Multiple sequence alignment - TraesCS4B01G101300

Loading Multiple Alignment...

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 TraesCS4B01G101300 chr4B 100.000 2615 0 0 1 2615 106969219 106971833 0.000000e+00 4830.0
1 TraesCS4B01G101300 chr4D 90.412 2305 132 22 7 2291 74604913 74607148 0.000000e+00 2950.0
2 TraesCS4B01G101300 chr4D 86.901 313 32 5 2310 2615 74607877 74608187 2.490000e-90 342.0
3 TraesCS4B01G101300 chr4A 92.979 1524 65 17 820 2322 513090114 513088612 0.000000e+00 2183.0
4 TraesCS4B01G101300 chr4A 96.429 308 9 2 2310 2615 513088005 513087698 8.350000e-140 507.0
5 TraesCS4B01G101300 chr4A 90.066 151 10 3 675 825 513090658 513090513 9.550000e-45 191.0
6 TraesCS4B01G101300 chr1D 84.910 444 59 6 23 459 444844592 444845034 2.390000e-120 442.0
7 TraesCS4B01G101300 chr2B 83.948 461 63 6 6 459 594270225 594269769 5.170000e-117 431.0
8 TraesCS4B01G101300 chr2D 83.333 468 67 5 7 467 645666368 645665905 3.110000e-114 422.0
9 TraesCS4B01G101300 chr2D 83.742 449 65 4 18 459 131775658 131775211 4.030000e-113 418.0
10 TraesCS4B01G101300 chr3D 83.710 442 62 7 20 457 83677017 83677452 2.420000e-110 409.0
11 TraesCS4B01G101300 chr3A 83.188 458 66 6 8 458 702113588 702113135 2.420000e-110 409.0
12 TraesCS4B01G101300 chr3A 82.863 461 71 4 4 458 576202434 576201976 8.710000e-110 407.0
13 TraesCS4B01G101300 chr5B 82.430 461 72 5 6 459 496150367 496150825 6.780000e-106 394.0
14 TraesCS4B01G101300 chr5B 89.855 69 7 0 1217 1285 216392883 216392951 3.580000e-14 89.8
15 TraesCS4B01G101300 chr5D 89.855 69 7 0 1217 1285 193507385 193507453 3.580000e-14 89.8
16 TraesCS4B01G101300 chr5A 89.855 69 7 0 1217 1285 248536610 248536542 3.580000e-14 89.8


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 TraesCS4B01G101300 chr4B 106969219 106971833 2614 False 4830.000000 4830 100.0000 1 2615 1 chr4B.!!$F1 2614
1 TraesCS4B01G101300 chr4D 74604913 74608187 3274 False 1646.000000 2950 88.6565 7 2615 2 chr4D.!!$F1 2608
2 TraesCS4B01G101300 chr4A 513087698 513090658 2960 True 960.333333 2183 93.1580 675 2615 3 chr4A.!!$R1 1940

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
140 141 0.108424 AGCACTAGAGCAAGCCGAAG 60.108 55.0 14.8 0.0 36.85 3.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1940 2364 0.675633 GCAGACAACCTTTGCCATGT 59.324 50.0 0.0 0.0 31.79 3.21 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
28 29 2.663279 TTTCTTGCGCGAGAAACTTC 57.337 45.000 37.49 0.00 39.90 3.01
39 40 4.806247 CGCGAGAAACTTCCAATCTATTCT 59.194 41.667 0.00 0.00 0.00 2.40
52 53 9.690913 TTCCAATCTATTCTTCTTCAATCATGT 57.309 29.630 0.00 0.00 0.00 3.21
55 56 7.959689 ATCTATTCTTCTTCAATCATGTCCG 57.040 36.000 0.00 0.00 0.00 4.79
65 66 6.708502 TCTTCAATCATGTCCGTACAAAGAAA 59.291 34.615 0.00 0.00 39.58 2.52
67 68 6.664515 TCAATCATGTCCGTACAAAGAAAAC 58.335 36.000 0.00 0.00 39.58 2.43
68 69 6.485313 TCAATCATGTCCGTACAAAGAAAACT 59.515 34.615 0.00 0.00 39.58 2.66
120 121 1.396301 GACCACCTAGTGACGACTACG 59.604 57.143 0.00 0.00 45.75 3.51
136 137 0.456221 TACGAGCACTAGAGCAAGCC 59.544 55.000 14.80 0.18 36.85 4.35
140 141 0.108424 AGCACTAGAGCAAGCCGAAG 60.108 55.000 14.80 0.00 36.85 3.79
169 170 2.764128 TCATCACCCCTCCCTCGC 60.764 66.667 0.00 0.00 0.00 5.03
197 198 3.875134 CCGGGCAAACCTTATTGTAGTAG 59.125 47.826 0.00 0.00 36.97 2.57
203 204 6.313164 GGCAAACCTTATTGTAGTAGACAGTC 59.687 42.308 0.00 0.00 39.88 3.51
211 212 8.961294 TTATTGTAGTAGACAGTCGAAAAGTC 57.039 34.615 5.32 5.32 39.88 3.01
224 225 2.074576 GAAAAGTCGTGCTAAGACCCC 58.925 52.381 3.78 0.00 39.31 4.95
231 232 1.971357 CGTGCTAAGACCCCATAGGAT 59.029 52.381 0.00 0.00 39.89 3.24
250 251 2.032223 AGCACACCAGAGCAGCAG 59.968 61.111 0.00 0.00 33.43 4.24
256 257 2.895865 CCAGAGCAGCAGCCATCG 60.896 66.667 0.00 0.00 43.56 3.84
268 269 0.321653 AGCCATCGCCGAAGAAAGTT 60.322 50.000 0.00 0.00 34.57 2.66
269 270 0.179189 GCCATCGCCGAAGAAAGTTG 60.179 55.000 0.00 0.00 0.00 3.16
274 275 3.587797 TCGCCGAAGAAAGTTGTAGAT 57.412 42.857 0.00 0.00 0.00 1.98
275 276 3.921677 TCGCCGAAGAAAGTTGTAGATT 58.078 40.909 0.00 0.00 0.00 2.40
283 284 6.128526 CGAAGAAAGTTGTAGATTGGAAGGAC 60.129 42.308 0.00 0.00 0.00 3.85
299 300 4.202080 GGAAGGACCAAACTTGTAAACACC 60.202 45.833 0.00 0.00 38.79 4.16
304 305 5.395879 GGACCAAACTTGTAAACACCCAAAT 60.396 40.000 0.00 0.00 0.00 2.32
308 309 6.257630 CCAAACTTGTAAACACCCAAATGAAG 59.742 38.462 0.00 0.00 0.00 3.02
309 310 6.783708 AACTTGTAAACACCCAAATGAAGA 57.216 33.333 0.00 0.00 0.00 2.87
321 322 4.275936 CCCAAATGAAGACGAACAAAGACT 59.724 41.667 0.00 0.00 0.00 3.24
346 347 3.486383 TCCAAACAGATCCACCAAAGAC 58.514 45.455 0.00 0.00 0.00 3.01
347 348 3.138283 TCCAAACAGATCCACCAAAGACT 59.862 43.478 0.00 0.00 0.00 3.24
348 349 4.349636 TCCAAACAGATCCACCAAAGACTA 59.650 41.667 0.00 0.00 0.00 2.59
361 362 0.243095 AAGACTAGCACCGACCGAAC 59.757 55.000 0.00 0.00 0.00 3.95
364 365 3.366739 CTAGCACCGACCGAACCCC 62.367 68.421 0.00 0.00 0.00 4.95
373 374 4.587189 CCGAACCCCGCGAGATCC 62.587 72.222 8.23 0.00 36.84 3.36
374 375 4.925576 CGAACCCCGCGAGATCCG 62.926 72.222 8.23 1.15 42.21 4.18
376 377 3.769875 GAACCCCGCGAGATCCGAC 62.770 68.421 8.23 0.00 41.76 4.79
400 401 3.941188 ACACCTCCACACGCCCTG 61.941 66.667 0.00 0.00 0.00 4.45
413 414 1.670406 GCCCTGCGATGATGCTAGG 60.670 63.158 0.00 0.00 34.76 3.02
429 430 1.391933 TAGGCGCACCATCGAGACAT 61.392 55.000 10.83 0.00 39.06 3.06
430 431 2.528743 GGCGCACCATCGAGACATG 61.529 63.158 10.83 0.00 35.26 3.21
432 433 1.141665 CGCACCATCGAGACATGGA 59.858 57.895 9.74 0.00 45.79 3.41
438 439 4.562347 GCACCATCGAGACATGGATAGAAT 60.562 45.833 9.74 0.00 45.79 2.40
447 448 4.346418 AGACATGGATAGAATGTGGGAGAC 59.654 45.833 0.00 0.00 38.37 3.36
456 457 3.775316 AGAATGTGGGAGACGTTATTCCT 59.225 43.478 12.54 0.00 33.67 3.36
491 492 9.362151 ACCCATGTTTTCTTTTCTTTATGTCTA 57.638 29.630 0.00 0.00 0.00 2.59
651 652 0.322906 GCCTAAAAGCCCAGCTCACT 60.323 55.000 0.00 0.00 38.25 3.41
653 654 1.815003 CCTAAAAGCCCAGCTCACTTG 59.185 52.381 0.00 0.00 38.25 3.16
654 655 1.200948 CTAAAAGCCCAGCTCACTTGC 59.799 52.381 0.00 0.00 38.25 4.01
655 656 0.468771 AAAAGCCCAGCTCACTTGCT 60.469 50.000 0.00 0.00 45.18 3.91
656 657 0.468771 AAAGCCCAGCTCACTTGCTT 60.469 50.000 0.00 0.00 41.98 3.91
657 658 0.892814 AAGCCCAGCTCACTTGCTTC 60.893 55.000 0.00 0.00 41.98 3.86
658 659 2.338785 GCCCAGCTCACTTGCTTCC 61.339 63.158 0.00 0.00 41.98 3.46
659 660 2.037136 CCCAGCTCACTTGCTTCCG 61.037 63.158 0.00 0.00 41.98 4.30
660 661 1.302033 CCAGCTCACTTGCTTCCGT 60.302 57.895 0.00 0.00 41.98 4.69
661 662 0.886490 CCAGCTCACTTGCTTCCGTT 60.886 55.000 0.00 0.00 41.98 4.44
662 663 0.514691 CAGCTCACTTGCTTCCGTTC 59.485 55.000 0.00 0.00 41.98 3.95
663 664 0.946221 AGCTCACTTGCTTCCGTTCG 60.946 55.000 0.00 0.00 40.93 3.95
664 665 0.944311 GCTCACTTGCTTCCGTTCGA 60.944 55.000 0.00 0.00 0.00 3.71
665 666 1.063806 CTCACTTGCTTCCGTTCGAG 58.936 55.000 0.00 0.00 0.00 4.04
666 667 0.319555 TCACTTGCTTCCGTTCGAGG 60.320 55.000 0.00 0.00 0.00 4.63
673 674 0.177141 CTTCCGTTCGAGGGGCAATA 59.823 55.000 4.93 0.00 0.00 1.90
729 730 1.271217 GGAACGGAAGCAAGTTACCCT 60.271 52.381 0.00 0.00 0.00 4.34
777 778 1.293924 CTTGCTTAGCCGTCCATCTG 58.706 55.000 0.29 0.00 0.00 2.90
780 781 1.291132 GCTTAGCCGTCCATCTGTTC 58.709 55.000 0.00 0.00 0.00 3.18
880 1285 0.833287 AGATGAGGATGTTCCACCGG 59.167 55.000 0.00 0.00 39.61 5.28
951 1362 5.762218 ACACGTACCTCATAGTACCATACTC 59.238 44.000 0.00 0.00 39.60 2.59
952 1363 5.180868 CACGTACCTCATAGTACCATACTCC 59.819 48.000 0.00 0.00 39.60 3.85
1018 1432 2.035961 CACGCTAGCCACTACACCATAT 59.964 50.000 9.66 0.00 0.00 1.78
1053 1470 1.674962 GCAAGCAAGCAAGCTAGCTAT 59.325 47.619 19.70 4.27 45.89 2.97
1101 1518 3.795977 TTTCCCCACTGTCCCGGGA 62.796 63.158 22.63 22.63 46.34 5.14
1169 1586 2.837291 CGCAGAGGAGGAGGAGGG 60.837 72.222 0.00 0.00 0.00 4.30
1173 1590 2.284151 GAGGAGGAGGAGGGGGAC 59.716 72.222 0.00 0.00 0.00 4.46
1174 1591 3.742248 GAGGAGGAGGAGGGGGACG 62.742 73.684 0.00 0.00 0.00 4.79
1175 1592 3.752167 GGAGGAGGAGGGGGACGA 61.752 72.222 0.00 0.00 0.00 4.20
1176 1593 2.442458 GAGGAGGAGGGGGACGAC 60.442 72.222 0.00 0.00 0.00 4.34
1177 1594 4.444081 AGGAGGAGGGGGACGACG 62.444 72.222 0.00 0.00 0.00 5.12
1254 1671 2.333014 GAGGACTTCAACGAAGAGCTG 58.667 52.381 10.58 0.00 41.71 4.24
1403 1820 2.061182 ATCGAGGCGAGGAAGCGTAC 62.061 60.000 0.00 0.00 39.91 3.67
1465 1882 1.078356 CTGCTGCTGATGCTCAGGT 60.078 57.895 12.98 0.00 44.43 4.00
1488 1905 2.697654 CTCAAGAAGCTCTTCCTGGTG 58.302 52.381 6.04 1.26 40.33 4.17
1529 1946 2.537560 CCGCGCCAATCTGATCACC 61.538 63.158 0.00 0.00 0.00 4.02
1583 2000 2.393768 GGTGCGGTGCATCAGTCAG 61.394 63.158 0.00 0.00 41.91 3.51
1681 2104 7.885399 AGACTTATTTTTGGCTGAAGAGTGTAT 59.115 33.333 0.00 0.00 0.00 2.29
1791 2214 9.578439 CCTCAGAATCATCTAAATTTTGGTTTC 57.422 33.333 0.00 0.00 33.50 2.78
1879 2303 7.148507 GGACATTGCTCTTCCATTATCTAATCG 60.149 40.741 0.00 0.00 0.00 3.34
1940 2364 3.053019 TGTTAGCATTGGGATGGGATGAA 60.053 43.478 0.00 0.00 33.72 2.57
2135 2566 1.067915 ACAACACACTGCAACAACACC 60.068 47.619 0.00 0.00 0.00 4.16
2149 2582 2.037772 ACAACACCTCCTCTCACATCAC 59.962 50.000 0.00 0.00 0.00 3.06
2179 2615 4.511826 CGTTCTGCCAATTAGGGATCTTAC 59.488 45.833 0.00 0.00 36.98 2.34
2279 2725 4.345257 TCTTCAGATGCTACCTATTGTCCC 59.655 45.833 0.00 0.00 0.00 4.46
2286 2732 3.646162 TGCTACCTATTGTCCCGATCAAT 59.354 43.478 0.00 0.00 38.72 2.57
2299 2745 6.540914 TGTCCCGATCAATTAACATTAACCTC 59.459 38.462 0.00 0.00 0.00 3.85
2316 2762 1.066573 CCTCCTGGTGCTACTTCACTG 60.067 57.143 0.00 0.00 37.16 3.66
2324 3520 3.246619 GTGCTACTTCACTGACACTAGC 58.753 50.000 0.00 0.00 34.29 3.42
2369 3565 3.272031 GCAAAGCTGGCCAGAGAC 58.728 61.111 37.21 18.81 0.00 3.36
2421 3617 2.899303 CCATGTGGGGTTTTCTACCT 57.101 50.000 0.00 0.00 46.86 3.08
2575 3776 4.142403 GCAGAACTACAAATGGCAGCAATA 60.142 41.667 0.00 0.00 0.00 1.90
2591 3792 5.293569 GCAGCAATACTACACGGTTATTCTT 59.706 40.000 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 8.566260 GGACATGATTGAAGAAGAATAGATTGG 58.434 37.037 0.00 0.00 0.00 3.16
39 40 6.227522 TCTTTGTACGGACATGATTGAAGAA 58.772 36.000 0.00 0.00 34.86 2.52
92 93 0.898789 CACTAGGTGGTCCACGGACT 60.899 60.000 15.93 9.88 44.04 3.85
120 121 0.108615 TTCGGCTTGCTCTAGTGCTC 60.109 55.000 17.08 6.95 0.00 4.26
149 150 1.264749 CGAGGGAGGGGTGATGACAA 61.265 60.000 0.00 0.00 0.00 3.18
150 151 1.685765 CGAGGGAGGGGTGATGACA 60.686 63.158 0.00 0.00 0.00 3.58
211 212 1.410004 TCCTATGGGGTCTTAGCACG 58.590 55.000 0.00 0.00 36.25 5.34
220 221 0.839946 GTGTGCTGATCCTATGGGGT 59.160 55.000 0.00 0.00 36.25 4.95
224 225 2.806019 GCTCTGGTGTGCTGATCCTATG 60.806 54.545 0.00 0.00 0.00 2.23
231 232 2.031616 GCTGCTCTGGTGTGCTGA 59.968 61.111 0.00 0.00 34.87 4.26
250 251 0.179189 CAACTTTCTTCGGCGATGGC 60.179 55.000 20.67 0.00 38.90 4.40
256 257 4.000988 TCCAATCTACAACTTTCTTCGGC 58.999 43.478 0.00 0.00 0.00 5.54
275 276 4.399934 GTGTTTACAAGTTTGGTCCTTCCA 59.600 41.667 0.00 0.00 45.60 3.53
283 284 5.665459 TCATTTGGGTGTTTACAAGTTTGG 58.335 37.500 0.00 0.00 0.00 3.28
288 289 5.008217 TCGTCTTCATTTGGGTGTTTACAAG 59.992 40.000 0.00 0.00 0.00 3.16
289 290 4.882427 TCGTCTTCATTTGGGTGTTTACAA 59.118 37.500 0.00 0.00 0.00 2.41
299 300 5.207768 CAGTCTTTGTTCGTCTTCATTTGG 58.792 41.667 0.00 0.00 0.00 3.28
304 305 3.812156 TCCAGTCTTTGTTCGTCTTCA 57.188 42.857 0.00 0.00 0.00 3.02
308 309 3.040147 TGGATCCAGTCTTTGTTCGTC 57.960 47.619 11.44 0.00 0.00 4.20
309 310 3.485463 TTGGATCCAGTCTTTGTTCGT 57.515 42.857 15.53 0.00 0.00 3.85
346 347 2.183555 GGGTTCGGTCGGTGCTAG 59.816 66.667 0.00 0.00 0.00 3.42
347 348 3.384532 GGGGTTCGGTCGGTGCTA 61.385 66.667 0.00 0.00 0.00 3.49
361 362 4.271816 CTGTCGGATCTCGCGGGG 62.272 72.222 5.94 0.00 39.05 5.73
364 365 1.010574 GTCTCTGTCGGATCTCGCG 60.011 63.158 0.00 0.00 39.05 5.87
367 368 1.133407 GGTGTGTCTCTGTCGGATCTC 59.867 57.143 0.00 0.00 0.00 2.75
373 374 0.039074 GTGGAGGTGTGTCTCTGTCG 60.039 60.000 0.00 0.00 34.39 4.35
374 375 1.040646 TGTGGAGGTGTGTCTCTGTC 58.959 55.000 0.00 0.00 34.39 3.51
376 377 0.319040 CGTGTGGAGGTGTGTCTCTG 60.319 60.000 0.00 0.00 34.39 3.35
377 378 2.041976 CGTGTGGAGGTGTGTCTCT 58.958 57.895 0.00 0.00 34.39 3.10
413 414 2.528743 CCATGTCTCGATGGTGCGC 61.529 63.158 0.00 0.00 38.53 6.09
429 430 2.747177 ACGTCTCCCACATTCTATCCA 58.253 47.619 0.00 0.00 0.00 3.41
430 431 3.821421 AACGTCTCCCACATTCTATCC 57.179 47.619 0.00 0.00 0.00 2.59
432 433 5.602978 AGGAATAACGTCTCCCACATTCTAT 59.397 40.000 7.48 0.00 31.50 1.98
438 439 2.762327 GGTAGGAATAACGTCTCCCACA 59.238 50.000 10.48 0.00 31.50 4.17
447 448 2.292845 GGGTCTCTCGGTAGGAATAACG 59.707 54.545 0.00 0.00 0.00 3.18
456 457 3.170717 AGAAAACATGGGTCTCTCGGTA 58.829 45.455 0.00 0.00 0.00 4.02
491 492 6.096846 ACGCAGGAAAAGCAAAGGAATTATAT 59.903 34.615 0.00 0.00 0.00 0.86
611 612 1.002544 CCCTTCTCCAACACAGGACTC 59.997 57.143 0.00 0.00 33.19 3.36
645 646 0.944311 TCGAACGGAAGCAAGTGAGC 60.944 55.000 0.00 0.00 0.00 4.26
647 648 0.319555 CCTCGAACGGAAGCAAGTGA 60.320 55.000 0.00 0.00 0.00 3.41
648 649 1.291877 CCCTCGAACGGAAGCAAGTG 61.292 60.000 0.00 0.00 0.00 3.16
651 652 2.345991 CCCCTCGAACGGAAGCAA 59.654 61.111 0.00 0.00 0.00 3.91
653 654 3.771945 TATTGCCCCTCGAACGGAAGC 62.772 57.143 1.60 0.98 0.00 3.86
654 655 0.177141 TATTGCCCCTCGAACGGAAG 59.823 55.000 1.60 0.00 0.00 3.46
655 656 0.834612 ATATTGCCCCTCGAACGGAA 59.165 50.000 1.60 0.00 0.00 4.30
656 657 0.834612 AATATTGCCCCTCGAACGGA 59.165 50.000 1.60 0.00 0.00 4.69
657 658 1.226746 GAATATTGCCCCTCGAACGG 58.773 55.000 0.00 0.00 0.00 4.44
658 659 0.859232 CGAATATTGCCCCTCGAACG 59.141 55.000 0.00 0.00 33.13 3.95
659 660 1.865340 GACGAATATTGCCCCTCGAAC 59.135 52.381 0.00 0.00 35.34 3.95
660 661 1.483004 TGACGAATATTGCCCCTCGAA 59.517 47.619 0.00 0.00 35.34 3.71
661 662 1.068588 CTGACGAATATTGCCCCTCGA 59.931 52.381 0.00 0.00 35.34 4.04
662 663 1.502231 CTGACGAATATTGCCCCTCG 58.498 55.000 0.00 0.00 37.33 4.63
663 664 1.543429 CCCTGACGAATATTGCCCCTC 60.543 57.143 0.00 0.00 0.00 4.30
664 665 0.474184 CCCTGACGAATATTGCCCCT 59.526 55.000 0.00 0.00 0.00 4.79
665 666 0.537371 CCCCTGACGAATATTGCCCC 60.537 60.000 0.00 0.00 0.00 5.80
666 667 0.472471 TCCCCTGACGAATATTGCCC 59.528 55.000 0.00 0.00 0.00 5.36
673 674 2.125106 GCGCTTCCCCTGACGAAT 60.125 61.111 0.00 0.00 0.00 3.34
729 730 0.107410 GGTGATGATGTGCCGGGTAA 60.107 55.000 2.18 0.00 0.00 2.85
777 778 2.504367 TGGCCAGAACTAAGCTTGAAC 58.496 47.619 9.86 0.00 0.00 3.18
780 781 1.541588 GGTTGGCCAGAACTAAGCTTG 59.458 52.381 9.86 1.57 34.09 4.01
816 817 0.037046 GGGAAAAGGCATGGTGCTTG 60.037 55.000 1.64 0.00 44.28 4.01
818 819 1.978617 CGGGAAAAGGCATGGTGCT 60.979 57.895 1.64 0.00 44.28 4.40
880 1285 4.724074 TCATCAATTTCACCTTCATGGC 57.276 40.909 0.00 0.00 40.22 4.40
951 1362 7.280876 CGATTCATTTATATATGGAGGTGGTGG 59.719 40.741 3.69 0.00 0.00 4.61
952 1363 8.040727 TCGATTCATTTATATATGGAGGTGGTG 58.959 37.037 3.69 0.00 0.00 4.17
1053 1470 1.217942 TCCATGGTGGAGCTAGCTAGA 59.782 52.381 25.15 3.86 42.67 2.43
1155 1572 2.133201 TCCCCCTCCTCCTCCTCT 59.867 66.667 0.00 0.00 0.00 3.69
1206 1623 1.303091 TGTCCATCTTCTCGTCGCGA 61.303 55.000 3.71 3.71 0.00 5.87
1281 1698 4.785453 CCCTTGCTCACGGGGCTC 62.785 72.222 3.66 0.00 36.32 4.70
1365 1782 4.735132 ACACCACCGTCATCGCCG 62.735 66.667 0.00 0.00 35.54 6.46
1377 1794 2.710902 CCTCGCCTCGATGACACCA 61.711 63.158 0.00 0.00 34.61 4.17
1403 1820 4.960866 TGTGCCTGCCACTGCCAG 62.961 66.667 0.00 0.00 44.92 4.85
1488 1905 0.974383 TCCCGTTCCTGGACTTCTTC 59.026 55.000 0.00 0.00 0.00 2.87
1529 1946 2.759535 TGACTTCTGGAGCTCATCTGAG 59.240 50.000 17.19 8.73 44.75 3.35
1583 2000 5.312120 ACTATGCACACACTACTGAGTAC 57.688 43.478 0.00 0.00 33.32 2.73
1661 2081 7.530426 AAGAATACACTCTTCAGCCAAAAAT 57.470 32.000 0.00 0.00 29.31 1.82
1681 2104 9.177608 TCAAAACAAGAGAAAGATGAAGAAGAA 57.822 29.630 0.00 0.00 0.00 2.52
1760 2183 9.578439 CAAAATTTAGATGATTCTGAGGGAAAC 57.422 33.333 0.00 0.00 37.49 2.78
1879 2303 4.622701 ACTTGCTTCAGTCACAAAGAAC 57.377 40.909 0.00 0.00 0.00 3.01
1940 2364 0.675633 GCAGACAACCTTTGCCATGT 59.324 50.000 0.00 0.00 31.79 3.21
1990 2420 3.713826 TGATTTAGGTGGGTTCCTGAC 57.286 47.619 0.00 0.00 38.41 3.51
2135 2566 1.135257 GTGACCGTGATGTGAGAGGAG 60.135 57.143 0.00 0.00 0.00 3.69
2157 2590 5.685728 AGTAAGATCCCTAATTGGCAGAAC 58.314 41.667 0.00 0.00 0.00 3.01
2179 2615 2.753452 GCATCATCAGGCATGGGATTAG 59.247 50.000 0.00 0.00 32.64 1.73
2279 2725 6.959361 CCAGGAGGTTAATGTTAATTGATCG 58.041 40.000 0.00 0.00 0.00 3.69
2299 2745 1.344438 TGTCAGTGAAGTAGCACCAGG 59.656 52.381 0.00 0.00 39.59 4.45
2306 2752 2.520979 GCGCTAGTGTCAGTGAAGTAG 58.479 52.381 0.00 3.93 0.00 2.57
2312 2758 2.088763 CGTGGCGCTAGTGTCAGTG 61.089 63.158 11.63 3.11 0.00 3.66
2316 2762 1.219522 AAACACGTGGCGCTAGTGTC 61.220 55.000 26.43 0.00 46.91 3.67
2369 3565 1.369689 GTGCTTCACTGCTTGTGCG 60.370 57.895 5.71 1.93 45.81 5.34
2418 3614 5.008331 TCGTCGAATAATATCTGCCTAGGT 58.992 41.667 11.31 0.00 0.00 3.08
2421 3617 8.068380 CGATTATCGTCGAATAATATCTGCCTA 58.932 37.037 6.43 0.00 44.06 3.93
2499 3700 2.166459 GGTTTTATTGAGGCCCTTCAGC 59.834 50.000 0.00 0.00 0.00 4.26
2575 3776 6.092955 TCTGTTCAAGAATAACCGTGTAGT 57.907 37.500 0.00 0.00 29.54 2.73
2591 3792 0.535335 GCCCCAGTCGTATCTGTTCA 59.465 55.000 0.00 0.00 34.02 3.18


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

AutoCloner maintained by Alex Coulton.