Multiple sequence alignment - TraesCS7B01G494700

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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 TraesCS7B01G494700 chr7B 100.000 4348 0 0 1 4348 746137459 746133112 0.000000e+00 8030.0
1 TraesCS7B01G494700 chr7B 97.143 35 1 0 18 52 9676847 9676813 4.700000e-05 60.2
2 TraesCS7B01G494700 chr7B 87.755 49 2 2 411 455 457244633 457244585 2.000000e-03 54.7
3 TraesCS7B01G494700 chr2A 95.747 3433 108 12 1 3395 762779891 762783323 0.000000e+00 5496.0
4 TraesCS7B01G494700 chr2A 96.440 899 32 0 3450 4348 762783488 762784386 0.000000e+00 1483.0
5 TraesCS7B01G494700 chr2A 86.466 133 8 6 3353 3476 762783329 762783460 2.110000e-28 137.0
6 TraesCS7B01G494700 chr2A 89.610 77 8 0 4272 4348 503652007 503652083 9.950000e-17 99.0
7 TraesCS7B01G494700 chr3D 89.189 74 8 0 4274 4347 438770646 438770719 4.630000e-15 93.5
8 TraesCS7B01G494700 chr3D 87.500 80 6 4 4272 4348 164697932 164697854 5.990000e-14 89.8
9 TraesCS7B01G494700 chr3D 84.810 79 10 2 4272 4348 210647997 210648075 1.300000e-10 78.7
10 TraesCS7B01G494700 chr3D 83.544 79 11 2 4272 4348 246072709 246072787 6.030000e-09 73.1
11 TraesCS7B01G494700 chr3D 93.617 47 3 0 4 50 405807553 405807507 2.170000e-08 71.3
12 TraesCS7B01G494700 chr3D 100.000 29 0 0 415 443 373805303 373805331 2.000000e-03 54.7
13 TraesCS7B01G494700 chr3B 85.714 77 11 0 4272 4348 276527346 276527270 1.000000e-11 82.4
14 TraesCS7B01G494700 chr3A 86.076 79 7 4 4272 4347 447621068 447621145 1.000000e-11 82.4
15 TraesCS7B01G494700 chr3A 84.810 79 10 2 4272 4348 275236050 275235972 1.300000e-10 78.7
16 TraesCS7B01G494700 chr7A 93.750 48 3 0 5 52 232754724 232754677 6.030000e-09 73.1
17 TraesCS7B01G494700 chr5A 91.304 46 4 0 1938 1983 560989010 560988965 3.630000e-06 63.9
18 TraesCS7B01G494700 chr1B 97.143 35 1 0 18 52 660919162 660919196 4.700000e-05 60.2
19 TraesCS7B01G494700 chr7D 89.362 47 2 1 414 457 276929464 276929510 6.070000e-04 56.5
20 TraesCS7B01G494700 chr6D 96.970 33 1 0 18 50 6772475 6772507 6.070000e-04 56.5
21 TraesCS7B01G494700 chr6D 100.000 28 0 0 414 441 235768805 235768832 8.000000e-03 52.8
22 TraesCS7B01G494700 chr6B 90.909 44 1 1 415 455 526114430 526114387 6.070000e-04 56.5
23 TraesCS7B01G494700 chr5B 89.130 46 2 2 414 456 21749106 21749061 2.000000e-03 54.7
24 TraesCS7B01G494700 chr4B 90.698 43 1 1 415 454 477398961 477398919 2.000000e-03 54.7
25 TraesCS7B01G494700 chr1D 94.286 35 2 0 12 46 387491126 387491160 2.000000e-03 54.7
26 TraesCS7B01G494700 chr1A 88.889 45 2 1 415 456 6561159 6561115 8.000000e-03 52.8


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 TraesCS7B01G494700 chr7B 746133112 746137459 4347 True 8030 8030 100.000000 1 4348 1 chr7B.!!$R3 4347
1 TraesCS7B01G494700 chr2A 762779891 762784386 4495 False 2372 5496 92.884333 1 4348 3 chr2A.!!$F2 4347

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
943 963 0.179045 GGCCATGTCTGCGGATAACT 60.179 55.0 0.00 0.0 0.0 2.24 F
1284 1307 0.247695 GCTACCGCGCTTTCATTGTC 60.248 55.0 5.56 0.0 0.0 3.18 F
1707 1730 0.770499 TGGACTGGAACTGGATGCAA 59.230 50.0 0.00 0.0 0.0 4.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2498 2528 0.979665 AGTGTCACCACCTCTGATGG 59.020 55.000 0.00 0.00 42.88 3.51 R
2672 2702 1.202604 TCGGTTGGAGGTGAAGACAAC 60.203 52.381 0.00 0.00 41.71 3.32 R
3499 3648 0.179124 GAGACTCGAGTGGTGCATCC 60.179 60.000 25.58 5.59 0.00 3.51 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
19 20 0.669318 TTTCGCATCCGTCCACAGAC 60.669 55.000 0.00 0.00 39.83 3.51
21 22 1.153568 CGCATCCGTCCACAGACAT 60.154 57.895 0.00 0.00 43.73 3.06
31 32 1.221566 CACAGACATGGATGCGGGA 59.778 57.895 0.00 0.00 0.00 5.14
34 35 2.592861 GACATGGATGCGGGAGGC 60.593 66.667 0.00 0.00 43.96 4.70
94 103 6.304126 CAAATGAATTTGTGCATCAAGCTTC 58.696 36.000 0.00 4.92 41.58 3.86
96 105 3.004629 TGAATTTGTGCATCAAGCTTCGT 59.995 39.130 0.00 0.00 45.94 3.85
130 139 1.709147 GGCGACTTGAGCGATGCAAT 61.709 55.000 0.00 0.00 35.00 3.56
267 285 2.811410 TGACGTGGTACCAACCTAGAT 58.189 47.619 18.31 0.00 46.91 1.98
277 295 4.993705 ACCAACCTAGATTGTTGAAGGA 57.006 40.909 10.79 0.00 44.57 3.36
280 298 4.938226 CCAACCTAGATTGTTGAAGGAGAC 59.062 45.833 10.79 0.00 44.57 3.36
386 406 7.822334 TGTGTTTCCTACTCAACATCGAAATAT 59.178 33.333 0.00 0.00 35.40 1.28
451 471 8.596781 AACGCTCTTATATTATACAGAGGGAT 57.403 34.615 25.52 18.95 44.94 3.85
480 500 3.315191 ACAGGATGAAGTTTTGTGGAACG 59.685 43.478 0.00 0.00 38.09 3.95
557 577 3.266636 ACATCATATTTCGTTGACGCCA 58.733 40.909 0.00 0.00 39.60 5.69
621 641 3.650942 ACAGTCCACACCATTTCTCCTTA 59.349 43.478 0.00 0.00 0.00 2.69
867 887 3.435186 GCAAGCCACCGCCTCTTC 61.435 66.667 0.00 0.00 34.57 2.87
900 920 2.124983 GCCATCGCCAGCTTCTCA 60.125 61.111 0.00 0.00 0.00 3.27
942 962 0.463654 TGGCCATGTCTGCGGATAAC 60.464 55.000 0.00 0.00 0.00 1.89
943 963 0.179045 GGCCATGTCTGCGGATAACT 60.179 55.000 0.00 0.00 0.00 2.24
959 979 4.527583 CTCGCCTCCTGCTCCTGC 62.528 72.222 0.00 0.00 38.05 4.85
1063 1086 3.369242 TCATCATGATGGTCTTTGGCA 57.631 42.857 30.54 9.48 39.24 4.92
1064 1087 3.018856 TCATCATGATGGTCTTTGGCAC 58.981 45.455 30.54 0.00 39.24 5.01
1144 1167 2.030893 CACGACCACACAAAATCATGCT 60.031 45.455 0.00 0.00 0.00 3.79
1272 1295 1.477295 AGTTTACTCCTGAGCTACCGC 59.523 52.381 0.00 0.00 0.00 5.68
1284 1307 0.247695 GCTACCGCGCTTTCATTGTC 60.248 55.000 5.56 0.00 0.00 3.18
1285 1308 1.359848 CTACCGCGCTTTCATTGTCT 58.640 50.000 5.56 0.00 0.00 3.41
1298 1321 2.807967 TCATTGTCTGAAGAAAGGTGCG 59.192 45.455 0.00 0.00 0.00 5.34
1338 1361 4.096003 CACCCAGCCCCAGGTACG 62.096 72.222 0.00 0.00 33.52 3.67
1394 1417 9.810870 TGGTCCAATGAATCAATGATTATGATA 57.189 29.630 8.64 0.00 36.53 2.15
1450 1473 4.060038 TCTTGTTCTTTTCAGAGTCGCT 57.940 40.909 0.00 0.00 0.00 4.93
1482 1505 5.690409 CGTAAATATAGCGGAGTGACAATGT 59.310 40.000 0.00 0.00 0.00 2.71
1487 1510 2.417719 AGCGGAGTGACAATGTTTCTC 58.582 47.619 9.19 9.19 0.00 2.87
1496 1519 8.188139 GGAGTGACAATGTTTCTCTTGTTTTTA 58.812 33.333 14.56 0.00 35.80 1.52
1565 1588 5.498393 TCCTGTCTATCGTTCTCACTAGTT 58.502 41.667 0.00 0.00 0.00 2.24
1578 1601 9.244799 CGTTCTCACTAGTTAATGTATATTGCA 57.755 33.333 0.00 0.00 0.00 4.08
1662 1685 3.308053 CGATGTAACTCAGATGCCAACTG 59.692 47.826 0.00 0.00 36.80 3.16
1707 1730 0.770499 TGGACTGGAACTGGATGCAA 59.230 50.000 0.00 0.00 0.00 4.08
1709 1732 1.168714 GACTGGAACTGGATGCAACC 58.831 55.000 5.96 5.96 0.00 3.77
1725 1748 2.412325 GCAACCGTAAAAGATGTGTCCG 60.412 50.000 0.00 0.00 0.00 4.79
1766 1789 4.375005 CGTTCGACACAGTTGTATGTTCTG 60.375 45.833 0.00 0.00 35.47 3.02
1794 1817 6.476053 GTGCATTTTTGTTTTGCCATTTGATT 59.524 30.769 0.00 0.00 35.51 2.57
1840 1863 9.987272 TTTGTTGATACCATAGATATCAGTGAG 57.013 33.333 5.32 1.04 39.57 3.51
1848 1871 8.582657 ACCATAGATATCAGTGAGTATACCAC 57.417 38.462 5.32 13.54 34.89 4.16
1915 1945 5.833131 CCCATATGGTGTTACTGCCTTAAAT 59.167 40.000 20.46 0.00 0.00 1.40
2147 2177 2.370519 TCAACCAGGAAGATTCGGTCAA 59.629 45.455 0.00 0.00 0.00 3.18
2197 2227 3.575256 TGCTTGCCAGTTGATTCTGAAAT 59.425 39.130 0.00 0.00 37.61 2.17
2202 2232 7.171337 GCTTGCCAGTTGATTCTGAAATTTTTA 59.829 33.333 0.00 0.00 37.61 1.52
2354 2384 2.193536 GCCACCGCCTTTGTGAGTT 61.194 57.895 0.00 0.00 35.74 3.01
2432 2462 8.783660 ATCATATATATCCTAATGTGACCGGT 57.216 34.615 6.92 6.92 0.00 5.28
2444 2474 5.662211 ATGTGACCGGTAATTATTTACGC 57.338 39.130 7.34 0.00 38.90 4.42
2463 2493 1.837499 AGGAGCCCGCCATAGGTAC 60.837 63.158 0.00 0.00 0.00 3.34
2498 2528 4.336280 AGAGGCCTTTCTTGTAATGAACC 58.664 43.478 6.77 0.00 28.89 3.62
2584 2614 3.010420 GTTTATCAAGACAGGCCTCACC 58.990 50.000 0.00 0.00 39.61 4.02
2601 2631 2.551644 CCAAGTACTGGTTTCCGGC 58.448 57.895 0.00 0.00 40.78 6.13
2686 2716 1.666311 CGTCTCGTTGTCTTCACCTCC 60.666 57.143 0.00 0.00 0.00 4.30
2719 2749 2.489722 GGAGTCAAGTGAAGGAATTGCC 59.510 50.000 0.00 0.00 0.00 4.52
2784 2814 7.665561 AGCTTCAGACTTTTATTCTCTTCAC 57.334 36.000 0.00 0.00 0.00 3.18
2837 2867 4.279169 TGCTCTAGTAGTTTACACGTTGGT 59.721 41.667 0.00 0.00 0.00 3.67
2850 2880 4.699637 ACACGTTGGTTGTCTCTTATCAA 58.300 39.130 0.00 0.00 0.00 2.57
2860 2890 6.825721 GGTTGTCTCTTATCAAAGATGGTGAT 59.174 38.462 0.00 0.00 40.92 3.06
3026 3056 2.669229 TGCTCCACACATGCCACG 60.669 61.111 0.00 0.00 0.00 4.94
3078 3111 3.681593 TGGCTGTGGATTACAAGGTAAC 58.318 45.455 0.00 0.00 39.20 2.50
3089 3122 1.073199 AAGGTAACGCCAGCAGCTT 59.927 52.632 0.00 0.00 46.39 3.74
3090 3123 0.955919 AAGGTAACGCCAGCAGCTTC 60.956 55.000 0.00 0.00 46.39 3.86
3091 3124 1.376037 GGTAACGCCAGCAGCTTCT 60.376 57.895 0.00 0.00 40.39 2.85
3092 3125 1.639298 GGTAACGCCAGCAGCTTCTG 61.639 60.000 6.37 6.37 40.39 3.02
3112 3150 2.005451 GCAACTCAGTAGGACATGCTG 58.995 52.381 0.00 0.00 42.56 4.41
3127 3165 4.346730 ACATGCTGGAATCTTGAAATCCA 58.653 39.130 0.00 7.83 40.84 3.41
3133 3171 5.357742 TGGAATCTTGAAATCCAGATCGA 57.642 39.130 0.00 0.00 38.30 3.59
3134 3172 5.744171 TGGAATCTTGAAATCCAGATCGAA 58.256 37.500 0.00 0.00 38.30 3.71
3135 3173 5.819379 TGGAATCTTGAAATCCAGATCGAAG 59.181 40.000 0.00 0.00 38.30 3.79
3286 3325 2.361119 GTCCACCCTTGTTCTTGTTTCC 59.639 50.000 0.00 0.00 0.00 3.13
3341 3380 2.594303 TTGTGGCGGGCTGTTCTG 60.594 61.111 2.38 0.00 0.00 3.02
3378 3465 3.006430 TGACAAGTCGTGCTCTAAATGGA 59.994 43.478 0.00 0.00 0.00 3.41
3394 3481 2.655090 TGGAGTTCAGAAATGGTGCA 57.345 45.000 0.00 0.00 0.00 4.57
3426 3513 5.834460 TCTCTACATTGGGGTACTTCACTA 58.166 41.667 0.00 0.00 0.00 2.74
3441 3537 8.818057 GGTACTTCACTATTATTAACTGCACTG 58.182 37.037 0.00 0.00 0.00 3.66
3489 3638 8.079211 ACATATTGCACGGTCCTATCTTATAT 57.921 34.615 0.00 0.00 0.00 0.86
3610 3759 4.141779 ACCCAAACTATCCGTACAATCTCC 60.142 45.833 0.00 0.00 0.00 3.71
3615 3764 5.876612 ACTATCCGTACAATCTCCGTATC 57.123 43.478 0.00 0.00 0.00 2.24
3634 3783 9.128404 TCCGTATCAATTAGATATATAGCCGTT 57.872 33.333 0.00 0.00 41.10 4.44
3670 3819 1.304381 GAGCCCTTGCCCATTGTCA 60.304 57.895 0.00 0.00 38.69 3.58
3809 3958 3.243201 CCGACGTACCTAGGGTCATTAAC 60.243 52.174 14.81 0.00 37.09 2.01
3849 3998 2.436646 CCACGATCCGGCAAGCTT 60.437 61.111 0.00 0.00 0.00 3.74
3859 4008 3.804193 GCAAGCTTCTTCCGCCCG 61.804 66.667 0.00 0.00 0.00 6.13
3864 4013 0.755698 AGCTTCTTCCGCCCGATCTA 60.756 55.000 0.00 0.00 0.00 1.98
3981 4130 3.120338 AGGAATCGTGTTTGCATGTTACG 60.120 43.478 0.00 6.89 36.20 3.18
4000 4149 6.539464 TGTTACGTGACTTAACTGTTTGGAAT 59.461 34.615 12.05 0.00 31.74 3.01
4005 4154 7.066043 ACGTGACTTAACTGTTTGGAATGTAAA 59.934 33.333 0.00 0.00 0.00 2.01
4118 4267 8.043710 GGAATAGGTGATGGTTCATATAGGAAG 58.956 40.741 0.00 0.00 33.56 3.46
4151 4300 1.407979 AGTTCACGTCCGAGTCTGTTT 59.592 47.619 0.00 0.00 0.00 2.83
4280 4429 2.551270 CTGGTTCTTGTCGTGCGC 59.449 61.111 0.00 0.00 0.00 6.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 1.604147 ATGTCTGTGGACGGATGCGA 61.604 55.000 15.49 0.00 44.83 5.10
15 16 1.227764 CCTCCCGCATCCATGTCTG 60.228 63.158 0.00 0.00 0.00 3.51
16 17 3.112205 GCCTCCCGCATCCATGTCT 62.112 63.158 0.00 0.00 37.47 3.41
68 77 6.820877 AGCTTGATGCACAAATTCATTTGCC 61.821 40.000 11.46 4.84 43.86 4.52
94 103 3.261951 CTGATGGGCCGCGTTACG 61.262 66.667 4.92 0.00 43.15 3.18
106 115 0.529337 ATCGCTCAAGTCGCCTGATG 60.529 55.000 0.00 0.00 0.00 3.07
130 139 0.179086 TGCTCACACTGCTTTCGACA 60.179 50.000 0.00 0.00 0.00 4.35
239 257 1.209990 TGGTACCACGTCAACTTTGGT 59.790 47.619 11.60 8.02 45.78 3.67
267 285 2.171870 AGTTTCCCGTCTCCTTCAACAA 59.828 45.455 0.00 0.00 0.00 2.83
277 295 2.342648 GGTCGCAGTTTCCCGTCT 59.657 61.111 0.00 0.00 0.00 4.18
280 298 2.030562 ACTGGTCGCAGTTTCCCG 59.969 61.111 0.00 0.00 29.93 5.14
451 471 6.016360 CCACAAAACTTCATCCTGTCATGTAA 60.016 38.462 0.00 0.00 0.00 2.41
480 500 5.697633 TGAGGACGTATTGTTAACTTTCCAC 59.302 40.000 7.22 3.47 0.00 4.02
557 577 3.694566 GAGCCGAAATAAAGATGGTTGGT 59.305 43.478 0.00 0.00 0.00 3.67
708 728 2.671070 CGGAACATGGCCAGGAGT 59.329 61.111 26.87 13.66 0.00 3.85
867 887 1.089112 TGGCATTCTTGACAGCGATG 58.911 50.000 0.00 0.00 35.35 3.84
900 920 2.774234 ACCTAGCTTACATGTCAGCCAT 59.226 45.455 24.81 12.56 36.62 4.40
918 938 2.034687 GCAGACATGGCCACACCT 59.965 61.111 8.16 1.36 40.22 4.00
1064 1087 1.169661 TGCCGCTGTAACCAAACAGG 61.170 55.000 6.17 0.00 45.75 4.00
1144 1167 4.612412 GACGGTGGTTGGGCGACA 62.612 66.667 0.00 0.00 0.00 4.35
1284 1307 5.580691 TGATAATACACGCACCTTTCTTCAG 59.419 40.000 0.00 0.00 0.00 3.02
1285 1308 5.483811 TGATAATACACGCACCTTTCTTCA 58.516 37.500 0.00 0.00 0.00 3.02
1298 1321 5.116882 GGTGTGGAGGTCTTGATAATACAC 58.883 45.833 0.00 0.00 36.19 2.90
1394 1417 1.492176 AGTTGAGGGATCGATGGCATT 59.508 47.619 0.54 0.00 0.00 3.56
1450 1473 3.068448 TCCGCTATATTTACGTTCCTGCA 59.932 43.478 0.00 0.00 0.00 4.41
1482 1505 9.691362 GGCTAACATGATTAAAAACAAGAGAAA 57.309 29.630 0.00 0.00 0.00 2.52
1496 1519 5.887598 TGTTGCAATAGAGGCTAACATGATT 59.112 36.000 0.59 0.00 31.91 2.57
1669 1692 1.334869 CATTTGCGGCAAGATAGTCCC 59.665 52.381 15.78 0.00 0.00 4.46
1707 1730 1.619827 TCCGGACACATCTTTTACGGT 59.380 47.619 0.00 0.00 40.60 4.83
1709 1732 2.679450 TGTCCGGACACATCTTTTACG 58.321 47.619 33.23 0.00 36.21 3.18
1725 1748 1.448013 GGGCTAGCGACTGTTGTCC 60.448 63.158 9.00 0.00 39.94 4.02
1766 1789 4.088823 TGGCAAAACAAAAATGCACAAC 57.911 36.364 0.00 0.00 41.80 3.32
1851 1874 9.692749 CGTTATTTGTGGTATACTCACTGATAT 57.307 33.333 18.99 12.05 36.21 1.63
1915 1945 7.973388 GCACATAGCCATTTATGTTAAAGTTGA 59.027 33.333 0.00 0.00 41.17 3.18
2147 2177 4.184629 GGCTCTTACATTCAGTTGATCGT 58.815 43.478 0.00 0.00 0.00 3.73
2197 2227 9.944663 GCATTATTCAGAATCATACCGTAAAAA 57.055 29.630 0.00 0.00 0.00 1.94
2202 2232 6.017109 GGTTGCATTATTCAGAATCATACCGT 60.017 38.462 0.00 0.00 0.00 4.83
2211 2241 4.320129 CGTGTGTGGTTGCATTATTCAGAA 60.320 41.667 0.00 0.00 0.00 3.02
2272 2302 5.712917 GTCTTCCCGGAAGTCATATAGATCT 59.287 44.000 23.80 0.00 40.24 2.75
2354 2384 8.267183 TCAGAATTTCATAGGACAAATCTGCTA 58.733 33.333 0.00 0.00 0.00 3.49
2432 2462 3.395639 CGGGCTCCTGCGTAAATAATTA 58.604 45.455 0.00 0.00 40.82 1.40
2444 2474 1.837051 TACCTATGGCGGGCTCCTG 60.837 63.158 2.38 0.00 0.00 3.86
2463 2493 4.703379 AAGGCCTCTATTTCTCTCATGG 57.297 45.455 5.23 0.00 0.00 3.66
2498 2528 0.979665 AGTGTCACCACCTCTGATGG 59.020 55.000 0.00 0.00 42.88 3.51
2561 2591 3.686726 GTGAGGCCTGTCTTGATAAACAG 59.313 47.826 12.00 0.00 42.04 3.16
2584 2614 1.737793 GATGCCGGAAACCAGTACTTG 59.262 52.381 5.05 0.00 0.00 3.16
2601 2631 1.293924 GTTCTGTGGCATCCTCGATG 58.706 55.000 0.00 0.00 42.37 3.84
2616 2646 3.003763 GCCAGTCCTCCCCGTTCT 61.004 66.667 0.00 0.00 0.00 3.01
2644 2674 1.293924 GGTTCAGCCTGATCATGTCG 58.706 55.000 0.00 0.00 0.00 4.35
2672 2702 1.202604 TCGGTTGGAGGTGAAGACAAC 60.203 52.381 0.00 0.00 41.71 3.32
2686 2716 3.187227 CACTTGACTCCTTGAATCGGTTG 59.813 47.826 0.00 0.00 0.00 3.77
2719 2749 6.340962 TCGACCATATAGTTCCATTGGTAG 57.659 41.667 1.86 0.00 40.67 3.18
2837 2867 7.397221 ACATCACCATCTTTGATAAGAGACAA 58.603 34.615 0.00 0.00 43.33 3.18
2850 2880 2.505407 TCCATTCCGACATCACCATCTT 59.495 45.455 0.00 0.00 0.00 2.40
2860 2890 2.957060 ACGAGAGTCCATTCCGACA 58.043 52.632 0.00 0.00 44.19 4.35
2972 3002 2.892374 CGAGTGCTCCATACATGTTGA 58.108 47.619 2.30 0.00 0.00 3.18
3091 3124 1.625315 AGCATGTCCTACTGAGTTGCA 59.375 47.619 7.35 0.00 35.49 4.08
3092 3125 2.005451 CAGCATGTCCTACTGAGTTGC 58.995 52.381 0.00 0.00 34.00 4.17
3093 3126 2.234661 TCCAGCATGTCCTACTGAGTTG 59.765 50.000 0.00 0.00 33.10 3.16
3112 3150 5.819901 ACTTCGATCTGGATTTCAAGATTCC 59.180 40.000 0.00 0.00 0.00 3.01
3127 3165 5.661458 ACCAACGAATCATTACTTCGATCT 58.339 37.500 11.87 0.00 46.36 2.75
3130 3168 4.390603 CCAACCAACGAATCATTACTTCGA 59.609 41.667 11.87 0.00 46.36 3.71
3132 3170 5.622770 ACCAACCAACGAATCATTACTTC 57.377 39.130 0.00 0.00 0.00 3.01
3133 3171 5.768317 CAACCAACCAACGAATCATTACTT 58.232 37.500 0.00 0.00 0.00 2.24
3134 3172 4.320935 GCAACCAACCAACGAATCATTACT 60.321 41.667 0.00 0.00 0.00 2.24
3135 3173 3.917985 GCAACCAACCAACGAATCATTAC 59.082 43.478 0.00 0.00 0.00 1.89
3252 3291 2.847234 TGGACTTGTCCACCCGCT 60.847 61.111 17.57 0.00 34.33 5.52
3286 3325 2.222027 AGAACAAGCCACGAAGGAAAG 58.778 47.619 2.86 0.00 41.22 2.62
3331 3370 4.072131 TCATTTCTACAACAGAACAGCCC 58.928 43.478 0.00 0.00 43.09 5.19
3341 3380 7.321271 CACGACTTGTCATTTCATTTCTACAAC 59.679 37.037 0.00 0.00 0.00 3.32
3378 3465 3.213206 TGACTGCACCATTTCTGAACT 57.787 42.857 0.00 0.00 0.00 3.01
3394 3481 5.892348 ACCCCAATGTAGAGAAATTTGACT 58.108 37.500 0.00 0.00 0.00 3.41
3426 3513 8.712285 ATACGTACAACAGTGCAGTTAATAAT 57.288 30.769 0.00 0.00 0.00 1.28
3432 3519 3.987868 CAGATACGTACAACAGTGCAGTT 59.012 43.478 0.00 0.00 0.00 3.16
3441 3537 3.555956 CCTGGATTGCAGATACGTACAAC 59.444 47.826 6.77 0.00 0.00 3.32
3499 3648 0.179124 GAGACTCGAGTGGTGCATCC 60.179 60.000 25.58 5.59 0.00 3.51
3610 3759 9.104126 CGAACGGCTATATATCTAATTGATACG 57.896 37.037 0.00 0.00 40.12 3.06
3615 3764 9.175060 CTCATCGAACGGCTATATATCTAATTG 57.825 37.037 0.00 0.00 0.00 2.32
3634 3783 4.274147 GGCTCCTAAGGATATCTCATCGA 58.726 47.826 2.05 0.00 0.00 3.59
3849 3998 1.030457 GAAGTAGATCGGGCGGAAGA 58.970 55.000 0.00 0.00 0.00 2.87
3859 4008 1.201343 GCGTGAAGCGGAAGTAGATC 58.799 55.000 0.00 0.00 41.69 2.75
3953 4102 1.722011 CAAACACGATTCCTAGCCGT 58.278 50.000 0.00 0.00 36.95 5.68
3981 4130 9.575783 TTTTTACATTCCAAACAGTTAAGTCAC 57.424 29.630 0.00 0.00 0.00 3.67
4022 4171 0.105964 ACTGCAAGCCAACTCGTACA 59.894 50.000 0.00 0.00 37.60 2.90
4049 4198 2.223994 GCTAATCCTAACTCGGACACCC 60.224 54.545 0.00 0.00 35.52 4.61
4109 4258 8.611051 AACTCTTGTAAGTCCACTTCCTATAT 57.389 34.615 0.00 0.00 37.40 0.86
4111 4260 6.497259 TGAACTCTTGTAAGTCCACTTCCTAT 59.503 38.462 0.00 0.00 37.40 2.57
4118 4267 3.714391 ACGTGAACTCTTGTAAGTCCAC 58.286 45.455 0.00 0.00 0.00 4.02
4151 4300 1.270571 TGCTCCTTATTGCACACACGA 60.271 47.619 0.00 0.00 33.94 4.35
4222 4371 0.178975 AATTTTGTCCCGGGTGAGCA 60.179 50.000 22.86 12.78 0.00 4.26
4223 4372 0.243636 CAATTTTGTCCCGGGTGAGC 59.756 55.000 22.86 10.16 0.00 4.26
4280 4429 1.006102 GGCCCCATAGATCGTCGTG 60.006 63.158 0.00 0.00 0.00 4.35
4286 4435 1.488393 GGCTAGATGGCCCCATAGATC 59.512 57.143 0.00 0.00 45.92 2.75
4312 4461 1.132453 GCATTCCTTTAGCGGAACCAC 59.868 52.381 0.00 0.00 45.24 4.16


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

AutoCloner maintained by Alex Coulton.