 13.44 13.44 40.71 4.08
380 398 5.080642 CAATTCGTGCTGAAATTTTGCAA 57.919 34.783 17.39 0.00 40.71 4.08
409 427 7.373966 GCATGCAAAACATTTGTCAAAGTTTAG 59.626 33.333 14.21 11.40 36.64 1.85
479 502 4.928661 TCAAGAAGTATTTTGAGCTCGC 57.071 40.909 9.64 0.00 0.00 5.03
509 532 0.768622 TCCACGTCCCAAGGATTTGT 59.231 50.000 0.00 0.00 32.73 2.83
609 932 7.672240 TGTACAGTATCACATGTTTGGAGTAA 58.328 34.615 0.00 0.00 0.00 2.24
719 1056 3.955101 CCGCGAGCGTAGAGGGAG 61.955 72.222 8.23 0.00 37.81 4.30
733 1070 1.949631 GGGAGTAGCGCGAATTCGG 60.950 63.158 27.78 18.60 40.23 4.30
782 1129 3.764645 TCGACTCGACTCGACTCG 58.235 61.111 18.76 18.76 41.10 4.18
783 1130 1.080907 TCGACTCGACTCGACTCGT 60.081 57.895 21.90 9.98 40.78 4.18
784 1131 1.069924 TCGACTCGACTCGACTCGTC 61.070 60.000 21.90 15.66 40.78 4.20
785 1132 1.072116 CGACTCGACTCGACTCGTCT 61.072 60.000 17.36 1.49 37.40 4.18
954 1328 3.093057 GGAGTGAGAGGAAGTTGAGCTA 58.907 50.000 0.00 0.00 0.00 3.32
1173 1547 1.523711 CATGGCCGTTATGCTCCGT 60.524 57.895 0.00 0.00 0.00 4.69
1280 1654 1.473434 CGTCCCTGGAGTTCATTAGCC 60.473 57.143 0.00 0.00 0.00 3.93
1322 1696 2.019984 GTGCTCCCTCACCAATTCATC 58.980 52.381 0.00 0.00 0.00 2.92
1398 1772 2.443390 GCGGCCTACTCCCTGGTA 60.443 66.667 0.00 0.00 0.00 3.25
1452 1826 3.036429 GCTGTCCCGCTCCTGGATT 62.036 63.158 0.00 0.00 33.65 3.01
1503 1877 0.967887 TCCTCTCCTCTGCCTTCACG 60.968 60.000 0.00 0.00 0.00 4.35
1505 1879 0.455410 CTCTCCTCTGCCTTCACGAG 59.545 60.000 0.00 0.00 0.00 4.18
1539 1919 8.862550 ATTAGAACAATATTTTGCAGCTTAGC 57.137 30.769 0.00 0.00 36.22 3.09
1644 2024 8.635765 ACAAAATCCATGAGTATACAGTTTGT 57.364 30.769 5.50 8.24 32.29 2.83
1658 2038 7.847711 ATACAGTTTGTAGAGCAGAGGATAT 57.152 36.000 0.00 0.00 36.14 1.63
1659 2039 8.941995 ATACAGTTTGTAGAGCAGAGGATATA 57.058 34.615 0.00 0.00 36.14 0.86
1660 2040 7.283625 ACAGTTTGTAGAGCAGAGGATATAG 57.716 40.000 0.00 0.00 0.00 1.31
1715 2095 7.979115 TTTGTAAGACTTTTGATTTGTTCCG 57.021 32.000 0.00 0.00 0.00 4.30
1748 2250 4.142271 CGCTTTAGAACAGAGGAGTCATCT 60.142 45.833 0.35 0.35 0.00 2.90
1821 3148 8.723942 AGTGTTTATACAGCAGAGAAATTAGG 57.276 34.615 0.00 0.00 34.24 2.69
1824 3151 4.778213 ATACAGCAGAGAAATTAGGCCA 57.222 40.909 5.01 0.00 0.00 5.36
1826 3153 3.285484 ACAGCAGAGAAATTAGGCCATG 58.715 45.455 5.01 0.00 0.00 3.66
1827 3154 2.621998 CAGCAGAGAAATTAGGCCATGG 59.378 50.000 7.63 7.63 0.00 3.66
1840 3167 3.421844 AGGCCATGGTAGAAACAGAAAC 58.578 45.455 14.67 0.00 0.00 2.78
1842 3169 2.414161 GCCATGGTAGAAACAGAAACGC 60.414 50.000 14.67 0.00 0.00 4.84
1844 3171 4.250464 CCATGGTAGAAACAGAAACGCTA 58.750 43.478 2.57 0.00 0.00 4.26
1871 3199 4.570772 CCGGACATAATTTACCTGTCAGTG 59.429 45.833 0.00 0.00 40.80 3.66
1924 3257 1.067821 CGACCACCAGATCCTAGCTTC 59.932 57.143 0.00 0.00 0.00 3.86
1961 3299 1.507141 GCACAGTGACGGGAAACAGG 61.507 60.000 4.15 0.00 0.00 4.00
2310 3648 1.757423 GAGAGGATCCCTGGCTGCTC 61.757 65.000 8.55 0.76 31.76 4.26
2515 3853 1.278985 CTGTGAGGCTGTGGTGGATTA 59.721 52.381 0.00 0.00 0.00 1.75
2805 4322 6.764877 AATAAATACGGAACTGAGCGTATG 57.235 37.500 0.00 0.00 0.00 2.39
2817 4334 7.148474 GGAACTGAGCGTATGAAATCTTTTGTA 60.148 37.037 0.00 0.00 0.00 2.41
2846 4363 1.264749 TACGCCAGATGACAAGGCCT 61.265 55.000 0.00 0.00 45.56 5.19
2847 4364 1.377725 CGCCAGATGACAAGGCCTT 60.378 57.895 13.78 13.78 45.56 4.35
2874 4391 5.564651 CGAGGAGTTAAATGCACAAAACCAT 60.565 40.000 0.00 0.00 0.00 3.55
2880 4397 6.479660 AGTTAAATGCACAAAACCATCACTTG 59.520 34.615 0.00 0.00 0.00 3.16
2882 4399 3.713858 TGCACAAAACCATCACTTGAG 57.286 42.857 0.00 0.00 0.00 3.02
2883 4400 3.023119 TGCACAAAACCATCACTTGAGT 58.977 40.909 0.00 0.00 0.00 3.41
2884 4401 3.181488 TGCACAAAACCATCACTTGAGTG 60.181 43.478 4.77 4.77 46.91 3.51
2902 4419 3.029320 GTGAAATGCACAAAGCCATCA 57.971 42.857 0.00 0.00 46.91 3.07
2903 4420 2.733026 GTGAAATGCACAAAGCCATCAC 59.267 45.455 0.00 0.00 46.91 3.06
2904 4421 1.987770 GAAATGCACAAAGCCATCACG 59.012 47.619 0.00 0.00 44.83 4.35
2905 4422 0.961019 AATGCACAAAGCCATCACGT 59.039 45.000 0.00 0.00 44.83 4.49
2906 4423 0.961019 ATGCACAAAGCCATCACGTT 59.039 45.000 0.00 0.00 44.83 3.99
2907 4424 1.598882 TGCACAAAGCCATCACGTTA 58.401 45.000 0.00 0.00 44.83 3.18
2908 4425 2.158559 TGCACAAAGCCATCACGTTAT 58.841 42.857 0.00 0.00 44.83 1.89
2914 4431 4.277174 ACAAAGCCATCACGTTATGTTTCA 59.723 37.500 8.80 0.00 0.00 2.69
2926 4443 8.239998 TCACGTTATGTTTCATGATATTTTGCA 58.760 29.630 0.00 0.00 0.00 4.08
2942 4459 5.629079 TTTTGCACCGAACCAAAAATTTT 57.371 30.435 0.00 0.00 37.82 1.82
2949 4466 6.654122 CACCGAACCAAAAATTTTACAATGG 58.346 36.000 14.97 14.97 0.00 3.16
2959 4477 9.351570 CAAAAATTTTACAATGGCAAAAACACT 57.648 25.926 3.34 0.00 0.00 3.55
2971 4489 2.426738 CAAAAACACTGAGCCCTTGTCA 59.573 45.455 0.00 0.00 0.00 3.58
2979 4497 0.467804 GAGCCCTTGTCAGATCCCTC 59.532 60.000 0.00 0.00 0.00 4.30
2988 4506 2.835431 AGATCCCTCGCTGTCCGG 60.835 66.667 0.00 0.00 37.59 5.14
2992 4510 4.473520 CCCTCGCTGTCCGGCAAT 62.474 66.667 0.00 0.00 37.59 3.56
2993 4511 2.499205 CCTCGCTGTCCGGCAATA 59.501 61.111 0.00 0.00 37.59 1.90
3005 4523 1.708027 GGCAATAGTGACGTCGTGC 59.292 57.895 11.62 13.97 0.00 5.34
3008 4526 0.731514 CAATAGTGACGTCGTGCCGT 60.732 55.000 11.62 0.00 45.18 5.68
3030 4548 0.109226 ACGGCTCTGTCTAAAGCGAC 60.109 55.000 0.00 0.00 39.47 5.19
3101 4621 2.022035 TCTCCCTCTCCTCTCTCTCTCT 60.022 54.545 0.00 0.00 0.00 3.10
3103 4623 2.022035 TCCCTCTCCTCTCTCTCTCTCT 60.022 54.545 0.00 0.00 0.00 3.10
3104 4624 2.370189 CCCTCTCCTCTCTCTCTCTCTC 59.630 59.091 0.00 0.00 0.00 3.20
3107 4627 0.104120 TCCTCTCTCTCTCTCTCGCG 59.896 60.000 0.00 0.00 0.00 5.87
3108 4628 0.880278 CCTCTCTCTCTCTCTCGCGG 60.880 65.000 6.13 0.00 0.00 6.46
3112 4632 4.426313 TCTCTCTCTCGCGGGGCA 62.426 66.667 5.94 0.00 0.00 5.36
3113 4633 3.222855 CTCTCTCTCGCGGGGCAT 61.223 66.667 5.94 0.00 0.00 4.40
3114 4634 3.496875 CTCTCTCTCGCGGGGCATG 62.497 68.421 5.94 0.00 0.00 4.06
3115 4635 3.531207 CTCTCTCGCGGGGCATGA 61.531 66.667 5.94 0.00 0.00 3.07
3116 4636 3.781770 CTCTCTCGCGGGGCATGAC 62.782 68.421 5.94 0.00 0.00 3.06
3117 4637 4.899239 CTCTCGCGGGGCATGACC 62.899 72.222 10.00 10.00 37.93 4.02
3141 4661 2.969238 GTGGCTGCGGATCCATCG 60.969 66.667 13.41 0.00 34.47 3.84
3150 4670 2.507854 GGATCCATCGGCGAGGGAA 61.508 63.158 41.40 26.81 45.68 3.97
3166 4686 2.035626 AATGGTGGGGACAAGGCG 59.964 61.111 0.00 0.00 46.06 5.52
3176 4696 4.329545 ACAAGGCGTGGCGGACAT 62.330 61.111 5.22 0.00 0.00 3.06
3180 4700 4.530857 GGCGTGGCGGACATAGCT 62.531 66.667 12.75 0.00 36.34 3.32
3197 4717 2.927856 TGGTCACCGTGGCTGGAT 60.928 61.111 2.58 0.00 0.00 3.41
3198 4718 2.436646 GGTCACCGTGGCTGGATG 60.437 66.667 2.58 0.00 0.00 3.51
3261 4781 4.499526 GCGGCCACATCATATTCATTTCAA 60.500 41.667 2.24 0.00 0.00 2.69
3287 4807 2.682494 ATGGTCGCCACTACCGGT 60.682 61.111 13.98 13.98 40.08 5.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 7.907214 TTAAAGTCTTGCAAGATACTTCTCC 57.093 36.000 30.65 15.68 37.39 3.71
51 52 4.131596 CCCCTTTTGTTTCTCGAGTTGTA 58.868 43.478 13.13 0.00 0.00 2.41
88 89 4.683942 CGAAAATCCATGGCCCAATTTGAT 60.684 41.667 6.96 0.00 0.00 2.57
335 343 3.245048 CCATTCGTGGCAAAGAACAAAAC 59.755 43.478 8.53 0.00 0.00 2.43
379 397 5.814764 TGACAAATGTTTTGCATGCTTTT 57.185 30.435 20.33 6.40 37.96 2.27
380 398 5.814764 TTGACAAATGTTTTGCATGCTTT 57.185 30.435 20.33 6.89 37.96 3.51
461 484 3.182967 CTCGCGAGCTCAAAATACTTCT 58.817 45.455 25.07 0.00 0.00 2.85
479 502 1.278238 GGACGTGGAGTATTTGCTCG 58.722 55.000 0.00 0.00 39.56 5.03
598 921 9.689976 CATGTGATTTTTGTATTACTCCAAACA 57.310 29.630 0.00 0.00 30.74 2.83
599 922 9.691362 ACATGTGATTTTTGTATTACTCCAAAC 57.309 29.630 0.00 0.00 30.74 2.93
609 932 8.550376 GCTGTTCAAAACATGTGATTTTTGTAT 58.450 29.630 16.44 0.00 41.48 2.29
656 979 0.174845 CGACCGGCACTCTTATCCAA 59.825 55.000 0.00 0.00 0.00 3.53
719 1056 0.314021 CGTTTCCGAATTCGCGCTAC 60.314 55.000 22.36 14.51 38.18 3.58
733 1070 2.785739 CGTGTTGCGTCGCGTTTC 60.786 61.111 13.38 3.46 36.71 2.78
773 1120 1.302591 TGGCAGAGACGAGTCGAGT 60.303 57.895 21.50 5.20 34.09 4.18
775 1122 2.333417 GGTGGCAGAGACGAGTCGA 61.333 63.158 21.50 0.00 34.09 4.20
777 1124 2.179517 CGGTGGCAGAGACGAGTC 59.820 66.667 0.00 0.00 0.00 3.36
778 1125 4.057428 GCGGTGGCAGAGACGAGT 62.057 66.667 5.21 0.00 39.62 4.18
954 1328 1.068474 CCAGCGTCGACGAAGAAAAT 58.932 50.000 39.74 13.46 43.02 1.82
1164 1538 2.966590 TGCGTGTCACGGAGCATA 59.033 55.556 25.70 0.00 42.82 3.14
1173 1547 1.299850 CTCGTTGGTCTGCGTGTCA 60.300 57.895 0.00 0.00 0.00 3.58
1280 1654 1.749063 GCAAAGAGGGGAAATTACGGG 59.251 52.381 0.00 0.00 0.00 5.28
1398 1772 1.153628 GGCAGTGTAGAACGCGGAT 60.154 57.895 12.47 0.00 33.01 4.18
1693 2073 5.506649 GCCGGAACAAATCAAAAGTCTTACA 60.507 40.000 5.05 0.00 0.00 2.41
1715 2095 5.114081 TCTGTTCTAAAGCGGTTATTAGCC 58.886 41.667 0.00 0.00 0.00 3.93
1781 3101 8.812972 TGTATAAACACTCACTCCAACTATCTT 58.187 33.333 0.00 0.00 0.00 2.40
1821 3148 2.414161 GCGTTTCTGTTTCTACCATGGC 60.414 50.000 13.04 0.00 0.00 4.40
1824 3151 3.933332 GCTAGCGTTTCTGTTTCTACCAT 59.067 43.478 0.00 0.00 0.00 3.55
1826 3153 2.671888 GGCTAGCGTTTCTGTTTCTACC 59.328 50.000 9.00 0.00 0.00 3.18
1827 3154 2.671888 GGGCTAGCGTTTCTGTTTCTAC 59.328 50.000 9.00 0.00 0.00 2.59
1840 3167 0.034896 AATTATGTCCGGGGCTAGCG 59.965 55.000 9.00 0.00 0.00 4.26
1842 3169 3.326880 AGGTAAATTATGTCCGGGGCTAG 59.673 47.826 0.00 0.00 0.00 3.42
1844 3171 2.132686 AGGTAAATTATGTCCGGGGCT 58.867 47.619 0.00 0.00 0.00 5.19
1871 3199 4.086457 AGGGTGGACAAATCAATACCAAC 58.914 43.478 0.00 0.00 37.57 3.77
1924 3257 3.244078 TGTGCAAGTTCTACAGTACAGGG 60.244 47.826 0.00 0.00 0.00 4.45
1961 3299 7.384932 GGTTAATTAGCATGAATAAATGGCCAC 59.615 37.037 8.16 0.00 0.00 5.01
2143 3481 2.358247 GTGATGGCCACCGACGTT 60.358 61.111 8.16 0.00 39.86 3.99
2303 3641 3.335356 TAGCCAAGCCAGAGCAGCC 62.335 63.158 0.00 0.00 43.56 4.85
2310 3648 0.461548 TCATCGAGTAGCCAAGCCAG 59.538 55.000 0.00 0.00 0.00 4.85
2515 3853 3.123284 CGCATTTTTGGAACGCATCAATT 59.877 39.130 0.00 0.00 0.00 2.32
2692 4206 6.094325 TGAGTTGAGTGAACAAATAAACGGTT 59.906 34.615 0.00 0.00 36.98 4.44
2700 4215 9.736023 GAACTAAAATGAGTTGAGTGAACAAAT 57.264 29.630 0.00 0.00 39.79 2.32
2805 4322 6.961554 CGTATGCAGGTTCTACAAAAGATTTC 59.038 38.462 0.00 0.00 33.05 2.17
2817 4334 0.833287 ATCTGGCGTATGCAGGTTCT 59.167 50.000 9.59 0.00 45.35 3.01
2846 4363 3.734463 TGTGCATTTAACTCCTCGACAA 58.266 40.909 0.00 0.00 0.00 3.18
2847 4364 3.394674 TGTGCATTTAACTCCTCGACA 57.605 42.857 0.00 0.00 0.00 4.35
2874 4391 4.734402 GCTTTGTGCATTTCACTCAAGTGA 60.734 41.667 8.75 8.75 46.21 3.41
2880 4397 2.798976 TGGCTTTGTGCATTTCACTC 57.201 45.000 0.00 0.00 45.81 3.51
2882 4399 2.733026 GTGATGGCTTTGTGCATTTCAC 59.267 45.455 0.00 0.00 45.15 3.18
2883 4400 2.607526 CGTGATGGCTTTGTGCATTTCA 60.608 45.455 0.00 0.00 45.15 2.69
2884 4401 1.987770 CGTGATGGCTTTGTGCATTTC 59.012 47.619 0.00 0.00 45.15 2.17
2885 4402 1.340889 ACGTGATGGCTTTGTGCATTT 59.659 42.857 0.00 0.00 45.15 2.32
2886 4403 0.961019 ACGTGATGGCTTTGTGCATT 59.039 45.000 0.00 0.00 45.15 3.56
2887 4404 0.961019 AACGTGATGGCTTTGTGCAT 59.039 45.000 0.00 0.00 45.15 3.96
2888 4405 1.598882 TAACGTGATGGCTTTGTGCA 58.401 45.000 0.00 0.00 45.15 4.57
2889 4406 2.095263 ACATAACGTGATGGCTTTGTGC 60.095 45.455 17.37 0.00 41.94 4.57
2890 4407 3.829886 ACATAACGTGATGGCTTTGTG 57.170 42.857 17.37 0.00 0.00 3.33
2891 4408 4.277174 TGAAACATAACGTGATGGCTTTGT 59.723 37.500 17.37 0.00 0.00 2.83
2892 4409 4.793071 TGAAACATAACGTGATGGCTTTG 58.207 39.130 17.37 0.00 0.00 2.77
2893 4410 5.182950 TCATGAAACATAACGTGATGGCTTT 59.817 36.000 17.37 9.23 0.00 3.51
2894 4411 4.699735 TCATGAAACATAACGTGATGGCTT 59.300 37.500 17.37 9.67 0.00 4.35
2895 4412 4.260985 TCATGAAACATAACGTGATGGCT 58.739 39.130 17.37 3.34 0.00 4.75
2896 4413 4.614555 TCATGAAACATAACGTGATGGC 57.385 40.909 17.37 6.76 0.00 4.40
2897 4414 9.734620 AAAATATCATGAAACATAACGTGATGG 57.265 29.630 17.37 0.00 41.10 3.51
2899 4416 9.236691 GCAAAATATCATGAAACATAACGTGAT 57.763 29.630 0.00 0.00 42.74 3.06
2900 4417 8.239998 TGCAAAATATCATGAAACATAACGTGA 58.760 29.630 0.00 0.00 36.65 4.35
2901 4418 8.313227 GTGCAAAATATCATGAAACATAACGTG 58.687 33.333 0.00 0.00 0.00 4.49
2902 4419 7.487829 GGTGCAAAATATCATGAAACATAACGT 59.512 33.333 0.00 0.00 0.00 3.99
2903 4420 7.305361 CGGTGCAAAATATCATGAAACATAACG 60.305 37.037 0.00 0.00 0.00 3.18
2904 4421 7.700234 TCGGTGCAAAATATCATGAAACATAAC 59.300 33.333 0.00 0.00 0.00 1.89
2905 4422 7.766283 TCGGTGCAAAATATCATGAAACATAA 58.234 30.769 0.00 0.00 0.00 1.90
2906 4423 7.326968 TCGGTGCAAAATATCATGAAACATA 57.673 32.000 0.00 0.00 0.00 2.29
2907 4424 6.206395 TCGGTGCAAAATATCATGAAACAT 57.794 33.333 0.00 0.00 0.00 2.71
2908 4425 5.635417 TCGGTGCAAAATATCATGAAACA 57.365 34.783 0.00 0.00 0.00 2.83
2914 4431 5.398603 TTTGGTTCGGTGCAAAATATCAT 57.601 34.783 0.00 0.00 0.00 2.45
2926 4443 5.237561 GCCATTGTAAAATTTTTGGTTCGGT 59.762 36.000 16.86 0.00 0.00 4.69
2942 4459 3.243704 GGCTCAGTGTTTTTGCCATTGTA 60.244 43.478 0.00 0.00 42.79 2.41
2949 4466 1.136891 ACAAGGGCTCAGTGTTTTTGC 59.863 47.619 0.00 0.00 0.00 3.68
2959 4477 0.252881 AGGGATCTGACAAGGGCTCA 60.253 55.000 0.00 0.00 0.00 4.26
2971 4489 2.835431 CCGGACAGCGAGGGATCT 60.835 66.667 0.00 0.00 0.00 2.75
2979 4497 1.153647 TCACTATTGCCGGACAGCG 60.154 57.895 5.05 0.00 34.65 5.18
2988 4506 1.708027 GGCACGACGTCACTATTGC 59.292 57.895 17.16 14.18 0.00 3.56
3008 4526 2.229543 TCGCTTTAGACAGAGCCGTTAA 59.770 45.455 0.00 0.00 35.49 2.01
3014 4532 0.995728 GCAGTCGCTTTAGACAGAGC 59.004 55.000 0.00 0.00 43.24 4.09
3022 4540 1.736645 GCCAGTCGCAGTCGCTTTA 60.737 57.895 0.00 0.00 37.47 1.85
3030 4548 4.007644 TGGTCAGGCCAGTCGCAG 62.008 66.667 5.01 0.00 43.61 5.18
3040 4558 2.613506 GCGTTCGGGTTTGGTCAGG 61.614 63.158 0.00 0.00 0.00 3.86
3129 4649 4.284860 CTCGCCGATGGATCCGCA 62.285 66.667 7.39 0.00 31.83 5.69
3141 4661 4.506255 CCCCACCATTCCCTCGCC 62.506 72.222 0.00 0.00 0.00 5.54
3150 4670 3.256960 ACGCCTTGTCCCCACCAT 61.257 61.111 0.00 0.00 0.00 3.55
3166 4686 1.521681 GACCAGCTATGTCCGCCAC 60.522 63.158 4.58 0.00 0.00 5.01
3170 4690 1.226974 CGGTGACCAGCTATGTCCG 60.227 63.158 1.11 7.07 31.60 4.79
3176 4696 2.603473 AGCCACGGTGACCAGCTA 60.603 61.111 10.28 0.00 30.46 3.32
3180 4700 2.927856 ATCCAGCCACGGTGACCA 60.928 61.111 10.28 0.00 32.22 4.02
3224 4744 0.171231 GGCCGCAACAATCTTTCTCC 59.829 55.000 0.00 0.00 0.00 3.71
3261 4781 3.350219 AGTGGCGACCATGAAATACTT 57.650 42.857 0.00 0.00 35.28 2.24


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

AutoCloner maintained by Alex Coulton.