Multiple sequence alignment - TraesCS7D01G142300

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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 TraesCS7D01G142300 chr7D 100.000 3471 0 0 1 3471 90627746 90631216 0.000000e+00 6410
1 TraesCS7D01G142300 chr7D 80.798 1729 255 51 703 2401 90619981 90621662 0.000000e+00 1282
2 TraesCS7D01G142300 chr7D 87.119 590 71 3 16 603 536923822 536923236 0.000000e+00 664
3 TraesCS7D01G142300 chr7D 82.938 422 53 12 1283 1692 90586274 90585860 2.550000e-96 363
4 TraesCS7D01G142300 chr7D 80.342 351 54 10 910 1248 90586720 90586373 5.750000e-63 252
5 TraesCS7D01G142300 chr7D 75.812 277 27 19 983 1232 90596932 90596669 1.700000e-18 104
6 TraesCS7D01G142300 chr7A 91.248 2685 169 36 687 3356 92800119 92802752 0.000000e+00 3596
7 TraesCS7D01G142300 chr7A 79.134 1802 273 53 674 2440 91925198 91923465 0.000000e+00 1149
8 TraesCS7D01G142300 chr7A 87.257 1028 80 14 2456 3470 92802747 92803736 0.000000e+00 1125
9 TraesCS7D01G142300 chr7A 91.643 694 51 6 1371 2063 92425633 92426320 0.000000e+00 953
10 TraesCS7D01G142300 chr7A 84.418 937 112 20 703 1613 92394139 92395067 0.000000e+00 891
11 TraesCS7D01G142300 chr7A 78.381 1198 205 41 1274 2440 91919448 91918274 0.000000e+00 728
12 TraesCS7D01G142300 chr7A 91.429 525 39 5 1 523 1950940 1951460 0.000000e+00 715
13 TraesCS7D01G142300 chr7A 78.860 544 84 18 2055 2595 92437979 92438494 4.290000e-89 339
14 TraesCS7D01G142300 chr7A 81.639 305 50 4 944 1243 91919847 91919544 7.440000e-62 248
15 TraesCS7D01G142300 chr7B 91.678 2127 124 23 687 2796 41542355 41544445 0.000000e+00 2898
16 TraesCS7D01G142300 chr7B 79.886 1760 275 51 674 2404 41532106 41533815 0.000000e+00 1216
17 TraesCS7D01G142300 chr7B 90.517 348 18 7 2819 3164 41544439 41544773 2.460000e-121 446
18 TraesCS7D01G142300 chr7B 87.138 311 38 2 3160 3470 41570340 41570648 5.510000e-93 351
19 TraesCS7D01G142300 chr3D 93.472 674 28 6 1 673 352800085 352800743 0.000000e+00 987
20 TraesCS7D01G142300 chr3D 92.955 440 29 2 237 674 134501468 134501907 1.050000e-179 640
21 TraesCS7D01G142300 chr4D 90.533 676 56 7 1 673 455184739 455184069 0.000000e+00 887
22 TraesCS7D01G142300 chr1B 88.000 625 66 6 1674 2293 681707115 681706495 0.000000e+00 730
23 TraesCS7D01G142300 chr1B 89.388 556 52 4 1742 2293 348032807 348033359 0.000000e+00 693
24 TraesCS7D01G142300 chr1D 88.264 605 65 4 1 603 137403335 137402735 0.000000e+00 719
25 TraesCS7D01G142300 chr1D 91.972 436 32 3 240 673 108368129 108368563 2.960000e-170 608
26 TraesCS7D01G142300 chr1D 91.724 435 32 4 240 673 31325031 31324600 4.960000e-168 601
27 TraesCS7D01G142300 chr2A 87.748 604 68 4 2 603 442244616 442244017 0.000000e+00 701
28 TraesCS7D01G142300 chr2A 88.122 362 36 4 1936 2293 214328086 214328444 1.150000e-114 424
29 TraesCS7D01G142300 chr2A 87.017 362 40 4 1936 2293 214377335 214377693 5.400000e-108 401
30 TraesCS7D01G142300 chr5A 87.542 594 64 6 16 603 521091772 521092361 0.000000e+00 678
31 TraesCS7D01G142300 chr6A 86.512 430 51 7 1 427 511403677 511403252 1.890000e-127 466
32 TraesCS7D01G142300 chr3A 86.183 427 54 5 1 424 301139927 301140351 1.140000e-124 457


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 TraesCS7D01G142300 chr7D 90627746 90631216 3470 False 6410.000000 6410 100.0000 1 3471 1 chr7D.!!$F2 3470
1 TraesCS7D01G142300 chr7D 90619981 90621662 1681 False 1282.000000 1282 80.7980 703 2401 1 chr7D.!!$F1 1698
2 TraesCS7D01G142300 chr7D 536923236 536923822 586 True 664.000000 664 87.1190 16 603 1 chr7D.!!$R2 587
3 TraesCS7D01G142300 chr7D 90585860 90586720 860 True 307.500000 363 81.6400 910 1692 2 chr7D.!!$R3 782
4 TraesCS7D01G142300 chr7A 92800119 92803736 3617 False 2360.500000 3596 89.2525 687 3470 2 chr7A.!!$F5 2783
5 TraesCS7D01G142300 chr7A 92425633 92426320 687 False 953.000000 953 91.6430 1371 2063 1 chr7A.!!$F3 692
6 TraesCS7D01G142300 chr7A 92394139 92395067 928 False 891.000000 891 84.4180 703 1613 1 chr7A.!!$F2 910
7 TraesCS7D01G142300 chr7A 1950940 1951460 520 False 715.000000 715 91.4290 1 523 1 chr7A.!!$F1 522
8 TraesCS7D01G142300 chr7A 91918274 91925198 6924 True 708.333333 1149 79.7180 674 2440 3 chr7A.!!$R1 1766
9 TraesCS7D01G142300 chr7A 92437979 92438494 515 False 339.000000 339 78.8600 2055 2595 1 chr7A.!!$F4 540
10 TraesCS7D01G142300 chr7B 41542355 41544773 2418 False 1672.000000 2898 91.0975 687 3164 2 chr7B.!!$F3 2477
11 TraesCS7D01G142300 chr7B 41532106 41533815 1709 False 1216.000000 1216 79.8860 674 2404 1 chr7B.!!$F1 1730
12 TraesCS7D01G142300 chr3D 352800085 352800743 658 False 987.000000 987 93.4720 1 673 1 chr3D.!!$F2 672
13 TraesCS7D01G142300 chr4D 455184069 455184739 670 True 887.000000 887 90.5330 1 673 1 chr4D.!!$R1 672
14 TraesCS7D01G142300 chr1B 681706495 681707115 620 True 730.000000 730 88.0000 1674 2293 1 chr1B.!!$R1 619
15 TraesCS7D01G142300 chr1B 348032807 348033359 552 False 693.000000 693 89.3880 1742 2293 1 chr1B.!!$F1 551
16 TraesCS7D01G142300 chr1D 137402735 137403335 600 True 719.000000 719 88.2640 1 603 1 chr1D.!!$R2 602
17 TraesCS7D01G142300 chr2A 442244017 442244616 599 True 701.000000 701 87.7480 2 603 1 chr2A.!!$R1 601
18 TraesCS7D01G142300 chr5A 521091772 521092361 589 False 678.000000 678 87.5420 16 603 1 chr5A.!!$F1 587

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
818 839 0.533085 GGAGTAGCCGCCATCTTTCC 60.533 60.0 0.0 0.0 0.00 3.13 F
1408 1534 1.750193 TGACCGCATCAAGGGATTTC 58.250 50.0 0.0 0.0 33.02 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2174 7505 1.112113 GGCTACCTCTCCATTGTCGA 58.888 55.0 0.00 0.0 0.0 4.2 R
3232 9450 0.035439 AACCACGGCCAACCTAGATG 60.035 55.0 2.24 0.0 0.0 2.9 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
305 310 3.119137 TGTTGACGAAGACATGATCGGAT 60.119 43.478 18.95 0.00 43.11 4.18
506 513 3.482232 CTGGGAGCCGGGCAATAGG 62.482 68.421 23.09 4.36 0.00 2.57
741 755 4.885907 CCAAATGCCATGTTATCTCTGTCT 59.114 41.667 0.00 0.00 0.00 3.41
758 777 4.281182 TCTGTCTCCCACTTGTCTTCTTAC 59.719 45.833 0.00 0.00 0.00 2.34
791 812 7.122055 TGTTTTGGCTTATTAGGTGTATTCTGG 59.878 37.037 0.00 0.00 0.00 3.86
793 814 4.104102 TGGCTTATTAGGTGTATTCTGGGG 59.896 45.833 0.00 0.00 0.00 4.96
818 839 0.533085 GGAGTAGCCGCCATCTTTCC 60.533 60.000 0.00 0.00 0.00 3.13
858 879 2.597510 GTGGTTGGTGGCTGGTCC 60.598 66.667 0.00 0.00 0.00 4.46
983 1017 2.486472 ACACCAGGATCAGCAAAGAG 57.514 50.000 0.00 0.00 0.00 2.85
1179 1216 1.790387 GCTGTCTGCATCCAACGAC 59.210 57.895 0.00 0.00 42.31 4.34
1251 1298 3.005472 TCAAGGTGAGATTTCGTTCTCGT 59.995 43.478 7.79 0.00 44.22 4.18
1317 1443 6.347725 GGTTCAGTGTACTTGCTATTTCTGTG 60.348 42.308 0.00 0.00 0.00 3.66
1332 1458 3.118454 GTGACACGCATCACCCCG 61.118 66.667 8.16 0.00 42.74 5.73
1333 1459 3.621805 TGACACGCATCACCCCGT 61.622 61.111 0.00 0.00 38.35 5.28
1334 1460 2.276853 TGACACGCATCACCCCGTA 61.277 57.895 0.00 0.00 35.69 4.02
1335 1461 1.808390 GACACGCATCACCCCGTAC 60.808 63.158 0.00 0.00 35.69 3.67
1408 1534 1.750193 TGACCGCATCAAGGGATTTC 58.250 50.000 0.00 0.00 33.02 2.17
1621 6906 6.753913 TCTTTCAGGTAATCTGCCAGATAT 57.246 37.500 7.81 1.45 43.06 1.63
1651 6936 4.828939 TCAAATGGATCTGTCTTTGCTGTT 59.171 37.500 0.00 0.00 0.00 3.16
1652 6937 6.003326 TCAAATGGATCTGTCTTTGCTGTTA 58.997 36.000 0.00 0.00 0.00 2.41
1653 6938 6.489700 TCAAATGGATCTGTCTTTGCTGTTAA 59.510 34.615 0.00 0.00 0.00 2.01
1655 6940 5.885230 TGGATCTGTCTTTGCTGTTAATG 57.115 39.130 0.00 0.00 0.00 1.90
1712 7032 5.531659 CACTAGTTATCTATCGTGACCTGGT 59.468 44.000 0.00 0.00 29.42 4.00
1840 7162 4.660168 ACACATTGAGGAGCAAGAGAATT 58.340 39.130 0.00 0.00 40.42 2.17
2005 7331 3.445450 TCAAGCCTCACTCTGATGTCTAC 59.555 47.826 0.00 0.00 0.00 2.59
2080 7406 3.596214 AGATGGAACGTGGTACAATGTC 58.404 45.455 0.00 0.00 44.16 3.06
2213 7548 2.159085 CCATCTCTGAACCTCGGGTTAC 60.159 54.545 8.11 4.15 46.95 2.50
2530 7884 6.267471 TGGAATAAAGAATTTGTGACTTGCCT 59.733 34.615 0.00 0.00 39.63 4.75
2550 7905 7.878477 TGCCTATTCGTTAAGGATATAAACG 57.122 36.000 0.00 0.67 45.46 3.60
2595 7950 6.322201 AGGCGATGAATCTGGTGAAAATAAAT 59.678 34.615 0.00 0.00 0.00 1.40
2649 8008 2.028112 TGTTCTGTGGTAGATGTGGCTC 60.028 50.000 0.00 0.00 34.80 4.70
2674 8033 8.475639 TCTATGGACACCTTTGTATTCTCTTAC 58.524 37.037 0.00 0.00 35.47 2.34
2711 8070 5.762279 TCCCTTTCTCCACAACTTACTTTT 58.238 37.500 0.00 0.00 0.00 2.27
2716 8075 9.333724 CCTTTCTCCACAACTTACTTTTACTTA 57.666 33.333 0.00 0.00 0.00 2.24
2741 8100 1.273048 GGTTTCTTCATGCATGTGCCA 59.727 47.619 25.43 4.01 41.18 4.92
2771 8978 8.966155 AACTTAAATTCTATCCCAGGGAAAAA 57.034 30.769 13.94 7.66 34.34 1.94
2803 9011 9.865321 ATCACTTGTGAATTTTAATCAGGATTG 57.135 29.630 7.57 0.00 32.50 2.67
2850 9058 0.686789 TGCTGCTCCTGTACACATGT 59.313 50.000 0.00 0.00 0.00 3.21
2887 9095 4.340666 TGTAGCAACAAGAAATTTCCTGCA 59.659 37.500 23.20 15.72 30.91 4.41
2942 9155 1.134965 ACCTACGAGAATGAGCACAGC 60.135 52.381 0.00 0.00 0.00 4.40
3042 9256 3.928727 AAGCACATCAGTTGGTCATTG 57.071 42.857 0.00 0.00 0.00 2.82
3046 9260 4.525487 AGCACATCAGTTGGTCATTGATTT 59.475 37.500 0.00 0.00 29.48 2.17
3051 9265 6.925165 ACATCAGTTGGTCATTGATTTTTCAC 59.075 34.615 0.00 0.00 29.48 3.18
3109 9324 2.854963 CACATATAGTGGCATGCTGGT 58.145 47.619 18.92 4.54 44.69 4.00
3110 9325 4.006780 CACATATAGTGGCATGCTGGTA 57.993 45.455 18.92 6.77 44.69 3.25
3111 9326 3.748048 CACATATAGTGGCATGCTGGTAC 59.252 47.826 18.92 11.63 44.69 3.34
3112 9327 3.244561 ACATATAGTGGCATGCTGGTACC 60.245 47.826 18.92 4.43 0.00 3.34
3113 9328 1.511613 ATAGTGGCATGCTGGTACCT 58.488 50.000 18.92 7.04 0.00 3.08
3114 9329 0.541392 TAGTGGCATGCTGGTACCTG 59.459 55.000 18.92 14.26 0.00 4.00
3115 9330 1.750399 GTGGCATGCTGGTACCTGG 60.750 63.158 18.92 10.45 0.00 4.45
3122 9337 1.060729 TGCTGGTACCTGGTAGCAAA 58.939 50.000 31.51 22.53 44.15 3.68
3135 9350 6.712547 ACCTGGTAGCAAAGCTATTTATGATC 59.287 38.462 0.00 0.00 43.30 2.92
3174 9389 0.035176 TTGGCAAAAGCATCTTGGCC 59.965 50.000 13.82 0.00 45.97 5.36
3179 9397 2.264813 CAAAAGCATCTTGGCCATTCG 58.735 47.619 6.09 0.00 0.00 3.34
3190 9408 2.332654 GCCATTCGGTGTGGTCCAC 61.333 63.158 15.64 15.64 43.74 4.02
3195 9413 2.060050 TTCGGTGTGGTCCACAAATT 57.940 45.000 26.36 0.00 46.28 1.82
3203 9421 3.383185 TGTGGTCCACAAATTTCACCTTC 59.617 43.478 22.75 0.00 41.69 3.46
3204 9422 2.621055 TGGTCCACAAATTTCACCTTCG 59.379 45.455 0.00 0.00 0.00 3.79
3224 9442 1.134220 GGTATGCCTGACGGGAATTCA 60.134 52.381 3.84 0.00 34.50 2.57
3232 9450 2.932614 CTGACGGGAATTCAGTGTCATC 59.067 50.000 20.12 5.17 38.72 2.92
3240 9458 5.163258 GGGAATTCAGTGTCATCATCTAGGT 60.163 44.000 7.93 0.00 0.00 3.08
3253 9471 1.575419 TCTAGGTTGGCCGTGGTTAT 58.425 50.000 0.00 0.00 40.50 1.89
3268 9486 5.416083 CGTGGTTATCACCTTCAGTCAATA 58.584 41.667 0.00 0.00 44.61 1.90
3278 9496 5.939883 CACCTTCAGTCAATATTCACCAGAA 59.060 40.000 0.00 0.00 38.31 3.02
3315 9533 8.650143 AGTCATTTGATTAGGTACCAAAACAT 57.350 30.769 15.94 0.00 34.08 2.71
3325 9543 3.252458 GGTACCAAAACATGTGTCTGTCC 59.748 47.826 7.15 0.00 0.00 4.02
3329 9547 3.631686 CCAAAACATGTGTCTGTCCTTCA 59.368 43.478 0.00 0.00 0.00 3.02
3337 9555 3.136443 TGTGTCTGTCCTTCAGTCCAAAT 59.864 43.478 0.00 0.00 43.97 2.32
3338 9556 3.499918 GTGTCTGTCCTTCAGTCCAAATG 59.500 47.826 0.00 0.00 43.97 2.32
3358 9576 7.710475 CCAAATGTTTCAGTCATTTTAGTTGGT 59.290 33.333 0.00 0.00 41.58 3.67
3387 9605 9.357652 ACATGAATCCAAATAAAATTCAGAACG 57.642 29.630 0.00 0.00 41.32 3.95
3388 9606 8.810427 CATGAATCCAAATAAAATTCAGAACGG 58.190 33.333 0.00 0.00 41.32 4.44
3389 9607 7.891561 TGAATCCAAATAAAATTCAGAACGGT 58.108 30.769 0.00 0.00 35.17 4.83
3396 9614 9.840427 CAAATAAAATTCAGAACGGTTGTAGAT 57.160 29.630 0.00 0.00 0.00 1.98
3411 9629 7.042335 CGGTTGTAGATATTCCTGAAACTTCT 58.958 38.462 0.00 0.00 0.00 2.85
3420 9638 6.581171 ATTCCTGAAACTTCTGTTGGATTC 57.419 37.500 0.00 0.00 36.39 2.52
3424 9642 4.464008 TGAAACTTCTGTTGGATTCAGCT 58.536 39.130 0.00 0.00 36.39 4.24
3426 9644 6.240894 TGAAACTTCTGTTGGATTCAGCTAT 58.759 36.000 0.00 0.00 36.39 2.97
3428 9646 7.231317 TGAAACTTCTGTTGGATTCAGCTATTT 59.769 33.333 0.00 0.00 36.39 1.40
3437 9655 9.558396 TGTTGGATTCAGCTATTTTCAAAATTT 57.442 25.926 0.00 0.00 0.00 1.82
3451 9669 9.934190 ATTTTCAAAATTTTGATCCTTTGTTCG 57.066 25.926 29.13 2.58 45.65 3.95
3457 9675 7.656707 AATTTTGATCCTTTGTTCGAAATGG 57.343 32.000 0.00 0.00 35.71 3.16
3458 9676 3.848272 TGATCCTTTGTTCGAAATGGC 57.152 42.857 0.00 0.00 0.00 4.40
3459 9677 3.153130 TGATCCTTTGTTCGAAATGGCA 58.847 40.909 0.00 0.00 0.00 4.92
3461 9679 3.641437 TCCTTTGTTCGAAATGGCAAG 57.359 42.857 0.00 0.00 0.00 4.01
3462 9680 3.218453 TCCTTTGTTCGAAATGGCAAGA 58.782 40.909 0.00 0.00 0.00 3.02
3463 9681 3.004315 TCCTTTGTTCGAAATGGCAAGAC 59.996 43.478 0.00 0.00 0.00 3.01
3467 9685 4.377839 TGTTCGAAATGGCAAGACAAAA 57.622 36.364 0.00 0.00 0.00 2.44
3468 9686 4.358851 TGTTCGAAATGGCAAGACAAAAG 58.641 39.130 0.00 0.00 0.00 2.27
3469 9687 4.097135 TGTTCGAAATGGCAAGACAAAAGA 59.903 37.500 0.00 0.00 0.00 2.52
3470 9688 4.488126 TCGAAATGGCAAGACAAAAGAG 57.512 40.909 0.00 0.00 0.00 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
150 155 4.459089 GCTCCTCACCACCGCCTC 62.459 72.222 0.00 0.00 0.00 4.70
274 279 1.635663 CTTCGTCAACACCATCGCCC 61.636 60.000 0.00 0.00 0.00 6.13
305 310 5.573502 CCAATTTGGTATCCAGAGACTTGGA 60.574 44.000 7.31 8.29 41.14 3.53
359 365 1.835531 CCTCCTTCCCTTACCGCTTAA 59.164 52.381 0.00 0.00 0.00 1.85
427 433 2.427245 CGCCATCTTCCTCTCCCGT 61.427 63.158 0.00 0.00 0.00 5.28
525 532 8.131731 GCTGTAAGACTCTTTTTGAAATCAAGT 58.868 33.333 0.00 0.00 34.33 3.16
620 628 6.183360 CGGGCAATCTTAGTCCACAAATTATT 60.183 38.462 0.00 0.00 0.00 1.40
625 633 2.432444 CGGGCAATCTTAGTCCACAAA 58.568 47.619 0.00 0.00 0.00 2.83
632 640 1.607612 CCCACCGGGCAATCTTAGT 59.392 57.895 6.32 0.00 35.35 2.24
683 691 4.998672 ACACTTTATTTTGCTACGCAGGTA 59.001 37.500 0.00 0.00 40.61 3.08
701 709 0.110295 TGGTGGCATGCACTACACTT 59.890 50.000 21.36 0.00 34.42 3.16
704 712 1.545136 CATTTGGTGGCATGCACTACA 59.455 47.619 21.36 9.70 0.00 2.74
741 755 4.777896 AGCTATGTAAGAAGACAAGTGGGA 59.222 41.667 0.00 0.00 31.83 4.37
758 777 6.974622 CACCTAATAAGCCAAAACAAGCTATG 59.025 38.462 0.00 0.00 38.74 2.23
791 812 1.030488 GGCGGCTACTCCTTTTTCCC 61.030 60.000 0.00 0.00 0.00 3.97
793 814 1.671328 GATGGCGGCTACTCCTTTTTC 59.329 52.381 11.43 0.00 0.00 2.29
818 839 4.854399 TGCAACTAACACCAAAAAGATCG 58.146 39.130 0.00 0.00 0.00 3.69
858 879 5.049886 CAGTCCACATGGTTATCGATGAATG 60.050 44.000 8.54 8.74 34.61 2.67
983 1017 2.424956 GCCATTGGAGTTCTTGGATGTC 59.575 50.000 6.95 0.00 0.00 3.06
1122 1159 2.682582 GAATGGGGTCCGGCATCTCC 62.683 65.000 0.00 0.00 0.00 3.71
1134 1171 2.880890 GAGATCGATTGTTGGAATGGGG 59.119 50.000 0.00 0.00 0.00 4.96
1251 1298 8.463607 CAAAGTAAAACTTAGGAACAGGAAACA 58.536 33.333 0.00 0.00 37.47 2.83
1317 1443 1.808390 GTACGGGGTGATGCGTGTC 60.808 63.158 0.00 0.00 0.00 3.67
1331 1457 1.134226 GAAACCTGGTCACACGTACG 58.866 55.000 15.01 15.01 0.00 3.67
1332 1458 2.521105 AGAAACCTGGTCACACGTAC 57.479 50.000 0.00 0.00 0.00 3.67
1333 1459 3.981211 GTTAGAAACCTGGTCACACGTA 58.019 45.455 0.00 0.00 0.00 3.57
1334 1460 2.830104 GTTAGAAACCTGGTCACACGT 58.170 47.619 0.00 0.00 0.00 4.49
1621 6906 7.575532 GCAAAGACAGATCCATTTGAACACATA 60.576 37.037 11.54 0.00 35.19 2.29
1652 6937 8.800332 AGAAAATGAACTCTATTCTGCAACATT 58.200 29.630 0.00 0.00 0.00 2.71
1653 6938 8.345724 AGAAAATGAACTCTATTCTGCAACAT 57.654 30.769 0.00 0.00 0.00 2.71
1701 7001 1.483004 TGAAGTTTCACCAGGTCACGA 59.517 47.619 0.00 0.00 31.01 4.35
1703 7003 6.575162 ATTTATGAAGTTTCACCAGGTCAC 57.425 37.500 0.00 0.00 40.49 3.67
1874 7196 1.865970 GCAATCTTCATCGAGCTCCAG 59.134 52.381 8.47 0.00 0.00 3.86
2005 7331 3.797256 CCATTAGAAGAACCGTAAGAGCG 59.203 47.826 0.00 0.00 43.02 5.03
2080 7406 2.481449 GGTGTAGTTAGACGCAGATGGG 60.481 54.545 0.00 0.00 0.00 4.00
2141 7467 7.010160 TGGGAGAAATTTACTTGAGGTTCAAT 58.990 34.615 0.00 0.00 35.59 2.57
2142 7468 6.369629 TGGGAGAAATTTACTTGAGGTTCAA 58.630 36.000 0.00 0.00 34.79 2.69
2174 7505 1.112113 GGCTACCTCTCCATTGTCGA 58.888 55.000 0.00 0.00 0.00 4.20
2213 7548 7.099266 TGGTCATTATCTGCACCAATAAAAG 57.901 36.000 0.00 0.00 34.30 2.27
2317 7670 4.444591 CCAATCTCTCTTTCAGGATCCAGG 60.445 50.000 15.82 5.75 0.00 4.45
2550 7905 4.983538 GCCTTATAGAAGTAAAGTCGCCTC 59.016 45.833 0.00 0.00 0.00 4.70
2554 7909 6.436261 TCATCGCCTTATAGAAGTAAAGTCG 58.564 40.000 0.00 0.00 0.00 4.18
2601 7956 6.756074 ACCCAAAATGCAACATAAATACGATG 59.244 34.615 0.00 0.00 0.00 3.84
2605 7960 8.093659 ACAAACCCAAAATGCAACATAAATAC 57.906 30.769 0.00 0.00 0.00 1.89
2649 8008 7.711339 GGTAAGAGAATACAAAGGTGTCCATAG 59.289 40.741 0.00 0.00 39.30 2.23
2674 8033 1.650528 AAGGGAGGAGACACTTGAGG 58.349 55.000 0.00 0.00 0.00 3.86
2711 8070 8.100791 ACATGCATGAAGAAACCTAACTAAGTA 58.899 33.333 32.75 0.00 0.00 2.24
2716 8075 4.082571 GCACATGCATGAAGAAACCTAACT 60.083 41.667 32.75 2.54 41.59 2.24
2773 8980 9.994432 CCTGATTAAAATTCACAAGTGATACTC 57.006 33.333 3.43 0.00 39.64 2.59
2810 9018 8.291740 GCAGCAATTTCATTCAAAAATACCTTT 58.708 29.630 0.00 0.00 0.00 3.11
2887 9095 1.302511 GGGTCACTGGAACACGCAT 60.303 57.895 0.00 0.00 29.99 4.73
2942 9155 2.187958 TCTGTCTTGGACTACCCATGG 58.812 52.381 4.14 4.14 46.10 3.66
2961 9174 1.831580 ACCTCTGGCTTCTGCATTTC 58.168 50.000 0.00 0.00 41.91 2.17
3042 9256 7.588488 CACTTGCATTCCATTTTGTGAAAAATC 59.412 33.333 0.00 0.00 33.47 2.17
3046 9260 5.668471 TCACTTGCATTCCATTTTGTGAAA 58.332 33.333 0.00 0.00 31.49 2.69
3051 9265 6.425721 ACAATTCTCACTTGCATTCCATTTTG 59.574 34.615 0.00 0.00 0.00 2.44
3106 9321 1.358152 AGCTTTGCTACCAGGTACCA 58.642 50.000 15.94 0.00 36.99 3.25
3109 9324 7.131907 TCATAAATAGCTTTGCTACCAGGTA 57.868 36.000 0.00 0.00 44.24 3.08
3110 9325 6.001449 TCATAAATAGCTTTGCTACCAGGT 57.999 37.500 0.00 0.00 44.24 4.00
3111 9326 6.939163 AGATCATAAATAGCTTTGCTACCAGG 59.061 38.462 0.00 0.00 44.24 4.45
3112 9327 7.976135 AGATCATAAATAGCTTTGCTACCAG 57.024 36.000 0.00 0.00 44.24 4.00
3113 9328 7.992608 TGAAGATCATAAATAGCTTTGCTACCA 59.007 33.333 0.00 0.00 44.24 3.25
3114 9329 8.383318 TGAAGATCATAAATAGCTTTGCTACC 57.617 34.615 0.00 0.00 44.24 3.18
3115 9330 9.875675 CTTGAAGATCATAAATAGCTTTGCTAC 57.124 33.333 0.00 0.00 44.24 3.58
3122 9337 8.709308 ACTACCACTTGAAGATCATAAATAGCT 58.291 33.333 0.00 0.00 0.00 3.32
3203 9421 0.179056 AATTCCCGTCAGGCATACCG 60.179 55.000 0.00 0.00 42.76 4.02
3204 9422 1.134220 TGAATTCCCGTCAGGCATACC 60.134 52.381 2.27 0.00 35.76 2.73
3224 9442 2.171448 GGCCAACCTAGATGATGACACT 59.829 50.000 0.00 0.00 0.00 3.55
3232 9450 0.035439 AACCACGGCCAACCTAGATG 60.035 55.000 2.24 0.00 0.00 2.90
3240 9458 0.402504 AAGGTGATAACCACGGCCAA 59.597 50.000 2.24 0.00 46.62 4.52
3253 9471 5.248248 TCTGGTGAATATTGACTGAAGGTGA 59.752 40.000 5.01 0.00 0.00 4.02
3268 9486 9.300681 TGACTAATTTCTGAAATTCTGGTGAAT 57.699 29.630 26.60 7.36 44.08 2.57
3325 9543 5.756195 TGACTGAAACATTTGGACTGAAG 57.244 39.130 0.00 0.00 0.00 3.02
3329 9547 8.237811 ACTAAAATGACTGAAACATTTGGACT 57.762 30.769 0.00 0.00 43.94 3.85
3337 9555 7.337184 TGTGTACCAACTAAAATGACTGAAACA 59.663 33.333 0.00 0.00 0.00 2.83
3338 9556 7.699566 TGTGTACCAACTAAAATGACTGAAAC 58.300 34.615 0.00 0.00 0.00 2.78
3387 9605 7.824779 ACAGAAGTTTCAGGAATATCTACAACC 59.175 37.037 0.00 0.00 0.00 3.77
3388 9606 8.779354 ACAGAAGTTTCAGGAATATCTACAAC 57.221 34.615 0.00 0.00 0.00 3.32
3389 9607 9.219603 CAACAGAAGTTTCAGGAATATCTACAA 57.780 33.333 0.00 0.00 35.28 2.41
3396 9614 7.230747 TGAATCCAACAGAAGTTTCAGGAATA 58.769 34.615 0.00 0.00 35.28 1.75
3411 9629 9.558396 AAATTTTGAAAATAGCTGAATCCAACA 57.442 25.926 3.26 0.00 0.00 3.33
3437 9655 3.571828 TGCCATTTCGAACAAAGGATCAA 59.428 39.130 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.