Multiple sequence alignment - TraesCS7D01G462800

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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 TraesCS7D01G462800 chr7D 100.000 3723 0 0 1 3723 578123967 578127689 0.000000e+00 6876.0
1 TraesCS7D01G462800 chr7D 89.310 1188 96 9 1293 2462 578049790 578050964 0.000000e+00 1461.0
2 TraesCS7D01G462800 chr7D 84.615 1339 143 24 1295 2588 578064758 578066078 0.000000e+00 1273.0
3 TraesCS7D01G462800 chr7D 95.312 192 9 0 968 1159 578049522 578049713 4.670000e-79 305.0
4 TraesCS7D01G462800 chr7D 84.356 326 29 9 45 350 578046196 578046519 2.170000e-77 300.0
5 TraesCS7D01G462800 chr7D 75.320 547 91 28 3067 3600 578051606 578052121 4.840000e-54 222.0
6 TraesCS7D01G462800 chr7D 82.684 231 37 2 2594 2824 578071957 578072184 6.300000e-48 202.0
7 TraesCS7D01G462800 chr7D 89.062 64 3 1 644 707 578043420 578043479 3.990000e-10 76.8
8 TraesCS7D01G462800 chr7D 93.478 46 3 0 304 349 578055020 578055065 6.670000e-08 69.4
9 TraesCS7D01G462800 chr7B 83.463 2443 281 61 1309 3702 641755489 641753121 0.000000e+00 2159.0
10 TraesCS7D01G462800 chr7B 86.611 1322 134 17 1170 2466 641783812 641782509 0.000000e+00 1421.0
11 TraesCS7D01G462800 chr7B 86.548 1182 117 12 1298 2451 641807230 641806063 0.000000e+00 1264.0
12 TraesCS7D01G462800 chr7B 84.495 1019 116 21 2696 3702 641782427 641781439 0.000000e+00 968.0
13 TraesCS7D01G462800 chr7B 83.274 837 106 11 1293 2105 641855530 641854704 0.000000e+00 739.0
14 TraesCS7D01G462800 chr7B 89.293 467 27 12 852 1306 641764791 641764336 6.980000e-157 564.0
15 TraesCS7D01G462800 chr7B 87.377 507 43 9 5 491 641768518 641768013 2.510000e-156 562.0
16 TraesCS7D01G462800 chr7B 80.000 470 64 16 3 449 641862062 641861600 1.670000e-83 320.0
17 TraesCS7D01G462800 chr7B 78.654 520 61 25 2 489 641871900 641871399 2.170000e-77 300.0
18 TraesCS7D01G462800 chr7B 92.105 152 9 1 1016 1167 641787928 641787780 1.050000e-50 211.0
19 TraesCS7D01G462800 chr7B 88.321 137 10 6 538 673 641794176 641794045 3.850000e-35 159.0
20 TraesCS7D01G462800 chr7B 89.683 126 7 3 651 775 641765008 641764888 4.980000e-34 156.0
21 TraesCS7D01G462800 chr7B 90.179 112 4 3 665 775 641788876 641788981 5.010000e-29 139.0
22 TraesCS7D01G462800 chr7B 95.181 83 1 3 534 615 641765080 641765000 1.090000e-25 128.0
23 TraesCS7D01G462800 chr7B 88.060 67 6 2 904 970 641866935 641866871 1.110000e-10 78.7
24 TraesCS7D01G462800 chr7B 96.774 31 1 0 304 334 641810463 641810433 7.000000e-03 52.8
25 TraesCS7D01G462800 chr7A 93.960 1192 61 7 2518 3700 670264403 670263214 0.000000e+00 1792.0
26 TraesCS7D01G462800 chr7A 84.507 1775 179 51 1293 3006 670269978 670268239 0.000000e+00 1666.0
27 TraesCS7D01G462800 chr7A 88.775 1069 83 11 1458 2492 670265539 670264474 0.000000e+00 1275.0
28 TraesCS7D01G462800 chr7A 81.818 495 64 17 12 491 670267083 670266600 3.490000e-105 392.0
29 TraesCS7D01G462800 chr7A 76.719 640 103 27 3057 3686 670268236 670267633 7.760000e-82 315.0
30 TraesCS7D01G462800 chr7A 88.618 123 14 0 1298 1420 670265661 670265539 2.320000e-32 150.0
31 TraesCS7D01G462800 chr7A 87.838 74 7 2 897 970 670274651 670274580 6.630000e-13 86.1
32 TraesCS7D01G462800 chr7A 86.486 74 9 1 897 970 670275392 670275320 3.080000e-11 80.5
33 TraesCS7D01G462800 chr3D 76.239 787 145 21 1613 2376 512908196 512908963 2.710000e-101 379.0
34 TraesCS7D01G462800 chr3D 78.723 94 13 6 2828 2918 357426453 357426364 5.190000e-04 56.5
35 TraesCS7D01G462800 chr3B 76.299 789 126 29 1613 2376 675559928 675560680 7.600000e-97 364.0
36 TraesCS7D01G462800 chr3B 79.348 92 13 5 2829 2918 459102601 459102514 4.020000e-05 60.2
37 TraesCS7D01G462800 chr6B 90.541 74 6 1 897 970 79948154 79948082 3.060000e-16 97.1
38 TraesCS7D01G462800 chr6B 90.541 74 6 1 897 970 80001645 80001573 3.060000e-16 97.1
39 TraesCS7D01G462800 chrUn 89.855 69 5 2 903 970 27627599 27627532 1.840000e-13 87.9
40 TraesCS7D01G462800 chrUn 87.838 74 6 2 897 970 27528256 27528186 2.380000e-12 84.2
41 TraesCS7D01G462800 chr6A 87.143 70 6 3 903 970 46569656 46569588 3.990000e-10 76.8
42 TraesCS7D01G462800 chr5A 84.706 85 1 4 503 575 680399557 680399641 1.430000e-09 75.0
43 TraesCS7D01G462800 chr4D 97.297 37 1 0 2826 2862 400201945 400201981 3.100000e-06 63.9
44 TraesCS7D01G462800 chr4D 100.000 28 0 0 2827 2854 395958241 395958214 7.000000e-03 52.8
45 TraesCS7D01G462800 chr5D 79.570 93 14 4 2827 2918 58120221 58120133 1.120000e-05 62.1
46 TraesCS7D01G462800 chr6D 94.737 38 2 0 2825 2862 83109193 83109230 4.020000e-05 60.2


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 TraesCS7D01G462800 chr7D 578123967 578127689 3722 False 6876.000000 6876 100.000000 1 3723 1 chr7D.!!$F3 3722
1 TraesCS7D01G462800 chr7D 578064758 578066078 1320 False 1273.000000 1273 84.615000 1295 2588 1 chr7D.!!$F1 1293
2 TraesCS7D01G462800 chr7D 578043420 578055065 11645 False 405.700000 1461 87.806333 45 3600 6 chr7D.!!$F4 3555
3 TraesCS7D01G462800 chr7B 641753121 641755489 2368 True 2159.000000 2159 83.463000 1309 3702 1 chr7B.!!$R1 2393
4 TraesCS7D01G462800 chr7B 641781439 641787928 6489 True 866.666667 1421 87.737000 1016 3702 3 chr7B.!!$R8 2686
5 TraesCS7D01G462800 chr7B 641854704 641855530 826 True 739.000000 739 83.274000 1293 2105 1 chr7B.!!$R3 812
6 TraesCS7D01G462800 chr7B 641806063 641810463 4400 True 658.400000 1264 91.661000 304 2451 2 chr7B.!!$R9 2147
7 TraesCS7D01G462800 chr7B 641764336 641768518 4182 True 352.500000 564 90.383500 5 1306 4 chr7B.!!$R7 1301
8 TraesCS7D01G462800 chr7B 641871399 641871900 501 True 300.000000 300 78.654000 2 489 1 chr7B.!!$R6 487
9 TraesCS7D01G462800 chr7A 670263214 670269978 6764 True 931.666667 1792 85.732833 12 3700 6 chr7A.!!$R1 3688
10 TraesCS7D01G462800 chr3D 512908196 512908963 767 False 379.000000 379 76.239000 1613 2376 1 chr3D.!!$F1 763
11 TraesCS7D01G462800 chr3B 675559928 675560680 752 False 364.000000 364 76.299000 1613 2376 1 chr3B.!!$F1 763

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
408 5934 0.173481 CCAGCGTGAACAGCTAGCTA 59.827 55.0 18.86 0.0 44.06 3.32 F
495 8046 0.250989 CTCCTCTCTAGGTAGGCCGG 60.251 65.0 0.00 0.0 44.09 6.13 F
1666 17418 0.318762 GAACACGAAGGTCAGGAGCT 59.681 55.0 0.00 0.0 41.53 4.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1731 17483 1.076705 GGGGCCTCTGTTGAATCCC 60.077 63.158 0.84 0.0 34.77 3.85 R
2132 17934 2.037136 GTGCTGCGTGAGGAAGCAT 61.037 57.895 11.42 0.0 42.95 3.79 R
3294 19266 0.172803 GACCTAATCACTGGCGACGT 59.827 55.000 0.00 0.0 0.00 4.34 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
67 3832 8.695456 AGAAAAAGTTTGGAGTATGTTGAATGT 58.305 29.630 0.00 0.00 0.00 2.71
139 3918 7.621428 AAGAACTTATGACATGATGAGTTGG 57.379 36.000 8.68 0.00 33.55 3.77
140 3919 5.587844 AGAACTTATGACATGATGAGTTGGC 59.412 40.000 8.68 0.00 33.55 4.52
141 3920 5.108187 ACTTATGACATGATGAGTTGGCT 57.892 39.130 0.00 0.00 0.00 4.75
142 3921 6.239217 ACTTATGACATGATGAGTTGGCTA 57.761 37.500 0.00 0.00 0.00 3.93
155 3934 9.056005 TGATGAGTTGGCTATATGATGTTAAAC 57.944 33.333 0.00 0.00 0.00 2.01
253 4033 3.455910 CCATCCCCTTCAGACTTGTGATA 59.544 47.826 0.00 0.00 0.00 2.15
263 4043 8.642432 CCTTCAGACTTGTGATATCCACTTATA 58.358 37.037 0.00 0.00 45.86 0.98
292 4075 1.971167 TGTGATTTCCACCAGCCGC 60.971 57.895 0.00 0.00 45.09 6.53
294 4077 2.435938 GATTTCCACCAGCCGCGA 60.436 61.111 8.23 0.00 0.00 5.87
295 4078 2.436646 ATTTCCACCAGCCGCGAG 60.437 61.111 8.23 0.00 0.00 5.03
343 4464 3.578688 GGTTTGATGAAGTGGCATTCAC 58.421 45.455 12.42 8.69 41.76 3.18
363 5876 7.862512 TTCACATGCATGTATTATGTCTGAA 57.137 32.000 30.92 21.99 39.39 3.02
366 5879 9.558396 TCACATGCATGTATTATGTCTGAAATA 57.442 29.630 30.92 0.00 39.39 1.40
383 5903 4.657039 TGAAATACCCCTGGTGATACTACC 59.343 45.833 0.00 0.00 41.24 3.18
406 5932 1.079819 TCCAGCGTGAACAGCTAGC 60.080 57.895 6.62 6.62 44.06 3.42
407 5933 1.079543 CCAGCGTGAACAGCTAGCT 60.080 57.895 12.68 12.68 44.06 3.32
408 5934 0.173481 CCAGCGTGAACAGCTAGCTA 59.827 55.000 18.86 0.00 44.06 3.32
409 5935 1.554392 CAGCGTGAACAGCTAGCTAG 58.446 55.000 18.86 16.84 44.06 3.42
414 5940 2.414293 CGTGAACAGCTAGCTAGTCGTT 60.414 50.000 18.86 21.99 0.00 3.85
451 5987 6.488006 TCCATTTTTCACTCTCTTTCTTCCTG 59.512 38.462 0.00 0.00 0.00 3.86
495 8046 0.250989 CTCCTCTCTAGGTAGGCCGG 60.251 65.000 0.00 0.00 44.09 6.13
502 8053 0.745468 CTAGGTAGGCCGGTTGAGAC 59.255 60.000 1.90 0.00 40.50 3.36
615 11346 1.377333 CCCTTTGGCGTCCTCTTCC 60.377 63.158 0.00 0.00 0.00 3.46
622 11353 2.394563 GCGTCCTCTTCCTGCAAGC 61.395 63.158 0.00 0.00 31.26 4.01
625 11373 2.217038 TCCTCTTCCTGCAAGCGGT 61.217 57.895 0.00 0.00 38.09 5.68
669 11460 0.655733 CGTCCTTTCACGCTGTGTTT 59.344 50.000 8.22 0.00 34.79 2.83
768 11584 5.759506 TTTTGCGTGAGGATTTAACAAGA 57.240 34.783 0.00 0.00 0.00 3.02
769 11585 5.356882 TTTGCGTGAGGATTTAACAAGAG 57.643 39.130 0.00 0.00 0.00 2.85
771 11587 3.007506 TGCGTGAGGATTTAACAAGAGGA 59.992 43.478 0.00 0.00 0.00 3.71
779 11646 6.026186 AGGATTTAACAAGAGGAAGAGAGGA 58.974 40.000 0.00 0.00 0.00 3.71
786 11653 4.594920 ACAAGAGGAAGAGAGGAATCACAA 59.405 41.667 0.00 0.00 0.00 3.33
790 11657 3.913163 AGGAAGAGAGGAATCACAACCTT 59.087 43.478 0.00 0.00 36.57 3.50
861 11728 2.691409 TTTTCGGGGCTAGAGACATG 57.309 50.000 0.00 0.00 0.00 3.21
862 11729 1.568504 TTTCGGGGCTAGAGACATGT 58.431 50.000 0.00 0.00 0.00 3.21
879 11746 8.170730 AGAGACATGTATATATAGTGGTCACCA 58.829 37.037 0.00 0.00 0.00 4.17
1147 12925 4.020617 CTCCTTCTGGTGGCGCCA 62.021 66.667 29.03 29.03 46.95 5.69
1187 16930 1.434696 CGGCATCCCATTCACAAGC 59.565 57.895 0.00 0.00 0.00 4.01
1282 17034 3.389002 TCCTCGTCATTGATGATCACCAT 59.611 43.478 8.97 0.00 39.30 3.55
1530 17282 1.216064 TTGGCCAGATCCACTATGCT 58.784 50.000 5.11 0.00 35.50 3.79
1666 17418 0.318762 GAACACGAAGGTCAGGAGCT 59.681 55.000 0.00 0.00 41.53 4.09
1695 17447 1.526686 CTGCAGCCACAAGGTCACA 60.527 57.895 0.00 0.00 37.19 3.58
1705 17457 2.439960 AAGGTCACAGTGCCGGACA 61.440 57.895 5.05 0.00 33.26 4.02
1739 17491 1.376683 CCGGCTTCGTGGGATTCAA 60.377 57.895 0.00 0.00 0.00 2.69
1743 17495 1.610624 GGCTTCGTGGGATTCAACAGA 60.611 52.381 0.00 0.00 0.00 3.41
1750 17503 1.452108 GGATTCAACAGAGGCCCCG 60.452 63.158 0.00 0.00 0.00 5.73
1752 17505 1.002134 ATTCAACAGAGGCCCCGTG 60.002 57.895 0.00 0.00 0.00 4.94
1779 17532 2.440247 TCGCAGCTCCGGATCTCA 60.440 61.111 3.57 0.00 0.00 3.27
1973 17759 2.433318 GCAGCTCCTCACCGACAC 60.433 66.667 0.00 0.00 0.00 3.67
2112 17914 4.021925 GCCTGGCTCCGGTGAACT 62.022 66.667 12.43 0.00 0.00 3.01
2246 18049 2.613223 GCAGAACTACTTCTTCGCCCTT 60.613 50.000 0.00 0.00 34.20 3.95
2463 18276 1.069823 AGTTCCAGCTAGATCATGCGG 59.930 52.381 0.00 5.21 0.00 5.69
2464 18277 0.394192 TTCCAGCTAGATCATGCGGG 59.606 55.000 18.06 18.06 44.00 6.13
2465 18278 0.760567 TCCAGCTAGATCATGCGGGT 60.761 55.000 21.31 0.77 43.31 5.28
2476 18290 1.841277 TCATGCGGGTGGGTAATAACT 59.159 47.619 0.00 0.00 0.00 2.24
2503 18383 1.000506 TCAGGTTGCTCGGACAAGTAC 59.999 52.381 0.00 0.00 0.00 2.73
2504 18384 1.000955 CAGGTTGCTCGGACAAGTACT 59.999 52.381 0.00 0.00 0.00 2.73
2505 18385 2.230508 CAGGTTGCTCGGACAAGTACTA 59.769 50.000 0.00 0.00 0.00 1.82
2506 18386 2.230750 AGGTTGCTCGGACAAGTACTAC 59.769 50.000 0.00 0.00 0.00 2.73
2507 18387 2.230750 GGTTGCTCGGACAAGTACTACT 59.769 50.000 0.00 0.00 0.00 2.57
2508 18388 3.441572 GGTTGCTCGGACAAGTACTACTA 59.558 47.826 0.00 0.00 0.00 1.82
2533 18413 7.661040 AGTTGGATTGTATTTTGAGTTTCCAG 58.339 34.615 0.00 0.00 33.83 3.86
2616 18500 9.241317 CATTAGAATTTGAGGTTATGTGCATTC 57.759 33.333 0.00 0.00 0.00 2.67
2770 18664 5.105917 TGTTGTTGTTTGTTCTCCCTCTTTC 60.106 40.000 0.00 0.00 0.00 2.62
2817 18711 4.906437 GCTTTTGTTCACTTCGATCTGTTC 59.094 41.667 0.00 0.00 0.00 3.18
2864 18817 6.814644 TGTTCACCCATTTTAGTCTGTATACG 59.185 38.462 0.00 0.00 0.00 3.06
2918 18880 0.170561 CGTGTGAACGGAGGGAGTAG 59.829 60.000 0.00 0.00 0.00 2.57
2962 18924 9.125026 GCTCTTCCTTCATATCCAATTTCTTTA 57.875 33.333 0.00 0.00 0.00 1.85
3010 18972 8.576442 ACAGAAAAGGTTAATCAATGTTTCGAT 58.424 29.630 0.00 0.00 0.00 3.59
3043 19005 0.394080 GCTTCATCAGCTCTTGCCCT 60.394 55.000 0.00 0.00 46.27 5.19
3268 19240 6.378280 AGTTCAACAGAAATGAAGGAGTTTGT 59.622 34.615 0.00 0.00 37.46 2.83
3287 19259 7.840489 AGTTTGTAAATCGCAAATGTTTTGAG 58.160 30.769 4.24 1.13 38.00 3.02
3294 19266 1.662876 GCAAATGTTTTGAGCGCTCGA 60.663 47.619 30.75 27.40 0.00 4.04
3425 19397 1.089920 ACATGTGGAGAATCAAGCGC 58.910 50.000 0.00 0.00 36.25 5.92
3466 19447 2.726821 CATGCCAAGATACACCTGGTT 58.273 47.619 0.00 0.00 0.00 3.67
3521 19503 1.328279 TCGTCAGAAACTGCCTCAGA 58.672 50.000 0.29 0.00 35.18 3.27
3536 19518 1.262950 CTCAGATCTCGGACTAGCACG 59.737 57.143 0.00 0.59 0.00 5.34
3544 19526 1.338973 TCGGACTAGCACGAAACACTT 59.661 47.619 6.87 0.00 36.01 3.16
3565 19547 2.202756 GTTCCGGAGCTAGTGCCG 60.203 66.667 11.59 15.67 46.80 5.69
3570 19552 4.577246 GGAGCTAGTGCCGGAGCG 62.577 72.222 5.05 0.00 43.72 5.03
3587 19579 3.400590 GGCACCGTCGTCGTTGTC 61.401 66.667 1.45 0.00 32.23 3.18
3588 19580 3.749373 GCACCGTCGTCGTTGTCG 61.749 66.667 1.45 0.00 32.23 4.35
3589 19581 2.352686 CACCGTCGTCGTTGTCGT 60.353 61.111 0.71 0.00 38.33 4.34
3590 19582 2.051882 ACCGTCGTCGTTGTCGTC 60.052 61.111 0.71 0.00 38.33 4.20
3591 19583 2.798262 CCGTCGTCGTTGTCGTCC 60.798 66.667 0.71 0.00 38.33 4.79
3594 19586 1.594269 CGTCGTCGTTGTCGTCCAAG 61.594 60.000 0.00 0.00 38.33 3.61
3634 19627 1.481772 CAACCCAATGGCCGAATCAAT 59.518 47.619 0.00 0.00 33.59 2.57
3702 19698 3.928727 TCGTTTATAGCGGTATCCCTG 57.071 47.619 10.99 0.76 0.00 4.45
3703 19699 2.029649 TCGTTTATAGCGGTATCCCTGC 60.030 50.000 10.99 0.00 0.00 4.85
3704 19700 2.288579 CGTTTATAGCGGTATCCCTGCA 60.289 50.000 10.99 0.00 34.17 4.41
3705 19701 3.616560 CGTTTATAGCGGTATCCCTGCAT 60.617 47.826 10.99 0.00 34.17 3.96
3706 19702 3.610040 TTATAGCGGTATCCCTGCATG 57.390 47.619 10.99 0.00 34.17 4.06
3707 19703 0.036010 ATAGCGGTATCCCTGCATGC 60.036 55.000 11.82 11.82 34.17 4.06
3708 19704 1.406860 TAGCGGTATCCCTGCATGCA 61.407 55.000 21.29 21.29 34.17 3.96
3709 19705 1.601759 GCGGTATCCCTGCATGCAT 60.602 57.895 22.97 9.00 32.67 3.96
3711 19707 1.293963 CGGTATCCCTGCATGCATCG 61.294 60.000 22.97 14.18 0.00 3.84
3713 19709 1.302752 TATCCCTGCATGCATCGCC 60.303 57.895 22.97 0.00 0.00 5.54
3717 19713 2.712944 CCTGCATGCATCGCCCAAA 61.713 57.895 22.97 0.00 0.00 3.28
3718 19714 1.440060 CTGCATGCATCGCCCAAAT 59.560 52.632 22.97 0.00 0.00 2.32
3719 19715 0.874175 CTGCATGCATCGCCCAAATG 60.874 55.000 22.97 0.79 0.00 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
120 3899 8.880750 CATATAGCCAACTCATCATGTCATAAG 58.119 37.037 0.00 0.00 0.00 1.73
253 4033 6.882140 TCACACGGTTCAAAATATAAGTGGAT 59.118 34.615 0.00 0.00 33.18 3.41
263 4043 4.616953 GTGGAAATCACACGGTTCAAAAT 58.383 39.130 0.00 0.00 45.39 1.82
292 4075 5.812127 TGTCCAAAACTGATATGATCACTCG 59.188 40.000 0.00 0.00 35.06 4.18
294 4077 7.613022 ACATTGTCCAAAACTGATATGATCACT 59.387 33.333 0.00 0.00 35.06 3.41
295 4078 7.699391 CACATTGTCCAAAACTGATATGATCAC 59.301 37.037 0.00 0.00 35.06 3.06
343 4464 8.239314 GGGTATTTCAGACATAATACATGCATG 58.761 37.037 25.09 25.09 38.42 4.06
344 4465 7.394359 GGGGTATTTCAGACATAATACATGCAT 59.606 37.037 0.00 0.00 38.42 3.96
345 4466 6.714810 GGGGTATTTCAGACATAATACATGCA 59.285 38.462 0.00 0.00 38.42 3.96
346 4467 6.942576 AGGGGTATTTCAGACATAATACATGC 59.057 38.462 0.00 0.00 38.42 4.06
351 4476 6.617784 TCACCAGGGGTATTTCAGACATAATA 59.382 38.462 0.00 0.00 32.11 0.98
363 5876 4.289837 TGGTAGTATCACCAGGGGTATT 57.710 45.455 0.00 0.00 43.76 1.89
383 5903 0.445436 GCTGTTCACGCTGGAGATTG 59.555 55.000 0.00 0.00 0.00 2.67
406 5932 4.142160 TGGAATCAGACATGGAACGACTAG 60.142 45.833 0.00 0.00 0.00 2.57
407 5933 3.767131 TGGAATCAGACATGGAACGACTA 59.233 43.478 0.00 0.00 0.00 2.59
408 5934 2.567169 TGGAATCAGACATGGAACGACT 59.433 45.455 0.00 0.00 0.00 4.18
409 5935 2.972625 TGGAATCAGACATGGAACGAC 58.027 47.619 0.00 0.00 0.00 4.34
414 5940 6.012113 AGTGAAAAATGGAATCAGACATGGA 58.988 36.000 0.00 0.00 0.00 3.41
451 5987 4.038282 TCAAATCATATCACTGCCAATGCC 59.962 41.667 0.00 0.00 36.33 4.40
495 8046 3.506844 ACGGGTCTCTCTAAAGTCTCAAC 59.493 47.826 0.00 0.00 0.00 3.18
502 8053 1.404315 GCACCACGGGTCTCTCTAAAG 60.404 57.143 0.00 0.00 31.02 1.85
637 11385 4.864334 GGACGGAGGCCATGGCTG 62.864 72.222 34.70 23.30 38.98 4.85
648 11396 1.300620 CACAGCGTGAAAGGACGGA 60.301 57.895 3.04 0.00 39.81 4.69
650 11398 0.655733 AAACACAGCGTGAAAGGACG 59.344 50.000 14.18 0.00 42.42 4.79
655 11403 1.542030 ACCAACAAACACAGCGTGAAA 59.458 42.857 14.18 0.00 36.96 2.69
669 11460 4.142271 ACGAAATTTCTGCTTGAACCAACA 60.142 37.500 15.92 0.00 33.88 3.33
753 11547 6.070538 CCTCTCTTCCTCTTGTTAAATCCTCA 60.071 42.308 0.00 0.00 0.00 3.86
764 11580 4.815533 TGTGATTCCTCTCTTCCTCTTG 57.184 45.455 0.00 0.00 0.00 3.02
765 11581 4.019771 GGTTGTGATTCCTCTCTTCCTCTT 60.020 45.833 0.00 0.00 0.00 2.85
768 11584 3.525862 AGGTTGTGATTCCTCTCTTCCT 58.474 45.455 0.00 0.00 0.00 3.36
769 11585 3.990959 AGGTTGTGATTCCTCTCTTCC 57.009 47.619 0.00 0.00 0.00 3.46
771 11587 6.441088 AGTTAAGGTTGTGATTCCTCTCTT 57.559 37.500 0.00 0.00 33.09 2.85
841 11708 2.304761 ACATGTCTCTAGCCCCGAAAAA 59.695 45.455 0.00 0.00 0.00 1.94
842 11709 1.906574 ACATGTCTCTAGCCCCGAAAA 59.093 47.619 0.00 0.00 0.00 2.29
843 11710 1.568504 ACATGTCTCTAGCCCCGAAA 58.431 50.000 0.00 0.00 0.00 3.46
844 11711 2.447408 TACATGTCTCTAGCCCCGAA 57.553 50.000 0.00 0.00 0.00 4.30
846 11713 6.999272 ACTATATATACATGTCTCTAGCCCCG 59.001 42.308 0.00 0.00 0.00 5.73
847 11714 7.231722 CCACTATATATACATGTCTCTAGCCCC 59.768 44.444 0.00 0.00 0.00 5.80
849 11716 8.754991 ACCACTATATATACATGTCTCTAGCC 57.245 38.462 0.00 0.00 0.00 3.93
850 11717 9.397280 TGACCACTATATATACATGTCTCTAGC 57.603 37.037 0.00 0.00 0.00 3.42
852 11719 9.682465 GGTGACCACTATATATACATGTCTCTA 57.318 37.037 0.00 0.00 0.00 2.43
853 11720 8.170730 TGGTGACCACTATATATACATGTCTCT 58.829 37.037 0.00 0.00 0.00 3.10
854 11721 8.349568 TGGTGACCACTATATATACATGTCTC 57.650 38.462 0.00 7.63 0.00 3.36
879 11746 1.282157 GATCAACAGGCCCTGGTAAGT 59.718 52.381 16.70 0.00 35.51 2.24
882 11749 1.004277 GTTGATCAACAGGCCCTGGTA 59.996 52.381 29.43 0.00 40.84 3.25
916 11850 5.412904 CACAAAATAGACCTCCCAAGTCTTC 59.587 44.000 0.00 0.00 41.87 2.87
964 11901 1.009829 AATTTCCATGCGCTCTCGAC 58.990 50.000 9.73 0.00 38.10 4.20
995 12764 6.547880 CCTAGTGACCCCTATATATGCAGTAG 59.452 46.154 0.00 0.00 0.00 2.57
1260 17012 2.765699 TGGTGATCATCAATGACGAGGA 59.234 45.455 6.09 0.00 40.03 3.71
1311 17063 2.509336 CGAAGATGAAGGCGCCGT 60.509 61.111 23.20 20.21 0.00 5.68
1423 17175 3.365265 CAAGAAGGTGGGCGTGGC 61.365 66.667 0.00 0.00 0.00 5.01
1424 17176 3.365265 GCAAGAAGGTGGGCGTGG 61.365 66.667 0.00 0.00 0.00 4.94
1425 17177 3.365265 GGCAAGAAGGTGGGCGTG 61.365 66.667 0.00 0.00 0.00 5.34
1438 17190 4.966787 GCCGAAGTGGTGGGGCAA 62.967 66.667 0.00 0.00 44.91 4.52
1530 17282 4.980805 GCGTGGCAAGTCCGGTCA 62.981 66.667 0.00 0.00 37.80 4.02
1573 17325 2.012902 ATGTGCTCTACGTACCGGCC 62.013 60.000 0.00 0.00 0.00 6.13
1666 17418 3.286751 GCTGCAGCCGAACACCAA 61.287 61.111 28.76 0.00 34.31 3.67
1731 17483 1.076705 GGGGCCTCTGTTGAATCCC 60.077 63.158 0.84 0.00 34.77 3.85
1750 17503 2.179517 CTGCGAGACGAGGGACAC 59.820 66.667 0.00 0.00 0.00 3.67
1752 17505 3.404141 GAGCTGCGAGACGAGGGAC 62.404 68.421 0.00 0.00 0.00 4.46
1779 17532 3.368531 GCGTGATGAAGTAGGAGAACCTT 60.369 47.826 0.00 0.00 45.36 3.50
2132 17934 2.037136 GTGCTGCGTGAGGAAGCAT 61.037 57.895 11.42 0.00 42.95 3.79
2293 18099 2.760385 GGCTGCCTAGGACGGACT 60.760 66.667 14.75 0.00 0.00 3.85
2463 18276 2.421073 GACGCCAAAGTTATTACCCACC 59.579 50.000 0.00 0.00 0.00 4.61
2464 18277 3.075884 TGACGCCAAAGTTATTACCCAC 58.924 45.455 0.00 0.00 0.00 4.61
2465 18278 3.340034 CTGACGCCAAAGTTATTACCCA 58.660 45.455 0.00 0.00 0.00 4.51
2476 18290 2.250939 CGAGCAACCTGACGCCAAA 61.251 57.895 0.00 0.00 0.00 3.28
2505 18385 8.793592 GGAAACTCAAAATACAATCCAACTAGT 58.206 33.333 0.00 0.00 0.00 2.57
2506 18386 8.792633 TGGAAACTCAAAATACAATCCAACTAG 58.207 33.333 0.00 0.00 33.06 2.57
2507 18387 8.698973 TGGAAACTCAAAATACAATCCAACTA 57.301 30.769 0.00 0.00 33.06 2.24
2508 18388 7.287696 ACTGGAAACTCAAAATACAATCCAACT 59.712 33.333 0.00 0.00 35.46 3.16
2523 18403 3.138283 AGGGTGATTGAACTGGAAACTCA 59.862 43.478 0.00 0.00 0.00 3.41
2533 18413 1.740025 GTAGCAGCAGGGTGATTGAAC 59.260 52.381 2.13 0.00 0.00 3.18
2616 18500 3.928727 TTTCTTGGAGAGCAATTGCAG 57.071 42.857 30.89 18.36 45.16 4.41
2676 18560 7.643764 CAGGTGCATATAACCTTTAAATCAACG 59.356 37.037 6.55 0.00 46.14 4.10
2731 18620 3.857157 ACAACAAAGGGAAGAGCTACA 57.143 42.857 0.00 0.00 0.00 2.74
2770 18664 5.476091 ACTCAGAGTACAAAGAAAGGGAG 57.524 43.478 0.00 0.00 0.00 4.30
2817 18711 7.810766 ACAAACACACTAAAACACATTTCAG 57.189 32.000 0.00 0.00 32.27 3.02
2907 18860 6.598850 GTCTACCTTATAATCTACTCCCTCCG 59.401 46.154 0.00 0.00 0.00 4.63
2918 18880 8.425703 AGGAAGAGCAAAGTCTACCTTATAATC 58.574 37.037 0.00 0.00 31.48 1.75
2962 18924 3.305398 TGAAACACTTGCACCGTTTTT 57.695 38.095 8.30 4.49 33.18 1.94
3001 18963 2.006888 CGCAGGTACCAATCGAAACAT 58.993 47.619 15.94 0.00 0.00 2.71
3010 18972 0.323302 TGAAGCATCGCAGGTACCAA 59.677 50.000 15.94 0.00 0.00 3.67
3043 19005 5.300286 GGTATCCGCTTACTCCACTTTACTA 59.700 44.000 0.00 0.00 0.00 1.82
3268 19240 6.620621 GAGCGCTCAAAACATTTGCGATTTA 61.621 40.000 31.91 0.00 45.52 1.40
3294 19266 0.172803 GACCTAATCACTGGCGACGT 59.827 55.000 0.00 0.00 0.00 4.34
3466 19447 5.996513 AGACCACATTTGCAATGCATAAAAA 59.003 32.000 9.39 0.00 38.76 1.94
3521 19503 1.816835 TGTTTCGTGCTAGTCCGAGAT 59.183 47.619 6.11 0.00 34.16 2.75
3536 19518 2.031944 GCTCCGGAACTTGAAGTGTTTC 60.032 50.000 5.23 0.00 0.00 2.78
3544 19526 0.246635 GCACTAGCTCCGGAACTTGA 59.753 55.000 20.81 0.37 37.91 3.02
3573 19565 2.051882 GACGACAACGACGACGGT 60.052 61.111 12.58 0.95 44.46 4.83
3582 19574 2.671963 GGCCCCTTGGACGACAAC 60.672 66.667 0.00 0.00 34.76 3.32
3583 19575 3.961414 GGGCCCCTTGGACGACAA 61.961 66.667 12.23 0.00 42.67 3.18
3585 19577 4.410400 CTGGGCCCCTTGGACGAC 62.410 72.222 22.27 0.00 42.67 4.34
3702 19698 2.241880 GCATTTGGGCGATGCATGC 61.242 57.895 11.82 11.82 46.96 4.06
3703 19699 4.021650 GCATTTGGGCGATGCATG 57.978 55.556 2.46 0.00 46.96 4.06


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

AutoCloner maintained by Alex Coulton.