Multiple sequence alignment - TraesCS2B01G196200

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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 TraesCS2B01G196200 chr2B 100.000 2864 0 0 492 3355 174386946 174384083 0.000000e+00 5289.0
1 TraesCS2B01G196200 chr2B 100.000 279 0 0 1 279 174387437 174387159 1.780000e-142 516.0
2 TraesCS2B01G196200 chr2B 99.170 241 2 0 1 241 39749225 39749465 5.140000e-118 435.0
3 TraesCS2B01G196200 chr2B 99.351 154 1 0 492 645 39749915 39750068 2.550000e-71 279.0
4 TraesCS2B01G196200 chr2D 89.325 2754 174 65 669 3350 120995637 120992932 0.000000e+00 3347.0
5 TraesCS2B01G196200 chr2A 90.699 1602 65 37 642 2190 125200628 125199058 0.000000e+00 2056.0
6 TraesCS2B01G196200 chr2A 89.410 1152 70 19 2249 3355 125198926 125197782 0.000000e+00 1404.0
7 TraesCS2B01G196200 chr5B 98.467 261 4 0 1 261 112256909 112257169 8.480000e-126 460.0
8 TraesCS2B01G196200 chr5D 95.926 270 9 1 1 270 565958251 565957984 1.430000e-118 436.0
9 TraesCS2B01G196200 chr7B 96.078 255 10 0 25 279 636630382 636630636 1.860000e-112 416.0
10 TraesCS2B01G196200 chr7B 93.711 159 10 0 492 650 636630661 636630819 4.330000e-59 239.0
11 TraesCS2B01G196200 chr7B 90.541 148 12 2 502 648 531602338 531602484 9.500000e-46 195.0
12 TraesCS2B01G196200 chr7B 91.150 113 9 1 25 136 111962254 111962142 5.800000e-33 152.0
13 TraesCS2B01G196200 chr7B 100.000 34 0 0 1 34 636630346 636630379 2.790000e-06 63.9
14 TraesCS2B01G196200 chr7D 92.248 258 14 4 25 279 412184378 412184124 8.850000e-96 361.0
15 TraesCS2B01G196200 chr7D 96.078 153 6 0 492 644 412184077 412183925 2.000000e-62 250.0
16 TraesCS2B01G196200 chr4A 87.190 242 28 3 29 269 374703409 374703170 4.270000e-69 272.0
17 TraesCS2B01G196200 chr1B 99.259 135 1 0 1 135 322471491 322471625 9.300000e-61 244.0
18 TraesCS2B01G196200 chr1B 98.347 121 2 0 525 645 322472013 322472133 2.620000e-51 213.0
19 TraesCS2B01G196200 chr5A 92.763 152 11 0 492 643 509954268 509954117 1.570000e-53 220.0
20 TraesCS2B01G196200 chr5A 92.105 152 12 0 494 645 452802510 452802661 7.290000e-52 215.0
21 TraesCS2B01G196200 chr3B 91.503 153 13 0 492 644 826576606 826576454 9.430000e-51 211.0
22 TraesCS2B01G196200 chr3B 91.503 153 13 0 492 644 826581689 826581537 9.430000e-51 211.0
23 TraesCS2B01G196200 chr7A 90.351 114 10 1 25 137 733093229 733093116 7.500000e-32 148.0


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 TraesCS2B01G196200 chr2B 174384083 174387437 3354 True 2902.5 5289 100.0000 1 3355 2 chr2B.!!$R1 3354
1 TraesCS2B01G196200 chr2B 39749225 39750068 843 False 357.0 435 99.2605 1 645 2 chr2B.!!$F1 644
2 TraesCS2B01G196200 chr2D 120992932 120995637 2705 True 3347.0 3347 89.3250 669 3350 1 chr2D.!!$R1 2681
3 TraesCS2B01G196200 chr2A 125197782 125200628 2846 True 1730.0 2056 90.0545 642 3355 2 chr2A.!!$R1 2713
4 TraesCS2B01G196200 chr1B 322471491 322472133 642 False 228.5 244 98.8030 1 645 2 chr1B.!!$F1 644

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
755 956 0.247736 ATCCAACTCACTCACTCGCC 59.752 55.0 0.0 0.0 0.0 5.54 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2622 2984 0.037303 CATATGCCCTCCGCCTCATT 59.963 55.0 0.0 0.0 36.24 2.57 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
211 212 2.412089 GACAGTGGTCTCCGAAAAATCG 59.588 50.000 0.00 0.00 40.99 3.34
226 227 3.659089 ATCGAACCTTCACGGCCGG 62.659 63.158 31.76 18.67 35.61 6.13
244 245 4.194720 CGAGCGGAGGGGAACGAG 62.195 72.222 0.00 0.00 0.00 4.18
245 246 3.839432 GAGCGGAGGGGAACGAGG 61.839 72.222 0.00 0.00 0.00 4.63
267 268 3.387947 GGGCGGAGAGGACGGAAA 61.388 66.667 0.00 0.00 0.00 3.13
268 269 2.125633 GGCGGAGAGGACGGAAAC 60.126 66.667 0.00 0.00 0.00 2.78
269 270 2.125633 GCGGAGAGGACGGAAACC 60.126 66.667 0.00 0.00 0.00 3.27
270 271 2.939261 GCGGAGAGGACGGAAACCA 61.939 63.158 0.00 0.00 0.00 3.67
271 272 1.080025 CGGAGAGGACGGAAACCAC 60.080 63.158 0.00 0.00 0.00 4.16
272 273 1.295746 GGAGAGGACGGAAACCACC 59.704 63.158 0.00 0.00 0.00 4.61
655 855 3.007398 GGAGGGAGTATACATCAAGCAGG 59.993 52.174 5.50 0.00 0.00 4.85
688 888 0.531974 GATGTAATTCGGCCGCCAGA 60.532 55.000 23.51 6.53 0.00 3.86
689 889 0.814010 ATGTAATTCGGCCGCCAGAC 60.814 55.000 23.51 16.20 0.00 3.51
712 913 6.890293 ACCTCTCACTCACCTATTTAATTCC 58.110 40.000 0.00 0.00 0.00 3.01
713 914 6.126739 ACCTCTCACTCACCTATTTAATTCCC 60.127 42.308 0.00 0.00 0.00 3.97
742 943 0.681243 GGACCCTTGCTCCATCCAAC 60.681 60.000 0.00 0.00 0.00 3.77
755 956 0.247736 ATCCAACTCACTCACTCGCC 59.752 55.000 0.00 0.00 0.00 5.54
783 986 1.203065 CTAGACGCGCTAGCTCTCG 59.797 63.158 19.53 15.12 40.15 4.04
912 1119 0.312102 TATCAGCTGCTCACCGATCG 59.688 55.000 9.47 8.51 0.00 3.69
999 1221 2.035321 CGCTTGAAGAGAGTAGGGATCC 59.965 54.545 1.92 1.92 0.00 3.36
1055 1277 5.354234 TGTGTGACAGTTCTTCTTCCTTTTC 59.646 40.000 0.00 0.00 0.00 2.29
1056 1278 5.586643 GTGTGACAGTTCTTCTTCCTTTTCT 59.413 40.000 0.00 0.00 0.00 2.52
1057 1279 6.761714 GTGTGACAGTTCTTCTTCCTTTTCTA 59.238 38.462 0.00 0.00 0.00 2.10
1058 1280 6.761714 TGTGACAGTTCTTCTTCCTTTTCTAC 59.238 38.462 0.00 0.00 0.00 2.59
1059 1281 5.983720 TGACAGTTCTTCTTCCTTTTCTACG 59.016 40.000 0.00 0.00 0.00 3.51
1061 1283 6.346896 ACAGTTCTTCTTCCTTTTCTACGTT 58.653 36.000 0.00 0.00 0.00 3.99
1062 1284 6.479331 ACAGTTCTTCTTCCTTTTCTACGTTC 59.521 38.462 0.00 0.00 0.00 3.95
1063 1285 6.702282 CAGTTCTTCTTCCTTTTCTACGTTCT 59.298 38.462 0.00 0.00 0.00 3.01
1064 1286 7.224949 CAGTTCTTCTTCCTTTTCTACGTTCTT 59.775 37.037 0.00 0.00 0.00 2.52
1066 1288 9.038803 GTTCTTCTTCCTTTTCTACGTTCTTTA 57.961 33.333 0.00 0.00 0.00 1.85
1067 1289 8.813643 TCTTCTTCCTTTTCTACGTTCTTTAG 57.186 34.615 0.00 0.00 0.00 1.85
1068 1290 8.419442 TCTTCTTCCTTTTCTACGTTCTTTAGT 58.581 33.333 0.00 0.00 0.00 2.24
1070 1292 8.953368 TCTTCCTTTTCTACGTTCTTTAGTTT 57.047 30.769 0.00 0.00 0.00 2.66
1071 1293 9.387257 TCTTCCTTTTCTACGTTCTTTAGTTTT 57.613 29.630 0.00 0.00 0.00 2.43
1074 1296 8.400186 TCCTTTTCTACGTTCTTTAGTTTTTGG 58.600 33.333 0.00 0.00 0.00 3.28
1076 1298 9.218359 CTTTTCTACGTTCTTTAGTTTTTGGAC 57.782 33.333 0.00 0.00 0.00 4.02
1077 1299 8.496707 TTTCTACGTTCTTTAGTTTTTGGACT 57.503 30.769 0.00 0.00 0.00 3.85
1078 1300 9.598517 TTTCTACGTTCTTTAGTTTTTGGACTA 57.401 29.630 0.00 0.00 0.00 2.59
1079 1301 8.579682 TCTACGTTCTTTAGTTTTTGGACTAC 57.420 34.615 0.00 0.00 32.12 2.73
1080 1302 8.416329 TCTACGTTCTTTAGTTTTTGGACTACT 58.584 33.333 0.00 0.00 32.12 2.57
1091 1313 0.891373 TGGACTACTGCAGCTGACTC 59.109 55.000 20.43 0.00 0.00 3.36
1108 1330 1.689273 ACTCTGCTGGTTTCGTCTTCT 59.311 47.619 0.00 0.00 0.00 2.85
1134 1356 0.321564 TCAACTGGGTGCAGAATCGG 60.322 55.000 0.00 0.00 0.00 4.18
1137 1359 1.264749 ACTGGGTGCAGAATCGGCTA 61.265 55.000 6.95 0.00 0.00 3.93
1218 1446 5.175126 CAGTAAGTCACTCGTTTCGTTTCAT 59.825 40.000 0.00 0.00 34.26 2.57
1493 1738 2.357517 CGCGCCAAGTCCAAGTCT 60.358 61.111 0.00 0.00 0.00 3.24
1649 1894 3.155167 GGGGAGTTCTCGCCGGAT 61.155 66.667 17.63 0.00 34.30 4.18
1724 1969 1.002134 CGGGGGTGTCAAGCAGAAT 60.002 57.895 0.00 0.00 0.00 2.40
1739 1984 4.734266 AGCAGAATTCCTTCAAGTTCCTT 58.266 39.130 0.65 0.00 33.56 3.36
1802 2047 0.622665 CCAGCCTCAAGGATCCAGTT 59.377 55.000 15.82 0.00 37.39 3.16
1831 2100 9.802039 AACAAAACTGGAGAAGGTAATATACAA 57.198 29.630 0.00 0.00 0.00 2.41
1907 2183 7.718272 ATTATCATGTTTTGTTATGCATGGC 57.282 32.000 10.16 2.21 39.17 4.40
2047 2323 6.240145 GTCGAGGAAGTATTACCTAGAGGAT 58.760 44.000 1.60 0.00 38.26 3.24
2059 2335 3.722101 ACCTAGAGGATAAACCAATGGGG 59.278 47.826 3.55 0.00 42.04 4.96
2098 2374 1.730487 CCACGACGAGGATGAGGAG 59.270 63.158 5.25 0.00 0.00 3.69
2099 2375 1.729470 CCACGACGAGGATGAGGAGG 61.729 65.000 5.25 0.00 0.00 4.30
2100 2376 0.748367 CACGACGAGGATGAGGAGGA 60.748 60.000 0.00 0.00 0.00 3.71
2204 2486 7.225538 CAGACTTAACTAATTAGCATGGAGTGG 59.774 40.741 12.54 2.19 0.00 4.00
2205 2487 5.823045 ACTTAACTAATTAGCATGGAGTGGC 59.177 40.000 12.54 0.00 0.00 5.01
2210 2492 0.108186 TTAGCATGGAGTGGCGACTG 60.108 55.000 5.94 0.00 30.16 3.51
2212 2494 1.153289 GCATGGAGTGGCGACTGAT 60.153 57.895 5.94 0.00 30.16 2.90
2214 2496 0.176449 CATGGAGTGGCGACTGATGA 59.824 55.000 5.94 0.00 30.16 2.92
2216 2498 0.247460 TGGAGTGGCGACTGATGAAG 59.753 55.000 5.94 0.00 30.16 3.02
2235 2580 8.047310 TGATGAAGTGATGAGTGACTACTACTA 58.953 37.037 0.00 0.00 37.25 1.82
2236 2581 7.612668 TGAAGTGATGAGTGACTACTACTAC 57.387 40.000 0.00 0.00 37.25 2.73
2237 2582 7.395617 TGAAGTGATGAGTGACTACTACTACT 58.604 38.462 0.00 0.00 37.25 2.57
2238 2583 8.537858 TGAAGTGATGAGTGACTACTACTACTA 58.462 37.037 0.00 0.00 37.25 1.82
2239 2584 8.721019 AAGTGATGAGTGACTACTACTACTAC 57.279 38.462 0.00 0.00 37.25 2.73
2240 2585 8.081517 AGTGATGAGTGACTACTACTACTACT 57.918 38.462 0.00 0.00 37.25 2.57
2242 2587 9.165035 GTGATGAGTGACTACTACTACTACTTT 57.835 37.037 0.00 0.00 37.25 2.66
2244 2589 7.375106 TGAGTGACTACTACTACTACTTTGC 57.625 40.000 0.00 0.00 37.25 3.68
2247 2602 6.941436 AGTGACTACTACTACTACTTTGCACT 59.059 38.462 0.00 0.00 34.74 4.40
2270 2625 2.799017 TGCATGCAGGAAGATTGAAGT 58.201 42.857 18.46 0.00 0.00 3.01
2289 2644 3.968649 AGTGTTTCTTTGCGTACGTAGA 58.031 40.909 17.90 13.92 0.00 2.59
2354 2712 5.105752 GCAGTCATTGTTCTAGAGGTGTAG 58.894 45.833 0.00 0.00 0.00 2.74
2355 2713 5.336849 GCAGTCATTGTTCTAGAGGTGTAGT 60.337 44.000 0.00 0.00 0.00 2.73
2356 2714 6.096036 CAGTCATTGTTCTAGAGGTGTAGTG 58.904 44.000 0.00 0.00 0.00 2.74
2357 2715 5.775701 AGTCATTGTTCTAGAGGTGTAGTGT 59.224 40.000 0.00 0.00 0.00 3.55
2358 2716 6.946583 AGTCATTGTTCTAGAGGTGTAGTGTA 59.053 38.462 0.00 0.00 0.00 2.90
2380 2738 0.721718 GCGATACCTGACACACAAGC 59.278 55.000 0.00 0.00 0.00 4.01
2389 2747 2.407090 TGACACACAAGCTCAAGATCG 58.593 47.619 0.00 0.00 0.00 3.69
2444 2802 9.841880 CTGATACGCATAGTACTATTGTATTGT 57.158 33.333 24.74 15.36 38.29 2.71
2445 2803 9.620660 TGATACGCATAGTACTATTGTATTGTG 57.379 33.333 24.74 18.23 38.29 3.33
2510 2868 5.086104 ACAGTTAGAGTTATCGTGCCAAT 57.914 39.130 0.00 0.00 0.00 3.16
2522 2880 3.726607 TCGTGCCAATTGCTGAATTTTT 58.273 36.364 0.00 0.00 42.00 1.94
2534 2892 8.851541 ATTGCTGAATTTTTGATGGTGTAAAT 57.148 26.923 0.00 0.00 0.00 1.40
2576 2938 0.528466 ATAGTGCCATCGACGCTGTG 60.528 55.000 7.74 0.00 0.00 3.66
2581 2943 1.756375 GCCATCGACGCTGTGATGAC 61.756 60.000 9.63 0.00 43.68 3.06
2622 2984 2.350293 CGATGTGTTGAACGCCAAATCA 60.350 45.455 6.40 0.00 36.36 2.57
2635 2997 1.027357 CAAATCAATGAGGCGGAGGG 58.973 55.000 0.00 0.00 0.00 4.30
2676 3038 2.248431 GTTGCACTGAACGGACGC 59.752 61.111 0.00 0.00 0.00 5.19
2717 3079 4.471025 TGATCTGCTGTTCATAGGAGGAAA 59.529 41.667 0.61 0.00 36.84 3.13
2739 3101 9.914131 GGAAATCAGTTTTCAGCTTAATTAGTT 57.086 29.630 6.34 0.00 44.67 2.24
2752 3114 9.129209 CAGCTTAATTAGTTTTACTCCTTTTGC 57.871 33.333 0.00 0.00 0.00 3.68
2753 3115 9.078990 AGCTTAATTAGTTTTACTCCTTTTGCT 57.921 29.630 0.00 0.00 0.00 3.91
2754 3116 9.692749 GCTTAATTAGTTTTACTCCTTTTGCTT 57.307 29.630 0.00 0.00 0.00 3.91
2799 3164 6.521162 TCCCTTTAATTTTTGTTTCAGAGGC 58.479 36.000 0.00 0.00 0.00 4.70
2884 3249 8.585881 GGGATACTAGATGTTGCAGTAATTAGA 58.414 37.037 0.00 0.00 0.00 2.10
2918 3293 5.438761 AAGTAAAACCTCATGTGCACTTC 57.561 39.130 19.41 0.00 0.00 3.01
2983 3362 4.114058 ACATGGTGCAATGAAAGTATGC 57.886 40.909 5.39 0.00 40.45 3.14
3150 3530 1.444119 ATTCGTGTGCGTTTGTGCCT 61.444 50.000 0.00 0.00 39.49 4.75
3211 3591 0.901124 ACTGTGCACCTTTGGCAAAA 59.099 45.000 15.69 0.00 43.91 2.44
3251 3631 3.402628 ACGAGTCCATTGCAAAGTACT 57.597 42.857 1.71 0.17 0.00 2.73
3254 3653 3.498397 CGAGTCCATTGCAAAGTACTGTT 59.502 43.478 4.53 0.00 0.00 3.16
3259 3658 7.777095 AGTCCATTGCAAAGTACTGTTAAAAA 58.223 30.769 1.71 0.00 0.00 1.94
3265 3664 6.744112 TGCAAAGTACTGTTAAAAATGGGAG 58.256 36.000 0.00 0.00 0.00 4.30
3269 3668 9.981114 CAAAGTACTGTTAAAAATGGGAGAATT 57.019 29.630 0.00 0.00 0.00 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
250 251 3.387947 TTTCCGTCCTCTCCGCCC 61.388 66.667 0.00 0.00 0.00 6.13
251 252 2.125633 GTTTCCGTCCTCTCCGCC 60.126 66.667 0.00 0.00 0.00 6.13
252 253 2.125633 GGTTTCCGTCCTCTCCGC 60.126 66.667 0.00 0.00 0.00 5.54
253 254 1.080025 GTGGTTTCCGTCCTCTCCG 60.080 63.158 0.00 0.00 0.00 4.63
254 255 1.295746 GGTGGTTTCCGTCCTCTCC 59.704 63.158 0.00 0.00 0.00 3.71
255 256 1.080025 CGGTGGTTTCCGTCCTCTC 60.080 63.158 0.00 0.00 44.77 3.20
256 257 3.057337 CGGTGGTTTCCGTCCTCT 58.943 61.111 0.00 0.00 44.77 3.69
655 855 2.252072 TACATCCGGTGGCAGGCTTC 62.252 60.000 0.00 0.00 0.00 3.86
688 888 6.126739 GGGAATTAAATAGGTGAGTGAGAGGT 60.127 42.308 0.00 0.00 0.00 3.85
689 889 6.292150 GGGAATTAAATAGGTGAGTGAGAGG 58.708 44.000 0.00 0.00 0.00 3.69
742 943 0.605589 AAAGGAGGCGAGTGAGTGAG 59.394 55.000 0.00 0.00 0.00 3.51
755 956 2.877335 AGCGCGTCTAGTAAAAAGGAG 58.123 47.619 8.43 0.00 0.00 3.69
912 1119 1.856014 GCGCAATGTATCCGCAAGAAC 60.856 52.381 0.30 0.00 46.32 3.01
999 1221 1.524621 CAGCGAGCTTACCCCCATG 60.525 63.158 0.00 0.00 0.00 3.66
1025 1247 3.865745 AGAAGAACTGTCACACAAGAACG 59.134 43.478 0.00 0.00 0.00 3.95
1055 1277 8.485591 CAGTAGTCCAAAAACTAAAGAACGTAG 58.514 37.037 0.00 0.00 33.68 3.51
1056 1278 7.042523 GCAGTAGTCCAAAAACTAAAGAACGTA 60.043 37.037 0.00 0.00 33.68 3.57
1057 1279 6.238293 GCAGTAGTCCAAAAACTAAAGAACGT 60.238 38.462 0.00 0.00 33.68 3.99
1058 1280 6.134061 GCAGTAGTCCAAAAACTAAAGAACG 58.866 40.000 0.00 0.00 33.68 3.95
1059 1281 7.023197 TGCAGTAGTCCAAAAACTAAAGAAC 57.977 36.000 0.00 0.00 33.68 3.01
1061 1283 5.238650 GCTGCAGTAGTCCAAAAACTAAAGA 59.761 40.000 16.64 0.00 33.68 2.52
1062 1284 5.239525 AGCTGCAGTAGTCCAAAAACTAAAG 59.760 40.000 16.64 0.00 33.68 1.85
1063 1285 5.008613 CAGCTGCAGTAGTCCAAAAACTAAA 59.991 40.000 16.64 0.00 33.68 1.85
1064 1286 4.515191 CAGCTGCAGTAGTCCAAAAACTAA 59.485 41.667 16.64 0.00 33.68 2.24
1066 1288 2.880890 CAGCTGCAGTAGTCCAAAAACT 59.119 45.455 16.64 0.00 0.00 2.66
1067 1289 2.878406 TCAGCTGCAGTAGTCCAAAAAC 59.122 45.455 16.64 0.00 0.00 2.43
1068 1290 2.878406 GTCAGCTGCAGTAGTCCAAAAA 59.122 45.455 16.64 0.00 0.00 1.94
1070 1292 1.694150 AGTCAGCTGCAGTAGTCCAAA 59.306 47.619 16.64 0.00 0.00 3.28
1071 1293 1.273606 GAGTCAGCTGCAGTAGTCCAA 59.726 52.381 16.64 0.00 0.00 3.53
1074 1296 2.276472 CAGAGTCAGCTGCAGTAGTC 57.724 55.000 16.64 13.06 0.00 2.59
1091 1313 3.577649 TCTAGAAGACGAAACCAGCAG 57.422 47.619 0.00 0.00 0.00 4.24
1094 1316 5.895928 TGATGATCTAGAAGACGAAACCAG 58.104 41.667 0.00 0.00 0.00 4.00
1108 1330 3.106827 TCTGCACCCAGTTGATGATCTA 58.893 45.455 0.00 0.00 40.09 1.98
1134 1356 2.185004 TCTCCTGCTTGGTGTTTAGC 57.815 50.000 0.00 0.00 37.89 3.09
1137 1359 3.297134 TTCTTCTCCTGCTTGGTGTTT 57.703 42.857 0.00 0.00 37.07 2.83
1218 1446 1.661617 GTACGTACGCATGCATGGAAA 59.338 47.619 27.34 9.20 0.00 3.13
1649 1894 3.243535 CCTTGCTGAGTATGATCTGCGTA 60.244 47.826 0.00 0.00 44.48 4.42
1712 1957 4.464008 ACTTGAAGGAATTCTGCTTGACA 58.536 39.130 5.23 0.00 32.59 3.58
1739 1984 2.416747 CAGGCGAACATGTTCTTGAGA 58.583 47.619 30.45 0.00 37.44 3.27
1802 2047 8.934023 ATATTACCTTCTCCAGTTTTGTTTCA 57.066 30.769 0.00 0.00 0.00 2.69
1858 2129 9.802039 ATTAAACCTAACTATTTGAACACTGGA 57.198 29.630 0.00 0.00 0.00 3.86
1888 2163 2.604011 CGGCCATGCATAACAAAACATG 59.396 45.455 2.24 0.00 39.65 3.21
1890 2165 1.889170 TCGGCCATGCATAACAAAACA 59.111 42.857 2.24 0.00 0.00 2.83
1896 2172 2.624316 CATGATCGGCCATGCATAAC 57.376 50.000 2.24 0.00 37.68 1.89
1907 2183 4.043750 ACGCATTATTTTTGCATGATCGG 58.956 39.130 0.00 0.00 40.14 4.18
2047 2323 2.579100 TGGATCCTCCCCATTGGTTTA 58.421 47.619 14.23 0.00 35.03 2.01
2092 2368 4.168871 TCTTCTCCATAGTCATCCTCCTCA 59.831 45.833 0.00 0.00 0.00 3.86
2098 2374 6.418057 AAGACATCTTCTCCATAGTCATCC 57.582 41.667 0.00 0.00 31.02 3.51
2204 2486 2.602211 CACTCATCACTTCATCAGTCGC 59.398 50.000 0.00 0.00 30.92 5.19
2205 2487 3.856521 GTCACTCATCACTTCATCAGTCG 59.143 47.826 0.00 0.00 30.92 4.18
2210 2492 7.328277 AGTAGTAGTCACTCATCACTTCATC 57.672 40.000 0.00 0.00 36.14 2.92
2212 2494 7.395617 AGTAGTAGTAGTCACTCATCACTTCA 58.604 38.462 0.00 0.00 36.14 3.02
2214 2496 8.542080 AGTAGTAGTAGTAGTCACTCATCACTT 58.458 37.037 0.00 0.00 36.14 3.16
2216 2498 8.721019 AAGTAGTAGTAGTAGTCACTCATCAC 57.279 38.462 0.00 0.00 36.14 3.06
2244 2589 1.746470 TCTTCCTGCATGCATGAGTG 58.254 50.000 30.64 18.61 0.00 3.51
2247 2602 3.007473 TCAATCTTCCTGCATGCATGA 57.993 42.857 30.64 21.38 0.00 3.07
2270 2625 4.362279 AGTTCTACGTACGCAAAGAAACA 58.638 39.130 22.27 5.99 30.24 2.83
2289 2644 8.807948 ACACATAAGTCCATGCTTATTAAGTT 57.192 30.769 5.38 0.00 39.02 2.66
2354 2712 3.367025 GTGTGTCAGGTATCGCTTTACAC 59.633 47.826 0.00 0.00 37.00 2.90
2355 2713 3.006003 TGTGTGTCAGGTATCGCTTTACA 59.994 43.478 0.00 0.00 0.00 2.41
2356 2714 3.581755 TGTGTGTCAGGTATCGCTTTAC 58.418 45.455 0.00 0.00 0.00 2.01
2357 2715 3.945981 TGTGTGTCAGGTATCGCTTTA 57.054 42.857 0.00 0.00 0.00 1.85
2358 2716 2.831685 TGTGTGTCAGGTATCGCTTT 57.168 45.000 0.00 0.00 0.00 3.51
2380 2738 7.011763 ACCATTTCACATCATAACGATCTTGAG 59.988 37.037 0.00 0.00 29.21 3.02
2389 2747 7.559590 AGAGCTTACCATTTCACATCATAAC 57.440 36.000 0.00 0.00 0.00 1.89
2437 2795 2.556189 GTTGGTCCATGCACACAATACA 59.444 45.455 0.00 0.00 0.00 2.29
2439 2797 2.166829 GGTTGGTCCATGCACACAATA 58.833 47.619 0.00 0.00 35.97 1.90
2444 2802 1.228521 CCTGGTTGGTCCATGCACA 60.229 57.895 0.00 0.00 46.12 4.57
2445 2803 3.685435 CCTGGTTGGTCCATGCAC 58.315 61.111 0.00 0.00 46.12 4.57
2462 2820 3.756117 ACTTGGAGATCTTTTGGGTGAC 58.244 45.455 0.00 0.00 0.00 3.67
2510 2868 8.674263 AATTTACACCATCAAAAATTCAGCAA 57.326 26.923 0.00 0.00 28.00 3.91
2522 2880 8.363390 TGTAATCTGCAAAAATTTACACCATCA 58.637 29.630 0.00 0.00 30.19 3.07
2576 2938 1.971357 ACATCTATCACCGGGGTCATC 59.029 52.381 2.12 0.00 0.00 2.92
2581 2943 2.561569 GTTCAACATCTATCACCGGGG 58.438 52.381 6.32 0.00 0.00 5.73
2622 2984 0.037303 CATATGCCCTCCGCCTCATT 59.963 55.000 0.00 0.00 36.24 2.57
2635 2997 2.230508 CCTGGTGCATTCCATCATATGC 59.769 50.000 0.00 0.00 45.66 3.14
2651 3013 0.751643 GTTCAGTGCAACACCCTGGT 60.752 55.000 0.00 0.00 41.43 4.00
2676 3038 0.443869 CAAATCTTGGCCTGTCGACG 59.556 55.000 11.62 5.76 0.00 5.12
2842 3207 5.491982 AGTATCCCACAGAGTGAAAATGAC 58.508 41.667 0.00 0.00 35.23 3.06
2845 3210 7.126421 ACATCTAGTATCCCACAGAGTGAAAAT 59.874 37.037 0.00 0.00 35.23 1.82
2885 3250 9.841295 ACATGAGGTTTTACTTTACTTCACTTA 57.159 29.630 0.00 0.00 33.91 2.24
2918 3293 8.722480 TTGACCACATTGATTAGACTAAGATG 57.278 34.615 0.73 7.52 0.00 2.90
3070 3449 2.595095 GGATCGATGCAACCCCCA 59.405 61.111 12.54 0.00 0.00 4.96
3211 3591 3.309682 CGTATTCAATTGACACATCGGCT 59.690 43.478 7.89 0.00 0.00 5.52
3265 3664 4.704057 AGCAAATGAAGAGAGTGGGAATTC 59.296 41.667 0.00 0.00 0.00 2.17
3269 3668 3.181440 ACAAGCAAATGAAGAGAGTGGGA 60.181 43.478 0.00 0.00 0.00 4.37


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

AutoCloner maintained by Alex Coulton.