Multiple sequence alignment - TraesCS4A01G248000

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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 TraesCS4A01G248000 chr4A 100.000 2429 0 0 1 2429 558680673 558678245 0.000000e+00 4486.0
1 TraesCS4A01G248000 chr4B 87.990 1632 121 31 1 1579 59852914 59854523 0.000000e+00 1858.0
2 TraesCS4A01G248000 chr4B 87.826 345 27 6 2090 2429 59863320 59863654 8.140000e-105 390.0
3 TraesCS4A01G248000 chr4B 88.000 325 33 3 1575 1893 59859602 59859926 1.760000e-101 379.0
4 TraesCS4A01G248000 chr4B 85.787 197 24 4 598 793 515066954 515066761 3.170000e-49 206.0
5 TraesCS4A01G248000 chr4B 95.604 91 4 0 1918 2008 59862952 59863042 1.950000e-31 147.0
6 TraesCS4A01G248000 chr4D 90.962 863 66 4 1578 2429 40821753 40822614 0.000000e+00 1151.0
7 TraesCS4A01G248000 chr4D 89.845 581 35 10 583 1152 40819106 40819673 0.000000e+00 725.0
8 TraesCS4A01G248000 chr4D 90.343 466 30 1 1144 1594 40820626 40821091 4.470000e-167 597.0
9 TraesCS4A01G248000 chr4D 82.596 339 40 15 187 515 40818688 40819017 5.110000e-72 281.0
10 TraesCS4A01G248000 chr4D 85.787 197 24 4 598 793 418827052 418827245 3.170000e-49 206.0
11 TraesCS4A01G248000 chr4D 96.000 125 5 0 2101 2225 135002501 135002377 1.140000e-48 204.0
12 TraesCS4A01G248000 chr2B 96.094 128 5 0 2098 2225 478016579 478016706 2.450000e-50 209.0
13 TraesCS4A01G248000 chr5A 95.349 129 6 0 2097 2225 534914752 534914624 3.170000e-49 206.0
14 TraesCS4A01G248000 chr5A 87.075 147 19 0 1 147 619110660 619110806 1.490000e-37 167.0
15 TraesCS4A01G248000 chrUn 95.312 128 6 0 2098 2225 189388816 189388943 1.140000e-48 204.0
16 TraesCS4A01G248000 chrUn 96.000 125 5 0 2101 2225 370537929 370537805 1.140000e-48 204.0
17 TraesCS4A01G248000 chr7D 96.000 125 5 0 2101 2225 203560054 203559930 1.140000e-48 204.0
18 TraesCS4A01G248000 chr7D 96.000 125 5 0 2101 2225 626702222 626702098 1.140000e-48 204.0
19 TraesCS4A01G248000 chr3A 97.436 39 1 0 51 89 332581087 332581049 1.560000e-07 67.6
20 TraesCS4A01G248000 chr3B 91.667 48 3 1 49 95 595673865 595673912 5.610000e-07 65.8
21 TraesCS4A01G248000 chr3D 94.872 39 2 0 51 89 251290318 251290356 7.250000e-06 62.1


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 TraesCS4A01G248000 chr4A 558678245 558680673 2428 True 4486.000000 4486 100.000000 1 2429 1 chr4A.!!$R1 2428
1 TraesCS4A01G248000 chr4B 59852914 59854523 1609 False 1858.000000 1858 87.990000 1 1579 1 chr4B.!!$F1 1578
2 TraesCS4A01G248000 chr4B 59859602 59863654 4052 False 305.333333 390 90.476667 1575 2429 3 chr4B.!!$F2 854
3 TraesCS4A01G248000 chr4D 40818688 40822614 3926 False 688.500000 1151 88.436500 187 2429 4 chr4D.!!$F2 2242

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
209 210 1.067821 GTGTTGATAGAGAGCTCCCCG 59.932 57.143 10.93 0.0 0.0 5.73 F
1301 2352 0.321671 CAGGGTGTGTTCGAGGACAT 59.678 55.000 2.31 0.0 0.0 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1411 2484 0.178941 AGTTACACGTCCAGTCCCCT 60.179 55.000 0.0 0.0 0.00 4.79 R
2241 7226 1.607148 GGTACAACCCAAGAACAGCAC 59.393 52.381 0.0 0.0 30.04 4.40 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
23 24 6.757897 TCTTTGTCTCTCATCTTCTCTCTC 57.242 41.667 0.00 0.00 0.00 3.20
31 32 7.556275 GTCTCTCATCTTCTCTCTCTCCTAAAA 59.444 40.741 0.00 0.00 0.00 1.52
58 59 3.874383 TTCCTGTGAATTTCCTGTGGA 57.126 42.857 0.00 0.00 0.00 4.02
143 144 8.157476 AGACATGACTTGTAATTCCTACACTTT 58.843 33.333 0.00 0.00 40.33 2.66
146 147 7.739498 TGACTTGTAATTCCTACACTTTTCC 57.261 36.000 0.00 0.00 40.33 3.13
151 152 7.372451 TGTAATTCCTACACTTTTCCATTCG 57.628 36.000 0.00 0.00 35.50 3.34
153 154 5.880054 ATTCCTACACTTTTCCATTCGTG 57.120 39.130 0.00 0.00 0.00 4.35
170 171 6.349280 CCATTCGTGTGTTTTTCCTATCATGT 60.349 38.462 0.00 0.00 0.00 3.21
181 182 4.123497 TCCTATCATGTGTTCCGAACAG 57.877 45.455 14.35 3.62 43.10 3.16
197 198 3.369052 CGAACAGGGCCTTAGTGTTGATA 60.369 47.826 13.00 0.00 34.55 2.15
198 199 3.914426 ACAGGGCCTTAGTGTTGATAG 57.086 47.619 1.32 0.00 0.00 2.08
209 210 1.067821 GTGTTGATAGAGAGCTCCCCG 59.932 57.143 10.93 0.00 0.00 5.73
228 229 9.924650 GCTCCCCGTATATATTTATATTTCGAT 57.075 33.333 0.00 0.00 32.26 3.59
251 258 3.304257 GGGTGCAAAGCGATCAAGATATG 60.304 47.826 0.00 0.00 0.00 1.78
301 308 2.663602 GTGAGTGTGACATGTCATCGAC 59.336 50.000 30.10 24.16 42.18 4.20
306 313 3.066380 TGTGACATGTCATCGACCAAAG 58.934 45.455 30.10 0.00 42.18 2.77
309 316 5.109210 GTGACATGTCATCGACCAAAGATA 58.891 41.667 30.10 0.04 42.18 1.98
320 327 5.532557 TCGACCAAAGATAGCATATGAGTG 58.467 41.667 6.97 0.00 0.00 3.51
324 331 6.653020 ACCAAAGATAGCATATGAGTGTGAA 58.347 36.000 6.97 0.00 0.00 3.18
337 344 5.749596 TGAGTGTGAAAACATCATCGTTT 57.250 34.783 0.00 0.00 40.97 3.60
359 368 7.042456 CGTTTGTGAGTTCTCTAATATGATGGG 60.042 40.741 1.53 0.00 0.00 4.00
361 370 5.221722 TGTGAGTTCTCTAATATGATGGGCC 60.222 44.000 0.00 0.00 0.00 5.80
372 381 5.750352 ATATGATGGGCCATTTTTGGATC 57.250 39.130 22.20 6.51 0.00 3.36
433 447 7.821359 CCTATATGTTAGTTGATCCAGGTGATG 59.179 40.741 0.00 0.00 32.41 3.07
443 457 5.211201 TGATCCAGGTGATGTTCTCATCTA 58.789 41.667 9.15 0.00 43.78 1.98
444 458 5.662657 TGATCCAGGTGATGTTCTCATCTAA 59.337 40.000 9.15 0.00 43.78 2.10
510 524 8.759481 TTGGTTGGTTTAATGAGCATATGATA 57.241 30.769 6.97 0.00 0.00 2.15
521 595 4.400567 TGAGCATATGATATCCAGAGTCCG 59.599 45.833 6.97 0.00 0.00 4.79
610 688 3.311871 GGTGCTAGCTCACATGAGAAATG 59.688 47.826 17.23 1.05 44.74 2.32
615 693 4.634184 AGCTCACATGAGAAATGAATGC 57.366 40.909 13.15 0.00 44.74 3.56
686 764 8.749354 ACGTATGATAAGATAACTCATGCCATA 58.251 33.333 0.00 0.00 30.94 2.74
694 772 6.482524 AGATAACTCATGCCATATTCATGCT 58.517 36.000 8.98 0.00 40.69 3.79
755 833 5.118729 TCTTTCACTCAAACCCCAACTTA 57.881 39.130 0.00 0.00 0.00 2.24
794 875 5.893255 TCTGTTGCCATAAAGCTCCAAATAT 59.107 36.000 0.00 0.00 0.00 1.28
801 882 8.359642 TGCCATAAAGCTCCAAATATTGTTATC 58.640 33.333 0.00 0.00 0.00 1.75
834 922 9.982651 ATTAATTAGCTAGTGATACACGACATT 57.017 29.630 0.00 0.00 39.64 2.71
897 986 3.071479 CAACCATAGTTACAACGCCAGT 58.929 45.455 0.00 0.00 33.27 4.00
910 999 2.747855 CCAGTTGGCGCTCTTCCC 60.748 66.667 7.64 0.00 0.00 3.97
911 1000 2.032528 CAGTTGGCGCTCTTCCCA 59.967 61.111 7.64 0.00 0.00 4.37
915 1004 1.745115 TTGGCGCTCTTCCCATTCG 60.745 57.895 7.64 0.00 0.00 3.34
916 1005 2.125106 GGCGCTCTTCCCATTCGT 60.125 61.111 7.64 0.00 0.00 3.85
994 1084 5.364735 ACATCCCATCCATTTGAAAGAATCC 59.635 40.000 0.00 0.00 0.00 3.01
1159 2210 5.973899 TTTGTCCACTAAAATATGCAGCA 57.026 34.783 0.00 0.00 0.00 4.41
1197 2248 0.530744 CCGTCGGGATGTTGAAGAGA 59.469 55.000 2.34 0.00 34.06 3.10
1207 2258 1.295792 GTTGAAGAGACGGTGTTGCA 58.704 50.000 0.00 0.00 0.00 4.08
1222 2273 3.947841 GCAACCAGTTGTCGCGCA 61.948 61.111 8.75 0.00 42.31 6.09
1298 2349 2.741092 GCAGGGTGTGTTCGAGGA 59.259 61.111 0.00 0.00 0.00 3.71
1300 2351 1.745890 CAGGGTGTGTTCGAGGACA 59.254 57.895 0.00 0.00 0.00 4.02
1301 2352 0.321671 CAGGGTGTGTTCGAGGACAT 59.678 55.000 2.31 0.00 0.00 3.06
1302 2353 0.321671 AGGGTGTGTTCGAGGACATG 59.678 55.000 2.31 0.00 0.00 3.21
1342 2409 0.327924 CAGGAAGTACACCATGGGCA 59.672 55.000 18.09 0.00 0.00 5.36
1344 2411 1.640670 AGGAAGTACACCATGGGCATT 59.359 47.619 18.09 3.11 0.00 3.56
1349 2416 0.615850 TACACCATGGGCATTGTCGA 59.384 50.000 18.09 0.00 0.00 4.20
1356 2423 2.189521 GGCATTGTCGACCCGGAT 59.810 61.111 14.12 0.00 0.00 4.18
1358 2425 2.180204 GCATTGTCGACCCGGATGG 61.180 63.158 14.12 0.00 41.37 3.51
1411 2484 1.001120 TGCCCCACTCCGATCACTA 59.999 57.895 0.00 0.00 0.00 2.74
1413 2486 1.749334 GCCCCACTCCGATCACTAGG 61.749 65.000 0.00 0.00 0.00 3.02
1417 2490 1.033574 CACTCCGATCACTAGGGGAC 58.966 60.000 0.00 0.00 0.00 4.46
1421 2494 0.106167 CCGATCACTAGGGGACTGGA 60.106 60.000 0.00 0.00 42.49 3.86
1485 2558 4.595198 CATCGATCGATGGATGAAATGG 57.405 45.455 38.63 17.57 45.89 3.16
1518 2591 2.125685 TGTGCGCATGTGTGAAAAATG 58.874 42.857 15.91 0.00 0.00 2.32
1589 3348 5.519566 TGTGCGGTGGTTATAATTAACTACG 59.480 40.000 6.37 5.29 45.65 3.51
1632 3391 2.027192 CAGAGATGAAGGAAAACCGGGA 60.027 50.000 6.32 0.00 0.00 5.14
1633 3392 2.237392 AGAGATGAAGGAAAACCGGGAG 59.763 50.000 6.32 0.00 0.00 4.30
1634 3393 2.236395 GAGATGAAGGAAAACCGGGAGA 59.764 50.000 6.32 0.00 0.00 3.71
1691 3450 1.860078 CGGGCTTTGAGTGAACGAC 59.140 57.895 0.00 0.00 0.00 4.34
1697 3456 2.607635 GCTTTGAGTGAACGACTGTGAA 59.392 45.455 0.00 0.00 33.83 3.18
1783 3543 0.187117 TGTGGGCCATTGAACCAGAA 59.813 50.000 10.70 0.00 34.39 3.02
1820 3582 2.675423 CCGTCGACCCTGTCCAGA 60.675 66.667 10.58 0.00 0.00 3.86
1858 3620 2.289756 TGGCAAAGGCACTGATTACGTA 60.290 45.455 0.00 0.00 40.86 3.57
1893 4689 3.144120 GATTCGCTTCGGCTGACGC 62.144 63.158 13.81 13.81 43.86 5.19
1988 6754 4.665451 CCCATAATAATCCAGCCATGTCA 58.335 43.478 0.00 0.00 0.00 3.58
1999 6765 1.588082 CCATGTCAGCCTGTTTGCC 59.412 57.895 0.00 0.00 0.00 4.52
2015 6781 4.401837 TGTTTGCCTTGCATATCAGCATTA 59.598 37.500 0.00 0.00 45.19 1.90
2036 6942 4.937201 AGTCTGGTGCATATAACATCGA 57.063 40.909 0.00 0.00 0.00 3.59
2054 6968 1.066136 GACGAACCGAGCAACTAACC 58.934 55.000 0.00 0.00 0.00 2.85
2075 6989 9.245481 CTAACCAAGGAGTATTCTATACTAGGG 57.755 40.741 0.00 2.93 0.00 3.53
2077 6991 7.011382 ACCAAGGAGTATTCTATACTAGGGTG 58.989 42.308 0.00 0.00 0.00 4.61
2088 7002 0.603569 ACTAGGGTGTGTGCTCTTCG 59.396 55.000 0.00 0.00 0.00 3.79
2104 7018 4.688419 CGCAAGCAGTGTTGGCCG 62.688 66.667 0.11 0.00 0.00 6.13
2117 7031 1.476488 GTTGGCCGCCATTTGTATTCT 59.524 47.619 14.30 0.00 31.53 2.40
2121 7106 1.742831 GCCGCCATTTGTATTCTGACA 59.257 47.619 0.00 0.00 0.00 3.58
2228 7213 1.526917 GCAGCTCTGGTGTTGGTGT 60.527 57.895 0.00 0.00 33.19 4.16
2244 7229 2.165437 TGGTGTGAACCAAAAGAAGTGC 59.835 45.455 0.00 0.00 36.74 4.40
2249 7234 4.105486 GTGAACCAAAAGAAGTGCTGTTC 58.895 43.478 0.00 0.00 33.15 3.18
2285 7270 6.183360 CCAAGTATGAAACCGAGTGGATTTAC 60.183 42.308 0.00 0.00 39.21 2.01
2288 7273 6.817140 AGTATGAAACCGAGTGGATTTACTTC 59.183 38.462 0.00 0.00 39.21 3.01
2291 7276 6.059484 TGAAACCGAGTGGATTTACTTCTTT 58.941 36.000 0.00 0.00 39.21 2.52
2339 7326 5.576563 TTACTGGGAATCAAAACCTCAGA 57.423 39.130 0.00 0.00 32.72 3.27
2351 7338 7.257790 TCAAAACCTCAGATGGATCTAAAGA 57.742 36.000 0.00 0.00 34.85 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 2.041485 TGGATGCTCCACAGGAAATTCA 59.959 45.455 0.00 0.00 42.67 2.57
45 46 2.726821 TGGATGCTCCACAGGAAATTC 58.273 47.619 1.25 0.00 42.67 2.17
52 53 7.961731 AACATAGTTGTTTGGATGCTCCACAG 61.962 42.308 4.59 0.00 43.57 3.66
58 59 8.574251 TTGTATAACATAGTTGTTTGGATGCT 57.426 30.769 0.00 0.00 43.57 3.79
91 92 9.747898 TTGTAGGTTCCTACATGATTGTAAAAT 57.252 29.630 25.92 0.00 45.37 1.82
97 98 6.406370 TGTCTTGTAGGTTCCTACATGATTG 58.594 40.000 31.31 19.93 46.00 2.67
129 130 6.938030 ACACGAATGGAAAAGTGTAGGAATTA 59.062 34.615 0.00 0.00 44.79 1.40
143 144 5.765677 TGATAGGAAAAACACACGAATGGAA 59.234 36.000 0.00 0.00 0.00 3.53
146 147 6.524239 CACATGATAGGAAAAACACACGAATG 59.476 38.462 0.00 0.00 0.00 2.67
151 152 6.149633 GGAACACATGATAGGAAAAACACAC 58.850 40.000 0.00 0.00 0.00 3.82
153 154 5.180492 TCGGAACACATGATAGGAAAAACAC 59.820 40.000 0.00 0.00 0.00 3.32
170 171 0.323629 CTAAGGCCCTGTTCGGAACA 59.676 55.000 21.30 21.30 39.52 3.18
181 182 3.493524 GCTCTCTATCAACACTAAGGCCC 60.494 52.174 0.00 0.00 0.00 5.80
197 198 9.884814 AATATAAATATATACGGGGAGCTCTCT 57.115 33.333 14.63 0.00 0.00 3.10
228 229 0.250684 TCTTGATCGCTTTGCACCCA 60.251 50.000 0.00 0.00 0.00 4.51
251 258 9.166126 GTTAGTGCAAAAGTGTGTTCTTATTAC 57.834 33.333 0.00 0.00 0.00 1.89
285 292 2.829741 TTGGTCGATGACATGTCACA 57.170 45.000 30.09 19.68 43.11 3.58
287 294 3.676291 TCTTTGGTCGATGACATGTCA 57.324 42.857 29.67 29.67 44.59 3.58
301 308 7.558161 TTTCACACTCATATGCTATCTTTGG 57.442 36.000 0.00 0.00 0.00 3.28
306 313 8.146479 TGATGTTTTCACACTCATATGCTATC 57.854 34.615 0.00 0.00 35.03 2.08
309 316 6.238293 CGATGATGTTTTCACACTCATATGCT 60.238 38.462 0.00 0.00 37.11 3.79
320 327 5.510671 ACTCACAAACGATGATGTTTTCAC 58.489 37.500 0.00 0.00 39.94 3.18
324 331 5.760253 AGAGAACTCACAAACGATGATGTTT 59.240 36.000 4.64 0.00 42.56 2.83
337 344 5.221722 GGCCCATCATATTAGAGAACTCACA 60.222 44.000 0.00 0.00 0.00 3.58
419 431 4.849813 ATGAGAACATCACCTGGATCAA 57.150 40.909 0.00 0.00 41.91 2.57
433 447 7.226128 TCAGCAATCATGTGATTAGATGAGAAC 59.774 37.037 15.43 0.00 42.41 3.01
443 457 2.838386 GCGTCAGCAATCATGTGATT 57.162 45.000 2.48 2.48 44.93 2.57
477 491 7.232534 TGCTCATTAAACCAACCAAGTTCTATT 59.767 33.333 0.00 0.00 0.00 1.73
478 492 6.719370 TGCTCATTAAACCAACCAAGTTCTAT 59.281 34.615 0.00 0.00 0.00 1.98
479 493 6.065374 TGCTCATTAAACCAACCAAGTTCTA 58.935 36.000 0.00 0.00 0.00 2.10
480 494 4.892934 TGCTCATTAAACCAACCAAGTTCT 59.107 37.500 0.00 0.00 0.00 3.01
510 524 0.396435 TTTGTGTGCGGACTCTGGAT 59.604 50.000 8.99 0.00 0.00 3.41
588 665 2.680312 TTCTCATGTGAGCTAGCACC 57.320 50.000 18.83 8.86 41.80 5.01
596 674 5.813080 TCTGCATTCATTTCTCATGTGAG 57.187 39.130 3.61 3.61 43.36 3.51
610 688 3.194116 TGGCATCCTTTTCTTCTGCATTC 59.806 43.478 0.00 0.00 34.56 2.67
615 693 7.068593 TGGTTTATATGGCATCCTTTTCTTCTG 59.931 37.037 1.65 0.00 0.00 3.02
689 767 3.691609 GGGTTCCTAACTTTCTCAGCATG 59.308 47.826 0.00 0.00 37.54 4.06
694 772 3.072476 CCACTGGGTTCCTAACTTTCTCA 59.928 47.826 0.00 0.00 0.00 3.27
755 833 3.434309 CAACAGAATTTGGAGGGGATGT 58.566 45.455 0.00 0.00 0.00 3.06
818 899 9.438228 TGGAAATTTTAATGTCGTGTATCACTA 57.562 29.630 0.00 0.00 31.34 2.74
819 900 8.330466 TGGAAATTTTAATGTCGTGTATCACT 57.670 30.769 0.00 0.00 31.34 3.41
821 902 9.781834 GAATGGAAATTTTAATGTCGTGTATCA 57.218 29.630 0.00 0.00 0.00 2.15
822 903 9.233232 GGAATGGAAATTTTAATGTCGTGTATC 57.767 33.333 0.00 0.00 0.00 2.24
834 922 3.754323 AGTCACGCGGAATGGAAATTTTA 59.246 39.130 12.47 0.00 0.00 1.52
878 967 3.071479 CAACTGGCGTTGTAACTATGGT 58.929 45.455 12.09 0.00 44.27 3.55
897 986 1.745115 CGAATGGGAAGAGCGCCAA 60.745 57.895 2.29 0.00 0.00 4.52
910 999 9.620660 TGCTTGTATATGTATGTACTACGAATG 57.379 33.333 0.00 0.00 32.61 2.67
994 1084 3.692593 TGAGACATGAATGCCATTCTGTG 59.307 43.478 20.01 18.27 39.96 3.66
1132 1222 6.919721 TGCATATTTTAGTGGACAAAAGGTC 58.080 36.000 0.00 0.00 46.20 3.85
1159 2210 3.543641 GGCGTACACGGGCCCTAT 61.544 66.667 22.43 4.55 43.64 2.57
1181 2232 0.530744 CCGTCTCTTCAACATCCCGA 59.469 55.000 0.00 0.00 0.00 5.14
1197 2248 0.963355 ACAACTGGTTGCAACACCGT 60.963 50.000 29.55 19.30 44.03 4.83
1207 2258 2.325082 GGATGCGCGACAACTGGTT 61.325 57.895 12.10 0.00 0.00 3.67
1271 2322 1.071471 ACACCCTGCGGAGTTTCTG 59.929 57.895 2.36 0.00 26.62 3.02
1298 2349 1.909781 CTTGGGCAACTGGGCATGT 60.910 57.895 0.00 0.00 45.66 3.21
1300 2351 2.284112 CCTTGGGCAACTGGGCAT 60.284 61.111 0.00 0.00 45.66 4.40
1301 2352 2.887738 AAACCTTGGGCAACTGGGCA 62.888 55.000 0.00 0.00 45.66 5.36
1302 2353 0.830023 TAAACCTTGGGCAACTGGGC 60.830 55.000 0.00 0.00 42.44 5.36
1356 2423 0.324738 TGGTTTCCAAGTTGCACCCA 60.325 50.000 12.26 6.28 0.00 4.51
1358 2425 1.000843 GGATGGTTTCCAAGTTGCACC 59.999 52.381 0.00 3.91 44.74 5.01
1411 2484 0.178941 AGTTACACGTCCAGTCCCCT 60.179 55.000 0.00 0.00 0.00 4.79
1413 2486 2.538512 AAAGTTACACGTCCAGTCCC 57.461 50.000 0.00 0.00 0.00 4.46
1417 2490 7.803724 AGCTATTTTTAAAGTTACACGTCCAG 58.196 34.615 0.00 0.00 0.00 3.86
1421 2494 7.642071 TCGAGCTATTTTTAAAGTTACACGT 57.358 32.000 0.00 0.00 0.00 4.49
1485 2558 1.866601 TGCGCACAGATACATGTATGC 59.133 47.619 22.93 18.97 34.69 3.14
1518 2591 1.210478 TCTAGGATGCTCTTTGGTGCC 59.790 52.381 0.00 0.00 0.00 5.01
1589 3348 2.046285 CAAACCCATGGTCCGCCTC 61.046 63.158 11.73 0.00 33.12 4.70
1632 3391 2.037620 CTTGCAGCGGGCTAGGATCT 62.038 60.000 5.05 0.00 45.15 2.75
1633 3392 1.596477 CTTGCAGCGGGCTAGGATC 60.596 63.158 5.05 0.00 45.15 3.36
1634 3393 2.507944 CTTGCAGCGGGCTAGGAT 59.492 61.111 5.05 0.00 45.15 3.24
1813 3575 3.483808 TGCAACATACTTGTCTGGACA 57.516 42.857 0.00 0.00 39.98 4.02
1820 3582 2.627221 TGCCACATTGCAACATACTTGT 59.373 40.909 0.00 0.00 38.56 3.16
1858 3620 1.216990 ATCCAAAAGCGGGAGATCCT 58.783 50.000 0.00 0.00 37.96 3.24
1893 4689 3.560068 GGGAACAATGCTTAGTACCATCG 59.440 47.826 0.00 0.00 0.00 3.84
1941 6707 6.201517 CCTTCATAAAACAATCTGCCGTATG 58.798 40.000 0.00 0.00 0.00 2.39
1999 6765 5.049612 CACCAGACTAATGCTGATATGCAAG 60.050 44.000 0.00 0.00 46.61 4.01
2015 6781 4.621991 GTCGATGTTATATGCACCAGACT 58.378 43.478 0.00 0.00 0.00 3.24
2036 6942 0.390124 TGGTTAGTTGCTCGGTTCGT 59.610 50.000 0.00 0.00 0.00 3.85
2054 6968 7.506261 ACACACCCTAGTATAGAATACTCCTTG 59.494 40.741 2.93 1.23 42.77 3.61
2104 7018 5.870978 AGCATTTTGTCAGAATACAAATGGC 59.129 36.000 13.48 13.48 45.91 4.40
2117 7031 3.295093 TCTGGGTGAAAGCATTTTGTCA 58.705 40.909 0.00 0.00 39.27 3.58
2121 7106 5.096443 TGTTTTCTGGGTGAAAGCATTTT 57.904 34.783 4.11 0.00 46.10 1.82
2129 7114 5.047566 TCAATCTCTGTTTTCTGGGTGAA 57.952 39.130 0.00 0.00 0.00 3.18
2228 7213 4.016444 AGAACAGCACTTCTTTTGGTTCA 58.984 39.130 0.00 0.00 36.52 3.18
2239 7224 2.143876 ACAACCCAAGAACAGCACTT 57.856 45.000 0.00 0.00 0.00 3.16
2241 7226 1.607148 GGTACAACCCAAGAACAGCAC 59.393 52.381 0.00 0.00 30.04 4.40


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

AutoCloner maintained by Alex Coulton.