Multiple sequence alignment - TraesCS6D01G383900

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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 TraesCS6D01G383900 chr6D 100.000 3479 0 0 1 3479 462556545 462553067 0.000000e+00 6425.0
1 TraesCS6D01G383900 chr6D 88.690 1618 171 9 979 2586 462614923 462613308 0.000000e+00 1964.0
2 TraesCS6D01G383900 chr6D 85.000 60 6 2 3313 3369 79644324 79644265 1.350000e-04 58.4
3 TraesCS6D01G383900 chr6A 97.629 1645 33 3 940 2578 609403346 609401702 0.000000e+00 2817.0
4 TraesCS6D01G383900 chr6A 88.659 1596 174 4 998 2586 609427758 609426163 0.000000e+00 1938.0
5 TraesCS6D01G383900 chr6A 88.243 791 49 21 139 917 609404081 609403323 0.000000e+00 905.0
6 TraesCS6D01G383900 chr6A 84.848 693 57 12 2819 3468 609399007 609398320 0.000000e+00 654.0
7 TraesCS6D01G383900 chr6A 86.207 58 7 1 3314 3370 614294707 614294650 1.040000e-05 62.1
8 TraesCS6D01G383900 chr6B 94.540 1392 73 1 1187 2575 705182947 705181556 0.000000e+00 2146.0
9 TraesCS6D01G383900 chr6B 88.652 1639 176 7 957 2586 705316547 705314910 0.000000e+00 1988.0
10 TraesCS6D01G383900 chr6B 91.265 893 45 13 2618 3479 705181559 705180669 0.000000e+00 1186.0
11 TraesCS6D01G383900 chr6B 88.738 515 35 16 26 536 705184842 705184347 2.970000e-170 608.0
12 TraesCS6D01G383900 chr6B 92.818 362 21 3 555 911 705184229 705183868 1.430000e-143 520.0
13 TraesCS6D01G383900 chr6B 96.078 255 10 0 944 1198 705183885 705183631 1.930000e-112 416.0
14 TraesCS6D01G383900 chr3D 92.122 622 45 2 936 1553 144479101 144478480 0.000000e+00 874.0
15 TraesCS6D01G383900 chr3D 86.569 685 57 18 257 919 144479747 144479076 0.000000e+00 723.0
16 TraesCS6D01G383900 chrUn 88.551 428 44 3 1318 1741 476451865 476451439 6.660000e-142 514.0
17 TraesCS6D01G383900 chr7A 82.857 105 16 2 1140 1243 495536873 495536976 3.700000e-15 93.5
18 TraesCS6D01G383900 chr7A 74.638 138 30 5 3052 3187 625069586 625069452 4.850000e-04 56.5
19 TraesCS6D01G383900 chr4A 84.000 75 8 4 3297 3368 740378482 740378555 6.230000e-08 69.4
20 TraesCS6D01G383900 chr3A 89.474 57 2 2 3312 3367 170234688 170234635 6.230000e-08 69.4
21 TraesCS6D01G383900 chr7B 97.436 39 1 0 3339 3377 255035285 255035323 2.240000e-07 67.6
22 TraesCS6D01G383900 chr5B 97.436 39 1 0 589 627 709939736 709939698 2.240000e-07 67.6
23 TraesCS6D01G383900 chr1B 86.364 66 4 3 3312 3376 302758541 302758602 2.240000e-07 67.6
24 TraesCS6D01G383900 chr1B 85.965 57 4 2 3313 3368 302758595 302758542 1.350000e-04 58.4
25 TraesCS6D01G383900 chr5A 96.875 32 0 1 3127 3157 680204608 680204577 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 TraesCS6D01G383900 chr6D 462553067 462556545 3478 True 6425.000000 6425 100.0000 1 3479 1 chr6D.!!$R2 3478
1 TraesCS6D01G383900 chr6D 462613308 462614923 1615 True 1964.000000 1964 88.6900 979 2586 1 chr6D.!!$R3 1607
2 TraesCS6D01G383900 chr6A 609426163 609427758 1595 True 1938.000000 1938 88.6590 998 2586 1 chr6A.!!$R1 1588
3 TraesCS6D01G383900 chr6A 609398320 609404081 5761 True 1458.666667 2817 90.2400 139 3468 3 chr6A.!!$R3 3329
4 TraesCS6D01G383900 chr6B 705314910 705316547 1637 True 1988.000000 1988 88.6520 957 2586 1 chr6B.!!$R1 1629
5 TraesCS6D01G383900 chr6B 705180669 705184842 4173 True 975.200000 2146 92.6878 26 3479 5 chr6B.!!$R2 3453
6 TraesCS6D01G383900 chr3D 144478480 144479747 1267 True 798.500000 874 89.3455 257 1553 2 chr3D.!!$R1 1296

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
164 165 1.202582 TCCTTGCTTCTCTGCTACGTC 59.797 52.381 0.0 0.0 0.00 4.34 F
1272 2099 0.538287 GGGTCCTTTGCAGCTCAAGT 60.538 55.000 0.0 0.0 35.84 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1999 2832 1.148759 GCTAGCTCACTTGCTACCGC 61.149 60.000 7.7 0.0 43.74 5.68 R
2623 3487 3.002348 GCTTGGAAATCACGGTACATAGC 59.998 47.826 0.0 0.0 0.00 2.97 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
21 22 2.663119 CCAGCTTTTTCAATAACGCTGC 59.337 45.455 8.73 0.00 42.44 5.25
22 23 3.307674 CAGCTTTTTCAATAACGCTGCA 58.692 40.909 0.00 0.00 38.46 4.41
23 24 3.922240 CAGCTTTTTCAATAACGCTGCAT 59.078 39.130 0.00 0.00 38.46 3.96
24 25 5.094812 CAGCTTTTTCAATAACGCTGCATA 58.905 37.500 0.00 0.00 38.46 3.14
54 55 6.660949 AGTCCAGGTTCTTTAATCAAATCCAG 59.339 38.462 0.00 0.00 0.00 3.86
56 57 6.659242 TCCAGGTTCTTTAATCAAATCCAGTC 59.341 38.462 0.00 0.00 0.00 3.51
64 65 2.768253 TCAAATCCAGTCGACTGCAT 57.232 45.000 35.09 26.59 42.47 3.96
164 165 1.202582 TCCTTGCTTCTCTGCTACGTC 59.797 52.381 0.00 0.00 0.00 4.34
172 173 4.675671 GCTTCTCTGCTACGTCTAACATGT 60.676 45.833 0.00 0.00 0.00 3.21
201 202 7.044052 GCTACGCAAAGAACAAATTTATGGATC 60.044 37.037 0.00 0.00 0.00 3.36
233 234 6.062434 TCCACAAATTTGTTAACCTACACG 57.938 37.500 21.10 6.09 39.91 4.49
307 312 8.405531 TGAATTTGTTTCTTTTGTAGACCAGAG 58.594 33.333 0.00 0.00 35.23 3.35
308 313 7.881775 ATTTGTTTCTTTTGTAGACCAGAGT 57.118 32.000 0.00 0.00 30.90 3.24
310 315 8.795842 TTTGTTTCTTTTGTAGACCAGAGTTA 57.204 30.769 0.00 0.00 30.90 2.24
311 316 8.974060 TTGTTTCTTTTGTAGACCAGAGTTAT 57.026 30.769 0.00 0.00 30.90 1.89
382 387 7.015226 TCATACGTTCATGTGGATCATTTTC 57.985 36.000 0.00 0.00 34.09 2.29
537 549 7.982371 AGAATTTCAAAGAATTGATCGATGC 57.018 32.000 0.54 0.00 44.70 3.91
538 550 6.976925 AGAATTTCAAAGAATTGATCGATGCC 59.023 34.615 0.54 0.00 44.70 4.40
539 551 3.950087 TCAAAGAATTGATCGATGCCG 57.050 42.857 0.54 0.00 40.59 5.69
587 699 3.463944 GGAAAAGAAAGGTCTCGTGTGA 58.536 45.455 0.00 0.00 30.70 3.58
602 714 4.068599 TCGTGTGATAATTTCTTGCACCA 58.931 39.130 0.00 0.00 0.00 4.17
629 741 3.321682 ACAAATCACCATGGGTTCTGTTG 59.678 43.478 18.09 13.89 31.02 3.33
659 771 7.281549 GGTAGAGGTTAGTTTCAACTTTCAACA 59.718 37.037 0.00 0.00 40.37 3.33
674 786 1.487142 TCAACAAGTCCCTTTCACCGA 59.513 47.619 0.00 0.00 0.00 4.69
766 887 8.893563 AGATATTTCCCAACTTTCAACCAATA 57.106 30.769 0.00 0.00 0.00 1.90
775 896 6.198216 CCAACTTTCAACCAATAACTTTCACG 59.802 38.462 0.00 0.00 0.00 4.35
831 955 6.712241 TGCAAGATTTTAGTCTTTCTCTCG 57.288 37.500 0.00 0.00 36.33 4.04
888 1013 6.053005 ACGCTCGGAATTGGAAGATTTAATA 58.947 36.000 0.00 0.00 0.00 0.98
892 1017 9.827411 GCTCGGAATTGGAAGATTTAATATTAC 57.173 33.333 0.00 0.00 0.00 1.89
912 1039 6.716934 TTACTCTCTCTCTCTCTCTCTCTC 57.283 45.833 0.00 0.00 0.00 3.20
913 1040 4.877773 ACTCTCTCTCTCTCTCTCTCTCT 58.122 47.826 0.00 0.00 0.00 3.10
914 1041 4.892934 ACTCTCTCTCTCTCTCTCTCTCTC 59.107 50.000 0.00 0.00 0.00 3.20
915 1042 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
916 1043 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
917 1044 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
918 1045 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
919 1046 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
920 1047 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
921 1048 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
922 1049 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
923 1050 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
924 1051 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
925 1052 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
926 1053 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
927 1054 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
928 1055 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
929 1056 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
930 1057 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
931 1058 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
932 1059 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
933 1060 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
934 1061 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
935 1062 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
936 1063 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
937 1064 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
938 1065 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
939 1066 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
940 1067 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
941 1068 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
942 1069 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
943 1070 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
944 1071 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
945 1072 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
946 1073 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
947 1074 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
948 1075 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
949 1076 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
950 1077 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
951 1078 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
952 1079 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
953 1080 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
954 1081 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
955 1082 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
961 1088 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
992 1119 4.499040 CACACAAAAGAAACGCGAAGAAAT 59.501 37.500 15.93 0.00 0.00 2.17
1180 1308 3.448686 CGATACATCACCAACTCCAGAC 58.551 50.000 0.00 0.00 0.00 3.51
1209 2032 0.990374 AGCTCAAGAGGCTTGTGGAT 59.010 50.000 7.02 0.00 36.56 3.41
1272 2099 0.538287 GGGTCCTTTGCAGCTCAAGT 60.538 55.000 0.00 0.00 35.84 3.16
1275 2102 1.949525 GTCCTTTGCAGCTCAAGTGAA 59.050 47.619 0.00 0.00 35.84 3.18
1503 2333 3.022557 AGCCCTTATGACACGTACCTA 57.977 47.619 0.00 0.00 0.00 3.08
1999 2832 0.689623 GGATCACCCCCAGCTATCAG 59.310 60.000 0.00 0.00 0.00 2.90
2270 3103 2.223735 ACTGTGAAGACGACGATTGTGT 60.224 45.455 0.00 0.00 0.00 3.72
2589 3453 1.070445 CCAAGCTTTGTTGGCCATTCA 59.930 47.619 6.09 6.66 40.70 2.57
2592 3456 3.557228 AGCTTTGTTGGCCATTCAAAA 57.443 38.095 25.81 15.78 32.06 2.44
2593 3457 3.883669 AGCTTTGTTGGCCATTCAAAAA 58.116 36.364 25.81 12.58 32.06 1.94
2616 3480 8.723942 AAAAGATTGATTACTTCGAGCTGTAT 57.276 30.769 0.00 0.00 34.63 2.29
2658 3872 6.803807 GTGATTTCCAAGCTCTTAACAATGAC 59.196 38.462 0.00 0.00 0.00 3.06
2669 3890 9.757227 AGCTCTTAACAATGACTCATAGTTATC 57.243 33.333 0.00 0.00 0.00 1.75
2670 3891 9.534565 GCTCTTAACAATGACTCATAGTTATCA 57.465 33.333 0.00 0.00 0.00 2.15
2731 3952 9.072294 CCAAGCAAAGTAAGAAAATAAATACCG 57.928 33.333 0.00 0.00 0.00 4.02
2771 3992 7.591426 GTCAAAACAAATAACTCATGTCACTCC 59.409 37.037 0.00 0.00 0.00 3.85
2772 3993 5.862924 AACAAATAACTCATGTCACTCCG 57.137 39.130 0.00 0.00 0.00 4.63
2933 6242 7.083502 TGTAAAAATTTGTGCACGTAATTCG 57.916 32.000 22.37 0.00 46.00 3.34
3007 6317 4.598062 TCGTGACATATAGTTTCTGCTCG 58.402 43.478 0.00 0.00 0.00 5.03
3086 6419 8.789881 TTAAAAATTGTTCAACGTGTATCTGG 57.210 30.769 0.00 0.00 0.00 3.86
3192 6526 6.692681 ACTCAACAAAATGTTCAATGTCTTCG 59.307 34.615 0.00 0.00 38.77 3.79
3264 6599 5.702865 CTGAAATCAGGCGAATTTGAAGAA 58.297 37.500 2.38 0.00 40.20 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 3.641437 TGCAGCGTTATTGAAAAAGCT 57.359 38.095 0.00 0.00 43.58 3.74
3 4 6.388259 TTTATGCAGCGTTATTGAAAAAGC 57.612 33.333 0.00 0.00 34.55 3.51
5 6 9.632807 ACTTATTTATGCAGCGTTATTGAAAAA 57.367 25.926 0.00 0.00 0.00 1.94
6 7 9.284594 GACTTATTTATGCAGCGTTATTGAAAA 57.715 29.630 0.00 0.00 0.00 2.29
7 8 7.913297 GGACTTATTTATGCAGCGTTATTGAAA 59.087 33.333 0.00 0.00 0.00 2.69
8 9 7.066404 TGGACTTATTTATGCAGCGTTATTGAA 59.934 33.333 0.00 0.00 0.00 2.69
9 10 6.540551 TGGACTTATTTATGCAGCGTTATTGA 59.459 34.615 0.00 0.00 0.00 2.57
10 11 6.724263 TGGACTTATTTATGCAGCGTTATTG 58.276 36.000 0.00 0.00 0.00 1.90
11 12 6.017109 CCTGGACTTATTTATGCAGCGTTATT 60.017 38.462 0.00 0.00 33.27 1.40
12 13 5.470098 CCTGGACTTATTTATGCAGCGTTAT 59.530 40.000 0.00 0.00 33.27 1.89
13 14 4.814234 CCTGGACTTATTTATGCAGCGTTA 59.186 41.667 0.00 0.00 33.27 3.18
14 15 3.627577 CCTGGACTTATTTATGCAGCGTT 59.372 43.478 0.00 0.00 33.27 4.84
15 16 3.206150 CCTGGACTTATTTATGCAGCGT 58.794 45.455 0.00 0.00 33.27 5.07
16 17 3.206150 ACCTGGACTTATTTATGCAGCG 58.794 45.455 0.00 0.00 33.27 5.18
17 18 4.884164 AGAACCTGGACTTATTTATGCAGC 59.116 41.667 0.00 0.00 33.27 5.25
18 19 7.396540 AAAGAACCTGGACTTATTTATGCAG 57.603 36.000 0.00 0.00 34.31 4.41
19 20 8.871629 TTAAAGAACCTGGACTTATTTATGCA 57.128 30.769 0.00 0.00 0.00 3.96
20 21 9.952188 GATTAAAGAACCTGGACTTATTTATGC 57.048 33.333 0.00 0.00 0.00 3.14
79 80 1.604604 CAAGGAAGCAAGGACGGAAA 58.395 50.000 0.00 0.00 0.00 3.13
83 84 0.239347 CAAGCAAGGAAGCAAGGACG 59.761 55.000 0.00 0.00 36.85 4.79
84 85 0.600057 CCAAGCAAGGAAGCAAGGAC 59.400 55.000 0.00 0.00 36.85 3.85
86 87 1.291272 GCCAAGCAAGGAAGCAAGG 59.709 57.895 0.00 0.00 36.85 3.61
87 88 1.080974 CGCCAAGCAAGGAAGCAAG 60.081 57.895 0.00 0.00 36.85 4.01
88 89 1.518056 CTCGCCAAGCAAGGAAGCAA 61.518 55.000 0.00 0.00 36.85 3.91
89 90 1.968017 CTCGCCAAGCAAGGAAGCA 60.968 57.895 0.00 0.00 36.85 3.91
90 91 2.694760 CCTCGCCAAGCAAGGAAGC 61.695 63.158 0.00 0.00 0.00 3.86
91 92 2.042831 CCCTCGCCAAGCAAGGAAG 61.043 63.158 0.00 0.00 0.00 3.46
92 93 2.034066 CCCTCGCCAAGCAAGGAA 59.966 61.111 0.00 0.00 0.00 3.36
93 94 2.927856 TCCCTCGCCAAGCAAGGA 60.928 61.111 0.00 0.00 0.00 3.36
94 95 2.437359 CTCCCTCGCCAAGCAAGG 60.437 66.667 0.00 0.00 0.00 3.61
95 96 2.437359 CCTCCCTCGCCAAGCAAG 60.437 66.667 0.00 0.00 0.00 4.01
489 500 4.906618 ACCGTCTCCTGTTTTATTGACAT 58.093 39.130 0.00 0.00 0.00 3.06
536 548 2.452813 CGCAGATGTGTACCACGGC 61.453 63.158 0.00 0.00 37.14 5.68
537 549 0.171679 TACGCAGATGTGTACCACGG 59.828 55.000 2.19 0.00 39.74 4.94
538 550 2.203800 ATACGCAGATGTGTACCACG 57.796 50.000 8.32 0.00 42.88 4.94
539 551 3.782046 AGAATACGCAGATGTGTACCAC 58.218 45.455 8.32 4.06 42.88 4.16
547 560 3.317150 TCCGCATAAGAATACGCAGATG 58.683 45.455 0.00 0.00 0.00 2.90
553 664 6.183360 ACCTTTCTTTTCCGCATAAGAATACG 60.183 38.462 0.00 0.00 39.40 3.06
587 699 3.900601 TGTTGGGTGGTGCAAGAAATTAT 59.099 39.130 0.00 0.00 0.00 1.28
602 714 1.132881 ACCCATGGTGATTTGTTGGGT 60.133 47.619 11.73 6.12 42.88 4.51
629 741 5.608449 AGTTGAAACTAACCTCTACCACAC 58.392 41.667 0.00 0.00 37.52 3.82
674 786 1.825474 ACTACAGCCACGTATTGCTCT 59.175 47.619 3.66 0.00 35.12 4.09
766 887 3.007635 GCTATTGCTACCCGTGAAAGTT 58.992 45.455 0.00 0.00 36.03 2.66
775 896 1.542915 CATGGCATGCTATTGCTACCC 59.457 52.381 18.92 0.00 42.38 3.69
831 955 1.341209 CTTGGAGAAAGGGTTGGTTGC 59.659 52.381 0.00 0.00 31.68 4.17
888 1013 7.072562 AGAGAGAGAGAGAGAGAGAGAGTAAT 58.927 42.308 0.00 0.00 0.00 1.89
892 1017 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
901 1026 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
912 1039 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
913 1040 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
914 1041 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
915 1042 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
916 1043 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
917 1044 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
918 1045 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
919 1046 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
920 1047 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
921 1048 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
922 1049 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
923 1050 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
924 1051 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
925 1052 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
926 1053 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
927 1054 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
928 1055 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
929 1056 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
930 1057 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
931 1058 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
932 1059 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
933 1060 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
934 1061 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
935 1062 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
936 1063 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
937 1064 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
938 1065 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
939 1066 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
940 1067 5.830457 TGTAGAGAGAGAGAGAGAGAGAGAG 59.170 48.000 0.00 0.00 0.00 3.20
941 1068 5.594725 GTGTAGAGAGAGAGAGAGAGAGAGA 59.405 48.000 0.00 0.00 0.00 3.10
942 1069 5.360999 TGTGTAGAGAGAGAGAGAGAGAGAG 59.639 48.000 0.00 0.00 0.00 3.20
943 1070 5.127194 GTGTGTAGAGAGAGAGAGAGAGAGA 59.873 48.000 0.00 0.00 0.00 3.10
944 1071 5.105351 TGTGTGTAGAGAGAGAGAGAGAGAG 60.105 48.000 0.00 0.00 0.00 3.20
945 1072 4.775253 TGTGTGTAGAGAGAGAGAGAGAGA 59.225 45.833 0.00 0.00 0.00 3.10
946 1073 4.870426 GTGTGTGTAGAGAGAGAGAGAGAG 59.130 50.000 0.00 0.00 0.00 3.20
947 1074 4.284746 TGTGTGTGTAGAGAGAGAGAGAGA 59.715 45.833 0.00 0.00 0.00 3.10
948 1075 4.391830 GTGTGTGTGTAGAGAGAGAGAGAG 59.608 50.000 0.00 0.00 0.00 3.20
949 1076 4.202367 TGTGTGTGTGTAGAGAGAGAGAGA 60.202 45.833 0.00 0.00 0.00 3.10
950 1077 4.068599 TGTGTGTGTGTAGAGAGAGAGAG 58.931 47.826 0.00 0.00 0.00 3.20
951 1078 3.815962 GTGTGTGTGTGTAGAGAGAGAGA 59.184 47.826 0.00 0.00 0.00 3.10
952 1079 3.565902 TGTGTGTGTGTGTAGAGAGAGAG 59.434 47.826 0.00 0.00 0.00 3.20
953 1080 3.551846 TGTGTGTGTGTGTAGAGAGAGA 58.448 45.455 0.00 0.00 0.00 3.10
954 1081 3.990318 TGTGTGTGTGTGTAGAGAGAG 57.010 47.619 0.00 0.00 0.00 3.20
955 1082 4.729227 TTTGTGTGTGTGTGTAGAGAGA 57.271 40.909 0.00 0.00 0.00 3.10
961 1088 4.713806 CGTTTCTTTTGTGTGTGTGTGTA 58.286 39.130 0.00 0.00 0.00 2.90
992 1119 6.385176 AGAGACAACCATCTCCATCTTCAATA 59.615 38.462 0.00 0.00 45.43 1.90
1272 2099 3.181445 TGCTGCTAACCTCCTTTTCTTCA 60.181 43.478 0.00 0.00 0.00 3.02
1275 2102 2.877708 GCTGCTGCTAACCTCCTTTTCT 60.878 50.000 8.53 0.00 36.03 2.52
1503 2333 7.064609 CGTCCAAACATGAAGTTATCAGTGTAT 59.935 37.037 0.00 0.00 42.53 2.29
1999 2832 1.148759 GCTAGCTCACTTGCTACCGC 61.149 60.000 7.70 0.00 43.74 5.68
2592 3456 9.817809 TTATACAGCTCGAAGTAATCAATCTTT 57.182 29.630 0.00 0.00 0.00 2.52
2593 3457 9.469807 CTTATACAGCTCGAAGTAATCAATCTT 57.530 33.333 0.00 0.00 0.00 2.40
2594 3458 7.596995 GCTTATACAGCTCGAAGTAATCAATCT 59.403 37.037 0.00 0.00 46.27 2.40
2595 3459 7.725142 GCTTATACAGCTCGAAGTAATCAATC 58.275 38.462 0.00 0.00 46.27 2.67
2596 3460 7.644986 GCTTATACAGCTCGAAGTAATCAAT 57.355 36.000 0.00 0.00 46.27 2.57
2623 3487 3.002348 GCTTGGAAATCACGGTACATAGC 59.998 47.826 0.00 0.00 0.00 2.97
2640 3821 6.820656 ACTATGAGTCATTGTTAAGAGCTTGG 59.179 38.462 11.68 0.00 0.00 3.61
2658 3872 5.278169 GCCAACTGCCAATGATAACTATGAG 60.278 44.000 0.00 0.00 0.00 2.90
2669 3890 4.440127 GCCCGCCAACTGCCAATG 62.440 66.667 0.00 0.00 36.24 2.82
2670 3891 4.992740 TGCCCGCCAACTGCCAAT 62.993 61.111 0.00 0.00 36.24 3.16
2771 3992 4.535526 AAAAATTGACTGATTTCCCCCG 57.464 40.909 0.00 0.00 0.00 5.73
2772 3993 6.163476 GTGTAAAAATTGACTGATTTCCCCC 58.837 40.000 0.00 0.00 0.00 5.40
3026 6336 6.701400 GGCCATTTAATAAATGCAACGAGAAT 59.299 34.615 17.72 0.00 45.36 2.40
3156 6490 4.481930 TTTTGTTGAGTATGCGTTGGAG 57.518 40.909 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.