Multiple sequence alignment - TraesCS2B01G367300

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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 TraesCS2B01G367300 chr2B 100.000 2862 0 0 1 2862 523759570 523762431 0.000000e+00 5286.0
1 TraesCS2B01G367300 chr2D 92.767 2309 82 39 575 2862 445395963 445398207 0.000000e+00 3260.0
2 TraesCS2B01G367300 chr2D 90.066 302 14 6 155 448 445394889 445395182 7.490000e-101 377.0
3 TraesCS2B01G367300 chr2D 92.903 155 9 1 1 153 445394663 445394817 1.030000e-54 224.0
4 TraesCS2B01G367300 chr2D 85.217 115 6 5 433 546 445395195 445395299 1.080000e-19 108.0
5 TraesCS2B01G367300 chr2A 90.735 2504 132 47 388 2862 587750192 587752624 0.000000e+00 3247.0
6 TraesCS2B01G367300 chr2A 90.990 1243 56 25 996 2213 610710587 610711798 0.000000e+00 1624.0
7 TraesCS2B01G367300 chr2A 94.009 701 34 7 2165 2862 610711795 610712490 0.000000e+00 1055.0
8 TraesCS2B01G367300 chr2A 88.936 235 13 5 693 927 610710342 610710563 7.810000e-71 278.0
9 TraesCS2B01G367300 chr2A 94.118 153 9 0 1 153 587742783 587742935 1.710000e-57 233.0
10 TraesCS2B01G367300 chr2A 93.694 111 5 1 45 153 610709700 610709810 6.340000e-37 165.0
11 TraesCS2B01G367300 chr2A 90.196 102 6 2 155 252 587744300 587744401 2.310000e-26 130.0
12 TraesCS2B01G367300 chr2A 84.112 107 8 2 572 678 610710255 610710352 8.440000e-16 95.3
13 TraesCS2B01G367300 chr6A 81.900 558 75 20 973 1520 398253168 398253709 5.620000e-122 448.0
14 TraesCS2B01G367300 chr6B 82.255 541 68 21 997 1520 439022262 439021733 2.620000e-120 442.0
15 TraesCS2B01G367300 chr6B 91.398 93 6 2 1192 1284 317213282 317213372 2.990000e-25 126.0
16 TraesCS2B01G367300 chr6D 82.051 546 66 25 997 1523 277100769 277100237 1.220000e-118 436.0
17 TraesCS2B01G367300 chr7B 78.571 308 41 13 1192 1496 692827474 692827189 2.270000e-41 180.0
18 TraesCS2B01G367300 chr7B 79.208 202 32 6 1298 1496 692796978 692796784 6.430000e-27 132.0
19 TraesCS2B01G367300 chr7A 78.333 300 41 10 1200 1496 709417751 709417473 3.790000e-39 172.0
20 TraesCS2B01G367300 chr7A 91.398 93 6 2 1192 1284 17370095 17370005 2.990000e-25 126.0
21 TraesCS2B01G367300 chr5A 77.922 308 43 14 1192 1496 33170970 33170685 4.900000e-38 169.0
22 TraesCS2B01G367300 chr5A 92.135 89 6 1 1196 1284 23904454 23904541 1.080000e-24 124.0
23 TraesCS2B01G367300 chr3A 77.346 309 44 8 1192 1496 617439709 617439423 2.950000e-35 159.0
24 TraesCS2B01G367300 chr3B 77.076 301 44 8 1200 1496 452907784 452907505 1.780000e-32 150.0


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 TraesCS2B01G367300 chr2B 523759570 523762431 2861 False 5286.00 5286 100.00000 1 2862 1 chr2B.!!$F1 2861
1 TraesCS2B01G367300 chr2D 445394663 445398207 3544 False 992.25 3260 90.23825 1 2862 4 chr2D.!!$F1 2861
2 TraesCS2B01G367300 chr2A 587750192 587752624 2432 False 3247.00 3247 90.73500 388 2862 1 chr2A.!!$F1 2474
3 TraesCS2B01G367300 chr2A 610709700 610712490 2790 False 643.46 1624 90.34820 45 2862 5 chr2A.!!$F3 2817
4 TraesCS2B01G367300 chr6A 398253168 398253709 541 False 448.00 448 81.90000 973 1520 1 chr6A.!!$F1 547
5 TraesCS2B01G367300 chr6B 439021733 439022262 529 True 442.00 442 82.25500 997 1520 1 chr6B.!!$R1 523
6 TraesCS2B01G367300 chr6D 277100237 277100769 532 True 436.00 436 82.05100 997 1523 1 chr6D.!!$R1 526

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
499 621 0.179250 CGTTCGTACATGCACAGCAC 60.179 55.0 0.00 0.0 43.04 4.40 F
987 1760 0.381089 CATAGCCAGCAAGCAAGCTC 59.619 55.0 11.36 0.0 44.54 4.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1759 2560 0.037326 CGGCTGTCTTGTAGAAGCCA 60.037 55.0 19.95 0.0 42.94 4.75 R
1988 2799 1.302366 TCGCCTTGCAGCTTCATATG 58.698 50.0 0.00 0.0 0.00 1.78 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
27 28 1.775344 GCAGACACGACACATCACG 59.225 57.895 0.00 0.00 0.00 4.35
79 80 0.971959 GAAATGTGGCTGGGGATGCA 60.972 55.000 0.00 0.00 0.00 3.96
80 81 0.544833 AAATGTGGCTGGGGATGCAA 60.545 50.000 0.00 0.00 0.00 4.08
85 88 2.825836 GCTGGGGATGCAACCTCG 60.826 66.667 13.30 6.66 32.13 4.63
180 253 3.188159 GGAACGCATTAGTCCATGGTA 57.812 47.619 12.58 0.00 0.00 3.25
207 280 4.371786 TCTGCTAAACCTGCGATGAATAG 58.628 43.478 0.00 0.00 0.00 1.73
209 282 3.118408 TGCTAAACCTGCGATGAATAGGT 60.118 43.478 0.00 0.00 46.38 3.08
252 329 2.027561 CCGAGTTAAATGACCAGACCCA 60.028 50.000 0.00 0.00 0.00 4.51
253 330 3.262420 CGAGTTAAATGACCAGACCCAG 58.738 50.000 0.00 0.00 0.00 4.45
254 331 3.306780 CGAGTTAAATGACCAGACCCAGT 60.307 47.826 0.00 0.00 0.00 4.00
255 332 4.003648 GAGTTAAATGACCAGACCCAGTG 58.996 47.826 0.00 0.00 0.00 3.66
256 333 3.081804 GTTAAATGACCAGACCCAGTGG 58.918 50.000 0.63 0.63 41.30 4.00
257 334 0.251341 AAATGACCAGACCCAGTGGC 60.251 55.000 2.61 0.00 38.83 5.01
258 335 2.142292 AATGACCAGACCCAGTGGCC 62.142 60.000 2.61 0.00 38.83 5.36
259 336 3.249189 GACCAGACCCAGTGGCCA 61.249 66.667 0.00 0.00 38.83 5.36
267 344 2.348998 CCAGTGGCCAGTGAGGTC 59.651 66.667 37.24 10.75 44.53 3.85
281 358 1.548973 GAGGTCGTTGTCACAGTGCG 61.549 60.000 0.00 0.00 0.00 5.34
410 502 0.603569 AGAGCACACCTAACAGTCGG 59.396 55.000 0.00 0.00 0.00 4.79
470 590 3.664410 GATGCGCGACGTGACGTTG 62.664 63.158 20.38 20.38 41.37 4.10
491 613 0.815734 AGTCTCCCCGTTCGTACATG 59.184 55.000 0.00 0.00 0.00 3.21
492 614 0.804933 GTCTCCCCGTTCGTACATGC 60.805 60.000 0.00 0.00 0.00 4.06
493 615 1.216977 CTCCCCGTTCGTACATGCA 59.783 57.895 0.00 0.00 0.00 3.96
494 616 1.079681 TCCCCGTTCGTACATGCAC 60.080 57.895 0.00 0.00 0.00 4.57
495 617 1.374885 CCCCGTTCGTACATGCACA 60.375 57.895 0.00 0.00 0.00 4.57
496 618 1.358725 CCCCGTTCGTACATGCACAG 61.359 60.000 0.00 0.00 0.00 3.66
497 619 1.419922 CCGTTCGTACATGCACAGC 59.580 57.895 0.00 0.00 0.00 4.40
498 620 1.288419 CCGTTCGTACATGCACAGCA 61.288 55.000 0.00 0.00 44.86 4.41
499 621 0.179250 CGTTCGTACATGCACAGCAC 60.179 55.000 0.00 0.00 43.04 4.40
500 622 0.865111 GTTCGTACATGCACAGCACA 59.135 50.000 0.00 0.00 43.04 4.57
501 623 1.464608 GTTCGTACATGCACAGCACAT 59.535 47.619 0.00 0.00 43.04 3.21
678 1435 2.202756 AGATTTCGCCGTCTCCGC 60.203 61.111 0.00 0.00 0.00 5.54
738 1501 1.550072 AGCCAAATCAAATTCCCGGTG 59.450 47.619 0.00 0.00 0.00 4.94
887 1650 3.827898 GTCGCCTCTCCACTCCCG 61.828 72.222 0.00 0.00 0.00 5.14
927 1695 4.285149 CAGCTAATCGGCGCACGC 62.285 66.667 10.83 6.46 43.86 5.34
928 1696 4.812476 AGCTAATCGGCGCACGCA 62.812 61.111 17.69 0.00 44.11 5.24
929 1697 4.575245 GCTAATCGGCGCACGCAC 62.575 66.667 17.69 5.45 44.11 5.34
930 1698 4.265630 CTAATCGGCGCACGCACG 62.266 66.667 17.69 16.83 44.11 5.34
970 1743 1.433879 GTGTAGAGCGAGCGACCAT 59.566 57.895 0.00 0.00 0.00 3.55
981 1754 2.828128 GCGACCATAGCCAGCAAGC 61.828 63.158 0.00 0.00 0.00 4.01
987 1760 0.381089 CATAGCCAGCAAGCAAGCTC 59.619 55.000 11.36 0.00 44.54 4.09
989 1762 4.112341 GCCAGCAAGCAAGCTCGG 62.112 66.667 0.00 7.11 44.54 4.63
1536 2331 1.381735 GGCAAGGGGCTAGGCAAAT 60.382 57.895 19.14 0.00 44.01 2.32
1556 2351 0.526662 CACGTACCACTGTCTCCCTC 59.473 60.000 0.00 0.00 0.00 4.30
1558 2353 1.654954 CGTACCACTGTCTCCCTCCG 61.655 65.000 0.00 0.00 0.00 4.63
1559 2354 0.611340 GTACCACTGTCTCCCTCCGT 60.611 60.000 0.00 0.00 0.00 4.69
1780 2581 0.037232 GCTTCTACAAGACAGCCGGT 60.037 55.000 1.90 0.00 0.00 5.28
1803 2604 1.672356 GCCAGAGCAAGAAGGCGAA 60.672 57.895 0.00 0.00 37.41 4.70
1819 2620 3.672295 GAAGGTGGAGCTGCCCGAG 62.672 68.421 1.53 0.00 34.97 4.63
1867 2668 5.567623 CGTTCCCGATCTTGGATGAGATATT 60.568 44.000 2.06 0.00 36.54 1.28
1868 2669 5.667539 TCCCGATCTTGGATGAGATATTC 57.332 43.478 0.00 0.00 36.54 1.75
1909 2713 6.704493 AGTTCGTAGTTTGTGTGATGTATGTT 59.296 34.615 0.00 0.00 0.00 2.71
1957 2768 0.749049 GCAAAGGGATTCTGCCATCC 59.251 55.000 0.00 0.00 42.09 3.51
1988 2799 0.947180 TCGCTTAGTTGCCGTGGAAC 60.947 55.000 0.00 1.07 0.00 3.62
2014 2830 2.125147 CTGCAAGGCGATTCGGGA 60.125 61.111 8.34 0.00 0.00 5.14
2015 2831 1.745115 CTGCAAGGCGATTCGGGAA 60.745 57.895 8.34 0.00 0.00 3.97
2055 2872 9.959721 AACAAGATGGTTTATCAGTGTAATACT 57.040 29.630 0.00 0.00 41.36 2.12
2056 2873 9.959721 ACAAGATGGTTTATCAGTGTAATACTT 57.040 29.630 0.00 0.00 37.60 2.24
2072 2892 9.204570 GTGTAATACTTTGAGAACATGTACTGT 57.795 33.333 0.00 0.00 40.84 3.55
2078 2898 8.179509 ACTTTGAGAACATGTACTGTACTACT 57.820 34.615 17.98 9.98 36.98 2.57
2079 2899 8.639761 ACTTTGAGAACATGTACTGTACTACTT 58.360 33.333 17.98 6.85 36.98 2.24
2080 2900 9.477484 CTTTGAGAACATGTACTGTACTACTTT 57.523 33.333 17.98 6.88 36.98 2.66
2081 2901 9.826574 TTTGAGAACATGTACTGTACTACTTTT 57.173 29.630 17.98 5.35 36.98 2.27
2082 2902 8.812147 TGAGAACATGTACTGTACTACTTTTG 57.188 34.615 17.98 8.92 36.98 2.44
2083 2903 8.635328 TGAGAACATGTACTGTACTACTTTTGA 58.365 33.333 17.98 0.00 36.98 2.69
2084 2904 9.130312 GAGAACATGTACTGTACTACTTTTGAG 57.870 37.037 17.98 1.96 36.98 3.02
2085 2905 8.088981 AGAACATGTACTGTACTACTTTTGAGG 58.911 37.037 17.98 0.91 36.98 3.86
2086 2906 6.164176 ACATGTACTGTACTACTTTTGAGGC 58.836 40.000 17.98 0.00 35.91 4.70
2087 2907 6.014499 ACATGTACTGTACTACTTTTGAGGCT 60.014 38.462 17.98 0.00 35.91 4.58
2088 2908 6.415206 TGTACTGTACTACTTTTGAGGCTT 57.585 37.500 17.98 0.00 0.00 4.35
2089 2909 6.823497 TGTACTGTACTACTTTTGAGGCTTT 58.177 36.000 17.98 0.00 0.00 3.51
2090 2910 7.277396 TGTACTGTACTACTTTTGAGGCTTTT 58.723 34.615 17.98 0.00 0.00 2.27
2091 2911 6.619801 ACTGTACTACTTTTGAGGCTTTTG 57.380 37.500 0.00 0.00 0.00 2.44
2092 2912 6.120220 ACTGTACTACTTTTGAGGCTTTTGT 58.880 36.000 0.00 0.00 0.00 2.83
2096 2916 6.378710 ACTACTTTTGAGGCTTTTGTCTTC 57.621 37.500 0.00 0.00 32.51 2.87
2097 2917 4.655762 ACTTTTGAGGCTTTTGTCTTCC 57.344 40.909 0.00 0.00 32.51 3.46
2100 2921 5.046663 ACTTTTGAGGCTTTTGTCTTCCAAA 60.047 36.000 0.00 0.00 41.25 3.28
2104 2927 5.988287 TGAGGCTTTTGTCTTCCAAATTTT 58.012 33.333 0.00 0.00 42.45 1.82
2112 2935 9.364989 CTTTTGTCTTCCAAATTTTTACTGTGA 57.635 29.630 0.00 0.00 42.45 3.58
2113 2936 9.883142 TTTTGTCTTCCAAATTTTTACTGTGAT 57.117 25.926 0.00 0.00 42.45 3.06
2114 2937 9.883142 TTTGTCTTCCAAATTTTTACTGTGATT 57.117 25.926 0.00 0.00 38.12 2.57
2115 2938 9.883142 TTGTCTTCCAAATTTTTACTGTGATTT 57.117 25.926 0.00 0.00 0.00 2.17
2116 2939 9.883142 TGTCTTCCAAATTTTTACTGTGATTTT 57.117 25.926 0.00 0.00 0.00 1.82
2127 2950 8.789881 TTTTACTGTGATTTTACATTCAACCG 57.210 30.769 0.00 0.00 0.00 4.44
2223 3091 7.158697 ACAGTACTGTAATCATGCACTTACAA 58.841 34.615 26.91 4.03 42.90 2.41
2226 3094 6.875948 ACTGTAATCATGCACTTACAACAA 57.124 33.333 15.28 0.00 37.38 2.83
2231 3099 3.550820 TCATGCACTTACAACAACCAGT 58.449 40.909 0.00 0.00 0.00 4.00
2249 3117 7.039011 ACAACCAGTGATAATGACTCTTCTACA 60.039 37.037 0.00 0.00 0.00 2.74
2255 3123 9.209175 AGTGATAATGACTCTTCTACAAACAAC 57.791 33.333 0.00 0.00 0.00 3.32
2295 3166 6.699575 AATCAACAAGTACATAAGATGGCC 57.300 37.500 0.00 0.00 33.60 5.36
2298 3169 4.568072 ACAAGTACATAAGATGGCCACA 57.432 40.909 8.16 0.00 33.60 4.17
2326 3197 0.238289 CCAACTGACGAACCACATGC 59.762 55.000 0.00 0.00 0.00 4.06
2351 3222 5.050499 CGCCAAGCAAACAAAATCATGTAAA 60.050 36.000 0.00 0.00 32.02 2.01
2365 3236 5.478233 TCATGTAAACACGCACCATAATC 57.522 39.130 0.00 0.00 0.00 1.75
2388 3259 5.758296 TCTGATTGCGATATTTCAGGTTACC 59.242 40.000 0.00 0.00 36.95 2.85
2412 3283 5.847111 ATTATGCAACATCACATGAGCTT 57.153 34.783 0.00 0.00 36.39 3.74
2440 3311 5.477984 AGATTGCAGTAAGAAAATGAAGCCA 59.522 36.000 0.00 0.00 0.00 4.75
2704 3576 0.326595 TTGCGGGTGAATCTGCCTTA 59.673 50.000 0.00 0.00 38.20 2.69
2710 3582 3.432186 CGGGTGAATCTGCCTTATCAGAA 60.432 47.826 0.00 0.00 45.17 3.02
2751 3623 1.442769 TGCTCCTCAAAATCGTCTGC 58.557 50.000 0.00 0.00 0.00 4.26
2755 3627 2.337583 TCCTCAAAATCGTCTGCTTCG 58.662 47.619 0.00 0.00 0.00 3.79
2761 3633 4.926832 TCAAAATCGTCTGCTTCGTTATCA 59.073 37.500 0.00 0.00 0.00 2.15
2762 3634 5.580691 TCAAAATCGTCTGCTTCGTTATCAT 59.419 36.000 0.00 0.00 0.00 2.45
2763 3635 6.092122 TCAAAATCGTCTGCTTCGTTATCATT 59.908 34.615 0.00 0.00 0.00 2.57
2794 3666 4.263112 GGGAGAAACTTATCCAGCCTATCC 60.263 50.000 5.53 0.00 40.30 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 2.094659 GGTGAGGCGTGATGTGTCG 61.095 63.158 0.00 0.00 0.00 4.35
27 28 2.361737 GGCCAAGGAAGGTGAGGC 60.362 66.667 0.00 0.00 44.48 4.70
85 88 1.515736 CGAGAACCTAACGGCGTCC 60.516 63.158 15.17 0.00 0.00 4.79
140 143 1.521423 CGTTCGTTGATATTCCTCGGC 59.479 52.381 0.00 0.00 0.00 5.54
145 148 2.285428 GCGTTCCGTTCGTTGATATTCC 60.285 50.000 0.00 0.00 0.00 3.01
153 156 1.723003 GACTAATGCGTTCCGTTCGTT 59.277 47.619 0.00 0.00 0.00 3.85
180 253 1.071699 TCGCAGGTTTAGCAGAGGTTT 59.928 47.619 0.00 0.00 0.00 3.27
230 307 2.007608 GGTCTGGTCATTTAACTCGGC 58.992 52.381 0.00 0.00 0.00 5.54
252 329 2.140792 AACGACCTCACTGGCCACT 61.141 57.895 0.00 0.00 40.22 4.00
253 330 1.961277 CAACGACCTCACTGGCCAC 60.961 63.158 0.00 0.00 40.22 5.01
254 331 2.377628 GACAACGACCTCACTGGCCA 62.378 60.000 4.71 4.71 40.22 5.36
255 332 1.668151 GACAACGACCTCACTGGCC 60.668 63.158 0.00 0.00 40.22 5.36
256 333 1.069090 TGACAACGACCTCACTGGC 59.931 57.895 0.00 0.00 40.22 4.85
257 334 0.104120 TGTGACAACGACCTCACTGG 59.896 55.000 10.80 0.00 38.12 4.00
258 335 1.202417 ACTGTGACAACGACCTCACTG 60.202 52.381 12.68 12.68 40.40 3.66
259 336 1.112113 ACTGTGACAACGACCTCACT 58.888 50.000 10.80 0.00 38.12 3.41
267 344 1.014044 ATAGGCGCACTGTGACAACG 61.014 55.000 12.86 6.58 0.00 4.10
269 346 0.320050 TCATAGGCGCACTGTGACAA 59.680 50.000 12.86 1.46 41.68 3.18
292 373 3.609853 ACAGGAACGTACGTAGGTCATA 58.390 45.455 23.12 0.00 0.00 2.15
302 383 3.423206 CACGAGTACAAACAGGAACGTAC 59.577 47.826 0.00 0.00 35.53 3.67
333 414 2.747822 GCGTACGCTCAGAGGACGA 61.748 63.158 31.95 0.00 38.26 4.20
410 502 2.343544 GCTGTGGTACGTTCGTGATAAC 59.656 50.000 8.14 0.00 0.00 1.89
470 590 0.962356 TGTACGAACGGGGAGACTCC 60.962 60.000 13.60 13.60 35.23 3.85
472 592 0.815734 CATGTACGAACGGGGAGACT 59.184 55.000 0.00 0.00 0.00 3.24
491 613 2.175078 CTCGTGCATGTGCTGTGC 59.825 61.111 5.68 2.27 42.66 4.57
492 614 1.785951 CTCTCGTGCATGTGCTGTG 59.214 57.895 5.68 0.91 42.66 3.66
493 615 2.031516 GCTCTCGTGCATGTGCTGT 61.032 57.895 5.68 0.00 42.66 4.40
494 616 2.747822 GGCTCTCGTGCATGTGCTG 61.748 63.158 5.68 1.64 42.66 4.41
495 617 2.435586 GGCTCTCGTGCATGTGCT 60.436 61.111 5.68 0.00 42.66 4.40
496 618 3.503363 GGGCTCTCGTGCATGTGC 61.503 66.667 5.68 8.98 42.50 4.57
497 619 3.190849 CGGGCTCTCGTGCATGTG 61.191 66.667 5.68 3.44 34.04 3.21
525 647 2.093447 TGGGGAGATCTTTCTTTCGCTC 60.093 50.000 0.00 0.00 30.30 5.03
527 649 2.010497 GTGGGGAGATCTTTCTTTCGC 58.990 52.381 0.00 0.00 30.30 4.70
887 1650 4.358851 CTGGTCGAGAAATGATGAGAGAC 58.641 47.826 0.00 0.00 0.00 3.36
927 1695 3.114616 CGGCTCAGGCTTCACGTG 61.115 66.667 9.94 9.94 38.73 4.49
928 1696 3.288308 CTCGGCTCAGGCTTCACGT 62.288 63.158 0.00 0.00 38.73 4.49
929 1697 2.507992 CTCGGCTCAGGCTTCACG 60.508 66.667 0.00 0.00 38.73 4.35
930 1698 2.817396 GCTCGGCTCAGGCTTCAC 60.817 66.667 0.00 0.00 38.73 3.18
952 1720 0.661552 TATGGTCGCTCGCTCTACAC 59.338 55.000 0.00 0.00 0.00 2.90
970 1743 1.742880 CGAGCTTGCTTGCTGGCTA 60.743 57.895 8.64 0.00 44.17 3.93
981 1754 0.036952 TGCCTTCTTCTCCGAGCTTG 60.037 55.000 0.00 0.00 0.00 4.01
986 1759 0.826715 CCTCATGCCTTCTTCTCCGA 59.173 55.000 0.00 0.00 0.00 4.55
987 1760 0.826715 TCCTCATGCCTTCTTCTCCG 59.173 55.000 0.00 0.00 0.00 4.63
989 1762 2.437281 TGGATCCTCATGCCTTCTTCTC 59.563 50.000 14.23 0.00 0.00 2.87
1170 1946 3.611674 TCCTGGCAGACGTCGCAA 61.612 61.111 25.67 17.88 0.00 4.85
1536 2331 0.111832 AGGGAGACAGTGGTACGTGA 59.888 55.000 0.00 0.00 0.00 4.35
1556 2351 3.321968 TGAGATGTATCCATGGAGAACGG 59.678 47.826 21.33 0.00 0.00 4.44
1558 2353 4.636249 GGTGAGATGTATCCATGGAGAAC 58.364 47.826 21.33 19.85 0.00 3.01
1559 2354 3.321968 CGGTGAGATGTATCCATGGAGAA 59.678 47.826 21.33 8.09 0.00 2.87
1759 2560 0.037326 CGGCTGTCTTGTAGAAGCCA 60.037 55.000 19.95 0.00 42.94 4.75
1780 2581 4.986645 TTCTTGCTCTGGCGCGCA 62.987 61.111 34.42 17.93 42.25 6.09
1819 2620 1.700600 GGTAGTCCTCGTCGTCGTCC 61.701 65.000 1.33 0.00 38.33 4.79
1883 2684 7.372714 ACATACATCACACAAACTACGAACTA 58.627 34.615 0.00 0.00 0.00 2.24
1884 2685 6.220930 ACATACATCACACAAACTACGAACT 58.779 36.000 0.00 0.00 0.00 3.01
1885 2686 6.462073 ACATACATCACACAAACTACGAAC 57.538 37.500 0.00 0.00 0.00 3.95
1886 2687 6.480651 ACAACATACATCACACAAACTACGAA 59.519 34.615 0.00 0.00 0.00 3.85
1892 2693 7.197017 TGGTTTACAACATACATCACACAAAC 58.803 34.615 0.00 0.00 0.00 2.93
1894 2695 6.944234 TGGTTTACAACATACATCACACAA 57.056 33.333 0.00 0.00 0.00 3.33
1909 2713 4.995487 TGCATACACACGTATTGGTTTACA 59.005 37.500 0.00 0.00 36.11 2.41
1943 2754 2.167075 CACAAAAGGATGGCAGAATCCC 59.833 50.000 2.00 0.00 46.40 3.85
1988 2799 1.302366 TCGCCTTGCAGCTTCATATG 58.698 50.000 0.00 0.00 0.00 1.78
2044 2861 9.424319 AGTACATGTTCTCAAAGTATTACACTG 57.576 33.333 2.30 0.00 37.63 3.66
2054 2871 9.477484 AAAGTAGTACAGTACATGTTCTCAAAG 57.523 33.333 13.37 0.00 39.96 2.77
2055 2872 9.826574 AAAAGTAGTACAGTACATGTTCTCAAA 57.173 29.630 13.37 0.00 39.96 2.69
2056 2873 9.256477 CAAAAGTAGTACAGTACATGTTCTCAA 57.744 33.333 13.37 0.00 39.96 3.02
2060 2880 7.148623 GCCTCAAAAGTAGTACAGTACATGTTC 60.149 40.741 13.37 0.00 39.96 3.18
2072 2892 6.485648 GGAAGACAAAAGCCTCAAAAGTAGTA 59.514 38.462 0.00 0.00 0.00 1.82
2073 2893 5.299531 GGAAGACAAAAGCCTCAAAAGTAGT 59.700 40.000 0.00 0.00 0.00 2.73
2074 2894 5.299279 TGGAAGACAAAAGCCTCAAAAGTAG 59.701 40.000 0.00 0.00 0.00 2.57
2075 2895 5.197451 TGGAAGACAAAAGCCTCAAAAGTA 58.803 37.500 0.00 0.00 0.00 2.24
2076 2896 4.023291 TGGAAGACAAAAGCCTCAAAAGT 58.977 39.130 0.00 0.00 0.00 2.66
2077 2897 4.654091 TGGAAGACAAAAGCCTCAAAAG 57.346 40.909 0.00 0.00 0.00 2.27
2078 2898 5.413309 TTTGGAAGACAAAAGCCTCAAAA 57.587 34.783 0.00 0.00 45.59 2.44
2089 2909 9.883142 AAATCACAGTAAAAATTTGGAAGACAA 57.117 25.926 0.00 0.00 37.28 3.18
2090 2910 9.883142 AAAATCACAGTAAAAATTTGGAAGACA 57.117 25.926 0.00 0.00 0.00 3.41
2104 2927 6.375377 GCGGTTGAATGTAAAATCACAGTAA 58.625 36.000 0.00 0.00 0.00 2.24
2112 2935 5.968528 TTACAGGCGGTTGAATGTAAAAT 57.031 34.783 0.00 0.00 35.72 1.82
2113 2936 5.067413 TGTTTACAGGCGGTTGAATGTAAAA 59.933 36.000 10.06 1.27 44.93 1.52
2114 2937 4.579340 TGTTTACAGGCGGTTGAATGTAAA 59.421 37.500 0.00 5.51 42.66 2.01
2115 2938 4.135306 TGTTTACAGGCGGTTGAATGTAA 58.865 39.130 0.00 0.00 36.59 2.41
2116 2939 3.741249 TGTTTACAGGCGGTTGAATGTA 58.259 40.909 0.00 0.00 0.00 2.29
2117 2940 2.577700 TGTTTACAGGCGGTTGAATGT 58.422 42.857 0.00 0.00 0.00 2.71
2118 2941 3.252215 TCTTGTTTACAGGCGGTTGAATG 59.748 43.478 0.00 0.00 0.00 2.67
2127 2950 1.666189 GATCGCCTCTTGTTTACAGGC 59.334 52.381 0.00 0.00 41.84 4.85
2213 3081 2.992593 TCACTGGTTGTTGTAAGTGCA 58.007 42.857 0.00 0.00 39.88 4.57
2214 3082 5.682943 TTATCACTGGTTGTTGTAAGTGC 57.317 39.130 0.00 0.00 39.88 4.40
2215 3083 7.173218 AGTCATTATCACTGGTTGTTGTAAGTG 59.827 37.037 0.00 0.00 41.11 3.16
2216 3084 7.224297 AGTCATTATCACTGGTTGTTGTAAGT 58.776 34.615 0.00 0.00 0.00 2.24
2217 3085 7.604164 AGAGTCATTATCACTGGTTGTTGTAAG 59.396 37.037 0.00 0.00 0.00 2.34
2218 3086 7.450074 AGAGTCATTATCACTGGTTGTTGTAA 58.550 34.615 0.00 0.00 0.00 2.41
2219 3087 7.004555 AGAGTCATTATCACTGGTTGTTGTA 57.995 36.000 0.00 0.00 0.00 2.41
2223 3091 6.365970 AGAAGAGTCATTATCACTGGTTGT 57.634 37.500 0.00 0.00 0.00 3.32
2226 3094 7.482169 TTGTAGAAGAGTCATTATCACTGGT 57.518 36.000 0.00 0.00 0.00 4.00
2231 3099 8.085909 TCGTTGTTTGTAGAAGAGTCATTATCA 58.914 33.333 0.00 0.00 0.00 2.15
2249 3117 7.659652 TTTCCTTTTTGTTCATTCGTTGTTT 57.340 28.000 0.00 0.00 0.00 2.83
2255 3123 7.462109 TGTTGATTTCCTTTTTGTTCATTCG 57.538 32.000 0.00 0.00 0.00 3.34
2288 3159 1.614317 GGTGTTAAGCTGTGGCCATCT 60.614 52.381 9.72 3.68 39.73 2.90
2295 3166 2.032894 CGTCAGTTGGTGTTAAGCTGTG 60.033 50.000 0.00 0.00 0.00 3.66
2298 3169 2.870411 GTTCGTCAGTTGGTGTTAAGCT 59.130 45.455 0.00 0.00 0.00 3.74
2326 3197 1.863267 TGATTTTGTTTGCTTGGCGG 58.137 45.000 0.00 0.00 0.00 6.13
2351 3222 2.355756 GCAATCAGATTATGGTGCGTGT 59.644 45.455 0.00 0.00 32.87 4.49
2365 3236 5.527214 TGGTAACCTGAAATATCGCAATCAG 59.473 40.000 0.00 0.00 39.16 2.90
2388 3259 5.588240 AGCTCATGTGATGTTGCATAATTG 58.412 37.500 0.00 0.00 34.91 2.32
2412 3283 7.627088 GCTTCATTTTCTTACTGCAATCTAGCA 60.627 37.037 0.00 0.00 43.35 3.49
2440 3311 2.496899 AGAGCATCCACCATTTTCGT 57.503 45.000 0.00 0.00 33.66 3.85
2500 3372 5.068234 TGAGAAATACTGGTAAGTGGTCG 57.932 43.478 0.00 0.00 37.19 4.79
2794 3666 2.969628 AGGAGCGTCCTTTGTATCTG 57.030 50.000 1.23 0.00 46.91 2.90


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

AutoCloner maintained by Alex Coulton.