Multiple sequence alignment - TraesCS3D01G076700

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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 TraesCS3D01G076700 chr3D 100.000 8514 0 0 1 8514 37242950 37251463 0.000000e+00 15723.0
1 TraesCS3D01G076700 chr3D 97.498 4597 81 14 3943 8514 37269403 37273990 0.000000e+00 7821.0
2 TraesCS3D01G076700 chr3D 93.799 3451 155 18 486 3922 37285163 37288568 0.000000e+00 5132.0
3 TraesCS3D01G076700 chr3D 98.344 2416 37 3 1 2416 37265547 37267959 0.000000e+00 4237.0
4 TraesCS3D01G076700 chr3D 94.134 2131 98 13 3943 6065 37452090 37449979 0.000000e+00 3217.0
5 TraesCS3D01G076700 chr3D 94.322 1673 86 6 5285 6949 37442307 37440636 0.000000e+00 2555.0
6 TraesCS3D01G076700 chr3D 96.365 1513 36 3 2411 3922 37267922 37269416 0.000000e+00 2471.0
7 TraesCS3D01G076700 chr3D 88.591 2051 141 28 422 2416 37455544 37453531 0.000000e+00 2405.0
8 TraesCS3D01G076700 chr3D 97.714 1356 27 3 3943 5294 37288555 37289910 0.000000e+00 2329.0
9 TraesCS3D01G076700 chr3D 91.958 1517 89 7 2411 3926 37546660 37545176 0.000000e+00 2095.0
10 TraesCS3D01G076700 chr3D 89.655 1682 116 15 762 2416 37548273 37546623 0.000000e+00 2089.0
11 TraesCS3D01G076700 chr3D 89.311 1684 120 18 762 2416 37534705 37533053 0.000000e+00 2058.0
12 TraesCS3D01G076700 chr3D 91.365 1517 101 13 2411 3922 37453568 37452077 0.000000e+00 2049.0
13 TraesCS3D01G076700 chr3D 94.490 1089 44 5 3943 5027 37545193 37544117 0.000000e+00 1664.0
14 TraesCS3D01G076700 chr3D 88.487 1216 98 16 7318 8493 37292528 37293741 0.000000e+00 1432.0
15 TraesCS3D01G076700 chr3D 88.996 1136 117 8 5695 6826 37526975 37525844 0.000000e+00 1399.0
16 TraesCS3D01G076700 chr3D 89.711 1108 95 8 7407 8496 37495456 37494350 0.000000e+00 1397.0
17 TraesCS3D01G076700 chr3D 88.908 1136 118 7 5695 6826 37540844 37539713 0.000000e+00 1393.0
18 TraesCS3D01G076700 chr3D 91.879 825 47 10 7582 8388 37440042 37439220 0.000000e+00 1134.0
19 TraesCS3D01G076700 chr3D 93.266 594 30 1 5093 5686 37532843 37532260 0.000000e+00 867.0
20 TraesCS3D01G076700 chr3D 95.572 542 21 1 6953 7491 37440601 37440060 0.000000e+00 865.0
21 TraesCS3D01G076700 chr3D 78.668 961 170 14 7559 8496 37489277 37488329 2.630000e-169 606.0
22 TraesCS3D01G076700 chr3D 78.361 952 171 16 7559 8487 37364531 37365470 1.230000e-162 584.0
23 TraesCS3D01G076700 chr3D 90.291 309 25 3 116 420 37455895 37455588 4.790000e-107 399.0
24 TraesCS3D01G076700 chr3D 89.644 309 24 4 116 420 37550321 37550017 3.730000e-103 387.0
25 TraesCS3D01G076700 chr3D 89.320 309 25 3 116 420 38107704 38107400 1.730000e-101 381.0
26 TraesCS3D01G076700 chr3D 96.403 139 5 0 4970 5108 37532995 37532857 6.650000e-56 230.0
27 TraesCS3D01G076700 chr3D 79.848 263 37 9 7137 7386 37525192 37524933 2.440000e-40 178.0
28 TraesCS3D01G076700 chr3D 79.848 263 37 9 7137 7386 37539061 37538802 2.440000e-40 178.0
29 TraesCS3D01G076700 chr3D 91.935 124 8 1 3 126 37553665 37553544 1.140000e-38 172.0
30 TraesCS3D01G076700 chr3D 95.050 101 5 0 2411 2511 37533090 37532990 8.850000e-35 159.0
31 TraesCS3D01G076700 chr3D 87.597 129 11 2 1 126 37459182 37459056 2.480000e-30 145.0
32 TraesCS3D01G076700 chr3D 83.969 131 15 2 642 772 37549759 37549635 4.170000e-23 121.0
33 TraesCS3D01G076700 chr3D 82.803 157 6 9 431 566 37549961 37549805 4.170000e-23 121.0
34 TraesCS3D01G076700 chr3D 83.206 131 16 2 642 772 38107142 38107018 1.940000e-21 115.0
35 TraesCS3D01G076700 chr3D 94.667 75 3 1 492 566 38107261 38107188 1.940000e-21 115.0
36 TraesCS3D01G076700 chr3D 92.453 53 3 1 7050 7102 37290479 37290530 3.300000e-09 75.0
37 TraesCS3D01G076700 chr3D 97.297 37 1 0 461 497 37285116 37285152 7.130000e-06 63.9
38 TraesCS3D01G076700 chr3D 100.000 30 0 0 7050 7079 37525677 37525648 1.000000e-03 56.5
39 TraesCS3D01G076700 chr3D 100.000 30 0 0 7050 7079 37539546 37539517 1.000000e-03 56.5
40 TraesCS3D01G076700 chr3A 92.251 3549 187 29 431 3922 47579831 47583348 0.000000e+00 4950.0
41 TraesCS3D01G076700 chr3A 92.964 3340 177 21 612 3922 47551522 47554832 0.000000e+00 4813.0
42 TraesCS3D01G076700 chr3A 95.329 2997 120 10 3963 6949 47583529 47586515 0.000000e+00 4741.0
43 TraesCS3D01G076700 chr3A 94.079 3023 145 18 3943 6946 47554819 47557826 0.000000e+00 4560.0
44 TraesCS3D01G076700 chr3A 93.878 3022 146 19 3943 6946 47527131 47530131 0.000000e+00 4519.0
45 TraesCS3D01G076700 chr3A 94.813 2082 79 6 1 2053 47523292 47525373 0.000000e+00 3219.0
46 TraesCS3D01G076700 chr3A 91.467 1043 62 7 2887 3922 47526122 47527144 0.000000e+00 1408.0
47 TraesCS3D01G076700 chr3A 94.195 758 42 1 2091 2848 47525371 47526126 0.000000e+00 1155.0
48 TraesCS3D01G076700 chr3A 92.121 825 43 12 7582 8388 47587109 47587929 0.000000e+00 1144.0
49 TraesCS3D01G076700 chr3A 96.310 542 17 1 6953 7491 47586550 47587091 0.000000e+00 887.0
50 TraesCS3D01G076700 chr3A 89.642 531 30 7 6953 7476 47558260 47558772 0.000000e+00 652.0
51 TraesCS3D01G076700 chr3A 89.603 529 32 7 6953 7476 47530175 47530685 0.000000e+00 651.0
52 TraesCS3D01G076700 chr3A 94.177 395 20 2 6558 6949 47557831 47558225 4.400000e-167 599.0
53 TraesCS3D01G076700 chr3A 86.620 426 49 4 3 420 47544602 47545027 1.670000e-126 464.0
54 TraesCS3D01G076700 chr3A 87.540 313 31 4 116 420 47579463 47579775 1.050000e-93 355.0
55 TraesCS3D01G076700 chr3A 95.522 67 3 0 431 497 47545083 47545149 3.250000e-19 108.0
56 TraesCS3D01G076700 chr3A 90.278 72 4 1 499 567 47545173 47545244 3.270000e-14 91.6
57 TraesCS3D01G076700 chr3B 91.277 3554 197 36 421 3922 59749033 59752525 0.000000e+00 4741.0
58 TraesCS3D01G076700 chr3B 93.365 3135 153 30 3943 7057 59752512 59755611 0.000000e+00 4586.0
59 TraesCS3D01G076700 chr3B 89.080 1456 104 18 2470 3922 59997207 59995804 0.000000e+00 1757.0
60 TraesCS3D01G076700 chr3B 93.939 1023 45 5 4773 5788 59968849 59967837 0.000000e+00 1530.0
61 TraesCS3D01G076700 chr3B 89.938 1133 95 8 7382 8496 59940945 59939814 0.000000e+00 1443.0
62 TraesCS3D01G076700 chr3B 85.714 1043 114 18 5787 6826 59962210 59961200 0.000000e+00 1068.0
63 TraesCS3D01G076700 chr3B 94.487 653 25 7 3943 4593 59995817 59995174 0.000000e+00 996.0
64 TraesCS3D01G076700 chr3B 84.024 845 92 13 7680 8487 59757532 59758370 0.000000e+00 773.0
65 TraesCS3D01G076700 chr3B 78.102 959 179 13 7559 8496 59922847 59921899 5.730000e-161 579.0
66 TraesCS3D01G076700 chr3B 86.480 429 46 5 3 420 59748563 59748990 2.170000e-125 460.0
67 TraesCS3D01G076700 chr3B 90.210 286 20 6 7084 7365 59757048 59757329 4.860000e-97 366.0
68 TraesCS3D01G076700 chr3B 84.916 179 23 4 7208 7384 59942179 59942003 2.440000e-40 178.0
69 TraesCS3D01G076700 chr3B 100.000 30 0 0 7050 7079 59958703 59958674 1.000000e-03 56.5


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 TraesCS3D01G076700 chr3D 37242950 37251463 8513 False 15723.000000 15723 100.000000 1 8514 1 chr3D.!!$F1 8513
1 TraesCS3D01G076700 chr3D 37265547 37273990 8443 False 4843.000000 7821 97.402333 1 8514 3 chr3D.!!$F3 8513
2 TraesCS3D01G076700 chr3D 37285116 37293741 8625 False 1806.380000 5132 93.950000 461 8493 5 chr3D.!!$F4 8032
3 TraesCS3D01G076700 chr3D 37449979 37459182 9203 True 1643.000000 3217 90.395600 1 6065 5 chr3D.!!$R4 6064
4 TraesCS3D01G076700 chr3D 37439220 37442307 3087 True 1518.000000 2555 93.924333 5285 8388 3 chr3D.!!$R3 3103
5 TraesCS3D01G076700 chr3D 37494350 37495456 1106 True 1397.000000 1397 89.711000 7407 8496 1 chr3D.!!$R2 1089
6 TraesCS3D01G076700 chr3D 37532260 37534705 2445 True 828.500000 2058 93.507500 762 5686 4 chr3D.!!$R6 4924
7 TraesCS3D01G076700 chr3D 37538802 37553665 14863 True 827.650000 2095 89.321000 3 7386 10 chr3D.!!$R7 7383
8 TraesCS3D01G076700 chr3D 37488329 37489277 948 True 606.000000 606 78.668000 7559 8496 1 chr3D.!!$R1 937
9 TraesCS3D01G076700 chr3D 37364531 37365470 939 False 584.000000 584 78.361000 7559 8487 1 chr3D.!!$F2 928
10 TraesCS3D01G076700 chr3D 37524933 37526975 2042 True 544.500000 1399 89.614667 5695 7386 3 chr3D.!!$R5 1691
11 TraesCS3D01G076700 chr3D 38107018 38107704 686 True 203.666667 381 89.064333 116 772 3 chr3D.!!$R8 656
12 TraesCS3D01G076700 chr3A 47551522 47558772 7250 False 2656.000000 4813 92.715500 612 7476 4 chr3A.!!$F3 6864
13 TraesCS3D01G076700 chr3A 47579463 47587929 8466 False 2415.400000 4950 92.710200 116 8388 5 chr3A.!!$F4 8272
14 TraesCS3D01G076700 chr3A 47523292 47530685 7393 False 2190.400000 4519 92.791200 1 7476 5 chr3A.!!$F1 7475
15 TraesCS3D01G076700 chr3A 47544602 47545244 642 False 221.200000 464 90.806667 3 567 3 chr3A.!!$F2 564
16 TraesCS3D01G076700 chr3B 59748563 59758370 9807 False 2185.200000 4741 89.071200 3 8487 5 chr3B.!!$F1 8484
17 TraesCS3D01G076700 chr3B 59967837 59968849 1012 True 1530.000000 1530 93.939000 4773 5788 1 chr3B.!!$R2 1015
18 TraesCS3D01G076700 chr3B 59995174 59997207 2033 True 1376.500000 1757 91.783500 2470 4593 2 chr3B.!!$R5 2123
19 TraesCS3D01G076700 chr3B 59939814 59942179 2365 True 810.500000 1443 87.427000 7208 8496 2 chr3B.!!$R3 1288
20 TraesCS3D01G076700 chr3B 59921899 59922847 948 True 579.000000 579 78.102000 7559 8496 1 chr3B.!!$R1 937
21 TraesCS3D01G076700 chr3B 59958674 59962210 3536 True 562.250000 1068 92.857000 5787 7079 2 chr3B.!!$R4 1292

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
210 3450 0.103937 CTTGACCGCCTTGGCAAAAA 59.896 50.000 12.45 0.0 43.94 1.94 F
251 3495 2.249844 ACTCGAAATGAAACCGTGGT 57.750 45.000 0.00 0.0 0.00 4.16 F
1312 6042 0.035458 GGCTTGGATCGGGGATACAG 59.965 60.000 0.00 0.0 34.07 2.74 F
1625 6357 2.869233 AAGCAAATGGACACACACAC 57.131 45.000 0.00 0.0 0.00 3.82 F
2596 7380 1.762957 AGTCAAGTAGGCACACACACT 59.237 47.619 0.00 0.0 0.00 3.55 F
3604 8465 5.243981 TGGTGTGGCAATTTGGAAAATATG 58.756 37.500 0.00 0.0 0.00 1.78 F
4494 9504 2.031120 TGTGAAGAACTTGCCAAAGGG 58.969 47.619 0.00 0.0 37.76 3.95 F
5732 13349 1.267806 GTCAGTTCTACGTCGGTCCAA 59.732 52.381 0.00 0.0 0.00 3.53 F
6527 14227 0.179171 ATACTGTTGACCTCGCGTCG 60.179 55.000 5.77 0.0 45.23 5.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1086 5802 1.141665 CACGCCATCATCGAGGTCA 59.858 57.895 0.00 0.00 0.00 4.02 R
1592 6323 5.048643 TCCATTTGCTTTTGCCAATCATTTG 60.049 36.000 0.00 0.00 46.87 2.32 R
2418 7199 2.871022 CTGCTGATTCCATTCTCTTCCG 59.129 50.000 0.00 0.00 0.00 4.30 R
3604 8465 3.077359 CACATTCAGTTCCCTCCTGTTC 58.923 50.000 0.00 0.00 0.00 3.18 R
4494 9504 4.142730 GCAGAAGGTCATTGTGAGTGAATC 60.143 45.833 0.00 0.00 34.07 2.52 R
5023 10035 4.206200 CACGTTTGCATTCAACTAAACCAC 59.794 41.667 0.00 0.00 31.20 4.16 R
5732 13349 1.001641 GGAACATGCCAGGCACTCT 60.002 57.895 19.10 2.98 43.04 3.24 R
6612 14712 1.296715 CCGGAGCAAGGTTAGCACT 59.703 57.895 0.00 0.00 0.00 4.40 R
7665 22528 1.709147 GAGCTGGCATTGCTACACCG 61.709 60.000 8.82 0.00 41.30 4.94 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
210 3450 0.103937 CTTGACCGCCTTGGCAAAAA 59.896 50.000 12.45 0.00 43.94 1.94
251 3495 2.249844 ACTCGAAATGAAACCGTGGT 57.750 45.000 0.00 0.00 0.00 4.16
258 3502 2.589442 GAAACCGTGGTGGCGACA 60.589 61.111 0.00 0.00 43.94 4.35
600 3925 7.657761 CCAGTTTAGTATCTCTCTCTCTCTCTC 59.342 44.444 0.00 0.00 0.00 3.20
719 4046 5.277250 TGTGGACCCAATCAATCTCTAGTA 58.723 41.667 0.00 0.00 0.00 1.82
869 5577 4.302455 CATCCAAGAGCGTTCACCTATAG 58.698 47.826 1.01 0.00 0.00 1.31
1086 5802 2.550101 GGCCTCGCTATACGTCGGT 61.550 63.158 0.00 0.00 44.19 4.69
1312 6042 0.035458 GGCTTGGATCGGGGATACAG 59.965 60.000 0.00 0.00 34.07 2.74
1592 6323 2.885894 AGAATCGGACTCGGAATAGGAC 59.114 50.000 0.00 0.00 36.95 3.85
1625 6357 2.869233 AAGCAAATGGACACACACAC 57.131 45.000 0.00 0.00 0.00 3.82
1836 6580 4.574828 TGTTTGTGTCTTAGTGAAAGGCTC 59.425 41.667 0.00 0.00 40.67 4.70
2271 7019 8.677300 CGATTAGGAAGAGAATGGAATTTTGAA 58.323 33.333 0.00 0.00 36.07 2.69
2418 7199 6.690194 ATGGAATCAGCAGTTTGTAGATTC 57.310 37.500 0.00 0.00 42.21 2.52
2596 7380 1.762957 AGTCAAGTAGGCACACACACT 59.237 47.619 0.00 0.00 0.00 3.55
2684 7470 8.873215 ATTGTTGATGTCTATCTTACTTACGG 57.127 34.615 0.00 0.00 34.31 4.02
2945 7779 6.910536 ATATGTCAGAATCCGACTCAAAAC 57.089 37.500 0.00 0.00 34.37 2.43
3212 8054 7.715249 CGGGAATTAAGAACATAAGAGAATGGA 59.285 37.037 0.00 0.00 0.00 3.41
3213 8055 9.408648 GGGAATTAAGAACATAAGAGAATGGAA 57.591 33.333 0.00 0.00 0.00 3.53
3221 8063 9.829507 AGAACATAAGAGAATGGAAGACATAAG 57.170 33.333 0.00 0.00 39.40 1.73
3222 8064 9.823647 GAACATAAGAGAATGGAAGACATAAGA 57.176 33.333 0.00 0.00 39.40 2.10
3223 8065 9.829507 AACATAAGAGAATGGAAGACATAAGAG 57.170 33.333 0.00 0.00 39.40 2.85
3224 8066 9.206690 ACATAAGAGAATGGAAGACATAAGAGA 57.793 33.333 0.00 0.00 39.40 3.10
3227 8069 8.961294 AAGAGAATGGAAGACATAAGAGAATG 57.039 34.615 0.00 0.00 39.40 2.67
3228 8070 7.507829 AGAGAATGGAAGACATAAGAGAATGG 58.492 38.462 0.00 0.00 39.40 3.16
3604 8465 5.243981 TGGTGTGGCAATTTGGAAAATATG 58.756 37.500 0.00 0.00 0.00 1.78
3880 8743 6.923508 TGTTCGATGAACATCCTGTCATATAC 59.076 38.462 8.21 0.00 45.88 1.47
4318 9322 6.206048 ACTTTAACGGTCAATCAAAAGGGTAG 59.794 38.462 0.00 0.00 0.00 3.18
4494 9504 2.031120 TGTGAAGAACTTGCCAAAGGG 58.969 47.619 0.00 0.00 37.76 3.95
5732 13349 1.267806 GTCAGTTCTACGTCGGTCCAA 59.732 52.381 0.00 0.00 0.00 3.53
5762 13379 1.703411 CATGTTCCCACCACAGGTTT 58.297 50.000 0.00 0.00 31.02 3.27
5765 13382 2.128535 TGTTCCCACCACAGGTTTCTA 58.871 47.619 0.00 0.00 31.02 2.10
5917 13535 8.084985 TCAATCTACAACCACAGGTATTATGA 57.915 34.615 0.00 0.00 33.12 2.15
6005 13624 0.185901 ATCCAGCCGTGCCCATATTT 59.814 50.000 0.00 0.00 0.00 1.40
6158 13779 3.115892 CGGGCTTCGCGCAAACTA 61.116 61.111 8.75 0.00 41.67 2.24
6224 13846 5.720041 ACCACCACTGCTATAGTTTCTTCTA 59.280 40.000 0.84 0.00 37.60 2.10
6527 14227 0.179171 ATACTGTTGACCTCGCGTCG 60.179 55.000 5.77 0.00 45.23 5.12
6612 14712 2.049156 CGAGTGCTTCCGCTGACA 60.049 61.111 0.00 0.00 36.97 3.58
7138 19341 6.875972 ACTAATGTTCAACTCATCTACCCT 57.124 37.500 0.00 0.00 0.00 4.34
7646 22509 3.181526 GCTCAATGAAGTCGTTGCAGTAG 60.182 47.826 8.16 2.81 41.39 2.57
7665 22528 0.875474 GATCTTGAGCTCCTCGCAGC 60.875 60.000 12.15 0.00 42.61 5.25
7854 22717 0.320697 GACAAAGTGGAGTACGGCCT 59.679 55.000 0.00 0.00 0.00 5.19
7938 22801 3.119602 TGTTTCGTATAGAAGCAGCGACT 60.120 43.478 0.00 0.00 43.57 4.18
8178 23043 1.668419 ATGTATCGGGACTTTGCAGC 58.332 50.000 0.00 0.00 0.00 5.25
8241 23123 4.566545 ATTCAACAAAGCACAATCGACA 57.433 36.364 0.00 0.00 0.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
251 3495 1.544691 GAAACTAGTCCTCTGTCGCCA 59.455 52.381 0.00 0.00 0.00 5.69
258 3502 3.012959 TCATCCAGGGAAACTAGTCCTCT 59.987 47.826 0.00 0.00 37.85 3.69
600 3925 8.207545 AGATACTAAACTAGATTCCCAGCAAAG 58.792 37.037 0.00 0.00 0.00 2.77
648 3973 2.421388 CGATCAGTTTCCAGGGCCATAA 60.421 50.000 6.18 0.00 0.00 1.90
748 4075 6.261118 GCATTAATTTTGTGCTCGAGAAGAT 58.739 36.000 18.75 0.00 36.02 2.40
869 5577 1.817099 CATCGAGCAGGGGTGCTTC 60.817 63.158 0.64 0.00 46.36 3.86
1086 5802 1.141665 CACGCCATCATCGAGGTCA 59.858 57.895 0.00 0.00 0.00 4.02
1592 6323 5.048643 TCCATTTGCTTTTGCCAATCATTTG 60.049 36.000 0.00 0.00 46.87 2.32
1625 6357 5.289675 TCAAAACACGTTTAATTGCAACCAG 59.710 36.000 0.00 0.00 31.63 4.00
1836 6580 8.437360 TCATAATAAACACAAGCAGTCTATGG 57.563 34.615 0.00 0.00 0.00 2.74
2418 7199 2.871022 CTGCTGATTCCATTCTCTTCCG 59.129 50.000 0.00 0.00 0.00 4.30
2684 7470 5.233476 TGACGATTCAATCCAAGTATTACGC 59.767 40.000 0.00 0.00 0.00 4.42
2945 7779 8.472683 TTGCTTTTTCAAAATAATATGTCCGG 57.527 30.769 0.00 0.00 0.00 5.14
3212 8054 7.344352 AGCTCTACTTCCATTCTCTTATGTCTT 59.656 37.037 0.00 0.00 0.00 3.01
3213 8055 6.838612 AGCTCTACTTCCATTCTCTTATGTCT 59.161 38.462 0.00 0.00 0.00 3.41
3214 8056 7.049799 AGCTCTACTTCCATTCTCTTATGTC 57.950 40.000 0.00 0.00 0.00 3.06
3215 8057 7.430760 AAGCTCTACTTCCATTCTCTTATGT 57.569 36.000 0.00 0.00 30.77 2.29
3216 8058 9.823647 TTTAAGCTCTACTTCCATTCTCTTATG 57.176 33.333 0.00 0.00 39.97 1.90
3219 8061 9.746457 AAATTTAAGCTCTACTTCCATTCTCTT 57.254 29.630 0.00 0.00 39.97 2.85
3220 8062 9.389755 GAAATTTAAGCTCTACTTCCATTCTCT 57.610 33.333 0.00 0.00 39.97 3.10
3221 8063 8.616942 GGAAATTTAAGCTCTACTTCCATTCTC 58.383 37.037 8.79 0.00 39.97 2.87
3222 8064 8.332487 AGGAAATTTAAGCTCTACTTCCATTCT 58.668 33.333 13.78 0.00 39.97 2.40
3223 8065 8.512966 AGGAAATTTAAGCTCTACTTCCATTC 57.487 34.615 13.78 0.82 39.97 2.67
3224 8066 8.885693 AAGGAAATTTAAGCTCTACTTCCATT 57.114 30.769 13.78 5.84 39.97 3.16
3225 8067 9.397280 GTAAGGAAATTTAAGCTCTACTTCCAT 57.603 33.333 13.78 7.17 39.97 3.41
3226 8068 7.548075 CGTAAGGAAATTTAAGCTCTACTTCCA 59.452 37.037 13.78 0.00 39.97 3.53
3227 8069 7.763071 TCGTAAGGAAATTTAAGCTCTACTTCC 59.237 37.037 0.00 0.00 37.67 3.46
3228 8070 8.699283 TCGTAAGGAAATTTAAGCTCTACTTC 57.301 34.615 0.00 0.00 37.67 3.01
3460 8319 5.943416 TCAACTCCCAAATGTTACACCATAG 59.057 40.000 0.00 0.00 0.00 2.23
3515 8375 6.449635 ACTAGAAAACAAAGTGCATTGACA 57.550 33.333 7.04 0.00 34.38 3.58
3519 8379 8.254508 TGGTTAAACTAGAAAACAAAGTGCATT 58.745 29.630 0.00 0.00 0.00 3.56
3549 8409 5.475719 AGGCATCAATGAAACAACAATGAG 58.524 37.500 0.00 0.00 34.00 2.90
3604 8465 3.077359 CACATTCAGTTCCCTCCTGTTC 58.923 50.000 0.00 0.00 0.00 3.18
3754 8617 4.271049 CAGCGTGGAGTATGAATAAACTGG 59.729 45.833 0.00 0.00 0.00 4.00
3880 8743 4.634004 ACCACGATACAACATGGTGTATTG 59.366 41.667 34.98 34.98 43.25 1.90
3961 8964 9.010029 CAGGTTAAGGTGAAAACAATAGTGTAT 57.990 33.333 0.00 0.00 36.80 2.29
4318 9322 4.827284 TCCTCTGAAAACTGAACAAATCCC 59.173 41.667 0.00 0.00 0.00 3.85
4494 9504 4.142730 GCAGAAGGTCATTGTGAGTGAATC 60.143 45.833 0.00 0.00 34.07 2.52
5023 10035 4.206200 CACGTTTGCATTCAACTAAACCAC 59.794 41.667 0.00 0.00 31.20 4.16
5391 11582 9.239551 ACTGAACAGGTTTTCTTTTAGTTAGTT 57.760 29.630 6.76 0.00 0.00 2.24
5732 13349 1.001641 GGAACATGCCAGGCACTCT 60.002 57.895 19.10 2.98 43.04 3.24
5762 13379 2.307768 CTGATACCCGAAGCCTGTAGA 58.692 52.381 0.00 0.00 0.00 2.59
5765 13382 1.264749 TGCTGATACCCGAAGCCTGT 61.265 55.000 0.00 0.00 36.05 4.00
6158 13779 7.579105 ACAGATGGAGTAGAGACAGTACTATT 58.421 38.462 0.00 0.00 30.60 1.73
6224 13846 2.779506 GAGATGTTGTTTCTCCGGGTT 58.220 47.619 0.00 0.00 34.75 4.11
6271 13968 9.593134 AAAATTTGTAACTGTGAAAATAGCACA 57.407 25.926 0.00 0.00 43.41 4.57
6527 14227 1.614413 GAGGTCGAGGATGATGGTACC 59.386 57.143 4.43 4.43 0.00 3.34
6612 14712 1.296715 CCGGAGCAAGGTTAGCACT 59.703 57.895 0.00 0.00 0.00 4.40
6996 15171 1.749063 GTTTTAGCGCCATTTAGCCCT 59.251 47.619 2.29 0.00 0.00 5.19
7152 19355 6.666546 AGGATTTTCATTGTGTCATTGAGGAT 59.333 34.615 0.00 0.00 0.00 3.24
7405 22264 5.219343 TCTTCCATGCATCTATCGACAAT 57.781 39.130 0.00 0.00 0.00 2.71
7665 22528 1.709147 GAGCTGGCATTGCTACACCG 61.709 60.000 8.82 0.00 41.30 4.94
7714 22577 2.200067 AGAATTTGCTCGCTCATCTCG 58.800 47.619 0.00 0.00 0.00 4.04
7854 22717 2.357034 GAAGGCCGTCGTGCTCAA 60.357 61.111 1.94 0.00 0.00 3.02
7938 22801 1.895231 GGCTCATCATCGCCATGCA 60.895 57.895 0.00 0.00 45.59 3.96
8178 23043 7.095523 GGTTTCAAAAGTTCATCATGGTGAATG 60.096 37.037 23.67 17.25 39.99 2.67
8220 23100 4.036734 ACTGTCGATTGTGCTTTGTTGAAT 59.963 37.500 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.