Multiple sequence alignment - TraesCS3B01G274200

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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 TraesCS3B01G274200 chr3B 100.000 6518 0 0 1 6518 441860659 441854142 0.000000e+00 12037.0
1 TraesCS3B01G274200 chr3B 97.352 5099 108 11 4 5099 442390840 442385766 0.000000e+00 8643.0
2 TraesCS3B01G274200 chr3B 97.753 1424 31 1 5095 6518 442377281 442375859 0.000000e+00 2451.0
3 TraesCS3B01G274200 chr3B 93.289 149 9 1 1088 1236 442389666 442389519 1.100000e-52 219.0
4 TraesCS3B01G274200 chr3B 91.946 149 12 0 1088 1236 441859464 441859316 6.620000e-50 209.0
5 TraesCS3B01G274200 chr3B 91.946 149 12 0 1196 1344 441859572 441859424 6.620000e-50 209.0
6 TraesCS3B01G274200 chr3B 91.781 146 12 0 1199 1344 442389771 442389626 3.080000e-48 204.0
7 TraesCS3B01G274200 chr3B 82.573 241 27 7 6246 6471 111561676 111561436 1.430000e-46 198.0
8 TraesCS3B01G274200 chr3B 91.304 92 6 2 6034 6125 596427736 596427647 2.470000e-24 124.0
9 TraesCS3B01G274200 chr3B 80.769 156 22 6 5844 5999 713874928 713874781 1.490000e-21 115.0
10 TraesCS3B01G274200 chr7D 87.384 539 42 10 6003 6518 182827670 182827135 4.350000e-166 595.0
11 TraesCS3B01G274200 chr4A 86.716 542 46 12 6000 6518 207392762 207393300 4.380000e-161 579.0
12 TraesCS3B01G274200 chr5A 86.188 543 50 12 6000 6518 591742558 591743099 1.230000e-156 564.0
13 TraesCS3B01G274200 chr4B 85.824 522 47 12 6011 6509 471878632 471879149 4.480000e-146 529.0
14 TraesCS3B01G274200 chr4B 84.568 324 42 8 1 320 195482684 195483003 1.360000e-81 315.0
15 TraesCS3B01G274200 chr4B 84.259 324 44 7 1 320 195481292 195481612 6.350000e-80 309.0
16 TraesCS3B01G274200 chr4B 83.951 324 45 7 1 320 195479901 195480221 2.950000e-78 303.0
17 TraesCS3B01G274200 chr3D 88.235 306 28 7 15 316 317406949 317406648 6.210000e-95 359.0
18 TraesCS3B01G274200 chrUn 86.174 311 36 7 17 322 258570276 258569968 4.870000e-86 329.0
19 TraesCS3B01G274200 chrUn 85.209 311 39 7 17 322 12615119 12615427 4.910000e-81 313.0
20 TraesCS3B01G274200 chrUn 80.921 152 21 3 5848 5999 326548017 326548160 5.340000e-21 113.0
21 TraesCS3B01G274200 chrUn 82.707 133 17 1 5867 5999 328301348 328301222 5.340000e-21 113.0
22 TraesCS3B01G274200 chrUn 82.707 133 17 1 5867 5999 328304316 328304190 5.340000e-21 113.0
23 TraesCS3B01G274200 chrUn 82.707 133 17 1 5867 5999 351396347 351396221 5.340000e-21 113.0
24 TraesCS3B01G274200 chrUn 80.255 157 19 9 5845 5999 238524446 238524300 2.490000e-19 108.0
25 TraesCS3B01G274200 chrUn 80.255 157 19 9 5845 5999 238538555 238538409 2.490000e-19 108.0
26 TraesCS3B01G274200 chrUn 80.255 157 19 9 5845 5999 271023327 271023181 2.490000e-19 108.0
27 TraesCS3B01G274200 chr7B 83.636 330 47 7 1 325 501563022 501563349 2.950000e-78 303.0
28 TraesCS3B01G274200 chr2A 83.692 325 43 9 2 322 719299862 719299544 1.370000e-76 298.0
29 TraesCS3B01G274200 chr2A 80.612 98 16 3 3988 4084 659889127 659889032 9.070000e-09 73.1
30 TraesCS3B01G274200 chr1D 83.838 297 24 10 6246 6518 451983311 451983607 1.800000e-65 261.0
31 TraesCS3B01G274200 chr1D 91.803 183 12 3 2833 3012 79313771 79313589 1.080000e-62 252.0
32 TraesCS3B01G274200 chr1D 90.104 192 16 3 2831 3021 475818414 475818225 5.050000e-61 246.0
33 TraesCS3B01G274200 chr1D 89.474 95 9 1 6031 6125 182615282 182615375 1.150000e-22 119.0
34 TraesCS3B01G274200 chr5D 90.476 189 14 4 2827 3012 98272159 98271972 5.050000e-61 246.0
35 TraesCS3B01G274200 chr5D 85.714 70 9 1 3996 4064 160068225 160068156 9.070000e-09 73.1
36 TraesCS3B01G274200 chr3A 90.374 187 16 2 2831 3015 546798910 546799096 1.820000e-60 244.0
37 TraesCS3B01G274200 chr4D 90.323 186 16 2 2832 3015 497016839 497017024 6.530000e-60 243.0
38 TraesCS3B01G274200 chr4D 89.119 193 16 4 2832 3021 116251597 116251787 1.090000e-57 235.0
39 TraesCS3B01G274200 chr4D 87.234 141 14 4 6185 6324 84721095 84721232 2.430000e-34 158.0
40 TraesCS3B01G274200 chr6B 89.894 188 17 2 2834 3019 157939780 157939593 2.350000e-59 241.0
41 TraesCS3B01G274200 chr1A 82.609 299 26 11 6246 6518 356332056 356331758 2.350000e-59 241.0
42 TraesCS3B01G274200 chr1A 90.526 95 8 1 6031 6125 147346780 147346873 2.470000e-24 124.0
43 TraesCS3B01G274200 chr6A 89.785 186 18 1 2831 3015 342403145 342403330 3.040000e-58 237.0
44 TraesCS3B01G274200 chr6D 89.474 114 9 3 6003 6115 76111289 76111178 2.450000e-29 141.0
45 TraesCS3B01G274200 chr2D 94.737 38 2 0 630 667 354317711 354317674 7.060000e-05 60.2
46 TraesCS3B01G274200 chr2B 100.000 29 0 0 619 647 1777349 1777377 3.000000e-03 54.7
47 TraesCS3B01G274200 chr1B 100.000 29 0 0 4259 4287 642922265 642922293 3.000000e-03 54.7


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 TraesCS3B01G274200 chr3B 441854142 441860659 6517 True 4151.666667 12037 94.630667 1 6518 3 chr3B.!!$R5 6517
1 TraesCS3B01G274200 chr3B 442385766 442390840 5074 True 3022.000000 8643 94.140667 4 5099 3 chr3B.!!$R6 5095
2 TraesCS3B01G274200 chr3B 442375859 442377281 1422 True 2451.000000 2451 97.753000 5095 6518 1 chr3B.!!$R2 1423
3 TraesCS3B01G274200 chr7D 182827135 182827670 535 True 595.000000 595 87.384000 6003 6518 1 chr7D.!!$R1 515
4 TraesCS3B01G274200 chr4A 207392762 207393300 538 False 579.000000 579 86.716000 6000 6518 1 chr4A.!!$F1 518
5 TraesCS3B01G274200 chr5A 591742558 591743099 541 False 564.000000 564 86.188000 6000 6518 1 chr5A.!!$F1 518
6 TraesCS3B01G274200 chr4B 471878632 471879149 517 False 529.000000 529 85.824000 6011 6509 1 chr4B.!!$F1 498
7 TraesCS3B01G274200 chr4B 195479901 195483003 3102 False 309.000000 315 84.259333 1 320 3 chr4B.!!$F2 319

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
384 1778 2.030805 GGATGGAAGCGATGTAAATGGC 60.031 50.000 0.00 0.0 0.00 4.40 F
1504 3053 1.039856 GGCAAAGAAGTGGAAGCCAA 58.960 50.000 0.00 0.0 41.63 4.52 F
2124 3674 2.027192 TGCCTTACAAGAGTGATGGGAC 60.027 50.000 0.00 0.0 0.00 4.46 F
3079 4924 1.867233 GACGCCTTGCATCATATCGTT 59.133 47.619 0.00 0.0 0.00 3.85 F
4593 6440 0.947244 AGTTTCTTGCAGAGCAACCG 59.053 50.000 0.00 0.0 43.99 4.44 F
4985 6832 2.075338 GCTGTCAGCAAAAGAGAGGAG 58.925 52.381 20.16 0.0 41.89 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2119 3669 1.488393 TCACATTCATATGCCGTCCCA 59.512 47.619 0.00 0.0 35.03 4.37 R
2790 4635 0.116940 ACCATCAAAAGGTGCCCCAT 59.883 50.000 0.00 0.0 38.13 4.00 R
3649 5496 3.410631 TTCATACCGAAACAGAGCCAA 57.589 42.857 0.00 0.0 0.00 4.52 R
4622 6469 1.308998 ACACTCCTCGCCAGTTTTTG 58.691 50.000 0.00 0.0 0.00 2.44 R
5508 7355 0.106149 ACCCGTGAGTTCACCTTGTC 59.894 55.000 6.68 0.0 43.66 3.18 R
5849 7696 1.308998 GGATAAACATCCCCTGTGCG 58.691 55.000 0.00 0.0 38.39 5.34 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
62 63 2.129823 ACACGAGTGTTCTACCAACG 57.870 50.000 2.62 0.00 41.83 4.10
77 78 2.485426 ACCAACGTCATGCTCTCAAATG 59.515 45.455 0.00 0.00 0.00 2.32
329 1723 6.408869 AGGGCATATTTTCAACAAAATCCAG 58.591 36.000 0.00 0.00 40.69 3.86
333 1727 7.816995 GGCATATTTTCAACAAAATCCAGTGTA 59.183 33.333 0.00 0.00 40.69 2.90
384 1778 2.030805 GGATGGAAGCGATGTAAATGGC 60.031 50.000 0.00 0.00 0.00 4.40
408 1802 2.742589 GCCCCGCTTATAGATTGCTAAC 59.257 50.000 0.00 0.00 0.00 2.34
489 1883 2.972713 GGGCTTTCTTTTCCTTTTCCCT 59.027 45.455 0.00 0.00 0.00 4.20
502 1896 8.547481 TTTCCTTTTCCCTTTTCTCTTTATGT 57.453 30.769 0.00 0.00 0.00 2.29
666 2215 7.713764 ATGTTTGTGCTTTCATAAAAGGTTC 57.286 32.000 0.00 0.00 41.87 3.62
781 2330 7.429920 TGTTTACATTTTGAAACGCTACAGTTC 59.570 33.333 0.00 0.00 38.19 3.01
907 2456 8.566260 TGACGTAAAGAGCTCTATATTAGTTCC 58.434 37.037 18.59 0.00 0.00 3.62
1071 2620 1.756950 GAGCCCCGGGGAAAATTCC 60.757 63.158 44.86 23.50 46.82 3.01
1135 2684 4.900635 TCAAAGAAGGTGAACAAGAAGC 57.099 40.909 0.00 0.00 0.00 3.86
1218 2767 1.153349 GGATCCCGAGGTTGTGCTC 60.153 63.158 0.00 0.00 0.00 4.26
1241 2790 4.966366 CGTTTCAAAGAAGCTGAACAAGAG 59.034 41.667 0.00 0.00 32.61 2.85
1279 2828 1.553248 GTACCAAAATGGGGGAAAGGC 59.447 52.381 0.87 0.00 43.37 4.35
1314 2863 1.075151 GGTCCGGGAAGAGGATCCT 60.075 63.158 16.13 16.13 40.30 3.24
1468 3017 2.933287 TGGTCGGGCAGGATGGTT 60.933 61.111 0.00 0.00 35.86 3.67
1504 3053 1.039856 GGCAAAGAAGTGGAAGCCAA 58.960 50.000 0.00 0.00 41.63 4.52
1506 3055 2.546584 GGCAAAGAAGTGGAAGCCAAAG 60.547 50.000 0.00 0.00 41.63 2.77
1554 3103 2.109126 GGTGCCAGAGGACATTCGC 61.109 63.158 0.00 0.00 0.00 4.70
1568 3117 2.353889 ACATTCGCTTGAGTGCATCATC 59.646 45.455 0.00 0.00 37.89 2.92
1625 3174 4.086457 CACAGGTTATTTTTGTAGGGCCT 58.914 43.478 12.58 12.58 0.00 5.19
1699 3248 9.793259 CCTATGGTTACACTATTTATCCATGTT 57.207 33.333 0.00 0.00 33.13 2.71
1721 3270 8.771521 TGTTGATTCAAAGGAATGGATCATAT 57.228 30.769 0.00 0.00 43.23 1.78
1780 3329 6.254281 ACAAGGAATTTTACAATCCACTCG 57.746 37.500 0.00 0.00 0.00 4.18
1793 3342 3.526931 TCCACTCGCCTCAAATTAGAG 57.473 47.619 0.00 0.00 35.39 2.43
1922 3471 5.861787 GGGTTTCATGTGTTTTTCCTATTCG 59.138 40.000 0.00 0.00 0.00 3.34
1944 3493 2.419673 TGCTATCAAACACGCAATCCTG 59.580 45.455 0.00 0.00 0.00 3.86
2119 3669 5.489792 TTCTTCTGCCTTACAAGAGTGAT 57.510 39.130 0.00 0.00 0.00 3.06
2124 3674 2.027192 TGCCTTACAAGAGTGATGGGAC 60.027 50.000 0.00 0.00 0.00 4.46
2148 3698 4.022589 GGCATATGAATGTGATCCCAACAG 60.023 45.833 6.97 0.00 35.38 3.16
2198 3748 7.809806 CCAGATGTGGTTTATGTCTTTTCTTTC 59.190 37.037 0.00 0.00 39.30 2.62
2392 4237 7.974501 TCGACAAATAATTCTACTCAGTTCCTC 59.025 37.037 0.00 0.00 0.00 3.71
2765 4610 3.142838 CCCTCGGCATTGGGCTTG 61.143 66.667 0.00 0.00 44.01 4.01
2790 4635 2.749682 CAGTGCCTGCTACCCACA 59.250 61.111 0.00 0.00 32.09 4.17
2876 4721 4.498241 CTTTTTGGGCTTCCAGAATAAGC 58.502 43.478 0.00 0.00 46.90 3.09
3079 4924 1.867233 GACGCCTTGCATCATATCGTT 59.133 47.619 0.00 0.00 0.00 3.85
3080 4925 1.867233 ACGCCTTGCATCATATCGTTC 59.133 47.619 0.00 0.00 0.00 3.95
3114 4959 2.501723 AGAACGCTCCTCCACACATATT 59.498 45.455 0.00 0.00 0.00 1.28
3115 4960 2.604046 ACGCTCCTCCACACATATTC 57.396 50.000 0.00 0.00 0.00 1.75
3199 5045 9.979578 TTTTGTAGCATTTGTATCTGAAATGTT 57.020 25.926 0.00 0.00 41.13 2.71
3598 5445 7.819900 GCCAATATACCCATAAGTCTACTTCAG 59.180 40.741 0.00 0.00 37.40 3.02
3649 5496 7.181125 ACACCCATAAGTCTACTTCAGAAAGAT 59.819 37.037 0.00 0.00 37.40 2.40
3792 5639 7.391554 TGAAAGAGGTGTAAATTCTCATCCTTG 59.608 37.037 0.00 0.00 0.00 3.61
3924 5771 5.211201 TGTGGATATTCATGGAGAGACTGA 58.789 41.667 0.00 0.00 0.00 3.41
3929 5776 4.686191 ATTCATGGAGAGACTGATGTCC 57.314 45.455 0.00 0.00 43.91 4.02
4053 5900 4.518970 GTCAATCTTAACAAACTCTGGCCA 59.481 41.667 4.71 4.71 0.00 5.36
4290 6137 6.529220 AGAGCACTATTTGGACCTGATATTC 58.471 40.000 0.00 0.00 0.00 1.75
4477 6324 3.633525 TGAATTGGGATCTTGCATAGCAC 59.366 43.478 0.00 0.00 38.71 4.40
4521 6368 9.760077 AATGACGAAAACTATACGATCCTTATT 57.240 29.630 0.00 0.00 0.00 1.40
4593 6440 0.947244 AGTTTCTTGCAGAGCAACCG 59.053 50.000 0.00 0.00 43.99 4.44
4652 6499 2.286418 GCGAGGAGTGTTTGTTTGTGAG 60.286 50.000 0.00 0.00 0.00 3.51
4676 6523 8.523915 AGAAACATTGCCAAGTATATCATCAA 57.476 30.769 0.00 0.00 0.00 2.57
4764 6611 4.380444 GGGCGCAAACATATCTTTCTGAAA 60.380 41.667 10.83 2.44 0.00 2.69
4803 6650 5.110814 TCTATGGGGTGGAATTTGTACAG 57.889 43.478 0.00 0.00 0.00 2.74
4809 6656 4.342665 GGGGTGGAATTTGTACAGTTTGAA 59.657 41.667 0.00 0.00 0.00 2.69
4857 6704 5.889289 AGTGTGTGTTGTTGGGTTAATAAGT 59.111 36.000 0.00 0.00 0.00 2.24
4870 6717 4.580580 GGTTAATAAGTGGATGCTTCCCTG 59.419 45.833 15.62 0.00 41.83 4.45
4931 6778 4.162888 TCTTTTGCTATCAGATCCTCTGCA 59.837 41.667 0.00 0.00 43.95 4.41
4985 6832 2.075338 GCTGTCAGCAAAAGAGAGGAG 58.925 52.381 20.16 0.00 41.89 3.69
5028 6875 5.502382 GCATACCGAGTACATGACAAATGTG 60.502 44.000 0.00 0.00 33.76 3.21
5100 6947 3.565214 TTCTTCGCAGGGTGCCCA 61.565 61.111 10.26 0.00 41.12 5.36
5202 7049 6.127451 GGGTTTTGAAACTGGAGAAGAGAAAA 60.127 38.462 6.57 0.00 38.89 2.29
5508 7355 4.143030 CGCATGGAATCTTATCTAAAGCCG 60.143 45.833 0.00 0.00 0.00 5.52
5534 7381 0.393132 TGAACTCACGGGTTTGTGCA 60.393 50.000 0.00 0.00 39.73 4.57
5537 7384 1.172180 ACTCACGGGTTTGTGCATGG 61.172 55.000 0.00 0.00 39.73 3.66
5686 7533 8.857098 TGTATTTTGTCTAGACTGTTACTCACT 58.143 33.333 23.01 1.15 0.00 3.41
5801 7648 1.372307 TGCACTGCAGCTAGCTTGA 59.628 52.632 16.46 3.11 45.94 3.02
5803 7650 0.167689 GCACTGCAGCTAGCTTGAAC 59.832 55.000 16.46 5.68 45.94 3.18
5813 7660 2.159787 GCTAGCTTGAACACATGTGTCG 60.160 50.000 30.64 19.29 44.13 4.35
5849 7696 0.318275 GATGACCGAGACCGATCAGC 60.318 60.000 0.00 0.00 42.37 4.26
5853 7700 2.951745 CGAGACCGATCAGCGCAC 60.952 66.667 11.47 0.00 39.11 5.34
5893 7740 6.536582 CCGAGACATCAAGATAGTTTGAACAT 59.463 38.462 0.00 0.00 40.21 2.71
6320 8170 7.393234 ACAAACTCATAAGCTTTGTTGGCTATA 59.607 33.333 3.20 0.00 39.30 1.31
6383 8244 3.376540 GCTAGTCCACGATGAGATTGTC 58.623 50.000 0.00 0.00 0.00 3.18
6396 8258 7.805071 ACGATGAGATTGTCTTTTGTTGATTTC 59.195 33.333 0.00 0.00 0.00 2.17
6405 8267 6.375736 TGTCTTTTGTTGATTTCAGTGGTGTA 59.624 34.615 0.00 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
62 63 3.425359 CCGACAACATTTGAGAGCATGAC 60.425 47.826 0.00 0.00 0.00 3.06
77 78 2.541588 GCATGACCATAATGCCGACAAC 60.542 50.000 0.00 0.00 43.78 3.32
384 1778 0.673644 CAATCTATAAGCGGGGCGGG 60.674 60.000 0.00 0.00 0.00 6.13
408 1802 2.444421 ACTGGGACCTGTAGTAGAACG 58.556 52.381 0.00 0.00 0.00 3.95
781 2330 0.437295 CGAAACACTTTAGCGACCCG 59.563 55.000 0.00 0.00 0.00 5.28
907 2456 1.447643 CTAGGCCTGGATTGGACCG 59.552 63.158 17.99 0.00 35.12 4.79
1031 2580 2.119801 TTTGCCCTTCATCAGCTCTC 57.880 50.000 0.00 0.00 0.00 3.20
1071 2620 6.942163 TTCTCCTCATCCTTATCCCTAATG 57.058 41.667 0.00 0.00 0.00 1.90
1089 2638 1.092345 GCGCAACCTCTGGATTCTCC 61.092 60.000 0.30 0.00 36.96 3.71
1098 2647 1.388547 TTGAAACAAGCGCAACCTCT 58.611 45.000 11.47 0.00 0.00 3.69
1135 2684 3.014085 TACCCGGCAGCTTCTTCCG 62.014 63.158 0.00 6.52 42.58 4.30
1218 2767 4.908736 TCTTGTTCAGCTTCTTTGAAACG 58.091 39.130 0.00 0.00 36.41 3.60
1279 2828 2.655364 CAGCCTATCCACGTCGCG 60.655 66.667 0.00 0.00 0.00 5.87
1314 2863 3.761218 TCTTTGAAACAAGCACAACCTCA 59.239 39.130 0.00 0.00 0.00 3.86
1554 3103 2.614779 ACAGTCGATGATGCACTCAAG 58.385 47.619 0.00 0.00 37.44 3.02
1568 3117 5.221891 AGCATAAGCAACAATAACAGTCG 57.778 39.130 0.00 0.00 45.49 4.18
1625 3174 8.138928 TCCTTCACTTCTCTATGAATCAAAGA 57.861 34.615 0.00 0.00 34.43 2.52
1699 3248 9.596308 AATCATATGATCCATTCCTTTGAATCA 57.404 29.630 18.44 0.00 34.81 2.57
1780 3329 9.237846 GTGCATAATAAAACTCTAATTTGAGGC 57.762 33.333 19.01 10.62 38.32 4.70
1793 3342 7.545265 TGCCTTGATCTTTGTGCATAATAAAAC 59.455 33.333 0.00 0.00 0.00 2.43
1922 3471 2.420022 AGGATTGCGTGTTTGATAGCAC 59.580 45.455 0.00 0.00 39.51 4.40
2119 3669 1.488393 TCACATTCATATGCCGTCCCA 59.512 47.619 0.00 0.00 35.03 4.37
2124 3674 2.781923 TGGGATCACATTCATATGCCG 58.218 47.619 0.00 0.00 34.10 5.69
2148 3698 6.474102 GGTTCGACTTATCAGATCTTTCACTC 59.526 42.308 0.00 0.00 0.00 3.51
2370 4215 9.582431 TTACGAGGAACTGAGTAGAATTATTTG 57.418 33.333 0.00 0.00 41.55 2.32
2456 4301 6.572167 ATTATCTAGGCTTGGTACTACGAC 57.428 41.667 0.00 0.00 0.00 4.34
2660 4505 0.464036 CATCACCAAGGGCTACGCTA 59.536 55.000 0.00 0.00 0.00 4.26
2670 4515 3.641434 AAGAGGGACATCATCACCAAG 57.359 47.619 0.00 0.00 0.00 3.61
2727 4572 4.403734 GGTTCCATCAAGGTTTTGTCCTA 58.596 43.478 0.00 0.00 36.74 2.94
2790 4635 0.116940 ACCATCAAAAGGTGCCCCAT 59.883 50.000 0.00 0.00 38.13 4.00
2876 4721 1.700186 GAATAAGCTGGGTAGGGGGAG 59.300 57.143 0.00 0.00 0.00 4.30
2938 4783 5.461032 AGAAGACACCTAGTGAAGACTTG 57.539 43.478 0.96 0.00 36.96 3.16
3191 5037 8.067784 CGCTTAACTTTCACTTCTAACATTTCA 58.932 33.333 0.00 0.00 0.00 2.69
3199 5045 4.373527 TGCACGCTTAACTTTCACTTCTA 58.626 39.130 0.00 0.00 0.00 2.10
3288 5134 7.656137 ACACTAACTACAACACATTCTTACCAG 59.344 37.037 0.00 0.00 0.00 4.00
3598 5445 8.223100 GTGTATTGGCATTCACAAAAATCTTTC 58.777 33.333 10.69 0.00 32.34 2.62
3649 5496 3.410631 TTCATACCGAAACAGAGCCAA 57.589 42.857 0.00 0.00 0.00 4.52
3720 5567 7.820872 GGCAATATTGGGGAAATCATTAATCTG 59.179 37.037 17.02 0.00 0.00 2.90
3924 5771 6.087456 ACATCTGAAGGTAGATATGGGACAT 58.913 40.000 0.00 0.00 38.11 3.06
3929 5776 6.708054 GGAACAACATCTGAAGGTAGATATGG 59.292 42.308 0.00 0.00 35.70 2.74
4235 6082 6.983474 AGTTCCTTTCACAACCAATTTTTG 57.017 33.333 0.00 0.00 0.00 2.44
4236 6083 7.663493 TCAAAGTTCCTTTCACAACCAATTTTT 59.337 29.630 0.00 0.00 30.60 1.94
4261 6108 5.473504 TCAGGTCCAAATAGTGCTCTTTTTC 59.526 40.000 0.00 0.00 0.00 2.29
4499 6346 8.627403 TCTCAATAAGGATCGTATAGTTTTCGT 58.373 33.333 0.00 0.00 0.00 3.85
4521 6368 4.397103 GCTGACAAATCATGACCATTCTCA 59.603 41.667 0.00 0.00 33.22 3.27
4622 6469 1.308998 ACACTCCTCGCCAGTTTTTG 58.691 50.000 0.00 0.00 0.00 2.44
4652 6499 9.754382 ATTTGATGATATACTTGGCAATGTTTC 57.246 29.630 0.00 0.00 0.00 2.78
4676 6523 4.255510 ACAAGGTATGCAAGGATGGATT 57.744 40.909 0.00 0.00 38.66 3.01
4764 6611 5.264395 CCATAGAATTTGACTTTGGACCCT 58.736 41.667 0.00 0.00 38.24 4.34
4803 6650 6.974622 TGTCTTCTGCTTGATTTTCTTCAAAC 59.025 34.615 0.00 0.00 35.31 2.93
4809 6656 6.645790 ACATTGTCTTCTGCTTGATTTTCT 57.354 33.333 0.00 0.00 0.00 2.52
4870 6717 5.622346 AAATCACTAGGGATGAGGTCTTC 57.378 43.478 8.62 0.00 0.00 2.87
4931 6778 3.160269 CCTTTCCCTGCTTCAAGATTGT 58.840 45.455 0.00 0.00 0.00 2.71
5028 6875 8.621286 CCATCTTTACCACATAACATAGGTTTC 58.379 37.037 0.00 0.00 38.45 2.78
5100 6947 7.676683 AGTGTCTACCCATGTTTCTATGTAT 57.323 36.000 0.00 0.00 0.00 2.29
5202 7049 4.656112 TCCAACTTCTCTTTGTTCTCCTCT 59.344 41.667 0.00 0.00 0.00 3.69
5484 7331 4.378874 GGCTTTAGATAAGATTCCATGCGC 60.379 45.833 0.00 0.00 0.00 6.09
5508 7355 0.106149 ACCCGTGAGTTCACCTTGTC 59.894 55.000 6.68 0.00 43.66 3.18
5524 7371 4.740431 GCCGCCATGCACAAACCC 62.740 66.667 0.00 0.00 0.00 4.11
5549 7396 3.365364 GCACACAAACCTATCAGTGAAGC 60.365 47.826 0.00 0.00 35.97 3.86
5677 7524 4.913924 CAGTTACGGTGTGTAGTGAGTAAC 59.086 45.833 7.87 7.87 42.20 2.50
5732 7579 2.318908 TCATGACTTGGCTGCCTTTTT 58.681 42.857 21.03 1.01 0.00 1.94
5789 7636 1.808945 ACATGTGTTCAAGCTAGCTGC 59.191 47.619 20.16 9.75 43.29 5.25
5801 7648 6.791303 ACAAATTTTCTACGACACATGTGTT 58.209 32.000 31.03 19.33 45.05 3.32
5803 7650 8.948853 AATACAAATTTTCTACGACACATGTG 57.051 30.769 24.25 24.25 0.00 3.21
5813 7660 9.490663 CTCGGTCATCAAATACAAATTTTCTAC 57.509 33.333 0.00 0.00 32.87 2.59
5849 7696 1.308998 GGATAAACATCCCCTGTGCG 58.691 55.000 0.00 0.00 38.39 5.34
6139 7988 3.260884 TGCTTTCTGTACCTTCCCTACTG 59.739 47.826 0.00 0.00 0.00 2.74
6320 8170 8.481492 TGAACAATATATTGCTGGATGGAAAT 57.519 30.769 22.66 0.00 41.38 2.17
6341 8191 6.759497 AGCCTACCAAAAGTATGAATGAAC 57.241 37.500 0.00 0.00 0.00 3.18
6383 8244 6.795399 ACTACACCACTGAAATCAACAAAAG 58.205 36.000 0.00 0.00 0.00 2.27
6396 8258 5.134202 TCAACTGACATACTACACCACTG 57.866 43.478 0.00 0.00 0.00 3.66
6405 8267 7.548097 AGTAACAATCGATCAACTGACATACT 58.452 34.615 0.00 3.28 0.00 2.12


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

AutoCloner maintained by Alex Coulton.