Multiple sequence alignment - TraesCS1B01G353700

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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 TraesCS1B01G353700 chr1B 100.000 3566 0 0 1 3566 583758539 583762104 0.000000e+00 6586.0
1 TraesCS1B01G353700 chr1D 87.400 1627 92 37 1 1547 432317614 432319207 0.000000e+00 1764.0
2 TraesCS1B01G353700 chr1D 91.843 1226 34 21 2384 3566 432319976 432321178 0.000000e+00 1650.0
3 TraesCS1B01G353700 chr1D 95.946 814 27 4 1589 2396 432319214 432320027 0.000000e+00 1315.0
4 TraesCS1B01G353700 chr1D 85.577 104 14 1 1743 1846 19039915 19040017 1.350000e-19 108.0
5 TraesCS1B01G353700 chr1A 95.351 925 26 9 1455 2367 530780967 530781886 0.000000e+00 1454.0
6 TraesCS1B01G353700 chr1A 88.274 1211 49 35 2425 3566 530781887 530783073 0.000000e+00 1363.0
7 TraesCS1B01G353700 chr1A 89.036 757 34 27 732 1457 530780054 530780792 0.000000e+00 893.0
8 TraesCS1B01G353700 chr1A 82.674 531 55 21 148 653 530779408 530779926 1.520000e-118 436.0
9 TraesCS1B01G353700 chr1A 87.440 207 26 0 2134 2340 390709560 390709766 4.600000e-59 239.0
10 TraesCS1B01G353700 chr1A 100.000 28 0 0 663 690 530779952 530779979 6.000000e-03 52.8
11 TraesCS1B01G353700 chr3D 88.889 225 25 0 2116 2340 380815041 380815265 9.750000e-71 278.0
12 TraesCS1B01G353700 chr3D 81.124 249 33 10 1078 1319 380813860 380814101 1.690000e-43 187.0
13 TraesCS1B01G353700 chr3D 88.095 126 8 5 1675 1793 380814576 380814701 3.710000e-30 143.0
14 TraesCS1B01G353700 chr3A 88.889 225 25 0 2116 2340 504024827 504025051 9.750000e-71 278.0
15 TraesCS1B01G353700 chr3A 80.859 256 30 13 1078 1319 504023628 504023878 2.190000e-42 183.0
16 TraesCS1B01G353700 chr3A 86.508 126 10 5 1675 1793 504024362 504024487 8.030000e-27 132.0
17 TraesCS1B01G353700 chr3B 88.444 225 26 0 2116 2340 496615074 496615298 4.540000e-69 272.0
18 TraesCS1B01G353700 chr3B 80.784 255 32 11 1078 1319 496613883 496614133 2.190000e-42 183.0
19 TraesCS1B01G353700 chr3B 89.474 114 6 4 1675 1782 496614609 496614722 4.800000e-29 139.0
20 TraesCS1B01G353700 chr5A 89.151 212 23 0 2129 2340 696925398 696925187 7.590000e-67 265.0
21 TraesCS1B01G353700 chr4B 88.995 209 23 0 2129 2337 658212377 658212585 3.530000e-65 259.0
22 TraesCS1B01G353700 chr4D 88.208 212 25 0 2129 2340 509057231 509057020 1.640000e-63 254.0
23 TraesCS1B01G353700 chr5B 92.208 154 12 0 309 462 469155108 469154955 5.990000e-53 219.0
24 TraesCS1B01G353700 chr5B 89.764 127 8 3 309 435 472321042 472320921 1.330000e-34 158.0
25 TraesCS1B01G353700 chr6B 92.667 150 10 1 309 458 500602903 500603051 7.750000e-52 215.0
26 TraesCS1B01G353700 chr2B 88.636 176 18 2 309 484 403726771 403726944 2.790000e-51 213.0


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 TraesCS1B01G353700 chr1B 583758539 583762104 3565 False 6586.000000 6586 100.000000 1 3566 1 chr1B.!!$F1 3565
1 TraesCS1B01G353700 chr1D 432317614 432321178 3564 False 1576.333333 1764 91.729667 1 3566 3 chr1D.!!$F2 3565
2 TraesCS1B01G353700 chr1A 530779408 530783073 3665 False 839.760000 1454 91.067000 148 3566 5 chr1A.!!$F2 3418
3 TraesCS1B01G353700 chr3D 380813860 380815265 1405 False 202.666667 278 86.036000 1078 2340 3 chr3D.!!$F1 1262

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
536 562 0.179048 TCAGCCCGATGTTGCCATAG 60.179 55.0 0.00 0.00 0.00 2.23 F
784 894 0.179124 AGAATCGTTCAGCCGAGCTC 60.179 55.0 2.73 2.73 40.68 4.09 F
1386 1614 0.293723 CGTTATTCCTTCGTCGCACG 59.706 55.0 2.79 2.79 44.19 5.34 F
2377 2964 0.607217 CCTGCACCATTCTCAGCACA 60.607 55.0 0.00 0.00 32.87 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2392 2979 0.035725 TGAGAATGGTGCAGGAGCTG 60.036 55.0 0.00 0.0 42.74 4.24 R
2395 2982 0.035725 TGCTGAGAATGGTGCAGGAG 60.036 55.0 0.00 0.0 0.00 3.69 R
2396 2983 0.321919 GTGCTGAGAATGGTGCAGGA 60.322 55.0 0.00 0.0 36.03 3.86 R
3535 4215 0.110419 GATCCGATCTCTCGCACTCG 60.110 60.0 0.75 0.0 43.66 4.18 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
30 33 1.067295 ACCATTTGAGGAGGAGCACA 58.933 50.000 0.00 0.00 0.00 4.57
37 40 1.699083 TGAGGAGGAGCACAACATGAA 59.301 47.619 0.00 0.00 0.00 2.57
40 43 4.019411 TGAGGAGGAGCACAACATGAAATA 60.019 41.667 0.00 0.00 0.00 1.40
47 50 6.820656 AGGAGCACAACATGAAATACTAAGAG 59.179 38.462 0.00 0.00 0.00 2.85
50 53 6.372659 AGCACAACATGAAATACTAAGAGTGG 59.627 38.462 0.00 0.00 0.00 4.00
52 55 7.066284 GCACAACATGAAATACTAAGAGTGGAT 59.934 37.037 0.00 0.00 0.00 3.41
54 57 9.601217 ACAACATGAAATACTAAGAGTGGATAC 57.399 33.333 0.00 0.00 0.00 2.24
68 76 1.461091 GGATACAGATGGGACGGCGA 61.461 60.000 16.62 0.00 0.00 5.54
71 79 0.609151 TACAGATGGGACGGCGAAAA 59.391 50.000 16.62 0.00 0.00 2.29
72 80 0.953960 ACAGATGGGACGGCGAAAAC 60.954 55.000 16.62 0.78 0.00 2.43
100 108 1.809619 GAGCACAATGGCGCGAGTA 60.810 57.895 12.10 0.00 39.27 2.59
101 109 1.358725 GAGCACAATGGCGCGAGTAA 61.359 55.000 12.10 0.00 39.27 2.24
116 124 4.092821 CGCGAGTAAGAGATAGATGGAGAG 59.907 50.000 0.00 0.00 0.00 3.20
151 160 2.088674 GAGTGGATGGCGGCGACTAT 62.089 60.000 16.45 5.74 0.00 2.12
181 190 1.298859 GACCCACGTGGAAGCATGAC 61.299 60.000 36.07 14.05 37.39 3.06
183 192 1.302431 CCACGTGGAAGCATGACCA 60.302 57.895 31.31 0.00 37.39 4.02
197 206 4.471386 AGCATGACCAGGTAACACTCTATT 59.529 41.667 0.00 0.00 41.41 1.73
203 212 5.186198 ACCAGGTAACACTCTATTTCATGC 58.814 41.667 0.00 0.00 41.41 4.06
242 251 3.564644 CCGAGTGAGGTACATAGTCGAAT 59.435 47.826 16.94 0.00 33.78 3.34
243 252 4.528504 CGAGTGAGGTACATAGTCGAATG 58.471 47.826 12.39 0.00 33.78 2.67
244 253 4.554919 CGAGTGAGGTACATAGTCGAATGG 60.555 50.000 12.39 0.00 33.78 3.16
272 281 5.032220 CACGCATGTGTACTTCGACTATTA 58.968 41.667 12.39 0.00 41.34 0.98
275 284 5.912955 CGCATGTGTACTTCGACTATTATGA 59.087 40.000 0.00 0.00 0.00 2.15
277 286 6.144080 GCATGTGTACTTCGACTATTATGACC 59.856 42.308 0.00 0.00 0.00 4.02
293 302 1.206849 TGACCTGTTGCGAGCATCATA 59.793 47.619 8.98 0.00 33.17 2.15
314 323 4.647564 ATAATGCTACCTCCCCTTCATG 57.352 45.455 0.00 0.00 0.00 3.07
326 336 0.324552 CCTTCATGGTGCCCCAATCA 60.325 55.000 0.00 0.00 46.04 2.57
330 340 2.917897 ATGGTGCCCCAATCACGGT 61.918 57.895 0.00 0.00 46.04 4.83
343 353 1.021202 TCACGGTGGTTTTTGCAGAG 58.979 50.000 8.50 0.00 0.00 3.35
357 367 7.254084 GGTTTTTGCAGAGTGATTTTGTACAAG 60.254 37.037 8.56 0.00 0.00 3.16
360 370 6.882610 TGCAGAGTGATTTTGTACAAGAAT 57.117 33.333 8.56 11.14 0.00 2.40
377 387 6.068010 ACAAGAATCAACACAGGGTAAATCA 58.932 36.000 0.00 0.00 0.00 2.57
390 401 8.531146 CACAGGGTAAATCATCAATAAAAACCT 58.469 33.333 0.00 0.00 0.00 3.50
392 403 8.748412 CAGGGTAAATCATCAATAAAAACCTCA 58.252 33.333 0.00 0.00 0.00 3.86
512 538 5.466393 CCCATTCAAACTCACCAAAAATGAC 59.534 40.000 0.00 0.00 0.00 3.06
536 562 0.179048 TCAGCCCGATGTTGCCATAG 60.179 55.000 0.00 0.00 0.00 2.23
658 714 1.071605 CCTTTTTCTCTCTCACCGCG 58.928 55.000 0.00 0.00 0.00 6.46
784 894 0.179124 AGAATCGTTCAGCCGAGCTC 60.179 55.000 2.73 2.73 40.68 4.09
785 895 1.148759 GAATCGTTCAGCCGAGCTCC 61.149 60.000 8.47 0.00 40.68 4.70
836 946 3.670629 CTCCTCCACTCCGCTCCCT 62.671 68.421 0.00 0.00 0.00 4.20
1334 1539 7.317722 AGCCGGTAATTATTAATTCCTCTCT 57.682 36.000 1.90 0.00 32.38 3.10
1353 1558 1.072648 CTTTTTACCCTCCCGTGTCCA 59.927 52.381 0.00 0.00 0.00 4.02
1383 1611 1.268946 CGCGTTATTCCTTCGTCGC 59.731 57.895 0.00 0.00 40.19 5.19
1386 1614 0.293723 CGTTATTCCTTCGTCGCACG 59.706 55.000 2.79 2.79 44.19 5.34
1406 1639 5.723678 GCACGAATTTATCAAATTTTGGCGG 60.724 40.000 9.18 0.00 40.97 6.13
1516 1970 5.591099 TCCCGTAAATAGTAACCGATGAAC 58.409 41.667 0.00 0.00 0.00 3.18
1551 2034 5.379706 AATAGCAACCTCCTAAATGCTCT 57.620 39.130 1.95 0.00 45.49 4.09
1554 2049 2.555199 CAACCTCCTAAATGCTCTCCG 58.445 52.381 0.00 0.00 0.00 4.63
1555 2050 1.867363 ACCTCCTAAATGCTCTCCGT 58.133 50.000 0.00 0.00 0.00 4.69
1611 2106 7.116376 TCGATCACTTTATTATCATTTCCGAGC 59.884 37.037 0.00 0.00 0.00 5.03
1626 2121 4.530857 AGCTAATTCCGCGGCGCT 62.531 61.111 30.54 18.84 0.00 5.92
2080 2625 1.291877 CGCCAAGTCGTCCAAGAAGG 61.292 60.000 0.00 0.00 39.47 3.46
2166 2753 1.444553 CTGCGAGACCGACAAGACC 60.445 63.158 0.00 0.00 38.22 3.85
2348 2935 3.636231 CCAGAAGGACACCCCGCA 61.636 66.667 0.00 0.00 40.87 5.69
2349 2936 2.046892 CAGAAGGACACCCCGCAG 60.047 66.667 0.00 0.00 40.87 5.18
2377 2964 0.607217 CCTGCACCATTCTCAGCACA 60.607 55.000 0.00 0.00 32.87 4.57
2382 2969 0.957395 ACCATTCTCAGCACAAGCCG 60.957 55.000 0.00 0.00 43.56 5.52
2383 2970 1.136147 CATTCTCAGCACAAGCCGC 59.864 57.895 0.00 0.00 43.56 6.53
2384 2971 2.042831 ATTCTCAGCACAAGCCGCC 61.043 57.895 0.00 0.00 43.56 6.13
2410 2997 2.777969 CAGCTCCTGCACCATTCTC 58.222 57.895 0.00 0.00 42.74 2.87
2411 2998 0.035725 CAGCTCCTGCACCATTCTCA 60.036 55.000 0.00 0.00 42.74 3.27
2412 2999 0.252479 AGCTCCTGCACCATTCTCAG 59.748 55.000 0.00 0.00 42.74 3.35
2413 3000 1.375098 GCTCCTGCACCATTCTCAGC 61.375 60.000 0.00 0.00 39.41 4.26
2414 3001 0.035725 CTCCTGCACCATTCTCAGCA 60.036 55.000 0.00 0.00 35.43 4.41
2415 3002 0.321919 TCCTGCACCATTCTCAGCAC 60.322 55.000 0.00 0.00 32.87 4.40
2416 3003 1.310933 CCTGCACCATTCTCAGCACC 61.311 60.000 0.00 0.00 32.87 5.01
2417 3004 0.607217 CTGCACCATTCTCAGCACCA 60.607 55.000 0.00 0.00 32.87 4.17
2418 3005 0.607217 TGCACCATTCTCAGCACCAG 60.607 55.000 0.00 0.00 31.05 4.00
2419 3006 1.930908 GCACCATTCTCAGCACCAGC 61.931 60.000 0.00 0.00 42.56 4.85
2420 3007 1.001641 ACCATTCTCAGCACCAGCC 60.002 57.895 0.00 0.00 43.56 4.85
2421 3008 2.110967 CCATTCTCAGCACCAGCCG 61.111 63.158 0.00 0.00 43.56 5.52
2422 3009 2.437359 ATTCTCAGCACCAGCCGC 60.437 61.111 0.00 0.00 43.56 6.53
2423 3010 3.984193 ATTCTCAGCACCAGCCGCC 62.984 63.158 0.00 0.00 43.56 6.13
2541 3137 2.591715 ATCCGCAACCGCATAGGC 60.592 61.111 0.00 0.00 46.52 3.93
2811 3418 6.183361 CCTTAGAAACTAATCCTAGGGTGCAT 60.183 42.308 9.46 0.00 0.00 3.96
2814 3421 6.494059 AGAAACTAATCCTAGGGTGCATTTT 58.506 36.000 9.46 0.53 0.00 1.82
2815 3422 6.378280 AGAAACTAATCCTAGGGTGCATTTTG 59.622 38.462 9.46 1.33 0.00 2.44
2818 3425 5.652452 ACTAATCCTAGGGTGCATTTTGTTC 59.348 40.000 9.46 0.00 0.00 3.18
2949 3563 7.993183 AGATTCTAGAACAAGAGGAAACAACAA 59.007 33.333 7.48 0.00 0.00 2.83
3016 3634 6.272318 CAATTCTGCAAAAGTAACCAGTGAA 58.728 36.000 0.00 0.00 0.00 3.18
3168 3809 5.869649 AAACAAATGGTATGATAAGGGGC 57.130 39.130 0.00 0.00 0.00 5.80
3170 3811 4.215109 ACAAATGGTATGATAAGGGGCAC 58.785 43.478 0.00 0.00 0.00 5.01
3172 3813 0.107831 TGGTATGATAAGGGGCACGC 59.892 55.000 0.00 0.00 43.76 5.34
3173 3814 0.107831 GGTATGATAAGGGGCACGCA 59.892 55.000 0.00 0.00 46.88 5.24
3174 3815 1.226746 GTATGATAAGGGGCACGCAC 58.773 55.000 0.00 0.00 46.88 5.34
3254 3908 2.670934 CGGGCATGGCATAGGAGC 60.671 66.667 22.06 0.00 0.00 4.70
3329 3987 1.445871 GCCGTAAATTGTTCCTCGGT 58.554 50.000 0.00 0.00 40.05 4.69
3330 3988 1.129811 GCCGTAAATTGTTCCTCGGTG 59.870 52.381 0.00 0.00 40.05 4.94
3331 3989 1.129811 CCGTAAATTGTTCCTCGGTGC 59.870 52.381 0.00 0.00 34.38 5.01
3397 4062 3.255642 TCATCATCGTCAACAGTCTCACA 59.744 43.478 0.00 0.00 0.00 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 10 1.034292 GCTCCTCCTCAAATGGTGCC 61.034 60.000 0.00 0.00 35.18 5.01
30 33 9.823647 CTGTATCCACTCTTAGTATTTCATGTT 57.176 33.333 0.00 0.00 0.00 2.71
37 40 7.233757 GTCCCATCTGTATCCACTCTTAGTATT 59.766 40.741 0.00 0.00 0.00 1.89
40 43 4.896482 GTCCCATCTGTATCCACTCTTAGT 59.104 45.833 0.00 0.00 0.00 2.24
47 50 0.249911 GCCGTCCCATCTGTATCCAC 60.250 60.000 0.00 0.00 0.00 4.02
50 53 0.387929 TTCGCCGTCCCATCTGTATC 59.612 55.000 0.00 0.00 0.00 2.24
52 55 0.609151 TTTTCGCCGTCCCATCTGTA 59.391 50.000 0.00 0.00 0.00 2.74
54 57 1.794222 GTTTTCGCCGTCCCATCTG 59.206 57.895 0.00 0.00 0.00 2.90
57 60 2.030958 GTCGTTTTCGCCGTCCCAT 61.031 57.895 0.00 0.00 43.73 4.00
58 61 2.662527 GTCGTTTTCGCCGTCCCA 60.663 61.111 0.00 0.00 43.73 4.37
68 76 0.375803 GTGCTCCACAACGTCGTTTT 59.624 50.000 8.15 0.00 34.08 2.43
71 79 2.497293 TGTGCTCCACAACGTCGT 59.503 55.556 0.00 0.00 41.69 4.34
89 97 2.505405 TCTATCTCTTACTCGCGCCAT 58.495 47.619 0.00 0.00 0.00 4.40
92 100 2.484651 TCCATCTATCTCTTACTCGCGC 59.515 50.000 0.00 0.00 0.00 6.86
94 102 4.394920 CCTCTCCATCTATCTCTTACTCGC 59.605 50.000 0.00 0.00 0.00 5.03
100 108 2.109128 TCGCCCTCTCCATCTATCTCTT 59.891 50.000 0.00 0.00 0.00 2.85
101 109 1.707989 TCGCCCTCTCCATCTATCTCT 59.292 52.381 0.00 0.00 0.00 3.10
133 141 0.826256 TATAGTCGCCGCCATCCACT 60.826 55.000 0.00 0.00 0.00 4.00
135 143 0.317160 CTTATAGTCGCCGCCATCCA 59.683 55.000 0.00 0.00 0.00 3.41
170 179 1.702401 TGTTACCTGGTCATGCTTCCA 59.298 47.619 0.63 0.00 0.00 3.53
181 190 5.185454 TGCATGAAATAGAGTGTTACCTGG 58.815 41.667 0.00 0.00 0.00 4.45
183 192 6.183360 GCATTGCATGAAATAGAGTGTTACCT 60.183 38.462 3.15 0.00 0.00 3.08
256 265 6.793349 ACAGGTCATAATAGTCGAAGTACAC 58.207 40.000 0.00 0.00 0.00 2.90
263 272 3.379057 TCGCAACAGGTCATAATAGTCGA 59.621 43.478 0.00 0.00 0.00 4.20
272 281 0.036105 TGATGCTCGCAACAGGTCAT 60.036 50.000 0.00 0.00 0.00 3.06
275 284 2.627515 ATATGATGCTCGCAACAGGT 57.372 45.000 7.85 0.00 32.46 4.00
277 286 4.400845 GCATTATATGATGCTCGCAACAG 58.599 43.478 21.73 0.00 46.85 3.16
293 302 3.331889 CCATGAAGGGGAGGTAGCATTAT 59.668 47.826 0.00 0.00 0.00 1.28
322 332 2.028130 TCTGCAAAAACCACCGTGATT 58.972 42.857 0.00 0.00 0.00 2.57
326 336 0.738389 CACTCTGCAAAAACCACCGT 59.262 50.000 0.00 0.00 0.00 4.83
330 340 5.083533 ACAAAATCACTCTGCAAAAACCA 57.916 34.783 0.00 0.00 0.00 3.67
343 353 7.379529 CCTGTGTTGATTCTTGTACAAAATCAC 59.620 37.037 27.40 23.55 38.70 3.06
357 367 6.757897 TGATGATTTACCCTGTGTTGATTC 57.242 37.500 0.00 0.00 0.00 2.52
360 370 8.642935 TTTATTGATGATTTACCCTGTGTTGA 57.357 30.769 0.00 0.00 0.00 3.18
377 387 9.039165 AGATCCACATTTGAGGTTTTTATTGAT 57.961 29.630 0.00 0.00 0.00 2.57
495 521 5.130145 TGATTGGGTCATTTTTGGTGAGTTT 59.870 36.000 0.00 0.00 0.00 2.66
512 538 2.008268 GCAACATCGGGCTGATTGGG 62.008 60.000 5.96 0.00 34.13 4.12
536 562 0.807667 ATGTGCTCGTCGCCTTCATC 60.808 55.000 0.00 0.00 38.05 2.92
562 597 2.257371 CACCATGCAGTGCAGTGC 59.743 61.111 34.65 34.65 43.65 4.40
563 598 2.959372 CCACCATGCAGTGCAGTG 59.041 61.111 24.20 23.93 43.65 3.66
564 599 2.987547 GCCACCATGCAGTGCAGT 60.988 61.111 24.20 14.00 43.65 4.40
658 714 2.490509 CCTGTTAAATCGGGGTTTCACC 59.509 50.000 0.00 0.00 37.60 4.02
802 912 1.541672 GAGAGAGAGGGGAGGGGAG 59.458 68.421 0.00 0.00 0.00 4.30
803 913 2.015726 GGAGAGAGAGGGGAGGGGA 61.016 68.421 0.00 0.00 0.00 4.81
836 946 4.079327 AGAGAGAGTAGGGTTTAATCGGGA 60.079 45.833 0.00 0.00 0.00 5.14
947 1066 2.197324 CTCCTCCTCCTCCTCCCG 59.803 72.222 0.00 0.00 0.00 5.14
1353 1558 8.007716 CGAAGGAATAACGCGTGAATTAATAAT 58.992 33.333 14.98 0.00 0.00 1.28
1383 1611 5.574830 TCCGCCAAAATTTGATAAATTCGTG 59.425 36.000 7.37 3.05 40.05 4.35
1386 1614 5.802956 TCGTCCGCCAAAATTTGATAAATTC 59.197 36.000 7.37 0.00 40.05 2.17
1406 1639 4.271687 GCATTGACCGTGAATAATTCGTC 58.728 43.478 0.00 0.00 0.00 4.20
1585 2080 7.116376 GCTCGGAAATGATAATAAAGTGATCGA 59.884 37.037 0.00 0.00 0.00 3.59
1586 2081 7.116948 AGCTCGGAAATGATAATAAAGTGATCG 59.883 37.037 0.00 0.00 0.00 3.69
1587 2082 8.316640 AGCTCGGAAATGATAATAAAGTGATC 57.683 34.615 0.00 0.00 0.00 2.92
1611 2106 3.692367 CGAGCGCCGCGGAATTAG 61.692 66.667 33.48 14.81 0.00 1.73
1626 2121 1.974265 TCAGCAATGGAACCAAACGA 58.026 45.000 0.00 0.00 0.00 3.85
1632 2127 3.244976 CACGATTTTCAGCAATGGAACC 58.755 45.455 0.00 0.00 0.00 3.62
2358 2945 0.607217 TGTGCTGAGAATGGTGCAGG 60.607 55.000 0.00 0.00 36.03 4.85
2392 2979 0.035725 TGAGAATGGTGCAGGAGCTG 60.036 55.000 0.00 0.00 42.74 4.24
2393 2980 0.252479 CTGAGAATGGTGCAGGAGCT 59.748 55.000 0.00 0.00 42.74 4.09
2394 2981 1.375098 GCTGAGAATGGTGCAGGAGC 61.375 60.000 0.00 0.00 42.57 4.70
2395 2982 0.035725 TGCTGAGAATGGTGCAGGAG 60.036 55.000 0.00 0.00 0.00 3.69
2396 2983 0.321919 GTGCTGAGAATGGTGCAGGA 60.322 55.000 0.00 0.00 36.03 3.86
2397 2984 1.310933 GGTGCTGAGAATGGTGCAGG 61.311 60.000 0.00 0.00 36.03 4.85
2398 2985 0.607217 TGGTGCTGAGAATGGTGCAG 60.607 55.000 0.00 0.00 36.03 4.41
2399 2986 0.607217 CTGGTGCTGAGAATGGTGCA 60.607 55.000 0.00 0.00 0.00 4.57
2400 2987 1.930908 GCTGGTGCTGAGAATGGTGC 61.931 60.000 0.00 0.00 36.03 5.01
2401 2988 1.310933 GGCTGGTGCTGAGAATGGTG 61.311 60.000 0.00 0.00 39.59 4.17
2402 2989 1.001641 GGCTGGTGCTGAGAATGGT 60.002 57.895 0.00 0.00 39.59 3.55
2403 2990 3.915575 GGCTGGTGCTGAGAATGG 58.084 61.111 0.00 0.00 39.59 3.16
2811 3418 5.650703 AGAGAAGGAAGGAAAACGAACAAAA 59.349 36.000 0.00 0.00 0.00 2.44
2814 3421 4.417426 AGAGAAGGAAGGAAAACGAACA 57.583 40.909 0.00 0.00 0.00 3.18
2815 3422 5.057819 AGAAGAGAAGGAAGGAAAACGAAC 58.942 41.667 0.00 0.00 0.00 3.95
2818 3425 6.378710 AAAAGAAGAGAAGGAAGGAAAACG 57.621 37.500 0.00 0.00 0.00 3.60
2880 3489 6.680810 TGACTGCATTACAAGAAAATGAAGG 58.319 36.000 8.32 0.00 42.22 3.46
2949 3563 1.064621 CGTTGCTGTTTGCTGCTGT 59.935 52.632 0.00 0.00 43.37 4.40
3010 3628 5.368256 ACTAGCTTTGCTCAATTTCACTG 57.632 39.130 0.00 0.00 40.44 3.66
3254 3908 1.078848 CTTTCGCTCCCCTCCACTG 60.079 63.158 0.00 0.00 0.00 3.66
3414 4079 1.079888 GCTTTCAATTGGCCCGGTG 60.080 57.895 5.42 0.00 0.00 4.94
3533 4213 2.405191 CGATCTCTCGCACTCGCA 59.595 61.111 0.00 0.00 38.20 5.10
3534 4214 2.123988 ATCCGATCTCTCGCACTCGC 62.124 60.000 0.00 0.00 43.66 5.03
3535 4215 0.110419 GATCCGATCTCTCGCACTCG 60.110 60.000 0.75 0.00 43.66 4.18
3536 4216 0.239879 GGATCCGATCTCTCGCACTC 59.760 60.000 8.29 0.00 43.66 3.51
3537 4217 0.466372 TGGATCCGATCTCTCGCACT 60.466 55.000 7.39 0.00 43.66 4.40
3538 4218 0.385751 TTGGATCCGATCTCTCGCAC 59.614 55.000 7.39 0.00 43.66 5.34


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

AutoCloner maintained by Alex Coulton.