Multiple sequence alignment - TraesCS1D01G006400

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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 TraesCS1D01G006400 chr1D 100.000 3346 0 0 1 3346 3114190 3117535 0.000000e+00 6180
1 TraesCS1D01G006400 chr1D 96.327 844 30 1 963 1806 3588634 3589476 0.000000e+00 1386
2 TraesCS1D01G006400 chr1D 88.425 959 61 14 44 971 3586729 3587668 0.000000e+00 1110
3 TraesCS1D01G006400 chr1D 93.378 740 37 6 1796 2529 3605560 3606293 0.000000e+00 1085
4 TraesCS1D01G006400 chr1D 87.921 712 40 12 2677 3346 3608031 3608738 0.000000e+00 797
5 TraesCS1D01G006400 chr1D 95.133 226 11 0 2525 2750 3607783 3608008 1.140000e-94 357
6 TraesCS1D01G006400 chr1B 89.047 3378 261 41 44 3346 7178342 7174999 0.000000e+00 4087
7 TraesCS1D01G006400 chr1B 88.820 3381 253 54 44 3346 6316246 6319579 0.000000e+00 4034
8 TraesCS1D01G006400 chr1B 90.855 2504 161 25 881 3346 22626136 22623663 0.000000e+00 3293
9 TraesCS1D01G006400 chr1B 91.164 1822 126 16 881 2693 22411008 22409213 0.000000e+00 2440
10 TraesCS1D01G006400 chr1B 90.610 1821 132 17 881 2693 22471347 22469558 0.000000e+00 2379
11 TraesCS1D01G006400 chr1B 92.274 1605 103 7 1100 2701 7948003 7946417 0.000000e+00 2257
12 TraesCS1D01G006400 chr1B 90.844 1529 108 14 881 2402 22533731 22532228 0.000000e+00 2019
13 TraesCS1D01G006400 chr1B 89.192 1101 79 15 44 1109 7949491 7948396 0.000000e+00 1338
14 TraesCS1D01G006400 chr1B 88.294 897 67 6 2486 3346 7138070 7137176 0.000000e+00 1040
15 TraesCS1D01G006400 chr1B 93.895 475 24 4 366 840 22722562 22722093 0.000000e+00 712
16 TraesCS1D01G006400 chr1B 91.850 319 26 0 3028 3346 22409156 22408838 2.370000e-121 446
17 TraesCS1D01G006400 chr1B 90.252 318 24 1 3028 3345 22469501 22469191 3.110000e-110 409
18 TraesCS1D01G006400 chr1B 88.401 319 28 7 3028 3346 7946367 7946058 3.150000e-100 375
19 TraesCS1D01G006400 chr1B 84.672 137 15 3 373 508 22626367 22626236 7.530000e-27 132
20 TraesCS1D01G006400 chrUn 92.436 2459 145 18 881 3319 9758695 9756258 0.000000e+00 3472
21 TraesCS1D01G006400 chrUn 92.189 2138 115 21 44 2148 9832603 9834721 0.000000e+00 2976
22 TraesCS1D01G006400 chrUn 94.568 1123 46 8 1028 2148 437870860 437869751 0.000000e+00 1722
23 TraesCS1D01G006400 chrUn 92.838 1117 62 7 2149 3251 9834823 9835935 0.000000e+00 1604
24 TraesCS1D01G006400 chrUn 84.143 1009 76 28 44 1013 289156172 289157135 0.000000e+00 900
25 TraesCS1D01G006400 chrUn 93.407 455 29 1 569 1023 475697065 475696612 0.000000e+00 673
26 TraesCS1D01G006400 chrUn 86.847 555 37 11 44 567 367101162 367100613 3.720000e-164 588


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 TraesCS1D01G006400 chr1D 3114190 3117535 3345 False 6180.000000 6180 100.000000 1 3346 1 chr1D.!!$F1 3345
1 TraesCS1D01G006400 chr1D 3586729 3589476 2747 False 1248.000000 1386 92.376000 44 1806 2 chr1D.!!$F2 1762
2 TraesCS1D01G006400 chr1D 3605560 3608738 3178 False 746.333333 1085 92.144000 1796 3346 3 chr1D.!!$F3 1550
3 TraesCS1D01G006400 chr1B 7174999 7178342 3343 True 4087.000000 4087 89.047000 44 3346 1 chr1B.!!$R2 3302
4 TraesCS1D01G006400 chr1B 6316246 6319579 3333 False 4034.000000 4034 88.820000 44 3346 1 chr1B.!!$F1 3302
5 TraesCS1D01G006400 chr1B 22532228 22533731 1503 True 2019.000000 2019 90.844000 881 2402 1 chr1B.!!$R3 1521
6 TraesCS1D01G006400 chr1B 22623663 22626367 2704 True 1712.500000 3293 87.763500 373 3346 2 chr1B.!!$R8 2973
7 TraesCS1D01G006400 chr1B 22408838 22411008 2170 True 1443.000000 2440 91.507000 881 3346 2 chr1B.!!$R6 2465
8 TraesCS1D01G006400 chr1B 22469191 22471347 2156 True 1394.000000 2379 90.431000 881 3345 2 chr1B.!!$R7 2464
9 TraesCS1D01G006400 chr1B 7946058 7949491 3433 True 1323.333333 2257 89.955667 44 3346 3 chr1B.!!$R5 3302
10 TraesCS1D01G006400 chr1B 7137176 7138070 894 True 1040.000000 1040 88.294000 2486 3346 1 chr1B.!!$R1 860
11 TraesCS1D01G006400 chrUn 9756258 9758695 2437 True 3472.000000 3472 92.436000 881 3319 1 chrUn.!!$R1 2438
12 TraesCS1D01G006400 chrUn 9832603 9835935 3332 False 2290.000000 2976 92.513500 44 3251 2 chrUn.!!$F2 3207
13 TraesCS1D01G006400 chrUn 437869751 437870860 1109 True 1722.000000 1722 94.568000 1028 2148 1 chrUn.!!$R3 1120
14 TraesCS1D01G006400 chrUn 289156172 289157135 963 False 900.000000 900 84.143000 44 1013 1 chrUn.!!$F1 969
15 TraesCS1D01G006400 chrUn 367100613 367101162 549 True 588.000000 588 86.847000 44 567 1 chrUn.!!$R2 523

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
33 34 0.391661 CTCGGCCGCCAATGCTATAT 60.392 55.000 23.51 0.0 34.43 0.86 F
34 35 0.673333 TCGGCCGCCAATGCTATATG 60.673 55.000 23.51 0.0 34.43 1.78 F
36 37 1.533625 GGCCGCCAATGCTATATGAA 58.466 50.000 3.91 0.0 34.43 2.57 F
202 235 1.693606 CCCAAGGCCAGTCAAACAAAT 59.306 47.619 5.01 0.0 0.00 2.32 F
823 876 1.900237 CAGAAAAGGTAGCAATGCGC 58.100 50.000 0.00 0.0 42.91 6.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1753 3191 0.859232 CGCGAATAATCAGTTCCCGG 59.141 55.000 0.00 0.00 0.0 5.73 R
1789 3227 3.256383 TGGAACTTACAACTAGTGCGCTA 59.744 43.478 9.73 6.84 0.0 4.26 R
2057 3507 9.138596 GGTCAAGGATATTTCTCTAGTCTTAGT 57.861 37.037 0.00 0.00 0.0 2.24 R
2110 3560 1.970114 GATCCCATCATGCGCCCTG 60.970 63.158 4.18 2.19 0.0 4.45 R
2450 4011 0.536260 ACTCAGTCAGATGGCTCAGC 59.464 55.000 0.00 0.00 0.0 4.26 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
24 25 3.760035 GAGAGTTCTCGGCCGCCA 61.760 66.667 23.51 5.90 32.78 5.69
25 26 3.296709 GAGAGTTCTCGGCCGCCAA 62.297 63.158 23.51 12.80 32.78 4.52
26 27 2.125106 GAGTTCTCGGCCGCCAAT 60.125 61.111 23.51 5.33 0.00 3.16
27 28 2.436646 AGTTCTCGGCCGCCAATG 60.437 61.111 23.51 7.92 0.00 2.82
28 29 4.179579 GTTCTCGGCCGCCAATGC 62.180 66.667 23.51 4.28 0.00 3.56
29 30 4.408821 TTCTCGGCCGCCAATGCT 62.409 61.111 23.51 0.00 34.43 3.79
30 31 3.025189 TTCTCGGCCGCCAATGCTA 62.025 57.895 23.51 0.00 34.43 3.49
31 32 2.281070 CTCGGCCGCCAATGCTAT 60.281 61.111 23.51 0.00 34.43 2.97
32 33 1.005037 CTCGGCCGCCAATGCTATA 60.005 57.895 23.51 0.00 34.43 1.31
33 34 0.391661 CTCGGCCGCCAATGCTATAT 60.392 55.000 23.51 0.00 34.43 0.86
34 35 0.673333 TCGGCCGCCAATGCTATATG 60.673 55.000 23.51 0.00 34.43 1.78
35 36 0.673333 CGGCCGCCAATGCTATATGA 60.673 55.000 14.67 0.00 34.43 2.15
36 37 1.533625 GGCCGCCAATGCTATATGAA 58.466 50.000 3.91 0.00 34.43 2.57
37 38 1.885887 GGCCGCCAATGCTATATGAAA 59.114 47.619 3.91 0.00 34.43 2.69
38 39 2.493278 GGCCGCCAATGCTATATGAAAT 59.507 45.455 3.91 0.00 34.43 2.17
39 40 3.504863 GCCGCCAATGCTATATGAAATG 58.495 45.455 0.00 0.00 34.43 2.32
40 41 3.504863 CCGCCAATGCTATATGAAATGC 58.495 45.455 0.00 0.00 34.43 3.56
41 42 3.192001 CCGCCAATGCTATATGAAATGCT 59.808 43.478 0.00 0.00 34.43 3.79
42 43 4.163552 CGCCAATGCTATATGAAATGCTG 58.836 43.478 0.00 0.00 34.43 4.41
53 54 8.571336 GCTATATGAAATGCTGGTACTTCATTT 58.429 33.333 15.22 15.22 41.02 2.32
125 127 7.975866 AGAAACTGCATTGAAAATTATAGCG 57.024 32.000 0.00 0.00 0.00 4.26
129 131 6.620678 ACTGCATTGAAAATTATAGCGTTGT 58.379 32.000 0.00 0.00 0.00 3.32
143 145 3.589988 AGCGTTGTCTCCTTTATGTGAG 58.410 45.455 0.00 0.00 0.00 3.51
202 235 1.693606 CCCAAGGCCAGTCAAACAAAT 59.306 47.619 5.01 0.00 0.00 2.32
244 277 8.193438 AGCTTTTGGTCTTCTCATATATTTTGC 58.807 33.333 0.00 0.00 0.00 3.68
256 289 9.177608 TCTCATATATTTTGCAAGCAAACTACT 57.822 29.630 18.82 10.69 44.39 2.57
259 292 4.935352 ATTTTGCAAGCAAACTACTCCA 57.065 36.364 18.82 4.22 44.39 3.86
278 311 4.536765 TCCATCCATTCTTTTAAGAGGGC 58.463 43.478 7.16 0.00 36.22 5.19
336 369 3.307242 GCGTCATAGAAGGCAAGTTGTAG 59.693 47.826 4.48 0.00 0.00 2.74
441 487 6.521821 GGCCGTATTGCATAAAATATGTAACG 59.478 38.462 3.53 4.92 30.25 3.18
561 608 3.393800 TGTAGAGAAGTGTGAGCAAAGC 58.606 45.455 0.00 0.00 0.00 3.51
604 654 5.453903 GCTAAGCCTGGAATGTGAATAGAGA 60.454 44.000 0.00 0.00 0.00 3.10
605 655 5.441718 AAGCCTGGAATGTGAATAGAGAA 57.558 39.130 0.00 0.00 0.00 2.87
606 656 5.033589 AGCCTGGAATGTGAATAGAGAAG 57.966 43.478 0.00 0.00 0.00 2.85
780 833 6.955963 GCGATCAGACAGTTTAGTATTTTGTG 59.044 38.462 0.00 0.00 0.00 3.33
784 837 8.165239 TCAGACAGTTTAGTATTTTGTGCATT 57.835 30.769 0.00 0.00 0.00 3.56
800 853 5.270083 TGTGCATTACGAAGTGAAAAGTTG 58.730 37.500 0.00 0.00 45.73 3.16
823 876 1.900237 CAGAAAAGGTAGCAATGCGC 58.100 50.000 0.00 0.00 42.91 6.09
954 1008 6.433093 TCCAAGGCTAGTCAAATAAAAGGAAC 59.567 38.462 0.00 0.00 0.00 3.62
1181 2614 5.186198 ACATACCTTACTCAATGTTGCCTC 58.814 41.667 0.00 0.00 0.00 4.70
1577 3012 5.794687 TGGCATAGAATTGTGTAACTTCG 57.205 39.130 0.00 0.00 38.04 3.79
1590 3025 5.041940 GTGTAACTTCGTTGAGACTTCTGT 58.958 41.667 0.00 0.00 0.00 3.41
1591 3026 5.519206 GTGTAACTTCGTTGAGACTTCTGTT 59.481 40.000 0.00 0.00 0.00 3.16
1651 3089 4.037923 CAGGTGATGGGGATTTTTAATCCG 59.962 45.833 11.26 0.00 39.07 4.18
1721 3159 6.456449 GGCACGTGGTACTATCAAATACAAAG 60.456 42.308 18.88 0.00 0.00 2.77
1753 3191 3.129871 GTCTGCTGGCATTGAGAGTATC 58.870 50.000 0.00 0.00 0.00 2.24
1764 3202 3.314307 TGAGAGTATCCGGGAACTGAT 57.686 47.619 13.47 3.37 38.00 2.90
1789 3227 2.590092 GCATTCTACACGCCCCCT 59.410 61.111 0.00 0.00 0.00 4.79
1808 3251 3.368116 CCCTAGCGCACTAGTTGTAAGTT 60.368 47.826 11.47 0.00 43.87 2.66
1878 3321 7.678194 ATTTTTACACTTCAAATGTGTGTCG 57.322 32.000 14.40 0.00 46.54 4.35
1879 3322 4.804608 TTACACTTCAAATGTGTGTCGG 57.195 40.909 14.40 0.00 46.54 4.79
1880 3323 2.639065 ACACTTCAAATGTGTGTCGGT 58.361 42.857 0.00 0.00 45.57 4.69
1881 3324 3.799366 ACACTTCAAATGTGTGTCGGTA 58.201 40.909 0.00 0.00 45.57 4.02
1993 3441 6.796426 TGAATAGACTTGACTCAATCCTACG 58.204 40.000 0.00 0.00 0.00 3.51
2002 3450 7.392673 ACTTGACTCAATCCTACGAGTTAGTTA 59.607 37.037 0.00 0.00 42.48 2.24
2110 3560 4.028993 TCTCCCATTTTTGTACAGGTCC 57.971 45.455 0.00 0.00 0.00 4.46
2398 3955 0.476338 TGTGGCTTAGTTGGCCTCAA 59.524 50.000 3.32 0.00 46.05 3.02
2447 4008 2.526120 GCTCGTCTATGCGGCAACC 61.526 63.158 6.82 0.00 0.00 3.77
2525 4087 6.446781 AACTGAAATCATAGCAAGTGGATG 57.553 37.500 0.00 0.00 0.00 3.51
2596 5652 5.450818 TTAAATGACTAAGCCCATGGTCT 57.549 39.130 11.73 0.00 0.00 3.85
2606 5663 5.589367 AAGCCCATGGTCTTCACATATAT 57.411 39.130 11.73 0.00 0.00 0.86
2780 5949 3.560636 AGGGATATGGTAGCAACACAC 57.439 47.619 0.00 0.00 0.00 3.82
2781 5950 2.843730 AGGGATATGGTAGCAACACACA 59.156 45.455 0.00 0.00 0.00 3.72
2849 6018 6.072728 AGCTCATTAATTTGAGTAAACGCACA 60.073 34.615 8.56 0.00 44.10 4.57
2905 6076 2.489971 TGTTTCTTGTAAGGCCTGTCG 58.510 47.619 5.69 0.00 0.00 4.35
2917 6088 0.591659 GCCTGTCGAACAAAGGGAAC 59.408 55.000 6.79 0.00 0.00 3.62
2935 6106 5.542635 AGGGAACAGAATGACTACACTTGTA 59.457 40.000 0.00 0.00 39.69 2.41
3034 6251 1.059584 TGACCACTCCCTTGCCAAGA 61.060 55.000 5.89 0.00 0.00 3.02
3289 6506 9.613428 ATGAATCGAACTATTCCAACTATTTCA 57.387 29.630 0.00 0.00 35.40 2.69
3325 6545 3.459969 GTCCCCATGAATCTAAGGGTTCT 59.540 47.826 0.00 0.00 39.76 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.883732 CCGAGAACTCTCTTGCCGA 59.116 57.895 5.25 0.00 40.75 5.54
2 3 1.448717 GGCCGAGAACTCTCTTGCC 60.449 63.158 16.60 16.60 44.99 4.52
3 4 1.807573 CGGCCGAGAACTCTCTTGC 60.808 63.158 24.07 7.22 40.75 4.01
4 5 1.807573 GCGGCCGAGAACTCTCTTG 60.808 63.158 33.48 0.00 40.75 3.02
5 6 2.574399 GCGGCCGAGAACTCTCTT 59.426 61.111 33.48 0.00 40.75 2.85
6 7 3.453679 GGCGGCCGAGAACTCTCT 61.454 66.667 33.48 0.00 40.75 3.10
7 8 2.579684 ATTGGCGGCCGAGAACTCTC 62.580 60.000 33.48 8.16 39.55 3.20
8 9 2.660064 ATTGGCGGCCGAGAACTCT 61.660 57.895 33.48 2.04 0.00 3.24
9 10 2.125106 ATTGGCGGCCGAGAACTC 60.125 61.111 33.48 9.93 0.00 3.01
10 11 2.436646 CATTGGCGGCCGAGAACT 60.437 61.111 33.48 5.46 0.00 3.01
11 12 4.179579 GCATTGGCGGCCGAGAAC 62.180 66.667 33.48 16.04 0.00 3.01
21 22 4.021719 ACCAGCATTTCATATAGCATTGGC 60.022 41.667 0.00 0.00 41.61 4.52
22 23 5.717078 ACCAGCATTTCATATAGCATTGG 57.283 39.130 0.00 0.00 0.00 3.16
23 24 7.444629 AGTACCAGCATTTCATATAGCATTG 57.555 36.000 0.00 0.00 0.00 2.82
24 25 7.720957 TGAAGTACCAGCATTTCATATAGCATT 59.279 33.333 0.00 0.00 0.00 3.56
25 26 7.226441 TGAAGTACCAGCATTTCATATAGCAT 58.774 34.615 0.00 0.00 0.00 3.79
26 27 6.591001 TGAAGTACCAGCATTTCATATAGCA 58.409 36.000 0.00 0.00 0.00 3.49
27 28 7.678947 ATGAAGTACCAGCATTTCATATAGC 57.321 36.000 4.46 0.00 38.21 2.97
30 31 8.752187 ACAAAATGAAGTACCAGCATTTCATAT 58.248 29.630 14.64 3.57 40.28 1.78
31 32 8.028354 CACAAAATGAAGTACCAGCATTTCATA 58.972 33.333 14.64 0.00 40.28 2.15
32 33 6.869913 CACAAAATGAAGTACCAGCATTTCAT 59.130 34.615 14.64 8.59 40.28 2.57
33 34 6.040278 TCACAAAATGAAGTACCAGCATTTCA 59.960 34.615 14.64 6.94 40.28 2.69
34 35 6.446318 TCACAAAATGAAGTACCAGCATTTC 58.554 36.000 14.64 2.13 40.28 2.17
35 36 6.403866 TCACAAAATGAAGTACCAGCATTT 57.596 33.333 10.60 10.60 42.25 2.32
36 37 6.403866 TTCACAAAATGAAGTACCAGCATT 57.596 33.333 0.00 0.00 42.62 3.56
68 69 4.795268 TCCGTCGCTAGCATTTCTTATAG 58.205 43.478 16.45 0.00 0.00 1.31
85 87 2.129823 TTCTTCGTGTCAGTTCCGTC 57.870 50.000 0.00 0.00 0.00 4.79
125 127 7.171678 GGCATATACTCACATAAAGGAGACAAC 59.828 40.741 0.00 0.00 35.17 3.32
129 131 6.084738 AGGGCATATACTCACATAAAGGAGA 58.915 40.000 0.00 0.00 35.17 3.71
177 184 4.284550 GACTGGCCTTGGGGTGCA 62.285 66.667 3.32 0.00 34.45 4.57
178 185 3.808218 TTGACTGGCCTTGGGGTGC 62.808 63.158 3.32 0.00 34.45 5.01
179 186 1.152567 TTTGACTGGCCTTGGGGTG 60.153 57.895 3.32 0.00 34.45 4.61
181 188 0.758685 TTGTTTGACTGGCCTTGGGG 60.759 55.000 3.32 0.00 0.00 4.96
182 189 1.118838 TTTGTTTGACTGGCCTTGGG 58.881 50.000 3.32 0.00 0.00 4.12
202 235 8.189119 ACCAAAAGCTTAGTCATTTTATTCCA 57.811 30.769 0.00 0.00 0.00 3.53
223 256 7.122501 TGCTTGCAAAATATATGAGAAGACCAA 59.877 33.333 0.00 0.00 0.00 3.67
225 258 7.031226 TGCTTGCAAAATATATGAGAAGACC 57.969 36.000 0.00 0.00 0.00 3.85
244 277 4.946157 AGAATGGATGGAGTAGTTTGCTTG 59.054 41.667 0.00 0.00 0.00 4.01
256 289 4.536765 GCCCTCTTAAAAGAATGGATGGA 58.463 43.478 10.60 0.00 34.03 3.41
259 292 3.533487 AGGGCCCTCTTAAAAGAATGGAT 59.467 43.478 22.28 0.00 34.03 3.41
308 341 2.722094 TGCCTTCTATGACGCCAAATT 58.278 42.857 0.00 0.00 0.00 1.82
321 354 2.706190 ACTGGACTACAACTTGCCTTCT 59.294 45.455 0.00 0.00 0.00 2.85
441 487 3.326880 AGAATATATGGTGGTTCGGACCC 59.673 47.826 11.33 1.10 45.92 4.46
513 560 9.448587 GTACCATCCCCTAACTATATTATCCAT 57.551 37.037 0.00 0.00 0.00 3.41
514 561 8.639200 AGTACCATCCCCTAACTATATTATCCA 58.361 37.037 0.00 0.00 0.00 3.41
531 578 4.705507 TCACACTTCTCTACAGTACCATCC 59.294 45.833 0.00 0.00 0.00 3.51
561 608 1.272781 CTTCGGCTTCTCTTAGCACG 58.727 55.000 0.00 0.00 43.02 5.34
604 654 6.041979 TGCAAGAATTTTCCCTTCTTTAGCTT 59.958 34.615 0.00 0.00 40.16 3.74
605 655 5.539955 TGCAAGAATTTTCCCTTCTTTAGCT 59.460 36.000 0.00 0.00 40.16 3.32
606 656 5.783111 TGCAAGAATTTTCCCTTCTTTAGC 58.217 37.500 0.00 0.00 40.16 3.09
720 773 0.539986 TGGCCCCTACACGAGATTTC 59.460 55.000 0.00 0.00 0.00 2.17
756 809 6.955963 GCACAAAATACTAAACTGTCTGATCG 59.044 38.462 0.00 0.00 0.00 3.69
780 833 4.675114 CCACAACTTTTCACTTCGTAATGC 59.325 41.667 0.00 0.00 0.00 3.56
784 837 3.271729 TGCCACAACTTTTCACTTCGTA 58.728 40.909 0.00 0.00 0.00 3.43
800 853 2.672195 GCATTGCTACCTTTTCTGCCAC 60.672 50.000 0.16 0.00 0.00 5.01
954 1008 6.149308 TGCAGTCCATACAGTTAGTCATTTTG 59.851 38.462 0.00 0.00 0.00 2.44
966 1020 8.501580 CAAAAGATATATGTGCAGTCCATACAG 58.498 37.037 0.00 0.00 0.00 2.74
1181 2614 2.178912 TTAGCTCCTTTTCACACGGG 57.821 50.000 0.00 0.00 0.00 5.28
1598 3033 3.807209 GCTCCCTTGAAGCTAGTTCACAA 60.807 47.826 7.10 3.98 45.23 3.33
1651 3089 1.955458 TAATGGCCCATTCCCCCACC 61.955 60.000 13.36 0.00 35.54 4.61
1753 3191 0.859232 CGCGAATAATCAGTTCCCGG 59.141 55.000 0.00 0.00 0.00 5.73
1789 3227 3.256383 TGGAACTTACAACTAGTGCGCTA 59.744 43.478 9.73 6.84 0.00 4.26
2057 3507 9.138596 GGTCAAGGATATTTCTCTAGTCTTAGT 57.861 37.037 0.00 0.00 0.00 2.24
2110 3560 1.970114 GATCCCATCATGCGCCCTG 60.970 63.158 4.18 2.19 0.00 4.45
2265 3822 6.091849 CGGAAACATGGATAATCAGCTCATAG 59.908 42.308 0.00 0.00 0.00 2.23
2368 3925 4.150897 ACTAAGCCACACTTTTCTCACA 57.849 40.909 0.00 0.00 39.97 3.58
2450 4011 0.536260 ACTCAGTCAGATGGCTCAGC 59.464 55.000 0.00 0.00 0.00 4.26
2549 5605 1.939934 TCTTGTTTGACTGACCTTGCG 59.060 47.619 0.00 0.00 0.00 4.85
2606 5663 6.582636 ACAGAAGAGTAGTTCAATCACAACA 58.417 36.000 0.00 0.00 0.00 3.33
2645 5702 4.262617 CGAGATCTATTAGGATGACCCGA 58.737 47.826 0.00 0.00 40.87 5.14
2842 6011 6.262049 TGCATCAAATATAATACCTGTGCGTT 59.738 34.615 0.00 0.00 0.00 4.84
2905 6076 5.763204 TGTAGTCATTCTGTTCCCTTTGTTC 59.237 40.000 0.00 0.00 0.00 3.18
2988 6159 1.754803 TGGATGGCTAAATCGACGAGT 59.245 47.619 3.01 0.00 0.00 4.18
3276 6493 9.685276 ATGTCATGTCTTATGAAATAGTTGGAA 57.315 29.630 0.00 0.00 0.00 3.53


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

AutoCloner maintained by Alex Coulton.