Multiple sequence alignment - TraesCS1A01G201100

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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 TraesCS1A01G201100 chr1A 100.000 3486 0 0 1 3486 362189904 362193389 0.000000e+00 6438
1 TraesCS1A01G201100 chr1A 96.429 84 3 0 1922 2005 302197298 302197381 4.690000e-29 139
2 TraesCS1A01G201100 chr1D 92.558 2150 115 21 222 2334 289773956 289776097 0.000000e+00 3042
3 TraesCS1A01G201100 chr1D 89.634 1148 79 24 2370 3486 289776097 289777235 0.000000e+00 1424
4 TraesCS1A01G201100 chr1D 93.162 117 6 1 110 226 289772923 289773037 1.660000e-38 171
5 TraesCS1A01G201100 chr1D 78.970 233 35 11 1917 2148 238467449 238467668 2.800000e-31 147
6 TraesCS1A01G201100 chr1B 91.349 2127 95 31 1379 3486 391067416 391069472 0.000000e+00 2826
7 TraesCS1A01G201100 chr1B 91.203 1114 62 19 184 1291 391066293 391067376 0.000000e+00 1482
8 TraesCS1A01G201100 chr1B 89.831 118 12 0 1 118 391065831 391065948 6.030000e-33 152
9 TraesCS1A01G201100 chr1B 79.476 229 33 11 1917 2144 335735972 335735757 2.170000e-32 150
10 TraesCS1A01G201100 chr1B 94.505 91 5 0 110 200 391065971 391066061 1.300000e-29 141
11 TraesCS1A01G201100 chr6B 85.714 245 31 3 344 585 650790901 650791144 4.470000e-64 255
12 TraesCS1A01G201100 chr6D 83.475 236 35 3 339 571 382617301 382617535 2.110000e-52 217
13 TraesCS1A01G201100 chr4B 83.264 239 36 3 350 585 183525224 183524987 2.110000e-52 217
14 TraesCS1A01G201100 chr7A 82.845 239 33 7 350 585 506970425 506970192 1.270000e-49 207
15 TraesCS1A01G201100 chr5D 83.784 222 27 5 365 585 234147109 234147322 5.900000e-48 202
16 TraesCS1A01G201100 chr5A 81.172 239 38 6 350 585 409327907 409328141 5.940000e-43 185
17 TraesCS1A01G201100 chrUn 80.556 252 38 11 339 585 7542924 7542679 2.140000e-42 183


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 TraesCS1A01G201100 chr1A 362189904 362193389 3485 False 6438.000000 6438 100.000000 1 3486 1 chr1A.!!$F2 3485
1 TraesCS1A01G201100 chr1D 289772923 289777235 4312 False 1545.666667 3042 91.784667 110 3486 3 chr1D.!!$F2 3376
2 TraesCS1A01G201100 chr1B 391065831 391069472 3641 False 1150.250000 2826 91.722000 1 3486 4 chr1B.!!$F1 3485

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
904 2111 0.244994 CTCACCACGAGCAGCTACTT 59.755 55.0 0.0 0.0 34.18 2.24 F
1473 2714 0.383949 TGTTGCTCTTTGGCCGTTTC 59.616 50.0 0.0 0.0 0.00 2.78 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1906 3157 0.469070 AAATGGCAACCAAAGCAGCA 59.531 45.000 0.0 0.0 36.95 4.41 R
2905 4202 1.004292 GTTCGGTTGGTTCACACTTCG 60.004 52.381 0.0 0.0 0.00 3.79 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
25 26 2.098607 TCGTCCGATCACACCAATCTAC 59.901 50.000 0.00 0.00 0.00 2.59
26 27 2.159296 CGTCCGATCACACCAATCTACA 60.159 50.000 0.00 0.00 0.00 2.74
46 47 7.874940 TCTACAATGCCATATCACATTTTAGC 58.125 34.615 11.93 0.00 36.87 3.09
63 64 0.755698 AGCCGTATGATGGTCGGAGT 60.756 55.000 7.01 0.00 46.05 3.85
64 65 0.597637 GCCGTATGATGGTCGGAGTG 60.598 60.000 7.01 0.00 46.05 3.51
137 169 3.756434 CTCCCGATAAGTTGCTTTTGGAA 59.244 43.478 0.00 0.00 0.00 3.53
206 486 5.261209 TGCAAGATACATATTTGGTTGGC 57.739 39.130 0.00 0.00 0.00 4.52
207 487 4.955450 TGCAAGATACATATTTGGTTGGCT 59.045 37.500 0.00 0.00 0.00 4.75
261 1462 8.853077 TGATAGACAGAATCAGAAACAAACAT 57.147 30.769 0.00 0.00 0.00 2.71
291 1492 8.671028 CATGTAAAGTATACCAAACAGGGTAAC 58.329 37.037 0.00 0.00 46.00 2.50
325 1526 8.576442 TGGAAGAAGAGGAAAATTAAACACATC 58.424 33.333 0.00 0.00 0.00 3.06
366 1567 3.118884 TCATCTACTACCTTCGTTTGGGC 60.119 47.826 0.00 0.00 0.00 5.36
383 1584 3.430453 TGGGCTTATTGGTTCCTTTCAG 58.570 45.455 0.00 0.00 0.00 3.02
440 1641 8.977505 ACTAACAAAACATAAATTGCATGTCAC 58.022 29.630 6.44 0.00 35.58 3.67
441 1642 6.450845 ACAAAACATAAATTGCATGTCACG 57.549 33.333 6.44 0.00 35.58 4.35
641 1844 1.588674 TACTCACCAAACAACAGGCG 58.411 50.000 0.00 0.00 0.00 5.52
643 1846 1.795170 CTCACCAAACAACAGGCGGG 61.795 60.000 0.00 0.00 0.00 6.13
647 1850 1.106944 CCAAACAACAGGCGGGTTCT 61.107 55.000 0.00 0.00 0.00 3.01
681 1886 7.516198 ACAAATGTAATATTGATGCCTCTCC 57.484 36.000 0.00 0.00 0.00 3.71
715 1920 5.410355 TGTAGCTTTTCACCTATACGGTT 57.590 39.130 0.00 0.00 46.37 4.44
763 1968 7.106239 GTCACTTCATCTCCTTTTCCATTCTA 58.894 38.462 0.00 0.00 0.00 2.10
893 2100 3.245284 CGCATTAGGTATTTCTCACCACG 59.755 47.826 0.00 0.00 38.62 4.94
904 2111 0.244994 CTCACCACGAGCAGCTACTT 59.755 55.000 0.00 0.00 34.18 2.24
913 2120 4.266502 CACGAGCAGCTACTTCAGTATTTC 59.733 45.833 0.00 0.00 0.00 2.17
1003 2210 5.776744 CAAACTGAAAGAAAGAAGGGATGG 58.223 41.667 0.00 0.00 37.43 3.51
1157 2364 6.750501 CCTTCATTCAACTGTTCATATTGCTG 59.249 38.462 0.00 0.00 0.00 4.41
1161 2368 5.801350 TCAACTGTTCATATTGCTGCTAC 57.199 39.130 0.00 0.00 0.00 3.58
1165 2372 4.093408 ACTGTTCATATTGCTGCTACGTTG 59.907 41.667 0.00 0.00 0.00 4.10
1167 2374 4.875536 TGTTCATATTGCTGCTACGTTGAT 59.124 37.500 0.00 0.00 0.00 2.57
1173 2380 1.482182 TGCTGCTACGTTGATCTCCAT 59.518 47.619 0.00 0.00 0.00 3.41
1174 2381 2.093500 TGCTGCTACGTTGATCTCCATT 60.093 45.455 0.00 0.00 0.00 3.16
1180 2387 5.353123 TGCTACGTTGATCTCCATTTTAACC 59.647 40.000 0.00 0.00 0.00 2.85
1183 2390 3.380320 CGTTGATCTCCATTTTAACCCCC 59.620 47.826 0.00 0.00 0.00 5.40
1187 2394 5.701224 TGATCTCCATTTTAACCCCCATAC 58.299 41.667 0.00 0.00 0.00 2.39
1197 2404 1.234806 ACCCCCATACATGCCTTCAT 58.765 50.000 0.00 0.00 0.00 2.57
1231 2443 4.098914 AGAAAGCTACCCAAATGTGACA 57.901 40.909 0.00 0.00 0.00 3.58
1235 2447 0.802494 CTACCCAAATGTGACACGGC 59.198 55.000 0.22 0.00 0.00 5.68
1326 2538 6.331061 ACAACTTATATGGTCTCGTCAGTTC 58.669 40.000 0.00 0.00 0.00 3.01
1327 2539 6.071560 ACAACTTATATGGTCTCGTCAGTTCA 60.072 38.462 0.00 0.00 0.00 3.18
1335 2547 4.462834 TGGTCTCGTCAGTTCATCATAGTT 59.537 41.667 0.00 0.00 0.00 2.24
1366 2580 9.762933 AAAATGCATACTGCTTTCTTTTCTAAA 57.237 25.926 0.00 0.00 45.31 1.85
1375 2589 7.864882 ACTGCTTTCTTTTCTAAATTTCTCAGC 59.135 33.333 0.00 0.00 0.00 4.26
1417 2657 5.151389 GGCACGTTTCTTATCGATTTTGTT 58.849 37.500 1.71 0.00 0.00 2.83
1418 2658 5.059221 GGCACGTTTCTTATCGATTTTGTTG 59.941 40.000 1.71 0.00 0.00 3.33
1447 2687 0.959553 TGTGGAGAGTTCGGACAGAC 59.040 55.000 0.00 0.00 0.00 3.51
1459 2700 2.094700 TCGGACAGACATCTAGTGTTGC 60.095 50.000 0.00 0.00 42.36 4.17
1473 2714 0.383949 TGTTGCTCTTTGGCCGTTTC 59.616 50.000 0.00 0.00 0.00 2.78
1528 2773 9.197306 ACATACAACTACCATGTTCATACTCTA 57.803 33.333 0.00 0.00 32.27 2.43
1578 2823 3.264947 TGATTTCTGAGGATGTTGCTCG 58.735 45.455 0.00 0.00 37.69 5.03
1580 2825 2.370281 TTCTGAGGATGTTGCTCGTC 57.630 50.000 0.00 0.00 37.69 4.20
1801 3052 3.365265 CTCTGCCCAACCAACGGC 61.365 66.667 0.00 0.00 45.92 5.68
1863 3114 1.678360 CTGAACATTGCTTGCGTGAC 58.322 50.000 5.13 0.00 0.00 3.67
1916 3167 0.245539 CCAATCTGGTGCTGCTTTGG 59.754 55.000 0.00 1.52 31.35 3.28
1925 3176 0.469070 TGCTGCTTTGGTTGCCATTT 59.531 45.000 0.00 0.00 31.53 2.32
2011 3262 1.450312 CTGGAACGGCACCATCTCC 60.450 63.158 0.00 0.00 36.79 3.71
2343 3597 4.087892 AGAGAATGCACCGGCGCT 62.088 61.111 16.69 0.00 45.35 5.92
2355 3609 4.783621 GGCGCTGCCTGGTGATGA 62.784 66.667 7.64 0.00 46.69 2.92
2508 3764 1.466856 TCAAGTGGCGACGTAGGTAT 58.533 50.000 0.00 0.00 0.00 2.73
2528 3784 5.938125 GGTATAATGGTTATCGTCAATGGCT 59.062 40.000 0.00 0.00 0.00 4.75
2551 3810 1.676967 CCTTGGTTCAGGAGCAGCC 60.677 63.158 0.00 0.00 37.03 4.85
2552 3811 2.032528 TTGGTTCAGGAGCAGCCG 59.967 61.111 0.00 0.00 43.43 5.52
2553 3812 4.704833 TGGTTCAGGAGCAGCCGC 62.705 66.667 0.00 0.00 43.43 6.53
2555 3814 2.669569 GTTCAGGAGCAGCCGCAA 60.670 61.111 0.00 0.00 43.43 4.85
2556 3815 2.359107 TTCAGGAGCAGCCGCAAG 60.359 61.111 0.00 0.00 43.43 4.01
2557 3816 2.882677 TTCAGGAGCAGCCGCAAGA 61.883 57.895 0.00 0.00 43.43 3.02
2558 3817 2.124819 CAGGAGCAGCCGCAAGAT 60.125 61.111 0.00 0.00 43.43 2.40
2559 3818 1.144716 CAGGAGCAGCCGCAAGATA 59.855 57.895 0.00 0.00 43.43 1.98
2560 3819 0.879400 CAGGAGCAGCCGCAAGATAG 60.879 60.000 0.00 0.00 43.43 2.08
2638 3897 3.397618 TGTTAGGGTTGGATGGGATATGG 59.602 47.826 0.00 0.00 0.00 2.74
2657 3916 1.617533 GGGCGGAAAGGTAATTCCCAA 60.618 52.381 0.74 0.00 45.03 4.12
2725 3989 4.863491 ACATTGCACAAGTTTCTGATGAC 58.137 39.130 0.00 0.00 0.00 3.06
2747 4011 3.181503 CCATCTTTTCCGACAGAGCATTG 60.182 47.826 0.00 0.00 0.00 2.82
2809 4085 1.438651 TCAGCGAGTGGTTGCATAAC 58.561 50.000 0.00 0.00 35.18 1.89
2876 4173 5.533903 GGCATGATCAAAACTCATACTCCAT 59.466 40.000 0.00 0.00 32.18 3.41
2976 4273 3.873801 GCAGGGACTTAAAATCCAGAGCA 60.874 47.826 7.54 0.00 38.06 4.26
3000 4297 5.795079 TGGAAGGGGTTAGATAACAGGATA 58.205 41.667 5.19 0.00 37.92 2.59
3007 4304 6.497259 GGGGTTAGATAACAGGATAGTGATGA 59.503 42.308 5.19 0.00 37.92 2.92
3125 4427 0.109723 ACTTGCCGAGGCTTGGTTAA 59.890 50.000 21.87 15.55 42.51 2.01
3144 4446 6.002082 GGTTAACACTTAACAAGGTGAGGAT 58.998 40.000 8.10 0.00 45.63 3.24
3182 4484 2.877786 TGACACATTCGCACAAGAACAT 59.122 40.909 0.00 0.00 32.39 2.71
3383 4685 6.381481 TGAACTGCATGATGTTCCAATATC 57.619 37.500 20.76 4.08 41.10 1.63
3422 4728 8.635877 AGATAATTCATCGACTCAAACTGTAC 57.364 34.615 0.00 0.00 38.81 2.90
3423 4729 8.470805 AGATAATTCATCGACTCAAACTGTACT 58.529 33.333 0.00 0.00 38.81 2.73
3424 4730 9.731819 GATAATTCATCGACTCAAACTGTACTA 57.268 33.333 0.00 0.00 0.00 1.82
3426 4732 7.993821 ATTCATCGACTCAAACTGTACTATG 57.006 36.000 0.00 0.00 0.00 2.23
3463 4769 0.107897 ATATGGGCAGCGAAACGACA 60.108 50.000 0.00 0.00 0.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 3.520290 TGTAGATTGGTGTGATCGGAC 57.480 47.619 0.00 0.00 0.00 4.79
9 10 3.002656 GGCATTGTAGATTGGTGTGATCG 59.997 47.826 0.00 0.00 0.00 3.69
10 11 3.947196 TGGCATTGTAGATTGGTGTGATC 59.053 43.478 0.00 0.00 0.00 2.92
11 12 3.966979 TGGCATTGTAGATTGGTGTGAT 58.033 40.909 0.00 0.00 0.00 3.06
25 26 4.919168 CGGCTAAAATGTGATATGGCATTG 59.081 41.667 4.78 0.00 35.72 2.82
26 27 4.584325 ACGGCTAAAATGTGATATGGCATT 59.416 37.500 4.78 0.00 36.95 3.56
44 45 0.755698 ACTCCGACCATCATACGGCT 60.756 55.000 0.00 0.00 45.25 5.52
46 47 0.744874 ACACTCCGACCATCATACGG 59.255 55.000 0.00 0.00 46.71 4.02
94 95 0.695803 CTCCCAACTAGCCCATCCCT 60.696 60.000 0.00 0.00 0.00 4.20
137 169 9.851267 ATCTCTATCCCATCTCCTAAACTTAAT 57.149 33.333 0.00 0.00 0.00 1.40
176 208 6.016527 CCAAATATGTATCTTGCATCAGCTGT 60.017 38.462 14.67 0.00 42.74 4.40
261 1462 7.773224 CCCTGTTTGGTATACTTTACATGATCA 59.227 37.037 0.00 0.00 0.00 2.92
325 1526 5.463392 AGATGATTATGAAATGACACCGACG 59.537 40.000 0.00 0.00 0.00 5.12
366 1567 7.116805 GCACAAAATCTGAAAGGAACCAATAAG 59.883 37.037 0.00 0.00 0.00 1.73
424 1625 4.985413 ACTTCCGTGACATGCAATTTATG 58.015 39.130 0.00 0.00 0.00 1.90
433 1634 8.601845 TCCAATAATATAACTTCCGTGACATG 57.398 34.615 0.00 0.00 0.00 3.21
565 1768 2.218603 CACTACCTGCGTTCTGGTTTT 58.781 47.619 0.00 0.00 43.26 2.43
577 1780 2.991250 ACTGCTAATTGCCACTACCTG 58.009 47.619 0.00 0.00 42.00 4.00
606 1809 6.909909 TGGTGAGTAATCACTATAGCGTATG 58.090 40.000 21.46 0.00 40.28 2.39
628 1831 1.106944 AGAACCCGCCTGTTGTTTGG 61.107 55.000 0.00 0.00 0.00 3.28
657 1860 6.491403 GGGAGAGGCATCAATATTACATTTGT 59.509 38.462 0.00 0.00 0.00 2.83
681 1886 4.821805 TGAAAAGCTACAAAGAGAAGTGGG 59.178 41.667 0.00 0.00 0.00 4.61
715 1920 3.002791 GACGATTCCTGCACATGAAGAA 58.997 45.455 0.00 0.00 0.00 2.52
763 1968 3.888930 ACCAACGATTCCTTTGTTCACAT 59.111 39.130 0.00 0.00 28.82 3.21
893 2100 6.200097 GCTTAGAAATACTGAAGTAGCTGCTC 59.800 42.308 4.91 0.00 33.52 4.26
904 2111 6.767902 CCAATGCCTTAGCTTAGAAATACTGA 59.232 38.462 0.16 0.00 40.80 3.41
913 2120 3.135530 AGAGACCCAATGCCTTAGCTTAG 59.864 47.826 0.00 0.00 40.80 2.18
1003 2210 1.271434 GGACCACTTCCCCTTCTTCAC 60.271 57.143 0.00 0.00 38.70 3.18
1157 2364 5.220796 GGGTTAAAATGGAGATCAACGTAGC 60.221 44.000 0.00 0.00 0.00 3.58
1161 2368 3.380320 GGGGGTTAAAATGGAGATCAACG 59.620 47.826 0.00 0.00 0.00 4.10
1165 2372 5.701224 TGTATGGGGGTTAAAATGGAGATC 58.299 41.667 0.00 0.00 0.00 2.75
1167 2374 5.454062 CATGTATGGGGGTTAAAATGGAGA 58.546 41.667 0.00 0.00 0.00 3.71
1173 2380 3.767309 AGGCATGTATGGGGGTTAAAA 57.233 42.857 0.00 0.00 0.00 1.52
1174 2381 3.011821 TGAAGGCATGTATGGGGGTTAAA 59.988 43.478 0.00 0.00 0.00 1.52
1180 2387 3.298619 TGAAATGAAGGCATGTATGGGG 58.701 45.455 0.00 0.00 34.26 4.96
1197 2404 7.560368 TGGGTAGCTTTCTTTTCATTTTGAAA 58.440 30.769 0.00 0.00 43.84 2.69
1220 2432 0.667993 AACAGCCGTGTCACATTTGG 59.332 50.000 3.42 0.00 35.08 3.28
1221 2433 2.118683 CAAACAGCCGTGTCACATTTG 58.881 47.619 3.42 0.30 35.08 2.32
1231 2443 0.179113 CAAGCCAAACAAACAGCCGT 60.179 50.000 0.00 0.00 0.00 5.68
1235 2447 3.622163 TCATTTGCAAGCCAAACAAACAG 59.378 39.130 0.00 0.00 45.52 3.16
1302 2514 5.916661 ACTGACGAGACCATATAAGTTGT 57.083 39.130 0.00 0.00 0.00 3.32
1312 2524 4.017126 ACTATGATGAACTGACGAGACCA 58.983 43.478 0.00 0.00 0.00 4.02
1318 2530 4.176271 TCTGCAACTATGATGAACTGACG 58.824 43.478 0.00 0.00 0.00 4.35
1375 2589 6.313905 ACGTGCCAAAGTAATTCTGAGATAAG 59.686 38.462 0.00 0.00 0.00 1.73
1382 2622 5.108385 AGAAACGTGCCAAAGTAATTCTG 57.892 39.130 0.00 0.00 0.00 3.02
1417 2657 4.509970 CGAACTCTCCACACAAACATAACA 59.490 41.667 0.00 0.00 0.00 2.41
1418 2658 4.084013 CCGAACTCTCCACACAAACATAAC 60.084 45.833 0.00 0.00 0.00 1.89
1427 2667 0.959553 TCTGTCCGAACTCTCCACAC 59.040 55.000 0.00 0.00 0.00 3.82
1447 2687 2.421424 GGCCAAAGAGCAACACTAGATG 59.579 50.000 0.00 0.00 0.00 2.90
1459 2700 0.527565 CATGGGAAACGGCCAAAGAG 59.472 55.000 2.24 0.00 0.00 2.85
1473 2714 2.009774 CGCTACTGGTTTTCTCATGGG 58.990 52.381 0.00 0.00 0.00 4.00
1578 2823 1.424493 CTGAAGCCCTGCGAATCGAC 61.424 60.000 6.91 0.00 0.00 4.20
1580 2825 2.817423 GCTGAAGCCCTGCGAATCG 61.817 63.158 0.00 0.00 34.31 3.34
1744 2989 3.458163 CAGGCAATGGCAGCAGGG 61.458 66.667 10.05 0.00 43.71 4.45
1801 3052 1.814394 CAGTGATGGACATTGGTGTGG 59.186 52.381 0.00 0.00 39.09 4.17
1863 3114 4.855596 GCAAGAAGCCAAGAAGCG 57.144 55.556 0.00 0.00 38.01 4.68
1906 3157 0.469070 AAATGGCAACCAAAGCAGCA 59.531 45.000 0.00 0.00 36.95 4.41
1907 3158 0.869730 CAAATGGCAACCAAAGCAGC 59.130 50.000 0.00 0.00 36.95 5.25
1916 3167 2.095059 AGCTGTTCGATCAAATGGCAAC 60.095 45.455 0.00 0.00 0.00 4.17
2011 3262 1.672356 CGCCCAGTGGAACCTCTTG 60.672 63.158 11.95 0.00 37.80 3.02
2254 3505 1.079750 GACCTCTTCTTTCGCCGCT 60.080 57.895 0.00 0.00 0.00 5.52
2366 3620 3.127533 GGCGCAGACCATGTCCAC 61.128 66.667 10.83 0.00 32.18 4.02
2508 3764 4.133820 CCAGCCATTGACGATAACCATTA 58.866 43.478 0.00 0.00 0.00 1.90
2528 3784 4.330056 TCCTGAACCAAGGAGCCA 57.670 55.556 0.00 0.00 41.60 4.75
2548 3807 1.208052 ACATGACACTATCTTGCGGCT 59.792 47.619 0.00 0.00 36.20 5.52
2551 3810 4.266265 CACAGTACATGACACTATCTTGCG 59.734 45.833 0.00 0.00 36.20 4.85
2552 3811 5.410924 TCACAGTACATGACACTATCTTGC 58.589 41.667 0.00 0.00 36.20 4.01
2553 3812 7.384932 TGTTTCACAGTACATGACACTATCTTG 59.615 37.037 14.10 0.00 38.24 3.02
2555 3814 6.993079 TGTTTCACAGTACATGACACTATCT 58.007 36.000 14.10 0.00 29.84 1.98
2556 3815 7.834068 ATGTTTCACAGTACATGACACTATC 57.166 36.000 14.10 0.00 33.90 2.08
2557 3816 8.621532 AAATGTTTCACAGTACATGACACTAT 57.378 30.769 14.10 6.71 35.29 2.12
2558 3817 8.984764 GTAAATGTTTCACAGTACATGACACTA 58.015 33.333 14.10 5.26 35.29 2.74
2559 3818 6.942532 AAATGTTTCACAGTACATGACACT 57.057 33.333 14.10 0.00 35.29 3.55
2560 3819 7.075741 GGTAAATGTTTCACAGTACATGACAC 58.924 38.462 0.00 8.68 35.29 3.67
2585 3844 8.272866 GGTAAATCTTTTTCGGAAAACAACATG 58.727 33.333 15.06 0.00 31.72 3.21
2586 3845 7.982354 TGGTAAATCTTTTTCGGAAAACAACAT 59.018 29.630 15.06 5.56 31.72 2.71
2638 3897 1.842052 TTGGGAATTACCTTTCCGCC 58.158 50.000 8.55 0.00 45.17 6.13
2657 3916 3.815401 GCTACGCCCAGTTATGATTCAAT 59.185 43.478 0.00 0.00 0.00 2.57
2681 3940 6.950842 TGTCTAGGAATCACATCAACAGAAT 58.049 36.000 0.00 0.00 0.00 2.40
2682 3941 6.358974 TGTCTAGGAATCACATCAACAGAA 57.641 37.500 0.00 0.00 0.00 3.02
2725 3989 2.099141 TGCTCTGTCGGAAAAGATGG 57.901 50.000 0.00 0.00 0.00 3.51
2809 4085 3.340928 TCATGTGCAGATTCCAGTTCTG 58.659 45.455 0.00 0.00 42.83 3.02
2905 4202 1.004292 GTTCGGTTGGTTCACACTTCG 60.004 52.381 0.00 0.00 0.00 3.79
2906 4203 2.011222 TGTTCGGTTGGTTCACACTTC 58.989 47.619 0.00 0.00 0.00 3.01
2953 4250 3.873801 GCTCTGGATTTTAAGTCCCTGCA 60.874 47.826 4.05 0.00 34.76 4.41
2954 4251 2.685388 GCTCTGGATTTTAAGTCCCTGC 59.315 50.000 4.05 2.62 34.76 4.85
2976 4273 4.641868 TCCTGTTATCTAACCCCTTCCAT 58.358 43.478 0.00 0.00 35.37 3.41
3000 4297 7.495279 GCTGATCACTAGAAGAAAATCATCACT 59.505 37.037 0.00 0.00 0.00 3.41
3007 4304 6.238320 GCATTCGCTGATCACTAGAAGAAAAT 60.238 38.462 0.00 0.00 34.30 1.82
3072 4374 1.346722 GGACTCCAAGAAGAAACCGGA 59.653 52.381 9.46 0.00 0.00 5.14
3113 4415 5.278315 CCTTGTTAAGTGTTAACCAAGCCTC 60.278 44.000 2.48 0.00 43.73 4.70
3125 4427 6.681729 TCTAATCCTCACCTTGTTAAGTGT 57.318 37.500 0.00 0.00 0.00 3.55
3144 4446 7.692460 ATGTGTCATTTCATTTCTGCTCTAA 57.308 32.000 0.00 0.00 0.00 2.10
3182 4484 8.797350 ATGAACAAATGATTCTGAGTGTATCA 57.203 30.769 0.00 0.00 36.99 2.15
3231 4533 7.984050 CACTGAAGTGTTCACTTCCTATATCAT 59.016 37.037 30.19 12.72 43.94 2.45
3383 4685 7.082602 GATGAATTATCTTGCAGTTATGCCAG 58.917 38.462 0.00 0.00 44.57 4.85
3422 4728 4.122046 TGTCGTTTCATGCATCTCCATAG 58.878 43.478 0.00 0.00 0.00 2.23
3423 4729 4.135747 TGTCGTTTCATGCATCTCCATA 57.864 40.909 0.00 0.00 0.00 2.74
3424 4730 2.989909 TGTCGTTTCATGCATCTCCAT 58.010 42.857 0.00 0.00 0.00 3.41
3425 4731 2.470983 TGTCGTTTCATGCATCTCCA 57.529 45.000 0.00 0.00 0.00 3.86
3426 4732 4.083643 CCATATGTCGTTTCATGCATCTCC 60.084 45.833 0.00 0.00 0.00 3.71
3463 4769 1.605058 ATGTAGCCGACGGTTCAGCT 61.605 55.000 16.73 8.26 39.02 4.24


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

AutoCloner maintained by Alex Coulton.