Multiple sequence alignment - TraesCS7D01G409100

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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 TraesCS7D01G409100 chr7D 100.000 4009 0 0 1 4009 528029333 528025325 0.000000e+00 7404
1 TraesCS7D01G409100 chr7B 92.344 3344 183 35 1 3323 565057310 565054019 0.000000e+00 4689
2 TraesCS7D01G409100 chr7B 87.744 718 60 10 3320 4009 108712064 108712781 0.000000e+00 813
3 TraesCS7D01G409100 chr7B 83.051 177 25 5 3320 3494 442351104 442351277 5.360000e-34 156
4 TraesCS7D01G409100 chr7A 93.521 2732 150 13 606 3323 608206615 608203897 0.000000e+00 4039
5 TraesCS7D01G409100 chr7A 87.755 637 40 17 1 624 608207273 608206662 0.000000e+00 710
6 TraesCS7D01G409100 chr7A 78.554 401 73 2 3598 3986 321659397 321659796 6.650000e-63 252
7 TraesCS7D01G409100 chr6D 91.638 574 36 5 3316 3877 11116758 11117331 0.000000e+00 784
8 TraesCS7D01G409100 chr6D 78.209 335 54 9 3689 4009 455457236 455457565 3.160000e-46 196
9 TraesCS7D01G409100 chr6D 95.161 62 3 0 2598 2659 60546875 60546814 9.170000e-17 99
10 TraesCS7D01G409100 chr5B 89.474 399 27 8 3625 4009 596488646 596488249 1.290000e-134 490
11 TraesCS7D01G409100 chr5B 90.714 280 11 5 3322 3589 596488920 596488644 3.810000e-95 359
12 TraesCS7D01G409100 chr6A 86.402 478 24 7 3326 3780 587739697 587739238 6.020000e-133 484
13 TraesCS7D01G409100 chr6A 90.476 252 12 1 3770 4009 587737898 587737647 5.000000e-84 322
14 TraesCS7D01G409100 chr6A 80.460 261 45 6 3320 3577 468254737 468254994 1.140000e-45 195
15 TraesCS7D01G409100 chr6A 96.774 62 2 0 2598 2659 77537449 77537388 1.970000e-18 104
16 TraesCS7D01G409100 chr4A 84.900 351 41 7 1921 2269 16031633 16031973 1.070000e-90 344
17 TraesCS7D01G409100 chr2A 87.059 255 30 2 2404 2658 459451596 459451847 6.560000e-73 285
18 TraesCS7D01G409100 chr2A 86.667 255 31 2 2404 2658 459512826 459513077 3.050000e-71 279
19 TraesCS7D01G409100 chr1A 84.806 283 26 10 1991 2269 505525420 505525151 6.600000e-68 268
20 TraesCS7D01G409100 chr1A 84.091 176 26 2 3320 3494 551190650 551190824 6.890000e-38 169
21 TraesCS7D01G409100 chr3B 84.706 255 35 4 2404 2658 362359334 362359584 6.650000e-63 252
22 TraesCS7D01G409100 chr3B 77.698 278 61 1 3600 3877 750894728 750895004 6.890000e-38 169
23 TraesCS7D01G409100 chr5D 84.091 176 26 2 3320 3494 38279009 38278835 6.890000e-38 169
24 TraesCS7D01G409100 chr6B 83.146 178 28 2 3318 3494 711367457 711367281 1.150000e-35 161
25 TraesCS7D01G409100 chr6B 95.161 62 3 0 2598 2659 134825148 134825087 9.170000e-17 99
26 TraesCS7D01G409100 chr1B 82.955 176 28 2 3320 3494 313486485 313486311 1.490000e-34 158
27 TraesCS7D01G409100 chr2B 76.895 277 61 3 3600 3875 31055682 31055408 1.930000e-33 154
28 TraesCS7D01G409100 chr3A 76.344 279 63 3 3600 3877 508523235 508522959 3.230000e-31 147
29 TraesCS7D01G409100 chr3A 75.166 302 50 16 3318 3601 732088553 732088259 7.040000e-23 119
30 TraesCS7D01G409100 chr5A 74.832 298 56 10 3319 3601 396486668 396486375 2.530000e-22 117


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 TraesCS7D01G409100 chr7D 528025325 528029333 4008 True 7404.0 7404 100.000 1 4009 1 chr7D.!!$R1 4008
1 TraesCS7D01G409100 chr7B 565054019 565057310 3291 True 4689.0 4689 92.344 1 3323 1 chr7B.!!$R1 3322
2 TraesCS7D01G409100 chr7B 108712064 108712781 717 False 813.0 813 87.744 3320 4009 1 chr7B.!!$F1 689
3 TraesCS7D01G409100 chr7A 608203897 608207273 3376 True 2374.5 4039 90.638 1 3323 2 chr7A.!!$R1 3322
4 TraesCS7D01G409100 chr6D 11116758 11117331 573 False 784.0 784 91.638 3316 3877 1 chr6D.!!$F1 561
5 TraesCS7D01G409100 chr5B 596488249 596488920 671 True 424.5 490 90.094 3322 4009 2 chr5B.!!$R1 687
6 TraesCS7D01G409100 chr6A 587737647 587739697 2050 True 403.0 484 88.439 3326 4009 2 chr6A.!!$R2 683

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
226 238 0.261991 AATCTCCTCCTCGCCCTACA 59.738 55.0 0.00 0.0 0.0 2.74 F
1029 1124 1.107114 ATGGTGTTGTTGCGGTGAAA 58.893 45.0 0.00 0.0 0.0 2.69 F
2905 3012 0.599204 TCACTGAAAACTCCGACGGC 60.599 55.0 9.66 0.0 0.0 5.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1179 1274 0.876399 TCGACGTTCGGATCAGTTCA 59.124 50.000 7.39 0.0 40.88 3.18 R
2973 3080 0.034059 CCTGTCTCGCTGTTCTTGGT 59.966 55.000 0.00 0.0 0.00 3.67 R
3886 5382 1.005630 CTAGGCTAGATGCGGGTGC 60.006 63.158 16.70 0.0 44.05 5.01 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
85 86 2.092103 TCTTAGGCCTCTCTGACTCTCC 60.092 54.545 9.68 0.00 0.00 3.71
149 161 3.891049 AGAGAAGAGAAGAGAGGAGAGC 58.109 50.000 0.00 0.00 0.00 4.09
180 192 3.688673 GGCAGATTAGCATCCAGATTAGC 59.311 47.826 0.00 0.00 35.83 3.09
226 238 0.261991 AATCTCCTCCTCGCCCTACA 59.738 55.000 0.00 0.00 0.00 2.74
307 324 4.934356 TGCATTTTATCTCCTTGGTTCCT 58.066 39.130 0.00 0.00 0.00 3.36
314 331 1.229209 TCCTTGGTTCCTCGGCTCT 60.229 57.895 0.00 0.00 0.00 4.09
325 342 3.478509 TCCTCGGCTCTAATCTACAGTC 58.521 50.000 0.00 0.00 0.00 3.51
368 385 3.689161 TGTTCTGGCGAGATTTAACCATG 59.311 43.478 0.00 0.00 0.00 3.66
372 389 3.088532 TGGCGAGATTTAACCATGCTTT 58.911 40.909 0.00 0.00 0.00 3.51
373 390 3.128589 TGGCGAGATTTAACCATGCTTTC 59.871 43.478 0.00 0.00 0.00 2.62
375 392 4.346129 GCGAGATTTAACCATGCTTTCAG 58.654 43.478 0.00 0.00 0.00 3.02
378 395 5.106555 CGAGATTTAACCATGCTTTCAGTGT 60.107 40.000 0.00 0.00 0.00 3.55
435 453 6.259893 TGGAATATGTGATTTGAAAGGGGAA 58.740 36.000 0.00 0.00 0.00 3.97
513 533 2.224621 TGCCTCTTTGTCCTCTTTCAGG 60.225 50.000 0.00 0.00 45.15 3.86
552 572 2.166459 CCTCTCTCATTTCCTGTGCGTA 59.834 50.000 0.00 0.00 0.00 4.42
557 577 2.668457 CTCATTTCCTGTGCGTAGACAC 59.332 50.000 0.00 0.00 41.10 3.67
634 726 4.829492 ACTGCCTGCTATTGTTTTTCTTCT 59.171 37.500 0.00 0.00 0.00 2.85
639 731 6.584184 GCCTGCTATTGTTTTTCTTCTTCTTC 59.416 38.462 0.00 0.00 0.00 2.87
642 734 8.225603 TGCTATTGTTTTTCTTCTTCTTCACT 57.774 30.769 0.00 0.00 0.00 3.41
644 736 8.962111 GCTATTGTTTTTCTTCTTCTTCACTTG 58.038 33.333 0.00 0.00 0.00 3.16
646 738 8.917415 ATTGTTTTTCTTCTTCTTCACTTGAC 57.083 30.769 0.00 0.00 0.00 3.18
647 739 6.852664 TGTTTTTCTTCTTCTTCACTTGACC 58.147 36.000 0.00 0.00 0.00 4.02
648 740 6.659242 TGTTTTTCTTCTTCTTCACTTGACCT 59.341 34.615 0.00 0.00 0.00 3.85
649 741 6.927294 TTTTCTTCTTCTTCACTTGACCTC 57.073 37.500 0.00 0.00 0.00 3.85
728 823 8.983724 GCTAATCACCACTAATTCAGATCTAAC 58.016 37.037 0.00 0.00 0.00 2.34
732 827 6.098409 TCACCACTAATTCAGATCTAACCCTC 59.902 42.308 0.00 0.00 0.00 4.30
759 854 7.278875 TGCCACATCACACATTATATCACTTA 58.721 34.615 0.00 0.00 0.00 2.24
776 871 3.681897 CACTTAGCCAGAAGTCATGACAC 59.318 47.826 27.02 19.26 37.57 3.67
848 943 3.276857 CAAGCTCCTTCTGCATGTACAT 58.723 45.455 1.41 1.41 0.00 2.29
864 959 6.197096 GCATGTACATAAATTTCTTTGCGAGG 59.803 38.462 8.32 0.00 0.00 4.63
866 961 7.441890 TGTACATAAATTTCTTTGCGAGGAA 57.558 32.000 0.00 0.00 0.00 3.36
1023 1118 1.580942 CTCCCATGGTGTTGTTGCG 59.419 57.895 11.73 0.00 0.00 4.85
1029 1124 1.107114 ATGGTGTTGTTGCGGTGAAA 58.893 45.000 0.00 0.00 0.00 2.69
1078 1173 2.620251 TTCTTATGCCTGTGGATCCG 57.380 50.000 7.39 0.00 0.00 4.18
1099 1194 3.990469 CGCACAGTCTTCAGTTCATAAGT 59.010 43.478 0.00 0.00 0.00 2.24
1158 1253 2.012673 GACAATCTGTCATCCACCAGC 58.987 52.381 1.92 0.00 46.22 4.85
1263 1358 1.666054 CTGAGCCTGATCCTGAAAGC 58.334 55.000 0.00 0.00 0.00 3.51
1338 1433 3.129852 TCAACGTTCTGCACAAGTTTG 57.870 42.857 0.00 0.00 0.00 2.93
1464 1559 1.849823 AACCTCCTCCCTGCAGCTT 60.850 57.895 8.66 0.00 0.00 3.74
1541 1636 4.041444 AGACTTCCTCAATCTTTCTGCTGT 59.959 41.667 0.00 0.00 0.00 4.40
1611 1706 2.903357 GAGGCCGAGCAGATGGAA 59.097 61.111 0.00 0.00 0.00 3.53
1638 1733 2.222227 TCTTGTCTGAGCAGCTAGGA 57.778 50.000 0.00 0.00 0.00 2.94
1671 1766 1.627834 GATAATGAGGAGAGCCCCCAG 59.372 57.143 0.00 0.00 34.66 4.45
1724 1819 3.932545 TTTGTTTGTTGCAGTGTGAGT 57.067 38.095 0.00 0.00 0.00 3.41
1748 1843 4.907879 AAAAAGCTCTCCACTGAACTTG 57.092 40.909 0.00 0.00 0.00 3.16
1873 1971 0.617413 CATCCTGCTCCAACCAGAGT 59.383 55.000 0.00 0.00 36.20 3.24
1888 1986 1.134461 CAGAGTCTGCAGAATCCAGGG 60.134 57.143 33.88 20.26 39.73 4.45
2053 2151 1.467035 GCTGCTCTGCTTTCATTTCCG 60.467 52.381 0.00 0.00 0.00 4.30
2094 2194 8.617290 TTTCTGTTTTCCACTCTAAATACTCC 57.383 34.615 0.00 0.00 0.00 3.85
2177 2277 1.771255 GTGGAAGGCCTGACCATCTAT 59.229 52.381 27.40 1.29 43.14 1.98
2294 2394 4.887071 TCATAGTTTGCCTGTCTTTGTTGT 59.113 37.500 0.00 0.00 0.00 3.32
2337 2437 7.172361 GCAAAGTATATCCCAGAGATCAAAGAC 59.828 40.741 0.00 0.00 36.33 3.01
2391 2491 0.672342 AAGTAATCGGTATCGGCGCT 59.328 50.000 7.64 0.00 36.95 5.92
2467 2567 5.047802 TCCTCGGACGTTAAGAAAGTACAAT 60.048 40.000 0.00 0.00 0.00 2.71
2469 2569 5.771469 TCGGACGTTAAGAAAGTACAATCA 58.229 37.500 0.00 0.00 0.00 2.57
2513 2613 6.458342 CCGTTCAAAAACAAGTAAGCTCTCTT 60.458 38.462 0.00 0.00 34.93 2.85
2582 2682 7.044798 AGAAATTTACATCTCTTCCCTTCTCG 58.955 38.462 0.00 0.00 0.00 4.04
2587 2687 5.740290 ACATCTCTTCCCTTCTCGTTTTA 57.260 39.130 0.00 0.00 0.00 1.52
2646 2746 2.746362 GGTTCAGAAACAGCTCCATGAG 59.254 50.000 0.00 0.00 37.10 2.90
2715 2815 8.759641 GTCATATGTGTCAGAATTCAGACATAC 58.240 37.037 29.27 20.32 42.81 2.39
2716 2816 8.699130 TCATATGTGTCAGAATTCAGACATACT 58.301 33.333 29.27 20.46 42.81 2.12
2748 2855 9.965902 AGTTCATATTAGAAAATTGTCTGGAGT 57.034 29.630 8.51 0.00 0.00 3.85
2772 2879 3.059884 GTCGATTTTCTGACAGTCTGCA 58.940 45.455 1.59 0.00 35.20 4.41
2831 2938 1.007011 CGCATAGAAGAACACGCGAAG 60.007 52.381 15.93 7.57 45.17 3.79
2840 2947 1.259507 GAACACGCGAAGTACTTGCAA 59.740 47.619 15.93 0.00 0.00 4.08
2868 2975 2.932194 AGGAGCAGCAGAAGGCCA 60.932 61.111 5.01 0.00 46.50 5.36
2897 3004 3.583806 CATCTCGCTCTCACTGAAAACT 58.416 45.455 0.00 0.00 0.00 2.66
2905 3012 0.599204 TCACTGAAAACTCCGACGGC 60.599 55.000 9.66 0.00 0.00 5.68
2973 3080 1.248486 CACCTCTTCACCTCAGACGA 58.752 55.000 0.00 0.00 0.00 4.20
2988 3095 0.039437 GACGACCAAGAACAGCGAGA 60.039 55.000 0.00 0.00 0.00 4.04
3011 3118 2.719705 AGGGTCCCCTTGTTCATAACAA 59.280 45.455 3.51 5.22 45.70 2.83
3092 3200 3.170672 TGGCAGAGCTGTGGTGGT 61.171 61.111 13.44 0.00 0.00 4.16
3116 3224 6.198403 GTCACGATGATATACACACGAACATT 59.802 38.462 0.00 0.00 36.26 2.71
3123 3231 8.402326 TGATATACACACGAACATTGTAGTTC 57.598 34.615 0.00 0.00 43.39 3.01
3134 3242 4.056050 ACATTGTAGTTCGAACGAGCTTT 58.944 39.130 21.87 6.68 36.99 3.51
3154 3262 0.763035 AGGTTTTAGCCAGTGGTCGT 59.237 50.000 11.74 0.00 0.00 4.34
3264 3372 0.033781 GCATCAAGCAGTGCCCAAAA 59.966 50.000 12.58 0.00 44.79 2.44
3265 3373 1.338389 GCATCAAGCAGTGCCCAAAAT 60.338 47.619 12.58 0.00 44.79 1.82
3371 3479 4.547367 CCGGAATCAGCCCCGTCC 62.547 72.222 0.00 0.00 43.93 4.79
3463 3572 2.168503 TACAGCGGCCGTATTTGCG 61.169 57.895 28.70 9.80 0.00 4.85
3496 3605 2.577059 CGGGCTCACGTACACCAT 59.423 61.111 0.00 0.00 0.00 3.55
3558 3678 0.601576 AGTTTCATGTACGCGGCACA 60.602 50.000 16.60 16.60 0.00 4.57
3590 3710 0.317799 GTCAACATGTGCCATGCCAA 59.682 50.000 13.19 0.00 0.00 4.52
3641 3761 4.677779 GCAAGAGCCTTTTGAGTTGTTGAA 60.678 41.667 0.00 0.00 33.58 2.69
3642 3762 5.410067 CAAGAGCCTTTTGAGTTGTTGAAA 58.590 37.500 0.00 0.00 0.00 2.69
3736 3864 1.251527 ACCAACGACCTCGCTCTCAT 61.252 55.000 0.00 0.00 44.43 2.90
3886 5382 4.152402 CAGACTCGACAACACCCAAAATAG 59.848 45.833 0.00 0.00 0.00 1.73
3916 5412 3.995636 TCTAGCCTAGGAATCAACCTGT 58.004 45.455 14.75 0.00 40.81 4.00
3936 5434 2.238942 AGCACACACACGATTCTCAA 57.761 45.000 0.00 0.00 0.00 3.02
3958 5456 1.962807 CAGCCAGATCCAAACCAACAA 59.037 47.619 0.00 0.00 0.00 2.83
3991 5489 2.095718 GGACTCAAGGACAAATCGTTGC 60.096 50.000 5.14 0.00 45.99 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
85 86 3.580458 CTCCCTAGAGAGAGAGAGAGAGG 59.420 56.522 0.00 0.00 43.39 3.69
108 120 0.621571 TATCCAACAGCAGCTCCCCT 60.622 55.000 0.00 0.00 0.00 4.79
149 161 5.655974 TGGATGCTAATCTGCCTATCTCTAG 59.344 44.000 0.00 0.00 32.95 2.43
180 192 1.520787 GCGAGATGGGTTGTACGGG 60.521 63.158 0.00 0.00 0.00 5.28
226 238 2.831565 AGCCAGAGAAGAAGATGGACT 58.168 47.619 0.00 0.00 34.60 3.85
307 324 2.158856 TCCGACTGTAGATTAGAGCCGA 60.159 50.000 0.00 0.00 0.00 5.54
314 331 2.628178 CCATGGCTCCGACTGTAGATTA 59.372 50.000 0.00 0.00 0.00 1.75
325 342 1.508088 GCAAAGAACCATGGCTCCG 59.492 57.895 13.04 1.95 0.00 4.63
385 402 3.801114 AACCAACAGAAAAGTTCAGCC 57.199 42.857 0.00 0.00 0.00 4.85
387 404 5.066505 AGCACTAACCAACAGAAAAGTTCAG 59.933 40.000 0.00 0.00 0.00 3.02
435 453 4.096984 CCAAATCAGGAAGCGAGCTTTATT 59.903 41.667 11.92 7.16 36.26 1.40
513 533 5.932883 AGAGAGGATAAACAGGAACGAAAAC 59.067 40.000 0.00 0.00 0.00 2.43
552 572 2.476619 CAGCTCGTGAAAAATCGTGTCT 59.523 45.455 0.00 0.00 0.00 3.41
634 726 4.287067 AGCATTAGGAGGTCAAGTGAAGAA 59.713 41.667 0.00 0.00 0.00 2.52
639 731 3.196469 TCAGAGCATTAGGAGGTCAAGTG 59.804 47.826 0.00 0.00 36.03 3.16
642 734 5.441718 AATTCAGAGCATTAGGAGGTCAA 57.558 39.130 0.00 0.00 36.03 3.18
644 736 4.578105 CCAAATTCAGAGCATTAGGAGGTC 59.422 45.833 0.00 0.00 0.00 3.85
645 737 4.530875 CCAAATTCAGAGCATTAGGAGGT 58.469 43.478 0.00 0.00 0.00 3.85
646 738 3.317430 GCCAAATTCAGAGCATTAGGAGG 59.683 47.826 0.00 0.00 0.00 4.30
647 739 3.949754 TGCCAAATTCAGAGCATTAGGAG 59.050 43.478 0.00 0.00 0.00 3.69
648 740 3.696051 GTGCCAAATTCAGAGCATTAGGA 59.304 43.478 0.00 0.00 37.60 2.94
649 741 3.181483 GGTGCCAAATTCAGAGCATTAGG 60.181 47.826 0.00 0.00 37.60 2.69
728 823 0.250858 TGTGTGATGTGGCAAGAGGG 60.251 55.000 0.00 0.00 0.00 4.30
732 827 6.261603 AGTGATATAATGTGTGATGTGGCAAG 59.738 38.462 0.00 0.00 0.00 4.01
759 854 1.696336 ACAGTGTCATGACTTCTGGCT 59.304 47.619 32.92 21.43 37.84 4.75
776 871 6.676456 GCTTGAGCTACCATTAATTCACACAG 60.676 42.308 0.00 0.00 38.21 3.66
848 943 6.262273 ACTGAAGTTCCTCGCAAAGAAATTTA 59.738 34.615 0.00 0.00 31.07 1.40
1023 1118 2.178273 GCGGCGATTGGTTTCACC 59.822 61.111 12.98 0.00 39.22 4.02
1078 1173 5.683859 CAACTTATGAACTGAAGACTGTGC 58.316 41.667 0.00 0.00 0.00 4.57
1158 1253 4.081807 TCAGTCTTGATGTCTGATGACTGG 60.082 45.833 17.21 3.67 46.40 4.00
1179 1274 0.876399 TCGACGTTCGGATCAGTTCA 59.124 50.000 7.39 0.00 40.88 3.18
1182 1277 1.136984 GCTCGACGTTCGGATCAGT 59.863 57.895 7.39 0.00 40.88 3.41
1263 1358 1.293924 GCGAGACATGAGACAATGGG 58.706 55.000 0.00 0.00 31.46 4.00
1338 1433 3.982058 AGTTTGTCGAAGATGACGAGAAC 59.018 43.478 0.00 0.00 41.26 3.01
1368 1463 4.740431 GCACCCATTTGCCGGCAC 62.740 66.667 32.95 11.73 36.42 5.01
1376 1471 1.260544 GAAAGGCAGAGCACCCATTT 58.739 50.000 0.00 0.00 0.00 2.32
1464 1559 1.419762 ACATTGCCTGTGTCACCACTA 59.580 47.619 0.00 0.00 42.34 2.74
1541 1636 1.767088 AGCTGCCATCAGAAGCATCTA 59.233 47.619 0.00 0.00 42.95 1.98
1611 1706 3.672808 CTGCTCAGACAAGAACTGGAAT 58.327 45.455 0.00 0.00 36.22 3.01
1638 1733 3.329386 CTCATTATCGGTGATGGCGATT 58.671 45.455 0.02 0.00 0.00 3.34
1671 1766 3.609853 TGGCAATGGACTCACATCTAAC 58.390 45.455 0.00 0.00 0.00 2.34
1724 1819 5.036117 AGTTCAGTGGAGAGCTTTTTACA 57.964 39.130 0.00 0.00 0.00 2.41
1748 1843 1.875514 TGAGTTTCAGACATGCTGCAC 59.124 47.619 3.57 10.07 44.52 4.57
1798 1896 5.165676 GTGTCGTATATGTCCTGAACAACA 58.834 41.667 0.00 0.00 42.37 3.33
1799 1897 4.264614 CGTGTCGTATATGTCCTGAACAAC 59.735 45.833 0.00 0.00 42.37 3.32
1800 1898 4.417506 CGTGTCGTATATGTCCTGAACAA 58.582 43.478 0.00 0.00 42.37 2.83
1873 1971 1.198713 GAGACCCTGGATTCTGCAGA 58.801 55.000 13.74 13.74 38.14 4.26
1888 1986 4.203618 GGCAGTTTAGCCGGAGAC 57.796 61.111 5.05 0.00 46.12 3.36
2090 2190 4.346418 AGAGATGTTGAAGTGAACTGGAGT 59.654 41.667 0.00 0.00 0.00 3.85
2091 2191 4.892433 AGAGATGTTGAAGTGAACTGGAG 58.108 43.478 0.00 0.00 0.00 3.86
2092 2192 4.963318 AGAGATGTTGAAGTGAACTGGA 57.037 40.909 0.00 0.00 0.00 3.86
2093 2193 7.678947 AATAAGAGATGTTGAAGTGAACTGG 57.321 36.000 0.00 0.00 0.00 4.00
2094 2194 9.208022 TGTAATAAGAGATGTTGAAGTGAACTG 57.792 33.333 0.00 0.00 0.00 3.16
2177 2277 5.316167 ACCTGCAAATGACTCTTTACATGA 58.684 37.500 0.00 0.00 0.00 3.07
2294 2394 1.237533 TGCGTGTCGGTACTTCTGTA 58.762 50.000 0.00 0.00 0.00 2.74
2391 2491 6.202379 TGCATCAAAATTCAGAATCGCAAAAA 59.798 30.769 0.00 0.00 0.00 1.94
2467 2567 2.009681 TCACTTCCACTGCTACCTGA 57.990 50.000 0.00 0.00 0.00 3.86
2469 2569 1.834263 GGATCACTTCCACTGCTACCT 59.166 52.381 0.00 0.00 44.74 3.08
2513 2613 4.513692 GCATGCACTCCGGTGTAATAATTA 59.486 41.667 14.21 0.00 44.65 1.40
2582 2682 6.071896 AGCTTCTGCCAAGTTCCTAATAAAAC 60.072 38.462 0.00 0.00 40.80 2.43
2587 2687 3.265479 AGAGCTTCTGCCAAGTTCCTAAT 59.735 43.478 5.93 0.00 40.80 1.73
2646 2746 3.445805 AGTTTCAGACTACCTCTAGCTGC 59.554 47.826 0.00 0.00 36.65 5.25
2729 2836 6.591834 CGACAGACTCCAGACAATTTTCTAAT 59.408 38.462 0.00 0.00 0.00 1.73
2766 2873 2.223665 GGCCAAGATTAAGCATGCAGAC 60.224 50.000 21.98 6.38 0.00 3.51
2772 2879 2.381911 CACCTGGCCAAGATTAAGCAT 58.618 47.619 8.77 0.00 0.00 3.79
2831 2938 4.081087 TCCTCCAGTATCCTTTGCAAGTAC 60.081 45.833 0.00 2.59 0.00 2.73
2840 2947 1.127343 GCTGCTCCTCCAGTATCCTT 58.873 55.000 0.00 0.00 35.28 3.36
2878 2985 2.029828 GGAGTTTTCAGTGAGAGCGAGA 60.030 50.000 0.00 0.00 0.00 4.04
2973 3080 0.034059 CCTGTCTCGCTGTTCTTGGT 59.966 55.000 0.00 0.00 0.00 3.67
3049 3157 3.423154 GTGGTGAGCTTTCCGCCG 61.423 66.667 9.58 0.00 40.39 6.46
3050 3158 1.578206 GAAGTGGTGAGCTTTCCGCC 61.578 60.000 15.00 7.19 40.39 6.13
3055 3163 0.035458 CCGAGGAAGTGGTGAGCTTT 59.965 55.000 0.00 0.00 0.00 3.51
3092 3200 5.238006 TGTTCGTGTGTATATCATCGTGA 57.762 39.130 0.00 0.00 0.00 4.35
3116 3224 3.254166 ACCTAAAGCTCGTTCGAACTACA 59.746 43.478 24.80 8.73 0.00 2.74
3123 3231 3.181523 GGCTAAAACCTAAAGCTCGTTCG 60.182 47.826 0.00 0.00 36.48 3.95
3130 3238 3.154710 ACCACTGGCTAAAACCTAAAGC 58.845 45.455 0.00 0.00 35.47 3.51
3134 3242 1.972795 ACGACCACTGGCTAAAACCTA 59.027 47.619 0.00 0.00 0.00 3.08
3184 3292 4.646492 CCCATTTCCTATTCCCAAAGTGAG 59.354 45.833 0.00 0.00 0.00 3.51
3264 3372 7.099266 TCCAAATACTTGATGCAAATTCGAT 57.901 32.000 0.00 0.00 34.14 3.59
3265 3373 6.507958 TCCAAATACTTGATGCAAATTCGA 57.492 33.333 0.00 0.00 34.14 3.71
3311 3419 3.764885 AAGGCCATTTTCGATCTTTCG 57.235 42.857 5.01 0.00 46.87 3.46
3463 3572 2.423538 AGCCCGCACAGAATATCAAAAC 59.576 45.455 0.00 0.00 0.00 2.43
3653 3773 0.749649 ACGAGAGGATGGAGATGCAC 59.250 55.000 0.00 0.00 0.00 4.57
3736 3864 1.017177 GTTGCCTCGTACCGCAATGA 61.017 55.000 11.49 0.00 45.96 2.57
3886 5382 1.005630 CTAGGCTAGATGCGGGTGC 60.006 63.158 16.70 0.00 44.05 5.01
3916 5412 3.378911 TTGAGAATCGTGTGTGTGCTA 57.621 42.857 0.00 0.00 38.61 3.49
3936 5434 2.225091 TGTTGGTTTGGATCTGGCTGAT 60.225 45.455 6.58 6.58 38.27 2.90
3958 5456 1.889829 CTTGAGTCCTTCGTCTCCAGT 59.110 52.381 0.00 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.