Multiple sequence alignment - TraesCS7D01G127800

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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 TraesCS7D01G127800 chr7D 100.000 2663 0 0 1 2663 80199801 80197139 0.000000e+00 4918.0
1 TraesCS7D01G127800 chr7D 88.566 1583 148 17 1086 2651 80298631 80297065 0.000000e+00 1890.0
2 TraesCS7D01G127800 chr7D 93.665 884 52 4 1780 2663 80384139 80383260 0.000000e+00 1319.0
3 TraesCS7D01G127800 chr7D 85.987 1206 135 16 1449 2651 80383068 80381894 0.000000e+00 1260.0
4 TraesCS7D01G127800 chr7D 84.383 1127 97 40 698 1763 80463048 80461940 0.000000e+00 1033.0
5 TraesCS7D01G127800 chr7D 85.603 639 42 15 1 592 80300944 80300309 2.250000e-175 625.0
6 TraesCS7D01G127800 chr7D 79.699 798 87 39 1002 1763 80417569 80416811 8.510000e-140 507.0
7 TraesCS7D01G127800 chr7D 89.390 377 25 4 584 945 80299052 80298676 6.720000e-126 460.0
8 TraesCS7D01G127800 chr7D 84.634 423 37 12 771 1188 112411245 112411644 1.920000e-106 396.0
9 TraesCS7D01G127800 chr7D 86.957 207 21 4 1561 1763 80384328 80384124 7.420000e-56 228.0
10 TraesCS7D01G127800 chr7D 96.875 32 1 0 983 1014 80298671 80298640 1.000000e-03 54.7
11 TraesCS7D01G127800 chr7B 88.801 1143 87 21 643 1763 27487355 27486232 0.000000e+00 1363.0
12 TraesCS7D01G127800 chr7B 85.007 767 97 13 1891 2649 27485580 27484824 0.000000e+00 763.0
13 TraesCS7D01G127800 chr7B 83.297 461 34 16 1002 1456 27595185 27594762 4.160000e-103 385.0
14 TraesCS7D01G127800 chr7B 92.437 119 9 0 1780 1898 27486248 27486130 1.270000e-38 171.0
15 TraesCS7D01G127800 chr7A 82.317 1148 105 41 696 1796 83107013 83105917 0.000000e+00 905.0
16 TraesCS7D01G127800 chr7A 83.534 996 84 38 803 1763 83142587 83141637 0.000000e+00 857.0
17 TraesCS7D01G127800 chr7A 90.792 543 48 2 1780 2322 83157233 83156693 0.000000e+00 725.0
18 TraesCS7D01G127800 chr7A 84.900 649 69 19 586 1225 83170315 83169687 1.740000e-176 628.0
19 TraesCS7D01G127800 chr7A 85.902 532 49 7 1258 1763 83157748 83157217 6.480000e-151 544.0
20 TraesCS7D01G127800 chr7A 88.959 317 29 2 2341 2651 83156471 83156155 1.160000e-103 387.0
21 TraesCS7D01G127800 chr6B 86.458 192 23 3 115 306 672165938 672166126 9.660000e-50 207.0
22 TraesCS7D01G127800 chr6B 93.548 62 4 0 1472 1533 685017564 685017625 2.820000e-15 93.5
23 TraesCS7D01G127800 chr6A 76.650 394 46 19 91 441 60540337 60540727 2.720000e-40 176.0


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 TraesCS7D01G127800 chr7D 80197139 80199801 2662 True 4918.000000 4918 100.000000 1 2663 1 chr7D.!!$R1 2662
1 TraesCS7D01G127800 chr7D 80461940 80463048 1108 True 1033.000000 1033 84.383000 698 1763 1 chr7D.!!$R3 1065
2 TraesCS7D01G127800 chr7D 80381894 80384328 2434 True 935.666667 1319 88.869667 1449 2663 3 chr7D.!!$R5 1214
3 TraesCS7D01G127800 chr7D 80297065 80300944 3879 True 757.425000 1890 90.108500 1 2651 4 chr7D.!!$R4 2650
4 TraesCS7D01G127800 chr7D 80416811 80417569 758 True 507.000000 507 79.699000 1002 1763 1 chr7D.!!$R2 761
5 TraesCS7D01G127800 chr7B 27484824 27487355 2531 True 765.666667 1363 88.748333 643 2649 3 chr7B.!!$R2 2006
6 TraesCS7D01G127800 chr7A 83105917 83107013 1096 True 905.000000 905 82.317000 696 1796 1 chr7A.!!$R1 1100
7 TraesCS7D01G127800 chr7A 83141637 83142587 950 True 857.000000 857 83.534000 803 1763 1 chr7A.!!$R2 960
8 TraesCS7D01G127800 chr7A 83169687 83170315 628 True 628.000000 628 84.900000 586 1225 1 chr7A.!!$R3 639
9 TraesCS7D01G127800 chr7A 83156155 83157748 1593 True 552.000000 725 88.551000 1258 2651 3 chr7A.!!$R4 1393

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
532 577 0.028902 GTCACGGAGCAAAACACACC 59.971 55.0 0.0 0.0 0.0 4.16 F
1457 2886 0.104672 TTCCCCTCCACTCACCAAGA 60.105 55.0 0.0 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1556 2988 0.180406 GCCATGACAGGGGAATACGT 59.820 55.0 8.47 0.0 0.0 3.57 R
2573 4835 0.541392 ACCAGATCATAAGCGGCACA 59.459 50.0 1.45 0.0 0.0 4.57 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
33 34 3.825908 AAATCTAACTGGAAGGGGCAA 57.174 42.857 0.00 0.00 39.30 4.52
166 191 3.656045 CCGGTGGTGTGTTTCCGC 61.656 66.667 0.00 0.00 41.38 5.54
191 236 0.242825 GATATGGCCGGAATCGACGA 59.757 55.000 5.05 0.00 39.00 4.20
243 288 2.950673 GCGCGGGTTGAAATGTCA 59.049 55.556 8.83 0.00 0.00 3.58
246 291 0.591170 CGCGGGTTGAAATGTCACTT 59.409 50.000 0.00 0.00 31.90 3.16
247 292 1.001815 CGCGGGTTGAAATGTCACTTT 60.002 47.619 0.00 0.00 31.90 2.66
341 386 1.296002 AAAATCTAAGGGTCGGGGCT 58.704 50.000 0.00 0.00 0.00 5.19
371 416 1.329599 GTCTGTTCGAGCCGTGTTTTT 59.670 47.619 0.00 0.00 0.00 1.94
373 418 0.302288 TGTTCGAGCCGTGTTTTTCG 59.698 50.000 0.00 0.00 34.56 3.46
374 419 0.990295 GTTCGAGCCGTGTTTTTCGC 60.990 55.000 0.00 0.00 33.36 4.70
375 420 1.429927 TTCGAGCCGTGTTTTTCGCA 61.430 50.000 0.00 0.00 33.36 5.10
376 421 1.206578 CGAGCCGTGTTTTTCGCAT 59.793 52.632 0.00 0.00 0.00 4.73
391 436 7.113684 TGTTTTTCGCATAAAACCATAAACTCG 59.886 33.333 16.37 0.00 43.85 4.18
393 438 3.936453 TCGCATAAAACCATAAACTCGCT 59.064 39.130 0.00 0.00 0.00 4.93
403 448 5.399013 ACCATAAACTCGCTGTTATTTTGC 58.601 37.500 0.00 0.00 38.03 3.68
405 450 5.861251 CCATAAACTCGCTGTTATTTTGCAA 59.139 36.000 0.00 0.00 38.03 4.08
423 468 2.333926 CAATTCGGCGCGATATAAGGA 58.666 47.619 12.10 0.00 35.23 3.36
426 471 1.170442 TCGGCGCGATATAAGGATCA 58.830 50.000 12.10 0.00 0.00 2.92
447 492 6.203808 TCAGCTAAAGATGCTCTAACGTAA 57.796 37.500 0.00 0.00 38.92 3.18
475 520 2.125961 GTAGCGACTCCGGGACCAT 61.126 63.158 0.00 0.00 36.06 3.55
532 577 0.028902 GTCACGGAGCAAAACACACC 59.971 55.000 0.00 0.00 0.00 4.16
594 639 1.822186 ACGCACACCCACAAACTCC 60.822 57.895 0.00 0.00 0.00 3.85
602 1912 0.464735 CCCACAAACTCCACCGTTCA 60.465 55.000 0.00 0.00 0.00 3.18
867 2202 3.490249 GCCTATATATACCGCACGCATCA 60.490 47.826 3.25 0.00 0.00 3.07
883 2218 3.410516 CAATCGCACGGTGTCGCA 61.411 61.111 16.41 8.79 40.63 5.10
900 2235 1.078848 CAGGCTGCCAGAGTACACC 60.079 63.158 22.65 0.00 0.00 4.16
945 2291 2.921634 TCAGCTGTGATCACGTAGTC 57.078 50.000 20.54 9.64 41.61 2.59
946 2292 2.159382 TCAGCTGTGATCACGTAGTCA 58.841 47.619 20.54 1.34 41.61 3.41
980 2340 0.324830 ACGAAGGGAAGGAGCTAGCT 60.325 55.000 19.45 19.45 0.00 3.32
981 2341 1.063867 ACGAAGGGAAGGAGCTAGCTA 60.064 52.381 19.38 0.00 0.00 3.32
982 2342 1.611491 CGAAGGGAAGGAGCTAGCTAG 59.389 57.143 19.38 16.84 0.00 3.42
983 2343 2.750135 CGAAGGGAAGGAGCTAGCTAGA 60.750 54.545 25.15 0.00 0.00 2.43
984 2344 2.675658 AGGGAAGGAGCTAGCTAGAG 57.324 55.000 25.15 1.31 0.00 2.43
985 2345 0.966179 GGGAAGGAGCTAGCTAGAGC 59.034 60.000 25.15 12.96 43.19 4.09
1099 2483 3.114616 CCACGCTGCCACTCTTCG 61.115 66.667 0.00 0.00 0.00 3.79
1104 2488 2.049156 CTGCCACTCTTCGTGCGA 60.049 61.111 0.00 0.00 42.42 5.10
1218 2615 2.164017 TCGATGGTGTTCAATGCAATGG 59.836 45.455 1.05 0.00 0.00 3.16
1255 2660 4.119862 CCTTCTCTTTCGTGAAACTGACA 58.880 43.478 0.00 0.00 31.75 3.58
1447 2867 2.669133 CGCCTCATGTTCCCCTCCA 61.669 63.158 0.00 0.00 0.00 3.86
1449 2869 1.566298 GCCTCATGTTCCCCTCCACT 61.566 60.000 0.00 0.00 0.00 4.00
1450 2870 0.543749 CCTCATGTTCCCCTCCACTC 59.456 60.000 0.00 0.00 0.00 3.51
1451 2871 1.279496 CTCATGTTCCCCTCCACTCA 58.721 55.000 0.00 0.00 0.00 3.41
1452 2872 0.984230 TCATGTTCCCCTCCACTCAC 59.016 55.000 0.00 0.00 0.00 3.51
1457 2886 0.104672 TTCCCCTCCACTCACCAAGA 60.105 55.000 0.00 0.00 0.00 3.02
1466 2895 3.118149 TCCACTCACCAAGATGATCCATG 60.118 47.826 0.00 0.00 0.00 3.66
1468 2897 2.240414 ACTCACCAAGATGATCCATGCA 59.760 45.455 0.00 0.00 0.00 3.96
1556 2988 5.007034 TGTGGATTCTTAATTTCTTCCGCA 58.993 37.500 0.00 0.00 40.42 5.69
1559 2991 4.094442 GGATTCTTAATTTCTTCCGCACGT 59.906 41.667 0.00 0.00 0.00 4.49
1573 3005 1.299541 GCACGTATTCCCCTGTCATG 58.700 55.000 0.00 0.00 0.00 3.07
1634 3081 2.656947 TGCAGGGAGTTTAGCAAGTT 57.343 45.000 0.00 0.00 33.48 2.66
1644 3091 1.394618 TTAGCAAGTTGGCCAAACGT 58.605 45.000 22.47 10.11 44.04 3.99
1649 3096 1.002468 CAAGTTGGCCAAACGTCTCAG 60.002 52.381 22.47 5.85 44.04 3.35
1774 3265 8.587950 TGTTAGTACAATGTTTTTCTTTTTGCG 58.412 29.630 0.00 0.00 0.00 4.85
1775 3266 8.800031 GTTAGTACAATGTTTTTCTTTTTGCGA 58.200 29.630 0.00 0.00 0.00 5.10
1778 3269 4.570369 ACAATGTTTTTCTTTTTGCGAGGG 59.430 37.500 0.00 0.00 0.00 4.30
1798 3289 6.402118 CGAGGGAATGTTAGTACAATGTTGTG 60.402 42.308 8.57 0.00 42.31 3.33
1828 3319 5.179555 GTCAACAAGTATGGGACTTTCTGAC 59.820 44.000 10.56 10.56 46.79 3.51
1845 3336 7.171678 ACTTTCTGACTTTATTTCTCTTGTCCG 59.828 37.037 0.00 0.00 0.00 4.79
1948 3996 9.748708 TCTTGGTTTTGATTAATTTGAACTGAG 57.251 29.630 0.00 0.00 0.00 3.35
2026 4076 4.448537 TGGCACCATACAAAATTACTGC 57.551 40.909 0.00 0.00 0.00 4.40
2034 4084 8.458052 CACCATACAAAATTACTGCAATCTGTA 58.542 33.333 0.00 0.00 0.00 2.74
2082 4133 6.238211 CCGCTCATGTCTTTAGAATTAAGTGG 60.238 42.308 0.00 0.00 0.00 4.00
2084 4135 7.467623 GCTCATGTCTTTAGAATTAAGTGGTG 58.532 38.462 0.00 0.00 0.00 4.17
2104 4155 5.473066 GTGTACAACACTAAACCCCTCTA 57.527 43.478 0.00 0.00 45.27 2.43
2125 4176 0.251832 AGAAAGCTCTCCCGACCTCA 60.252 55.000 0.00 0.00 0.00 3.86
2146 4197 1.073025 TTGCTCCCACAAGCGACAT 59.927 52.632 0.00 0.00 45.54 3.06
2199 4250 2.045926 CCTCCCCTTCGCAACCTG 60.046 66.667 0.00 0.00 0.00 4.00
2201 4252 1.073199 CTCCCCTTCGCAACCTGTT 59.927 57.895 0.00 0.00 0.00 3.16
2283 4334 1.922545 GCTCTCGCAATTTTTCATGCC 59.077 47.619 0.00 0.00 39.39 4.40
2284 4335 2.416431 GCTCTCGCAATTTTTCATGCCT 60.416 45.455 0.00 0.00 39.39 4.75
2384 4638 1.480137 GCACAGATCTACTCCTGCAGT 59.520 52.381 13.81 0.00 39.41 4.40
2403 4657 3.871594 CAGTAACGAGATGTGGGATTTCC 59.128 47.826 0.00 0.00 0.00 3.13
2404 4658 3.517901 AGTAACGAGATGTGGGATTTCCA 59.482 43.478 0.00 0.00 44.79 3.53
2526 4782 1.226379 GCAATGTGAACGATGGCCG 60.226 57.895 0.00 0.00 45.44 6.13
2546 4804 1.177256 ACCGCGGCGACCTCTATTAT 61.177 55.000 28.58 0.00 0.00 1.28
2568 4826 2.456119 CCTCGCGACATGGCACTTC 61.456 63.158 3.71 0.00 0.00 3.01
2572 4834 2.780643 CGACATGGCACTTCGCAG 59.219 61.111 0.00 0.00 45.17 5.18
2573 4835 2.029288 CGACATGGCACTTCGCAGT 61.029 57.895 0.00 0.00 45.17 4.40
2583 4845 2.027073 CTTCGCAGTGTGCCGCTTA 61.027 57.895 0.00 0.00 41.12 3.09
2651 4913 2.679996 GGGGTGGATGGTGTTGGC 60.680 66.667 0.00 0.00 0.00 4.52
2652 4914 2.117206 GGGTGGATGGTGTTGGCA 59.883 61.111 0.00 0.00 0.00 4.92
2653 4915 1.305213 GGGTGGATGGTGTTGGCAT 60.305 57.895 0.00 0.00 0.00 4.40
2654 4916 1.606885 GGGTGGATGGTGTTGGCATG 61.607 60.000 0.00 0.00 0.00 4.06
2655 4917 1.216178 GTGGATGGTGTTGGCATGC 59.784 57.895 9.90 9.90 0.00 4.06
2656 4918 1.983481 TGGATGGTGTTGGCATGCC 60.983 57.895 30.54 30.54 0.00 4.40
2657 4919 1.983481 GGATGGTGTTGGCATGCCA 60.983 57.895 35.59 35.59 45.63 4.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 0.179040 TCCGCCGTTGAGTCCTTTTT 60.179 50.000 0.00 0.00 0.00 1.94
72 73 4.337177 TTGGATGAACCGCCGCCA 62.337 61.111 0.00 0.00 42.61 5.69
83 84 2.383245 ATCTACCGCGGCCTTGGATG 62.383 60.000 28.58 6.51 0.00 3.51
204 249 1.082206 TTCCCCTCCCTCATTCCGT 59.918 57.895 0.00 0.00 0.00 4.69
205 250 1.527370 GTTCCCCTCCCTCATTCCG 59.473 63.158 0.00 0.00 0.00 4.30
233 278 3.380004 AGTTGGCGAAAGTGACATTTCAA 59.620 39.130 0.00 0.00 38.79 2.69
281 326 2.856988 AGGTTTTCTCCCGCCCCA 60.857 61.111 0.00 0.00 0.00 4.96
325 370 0.620700 AACAGCCCCGACCCTTAGAT 60.621 55.000 0.00 0.00 0.00 1.98
334 379 0.035739 GACACCTTAAACAGCCCCGA 59.964 55.000 0.00 0.00 0.00 5.14
335 380 0.036306 AGACACCTTAAACAGCCCCG 59.964 55.000 0.00 0.00 0.00 5.73
336 381 1.202891 ACAGACACCTTAAACAGCCCC 60.203 52.381 0.00 0.00 0.00 5.80
338 383 2.223377 CGAACAGACACCTTAAACAGCC 59.777 50.000 0.00 0.00 0.00 4.85
341 386 3.128349 GCTCGAACAGACACCTTAAACA 58.872 45.455 0.00 0.00 0.00 2.83
371 416 3.936453 AGCGAGTTTATGGTTTTATGCGA 59.064 39.130 0.00 0.00 0.00 5.10
373 418 4.981794 ACAGCGAGTTTATGGTTTTATGC 58.018 39.130 0.00 0.00 0.00 3.14
374 419 9.567848 AAATAACAGCGAGTTTATGGTTTTATG 57.432 29.630 2.97 0.00 41.64 1.90
376 421 9.400638 CAAAATAACAGCGAGTTTATGGTTTTA 57.599 29.630 2.97 0.00 41.64 1.52
391 436 2.027926 CGCCGAATTGCAAAATAACAGC 59.972 45.455 1.71 0.00 0.00 4.40
393 438 1.989165 GCGCCGAATTGCAAAATAACA 59.011 42.857 1.71 0.00 0.00 2.41
403 448 2.333926 TCCTTATATCGCGCCGAATTG 58.666 47.619 0.00 0.00 39.99 2.32
405 450 2.165641 TGATCCTTATATCGCGCCGAAT 59.834 45.455 0.00 0.00 39.99 3.34
447 492 4.530857 GTCGCTACTGCCGGCCAT 62.531 66.667 26.77 14.97 35.36 4.40
508 553 1.202245 TGTTTTGCTCCGTGACTTTGC 60.202 47.619 0.00 0.00 0.00 3.68
518 563 1.069227 GTCGATGGTGTGTTTTGCTCC 60.069 52.381 0.00 0.00 0.00 4.70
532 577 2.480555 GCCGGTTGCTTGTCGATG 59.519 61.111 1.90 0.00 36.87 3.84
553 598 2.432628 CGGAACTGAGCGTGGACC 60.433 66.667 0.00 0.00 0.00 4.46
594 639 2.244436 CTGCCTGCGAATGAACGGTG 62.244 60.000 0.00 0.00 0.00 4.94
602 1912 2.338015 CCTTGTGCTGCCTGCGAAT 61.338 57.895 0.00 0.00 46.63 3.34
724 2037 1.678970 GGGAGACATGGTGTTGGGC 60.679 63.158 0.00 0.00 0.00 5.36
768 2087 4.973051 CGATCTGGAAATAGTGAACTCGAG 59.027 45.833 11.84 11.84 0.00 4.04
843 2178 1.202222 GCGTGCGGTATATATAGGCGT 60.202 52.381 9.83 0.00 0.00 5.68
867 2202 3.112075 CTGCGACACCGTGCGATT 61.112 61.111 16.23 0.00 38.24 3.34
883 2218 1.536418 TGGTGTACTCTGGCAGCCT 60.536 57.895 14.15 0.00 32.72 4.58
900 2235 0.676736 GTGCTAGGGGTAGCTAGCTG 59.323 60.000 27.68 9.54 46.17 4.24
945 2291 4.156008 CCCTTCGTCAACTATTTTCCCTTG 59.844 45.833 0.00 0.00 0.00 3.61
946 2292 4.042435 TCCCTTCGTCAACTATTTTCCCTT 59.958 41.667 0.00 0.00 0.00 3.95
1034 2412 2.044252 CCCTCTTCCCGGACGAGA 60.044 66.667 20.06 5.67 30.86 4.04
1099 2483 2.864248 GTCGTCGTCGTCTCGCAC 60.864 66.667 1.33 0.00 38.33 5.34
1104 2488 2.730976 TCGTCGTCGTCGTCGTCT 60.731 61.111 18.44 0.00 45.27 4.18
1159 2546 2.415010 CATCTCCCAGTCGCGAGG 59.585 66.667 10.24 8.53 0.00 4.63
1255 2660 1.651987 CACGAATTACACTCGGCCAT 58.348 50.000 2.24 0.00 40.64 4.40
1447 2867 2.240414 TGCATGGATCATCTTGGTGAGT 59.760 45.455 0.00 0.00 0.00 3.41
1449 2869 2.646930 GTGCATGGATCATCTTGGTGA 58.353 47.619 0.00 0.00 0.00 4.02
1450 2870 1.679680 GGTGCATGGATCATCTTGGTG 59.320 52.381 0.00 0.00 0.00 4.17
1451 2871 1.748244 CGGTGCATGGATCATCTTGGT 60.748 52.381 0.00 0.00 0.00 3.67
1452 2872 0.949397 CGGTGCATGGATCATCTTGG 59.051 55.000 0.00 0.00 0.00 3.61
1457 2886 0.464373 GGTGACGGTGCATGGATCAT 60.464 55.000 0.00 0.00 0.00 2.45
1556 2988 0.180406 GCCATGACAGGGGAATACGT 59.820 55.000 8.47 0.00 0.00 3.57
1559 2991 1.072173 CGATGCCATGACAGGGGAATA 59.928 52.381 3.91 0.00 0.00 1.75
1573 3005 5.557136 CGTTATCAGTCAAAGATTCGATGCC 60.557 44.000 0.00 0.00 0.00 4.40
1634 3081 1.066430 GTATCCTGAGACGTTTGGCCA 60.066 52.381 0.00 0.00 0.00 5.36
1644 3091 2.952310 CGGTCACATGAGTATCCTGAGA 59.048 50.000 0.00 0.00 34.15 3.27
1649 3096 3.630769 TGTAGTCGGTCACATGAGTATCC 59.369 47.826 0.00 0.00 0.00 2.59
1661 3124 1.080025 GTGGCAGGTGTAGTCGGTC 60.080 63.158 0.00 0.00 0.00 4.79
1766 3257 4.766404 ACTAACATTCCCTCGCAAAAAG 57.234 40.909 0.00 0.00 0.00 2.27
1769 3260 4.274602 TGTACTAACATTCCCTCGCAAA 57.725 40.909 0.00 0.00 0.00 3.68
1770 3261 3.965379 TGTACTAACATTCCCTCGCAA 57.035 42.857 0.00 0.00 0.00 4.85
1771 3262 3.965379 TTGTACTAACATTCCCTCGCA 57.035 42.857 0.00 0.00 34.97 5.10
1772 3263 4.189231 ACATTGTACTAACATTCCCTCGC 58.811 43.478 0.00 0.00 34.97 5.03
1773 3264 5.642063 ACAACATTGTACTAACATTCCCTCG 59.358 40.000 0.00 0.00 40.16 4.63
1774 3265 6.128007 CCACAACATTGTACTAACATTCCCTC 60.128 42.308 0.00 0.00 39.91 4.30
1775 3266 5.710099 CCACAACATTGTACTAACATTCCCT 59.290 40.000 0.00 0.00 39.91 4.20
1778 3269 7.075741 GTGACCACAACATTGTACTAACATTC 58.924 38.462 0.00 0.00 39.91 2.67
1798 3289 2.073816 CCCATACTTGTTGACGTGACC 58.926 52.381 0.00 0.00 0.00 4.02
1828 3319 6.759497 AAATCCCGGACAAGAGAAATAAAG 57.241 37.500 0.73 0.00 0.00 1.85
1906 3954 8.853345 CAAAACCAAGAACATTTTGATAGATCG 58.147 33.333 3.19 0.00 43.07 3.69
1941 3989 3.375782 AGCCAAATGCAAACTCAGTTC 57.624 42.857 0.00 0.00 44.83 3.01
1948 3996 4.996758 ACTAATTCCAAGCCAAATGCAAAC 59.003 37.500 0.00 0.00 44.83 2.93
2001 4051 6.203723 GCAGTAATTTTGTATGGTGCCAAAAA 59.796 34.615 0.00 0.00 42.07 1.94
2050 4101 1.813513 AAGACATGAGCGGGTTCAAG 58.186 50.000 0.00 0.00 0.00 3.02
2084 4135 6.762333 TCTTTAGAGGGGTTTAGTGTTGTAC 58.238 40.000 0.00 0.00 0.00 2.90
2125 4176 2.972505 CGCTTGTGGGAGCAACGT 60.973 61.111 0.00 0.00 42.83 3.99
2146 4197 2.666098 GCGGCTAAGGTTCCCCTCA 61.666 63.158 0.00 0.00 41.56 3.86
2199 4250 3.628646 ATCCTCCAGCGGTGGCAAC 62.629 63.158 28.72 0.00 44.60 4.17
2201 4252 4.100084 CATCCTCCAGCGGTGGCA 62.100 66.667 28.72 16.04 44.60 4.92
2249 4300 2.194326 GAGCTCTCCCCATTGCCC 59.806 66.667 6.43 0.00 0.00 5.36
2283 4334 2.295885 GCATCTCCCTTGAATCACCAG 58.704 52.381 0.00 0.00 0.00 4.00
2284 4335 1.634973 TGCATCTCCCTTGAATCACCA 59.365 47.619 0.00 0.00 0.00 4.17
2338 4389 2.594303 CGCCTGAGCCACCACAAA 60.594 61.111 0.00 0.00 34.57 2.83
2364 4618 1.480137 ACTGCAGGAGTAGATCTGTGC 59.520 52.381 19.93 7.13 37.96 4.57
2366 4620 3.378742 CGTTACTGCAGGAGTAGATCTGT 59.621 47.826 19.93 0.00 38.45 3.41
2371 4625 3.345508 TCTCGTTACTGCAGGAGTAGA 57.654 47.619 19.93 10.55 38.45 2.59
2451 4705 2.017559 GCACCTCGACCGCTAGGATT 62.018 60.000 4.47 0.00 41.02 3.01
2526 4782 1.789078 TAATAGAGGTCGCCGCGGTC 61.789 60.000 28.70 16.12 0.00 4.79
2541 4799 0.885879 ATGTCGCGAGGCCGATAATA 59.114 50.000 10.24 0.00 39.67 0.98
2572 4834 0.940126 CCAGATCATAAGCGGCACAC 59.060 55.000 1.45 0.00 0.00 3.82
2573 4835 0.541392 ACCAGATCATAAGCGGCACA 59.459 50.000 1.45 0.00 0.00 4.57
2583 4845 0.679002 GCCAGCACACACCAGATCAT 60.679 55.000 0.00 0.00 0.00 2.45


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

AutoCloner maintained by Alex Coulton.