Multiple sequence alignment - TraesCS1B01G273100

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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 TraesCS1B01G273100 chr1B 100.000 2618 0 0 1 2618 480325752 480328369 0.000000e+00 4835.0
1 TraesCS1B01G273100 chr1B 86.556 543 59 5 868 1410 479793091 479793619 1.040000e-163 586.0
2 TraesCS1B01G273100 chr1B 83.083 532 54 22 1415 1940 479794007 479794508 3.970000e-123 451.0
3 TraesCS1B01G273100 chr1A 92.076 1161 70 14 923 2071 457945247 457946397 0.000000e+00 1615.0
4 TraesCS1B01G273100 chr1A 87.427 517 54 4 868 1384 457372058 457372563 3.750000e-163 584.0
5 TraesCS1B01G273100 chr1A 88.942 416 28 10 230 640 457943513 457943915 5.030000e-137 497.0
6 TraesCS1B01G273100 chr1A 81.455 550 59 24 1400 1934 457372948 457373469 6.740000e-111 411.0
7 TraesCS1B01G273100 chr1A 93.443 122 8 0 113 234 457902701 457902822 5.760000e-42 182.0
8 TraesCS1B01G273100 chr1A 93.443 122 8 0 113 234 457923307 457923428 5.760000e-42 182.0
9 TraesCS1B01G273100 chr1A 82.949 217 16 9 597 800 457943948 457944156 2.680000e-40 176.0
10 TraesCS1B01G273100 chr1A 96.591 88 3 0 789 876 457945006 457945093 2.100000e-31 147.0
11 TraesCS1B01G273100 chr1A 83.436 163 18 5 2458 2618 457946870 457947025 2.720000e-30 143.0
12 TraesCS1B01G273100 chr1A 89.610 77 5 1 1452 1528 457372886 457372959 7.710000e-16 95.3
13 TraesCS1B01G273100 chr1A 91.837 49 2 2 2415 2463 457946708 457946754 1.680000e-07 67.6
14 TraesCS1B01G273100 chr1D 94.487 653 29 2 799 1445 356859145 356859796 0.000000e+00 1000.0
15 TraesCS1B01G273100 chr1D 91.643 694 44 9 2 690 356858460 356859144 0.000000e+00 948.0
16 TraesCS1B01G273100 chr1D 90.723 636 42 13 1445 2070 356860261 356860889 0.000000e+00 832.0
17 TraesCS1B01G273100 chr1D 83.562 730 76 16 874 1603 356361244 356360559 0.000000e+00 643.0
18 TraesCS1B01G273100 chr1D 82.514 549 53 26 1400 1940 356360645 356360132 2.390000e-120 442.0
19 TraesCS1B01G273100 chr1D 83.274 281 24 12 2147 2418 356860904 356861170 1.210000e-58 237.0
20 TraesCS1B01G273100 chr1D 85.057 174 13 5 2458 2618 356861366 356861539 5.800000e-37 165.0
21 TraesCS1B01G273100 chr6B 85.714 196 26 2 1014 1208 69707797 69707991 3.420000e-49 206.0
22 TraesCS1B01G273100 chr6D 87.324 71 7 2 594 663 63118198 63118129 2.160000e-11 80.5


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 TraesCS1B01G273100 chr1B 480325752 480328369 2617 False 4835.000000 4835 100.000000 1 2618 1 chr1B.!!$F1 2617
1 TraesCS1B01G273100 chr1B 479793091 479794508 1417 False 518.500000 586 84.819500 868 1940 2 chr1B.!!$F2 1072
2 TraesCS1B01G273100 chr1A 457943513 457947025 3512 False 440.933333 1615 89.305167 230 2618 6 chr1A.!!$F4 2388
3 TraesCS1B01G273100 chr1A 457372058 457373469 1411 False 363.433333 584 86.164000 868 1934 3 chr1A.!!$F3 1066
4 TraesCS1B01G273100 chr1D 356858460 356861539 3079 False 636.400000 1000 89.036800 2 2618 5 chr1D.!!$F1 2616
5 TraesCS1B01G273100 chr1D 356360132 356361244 1112 True 542.500000 643 83.038000 874 1940 2 chr1D.!!$R1 1066

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
95 96 0.180171 TTGTGGGCCCTCATATCACG 59.82 55.0 26.62 0.0 0.0 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1826 4092 0.039527 TGTCCACATCAGACGACACG 60.04 55.0 0.0 0.0 37.04 4.49 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
29 30 0.970937 TCCGAGTGATGAGGGTGTCC 60.971 60.000 0.00 0.00 0.00 4.02
82 83 0.681175 CTTTCCCTGGCTTTTGTGGG 59.319 55.000 0.00 0.00 40.95 4.61
92 93 1.683385 GCTTTTGTGGGCCCTCATATC 59.317 52.381 26.62 12.90 0.00 1.63
95 96 0.180171 TTGTGGGCCCTCATATCACG 59.820 55.000 26.62 0.00 0.00 4.35
112 113 0.623723 ACGGGTATCATGCCTTTGGT 59.376 50.000 0.00 0.00 0.00 3.67
121 122 2.362503 GCCTTTGGTGGGCCTACC 60.363 66.667 30.56 30.56 43.49 3.18
157 158 1.258445 AACACTCTAGGCCGACCCAG 61.258 60.000 0.00 0.00 36.11 4.45
158 159 1.682684 CACTCTAGGCCGACCCAGT 60.683 63.158 0.00 0.00 36.11 4.00
220 221 1.987855 TGGTTCGATTCGGGCTCCT 60.988 57.895 6.18 0.00 0.00 3.69
221 222 1.227292 GGTTCGATTCGGGCTCCTC 60.227 63.158 6.18 0.00 0.00 3.71
222 223 1.227292 GTTCGATTCGGGCTCCTCC 60.227 63.158 6.18 0.00 0.00 4.30
267 268 4.669700 ACCGGGCTCCTTAGTTTTATTTT 58.330 39.130 6.32 0.00 0.00 1.82
268 269 5.081728 ACCGGGCTCCTTAGTTTTATTTTT 58.918 37.500 6.32 0.00 0.00 1.94
326 328 6.036470 CCTGTTTGGTTTTCTTTGTCTCTTC 58.964 40.000 0.00 0.00 0.00 2.87
327 329 5.961272 TGTTTGGTTTTCTTTGTCTCTTCC 58.039 37.500 0.00 0.00 0.00 3.46
395 397 5.862924 TCGTGATTTTCCTCAAGATCAAC 57.137 39.130 0.00 0.00 30.28 3.18
440 443 8.615878 TCTTTTTCTTCAAAACCGATGATCTA 57.384 30.769 0.00 0.00 30.89 1.98
535 539 5.120674 ACTTGCTGAACTTTTTCAAAGTTGC 59.879 36.000 17.25 15.15 38.69 4.17
573 577 4.810491 TGAGGAACTTTTTCAAATTGCTGC 59.190 37.500 0.00 0.00 41.55 5.25
905 1860 7.054751 AGCCCAACTAAACAGACTATTTATCC 58.945 38.462 0.00 0.00 0.00 2.59
928 1990 2.366167 CCCCACCTCCTCCCTCAG 60.366 72.222 0.00 0.00 0.00 3.35
1012 2087 1.086634 GCGCAAGATGGGTGAGAGAC 61.087 60.000 0.30 0.00 43.02 3.36
1020 2095 0.191064 TGGGTGAGAGACTGAAGGGT 59.809 55.000 0.00 0.00 0.00 4.34
1041 2116 0.303493 CCGTGAAGTGGTTCAACGTG 59.697 55.000 0.00 0.00 44.44 4.49
1428 3216 4.753662 TACGGAGGAGGCAGCGGT 62.754 66.667 0.00 0.00 0.00 5.68
1643 3902 0.534412 CTGCCCGTCAGATCTGAGTT 59.466 55.000 25.76 0.00 45.72 3.01
1799 4060 4.394729 GTTCCAGAAGTATTGTTGGTGGA 58.605 43.478 0.00 0.00 32.76 4.02
1800 4061 4.927267 TCCAGAAGTATTGTTGGTGGAT 57.073 40.909 0.00 0.00 32.76 3.41
1802 4063 6.381498 TCCAGAAGTATTGTTGGTGGATTA 57.619 37.500 0.00 0.00 32.76 1.75
1826 4092 5.817616 TGTTCGTTCGAAGTTATCTTGTC 57.182 39.130 7.90 0.00 33.64 3.18
1859 4125 5.534278 TGATGTGGACAGACTGATCTATCTC 59.466 44.000 10.08 0.00 32.25 2.75
1875 4141 9.194972 TGATCTATCTCTATGTATTGGATGGAC 57.805 37.037 0.00 0.00 29.48 4.02
1876 4142 7.962995 TCTATCTCTATGTATTGGATGGACC 57.037 40.000 0.00 0.00 39.54 4.46
1892 4162 2.301870 TGGACCGAAGTTATGCAAGTCT 59.698 45.455 0.00 0.00 0.00 3.24
1934 4204 8.661352 TTATTGATCTCGATGAAACTTGCATA 57.339 30.769 0.00 0.00 0.00 3.14
1936 4206 6.775939 TGATCTCGATGAAACTTGCATATC 57.224 37.500 0.00 0.00 0.00 1.63
1937 4207 6.282930 TGATCTCGATGAAACTTGCATATCA 58.717 36.000 0.00 0.00 0.00 2.15
1950 4221 9.729281 AAACTTGCATATCATTTTCATTTTCCT 57.271 25.926 0.00 0.00 0.00 3.36
2025 4298 2.349590 TGGATCTTTGTGTGCATCTCG 58.650 47.619 0.00 0.00 0.00 4.04
2044 4317 2.919856 AGCGTGCTCCTCTGTGGT 60.920 61.111 0.00 0.00 37.07 4.16
2045 4318 2.031163 GCGTGCTCCTCTGTGGTT 59.969 61.111 0.00 0.00 37.07 3.67
2048 4321 0.317160 CGTGCTCCTCTGTGGTTGTA 59.683 55.000 0.00 0.00 37.07 2.41
2055 4328 1.072331 CCTCTGTGGTTGTACAGGCTT 59.928 52.381 6.12 0.00 46.26 4.35
2058 4331 2.371841 TCTGTGGTTGTACAGGCTTGAT 59.628 45.455 1.40 0.00 46.26 2.57
2071 4344 5.673514 ACAGGCTTGATTGTTCATTGTTTT 58.326 33.333 1.40 0.00 0.00 2.43
2072 4345 6.815089 ACAGGCTTGATTGTTCATTGTTTTA 58.185 32.000 1.40 0.00 0.00 1.52
2073 4346 7.444299 ACAGGCTTGATTGTTCATTGTTTTAT 58.556 30.769 1.40 0.00 0.00 1.40
2074 4347 7.385752 ACAGGCTTGATTGTTCATTGTTTTATG 59.614 33.333 1.40 0.00 0.00 1.90
2075 4348 7.385752 CAGGCTTGATTGTTCATTGTTTTATGT 59.614 33.333 0.00 0.00 0.00 2.29
2076 4349 7.385752 AGGCTTGATTGTTCATTGTTTTATGTG 59.614 33.333 0.00 0.00 0.00 3.21
2077 4350 7.384660 GGCTTGATTGTTCATTGTTTTATGTGA 59.615 33.333 0.00 0.00 0.00 3.58
2078 4351 8.216453 GCTTGATTGTTCATTGTTTTATGTGAC 58.784 33.333 0.00 0.00 0.00 3.67
2079 4352 9.467258 CTTGATTGTTCATTGTTTTATGTGACT 57.533 29.630 0.00 0.00 0.00 3.41
2080 4353 8.800231 TGATTGTTCATTGTTTTATGTGACTG 57.200 30.769 0.00 0.00 0.00 3.51
2081 4354 8.412456 TGATTGTTCATTGTTTTATGTGACTGT 58.588 29.630 0.00 0.00 0.00 3.55
2082 4355 9.248291 GATTGTTCATTGTTTTATGTGACTGTT 57.752 29.630 0.00 0.00 0.00 3.16
2083 4356 8.994429 TTGTTCATTGTTTTATGTGACTGTTT 57.006 26.923 0.00 0.00 0.00 2.83
2085 4358 9.729023 TGTTCATTGTTTTATGTGACTGTTTAG 57.271 29.630 0.00 0.00 0.00 1.85
2086 4359 9.730420 GTTCATTGTTTTATGTGACTGTTTAGT 57.270 29.630 0.00 0.00 40.66 2.24
2087 4360 9.729023 TTCATTGTTTTATGTGACTGTTTAGTG 57.271 29.630 0.00 0.00 37.25 2.74
2088 4361 8.898761 TCATTGTTTTATGTGACTGTTTAGTGT 58.101 29.630 0.00 0.00 37.25 3.55
2089 4362 8.957028 CATTGTTTTATGTGACTGTTTAGTGTG 58.043 33.333 0.00 0.00 37.25 3.82
2090 4363 7.022055 TGTTTTATGTGACTGTTTAGTGTGG 57.978 36.000 0.00 0.00 37.25 4.17
2091 4364 6.600032 TGTTTTATGTGACTGTTTAGTGTGGT 59.400 34.615 0.00 0.00 37.25 4.16
2092 4365 7.121463 TGTTTTATGTGACTGTTTAGTGTGGTT 59.879 33.333 0.00 0.00 37.25 3.67
2093 4366 6.612247 TTATGTGACTGTTTAGTGTGGTTG 57.388 37.500 0.00 0.00 37.25 3.77
2094 4367 3.275143 TGTGACTGTTTAGTGTGGTTGG 58.725 45.455 0.00 0.00 37.25 3.77
2095 4368 3.055021 TGTGACTGTTTAGTGTGGTTGGA 60.055 43.478 0.00 0.00 37.25 3.53
2096 4369 4.134563 GTGACTGTTTAGTGTGGTTGGAT 58.865 43.478 0.00 0.00 37.25 3.41
2097 4370 4.024048 GTGACTGTTTAGTGTGGTTGGATG 60.024 45.833 0.00 0.00 37.25 3.51
2098 4371 3.486383 ACTGTTTAGTGTGGTTGGATGG 58.514 45.455 0.00 0.00 35.34 3.51
2099 4372 3.137544 ACTGTTTAGTGTGGTTGGATGGA 59.862 43.478 0.00 0.00 35.34 3.41
2100 4373 4.202567 ACTGTTTAGTGTGGTTGGATGGAT 60.203 41.667 0.00 0.00 35.34 3.41
2101 4374 4.735369 TGTTTAGTGTGGTTGGATGGATT 58.265 39.130 0.00 0.00 0.00 3.01
2102 4375 4.522405 TGTTTAGTGTGGTTGGATGGATTG 59.478 41.667 0.00 0.00 0.00 2.67
2103 4376 2.978156 AGTGTGGTTGGATGGATTGT 57.022 45.000 0.00 0.00 0.00 2.71
2104 4377 2.517959 AGTGTGGTTGGATGGATTGTG 58.482 47.619 0.00 0.00 0.00 3.33
2105 4378 1.545582 GTGTGGTTGGATGGATTGTGG 59.454 52.381 0.00 0.00 0.00 4.17
2106 4379 1.426983 TGTGGTTGGATGGATTGTGGA 59.573 47.619 0.00 0.00 0.00 4.02
2108 4381 2.896685 GTGGTTGGATGGATTGTGGAAA 59.103 45.455 0.00 0.00 0.00 3.13
2119 4392 4.222366 TGGATTGTGGAAATTGCATGCTTA 59.778 37.500 20.33 7.43 0.00 3.09
2121 4394 5.063817 GGATTGTGGAAATTGCATGCTTAAC 59.936 40.000 20.33 7.70 0.00 2.01
2124 4397 6.528537 TGTGGAAATTGCATGCTTAACTAT 57.471 33.333 20.33 0.00 0.00 2.12
2125 4398 6.331845 TGTGGAAATTGCATGCTTAACTATG 58.668 36.000 20.33 0.00 0.00 2.23
2127 4400 6.473455 GTGGAAATTGCATGCTTAACTATGAC 59.527 38.462 20.33 1.95 0.00 3.06
2134 4407 5.122239 TGCATGCTTAACTATGACTGTTCAC 59.878 40.000 20.33 0.00 33.38 3.18
2274 4547 5.765510 TGAATGAACAGCCCCACTATTTAT 58.234 37.500 0.00 0.00 0.00 1.40
2277 4550 7.665559 TGAATGAACAGCCCCACTATTTATATC 59.334 37.037 0.00 0.00 0.00 1.63
2289 4562 8.307483 CCCACTATTTATATCTGTGTACTGAGG 58.693 40.741 0.00 0.00 0.00 3.86
2302 4577 4.272748 GTGTACTGAGGTCAACAAGGTTTC 59.727 45.833 0.00 0.00 0.00 2.78
2304 4579 2.093128 ACTGAGGTCAACAAGGTTTCGT 60.093 45.455 0.00 0.00 0.00 3.85
2314 4589 5.178623 TCAACAAGGTTTCGTAGCTATGTTG 59.821 40.000 19.48 19.48 44.11 3.33
2347 4622 7.001073 AGTTTCTCTATGCTTTCTGTTCCTTT 58.999 34.615 0.00 0.00 0.00 3.11
2365 4640 1.150827 TTGTCTGTCAGCTTGCATCG 58.849 50.000 0.00 0.00 0.00 3.84
2382 4657 4.049186 GCATCGTTGTTCAGTATATCGGT 58.951 43.478 0.00 0.00 0.00 4.69
2383 4658 5.217393 GCATCGTTGTTCAGTATATCGGTA 58.783 41.667 0.00 0.00 0.00 4.02
2387 4662 7.688478 TCGTTGTTCAGTATATCGGTATTTG 57.312 36.000 0.00 0.00 0.00 2.32
2388 4663 6.698329 TCGTTGTTCAGTATATCGGTATTTGG 59.302 38.462 0.00 0.00 0.00 3.28
2391 4666 7.356089 TGTTCAGTATATCGGTATTTGGAGT 57.644 36.000 0.00 0.00 0.00 3.85
2392 4667 7.788026 TGTTCAGTATATCGGTATTTGGAGTT 58.212 34.615 0.00 0.00 0.00 3.01
2412 4692 9.706691 TGGAGTTTTAATCTGTCTTACTTACAG 57.293 33.333 0.00 0.00 44.66 2.74
2446 4765 1.270839 GCCTGGCGATGGCTTCTTATA 60.271 52.381 1.35 0.00 46.38 0.98
2454 4773 5.479306 GCGATGGCTTCTTATATCCAGTAA 58.521 41.667 0.00 0.00 35.83 2.24
2478 4916 5.734855 TTTCTTTTGGTCTCTCTTTGTCG 57.265 39.130 0.00 0.00 0.00 4.35
2490 4931 4.868067 TCTCTTTGTCGTCAACCTCTTAC 58.132 43.478 0.00 0.00 32.93 2.34
2549 5000 4.096382 TCAGCTTCACCAGTTTCTTTGTTC 59.904 41.667 0.00 0.00 0.00 3.18
2556 5007 4.864247 CACCAGTTTCTTTGTTCCTGTTTG 59.136 41.667 0.00 0.00 0.00 2.93
2573 5024 8.477984 TCCTGTTTGAAGTTTCTCAAATTTTG 57.522 30.769 2.59 2.59 44.76 2.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.092348 ATCACTCGGACGACATTCGA 58.908 50.000 1.94 0.00 43.74 3.71
29 30 2.028476 TCAATCTACTCACGTGGGTTGG 60.028 50.000 28.77 19.42 41.48 3.77
38 39 4.729086 CGTACACGTCATCAATCTACTCAC 59.271 45.833 0.00 0.00 34.11 3.51
39 40 4.905269 CGTACACGTCATCAATCTACTCA 58.095 43.478 0.00 0.00 34.11 3.41
92 93 1.024271 CCAAAGGCATGATACCCGTG 58.976 55.000 0.00 0.00 34.90 4.94
95 96 1.402787 CCACCAAAGGCATGATACCC 58.597 55.000 0.00 0.00 0.00 3.69
112 113 0.270699 ATCCATACCAGGTAGGCCCA 59.729 55.000 5.68 0.00 43.14 5.36
121 122 3.652869 AGTGTTGGGGATATCCATACCAG 59.347 47.826 23.27 0.00 36.78 4.00
157 158 8.991243 AGGGTTTAAAACAACAAAAGAGTAAC 57.009 30.769 5.45 0.00 0.00 2.50
267 268 8.816144 GCATTTTTCAGTGTCACATTTTAAGAA 58.184 29.630 5.62 0.00 0.00 2.52
268 269 7.978414 TGCATTTTTCAGTGTCACATTTTAAGA 59.022 29.630 5.62 0.00 0.00 2.10
282 283 5.111293 CAGGAAACAACTGCATTTTTCAGT 58.889 37.500 10.06 0.00 45.83 3.41
406 408 9.341899 CGGTTTTGAAGAAAAAGATATCGAATT 57.658 29.630 0.00 0.00 38.43 2.17
408 410 8.090250 TCGGTTTTGAAGAAAAAGATATCGAA 57.910 30.769 0.00 0.00 38.43 3.71
410 412 8.175069 TCATCGGTTTTGAAGAAAAAGATATCG 58.825 33.333 0.00 0.00 38.43 2.92
414 416 8.115490 AGATCATCGGTTTTGAAGAAAAAGAT 57.885 30.769 0.00 0.00 38.43 2.40
415 417 7.510549 AGATCATCGGTTTTGAAGAAAAAGA 57.489 32.000 0.00 0.00 38.43 2.52
505 509 5.167845 TGAAAAAGTTCAGCAAGTTTGACC 58.832 37.500 0.00 0.00 38.88 4.02
516 520 8.953507 AAAATTGCAACTTTGAAAAAGTTCAG 57.046 26.923 13.71 6.80 44.49 3.02
535 539 8.914328 AAAGTTCCTCAATTTTGCAAAAATTG 57.086 26.923 27.10 25.91 44.65 2.32
769 863 4.146075 GCTCGCTCCAGCTGCTCT 62.146 66.667 8.66 0.00 39.32 4.09
915 1870 1.149782 TGAGGACTGAGGGAGGAGGT 61.150 60.000 0.00 0.00 0.00 3.85
916 1871 0.396974 CTGAGGACTGAGGGAGGAGG 60.397 65.000 0.00 0.00 0.00 4.30
917 1872 1.042559 GCTGAGGACTGAGGGAGGAG 61.043 65.000 0.00 0.00 0.00 3.69
918 1873 1.000993 GCTGAGGACTGAGGGAGGA 59.999 63.158 0.00 0.00 0.00 3.71
919 1874 2.063378 GGCTGAGGACTGAGGGAGG 61.063 68.421 0.00 0.00 0.00 4.30
920 1875 1.305633 TGGCTGAGGACTGAGGGAG 60.306 63.158 0.00 0.00 0.00 4.30
921 1876 1.610673 GTGGCTGAGGACTGAGGGA 60.611 63.158 0.00 0.00 0.00 4.20
928 1990 2.032681 GGTGTGGTGGCTGAGGAC 59.967 66.667 0.00 0.00 0.00 3.85
1012 2087 1.337823 CCACTTCACGGTACCCTTCAG 60.338 57.143 6.25 0.18 0.00 3.02
1020 2095 1.136695 ACGTTGAACCACTTCACGGTA 59.863 47.619 0.00 0.00 36.06 4.02
1246 2321 4.681978 GTCACCACCGCCTTCGCT 62.682 66.667 0.00 0.00 0.00 4.93
1281 2356 4.143333 CCTCCACCGTAGCCACCG 62.143 72.222 0.00 0.00 0.00 4.94
1799 4060 8.932791 ACAAGATAACTTCGAACGAACAATAAT 58.067 29.630 5.53 0.00 33.70 1.28
1800 4061 8.301730 ACAAGATAACTTCGAACGAACAATAA 57.698 30.769 5.53 0.00 33.70 1.40
1802 4063 6.399669 CGACAAGATAACTTCGAACGAACAAT 60.400 38.462 5.53 0.62 33.70 2.71
1826 4092 0.039527 TGTCCACATCAGACGACACG 60.040 55.000 0.00 0.00 37.04 4.49
1859 4125 5.215252 ACTTCGGTCCATCCAATACATAG 57.785 43.478 0.00 0.00 35.57 2.23
1875 4141 7.621991 CATAACTTAGACTTGCATAACTTCGG 58.378 38.462 0.00 0.00 0.00 4.30
1876 4142 7.010552 AGCATAACTTAGACTTGCATAACTTCG 59.989 37.037 0.00 0.00 35.79 3.79
1970 4242 6.696411 ACCTGACACTTCACAAAATGAAAAA 58.304 32.000 0.00 0.00 46.80 1.94
1980 4253 2.238646 ACTGGAAACCTGACACTTCACA 59.761 45.455 0.00 0.00 0.00 3.58
1982 4255 3.278574 CAACTGGAAACCTGACACTTCA 58.721 45.455 0.00 0.00 0.00 3.02
1984 4257 3.366052 ACAACTGGAAACCTGACACTT 57.634 42.857 0.00 0.00 0.00 3.16
2008 4281 2.625737 CTCCGAGATGCACACAAAGAT 58.374 47.619 0.00 0.00 0.00 2.40
2041 4314 3.222173 ACAATCAAGCCTGTACAACCA 57.778 42.857 0.00 0.00 0.00 3.67
2042 4315 3.568007 TGAACAATCAAGCCTGTACAACC 59.432 43.478 0.00 0.00 30.99 3.77
2044 4317 5.301551 ACAATGAACAATCAAGCCTGTACAA 59.698 36.000 0.00 0.00 39.49 2.41
2045 4318 4.826733 ACAATGAACAATCAAGCCTGTACA 59.173 37.500 0.00 0.00 39.49 2.90
2048 4321 4.942761 AACAATGAACAATCAAGCCTGT 57.057 36.364 0.00 0.00 39.49 4.00
2055 4328 8.412456 ACAGTCACATAAAACAATGAACAATCA 58.588 29.630 0.00 0.00 40.57 2.57
2058 4331 8.994429 AAACAGTCACATAAAACAATGAACAA 57.006 26.923 0.00 0.00 0.00 2.83
2071 4344 5.060506 CCAACCACACTAAACAGTCACATA 58.939 41.667 0.00 0.00 0.00 2.29
2072 4345 3.882888 CCAACCACACTAAACAGTCACAT 59.117 43.478 0.00 0.00 0.00 3.21
2073 4346 3.055021 TCCAACCACACTAAACAGTCACA 60.055 43.478 0.00 0.00 0.00 3.58
2074 4347 3.537580 TCCAACCACACTAAACAGTCAC 58.462 45.455 0.00 0.00 0.00 3.67
2075 4348 3.916359 TCCAACCACACTAAACAGTCA 57.084 42.857 0.00 0.00 0.00 3.41
2076 4349 3.502211 CCATCCAACCACACTAAACAGTC 59.498 47.826 0.00 0.00 0.00 3.51
2077 4350 3.137544 TCCATCCAACCACACTAAACAGT 59.862 43.478 0.00 0.00 0.00 3.55
2078 4351 3.750371 TCCATCCAACCACACTAAACAG 58.250 45.455 0.00 0.00 0.00 3.16
2079 4352 3.866703 TCCATCCAACCACACTAAACA 57.133 42.857 0.00 0.00 0.00 2.83
2080 4353 4.522789 ACAATCCATCCAACCACACTAAAC 59.477 41.667 0.00 0.00 0.00 2.01
2081 4354 4.522405 CACAATCCATCCAACCACACTAAA 59.478 41.667 0.00 0.00 0.00 1.85
2082 4355 4.078537 CACAATCCATCCAACCACACTAA 58.921 43.478 0.00 0.00 0.00 2.24
2083 4356 3.561097 CCACAATCCATCCAACCACACTA 60.561 47.826 0.00 0.00 0.00 2.74
2084 4357 2.517959 CACAATCCATCCAACCACACT 58.482 47.619 0.00 0.00 0.00 3.55
2085 4358 1.545582 CCACAATCCATCCAACCACAC 59.454 52.381 0.00 0.00 0.00 3.82
2086 4359 1.426983 TCCACAATCCATCCAACCACA 59.573 47.619 0.00 0.00 0.00 4.17
2087 4360 2.214376 TCCACAATCCATCCAACCAC 57.786 50.000 0.00 0.00 0.00 4.16
2088 4361 2.988636 TTCCACAATCCATCCAACCA 57.011 45.000 0.00 0.00 0.00 3.67
2089 4362 4.506758 CAATTTCCACAATCCATCCAACC 58.493 43.478 0.00 0.00 0.00 3.77
2090 4363 3.934579 GCAATTTCCACAATCCATCCAAC 59.065 43.478 0.00 0.00 0.00 3.77
2091 4364 3.581770 TGCAATTTCCACAATCCATCCAA 59.418 39.130 0.00 0.00 0.00 3.53
2092 4365 3.171528 TGCAATTTCCACAATCCATCCA 58.828 40.909 0.00 0.00 0.00 3.41
2093 4366 3.891422 TGCAATTTCCACAATCCATCC 57.109 42.857 0.00 0.00 0.00 3.51
2094 4367 3.558418 GCATGCAATTTCCACAATCCATC 59.442 43.478 14.21 0.00 0.00 3.51
2095 4368 3.199071 AGCATGCAATTTCCACAATCCAT 59.801 39.130 21.98 0.00 0.00 3.41
2096 4369 2.568062 AGCATGCAATTTCCACAATCCA 59.432 40.909 21.98 0.00 0.00 3.41
2097 4370 3.255969 AGCATGCAATTTCCACAATCC 57.744 42.857 21.98 0.00 0.00 3.01
2098 4371 5.870978 AGTTAAGCATGCAATTTCCACAATC 59.129 36.000 21.98 0.00 0.00 2.67
2099 4372 5.797051 AGTTAAGCATGCAATTTCCACAAT 58.203 33.333 21.98 0.00 0.00 2.71
2100 4373 5.212532 AGTTAAGCATGCAATTTCCACAA 57.787 34.783 21.98 0.00 0.00 3.33
2101 4374 4.870123 AGTTAAGCATGCAATTTCCACA 57.130 36.364 21.98 0.00 0.00 4.17
2102 4375 6.473455 GTCATAGTTAAGCATGCAATTTCCAC 59.527 38.462 21.98 6.41 0.00 4.02
2103 4376 6.377996 AGTCATAGTTAAGCATGCAATTTCCA 59.622 34.615 21.98 0.00 0.00 3.53
2104 4377 6.694411 CAGTCATAGTTAAGCATGCAATTTCC 59.306 38.462 21.98 2.17 0.00 3.13
2105 4378 7.253422 ACAGTCATAGTTAAGCATGCAATTTC 58.747 34.615 21.98 6.15 0.00 2.17
2106 4379 7.161773 ACAGTCATAGTTAAGCATGCAATTT 57.838 32.000 21.98 8.25 0.00 1.82
2108 4381 6.375174 TGAACAGTCATAGTTAAGCATGCAAT 59.625 34.615 21.98 10.97 0.00 3.56
2231 4504 9.517868 TCATTCATGCATCAAACATATATACCA 57.482 29.630 0.00 0.00 0.00 3.25
2235 4508 9.908152 CTGTTCATTCATGCATCAAACATATAT 57.092 29.630 0.00 0.00 0.00 0.86
2236 4509 7.863877 GCTGTTCATTCATGCATCAAACATATA 59.136 33.333 0.00 0.00 0.00 0.86
2237 4510 6.700081 GCTGTTCATTCATGCATCAAACATAT 59.300 34.615 0.00 0.00 0.00 1.78
2238 4511 6.037726 GCTGTTCATTCATGCATCAAACATA 58.962 36.000 0.00 0.00 0.00 2.29
2239 4512 4.868171 GCTGTTCATTCATGCATCAAACAT 59.132 37.500 0.00 0.00 0.00 2.71
2240 4513 4.239304 GCTGTTCATTCATGCATCAAACA 58.761 39.130 0.00 2.73 0.00 2.83
2241 4514 3.615496 GGCTGTTCATTCATGCATCAAAC 59.385 43.478 0.00 0.00 0.00 2.93
2274 4547 5.047306 CCTTGTTGACCTCAGTACACAGATA 60.047 44.000 0.00 0.00 0.00 1.98
2277 4550 3.181465 ACCTTGTTGACCTCAGTACACAG 60.181 47.826 0.00 0.00 0.00 3.66
2289 4562 4.689345 ACATAGCTACGAAACCTTGTTGAC 59.311 41.667 0.00 0.00 0.00 3.18
2293 4566 4.451096 CACAACATAGCTACGAAACCTTGT 59.549 41.667 0.00 0.00 0.00 3.16
2294 4567 4.669197 GCACAACATAGCTACGAAACCTTG 60.669 45.833 0.00 0.00 0.00 3.61
2302 4577 4.174009 ACTGTAAGCACAACATAGCTACG 58.826 43.478 0.00 0.00 40.90 3.51
2304 4579 6.464222 AGAAACTGTAAGCACAACATAGCTA 58.536 36.000 0.00 0.00 40.90 3.32
2314 4589 6.370166 AGAAAGCATAGAGAAACTGTAAGCAC 59.630 38.462 0.00 0.00 37.60 4.40
2347 4622 0.033920 ACGATGCAAGCTGACAGACA 59.966 50.000 6.65 0.00 0.00 3.41
2365 4640 7.709613 ACTCCAAATACCGATATACTGAACAAC 59.290 37.037 0.00 0.00 0.00 3.32
2406 4686 3.373439 GGCAAGAGCTCAATGACTGTAAG 59.627 47.826 17.77 0.00 41.70 2.34
2408 4688 2.568956 AGGCAAGAGCTCAATGACTGTA 59.431 45.455 22.88 0.00 41.70 2.74
2409 4689 1.350351 AGGCAAGAGCTCAATGACTGT 59.650 47.619 22.88 4.55 41.70 3.55
2410 4690 1.738350 CAGGCAAGAGCTCAATGACTG 59.262 52.381 29.76 29.76 43.25 3.51
2411 4691 1.339824 CCAGGCAAGAGCTCAATGACT 60.340 52.381 19.19 19.19 41.70 3.41
2412 4692 1.093159 CCAGGCAAGAGCTCAATGAC 58.907 55.000 17.77 16.52 41.70 3.06
2416 4735 2.189191 ATCGCCAGGCAAGAGCTCAA 62.189 55.000 17.77 0.00 41.70 3.02
2446 4765 8.166726 AGAGAGACCAAAAGAAAATTACTGGAT 58.833 33.333 0.00 0.00 0.00 3.41
2454 4773 6.318900 ACGACAAAGAGAGACCAAAAGAAAAT 59.681 34.615 0.00 0.00 0.00 1.82
2478 4916 6.073167 GGCTAAAAACTGAGTAAGAGGTTGAC 60.073 42.308 0.00 0.00 0.00 3.18
2549 5000 8.255394 ACAAAATTTGAGAAACTTCAAACAGG 57.745 30.769 13.19 0.00 46.44 4.00
2556 5007 6.073602 GCCATGGACAAAATTTGAGAAACTTC 60.074 38.462 18.40 0.00 0.00 3.01
2573 5024 3.738830 ATAATGCAATGTGCCATGGAC 57.261 42.857 18.40 11.54 44.23 4.02


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

AutoCloner maintained by Alex Coulton.