Multiple sequence alignment - TraesCS1A01G093500

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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 TraesCS1A01G093500 chr1A 100.000 3183 0 0 1 3183 86606325 86609507 0.000000e+00 5879.0
1 TraesCS1A01G093500 chr1A 83.473 478 51 11 2482 2944 85841298 85841762 1.370000e-113 420.0
2 TraesCS1A01G093500 chr1A 84.314 357 32 6 302 658 85910901 85911233 8.510000e-86 327.0
3 TraesCS1A01G093500 chr1D 93.152 2395 104 19 282 2642 90580403 90582771 0.000000e+00 3459.0
4 TraesCS1A01G093500 chr1D 84.917 484 46 10 2482 2950 89561037 89561508 6.220000e-127 464.0
5 TraesCS1A01G093500 chr1D 89.972 359 34 2 301 658 89982948 89983305 2.240000e-126 462.0
6 TraesCS1A01G093500 chr1D 94.352 301 12 5 1 296 90578342 90578642 1.040000e-124 457.0
7 TraesCS1A01G093500 chr1D 96.023 176 6 1 2779 2953 90628539 90628714 5.200000e-73 285.0
8 TraesCS1A01G093500 chr1D 88.889 198 22 0 1686 1883 89601986 89602183 8.820000e-61 244.0
9 TraesCS1A01G093500 chr1D 96.825 63 1 1 2680 2741 90628478 90628540 1.560000e-18 104.0
10 TraesCS1A01G093500 chr1D 97.436 39 0 1 2635 2672 90623372 90623410 7.370000e-07 65.8
11 TraesCS1A01G093500 chr1B 92.316 1757 95 13 690 2440 145348634 145350356 0.000000e+00 2460.0
12 TraesCS1A01G093500 chr1B 92.786 499 23 4 193 688 145348025 145348513 0.000000e+00 710.0
13 TraesCS1A01G093500 chr1B 87.285 582 37 17 2448 3015 145350418 145350976 5.790000e-177 630.0
14 TraesCS1A01G093500 chr1B 88.430 363 41 1 297 658 143446629 143446267 1.360000e-118 436.0
15 TraesCS1A01G093500 chr1B 82.731 498 54 14 2476 2958 143041245 143040765 6.350000e-112 414.0
16 TraesCS1A01G093500 chr1B 82.090 469 57 12 2482 2934 143053649 143053192 3.000000e-100 375.0
17 TraesCS1A01G093500 chr1B 78.392 597 103 16 1685 2259 143451448 143450856 6.490000e-97 364.0
18 TraesCS1A01G093500 chr1B 92.713 247 16 2 338 583 143110641 143110396 3.910000e-94 355.0
19 TraesCS1A01G093500 chr1B 95.567 203 8 1 1 202 145346220 145346422 1.100000e-84 324.0
20 TraesCS1A01G093500 chr1B 79.287 449 60 19 2484 2914 143111726 143111293 1.870000e-72 283.0
21 TraesCS1A01G093500 chr5A 99.405 168 1 0 3016 3183 548718526 548718693 3.990000e-79 305.0
22 TraesCS1A01G093500 chr5A 98.171 164 2 1 3020 3183 27524666 27524504 5.200000e-73 285.0
23 TraesCS1A01G093500 chr7A 98.171 164 2 1 3020 3183 692301353 692301191 5.200000e-73 285.0
24 TraesCS1A01G093500 chr7A 82.833 233 32 6 2 231 287885490 287885263 5.380000e-48 202.0
25 TraesCS1A01G093500 chr4B 98.171 164 2 1 3020 3183 157179780 157179942 5.200000e-73 285.0
26 TraesCS1A01G093500 chr3A 98.171 164 2 1 3020 3183 744467043 744466881 5.200000e-73 285.0
27 TraesCS1A01G093500 chr2B 98.171 164 2 1 3020 3183 632211826 632211664 5.200000e-73 285.0
28 TraesCS1A01G093500 chr2B 82.403 233 34 5 2 233 202289269 202289043 2.500000e-46 196.0
29 TraesCS1A01G093500 chr6B 97.024 168 5 0 3016 3183 11015830 11015997 1.870000e-72 283.0
30 TraesCS1A01G093500 chr6A 97.024 168 5 0 3016 3183 614159396 614159563 1.870000e-72 283.0
31 TraesCS1A01G093500 chr6A 83.830 235 31 4 1 228 591903466 591903232 1.920000e-52 217.0
32 TraesCS1A01G093500 chr3B 96.970 165 5 0 3019 3183 30296154 30295990 8.700000e-71 278.0
33 TraesCS1A01G093500 chr3B 83.556 225 30 7 1 220 631510981 631511203 1.500000e-48 204.0
34 TraesCS1A01G093500 chr5D 84.848 231 25 8 1 228 527145586 527145809 1.150000e-54 224.0
35 TraesCS1A01G093500 chr5D 83.406 229 26 11 10 233 487497620 487497399 5.380000e-48 202.0
36 TraesCS1A01G093500 chr3D 84.483 232 31 4 1 228 474992802 474993032 1.150000e-54 224.0


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 TraesCS1A01G093500 chr1A 86606325 86609507 3182 False 5879 5879 100.0000 1 3183 1 chr1A.!!$F3 3182
1 TraesCS1A01G093500 chr1D 90578342 90582771 4429 False 1958 3459 93.7520 1 2642 2 chr1D.!!$F5 2641
2 TraesCS1A01G093500 chr1B 145346220 145350976 4756 False 1031 2460 91.9885 1 3015 4 chr1B.!!$F1 3014
3 TraesCS1A01G093500 chr1B 143450856 143451448 592 True 364 364 78.3920 1685 2259 1 chr1B.!!$R4 574
4 TraesCS1A01G093500 chr1B 143110396 143111726 1330 True 319 355 86.0000 338 2914 2 chr1B.!!$R5 2576

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
255 1873 0.107165 AAGGCCTATGCGGTTCTTCC 60.107 55.0 5.16 0.0 38.85 3.46 F
1780 5308 0.250513 AGCTCTTCGGTTCCATGTCC 59.749 55.0 0.00 0.0 0.00 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1867 5395 0.107312 TAGACTCGTCTTCTCCGGGG 60.107 60.000 0.00 0.00 40.93 5.73 R
2790 6400 1.357690 CAGCAGCGCATAACCATGG 59.642 57.895 11.19 11.19 32.36 3.66 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
43 44 4.537751 TCGGGTGGCCAAATTATAATTGA 58.462 39.130 7.24 0.00 0.00 2.57
74 75 9.635520 CTCAATTGAATGTGAGCTCTTTAAAAT 57.364 29.630 16.19 5.42 35.23 1.82
158 163 3.254060 ACCTGATCAAAATCGAGTGACG 58.746 45.455 0.00 0.00 44.09 4.35
171 176 4.490743 TCGAGTGACGCAATCTTAATTGA 58.509 39.130 2.44 0.00 43.37 2.57
206 1823 6.539173 TGAATGTGGGCTCTTTAAAACTAGA 58.461 36.000 0.00 0.00 0.00 2.43
207 1824 7.001674 TGAATGTGGGCTCTTTAAAACTAGAA 58.998 34.615 0.00 0.00 0.00 2.10
246 1864 6.099557 AGAGGATATCATAGAAAGGCCTATGC 59.900 42.308 5.16 0.00 43.41 3.14
255 1873 0.107165 AAGGCCTATGCGGTTCTTCC 60.107 55.000 5.16 0.00 38.85 3.46
260 1878 2.939640 GCCTATGCGGTTCTTCCAGAAA 60.940 50.000 0.00 0.00 35.75 2.52
306 3699 5.139727 TGACAGGATTGGAAATTGTTGTCT 58.860 37.500 0.00 0.00 35.82 3.41
381 3774 1.405526 GCAGAATTCCTACGGCAGACA 60.406 52.381 0.65 0.00 0.00 3.41
804 4319 2.994186 AGTCGTTGGTACTGTTGGTT 57.006 45.000 0.00 0.00 0.00 3.67
842 4358 1.065998 ACAAAGCCGCCGGTTCTATTA 60.066 47.619 4.45 0.00 0.00 0.98
892 4408 1.621301 CGTGGAGCAAGTCTCGCAAG 61.621 60.000 0.00 0.00 42.82 4.01
893 4409 1.669115 TGGAGCAAGTCTCGCAAGC 60.669 57.895 0.00 0.00 42.82 4.01
894 4410 2.734673 GGAGCAAGTCTCGCAAGCG 61.735 63.158 8.36 8.36 42.82 4.68
895 4411 3.360060 GAGCAAGTCTCGCAAGCGC 62.360 63.158 9.97 0.00 39.59 5.92
896 4412 4.451652 GCAAGTCTCGCAAGCGCC 62.452 66.667 9.97 0.16 39.59 6.53
897 4413 4.139420 CAAGTCTCGCAAGCGCCG 62.139 66.667 9.97 0.00 39.59 6.46
904 4420 4.681643 CGCAAGCGCCGCAAGAAA 62.682 61.111 13.36 0.00 43.02 2.52
905 4421 2.354539 GCAAGCGCCGCAAGAAAA 60.355 55.556 13.36 0.00 43.02 2.29
906 4422 1.948635 GCAAGCGCCGCAAGAAAAA 60.949 52.632 13.36 0.00 43.02 1.94
1128 4644 7.889469 AGTTTGTGATTACTGATGCTTCAAAT 58.111 30.769 3.65 1.88 0.00 2.32
1129 4645 8.362639 AGTTTGTGATTACTGATGCTTCAAATT 58.637 29.630 3.65 0.00 0.00 1.82
1130 4646 8.981647 GTTTGTGATTACTGATGCTTCAAATTT 58.018 29.630 3.65 0.00 0.00 1.82
1131 4647 8.523523 TTGTGATTACTGATGCTTCAAATTTG 57.476 30.769 12.15 12.15 0.00 2.32
1187 4708 4.457496 AGGCGCGGATCACCACTG 62.457 66.667 8.83 0.00 35.59 3.66
1238 4759 1.801178 ACTACGAGCAAAGCAAGAAGC 59.199 47.619 0.00 0.00 46.19 3.86
1426 4954 4.166011 GTCATTGGCAGCGACGGC 62.166 66.667 0.00 0.00 40.37 5.68
1532 5060 0.811281 GAATCGGTTTGCCAAGGGAG 59.189 55.000 0.00 0.00 34.09 4.30
1636 5164 2.365617 TCTTGTCCCGCCTTCAGATATC 59.634 50.000 0.00 0.00 0.00 1.63
1640 5168 2.351777 CCGCCTTCAGATATCGGGA 58.648 57.895 2.90 0.00 36.73 5.14
1699 5227 3.686241 CAGATGTGTCATTCATCGTTGGT 59.314 43.478 0.00 0.00 44.20 3.67
1780 5308 0.250513 AGCTCTTCGGTTCCATGTCC 59.749 55.000 0.00 0.00 0.00 4.02
1801 5329 3.470709 CGAGGCTACAATGTCATCCATT 58.529 45.455 0.00 0.00 44.73 3.16
1804 5332 5.509670 CGAGGCTACAATGTCATCCATTAGA 60.510 44.000 0.00 0.00 41.93 2.10
1805 5333 6.445451 AGGCTACAATGTCATCCATTAGAT 57.555 37.500 0.00 0.00 41.93 1.98
1849 5377 6.173427 ACATTCAAAGTTATGCTTGGGTTT 57.827 33.333 0.00 0.00 37.52 3.27
1939 5467 1.801913 CGCCGCGGCTGATCTATAC 60.802 63.158 43.60 15.06 39.32 1.47
1963 5491 3.557595 CACTTGATCGGCTGAAGGTTATC 59.442 47.826 0.00 0.00 0.00 1.75
2027 5555 2.487762 GCAACTATGTTAGCTTGTGCCA 59.512 45.455 0.00 0.00 40.80 4.92
2095 5623 3.053455 CGCGGTGGAAGCAAATTTTAAA 58.947 40.909 0.00 0.00 34.19 1.52
2122 5650 3.949754 CCATGTTCACTGATGGTTATGCT 59.050 43.478 0.00 0.00 35.33 3.79
2216 5761 2.778299 TCAGGCGTTCAAGCATAGTTT 58.222 42.857 0.00 0.00 39.27 2.66
2262 5808 4.081476 TGAGTGGTATCTGACATCTTGTGG 60.081 45.833 0.00 0.00 0.00 4.17
2264 5810 4.718774 AGTGGTATCTGACATCTTGTGGAT 59.281 41.667 0.00 0.00 34.51 3.41
2283 5829 8.565896 TGTGGATCATATAATCTGTATTTGCC 57.434 34.615 0.00 0.00 0.00 4.52
2319 5865 7.526192 GCCTGGAAGCTAGATATTGTAGAATCA 60.526 40.741 0.00 0.00 0.00 2.57
2424 5970 8.970691 TCTCTGTTTTTCTCTTTGTTCTTTTG 57.029 30.769 0.00 0.00 0.00 2.44
2440 5986 4.724399 TCTTTTGGTACATGTGGTGTCAT 58.276 39.130 9.11 0.00 42.29 3.06
2442 5988 3.778954 TTGGTACATGTGGTGTCATGA 57.221 42.857 9.11 0.00 45.41 3.07
2443 5989 3.052455 TGGTACATGTGGTGTCATGAC 57.948 47.619 19.27 19.27 45.41 3.06
2445 5991 3.072330 TGGTACATGTGGTGTCATGACTT 59.928 43.478 25.55 2.35 45.41 3.01
2446 5992 4.072131 GGTACATGTGGTGTCATGACTTT 58.928 43.478 25.55 1.19 45.41 2.66
2495 6103 2.146342 CAATACGTCATCCATCAGGCC 58.854 52.381 0.00 0.00 33.74 5.19
2539 6147 9.853555 CAACATTATGCTTAGGTTCATTTACAA 57.146 29.630 0.00 0.00 0.00 2.41
2550 6160 5.036737 GGTTCATTTACAAAGATGATGCCG 58.963 41.667 0.00 0.00 32.73 5.69
2672 6282 6.683974 CCAGAAGTTATGGGAAAGTGTATG 57.316 41.667 8.76 0.00 33.94 2.39
2673 6283 6.180472 CCAGAAGTTATGGGAAAGTGTATGT 58.820 40.000 8.76 0.00 33.94 2.29
2674 6284 7.335627 CCAGAAGTTATGGGAAAGTGTATGTA 58.664 38.462 8.76 0.00 33.94 2.29
2675 6285 7.495934 CCAGAAGTTATGGGAAAGTGTATGTAG 59.504 40.741 8.76 0.00 33.94 2.74
2676 6286 8.258007 CAGAAGTTATGGGAAAGTGTATGTAGA 58.742 37.037 0.00 0.00 0.00 2.59
2677 6287 8.822805 AGAAGTTATGGGAAAGTGTATGTAGAA 58.177 33.333 0.00 0.00 0.00 2.10
2678 6288 9.614792 GAAGTTATGGGAAAGTGTATGTAGAAT 57.385 33.333 0.00 0.00 0.00 2.40
2706 6316 3.923017 ACAGTTGCAACAATCTTAGGC 57.077 42.857 30.11 0.04 0.00 3.93
2716 6326 6.086871 GCAACAATCTTAGGCTGAAACTTAC 58.913 40.000 0.00 0.00 0.00 2.34
2722 6332 5.925509 TCTTAGGCTGAAACTTACAACTGT 58.074 37.500 0.00 0.00 0.00 3.55
2738 6348 4.487714 AACTGTCAGGAGTTGAAGAACA 57.512 40.909 4.53 0.00 37.61 3.18
2755 6365 5.841957 AGAACAAGTGCATTGACTTCTTT 57.158 34.783 13.53 0.00 41.83 2.52
2756 6366 5.585390 AGAACAAGTGCATTGACTTCTTTG 58.415 37.500 13.53 0.00 41.83 2.77
2790 6400 1.815003 CTTCAAGGAGGCCATGTTCAC 59.185 52.381 5.01 0.00 0.00 3.18
2809 6420 1.357690 CATGGTTATGCGCTGCTGG 59.642 57.895 9.73 0.00 0.00 4.85
2817 6430 0.679002 ATGCGCTGCTGGTTTCTGAT 60.679 50.000 9.73 0.00 0.00 2.90
2832 6445 8.190326 TGGTTTCTGATATTACCATCGACTAT 57.810 34.615 0.00 0.00 35.82 2.12
2838 6451 7.176690 TCTGATATTACCATCGACTATTGCTGA 59.823 37.037 0.00 0.00 0.00 4.26
2839 6452 7.315890 TGATATTACCATCGACTATTGCTGAG 58.684 38.462 0.00 0.00 0.00 3.35
2840 6453 2.231215 ACCATCGACTATTGCTGAGC 57.769 50.000 0.00 0.00 0.00 4.26
2841 6454 1.759445 ACCATCGACTATTGCTGAGCT 59.241 47.619 5.83 0.00 0.00 4.09
2842 6455 2.223923 ACCATCGACTATTGCTGAGCTC 60.224 50.000 6.82 6.82 0.00 4.09
2843 6456 2.223900 CCATCGACTATTGCTGAGCTCA 60.224 50.000 17.19 17.19 0.00 4.26
2844 6457 3.451526 CATCGACTATTGCTGAGCTCAA 58.548 45.455 18.85 3.02 0.00 3.02
2845 6458 3.592898 TCGACTATTGCTGAGCTCAAA 57.407 42.857 18.85 10.69 0.00 2.69
2846 6459 3.925379 TCGACTATTGCTGAGCTCAAAA 58.075 40.909 18.85 15.22 0.00 2.44
2847 6460 3.928992 TCGACTATTGCTGAGCTCAAAAG 59.071 43.478 18.85 12.37 0.00 2.27
2848 6461 3.063180 CGACTATTGCTGAGCTCAAAAGG 59.937 47.826 18.85 7.12 0.00 3.11
2849 6462 4.256920 GACTATTGCTGAGCTCAAAAGGA 58.743 43.478 18.85 4.57 0.00 3.36
2866 6479 8.388656 TCAAAAGGAGAGTTAGGGTATAATGT 57.611 34.615 0.00 0.00 0.00 2.71
2871 6484 9.810870 AAGGAGAGTTAGGGTATAATGTAGTAG 57.189 37.037 0.00 0.00 0.00 2.57
2872 6485 8.957926 AGGAGAGTTAGGGTATAATGTAGTAGT 58.042 37.037 0.00 0.00 0.00 2.73
2953 6566 3.260475 TGGAATTGGTGAGTGGTATCG 57.740 47.619 0.00 0.00 0.00 2.92
2966 6580 3.117016 AGTGGTATCGGGTAAGGTATCCA 60.117 47.826 0.00 0.00 0.00 3.41
2975 6589 4.686122 CGGGTAAGGTATCCAGCATCTTTT 60.686 45.833 0.00 0.00 0.00 2.27
2978 6592 5.297029 GGTAAGGTATCCAGCATCTTTTCAC 59.703 44.000 0.00 0.00 0.00 3.18
2979 6593 4.851639 AGGTATCCAGCATCTTTTCACT 57.148 40.909 0.00 0.00 0.00 3.41
2993 6607 7.095899 GCATCTTTTCACTGATTTTGTTCTTCC 60.096 37.037 0.00 0.00 0.00 3.46
3022 6636 3.590824 AAAAATGGAGCCGGAGCG 58.409 55.556 5.05 0.00 46.67 5.03
3023 6637 1.002624 AAAAATGGAGCCGGAGCGA 60.003 52.632 5.05 0.00 46.67 4.93
3024 6638 1.026718 AAAAATGGAGCCGGAGCGAG 61.027 55.000 5.05 0.00 46.67 5.03
3025 6639 2.876368 AAAATGGAGCCGGAGCGAGG 62.876 60.000 5.05 0.00 46.67 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 4.660168 AGCTCACATTCAATTGAGGTCTT 58.340 39.130 8.41 0.00 45.26 3.01
171 176 2.827921 GCCCACATTCAATTGAGGTCTT 59.172 45.455 8.41 0.00 0.00 3.01
255 1873 4.443394 GCAGCTCAAACTGTTTCATTTCTG 59.557 41.667 2.13 7.70 39.96 3.02
260 1878 3.633525 TCAAGCAGCTCAAACTGTTTCAT 59.366 39.130 2.13 0.00 38.82 2.57
306 3699 5.497464 TCACCATGACATTTCCTAGACAA 57.503 39.130 0.00 0.00 0.00 3.18
381 3774 3.144506 CAGGTGACACTTGCTCTGATTT 58.855 45.455 4.61 0.00 0.00 2.17
804 4319 1.202592 TGTTCGTGCAGGCTTCTAACA 60.203 47.619 0.35 4.11 0.00 2.41
903 4419 1.282875 GGCGCTTGCGAGACTTTTT 59.717 52.632 19.55 0.00 40.46 1.94
904 4420 2.946762 GGCGCTTGCGAGACTTTT 59.053 55.556 19.55 0.00 40.46 2.27
905 4421 3.414700 CGGCGCTTGCGAGACTTT 61.415 61.111 19.55 0.00 40.46 2.66
997 4513 4.410400 AGGTGGGCGCTTACTGGC 62.410 66.667 7.64 0.00 0.00 4.85
1128 4644 0.179059 TCGCTGGCTCACTGAACAAA 60.179 50.000 0.00 0.00 0.00 2.83
1129 4645 0.601046 CTCGCTGGCTCACTGAACAA 60.601 55.000 0.00 0.00 0.00 2.83
1130 4646 1.005748 CTCGCTGGCTCACTGAACA 60.006 57.895 0.00 0.00 0.00 3.18
1131 4647 2.386660 GCTCGCTGGCTCACTGAAC 61.387 63.158 0.00 0.00 0.00 3.18
1187 4708 1.528129 CTGAAGGCTGAAGAACCCAC 58.472 55.000 0.00 0.00 0.00 4.61
1333 4854 1.568504 TGGAGACATACTCGCCCTTT 58.431 50.000 0.00 0.00 45.76 3.11
1426 4954 2.203056 TCCGGCGCAGATGGATTG 60.203 61.111 10.83 0.00 0.00 2.67
1532 5060 8.462016 TGCTAAGAAAATTTTCTCCAGAATAGC 58.538 33.333 30.98 30.98 46.22 2.97
1636 5164 2.202932 CGGCCAAGATGAGTCCCG 60.203 66.667 2.24 0.00 0.00 5.14
1640 5168 2.270205 CAGGCGGCCAAGATGAGT 59.730 61.111 23.09 0.00 0.00 3.41
1780 5308 2.602257 TGGATGACATTGTAGCCTCG 57.398 50.000 0.00 0.00 0.00 4.63
1801 5329 1.277326 GCGTGATGTCGTGCAATCTA 58.723 50.000 0.00 0.00 0.00 1.98
1804 5332 1.375908 AGGCGTGATGTCGTGCAAT 60.376 52.632 0.00 0.00 0.00 3.56
1805 5333 2.030412 AGGCGTGATGTCGTGCAA 59.970 55.556 0.00 0.00 0.00 4.08
1867 5395 0.107312 TAGACTCGTCTTCTCCGGGG 60.107 60.000 0.00 0.00 40.93 5.73
1939 5467 1.699656 CCTTCAGCCGATCAAGTGCG 61.700 60.000 0.00 0.00 0.00 5.34
1963 5491 2.787473 TCCATAACTTCTGGGCACAG 57.213 50.000 10.61 10.61 46.30 3.66
2027 5555 8.934023 TTCAATTCCTGACAGTTATAGGTTTT 57.066 30.769 0.93 0.00 32.21 2.43
2095 5623 1.064906 CCATCAGTGAACATGGCCTCT 60.065 52.381 3.32 0.00 33.37 3.69
2122 5650 6.015856 TCGATGGGAATTTTAGAAGCAACAAA 60.016 34.615 0.00 0.00 0.00 2.83
2216 5761 6.380274 TCACCAAAACCAAAACACCATACTAA 59.620 34.615 0.00 0.00 0.00 2.24
2262 5808 7.981789 TCCTCGGCAAATACAGATTATATGATC 59.018 37.037 0.00 0.00 0.00 2.92
2264 5810 7.239763 TCCTCGGCAAATACAGATTATATGA 57.760 36.000 0.00 0.00 0.00 2.15
2283 5829 2.364317 TTCCAGGCTCCCTCCTCG 60.364 66.667 0.00 0.00 33.25 4.63
2319 5865 2.949447 AGCCCAACACTTCAAGAACAT 58.051 42.857 0.00 0.00 0.00 2.71
2325 5871 2.360801 GCAACTAAGCCCAACACTTCAA 59.639 45.455 0.00 0.00 0.00 2.69
2424 5970 3.334583 AGTCATGACACCACATGTACC 57.665 47.619 27.02 0.00 43.56 3.34
2440 5986 7.523052 GCACCATGGAGTTAACATTAAAAGTCA 60.523 37.037 21.47 0.00 0.00 3.41
2441 5987 6.806739 GCACCATGGAGTTAACATTAAAAGTC 59.193 38.462 21.47 0.00 0.00 3.01
2442 5988 6.493458 AGCACCATGGAGTTAACATTAAAAGT 59.507 34.615 21.47 0.00 0.00 2.66
2443 5989 6.924111 AGCACCATGGAGTTAACATTAAAAG 58.076 36.000 21.47 0.00 0.00 2.27
2445 5991 9.860650 ATATAGCACCATGGAGTTAACATTAAA 57.139 29.630 21.47 0.00 0.00 1.52
2446 5992 9.283768 CATATAGCACCATGGAGTTAACATTAA 57.716 33.333 21.47 0.00 0.00 1.40
2495 6103 0.943673 TGCAGGTTTGATGTCGTGTG 59.056 50.000 0.00 0.00 0.00 3.82
2539 6147 2.369394 GTTTTCTCCCGGCATCATCTT 58.631 47.619 0.00 0.00 0.00 2.40
2550 6160 1.002087 TCCTGAAGCTCGTTTTCTCCC 59.998 52.381 0.00 0.00 0.00 4.30
2586 6196 2.544694 CGCAGCGAGTAGATCCTGAAAT 60.545 50.000 9.98 0.00 31.47 2.17
2667 6277 9.529325 GCAACTGTATCTACAATTCTACATACA 57.471 33.333 0.00 0.00 35.50 2.29
2668 6278 9.529325 TGCAACTGTATCTACAATTCTACATAC 57.471 33.333 0.00 0.00 35.50 2.39
2670 6280 8.883731 GTTGCAACTGTATCTACAATTCTACAT 58.116 33.333 22.36 0.00 35.50 2.29
2671 6281 7.875554 TGTTGCAACTGTATCTACAATTCTACA 59.124 33.333 28.61 0.64 35.50 2.74
2672 6282 8.251750 TGTTGCAACTGTATCTACAATTCTAC 57.748 34.615 28.61 0.00 35.50 2.59
2673 6283 8.840833 TTGTTGCAACTGTATCTACAATTCTA 57.159 30.769 28.61 0.69 35.50 2.10
2674 6284 7.744087 TTGTTGCAACTGTATCTACAATTCT 57.256 32.000 28.61 0.00 35.50 2.40
2675 6285 8.454106 AGATTGTTGCAACTGTATCTACAATTC 58.546 33.333 28.61 10.95 35.55 2.17
2676 6286 8.340618 AGATTGTTGCAACTGTATCTACAATT 57.659 30.769 28.61 10.04 35.55 2.32
2677 6287 7.928307 AGATTGTTGCAACTGTATCTACAAT 57.072 32.000 28.61 17.50 37.42 2.71
2678 6288 7.744087 AAGATTGTTGCAACTGTATCTACAA 57.256 32.000 28.61 13.54 35.50 2.41
2706 6316 5.360591 ACTCCTGACAGTTGTAAGTTTCAG 58.639 41.667 0.93 8.10 36.42 3.02
2722 6332 3.206150 GCACTTGTTCTTCAACTCCTGA 58.794 45.455 0.00 0.00 33.17 3.86
2738 6348 5.104374 CACAACAAAGAAGTCAATGCACTT 58.896 37.500 0.00 0.00 39.43 3.16
2755 6365 3.287222 CTTGAAGTTTCCCTCCACAACA 58.713 45.455 0.00 0.00 0.00 3.33
2756 6366 2.623416 CCTTGAAGTTTCCCTCCACAAC 59.377 50.000 0.00 0.00 0.00 3.32
2790 6400 1.357690 CAGCAGCGCATAACCATGG 59.642 57.895 11.19 11.19 32.36 3.66
2809 6420 8.436200 GCAATAGTCGATGGTAATATCAGAAAC 58.564 37.037 0.00 0.00 0.00 2.78
2817 6430 5.243954 AGCTCAGCAATAGTCGATGGTAATA 59.756 40.000 0.00 0.00 0.00 0.98
2832 6445 2.105477 ACTCTCCTTTTGAGCTCAGCAA 59.895 45.455 17.43 12.75 41.18 3.91
2838 6451 3.252351 ACCCTAACTCTCCTTTTGAGCT 58.748 45.455 0.00 0.00 41.18 4.09
2839 6452 3.704800 ACCCTAACTCTCCTTTTGAGC 57.295 47.619 0.00 0.00 41.18 4.26
2840 6453 8.487028 ACATTATACCCTAACTCTCCTTTTGAG 58.513 37.037 0.00 0.00 42.90 3.02
2841 6454 8.388656 ACATTATACCCTAACTCTCCTTTTGA 57.611 34.615 0.00 0.00 0.00 2.69
2842 6455 9.765795 CTACATTATACCCTAACTCTCCTTTTG 57.234 37.037 0.00 0.00 0.00 2.44
2843 6456 9.503369 ACTACATTATACCCTAACTCTCCTTTT 57.497 33.333 0.00 0.00 0.00 2.27
2845 6458 9.810870 CTACTACATTATACCCTAACTCTCCTT 57.189 37.037 0.00 0.00 0.00 3.36
2846 6459 8.957926 ACTACTACATTATACCCTAACTCTCCT 58.042 37.037 0.00 0.00 0.00 3.69
2847 6460 9.012161 CACTACTACATTATACCCTAACTCTCC 57.988 40.741 0.00 0.00 0.00 3.71
2848 6461 9.790344 TCACTACTACATTATACCCTAACTCTC 57.210 37.037 0.00 0.00 0.00 3.20
2849 6462 9.796180 CTCACTACTACATTATACCCTAACTCT 57.204 37.037 0.00 0.00 0.00 3.24
2866 6479 5.828328 CACCCACAGATGTATCTCACTACTA 59.172 44.000 0.00 0.00 34.22 1.82
2870 6483 3.445008 ACACCCACAGATGTATCTCACT 58.555 45.455 0.00 0.00 34.22 3.41
2871 6484 3.895232 ACACCCACAGATGTATCTCAC 57.105 47.619 0.00 0.00 34.22 3.51
2872 6485 8.170730 ACTATATACACCCACAGATGTATCTCA 58.829 37.037 0.36 0.00 40.40 3.27
2916 6529 6.659242 CCAATTCCAAAATACCACACTAGAGT 59.341 38.462 0.00 0.00 0.00 3.24
2917 6530 6.659242 ACCAATTCCAAAATACCACACTAGAG 59.341 38.462 0.00 0.00 0.00 2.43
2921 6534 5.144100 TCACCAATTCCAAAATACCACACT 58.856 37.500 0.00 0.00 0.00 3.55
2932 6545 3.605634 CGATACCACTCACCAATTCCAA 58.394 45.455 0.00 0.00 0.00 3.53
2953 6566 4.439253 AAAGATGCTGGATACCTTACCC 57.561 45.455 0.00 0.00 0.00 3.69
2966 6580 7.047460 AGAACAAAATCAGTGAAAAGATGCT 57.953 32.000 0.00 0.00 0.00 3.79


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

AutoCloner maintained by Alex Coulton.