Multiple sequence alignment - TraesCS3B01G396400

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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 TraesCS3B01G396400 chr3B 100.000 2449 0 0 1 2449 625334477 625332029 0.000000e+00 4523
1 TraesCS3B01G396400 chr3D 89.921 2153 116 32 1 2097 470890193 470888086 0.000000e+00 2680
2 TraesCS3B01G396400 chr3D 87.946 672 53 9 1 665 470892335 470891685 0.000000e+00 767
3 TraesCS3B01G396400 chr3D 87.313 670 60 10 1 665 470891263 470890614 0.000000e+00 743
4 TraesCS3B01G396400 chr3D 90.154 325 27 2 2081 2402 470888066 470887744 3.770000e-113 418
5 TraesCS3B01G396400 chr3A 88.011 1760 114 46 703 2402 613172158 613170436 0.000000e+00 1991
6 TraesCS3B01G396400 chr3A 91.748 715 44 9 4 706 613172908 613172197 0.000000e+00 979
7 TraesCS3B01G396400 chr4D 89.620 395 31 7 1067 1455 307236498 307236108 6.080000e-136 494
8 TraesCS3B01G396400 chr7D 74.951 507 67 27 1912 2399 69088430 69088895 6.960000e-41 178


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 TraesCS3B01G396400 chr3B 625332029 625334477 2448 True 4523 4523 100.0000 1 2449 1 chr3B.!!$R1 2448
1 TraesCS3B01G396400 chr3D 470887744 470892335 4591 True 1152 2680 88.8335 1 2402 4 chr3D.!!$R1 2401
2 TraesCS3B01G396400 chr3A 613170436 613172908 2472 True 1485 1991 89.8795 4 2402 2 chr3A.!!$R1 2398

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
883 3088 0.106519 CCTCCATCCACCAATCCACC 60.107 60.0 0.0 0.0 0.0 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1907 4193 0.236711 GCAGATGCTGTGTGTGTGTC 59.763 55.0 0.0 0.0 38.21 3.67 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
190 194 4.111198 GTCTCGACGACTACTGATCTGTA 58.889 47.826 11.47 11.47 39.61 2.74
192 196 5.063186 GTCTCGACGACTACTGATCTGTAAA 59.937 44.000 12.82 0.00 39.61 2.01
224 228 0.178068 GACGGCTCCTAGAATTGCCA 59.822 55.000 12.99 0.00 45.13 4.92
225 229 0.179000 ACGGCTCCTAGAATTGCCAG 59.821 55.000 12.99 9.22 45.13 4.85
265 269 4.086457 TCTCTGTGCATAAGTGTGTCCTA 58.914 43.478 0.00 0.00 0.00 2.94
266 270 4.711846 TCTCTGTGCATAAGTGTGTCCTAT 59.288 41.667 0.00 0.00 0.00 2.57
275 279 6.513393 GCATAAGTGTGTCCTATATTTGTGCC 60.513 42.308 0.00 0.00 31.72 5.01
338 1414 0.444260 GTACCGCTGCTGCTTCTTTC 59.556 55.000 14.03 0.00 36.97 2.62
394 1470 6.762661 TGCCTTCAAAAGAAGAATGAAAAAGG 59.237 34.615 6.79 0.00 33.08 3.11
508 1584 6.823689 AGATAATTACCTGCACCAGTTAGTTG 59.176 38.462 0.00 0.00 0.00 3.16
512 1588 2.108250 ACCTGCACCAGTTAGTTGGATT 59.892 45.455 0.00 0.00 40.87 3.01
515 1591 1.202348 GCACCAGTTAGTTGGATTGGC 59.798 52.381 0.00 0.00 40.87 4.52
518 1594 2.158534 ACCAGTTAGTTGGATTGGCACA 60.159 45.455 0.00 0.00 40.87 4.57
522 1598 3.073062 AGTTAGTTGGATTGGCACAGACT 59.927 43.478 0.00 0.00 42.39 3.24
564 2713 1.795768 CAGCTTCTACTGCCGTTTCA 58.204 50.000 0.00 0.00 0.00 2.69
630 2786 1.071471 CAAGAACTCCGGCCAGTGT 59.929 57.895 2.24 0.00 0.00 3.55
636 2792 4.680237 TCCGGCCAGTGTTCGCAG 62.680 66.667 2.24 0.00 0.00 5.18
651 2807 4.508128 CAGCGCCGACATACCCGT 62.508 66.667 2.29 0.00 0.00 5.28
786 2987 1.335051 GCGGGCAAAAGAGAAGTGAAC 60.335 52.381 0.00 0.00 0.00 3.18
849 3053 0.108041 TACCCGGGCGAAATCTTCAC 60.108 55.000 24.08 0.00 0.00 3.18
877 3082 3.854582 ATGGCCTCCATCCACCAA 58.145 55.556 3.32 0.00 40.74 3.67
878 3083 2.335504 ATGGCCTCCATCCACCAAT 58.664 52.632 3.32 0.00 40.74 3.16
880 3085 1.152673 GGCCTCCATCCACCAATCC 60.153 63.158 0.00 0.00 0.00 3.01
881 3086 1.614711 GCCTCCATCCACCAATCCA 59.385 57.895 0.00 0.00 0.00 3.41
882 3087 0.753111 GCCTCCATCCACCAATCCAC 60.753 60.000 0.00 0.00 0.00 4.02
883 3088 0.106519 CCTCCATCCACCAATCCACC 60.107 60.000 0.00 0.00 0.00 4.61
897 3102 2.735772 CCACCATGACCCGGAGAGG 61.736 68.421 0.73 0.00 40.63 3.69
934 3139 0.526524 CGAGGCACCGAGAAGATCAC 60.527 60.000 0.00 0.00 0.00 3.06
935 3140 0.179097 GAGGCACCGAGAAGATCACC 60.179 60.000 0.00 0.00 0.00 4.02
936 3141 0.904865 AGGCACCGAGAAGATCACCA 60.905 55.000 0.00 0.00 0.00 4.17
937 3142 0.179000 GGCACCGAGAAGATCACCAT 59.821 55.000 0.00 0.00 0.00 3.55
938 3143 1.576356 GCACCGAGAAGATCACCATC 58.424 55.000 0.00 0.00 0.00 3.51
939 3144 1.808133 GCACCGAGAAGATCACCATCC 60.808 57.143 0.00 0.00 0.00 3.51
940 3145 0.747255 ACCGAGAAGATCACCATCCG 59.253 55.000 0.00 0.00 0.00 4.18
941 3146 0.747255 CCGAGAAGATCACCATCCGT 59.253 55.000 0.00 0.00 0.00 4.69
947 3152 1.051812 AGATCACCATCCGTCCATCC 58.948 55.000 0.00 0.00 0.00 3.51
953 3158 1.676678 CCATCCGTCCATCCGAGTGT 61.677 60.000 0.00 0.00 0.00 3.55
964 3169 1.595109 CCGAGTGTGCACTGCAGAA 60.595 57.895 23.35 2.14 42.66 3.02
971 3176 1.942657 TGTGCACTGCAGAAAGAGAAC 59.057 47.619 23.35 9.57 40.08 3.01
972 3177 1.265365 GTGCACTGCAGAAAGAGAACC 59.735 52.381 23.35 0.00 40.08 3.62
973 3178 0.514691 GCACTGCAGAAAGAGAACCG 59.485 55.000 23.35 0.00 0.00 4.44
974 3179 1.871080 CACTGCAGAAAGAGAACCGT 58.129 50.000 23.35 0.00 0.00 4.83
976 3181 1.412710 ACTGCAGAAAGAGAACCGTGA 59.587 47.619 23.35 0.00 0.00 4.35
977 3182 2.158957 ACTGCAGAAAGAGAACCGTGAA 60.159 45.455 23.35 0.00 0.00 3.18
978 3183 2.478134 CTGCAGAAAGAGAACCGTGAAG 59.522 50.000 8.42 0.00 0.00 3.02
979 3184 1.195674 GCAGAAAGAGAACCGTGAAGC 59.804 52.381 0.00 0.00 0.00 3.86
980 3185 1.457303 CAGAAAGAGAACCGTGAAGCG 59.543 52.381 0.00 0.00 40.95 4.68
981 3186 1.068741 AGAAAGAGAACCGTGAAGCGT 59.931 47.619 0.00 0.00 39.32 5.07
983 3188 2.349297 AAGAGAACCGTGAAGCGTAG 57.651 50.000 0.00 0.00 39.32 3.51
1337 3561 1.641677 GCTACAAATGCGGCCGTAG 59.358 57.895 28.70 19.47 35.50 3.51
1380 3607 3.759418 TCGATCGTTTCTTCTGTAGCTG 58.241 45.455 15.94 0.00 0.00 4.24
1455 3689 2.005266 ACCCTGCCATGAGGAGCAT 61.005 57.895 1.97 0.00 38.56 3.79
1457 3691 0.250640 CCCTGCCATGAGGAGCATAC 60.251 60.000 1.97 0.00 38.56 2.39
1564 3840 8.200792 TGAATAAATAATGTGGTTGTAATGCCC 58.799 33.333 0.00 0.00 0.00 5.36
1608 3886 7.037586 AGTGAAGTACCTTCCCAAATCTTATGA 60.038 37.037 1.80 0.00 39.51 2.15
1657 3937 8.788325 AACTTATATGAAGTTCCAACAGTACC 57.212 34.615 0.00 0.00 35.76 3.34
1796 4082 2.354729 CAGGTTGGGCGGAATGGA 59.645 61.111 0.00 0.00 0.00 3.41
1797 4083 1.304052 CAGGTTGGGCGGAATGGAA 60.304 57.895 0.00 0.00 0.00 3.53
1799 4085 0.923358 AGGTTGGGCGGAATGGAATA 59.077 50.000 0.00 0.00 0.00 1.75
1907 4193 2.851195 AGAAGGTAAAGGCACACACAG 58.149 47.619 0.00 0.00 0.00 3.66
1908 4194 2.438021 AGAAGGTAAAGGCACACACAGA 59.562 45.455 0.00 0.00 0.00 3.41
1909 4195 2.256117 AGGTAAAGGCACACACAGAC 57.744 50.000 0.00 0.00 0.00 3.51
1910 4196 1.488812 AGGTAAAGGCACACACAGACA 59.511 47.619 0.00 0.00 0.00 3.41
1943 4229 1.225426 GCCCAGGAGTGATGATGCA 59.775 57.895 0.00 0.00 0.00 3.96
2023 4310 6.122964 ACTGCTATCAAGGAAATTAGGTTCC 58.877 40.000 0.00 0.00 46.48 3.62
2055 4344 2.154462 CTTCGATTTCCTGCCAACAGT 58.846 47.619 0.00 0.00 42.81 3.55
2083 4384 1.993370 CAGAACGGTGAGGAAACGATC 59.007 52.381 0.00 0.00 0.00 3.69
2104 4427 7.442364 ACGATCCAATGACAATGATTTAGGTAG 59.558 37.037 0.00 0.00 0.00 3.18
2127 4450 6.051717 AGATAAAAATCATCACCAGGAGACG 58.948 40.000 0.00 0.00 0.00 4.18
2138 4461 1.200020 CCAGGAGACGCAAAACATTCC 59.800 52.381 0.00 0.00 0.00 3.01
2146 4469 1.501169 GCAAAACATTCCGCAGCTTT 58.499 45.000 0.00 0.00 0.00 3.51
2224 4547 9.511272 GGAACCTTAGTTAAAAACTAGGATTCA 57.489 33.333 14.45 0.00 44.22 2.57
2243 4566 5.964887 TTCACACAAGTTGCTTAAAATGC 57.035 34.783 1.81 0.00 0.00 3.56
2325 4649 2.829720 TGATTTACACTACGGCCTGAGT 59.170 45.455 0.00 0.00 0.00 3.41
2339 4663 3.449632 GCCTGAGTCGTATCCTCTTTTC 58.550 50.000 0.00 0.00 0.00 2.29
2342 4669 4.496673 CCTGAGTCGTATCCTCTTTTCGAG 60.497 50.000 0.00 0.00 39.57 4.04
2359 4686 9.104965 TCTTTTCGAGTAATTCTGTTTCTCAAA 57.895 29.630 0.00 0.00 0.00 2.69
2386 4713 7.072030 CGAAAGTAATGGTATAGCAAGCAATC 58.928 38.462 8.98 3.36 0.00 2.67
2393 4720 5.750524 TGGTATAGCAAGCAATCCAACTTA 58.249 37.500 1.19 0.00 0.00 2.24
2395 4722 6.661377 TGGTATAGCAAGCAATCCAACTTAAA 59.339 34.615 1.19 0.00 0.00 1.52
2402 4729 5.712152 AGCAATCCAACTTAAAGGAACAG 57.288 39.130 0.00 0.00 37.48 3.16
2403 4730 5.385198 AGCAATCCAACTTAAAGGAACAGA 58.615 37.500 0.00 0.00 37.48 3.41
2404 4731 5.474876 AGCAATCCAACTTAAAGGAACAGAG 59.525 40.000 0.00 0.00 37.48 3.35
2405 4732 5.473504 GCAATCCAACTTAAAGGAACAGAGA 59.526 40.000 0.00 0.00 37.48 3.10
2406 4733 6.016276 GCAATCCAACTTAAAGGAACAGAGAA 60.016 38.462 0.00 0.00 37.48 2.87
2407 4734 7.363431 CAATCCAACTTAAAGGAACAGAGAAC 58.637 38.462 0.00 0.00 37.48 3.01
2408 4735 5.054477 TCCAACTTAAAGGAACAGAGAACG 58.946 41.667 0.00 0.00 0.00 3.95
2409 4736 5.054477 CCAACTTAAAGGAACAGAGAACGA 58.946 41.667 0.00 0.00 0.00 3.85
2410 4737 5.526111 CCAACTTAAAGGAACAGAGAACGAA 59.474 40.000 0.00 0.00 0.00 3.85
2411 4738 6.037830 CCAACTTAAAGGAACAGAGAACGAAA 59.962 38.462 0.00 0.00 0.00 3.46
2412 4739 6.846325 ACTTAAAGGAACAGAGAACGAAAG 57.154 37.500 0.00 0.00 0.00 2.62
2448 4775 6.868339 GCAAGCAATACAACTTAAAGGAACAT 59.132 34.615 0.00 0.00 0.00 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 3.827898 GTCCTCGGGCTCGACAGG 61.828 72.222 3.45 6.18 40.88 4.00
53 54 2.284331 TTGCCCTGAGACCGCCTA 60.284 61.111 0.00 0.00 0.00 3.93
56 57 2.743928 CTGTTGCCCTGAGACCGC 60.744 66.667 0.00 0.00 0.00 5.68
152 156 2.831333 GAGACATCGATCATGGTGCTT 58.169 47.619 0.00 0.00 36.72 3.91
179 183 3.318275 CGGCCTAGCTTTACAGATCAGTA 59.682 47.826 0.00 0.00 0.00 2.74
182 186 1.412710 CCGGCCTAGCTTTACAGATCA 59.587 52.381 0.00 0.00 0.00 2.92
190 194 2.669240 GTCCACCGGCCTAGCTTT 59.331 61.111 0.00 0.00 0.00 3.51
213 217 1.748591 GCTGGTCCCTGGCAATTCTAG 60.749 57.143 0.00 0.00 0.00 2.43
265 269 4.394920 CAGTAAGAACGTGGGCACAAATAT 59.605 41.667 0.00 0.00 0.00 1.28
266 270 3.749088 CAGTAAGAACGTGGGCACAAATA 59.251 43.478 0.00 0.00 0.00 1.40
275 279 8.985805 AGAGTTAAAAATACAGTAAGAACGTGG 58.014 33.333 0.00 0.00 0.00 4.94
338 1414 1.859703 CATAGCAGCTTCTTCTCGCAG 59.140 52.381 0.00 0.00 0.00 5.18
394 1470 1.940613 ACAGCAGGACACTTCGTTTTC 59.059 47.619 0.00 0.00 0.00 2.29
508 1584 1.457346 CTGGAAGTCTGTGCCAATCC 58.543 55.000 0.00 0.00 0.00 3.01
522 1598 5.186021 TGCAGGTTTTCACTTTTAACTGGAA 59.814 36.000 0.00 0.00 0.00 3.53
563 2712 1.263356 TCCGGTTCTTCAGGTACCTG 58.737 55.000 32.61 32.61 44.86 4.00
564 2713 2.019807 TTCCGGTTCTTCAGGTACCT 57.980 50.000 9.21 9.21 33.18 3.08
601 2757 1.398578 GGAGTTCTTGAAAACGCGAGC 60.399 52.381 15.93 0.00 34.27 5.03
630 2786 2.883730 GTATGTCGGCGCTGCGAA 60.884 61.111 28.07 7.20 0.00 4.70
636 2792 1.300388 ATTACGGGTATGTCGGCGC 60.300 57.895 0.00 0.00 0.00 6.53
644 2800 1.337823 GCTCGCCATCATTACGGGTAT 60.338 52.381 0.00 0.00 0.00 2.73
651 2807 1.344438 AGATTCGGCTCGCCATCATTA 59.656 47.619 8.87 0.00 35.37 1.90
696 2853 2.405143 TCCACTACGCTGGAGATCG 58.595 57.895 0.00 0.00 35.23 3.69
876 3081 0.620410 TCTCCGGGTCATGGTGGATT 60.620 55.000 0.00 0.00 0.00 3.01
877 3082 1.002921 TCTCCGGGTCATGGTGGAT 59.997 57.895 0.00 0.00 0.00 3.41
878 3083 1.685765 CTCTCCGGGTCATGGTGGA 60.686 63.158 0.00 0.00 0.00 4.02
880 3085 1.990060 ACCTCTCCGGGTCATGGTG 60.990 63.158 0.00 0.00 33.84 4.17
881 3086 1.990060 CACCTCTCCGGGTCATGGT 60.990 63.158 0.00 0.24 37.52 3.55
882 3087 0.686441 TACACCTCTCCGGGTCATGG 60.686 60.000 0.00 0.00 37.52 3.66
883 3088 1.414158 ATACACCTCTCCGGGTCATG 58.586 55.000 0.00 0.00 37.52 3.07
897 3102 3.383825 CCTCGGCCAGGGTATATATACAC 59.616 52.174 21.56 19.01 38.91 2.90
928 3133 1.051812 GGATGGACGGATGGTGATCT 58.948 55.000 0.00 0.00 0.00 2.75
934 3139 1.068083 CACTCGGATGGACGGATGG 59.932 63.158 0.00 0.00 0.00 3.51
935 3140 0.528466 CACACTCGGATGGACGGATG 60.528 60.000 0.00 0.00 0.00 3.51
936 3141 1.816537 CACACTCGGATGGACGGAT 59.183 57.895 0.00 0.00 0.00 4.18
937 3142 3.001902 GCACACTCGGATGGACGGA 62.002 63.158 0.00 0.00 0.00 4.69
938 3143 2.509336 GCACACTCGGATGGACGG 60.509 66.667 0.00 0.00 0.00 4.79
939 3144 2.094659 GTGCACACTCGGATGGACG 61.095 63.158 13.17 0.00 0.00 4.79
940 3145 1.016130 CAGTGCACACTCGGATGGAC 61.016 60.000 21.04 0.00 40.20 4.02
941 3146 1.293179 CAGTGCACACTCGGATGGA 59.707 57.895 21.04 0.00 40.20 3.41
947 3152 0.234106 CTTTCTGCAGTGCACACTCG 59.766 55.000 21.04 4.10 40.20 4.18
953 3158 1.597742 GGTTCTCTTTCTGCAGTGCA 58.402 50.000 18.58 18.58 36.92 4.57
972 3177 3.076296 GCTGCAGCTACGCTTCACG 62.076 63.158 31.33 0.00 42.64 4.35
973 3178 2.781300 GCTGCAGCTACGCTTCAC 59.219 61.111 31.33 0.00 36.40 3.18
983 3188 0.531090 CATCTCTCCTCAGCTGCAGC 60.531 60.000 31.53 31.53 42.49 5.25
984 3189 0.105224 CCATCTCTCCTCAGCTGCAG 59.895 60.000 10.11 10.11 0.00 4.41
985 3190 0.325016 TCCATCTCTCCTCAGCTGCA 60.325 55.000 9.47 0.00 0.00 4.41
986 3191 0.390124 CTCCATCTCTCCTCAGCTGC 59.610 60.000 9.47 0.00 0.00 5.25
987 3192 1.682854 GACTCCATCTCTCCTCAGCTG 59.317 57.143 7.63 7.63 0.00 4.24
990 3195 2.450867 TGGACTCCATCTCTCCTCAG 57.549 55.000 0.00 0.00 0.00 3.35
991 3196 2.625352 CCTTGGACTCCATCTCTCCTCA 60.625 54.545 0.00 0.00 31.53 3.86
995 3200 0.103937 CGCCTTGGACTCCATCTCTC 59.896 60.000 0.00 0.00 31.53 3.20
1030 3254 2.203167 CAGGAGCATCGCCAGCAT 60.203 61.111 0.00 0.00 34.37 3.79
1275 3499 2.189499 GCGCTTGGGGATGGTCATC 61.189 63.158 0.00 2.52 37.11 2.92
1354 3578 5.062308 GCTACAGAAGAAACGATCGAACATT 59.938 40.000 24.34 10.90 0.00 2.71
1455 3689 4.899457 TCTTCCAGAAGTTCCAAGAGTGTA 59.101 41.667 7.26 0.00 39.38 2.90
1457 3691 4.314121 CTCTTCCAGAAGTTCCAAGAGTG 58.686 47.826 19.62 5.13 39.38 3.51
1608 3886 8.739972 GTTTGGGAAGTGTTCTTGTCAATATAT 58.260 33.333 0.00 0.00 33.64 0.86
1796 4082 3.531814 AGGTTGCATAAAGGGTCCCTATT 59.468 43.478 12.06 10.40 31.13 1.73
1797 4083 3.117512 CAGGTTGCATAAAGGGTCCCTAT 60.118 47.826 12.06 0.00 31.13 2.57
1799 4085 1.005924 CAGGTTGCATAAAGGGTCCCT 59.994 52.381 3.85 3.85 33.87 4.20
1907 4193 0.236711 GCAGATGCTGTGTGTGTGTC 59.763 55.000 0.00 0.00 38.21 3.67
1908 4194 1.168407 GGCAGATGCTGTGTGTGTGT 61.168 55.000 4.59 0.00 41.70 3.72
1909 4195 1.577922 GGCAGATGCTGTGTGTGTG 59.422 57.895 4.59 0.00 41.70 3.82
1910 4196 1.601759 GGGCAGATGCTGTGTGTGT 60.602 57.895 4.59 0.00 41.70 3.72
1943 4229 1.681780 CGGTGGTGGCAGTATTTGGAT 60.682 52.381 0.00 0.00 0.00 3.41
2023 4310 0.905357 AATCGAAGGGGAGAGGTGTG 59.095 55.000 0.00 0.00 0.00 3.82
2031 4320 1.204786 TGGCAGGAAATCGAAGGGGA 61.205 55.000 0.00 0.00 0.00 4.81
2055 4344 1.474320 CCTCACCGTTCTGTTTCACCA 60.474 52.381 0.00 0.00 0.00 4.17
2104 4427 5.277538 GCGTCTCCTGGTGATGATTTTTATC 60.278 44.000 19.36 0.00 0.00 1.75
2127 4450 1.192980 CAAAGCTGCGGAATGTTTTGC 59.807 47.619 0.00 0.00 30.36 3.68
2146 4469 4.219944 AGAACCAAGTTATCAGACGTAGCA 59.780 41.667 0.00 0.00 0.00 3.49
2215 4538 6.801539 TTAAGCAACTTGTGTGAATCCTAG 57.198 37.500 0.00 0.00 0.00 3.02
2223 4546 4.370917 AGGCATTTTAAGCAACTTGTGTG 58.629 39.130 0.00 0.00 0.00 3.82
2224 4547 4.670896 AGGCATTTTAAGCAACTTGTGT 57.329 36.364 0.00 0.00 0.00 3.72
2291 4615 4.843728 GTGTAAATCACTCTTGGGGATCA 58.156 43.478 0.00 0.00 43.13 2.92
2339 4663 6.873656 TCGTTTTGAGAAACAGAATTACTCG 58.126 36.000 3.33 0.00 44.25 4.18
2342 4669 8.836959 ACTTTCGTTTTGAGAAACAGAATTAC 57.163 30.769 3.33 0.00 44.25 1.89
2359 4686 5.878116 TGCTTGCTATACCATTACTTTCGTT 59.122 36.000 0.00 0.00 0.00 3.85
2386 4713 5.054477 TCGTTCTCTGTTCCTTTAAGTTGG 58.946 41.667 0.00 0.00 0.00 3.77
2393 4720 6.204882 CCATTACTTTCGTTCTCTGTTCCTTT 59.795 38.462 0.00 0.00 0.00 3.11
2395 4722 5.238583 CCATTACTTTCGTTCTCTGTTCCT 58.761 41.667 0.00 0.00 0.00 3.36
2402 4729 4.570772 TGCTATGCCATTACTTTCGTTCTC 59.429 41.667 0.00 0.00 0.00 2.87
2403 4730 4.513442 TGCTATGCCATTACTTTCGTTCT 58.487 39.130 0.00 0.00 0.00 3.01
2404 4731 4.875544 TGCTATGCCATTACTTTCGTTC 57.124 40.909 0.00 0.00 0.00 3.95
2405 4732 4.438744 GCTTGCTATGCCATTACTTTCGTT 60.439 41.667 0.00 0.00 0.00 3.85
2406 4733 3.065371 GCTTGCTATGCCATTACTTTCGT 59.935 43.478 0.00 0.00 0.00 3.85
2407 4734 3.065233 TGCTTGCTATGCCATTACTTTCG 59.935 43.478 0.00 0.00 0.00 3.46
2408 4735 4.637483 TGCTTGCTATGCCATTACTTTC 57.363 40.909 0.00 0.00 0.00 2.62
2409 4736 5.603170 ATTGCTTGCTATGCCATTACTTT 57.397 34.783 0.00 0.00 0.00 2.66
2410 4737 5.593909 TGTATTGCTTGCTATGCCATTACTT 59.406 36.000 0.17 0.00 0.00 2.24
2411 4738 5.132502 TGTATTGCTTGCTATGCCATTACT 58.867 37.500 0.17 0.00 0.00 2.24
2412 4739 5.437289 TGTATTGCTTGCTATGCCATTAC 57.563 39.130 0.17 0.00 0.00 1.89
2413 4740 5.593909 AGTTGTATTGCTTGCTATGCCATTA 59.406 36.000 0.17 0.00 0.00 1.90
2414 4741 4.403432 AGTTGTATTGCTTGCTATGCCATT 59.597 37.500 0.17 0.00 0.00 3.16
2415 4742 3.956199 AGTTGTATTGCTTGCTATGCCAT 59.044 39.130 0.17 0.00 0.00 4.40
2416 4743 3.355378 AGTTGTATTGCTTGCTATGCCA 58.645 40.909 0.17 0.00 0.00 4.92
2417 4744 4.376340 AAGTTGTATTGCTTGCTATGCC 57.624 40.909 0.17 0.00 0.00 4.40
2418 4745 6.473455 CCTTTAAGTTGTATTGCTTGCTATGC 59.527 38.462 0.17 0.00 0.00 3.14
2419 4746 7.761409 TCCTTTAAGTTGTATTGCTTGCTATG 58.239 34.615 0.17 0.00 0.00 2.23
2420 4747 7.938140 TCCTTTAAGTTGTATTGCTTGCTAT 57.062 32.000 0.00 0.00 0.00 2.97
2421 4748 7.229707 TGTTCCTTTAAGTTGTATTGCTTGCTA 59.770 33.333 0.00 0.00 0.00 3.49
2422 4749 6.040391 TGTTCCTTTAAGTTGTATTGCTTGCT 59.960 34.615 0.00 0.00 0.00 3.91


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

AutoCloner maintained by Alex Coulton.