Multiple sequence alignment - TraesCS7B01G477600

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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 TraesCS7B01G477600 chr7B 100.000 3220 0 0 1 3220 733295815 733299034 0.000000e+00 5947.0
1 TraesCS7B01G477600 chr7B 86.641 1295 144 10 928 2217 733028557 733029827 0.000000e+00 1406.0
2 TraesCS7B01G477600 chr7B 82.028 1341 198 25 904 2217 733141567 733142891 0.000000e+00 1101.0
3 TraesCS7B01G477600 chr7B 86.215 827 104 5 993 1812 733308745 733309568 0.000000e+00 887.0
4 TraesCS7B01G477600 chr7B 88.984 699 59 13 1 691 733139916 733140604 0.000000e+00 848.0
5 TraesCS7B01G477600 chr7B 83.069 821 122 11 1007 1812 733081073 733081891 0.000000e+00 730.0
6 TraesCS7B01G477600 chr7B 87.114 551 39 9 2215 2734 31541674 31542223 2.140000e-166 595.0
7 TraesCS7B01G477600 chr7B 89.147 129 5 3 789 911 733141320 733141445 5.560000e-33 152.0
8 TraesCS7B01G477600 chr7B 98.077 52 1 0 694 745 733141177 733141228 1.230000e-14 91.6
9 TraesCS7B01G477600 chr7B 100.000 29 0 0 743 771 733141237 733141265 2.000000e-03 54.7
10 TraesCS7B01G477600 chr6B 87.979 1356 148 10 870 2217 662032094 662030746 0.000000e+00 1587.0
11 TraesCS7B01G477600 chr6B 91.628 860 38 8 2220 3065 261667518 261668357 0.000000e+00 1158.0
12 TraesCS7B01G477600 chr5B 91.349 867 40 23 2216 3065 283951799 283952647 0.000000e+00 1153.0
13 TraesCS7B01G477600 chr5B 92.143 140 11 0 3066 3205 686648142 686648003 7.050000e-47 198.0
14 TraesCS7B01G477600 chr5B 92.143 140 11 0 3066 3205 686683657 686683518 7.050000e-47 198.0
15 TraesCS7B01G477600 chr1B 79.875 1282 207 33 946 2211 361368639 361369885 0.000000e+00 891.0
16 TraesCS7B01G477600 chr3B 94.717 530 20 5 2215 2737 781482065 781481537 0.000000e+00 817.0
17 TraesCS7B01G477600 chr3B 92.788 513 27 7 2216 2721 105606793 105606284 0.000000e+00 734.0
18 TraesCS7B01G477600 chr3B 81.077 687 116 10 998 1674 20459994 20459312 1.310000e-148 536.0
19 TraesCS7B01G477600 chr3B 80.702 114 15 6 148 259 817313414 817313306 7.400000e-12 82.4
20 TraesCS7B01G477600 chr7D 82.439 820 126 11 1007 1812 630502901 630503716 0.000000e+00 701.0
21 TraesCS7B01G477600 chr7D 83.333 558 85 5 1007 1557 630272866 630273422 2.870000e-140 508.0
22 TraesCS7B01G477600 chr7D 88.520 392 34 6 2569 2959 526801183 526801564 6.290000e-127 464.0
23 TraesCS7B01G477600 chr7D 92.903 155 11 0 3066 3220 498384058 498384212 3.230000e-55 226.0
24 TraesCS7B01G477600 chr7D 92.258 155 12 0 3066 3220 507238107 507237953 1.500000e-53 220.0
25 TraesCS7B01G477600 chr7D 79.832 119 20 4 141 259 601278652 601278766 2.060000e-12 84.2
26 TraesCS7B01G477600 chr7D 86.567 67 7 2 214 278 630605669 630605735 4.460000e-09 73.1
27 TraesCS7B01G477600 chr7D 83.784 74 11 1 203 276 558330068 558330140 5.760000e-08 69.4
28 TraesCS7B01G477600 chr7A 81.770 757 127 10 1064 1816 726467256 726468005 9.810000e-175 623.0
29 TraesCS7B01G477600 chr7A 90.741 54 4 1 225 278 726520444 726520496 1.600000e-08 71.3
30 TraesCS7B01G477600 chr1D 87.935 489 48 6 2472 2959 4638337 4637859 1.680000e-157 566.0
31 TraesCS7B01G477600 chr1D 100.000 28 0 0 2215 2242 70562944 70562917 6.000000e-03 52.8
32 TraesCS7B01G477600 chr5A 87.835 485 49 5 2476 2959 567119805 567119330 7.800000e-156 560.0
33 TraesCS7B01G477600 chr5A 82.552 533 58 23 2433 2959 659132194 659132697 1.370000e-118 436.0
34 TraesCS7B01G477600 chr5A 94.161 137 8 0 3066 3202 196305244 196305380 3.260000e-50 209.0
35 TraesCS7B01G477600 chr5A 91.971 137 11 0 3066 3202 196304524 196304660 3.280000e-45 193.0
36 TraesCS7B01G477600 chr6D 87.629 485 50 6 2475 2958 433032138 433031663 3.630000e-154 555.0
37 TraesCS7B01G477600 chr6D 90.816 392 28 5 2569 2959 351965477 351965093 4.760000e-143 518.0
38 TraesCS7B01G477600 chr1A 84.679 483 49 16 2478 2959 15356318 15356776 2.930000e-125 459.0
39 TraesCS7B01G477600 chr4A 79.787 376 66 3 1436 1801 589333591 589333966 6.850000e-67 265.0
40 TraesCS7B01G477600 chr5D 93.333 150 10 0 3071 3220 117892246 117892097 4.180000e-54 222.0
41 TraesCS7B01G477600 chr2A 92.857 140 10 0 3066 3205 546783318 546783179 1.510000e-48 204.0
42 TraesCS7B01G477600 chr2A 88.333 60 5 2 224 281 574451832 574451773 1.600000e-08 71.3
43 TraesCS7B01G477600 chrUn 92.143 140 11 0 3066 3205 344568049 344567910 7.050000e-47 198.0
44 TraesCS7B01G477600 chrUn 87.500 56 6 1 224 278 40976195 40976140 2.680000e-06 63.9
45 TraesCS7B01G477600 chr4D 88.333 60 5 2 224 281 479681114 479681173 1.600000e-08 71.3


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 TraesCS7B01G477600 chr7B 733295815 733299034 3219 False 5947.00 5947 100.0000 1 3220 1 chr7B.!!$F4 3219
1 TraesCS7B01G477600 chr7B 733028557 733029827 1270 False 1406.00 1406 86.6410 928 2217 1 chr7B.!!$F2 1289
2 TraesCS7B01G477600 chr7B 733308745 733309568 823 False 887.00 887 86.2150 993 1812 1 chr7B.!!$F5 819
3 TraesCS7B01G477600 chr7B 733081073 733081891 818 False 730.00 730 83.0690 1007 1812 1 chr7B.!!$F3 805
4 TraesCS7B01G477600 chr7B 31541674 31542223 549 False 595.00 595 87.1140 2215 2734 1 chr7B.!!$F1 519
5 TraesCS7B01G477600 chr7B 733139916 733142891 2975 False 449.46 1101 91.6472 1 2217 5 chr7B.!!$F6 2216
6 TraesCS7B01G477600 chr6B 662030746 662032094 1348 True 1587.00 1587 87.9790 870 2217 1 chr6B.!!$R1 1347
7 TraesCS7B01G477600 chr6B 261667518 261668357 839 False 1158.00 1158 91.6280 2220 3065 1 chr6B.!!$F1 845
8 TraesCS7B01G477600 chr5B 283951799 283952647 848 False 1153.00 1153 91.3490 2216 3065 1 chr5B.!!$F1 849
9 TraesCS7B01G477600 chr1B 361368639 361369885 1246 False 891.00 891 79.8750 946 2211 1 chr1B.!!$F1 1265
10 TraesCS7B01G477600 chr3B 781481537 781482065 528 True 817.00 817 94.7170 2215 2737 1 chr3B.!!$R3 522
11 TraesCS7B01G477600 chr3B 105606284 105606793 509 True 734.00 734 92.7880 2216 2721 1 chr3B.!!$R2 505
12 TraesCS7B01G477600 chr3B 20459312 20459994 682 True 536.00 536 81.0770 998 1674 1 chr3B.!!$R1 676
13 TraesCS7B01G477600 chr7D 630502901 630503716 815 False 701.00 701 82.4390 1007 1812 1 chr7D.!!$F6 805
14 TraesCS7B01G477600 chr7D 630272866 630273422 556 False 508.00 508 83.3330 1007 1557 1 chr7D.!!$F5 550
15 TraesCS7B01G477600 chr7A 726467256 726468005 749 False 623.00 623 81.7700 1064 1816 1 chr7A.!!$F1 752
16 TraesCS7B01G477600 chr5A 659132194 659132697 503 False 436.00 436 82.5520 2433 2959 1 chr5A.!!$F1 526
17 TraesCS7B01G477600 chr5A 196304524 196305380 856 False 201.00 209 93.0660 3066 3202 2 chr5A.!!$F2 136

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
848 1475 0.097674 CAACGCCAAGCAGCATACTC 59.902 55.0 0.0 0.0 0.0 2.59 F
902 1532 0.179056 CGATATTGCCCAACCGAGGT 60.179 55.0 0.0 0.0 0.0 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2197 2996 1.089920 ATTGGCTAGCAAACTCGCAG 58.910 50.0 18.24 0.0 36.34 5.18 R
2470 3297 1.324005 GGAAGGAGAGTAGGCAGCGT 61.324 60.0 0.00 0.0 0.00 5.07 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
222 227 7.017498 AGAGAGAAGAAAAACGAAAAAGTCC 57.983 36.000 0.00 0.00 0.00 3.85
297 302 4.161001 GGGCTGTTCCAAGAATTCATGAAT 59.839 41.667 15.36 15.36 36.21 2.57
301 306 7.173735 GGCTGTTCCAAGAATTCATGAATTTTT 59.826 33.333 29.44 26.61 36.08 1.94
389 396 8.466086 AAAAAGTTCACTAGAAAAAGTTGCAG 57.534 30.769 0.00 0.00 35.08 4.41
437 445 8.665643 AGATTCACAATTCAAGCAAAATTTCA 57.334 26.923 0.00 0.00 0.00 2.69
438 446 8.553696 AGATTCACAATTCAAGCAAAATTTCAC 58.446 29.630 0.00 0.00 0.00 3.18
476 484 8.464770 TTCTTCATTTGAAAAAGTTCACACAG 57.535 30.769 0.00 0.00 43.52 3.66
650 659 2.196742 AGCATGGTCCCAATCCTAGA 57.803 50.000 0.00 0.00 0.00 2.43
673 682 3.860536 CGTACTGGCTAGCTTCTTTTCTC 59.139 47.826 15.72 0.00 0.00 2.87
691 700 4.487714 TCTCCCAACAGATTCGCTTAAT 57.512 40.909 0.00 0.00 0.00 1.40
724 1303 6.360370 AGGAGCAGTAGTTTTGACTTGATA 57.640 37.500 0.00 0.00 0.00 2.15
771 1361 5.144692 AGAGTAGTCGCATGCATGATTAT 57.855 39.130 30.64 14.48 0.00 1.28
772 1362 5.167121 AGAGTAGTCGCATGCATGATTATC 58.833 41.667 30.64 16.05 0.00 1.75
776 1366 4.383173 AGTCGCATGCATGATTATCAGAA 58.617 39.130 30.64 1.02 0.00 3.02
805 1432 1.823470 GGATGCATTGCTACGCCCA 60.823 57.895 10.49 0.00 0.00 5.36
808 1435 1.067516 GATGCATTGCTACGCCCAATT 59.932 47.619 10.49 0.00 30.90 2.32
824 1451 3.986072 ATTGCCACGCCCGTATGCA 62.986 57.895 11.52 11.52 34.66 3.96
846 1473 0.179189 GTCAACGCCAAGCAGCATAC 60.179 55.000 0.00 0.00 0.00 2.39
848 1475 0.097674 CAACGCCAAGCAGCATACTC 59.902 55.000 0.00 0.00 0.00 2.59
849 1476 1.361668 AACGCCAAGCAGCATACTCG 61.362 55.000 0.00 0.00 0.00 4.18
850 1477 2.528743 CGCCAAGCAGCATACTCGG 61.529 63.158 0.00 0.00 0.00 4.63
851 1478 1.450312 GCCAAGCAGCATACTCGGT 60.450 57.895 0.00 0.00 0.00 4.69
852 1479 0.179084 GCCAAGCAGCATACTCGGTA 60.179 55.000 0.00 0.00 0.00 4.02
853 1480 1.571919 CCAAGCAGCATACTCGGTAC 58.428 55.000 0.00 0.00 0.00 3.34
893 1523 1.374758 CGCTCCTCCGATATTGCCC 60.375 63.158 0.00 0.00 0.00 5.36
902 1532 0.179056 CGATATTGCCCAACCGAGGT 60.179 55.000 0.00 0.00 0.00 3.85
917 1676 4.580835 GGTGTTGACCTCGCTCTC 57.419 61.111 0.00 0.00 39.47 3.20
938 1697 2.370189 CCTCTCCACCATTACTCCATCC 59.630 54.545 0.00 0.00 0.00 3.51
1005 1779 0.463474 GAGGCAAGAGTGAGATGGCC 60.463 60.000 0.00 0.00 40.20 5.36
1190 1964 4.803426 GCTCGACGAGGTGGCCAG 62.803 72.222 25.31 0.00 0.00 4.85
1341 2115 2.087501 TGTTCACGCGACATGGTATT 57.912 45.000 15.93 0.00 0.00 1.89
1386 2160 2.418910 CCGCGTCATGGAGGAGAGT 61.419 63.158 4.92 0.00 0.00 3.24
1427 2210 1.955778 TCTCGACAACTACGTCCCAAA 59.044 47.619 0.00 0.00 31.91 3.28
1428 2211 2.056577 CTCGACAACTACGTCCCAAAC 58.943 52.381 0.00 0.00 31.91 2.93
1432 2215 3.135994 GACAACTACGTCCCAAACATGT 58.864 45.455 0.00 0.00 0.00 3.21
1534 2324 6.627087 AGGTTATCTCTTTGTTGATGGAGA 57.373 37.500 0.00 0.00 38.85 3.71
1539 2329 5.157940 TCTCTTTGTTGATGGAGAAGAGG 57.842 43.478 10.47 0.00 42.11 3.69
1557 2347 1.456287 GGTGGAGCTGAAGGTGGTT 59.544 57.895 0.00 0.00 0.00 3.67
1570 2360 0.975887 GGTGGTTGCCATTGTTGGAT 59.024 50.000 0.00 0.00 46.92 3.41
1599 2389 1.360393 TGGGAAAGACCACCCTTGCT 61.360 55.000 0.00 0.00 45.74 3.91
1727 2517 7.231519 TCAGATCGACCAAGATACATTCAGTAT 59.768 37.037 0.00 0.00 45.98 2.12
1777 2573 3.676291 TTCGTCAGATCCAACACATCA 57.324 42.857 0.00 0.00 0.00 3.07
1781 2577 3.554731 CGTCAGATCCAACACATCATGAG 59.445 47.826 0.09 0.00 0.00 2.90
1824 2620 6.866480 TCCTTCATCCATTGCAAAAATAGAC 58.134 36.000 1.71 0.00 0.00 2.59
1825 2621 6.044682 CCTTCATCCATTGCAAAAATAGACC 58.955 40.000 1.71 0.00 0.00 3.85
1831 2627 9.252962 CATCCATTGCAAAAATAGACCTAAATC 57.747 33.333 1.71 0.00 0.00 2.17
1854 2651 6.230472 TCTAGGCACATCATTATATTTGCGT 58.770 36.000 0.00 0.00 33.14 5.24
1945 2744 7.693969 AAGAACAAGACTGGGAAATTATCAG 57.306 36.000 0.00 0.00 34.91 2.90
1952 2751 2.874701 CTGGGAAATTATCAGAGCGGTG 59.125 50.000 0.00 0.00 0.00 4.94
2009 2808 0.965363 CTACCCGCATTGCCAAGGTT 60.965 55.000 15.43 0.00 31.89 3.50
2011 2810 2.573083 CCCGCATTGCCAAGGTTGT 61.573 57.895 2.41 0.00 0.00 3.32
2079 2878 6.552629 CAACCTCTGAATGATGTTGATTCTG 58.447 40.000 7.66 0.00 46.93 3.02
2180 2979 0.249405 AAAAATGTGCTGGTGTGCCG 60.249 50.000 0.00 0.00 37.67 5.69
2197 2996 2.207590 GCCGTTGGCTATAGTTACCAC 58.792 52.381 0.00 0.00 46.69 4.16
2274 3073 1.450312 CCGTGGCCACATCTCCTTC 60.450 63.158 34.16 5.35 0.00 3.46
2323 3135 1.959226 GTGACGAGGGCAGCGAAAA 60.959 57.895 5.25 0.00 0.00 2.29
2324 3136 1.667830 TGACGAGGGCAGCGAAAAG 60.668 57.895 5.25 0.00 0.00 2.27
2395 3207 1.502231 GCAGCGTGAGAGAAAAGACA 58.498 50.000 0.00 0.00 0.00 3.41
2460 3287 1.136500 GCCTCGTCCTCGTATCCTTTT 59.864 52.381 0.00 0.00 38.33 2.27
2479 3306 2.404566 TTTGCCCTCAACGCTGCCTA 62.405 55.000 0.00 0.00 30.75 3.93
2517 3373 1.754621 CTCTGCGCCACCTCCTCTA 60.755 63.158 4.18 0.00 0.00 2.43
2531 3390 2.685388 CTCCTCTACTCTTCATGCGTGA 59.315 50.000 3.97 3.97 0.00 4.35
2769 3659 2.813908 GTTGGCGACGGCTCGATT 60.814 61.111 22.70 0.00 43.06 3.34
2797 3699 3.723097 ATCGGGAGCTGCGAGGAGA 62.723 63.158 0.00 0.00 0.00 3.71
2959 3867 2.600475 GCTCCGTTCGGTTTTCGCA 61.600 57.895 11.04 0.00 39.05 5.10
3065 3973 9.865321 ATAGATTTGGTTTGATTGATTCAAGTG 57.135 29.630 5.21 0.00 44.90 3.16
3066 3974 7.954835 AGATTTGGTTTGATTGATTCAAGTGA 58.045 30.769 5.21 0.00 44.90 3.41
3067 3975 8.086522 AGATTTGGTTTGATTGATTCAAGTGAG 58.913 33.333 5.21 0.00 44.90 3.51
3068 3976 6.957920 TTGGTTTGATTGATTCAAGTGAGA 57.042 33.333 5.21 0.00 44.90 3.27
3069 3977 6.564709 TGGTTTGATTGATTCAAGTGAGAG 57.435 37.500 5.21 0.00 44.90 3.20
3102 4010 3.680786 CACGTCCTCAGTCCGGCA 61.681 66.667 0.00 0.00 0.00 5.69
3107 4015 2.105128 CCTCAGTCCGGCATCGAC 59.895 66.667 0.00 0.00 39.00 4.20
3112 4020 1.078759 CAGTCCGGCATCGACAAGAC 61.079 60.000 0.00 0.00 39.00 3.01
3202 4110 1.535202 GATCTGGAGCGGGAGGGAT 60.535 63.158 0.00 0.00 0.00 3.85
3203 4111 1.825281 GATCTGGAGCGGGAGGGATG 61.825 65.000 0.00 0.00 0.00 3.51
3204 4112 4.247380 CTGGAGCGGGAGGGATGC 62.247 72.222 0.00 0.00 0.00 3.91
3206 4114 4.554036 GGAGCGGGAGGGATGCAC 62.554 72.222 0.00 0.00 0.00 4.57
3207 4115 4.899239 GAGCGGGAGGGATGCACG 62.899 72.222 0.00 0.00 34.75 5.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
407 414 8.721019 TTTTGCTTGAATTGTGAATCTTCTTT 57.279 26.923 0.00 0.00 0.00 2.52
410 417 9.590088 GAAATTTTGCTTGAATTGTGAATCTTC 57.410 29.630 0.00 0.00 0.00 2.87
453 461 7.816945 ACTGTGTGAACTTTTTCAAATGAAG 57.183 32.000 0.00 0.00 43.52 3.02
531 540 7.602265 CCGGATTTTGTTCTGTTTTATTCCAAT 59.398 33.333 0.00 0.00 0.00 3.16
534 543 6.452242 ACCGGATTTTGTTCTGTTTTATTCC 58.548 36.000 9.46 0.00 0.00 3.01
650 659 3.258622 AGAAAAGAAGCTAGCCAGTACGT 59.741 43.478 12.13 0.00 0.00 3.57
673 682 6.483307 TCATTCTATTAAGCGAATCTGTTGGG 59.517 38.462 0.00 0.00 0.00 4.12
691 700 8.758829 TCAAAACTACTGCTCCTAATCATTCTA 58.241 33.333 0.00 0.00 0.00 2.10
724 1303 2.938838 CTACTACTAGCAGGCTGTCCT 58.061 52.381 17.16 8.12 45.66 3.85
771 1361 1.954382 CATCCCGTCGGTATCTTCTGA 59.046 52.381 11.06 0.00 0.00 3.27
772 1362 1.603172 GCATCCCGTCGGTATCTTCTG 60.603 57.143 11.06 0.00 0.00 3.02
776 1366 1.048601 AATGCATCCCGTCGGTATCT 58.951 50.000 11.06 0.00 0.00 1.98
805 1432 2.770589 GCATACGGGCGTGGCAATT 61.771 57.895 0.00 0.00 32.54 2.32
808 1435 4.706608 TTGCATACGGGCGTGGCA 62.707 61.111 0.00 0.00 37.74 4.92
824 1451 2.555547 GCTGCTTGGCGTTGACCTT 61.556 57.895 0.00 0.00 0.00 3.50
846 1473 0.179108 GGTGGCTTGCTAGTACCGAG 60.179 60.000 7.65 0.00 0.00 4.63
848 1475 0.036765 TTGGTGGCTTGCTAGTACCG 60.037 55.000 14.92 0.00 35.07 4.02
849 1476 1.271163 TGTTGGTGGCTTGCTAGTACC 60.271 52.381 13.71 13.71 33.80 3.34
850 1477 1.804748 GTGTTGGTGGCTTGCTAGTAC 59.195 52.381 0.00 0.00 0.00 2.73
851 1478 1.418264 TGTGTTGGTGGCTTGCTAGTA 59.582 47.619 0.00 0.00 0.00 1.82
852 1479 0.182537 TGTGTTGGTGGCTTGCTAGT 59.817 50.000 0.00 0.00 0.00 2.57
853 1480 0.593128 GTGTGTTGGTGGCTTGCTAG 59.407 55.000 0.00 0.00 0.00 3.42
902 1532 0.251386 AGAGGAGAGCGAGGTCAACA 60.251 55.000 5.06 0.00 0.00 3.33
911 1541 1.067821 GTAATGGTGGAGAGGAGAGCG 59.932 57.143 0.00 0.00 0.00 5.03
912 1542 2.364002 GAGTAATGGTGGAGAGGAGAGC 59.636 54.545 0.00 0.00 0.00 4.09
917 1676 2.370189 GGATGGAGTAATGGTGGAGAGG 59.630 54.545 0.00 0.00 0.00 3.69
938 1697 1.966762 GCCATGGTTGGTGGTCTTG 59.033 57.895 14.67 0.00 45.57 3.02
1028 1802 4.147449 CGATGACGGAGCCCAGCA 62.147 66.667 0.00 0.00 35.72 4.41
1075 1849 1.399440 CACCCGCTTGATCATCTTGTG 59.601 52.381 0.00 0.00 0.00 3.33
1190 1964 0.967380 CATGTTGCCCTTCCAGTCCC 60.967 60.000 0.00 0.00 0.00 4.46
1320 2094 1.424403 TACCATGTCGCGTGAACAAG 58.576 50.000 5.77 0.00 0.00 3.16
1341 2115 1.213296 GCTCCTTAATCTGGGTCCCA 58.787 55.000 11.11 11.11 0.00 4.37
1427 2210 3.206150 GGATCTATCGCCACAAACATGT 58.794 45.455 0.00 0.00 0.00 3.21
1428 2211 2.549754 GGGATCTATCGCCACAAACATG 59.450 50.000 0.00 0.00 34.06 3.21
1534 2324 0.474660 ACCTTCAGCTCCACCCTCTT 60.475 55.000 0.00 0.00 0.00 2.85
1539 2329 0.890996 CAACCACCTTCAGCTCCACC 60.891 60.000 0.00 0.00 0.00 4.61
1599 2389 1.618837 GTCTTGCGATAGGCCTCCATA 59.381 52.381 9.68 0.00 42.61 2.74
1689 2479 2.034053 GTCGATCTGAGACAGGACATCC 59.966 54.545 0.00 0.00 38.42 3.51
1727 2517 3.031013 TCTTCGTCCCATCTCTTGCATA 58.969 45.455 0.00 0.00 0.00 3.14
1777 2573 8.606830 AGGAAAACTATACCTCTTGTTTCTCAT 58.393 33.333 0.00 0.00 32.35 2.90
1781 2577 8.617290 TGAAGGAAAACTATACCTCTTGTTTC 57.383 34.615 0.00 0.00 32.35 2.78
1831 2627 6.486253 ACGCAAATATAATGATGTGCCTAG 57.514 37.500 0.00 0.00 0.00 3.02
1838 2635 9.616634 AGCTCATTAAACGCAAATATAATGATG 57.383 29.630 7.33 4.50 41.40 3.07
1878 2675 8.888579 ACAAGTAAGTACCTATATGCAATGTC 57.111 34.615 0.00 0.00 0.00 3.06
1945 2744 5.353123 TCATAATTGTTAGGAAACACCGCTC 59.647 40.000 0.00 0.00 45.18 5.03
1952 2751 8.220755 TGCTACCATCATAATTGTTAGGAAAC 57.779 34.615 0.00 0.00 36.07 2.78
2079 2878 7.459795 AAATTCTCTGAAAGAACAATCTCCC 57.540 36.000 0.00 0.00 46.34 4.30
2180 2979 2.864343 CGCAGTGGTAACTATAGCCAAC 59.136 50.000 0.00 0.00 33.79 3.77
2197 2996 1.089920 ATTGGCTAGCAAACTCGCAG 58.910 50.000 18.24 0.00 36.34 5.18
2266 3065 5.352569 CACTTTCATGCGTAAAGAAGGAGAT 59.647 40.000 11.24 0.00 37.38 2.75
2460 3287 2.404566 TAGGCAGCGTTGAGGGCAAA 62.405 55.000 2.38 0.00 35.42 3.68
2470 3297 1.324005 GGAAGGAGAGTAGGCAGCGT 61.324 60.000 0.00 0.00 0.00 5.07
2474 3301 1.926665 AGAGAGGAAGGAGAGTAGGCA 59.073 52.381 0.00 0.00 0.00 4.75
2479 3306 1.569072 GGGAGAGAGAGGAAGGAGAGT 59.431 57.143 0.00 0.00 0.00 3.24
2517 3373 1.738099 GCCGTCACGCATGAAGAGT 60.738 57.895 0.00 0.00 36.52 3.24
2531 3390 3.823330 GGGATGACGAGACGCCGT 61.823 66.667 0.00 0.00 46.43 5.68
2769 3659 2.423898 GCTCCCGATCCAGGAACGA 61.424 63.158 20.23 0.53 31.49 3.85
2959 3867 1.556911 CACCCTGCAATACTCTCCTGT 59.443 52.381 0.00 0.00 0.00 4.00
3081 3989 2.626780 CGGACTGAGGACGTGCTGA 61.627 63.158 16.62 4.77 0.00 4.26
3086 3994 2.680352 ATGCCGGACTGAGGACGT 60.680 61.111 5.05 0.00 0.00 4.34
3102 4010 0.250513 GCTCCCCTTGTCTTGTCGAT 59.749 55.000 0.00 0.00 0.00 3.59
3107 4015 0.959372 CTGCTGCTCCCCTTGTCTTG 60.959 60.000 0.00 0.00 0.00 3.02
3156 4064 1.334384 GGGAGAAGGTGAGGAGAGGC 61.334 65.000 0.00 0.00 0.00 4.70


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

AutoCloner maintained by Alex Coulton.