Multiple sequence alignment - TraesCS6A01G057200

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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 TraesCS6A01G057200 chr6A 100.000 4410 0 0 1 4410 30042847 30038438 0.000000e+00 8144.0
1 TraesCS6A01G057200 chr6A 86.441 2161 191 45 982 3065 30137231 30135096 0.000000e+00 2274.0
2 TraesCS6A01G057200 chr6A 96.840 1076 24 7 3065 4132 30135069 30133996 0.000000e+00 1790.0
3 TraesCS6A01G057200 chr6A 80.143 1400 222 33 1162 2535 29495982 29497351 0.000000e+00 994.0
4 TraesCS6A01G057200 chr6A 90.521 211 11 4 4120 4329 30133589 30133387 2.020000e-68 270.0
5 TraesCS6A01G057200 chr6D 89.966 3508 239 44 981 4410 27840111 27843583 0.000000e+00 4423.0
6 TraesCS6A01G057200 chr6D 91.552 1160 72 6 1721 2877 27793044 27791908 0.000000e+00 1576.0
7 TraesCS6A01G057200 chr6D 92.092 822 63 2 3079 3900 27789601 27788782 0.000000e+00 1157.0
8 TraesCS6A01G057200 chr6D 91.958 771 41 3 975 1727 27815956 27815189 0.000000e+00 1061.0
9 TraesCS6A01G057200 chr6D 79.756 1393 227 33 1162 2529 28411425 28410063 0.000000e+00 959.0
10 TraesCS6A01G057200 chr6D 78.251 1292 203 49 1164 2413 28305135 28303880 0.000000e+00 758.0
11 TraesCS6A01G057200 chr6D 75.433 1559 251 75 1159 2637 27860108 27861614 1.730000e-178 636.0
12 TraesCS6A01G057200 chr6D 81.667 180 8 8 3975 4129 27788394 27788215 4.630000e-25 126.0
13 TraesCS6A01G057200 chr6D 94.872 78 4 0 2881 2958 27791870 27791793 5.990000e-24 122.0
14 TraesCS6A01G057200 chr6D 91.667 48 4 0 3898 3945 27788541 27788494 2.850000e-07 67.6
15 TraesCS6A01G057200 chr6B 94.993 2097 95 7 975 3065 51577849 51575757 0.000000e+00 3282.0
16 TraesCS6A01G057200 chr6B 87.627 2368 178 40 977 3281 51611774 51614089 0.000000e+00 2643.0
17 TraesCS6A01G057200 chr6B 92.028 853 65 2 3065 3914 51575730 51574878 0.000000e+00 1195.0
18 TraesCS6A01G057200 chr6B 78.705 1282 203 40 1169 2413 51912422 51913670 0.000000e+00 791.0
19 TraesCS6A01G057200 chr6B 80.565 921 165 9 4 922 57989737 57988829 0.000000e+00 697.0
20 TraesCS6A01G057200 chr6B 85.904 603 70 12 2266 2856 52359987 52359388 2.900000e-176 628.0
21 TraesCS6A01G057200 chr6B 90.687 451 41 1 3495 3945 51614561 51615010 2.270000e-167 599.0
22 TraesCS6A01G057200 chr6B 82.500 560 76 12 2266 2814 51913697 51914245 5.160000e-129 472.0
23 TraesCS6A01G057200 chr6B 95.939 197 8 0 3308 3504 51614203 51614399 1.980000e-83 320.0
24 TraesCS6A01G057200 chr6B 88.776 196 18 3 4017 4208 51654486 51654681 2.050000e-58 237.0
25 TraesCS6A01G057200 chr6B 83.784 259 15 7 3975 4208 51574761 51574505 2.060000e-53 220.0
26 TraesCS6A01G057200 chrUn 80.043 1393 229 23 1162 2529 286651794 286650426 0.000000e+00 987.0
27 TraesCS6A01G057200 chr2B 89.921 635 53 4 2 635 46404622 46405246 0.000000e+00 808.0
28 TraesCS6A01G057200 chr3D 87.842 658 60 10 318 975 426115631 426114994 0.000000e+00 754.0
29 TraesCS6A01G057200 chr3D 90.462 325 30 1 2 325 426128904 426128580 1.130000e-115 427.0
30 TraesCS6A01G057200 chr3D 91.797 256 20 1 661 916 426449053 426448799 5.430000e-94 355.0
31 TraesCS6A01G057200 chr4A 82.773 238 30 10 2403 2635 720042523 720042754 7.480000e-48 202.0
32 TraesCS6A01G057200 chr5B 79.487 117 16 7 2525 2637 697094044 697093932 4.730000e-10 76.8


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 TraesCS6A01G057200 chr6A 30038438 30042847 4409 True 8144.000000 8144 100.000000 1 4410 1 chr6A.!!$R1 4409
1 TraesCS6A01G057200 chr6A 30133387 30137231 3844 True 1444.666667 2274 91.267333 982 4329 3 chr6A.!!$R2 3347
2 TraesCS6A01G057200 chr6A 29495982 29497351 1369 False 994.000000 994 80.143000 1162 2535 1 chr6A.!!$F1 1373
3 TraesCS6A01G057200 chr6D 27840111 27843583 3472 False 4423.000000 4423 89.966000 981 4410 1 chr6D.!!$F1 3429
4 TraesCS6A01G057200 chr6D 27815189 27815956 767 True 1061.000000 1061 91.958000 975 1727 1 chr6D.!!$R1 752
5 TraesCS6A01G057200 chr6D 28410063 28411425 1362 True 959.000000 959 79.756000 1162 2529 1 chr6D.!!$R3 1367
6 TraesCS6A01G057200 chr6D 28303880 28305135 1255 True 758.000000 758 78.251000 1164 2413 1 chr6D.!!$R2 1249
7 TraesCS6A01G057200 chr6D 27860108 27861614 1506 False 636.000000 636 75.433000 1159 2637 1 chr6D.!!$F2 1478
8 TraesCS6A01G057200 chr6D 27788215 27793044 4829 True 609.720000 1576 90.370000 1721 4129 5 chr6D.!!$R4 2408
9 TraesCS6A01G057200 chr6B 51574505 51577849 3344 True 1565.666667 3282 90.268333 975 4208 3 chr6B.!!$R3 3233
10 TraesCS6A01G057200 chr6B 51611774 51615010 3236 False 1187.333333 2643 91.417667 977 3945 3 chr6B.!!$F2 2968
11 TraesCS6A01G057200 chr6B 57988829 57989737 908 True 697.000000 697 80.565000 4 922 1 chr6B.!!$R2 918
12 TraesCS6A01G057200 chr6B 51912422 51914245 1823 False 631.500000 791 80.602500 1169 2814 2 chr6B.!!$F3 1645
13 TraesCS6A01G057200 chr6B 52359388 52359987 599 True 628.000000 628 85.904000 2266 2856 1 chr6B.!!$R1 590
14 TraesCS6A01G057200 chrUn 286650426 286651794 1368 True 987.000000 987 80.043000 1162 2529 1 chrUn.!!$R1 1367
15 TraesCS6A01G057200 chr2B 46404622 46405246 624 False 808.000000 808 89.921000 2 635 1 chr2B.!!$F1 633
16 TraesCS6A01G057200 chr3D 426114994 426115631 637 True 754.000000 754 87.842000 318 975 1 chr3D.!!$R1 657

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
944 946 0.044244 CCCTTCTCCTCCCCTACCAA 59.956 60.000 0.0 0.0 0.0 3.67 F
1437 1516 0.472471 TTTCCTTGCAGTCCGACCTT 59.528 50.000 0.0 0.0 0.0 3.50 F
1929 2105 1.376424 CTTCACACTCATGCGGGCT 60.376 57.895 0.0 0.0 0.0 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1929 2105 0.842030 AACCCAGCTCACCATCCTCA 60.842 55.000 0.00 0.0 0.0 3.86 R
3156 5651 1.405526 GCCACATCTTCCGCTTCTACA 60.406 52.381 0.00 0.0 0.0 2.74 R
3812 6574 3.869140 GCTCTGATCATTAGGGGAGCATG 60.869 52.174 21.22 0.0 43.6 4.06 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
55 57 1.421646 CCACCTTCCAGAGAGTTTGGT 59.578 52.381 0.00 0.00 37.02 3.67
67 69 1.873591 GAGTTTGGTGTCGCACAGATT 59.126 47.619 11.20 0.00 35.86 2.40
78 80 1.129251 CGCACAGATTGACGAATGCTT 59.871 47.619 0.00 0.00 0.00 3.91
136 138 6.455647 AGAAGTCATGATCGAACACTTACAA 58.544 36.000 0.00 0.00 0.00 2.41
181 183 1.648467 GCATGAAAGTCCAGGCCGAC 61.648 60.000 0.00 0.00 37.83 4.79
184 186 3.952628 GAAAGTCCAGGCCGACCGG 62.953 68.421 0.00 0.00 42.76 5.28
208 210 0.111089 GCACGAACAGAGAGTTTGCG 60.111 55.000 0.00 0.00 44.11 4.85
314 316 4.559704 GCTACTATGGACCATACAGAGTGC 60.560 50.000 15.21 12.76 40.29 4.40
340 342 2.270850 GTCGGGGCAGTGGCATAA 59.729 61.111 19.48 0.00 43.71 1.90
418 420 2.498644 AGAAAGCCTTTGGAGCTACC 57.501 50.000 0.00 0.00 40.49 3.18
426 428 0.248289 TTTGGAGCTACCGTACCAGC 59.752 55.000 0.00 1.48 42.61 4.85
556 558 1.662629 CGTGTGCAATGGAGTCATCTC 59.337 52.381 0.00 0.00 39.76 2.75
618 620 1.270678 GCAACGGTTTCCCTCTACACT 60.271 52.381 0.00 0.00 0.00 3.55
675 677 2.358615 GATGTCACGGCTGCCACA 60.359 61.111 20.29 15.80 0.00 4.17
688 690 3.329889 CCACAGCTGCCCCACCTA 61.330 66.667 15.27 0.00 0.00 3.08
693 695 1.616327 AGCTGCCCCACCTATCACA 60.616 57.895 0.00 0.00 0.00 3.58
721 723 2.594303 TGGACAGCAAGGGCAACG 60.594 61.111 0.00 0.00 44.61 4.10
723 725 4.043200 GACAGCAAGGGCAACGGC 62.043 66.667 0.00 0.00 44.61 5.68
741 743 2.438434 GTCACGGCCAATCCAGGG 60.438 66.667 2.24 0.00 34.01 4.45
746 748 1.076777 CGGCCAATCCAGGGTTGAT 60.077 57.895 14.76 0.00 34.01 2.57
860 862 4.293648 CCGGTGCGTGTGAGTGGA 62.294 66.667 0.00 0.00 0.00 4.02
862 864 2.094659 CGGTGCGTGTGAGTGGATC 61.095 63.158 0.00 0.00 0.00 3.36
902 904 5.230942 TCAACACTTAACTAGAGAAGCTGC 58.769 41.667 0.00 0.00 0.00 5.25
922 924 2.683933 TTCTCCACCGGCCTCCTC 60.684 66.667 0.00 0.00 0.00 3.71
923 925 3.239627 TTCTCCACCGGCCTCCTCT 62.240 63.158 0.00 0.00 0.00 3.69
924 926 2.685380 CTCCACCGGCCTCCTCTT 60.685 66.667 0.00 0.00 0.00 2.85
925 927 2.683933 TCCACCGGCCTCCTCTTC 60.684 66.667 0.00 0.00 0.00 2.87
926 928 3.787001 CCACCGGCCTCCTCTTCC 61.787 72.222 0.00 0.00 0.00 3.46
927 929 3.787001 CACCGGCCTCCTCTTCCC 61.787 72.222 0.00 0.00 0.00 3.97
928 930 4.012721 ACCGGCCTCCTCTTCCCT 62.013 66.667 0.00 0.00 0.00 4.20
929 931 2.689034 CCGGCCTCCTCTTCCCTT 60.689 66.667 0.00 0.00 0.00 3.95
930 932 2.736826 CCGGCCTCCTCTTCCCTTC 61.737 68.421 0.00 0.00 0.00 3.46
931 933 1.687493 CGGCCTCCTCTTCCCTTCT 60.687 63.158 0.00 0.00 0.00 2.85
932 934 1.681486 CGGCCTCCTCTTCCCTTCTC 61.681 65.000 0.00 0.00 0.00 2.87
933 935 1.341913 GGCCTCCTCTTCCCTTCTCC 61.342 65.000 0.00 0.00 0.00 3.71
934 936 0.326143 GCCTCCTCTTCCCTTCTCCT 60.326 60.000 0.00 0.00 0.00 3.69
935 937 1.788229 CCTCCTCTTCCCTTCTCCTC 58.212 60.000 0.00 0.00 0.00 3.71
936 938 1.691163 CCTCCTCTTCCCTTCTCCTCC 60.691 61.905 0.00 0.00 0.00 4.30
937 939 0.340208 TCCTCTTCCCTTCTCCTCCC 59.660 60.000 0.00 0.00 0.00 4.30
938 940 0.692756 CCTCTTCCCTTCTCCTCCCC 60.693 65.000 0.00 0.00 0.00 4.81
939 941 0.341609 CTCTTCCCTTCTCCTCCCCT 59.658 60.000 0.00 0.00 0.00 4.79
940 942 1.576272 CTCTTCCCTTCTCCTCCCCTA 59.424 57.143 0.00 0.00 0.00 3.53
941 943 1.291335 TCTTCCCTTCTCCTCCCCTAC 59.709 57.143 0.00 0.00 0.00 3.18
942 944 0.342313 TTCCCTTCTCCTCCCCTACC 59.658 60.000 0.00 0.00 0.00 3.18
943 945 0.858598 TCCCTTCTCCTCCCCTACCA 60.859 60.000 0.00 0.00 0.00 3.25
944 946 0.044244 CCCTTCTCCTCCCCTACCAA 59.956 60.000 0.00 0.00 0.00 3.67
945 947 1.557188 CCCTTCTCCTCCCCTACCAAA 60.557 57.143 0.00 0.00 0.00 3.28
946 948 1.560146 CCTTCTCCTCCCCTACCAAAC 59.440 57.143 0.00 0.00 0.00 2.93
947 949 2.552367 CTTCTCCTCCCCTACCAAACT 58.448 52.381 0.00 0.00 0.00 2.66
948 950 2.249309 TCTCCTCCCCTACCAAACTC 57.751 55.000 0.00 0.00 0.00 3.01
949 951 1.205055 CTCCTCCCCTACCAAACTCC 58.795 60.000 0.00 0.00 0.00 3.85
950 952 0.797579 TCCTCCCCTACCAAACTCCT 59.202 55.000 0.00 0.00 0.00 3.69
951 953 1.205055 CCTCCCCTACCAAACTCCTC 58.795 60.000 0.00 0.00 0.00 3.71
952 954 0.824759 CTCCCCTACCAAACTCCTCG 59.175 60.000 0.00 0.00 0.00 4.63
953 955 0.616679 TCCCCTACCAAACTCCTCGG 60.617 60.000 0.00 0.00 0.00 4.63
954 956 0.616679 CCCCTACCAAACTCCTCGGA 60.617 60.000 0.00 0.00 0.00 4.55
955 957 1.497161 CCCTACCAAACTCCTCGGAT 58.503 55.000 0.00 0.00 0.00 4.18
956 958 1.413077 CCCTACCAAACTCCTCGGATC 59.587 57.143 0.00 0.00 0.00 3.36
957 959 2.389715 CCTACCAAACTCCTCGGATCT 58.610 52.381 0.00 0.00 0.00 2.75
958 960 3.563223 CCTACCAAACTCCTCGGATCTA 58.437 50.000 0.00 0.00 0.00 1.98
959 961 3.570550 CCTACCAAACTCCTCGGATCTAG 59.429 52.174 0.00 0.00 0.00 2.43
960 962 3.383698 ACCAAACTCCTCGGATCTAGA 57.616 47.619 0.00 0.00 0.00 2.43
961 963 3.917300 ACCAAACTCCTCGGATCTAGAT 58.083 45.455 4.47 4.47 0.00 1.98
962 964 3.892588 ACCAAACTCCTCGGATCTAGATC 59.107 47.826 22.41 22.41 37.11 2.75
963 965 3.891977 CCAAACTCCTCGGATCTAGATCA 59.108 47.826 29.33 12.75 39.54 2.92
964 966 4.022416 CCAAACTCCTCGGATCTAGATCAG 60.022 50.000 29.33 25.95 39.54 2.90
965 967 3.433306 ACTCCTCGGATCTAGATCAGG 57.567 52.381 29.33 26.48 39.54 3.86
966 968 2.714250 ACTCCTCGGATCTAGATCAGGT 59.286 50.000 29.33 17.42 39.54 4.00
967 969 3.244770 ACTCCTCGGATCTAGATCAGGTC 60.245 52.174 29.33 14.11 39.54 3.85
998 1000 2.192624 GTCAAATGCGTGTGTGCTTTT 58.807 42.857 0.00 0.00 41.28 2.27
1030 1032 1.021390 GGCCTCGTTGATGTCCACAG 61.021 60.000 0.00 0.00 0.00 3.66
1437 1516 0.472471 TTTCCTTGCAGTCCGACCTT 59.528 50.000 0.00 0.00 0.00 3.50
1497 1580 3.181458 GCCTTGTATTAATCCTCGACCCA 60.181 47.826 0.00 0.00 0.00 4.51
1793 1933 2.827642 GGATCTGGCTGTGCTGGC 60.828 66.667 0.00 0.00 0.00 4.85
1929 2105 1.376424 CTTCACACTCATGCGGGCT 60.376 57.895 0.00 0.00 0.00 5.19
2201 2383 2.851263 TTCGACACCTACAAATGGCT 57.149 45.000 0.00 0.00 0.00 4.75
2290 2473 7.841915 AACAAAACCAGGTTACTTTTTGATG 57.158 32.000 17.22 4.78 36.91 3.07
2447 2818 7.225011 TGTGTGGTGGTGTTTATGTAATTCTA 58.775 34.615 0.00 0.00 0.00 2.10
2748 3132 4.157849 TCACCATTTGACACTGTGGTTA 57.842 40.909 13.09 0.00 42.79 2.85
2755 3139 6.405286 CCATTTGACACTGTGGTTAAAGTCAA 60.405 38.462 13.09 8.03 42.26 3.18
2913 3333 8.560355 TGTATGCACATTTAGAAGCTTAAAGA 57.440 30.769 0.00 0.00 0.00 2.52
2946 3367 8.217131 TGTTCTATTCAGTATTGCTACGTCTA 57.783 34.615 0.00 0.00 32.82 2.59
2948 3369 7.199541 TCTATTCAGTATTGCTACGTCTACC 57.800 40.000 0.00 0.00 32.82 3.18
3156 5651 3.394606 ACAAACCTGAGGATGTGGTAACT 59.605 43.478 4.99 0.00 33.17 2.24
3344 5935 9.013229 ACAAAGAACAGATTATGCAACTTCATA 57.987 29.630 0.00 0.00 0.00 2.15
3538 6300 8.375493 AGTGGACCTGTATGAGTTAATCTTTA 57.625 34.615 0.00 0.00 0.00 1.85
3617 6379 6.304624 ACAGGCATGATGAAGATACATTGAT 58.695 36.000 4.84 0.00 0.00 2.57
3626 6388 8.525316 TGATGAAGATACATTGATTTGCTTTGT 58.475 29.630 0.00 0.00 0.00 2.83
3711 6473 6.257849 GTGACGATCCTTGCTTACATATTTGA 59.742 38.462 0.00 0.00 0.00 2.69
3812 6574 7.391148 TTTGTCAGGCTGGAAATAATAAGTC 57.609 36.000 15.73 0.00 0.00 3.01
4147 7667 7.312899 ACTAACAATGGCACTTGCTAAATAAC 58.687 34.615 0.38 0.00 41.70 1.89
4233 7753 9.378504 ACAGATCTTCTCATAAGTGATAATCCT 57.621 33.333 0.00 0.00 32.98 3.24
4373 7894 4.441415 CACGCGTTTTTGGCTTTTTACATA 59.559 37.500 10.22 0.00 0.00 2.29
4374 7895 5.117897 CACGCGTTTTTGGCTTTTTACATAT 59.882 36.000 10.22 0.00 0.00 1.78
4404 7925 3.756434 CGGCTTTCCATGGTCTTTCTTAA 59.244 43.478 12.58 0.00 0.00 1.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 2.420129 GCCGTAGATGACCTCAAATGGT 60.420 50.000 0.00 0.00 44.10 3.55
55 57 1.726248 CATTCGTCAATCTGTGCGACA 59.274 47.619 0.00 0.00 36.14 4.35
67 69 3.953712 TCAGGAACTAAGCATTCGTCA 57.046 42.857 0.00 0.00 36.02 4.35
78 80 3.538591 CATGCTGCAAGATCAGGAACTA 58.461 45.455 6.36 0.00 37.93 2.24
136 138 1.724582 GGGCACGCTTGAGTTGTTGT 61.725 55.000 0.00 0.00 0.00 3.32
186 188 1.222115 AAACTCTCTGTTCGTGCGGC 61.222 55.000 0.00 0.00 38.03 6.53
193 195 1.264288 CCAACCGCAAACTCTCTGTTC 59.736 52.381 0.00 0.00 38.03 3.18
194 196 1.308998 CCAACCGCAAACTCTCTGTT 58.691 50.000 0.00 0.00 41.29 3.16
208 210 4.643387 AGCACTGCGTCCCCAACC 62.643 66.667 0.00 0.00 0.00 3.77
238 240 2.549754 CACGGAGGATTGTATGAATGGC 59.450 50.000 0.00 0.00 0.00 4.40
241 243 2.806745 CGCCACGGAGGATTGTATGAAT 60.807 50.000 0.00 0.00 41.22 2.57
267 269 2.520904 GCGAGCTTCTGATGCGGTC 61.521 63.158 9.53 3.01 35.28 4.79
426 428 0.976641 TGGAGGTAGGTCAGCACTTG 59.023 55.000 0.00 0.00 0.00 3.16
520 522 3.592814 CGGATGCGAGGGCGAGTA 61.593 66.667 0.00 0.00 44.10 2.59
556 558 1.638388 ATGTTGACAGCGACGCATGG 61.638 55.000 23.70 13.33 0.00 3.66
558 560 1.638388 CCATGTTGACAGCGACGCAT 61.638 55.000 23.70 9.74 0.00 4.73
675 677 1.616327 TGTGATAGGTGGGGCAGCT 60.616 57.895 0.00 0.00 44.66 4.24
679 681 2.203070 CGCTGTGATAGGTGGGGC 60.203 66.667 0.00 0.00 0.00 5.80
688 690 4.415150 CAGTGGGGCCGCTGTGAT 62.415 66.667 21.80 0.00 46.14 3.06
723 725 2.819595 CCTGGATTGGCCGTGACG 60.820 66.667 0.00 0.00 40.66 4.35
730 732 1.044790 CCCATCAACCCTGGATTGGC 61.045 60.000 0.00 0.00 35.70 4.52
734 736 0.552367 TGACCCCATCAACCCTGGAT 60.552 55.000 0.00 0.00 35.70 3.41
741 743 2.700773 GCGCCTTGACCCCATCAAC 61.701 63.158 0.00 0.00 42.62 3.18
746 748 4.020617 CAGAGCGCCTTGACCCCA 62.021 66.667 2.29 0.00 0.00 4.96
786 788 1.878522 CGACGCACCCTGACTATGC 60.879 63.158 0.00 0.00 35.96 3.14
860 862 9.770097 AGTGTTGATACAATAATTCTCGATGAT 57.230 29.630 0.00 0.00 35.69 2.45
902 904 2.726351 GGAGGCCGGTGGAGAAGAG 61.726 68.421 1.90 0.00 0.00 2.85
922 924 1.693083 GGTAGGGGAGGAGAAGGGAAG 60.693 61.905 0.00 0.00 0.00 3.46
923 925 0.342313 GGTAGGGGAGGAGAAGGGAA 59.658 60.000 0.00 0.00 0.00 3.97
924 926 0.858598 TGGTAGGGGAGGAGAAGGGA 60.859 60.000 0.00 0.00 0.00 4.20
925 927 0.044244 TTGGTAGGGGAGGAGAAGGG 59.956 60.000 0.00 0.00 0.00 3.95
926 928 1.560146 GTTTGGTAGGGGAGGAGAAGG 59.440 57.143 0.00 0.00 0.00 3.46
927 929 2.502130 GAGTTTGGTAGGGGAGGAGAAG 59.498 54.545 0.00 0.00 0.00 2.85
928 930 2.547990 GAGTTTGGTAGGGGAGGAGAA 58.452 52.381 0.00 0.00 0.00 2.87
929 931 1.273666 GGAGTTTGGTAGGGGAGGAGA 60.274 57.143 0.00 0.00 0.00 3.71
930 932 1.205055 GGAGTTTGGTAGGGGAGGAG 58.795 60.000 0.00 0.00 0.00 3.69
931 933 0.797579 AGGAGTTTGGTAGGGGAGGA 59.202 55.000 0.00 0.00 0.00 3.71
932 934 1.205055 GAGGAGTTTGGTAGGGGAGG 58.795 60.000 0.00 0.00 0.00 4.30
933 935 0.824759 CGAGGAGTTTGGTAGGGGAG 59.175 60.000 0.00 0.00 0.00 4.30
934 936 0.616679 CCGAGGAGTTTGGTAGGGGA 60.617 60.000 0.00 0.00 0.00 4.81
935 937 0.616679 TCCGAGGAGTTTGGTAGGGG 60.617 60.000 0.00 0.00 0.00 4.79
936 938 1.413077 GATCCGAGGAGTTTGGTAGGG 59.587 57.143 0.00 0.00 0.00 3.53
937 939 2.389715 AGATCCGAGGAGTTTGGTAGG 58.610 52.381 0.00 0.00 0.00 3.18
938 940 4.462133 TCTAGATCCGAGGAGTTTGGTAG 58.538 47.826 0.00 0.00 0.00 3.18
939 941 4.515028 TCTAGATCCGAGGAGTTTGGTA 57.485 45.455 0.00 0.00 0.00 3.25
940 942 3.383698 TCTAGATCCGAGGAGTTTGGT 57.616 47.619 0.00 0.00 0.00 3.67
941 943 3.891977 TGATCTAGATCCGAGGAGTTTGG 59.108 47.826 26.33 0.00 37.02 3.28
942 944 4.022416 CCTGATCTAGATCCGAGGAGTTTG 60.022 50.000 25.16 6.02 34.58 2.93
943 945 4.148838 CCTGATCTAGATCCGAGGAGTTT 58.851 47.826 25.16 0.00 34.58 2.66
944 946 3.139397 ACCTGATCTAGATCCGAGGAGTT 59.861 47.826 31.58 16.00 35.62 3.01
945 947 2.714250 ACCTGATCTAGATCCGAGGAGT 59.286 50.000 31.58 17.15 35.62 3.85
946 948 3.343617 GACCTGATCTAGATCCGAGGAG 58.656 54.545 31.58 21.26 35.62 3.69
947 949 2.040545 GGACCTGATCTAGATCCGAGGA 59.959 54.545 31.58 14.94 35.62 3.71
948 950 2.224892 TGGACCTGATCTAGATCCGAGG 60.225 54.545 26.59 26.59 37.16 4.63
949 951 3.147553 TGGACCTGATCTAGATCCGAG 57.852 52.381 26.33 18.50 37.02 4.63
950 952 3.816398 ATGGACCTGATCTAGATCCGA 57.184 47.619 26.33 10.81 37.02 4.55
951 953 4.767409 TGTAATGGACCTGATCTAGATCCG 59.233 45.833 26.33 20.74 37.02 4.18
952 954 6.013379 TCTGTAATGGACCTGATCTAGATCC 58.987 44.000 26.33 15.02 37.02 3.36
953 955 6.152661 CCTCTGTAATGGACCTGATCTAGATC 59.847 46.154 23.47 23.47 38.29 2.75
954 956 6.015918 CCTCTGTAATGGACCTGATCTAGAT 58.984 44.000 4.47 4.47 0.00 1.98
955 957 5.103473 ACCTCTGTAATGGACCTGATCTAGA 60.103 44.000 0.00 0.00 0.00 2.43
956 958 5.144100 ACCTCTGTAATGGACCTGATCTAG 58.856 45.833 0.00 0.00 0.00 2.43
957 959 5.141182 GACCTCTGTAATGGACCTGATCTA 58.859 45.833 0.00 0.00 0.00 1.98
958 960 3.964031 GACCTCTGTAATGGACCTGATCT 59.036 47.826 0.00 0.00 0.00 2.75
959 961 3.706594 TGACCTCTGTAATGGACCTGATC 59.293 47.826 0.00 0.00 0.00 2.92
960 962 3.724478 TGACCTCTGTAATGGACCTGAT 58.276 45.455 0.00 0.00 0.00 2.90
961 963 3.184382 TGACCTCTGTAATGGACCTGA 57.816 47.619 0.00 0.00 0.00 3.86
962 964 3.981071 TTGACCTCTGTAATGGACCTG 57.019 47.619 0.00 0.00 0.00 4.00
963 965 4.848357 CATTTGACCTCTGTAATGGACCT 58.152 43.478 0.00 0.00 0.00 3.85
964 966 3.378427 GCATTTGACCTCTGTAATGGACC 59.622 47.826 0.00 0.00 0.00 4.46
965 967 3.063997 CGCATTTGACCTCTGTAATGGAC 59.936 47.826 0.00 0.00 0.00 4.02
966 968 3.270027 CGCATTTGACCTCTGTAATGGA 58.730 45.455 0.00 0.00 0.00 3.41
967 969 3.009723 ACGCATTTGACCTCTGTAATGG 58.990 45.455 0.00 0.00 0.00 3.16
968 970 3.436704 ACACGCATTTGACCTCTGTAATG 59.563 43.478 0.00 0.00 0.00 1.90
969 971 3.436704 CACACGCATTTGACCTCTGTAAT 59.563 43.478 0.00 0.00 0.00 1.89
970 972 2.805671 CACACGCATTTGACCTCTGTAA 59.194 45.455 0.00 0.00 0.00 2.41
971 973 2.224185 ACACACGCATTTGACCTCTGTA 60.224 45.455 0.00 0.00 0.00 2.74
972 974 1.229428 CACACGCATTTGACCTCTGT 58.771 50.000 0.00 0.00 0.00 3.41
973 975 1.069703 CACACACGCATTTGACCTCTG 60.070 52.381 0.00 0.00 0.00 3.35
1015 1017 1.374125 CCGCTGTGGACATCAACGA 60.374 57.895 0.00 0.00 42.00 3.85
1030 1032 1.626654 CGAACACACCATGTCTCCGC 61.627 60.000 0.00 0.00 42.31 5.54
1278 1342 2.291043 GGAGAAGGCTGGGTCGGAA 61.291 63.158 0.00 0.00 0.00 4.30
1419 1498 0.250295 CAAGGTCGGACTGCAAGGAA 60.250 55.000 8.23 0.00 39.30 3.36
1497 1580 1.302033 CAGCAACTGGAGCCTCGTT 60.302 57.895 0.00 0.00 0.00 3.85
1659 1778 2.008543 GCTCGTCCATGTTGCATCTCA 61.009 52.381 0.00 0.00 0.00 3.27
1929 2105 0.842030 AACCCAGCTCACCATCCTCA 60.842 55.000 0.00 0.00 0.00 3.86
2290 2473 4.405358 TGAAAGGCATTCCATTAACCCATC 59.595 41.667 0.00 0.00 37.22 3.51
2466 2837 9.202273 CATGAGCTAAACTAGATATCAGAAACC 57.798 37.037 5.32 0.00 0.00 3.27
2725 3109 3.565307 ACCACAGTGTCAAATGGTGATT 58.435 40.909 1.74 0.00 43.88 2.57
2735 3119 5.250200 ACTTTGACTTTAACCACAGTGTCA 58.750 37.500 0.00 0.00 33.41 3.58
2740 3124 4.642885 TCCCAACTTTGACTTTAACCACAG 59.357 41.667 0.00 0.00 0.00 3.66
2748 3132 6.210584 TGAGAAACTTTCCCAACTTTGACTTT 59.789 34.615 0.00 0.00 0.00 2.66
2755 3139 5.449553 ACTGATGAGAAACTTTCCCAACTT 58.550 37.500 0.00 0.00 0.00 2.66
2825 3209 6.289064 AGTTTTTCAAGTAGTTGTCTCCGAT 58.711 36.000 10.08 0.00 34.98 4.18
2827 3211 5.986004 AGTTTTTCAAGTAGTTGTCTCCG 57.014 39.130 10.08 0.00 34.98 4.63
2942 3363 9.909644 TTAAGATTATTAGCAAGATCGGTAGAC 57.090 33.333 0.00 0.00 0.00 2.59
2946 3367 7.444487 GGGTTTAAGATTATTAGCAAGATCGGT 59.556 37.037 0.00 0.00 0.00 4.69
2948 3369 8.378172 TGGGTTTAAGATTATTAGCAAGATCG 57.622 34.615 0.00 0.00 0.00 3.69
2970 5268 6.687081 TTTAAACCAACTCGCTATTATGGG 57.313 37.500 0.00 0.00 35.44 4.00
3156 5651 1.405526 GCCACATCTTCCGCTTCTACA 60.406 52.381 0.00 0.00 0.00 2.74
3617 6379 7.913297 CAGCAAGTACTACTTAAACAAAGCAAA 59.087 33.333 0.00 0.00 36.03 3.68
3626 6388 5.920903 ACCACACAGCAAGTACTACTTAAA 58.079 37.500 0.00 0.00 36.03 1.52
3711 6473 5.522456 CAACAAGATGCACATAAACACTGT 58.478 37.500 0.00 0.00 0.00 3.55
3812 6574 3.869140 GCTCTGATCATTAGGGGAGCATG 60.869 52.174 21.22 0.00 43.60 4.06
4195 7715 3.873952 AGAAGATCTGTATTTCAAGCGCC 59.126 43.478 2.29 0.00 0.00 6.53
4233 7753 3.708403 AAACCTGAGATCTGCATGTCA 57.292 42.857 0.00 0.00 31.61 3.58
4276 7797 3.556365 GGAACGAGCACTCCTTAATTAGC 59.444 47.826 0.00 0.00 0.00 3.09
4382 7903 1.826385 AGAAAGACCATGGAAAGCCG 58.174 50.000 21.47 0.00 36.79 5.52
4384 7905 5.966742 AGTTAAGAAAGACCATGGAAAGC 57.033 39.130 21.47 4.62 0.00 3.51


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

AutoCloner maintained by Alex Coulton.