Multiple sequence alignment - TraesCS5B01G356100

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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 TraesCS5B01G356100 chr5B 100.000 4907 0 0 1 4907 535703187 535708093 0.000000e+00 9062
1 TraesCS5B01G356100 chr5D 97.752 2891 48 4 207 3089 440369183 440372064 0.000000e+00 4963
2 TraesCS5B01G356100 chr5D 95.181 830 15 2 3117 3946 440372063 440372867 0.000000e+00 1288
3 TraesCS5B01G356100 chr5D 92.689 383 21 3 4532 4907 440372860 440373242 3.340000e-151 545
4 TraesCS5B01G356100 chr5D 94.186 172 10 0 1 172 440369027 440369198 3.770000e-66 263
5 TraesCS5B01G356100 chr5D 84.568 162 25 0 3103 3264 440371903 440372064 1.410000e-35 161
6 TraesCS5B01G356100 chr5A 96.033 2874 81 11 207 3071 556528327 556531176 0.000000e+00 4645
7 TraesCS5B01G356100 chr5A 96.880 577 15 2 3372 3946 556531175 556531750 0.000000e+00 963
8 TraesCS5B01G356100 chr5A 97.074 376 11 0 4532 4907 556531743 556532118 6.930000e-178 634
9 TraesCS5B01G356100 chr5A 95.205 292 14 0 4241 4532 10925828 10925537 3.460000e-126 462
10 TraesCS5B01G356100 chr5A 95.470 287 13 0 3947 4233 10926187 10925901 4.480000e-125 459
11 TraesCS5B01G356100 chr5A 95.349 172 8 0 1 172 556528171 556528342 1.740000e-69 274
12 TraesCS5B01G356100 chr5A 82.877 146 22 1 3103 3248 556531036 556531178 1.430000e-25 128
13 TraesCS5B01G356100 chr3D 87.252 604 45 18 3947 4531 422748787 422749377 0.000000e+00 660
14 TraesCS5B01G356100 chr4A 97.595 291 7 0 4241 4531 651110807 651110517 2.640000e-137 499
15 TraesCS5B01G356100 chr4A 96.875 288 9 0 3946 4233 651111167 651110880 2.660000e-132 483
16 TraesCS5B01G356100 chr6B 97.270 293 5 3 4241 4531 60628433 60628724 1.230000e-135 494
17 TraesCS5B01G356100 chr2A 96.220 291 11 0 4241 4531 16636672 16636382 1.240000e-130 477
18 TraesCS5B01G356100 chr2A 95.470 287 12 1 3947 4233 16637030 16636745 1.610000e-124 457
19 TraesCS5B01G356100 chr1B 96.181 288 11 0 3946 4233 37567002 37567289 5.750000e-129 472
20 TraesCS5B01G356100 chr1B 96.761 247 8 0 4287 4533 37567369 37567615 3.530000e-111 412
21 TraesCS5B01G356100 chr4B 95.139 288 14 0 3946 4233 608260505 608260218 5.790000e-124 455
22 TraesCS5B01G356100 chr4B 93.559 295 16 1 4241 4535 608260142 608259851 2.100000e-118 436
23 TraesCS5B01G356100 chr4B 92.784 291 11 5 4244 4531 111782819 111782536 3.530000e-111 412
24 TraesCS5B01G356100 chr3A 94.502 291 13 1 4241 4531 630797090 630796803 3.480000e-121 446
25 TraesCS5B01G356100 chr6D 94.425 287 16 0 3947 4233 360609628 360609342 4.510000e-120 442
26 TraesCS5B01G356100 chr1A 93.403 288 18 1 3946 4233 539736449 539736163 4.540000e-115 425
27 TraesCS5B01G356100 chr3B 93.056 288 20 0 3946 4233 606574025 606573738 5.870000e-114 422
28 TraesCS5B01G356100 chr3B 93.031 287 19 1 3947 4233 757924530 757924245 7.600000e-113 418


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 TraesCS5B01G356100 chr5B 535703187 535708093 4906 False 9062.0 9062 100.0000 1 4907 1 chr5B.!!$F1 4906
1 TraesCS5B01G356100 chr5D 440369027 440373242 4215 False 1444.0 4963 92.8752 1 4907 5 chr5D.!!$F1 4906
2 TraesCS5B01G356100 chr5A 556528171 556532118 3947 False 1328.8 4645 93.6426 1 4907 5 chr5A.!!$F1 4906
3 TraesCS5B01G356100 chr5A 10925537 10926187 650 True 460.5 462 95.3375 3947 4532 2 chr5A.!!$R1 585
4 TraesCS5B01G356100 chr3D 422748787 422749377 590 False 660.0 660 87.2520 3947 4531 1 chr3D.!!$F1 584
5 TraesCS5B01G356100 chr4A 651110517 651111167 650 True 491.0 499 97.2350 3946 4531 2 chr4A.!!$R1 585
6 TraesCS5B01G356100 chr2A 16636382 16637030 648 True 467.0 477 95.8450 3947 4531 2 chr2A.!!$R1 584
7 TraesCS5B01G356100 chr1B 37567002 37567615 613 False 442.0 472 96.4710 3946 4533 2 chr1B.!!$F1 587
8 TraesCS5B01G356100 chr4B 608259851 608260505 654 True 445.5 455 94.3490 3946 4535 2 chr4B.!!$R2 589

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
555 556 1.152902 GCATGTGGCATAGCTCCCA 60.153 57.895 0.0 0.0 43.97 4.37 F
1368 1376 3.277142 GGATACTGGAAATCAACCGGT 57.723 47.619 0.0 0.0 46.93 5.28 F
2735 2745 0.251077 CCAGAGCAGCAAAAGTCCCT 60.251 55.000 0.0 0.0 0.00 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2253 2262 1.824230 TGGCCCAGTATGCACAATTTC 59.176 47.619 0.0 0.0 31.97 2.17 R
3288 3298 0.967380 CCGGGGAATTTTGCTGCTCT 60.967 55.000 0.0 0.0 0.00 4.09 R
4022 4034 0.473694 AGGGATGCATATCGGGGACA 60.474 55.000 0.0 0.0 33.98 4.02 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
32 33 1.631072 CTCTTTACATGCGACGCCG 59.369 57.895 18.69 11.17 39.16 6.46
68 69 4.083271 GCATTGTAGTGTTGGAGGAGTTTC 60.083 45.833 0.00 0.00 0.00 2.78
92 93 5.629435 CGGAGAAAATAACAGCCAGTTTTTC 59.371 40.000 0.00 3.77 41.64 2.29
94 95 6.642540 GGAGAAAATAACAGCCAGTTTTTCAG 59.357 38.462 14.28 0.00 38.51 3.02
97 98 2.584492 AACAGCCAGTTTTTCAGCAC 57.416 45.000 0.00 0.00 37.03 4.40
156 157 7.962918 ACACATAAATATTTCTTGCGTTGAGAC 59.037 33.333 3.39 0.00 0.00 3.36
157 158 8.177663 CACATAAATATTTCTTGCGTTGAGACT 58.822 33.333 3.39 0.00 0.00 3.24
158 159 8.177663 ACATAAATATTTCTTGCGTTGAGACTG 58.822 33.333 3.39 0.00 0.00 3.51
159 160 6.801539 AAATATTTCTTGCGTTGAGACTGA 57.198 33.333 0.00 0.00 0.00 3.41
160 161 6.992063 AATATTTCTTGCGTTGAGACTGAT 57.008 33.333 0.00 0.00 0.00 2.90
161 162 4.935885 ATTTCTTGCGTTGAGACTGATC 57.064 40.909 0.00 0.00 0.00 2.92
162 163 3.385193 TTCTTGCGTTGAGACTGATCA 57.615 42.857 0.00 0.00 0.00 2.92
163 164 3.599730 TCTTGCGTTGAGACTGATCAT 57.400 42.857 0.00 0.00 0.00 2.45
164 165 3.930336 TCTTGCGTTGAGACTGATCATT 58.070 40.909 0.00 0.00 0.00 2.57
165 166 4.318332 TCTTGCGTTGAGACTGATCATTT 58.682 39.130 0.00 0.00 0.00 2.32
166 167 4.152938 TCTTGCGTTGAGACTGATCATTTG 59.847 41.667 0.00 0.00 0.00 2.32
167 168 3.663025 TGCGTTGAGACTGATCATTTGA 58.337 40.909 0.00 0.00 0.00 2.69
168 169 4.256110 TGCGTTGAGACTGATCATTTGAT 58.744 39.130 0.00 0.00 37.51 2.57
284 285 7.206981 AGATCATTGCCGTTAATTTCTATGG 57.793 36.000 0.00 0.00 0.00 2.74
286 287 6.371809 TCATTGCCGTTAATTTCTATGGAC 57.628 37.500 0.00 0.00 0.00 4.02
319 320 7.173390 ACACAAGGAGCTTTCTAATCAACTTAC 59.827 37.037 0.00 0.00 0.00 2.34
366 367 6.639563 TCTACTGGAAATGTGATGATCGAAA 58.360 36.000 0.00 0.00 0.00 3.46
424 425 8.940952 GCTAAAAGTTTTGTCTGATCTAGATGT 58.059 33.333 10.74 0.00 37.83 3.06
555 556 1.152902 GCATGTGGCATAGCTCCCA 60.153 57.895 0.00 0.00 43.97 4.37
1368 1376 3.277142 GGATACTGGAAATCAACCGGT 57.723 47.619 0.00 0.00 46.93 5.28
1781 1789 4.332819 GCATACGCAGTTCAGGAAAACTAT 59.667 41.667 0.00 0.00 37.78 2.12
1818 1826 3.500343 AGTGCATGAAAAGCTAGGGTTT 58.500 40.909 0.00 0.00 34.60 3.27
2074 2083 8.246180 CACATAATCTAGGTCTTTTGCATGTTT 58.754 33.333 0.00 0.00 0.00 2.83
2355 2364 3.120234 TGCATCGCTTTATGTGACAACTG 60.120 43.478 0.00 0.00 38.09 3.16
2395 2404 5.297278 AGTCCAAACGTAACACAGCAAATAA 59.703 36.000 0.00 0.00 0.00 1.40
2401 2410 3.365565 CGTAACACAGCAAATAACCCACC 60.366 47.826 0.00 0.00 0.00 4.61
2685 2695 5.585844 CCAGCACATGTATGAACATAGAACA 59.414 40.000 10.94 0.00 44.70 3.18
2735 2745 0.251077 CCAGAGCAGCAAAAGTCCCT 60.251 55.000 0.00 0.00 0.00 4.20
2802 2812 7.928307 AGATGCAAGTGTAACACAGATATTT 57.072 32.000 0.00 0.00 41.43 1.40
2977 2987 3.100817 CCAAAATAATGAAGCAGCGTCG 58.899 45.455 3.75 0.00 0.00 5.12
3091 3101 7.875327 ATAAGGGCATAACGTTATTTGAACT 57.125 32.000 18.06 9.39 29.84 3.01
3092 3102 6.584185 AAGGGCATAACGTTATTTGAACTT 57.416 33.333 18.06 14.03 0.00 2.66
3093 3103 7.690952 AAGGGCATAACGTTATTTGAACTTA 57.309 32.000 18.06 0.00 0.00 2.24
3094 3104 7.875327 AGGGCATAACGTTATTTGAACTTAT 57.125 32.000 18.06 0.00 0.00 1.73
3095 3105 8.967664 AGGGCATAACGTTATTTGAACTTATA 57.032 30.769 18.06 0.00 0.00 0.98
3096 3106 9.569122 AGGGCATAACGTTATTTGAACTTATAT 57.431 29.630 18.06 0.00 0.00 0.86
3150 3160 3.025978 CCCTGGCATAATGAAGAAGCAA 58.974 45.455 0.00 0.00 0.00 3.91
3184 3194 9.031360 ACAGTTTAAGTATGCAGTTGTATATCG 57.969 33.333 0.00 0.00 0.00 2.92
3189 3199 7.464830 AAGTATGCAGTTGTATATCGTTCAC 57.535 36.000 0.00 0.00 0.00 3.18
3284 3294 9.726438 AGTTGAACTTTTAGATATAGCACTTGT 57.274 29.630 0.00 0.00 0.00 3.16
3380 3390 8.458573 TTGTTCAATAAAGCAGAAAGGTTAGA 57.541 30.769 0.00 0.00 36.83 2.10
3616 3628 6.601332 AGGAAATCAAGAACAGGTTACAGAA 58.399 36.000 0.00 0.00 0.00 3.02
3785 3797 2.743636 TCCAGCACTAGTTACACTGC 57.256 50.000 0.00 0.00 0.00 4.40
3930 3942 4.001652 GGGCTACTTTGTACTTGAAGTCC 58.998 47.826 0.00 0.00 37.32 3.85
3938 3950 8.434733 ACTTTGTACTTGAAGTCCTCTTTTAC 57.565 34.615 0.00 0.00 30.64 2.01
3939 3951 7.498239 ACTTTGTACTTGAAGTCCTCTTTTACC 59.502 37.037 0.00 0.00 30.64 2.85
3940 3952 6.742559 TGTACTTGAAGTCCTCTTTTACCT 57.257 37.500 0.00 0.00 33.64 3.08
3941 3953 6.522054 TGTACTTGAAGTCCTCTTTTACCTG 58.478 40.000 0.00 0.00 33.64 4.00
3942 3954 5.632034 ACTTGAAGTCCTCTTTTACCTGT 57.368 39.130 0.00 0.00 33.64 4.00
3943 3955 6.742559 ACTTGAAGTCCTCTTTTACCTGTA 57.257 37.500 0.00 0.00 33.64 2.74
3944 3956 7.317722 ACTTGAAGTCCTCTTTTACCTGTAT 57.682 36.000 0.00 0.00 33.64 2.29
4017 4029 4.680172 CGTATCCGATACCGATACTCCTCT 60.680 50.000 12.09 0.00 38.22 3.69
4022 4034 5.130643 TCCGATACCGATACTCCTCTGATAT 59.869 44.000 0.00 0.00 38.22 1.63
4035 4047 3.181471 CCTCTGATATGTCCCCGATATGC 60.181 52.174 0.00 0.00 0.00 3.14
4233 4246 3.314331 CCTCCCGTGCTCACACCT 61.314 66.667 0.69 0.00 44.40 4.00
4234 4247 2.262915 CTCCCGTGCTCACACCTC 59.737 66.667 0.69 0.00 44.40 3.85
4235 4248 2.523168 TCCCGTGCTCACACCTCA 60.523 61.111 0.69 0.00 44.40 3.86
4237 4250 2.357517 CCGTGCTCACACCTCACC 60.358 66.667 0.69 0.00 44.40 4.02
4238 4251 2.421314 CGTGCTCACACCTCACCA 59.579 61.111 0.69 0.00 44.40 4.17
4273 4354 2.158755 CCTCACCAACATCCCCTATCAC 60.159 54.545 0.00 0.00 0.00 3.06
4390 4510 5.656416 TCTCCTCTTCTTTCTTCTCTGATCC 59.344 44.000 0.00 0.00 0.00 3.36
4392 4512 4.441356 CCTCTTCTTTCTTCTCTGATCCCG 60.441 50.000 0.00 0.00 0.00 5.14
4505 4626 3.056393 CCGTATTGGCCCGATACTGATAA 60.056 47.826 17.26 0.00 30.70 1.75
4507 4628 4.321750 CGTATTGGCCCGATACTGATAACT 60.322 45.833 17.26 0.00 30.70 2.24
4541 4662 3.306364 GGTGCATTCGAGCCTGTATCTAT 60.306 47.826 0.00 0.00 0.00 1.98
4593 4714 5.334569 GCACTAATACAAAAGGCAGAAACGA 60.335 40.000 0.00 0.00 0.00 3.85
4639 4762 6.468637 GTGCACAATTTTCATGTTCCAAAAAC 59.531 34.615 13.17 0.00 0.00 2.43
4772 4895 4.518590 CGGAAATGTATGGTGCCAATATGA 59.481 41.667 0.00 0.00 0.00 2.15
4828 4951 6.908825 TCCTGAGTTGCAAAATGTATACAAC 58.091 36.000 10.14 1.52 40.65 3.32
4876 5004 4.522297 GCCTAAGCTCGTGTGAAATAAG 57.478 45.455 0.00 0.00 35.50 1.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 0.593128 ACAATGCCAACGAAGCAGAC 59.407 50.000 0.00 0.00 44.90 3.51
68 69 4.766404 AAACTGGCTGTTATTTTCTCCG 57.234 40.909 10.29 0.00 38.03 4.63
92 93 4.209538 TGAAGGGGATAAATGATGTGCTG 58.790 43.478 0.00 0.00 0.00 4.41
94 95 5.596836 TTTGAAGGGGATAAATGATGTGC 57.403 39.130 0.00 0.00 0.00 4.57
191 192 1.903183 GATCAGAGGCTGGGGTATACC 59.097 57.143 13.99 13.99 39.11 2.73
192 193 2.609747 TGATCAGAGGCTGGGGTATAC 58.390 52.381 0.00 0.00 31.51 1.47
193 194 3.567375 ATGATCAGAGGCTGGGGTATA 57.433 47.619 0.09 0.00 31.51 1.47
194 195 2.429933 ATGATCAGAGGCTGGGGTAT 57.570 50.000 0.09 0.00 31.51 2.73
195 196 2.173356 CAAATGATCAGAGGCTGGGGTA 59.827 50.000 0.09 0.00 31.51 3.69
196 197 1.064166 CAAATGATCAGAGGCTGGGGT 60.064 52.381 0.09 0.00 31.51 4.95
197 198 1.213678 TCAAATGATCAGAGGCTGGGG 59.786 52.381 0.09 0.00 31.51 4.96
198 199 2.723322 TCAAATGATCAGAGGCTGGG 57.277 50.000 0.09 0.00 31.51 4.45
229 230 3.888930 TCTTTCTTGAATGGAAGCCGTTT 59.111 39.130 0.00 0.00 32.23 3.60
284 285 2.565841 AGCTCCTTGTGTTCAACAGTC 58.434 47.619 0.00 0.00 40.74 3.51
286 287 3.629398 AGAAAGCTCCTTGTGTTCAACAG 59.371 43.478 0.00 0.00 40.74 3.16
319 320 1.737838 TACAAATGCCTCCAGAAGCG 58.262 50.000 0.00 0.00 0.00 4.68
344 345 5.294306 GCTTTCGATCATCACATTTCCAGTA 59.706 40.000 0.00 0.00 0.00 2.74
348 349 4.095483 AGTGCTTTCGATCATCACATTTCC 59.905 41.667 9.28 0.00 0.00 3.13
366 367 4.973168 TGACAAAGGAGTAATTGAGTGCT 58.027 39.130 0.00 0.00 0.00 4.40
424 425 2.423446 TGCATTGCTAGCCATTCAGA 57.577 45.000 13.29 0.00 0.00 3.27
555 556 4.908481 AGAAGAGGACTAAAGACAAGGGTT 59.092 41.667 0.00 0.00 0.00 4.11
919 920 0.834687 TTCCCTACCGTGTCCAGCTT 60.835 55.000 0.00 0.00 0.00 3.74
1178 1179 5.694910 AGTAGTTAGGATGAACAACACAACG 59.305 40.000 0.00 0.00 0.00 4.10
1362 1370 3.386726 TGATGGATCGATCTTTACCGGTT 59.613 43.478 23.96 0.00 0.00 4.44
1368 1376 6.549736 TCTGGTAGTTGATGGATCGATCTTTA 59.450 38.462 23.96 11.86 0.00 1.85
1818 1826 2.622190 GGGCCGGGGAAAAAGAGATAAA 60.622 50.000 2.18 0.00 0.00 1.40
1989 1998 3.187227 GCAGTCACACAGTATGGTTTCAG 59.813 47.826 0.00 0.00 43.62 3.02
2074 2083 7.290248 AGGATGTCTAAGCTTTAAGGTAGCATA 59.710 37.037 3.20 0.00 41.11 3.14
2253 2262 1.824230 TGGCCCAGTATGCACAATTTC 59.176 47.619 0.00 0.00 31.97 2.17
2355 2364 7.863877 ACGTTTGGACTAAATGTAACCAAATTC 59.136 33.333 7.32 5.29 46.97 2.17
2395 2404 4.959839 ACTTATGAACAGTTTTTGGTGGGT 59.040 37.500 0.00 0.00 0.00 4.51
2401 2410 6.642131 CCATCCACACTTATGAACAGTTTTTG 59.358 38.462 0.00 0.00 0.00 2.44
2575 2584 9.334947 CTCTTGGCTTTTCATGATAGAATTCTA 57.665 33.333 17.32 17.32 0.00 2.10
2735 2745 2.228925 TGCTGCTGCTTCATTGTGTTA 58.771 42.857 17.00 0.00 40.48 2.41
2861 2871 2.325484 GGTGGATTGGGGTCTGTTTTT 58.675 47.619 0.00 0.00 0.00 1.94
2977 2987 4.267357 TGCAAACTTAAACTGTGTCGAC 57.733 40.909 9.11 9.11 0.00 4.20
3097 3107 8.699130 TGCTGCTCTATTACATGTGCTATATAT 58.301 33.333 9.11 0.00 0.00 0.86
3098 3108 8.066612 TGCTGCTCTATTACATGTGCTATATA 57.933 34.615 9.11 0.00 0.00 0.86
3099 3109 6.939622 TGCTGCTCTATTACATGTGCTATAT 58.060 36.000 9.11 0.00 0.00 0.86
3100 3110 6.345096 TGCTGCTCTATTACATGTGCTATA 57.655 37.500 9.11 3.08 0.00 1.31
3101 3111 5.219343 TGCTGCTCTATTACATGTGCTAT 57.781 39.130 9.11 1.97 0.00 2.97
3102 3112 4.670896 TGCTGCTCTATTACATGTGCTA 57.329 40.909 9.11 0.00 0.00 3.49
3103 3113 3.548745 TGCTGCTCTATTACATGTGCT 57.451 42.857 9.11 0.00 0.00 4.40
3104 3114 4.621068 TTTGCTGCTCTATTACATGTGC 57.379 40.909 9.11 2.26 0.00 4.57
3105 3115 5.457799 GCATTTTGCTGCTCTATTACATGTG 59.542 40.000 9.11 0.00 40.96 3.21
3106 3116 5.450965 GGCATTTTGCTGCTCTATTACATGT 60.451 40.000 2.69 2.69 44.28 3.21
3107 3117 4.980434 GGCATTTTGCTGCTCTATTACATG 59.020 41.667 0.00 0.00 44.28 3.21
3108 3118 4.038402 GGGCATTTTGCTGCTCTATTACAT 59.962 41.667 0.00 0.00 44.28 2.29
3109 3119 3.381272 GGGCATTTTGCTGCTCTATTACA 59.619 43.478 0.00 0.00 44.28 2.41
3110 3120 3.969899 GGGCATTTTGCTGCTCTATTAC 58.030 45.455 0.00 0.00 44.28 1.89
3116 3126 1.217244 CCAGGGCATTTTGCTGCTC 59.783 57.895 0.00 0.00 44.28 4.26
3117 3127 2.951101 GCCAGGGCATTTTGCTGCT 61.951 57.895 5.20 0.00 44.28 4.24
3171 3181 6.035650 TGCTTTAGTGAACGATATACAACTGC 59.964 38.462 0.00 0.00 0.00 4.40
3184 3194 5.238650 TGCTAACCTTTCTGCTTTAGTGAAC 59.761 40.000 0.00 0.00 0.00 3.18
3189 3199 4.439289 GCCATGCTAACCTTTCTGCTTTAG 60.439 45.833 0.00 0.00 0.00 1.85
3280 3290 6.268566 GGGAATTTTGCTGCTCTATTACAAG 58.731 40.000 0.00 0.00 0.00 3.16
3281 3291 5.127031 GGGGAATTTTGCTGCTCTATTACAA 59.873 40.000 0.00 0.00 0.00 2.41
3282 3292 4.644685 GGGGAATTTTGCTGCTCTATTACA 59.355 41.667 0.00 0.00 0.00 2.41
3283 3293 4.261197 CGGGGAATTTTGCTGCTCTATTAC 60.261 45.833 0.00 0.00 0.00 1.89
3284 3294 3.882888 CGGGGAATTTTGCTGCTCTATTA 59.117 43.478 0.00 0.00 0.00 0.98
3285 3295 2.689983 CGGGGAATTTTGCTGCTCTATT 59.310 45.455 0.00 0.00 0.00 1.73
3286 3296 2.301346 CGGGGAATTTTGCTGCTCTAT 58.699 47.619 0.00 0.00 0.00 1.98
3287 3297 1.681780 CCGGGGAATTTTGCTGCTCTA 60.682 52.381 0.00 0.00 0.00 2.43
3288 3298 0.967380 CCGGGGAATTTTGCTGCTCT 60.967 55.000 0.00 0.00 0.00 4.09
3289 3299 1.512694 CCGGGGAATTTTGCTGCTC 59.487 57.895 0.00 0.00 0.00 4.26
3290 3300 2.649129 GCCGGGGAATTTTGCTGCT 61.649 57.895 2.18 0.00 0.00 4.24
3291 3301 2.125552 GCCGGGGAATTTTGCTGC 60.126 61.111 2.18 0.00 0.00 5.25
3616 3628 1.686052 GACTCTCCAGCATCCTCGAAT 59.314 52.381 0.00 0.00 0.00 3.34
3930 3942 5.463724 GCATTCGAGGATACAGGTAAAAGAG 59.536 44.000 0.00 0.00 41.41 2.85
3938 3950 1.491670 CGTGCATTCGAGGATACAGG 58.508 55.000 0.00 0.00 41.41 4.00
3939 3951 1.067060 TCCGTGCATTCGAGGATACAG 59.933 52.381 0.00 0.00 41.41 2.74
3940 3952 1.107945 TCCGTGCATTCGAGGATACA 58.892 50.000 0.00 0.00 41.41 2.29
3941 3953 2.440539 ATCCGTGCATTCGAGGATAC 57.559 50.000 0.01 0.00 41.30 2.24
3942 3954 3.154710 AGTATCCGTGCATTCGAGGATA 58.845 45.455 5.06 5.06 42.80 2.59
3943 3955 1.964223 AGTATCCGTGCATTCGAGGAT 59.036 47.619 6.82 6.82 44.77 3.24
3944 3956 1.399714 AGTATCCGTGCATTCGAGGA 58.600 50.000 0.00 0.00 37.17 3.71
4017 4029 3.134623 GGATGCATATCGGGGACATATCA 59.865 47.826 0.00 0.00 33.98 2.15
4022 4034 0.473694 AGGGATGCATATCGGGGACA 60.474 55.000 0.00 0.00 33.98 4.02
4035 4047 3.838244 TTTTCGGATACTCCAGGGATG 57.162 47.619 0.00 0.00 35.91 3.51
4233 4246 2.116983 GAGGAGCAGCTTGGTGGTGA 62.117 60.000 9.26 0.00 46.27 4.02
4234 4247 1.673665 GAGGAGCAGCTTGGTGGTG 60.674 63.158 9.26 0.00 46.12 4.17
4235 4248 2.753029 GAGGAGCAGCTTGGTGGT 59.247 61.111 0.00 4.14 0.00 4.16
4237 4250 1.078567 GAGGAGGAGCAGCTTGGTG 60.079 63.158 0.00 0.00 0.00 4.17
4238 4251 1.537397 TGAGGAGGAGCAGCTTGGT 60.537 57.895 0.00 0.00 0.00 3.67
4273 4354 4.172512 AGGAGGATGGCTGCTGCG 62.173 66.667 9.65 0.00 40.82 5.18
4390 4510 6.350110 GGAGATGAGAATAAGAGATCTTCCGG 60.350 46.154 0.00 0.00 37.40 5.14
4392 4512 6.070824 GGGGAGATGAGAATAAGAGATCTTCC 60.071 46.154 0.00 0.00 37.40 3.46
4478 4599 1.344065 ATCGGGCCAATACGGATACA 58.656 50.000 4.39 0.00 36.56 2.29
4541 4662 8.694581 TCACTATAAATCATTGCATTGGATGA 57.305 30.769 8.64 5.07 36.77 2.92
4665 4788 9.099454 CTTTACATTTGAGACTGATACCCTTAC 57.901 37.037 0.00 0.00 0.00 2.34
4759 4882 4.996758 CGATTCACTATCATATTGGCACCA 59.003 41.667 0.00 0.00 32.45 4.17
4828 4951 2.030893 ACGAACATGACAATTGCACCAG 60.031 45.455 5.05 2.13 0.00 4.00


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

AutoCloner maintained by Alex Coulton.