Multiple sequence alignment - TraesCS1A01G186300

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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 TraesCS1A01G186300 chr1A 100.000 2899 0 0 1 2899 337656149 337653251 0.000000e+00 5354.0
1 TraesCS1A01G186300 chr1D 90.718 1476 86 26 835 2294 262310429 262311869 0.000000e+00 1919.0
2 TraesCS1A01G186300 chr1D 87.008 839 70 14 3 838 262303055 262303857 0.000000e+00 909.0
3 TraesCS1A01G186300 chr1B 91.070 1243 91 11 835 2067 349512355 349511123 0.000000e+00 1663.0
4 TraesCS1A01G186300 chr1B 91.935 558 44 1 3 559 349541900 349541343 0.000000e+00 780.0
5 TraesCS1A01G186300 chr1B 91.371 197 15 2 643 838 349540022 349539827 4.760000e-68 268.0
6 TraesCS1A01G186300 chr1B 78.475 223 44 4 1191 1411 349569553 349569773 3.010000e-30 143.0
7 TraesCS1A01G186300 chr3A 85.577 520 50 13 2392 2899 481067158 481066652 3.310000e-144 521.0
8 TraesCS1A01G186300 chr3A 81.588 277 39 8 1142 1412 483743346 483743616 4.860000e-53 219.0
9 TraesCS1A01G186300 chr3A 75.460 163 36 4 1636 1796 681321794 681321634 3.100000e-10 76.8
10 TraesCS1A01G186300 chr7A 85.465 516 54 8 2392 2897 157417474 157417978 4.280000e-143 518.0
11 TraesCS1A01G186300 chr6B 85.516 504 59 5 2396 2899 713869833 713869344 5.540000e-142 514.0
12 TraesCS1A01G186300 chr6B 84.600 513 55 12 2396 2899 659392015 659392512 3.360000e-134 488.0
13 TraesCS1A01G186300 chr6B 84.600 513 55 12 2396 2899 659437358 659437855 3.360000e-134 488.0
14 TraesCS1A01G186300 chr6B 84.405 513 55 12 2396 2899 659363042 659363538 5.620000e-132 481.0
15 TraesCS1A01G186300 chr6B 84.646 495 57 7 2407 2899 11312152 11312629 2.610000e-130 475.0
16 TraesCS1A01G186300 chr6B 77.211 294 39 15 2391 2670 511741244 511740965 2.330000e-31 147.0
17 TraesCS1A01G186300 chr4A 85.185 513 52 10 2396 2899 731249477 731249974 3.330000e-139 505.0
18 TraesCS1A01G186300 chr4A 87.234 141 7 5 2396 2527 714951301 714951439 1.800000e-32 150.0
19 TraesCS1A01G186300 chr4A 78.008 241 49 4 1624 1862 66558848 66558610 6.470000e-32 148.0
20 TraesCS1A01G186300 chr7B 84.586 519 58 9 2392 2899 698215414 698214907 2.010000e-136 496.0
21 TraesCS1A01G186300 chr7B 82.911 474 56 12 2435 2899 676206941 676206484 1.250000e-108 403.0
22 TraesCS1A01G186300 chr2D 87.356 435 44 5 2466 2899 643246071 643245647 3.360000e-134 488.0
23 TraesCS1A01G186300 chr2D 80.212 283 53 1 1138 1417 599003754 599003472 2.930000e-50 209.0
24 TraesCS1A01G186300 chr5B 83.170 511 59 15 2398 2899 267874069 267873577 2.650000e-120 442.0
25 TraesCS1A01G186300 chr5B 84.112 428 51 8 2391 2816 710782207 710782619 5.820000e-107 398.0
26 TraesCS1A01G186300 chrUn 82.850 379 41 10 2392 2760 40792137 40791773 4.660000e-83 318.0
27 TraesCS1A01G186300 chr5A 82.781 302 32 7 2402 2694 475515378 475515668 4.800000e-63 252.0
28 TraesCS1A01G186300 chr4D 77.011 261 56 4 1604 1862 384950927 384950669 2.330000e-31 147.0
29 TraesCS1A01G186300 chr4B 77.824 239 49 4 1626 1862 471775549 471775313 8.370000e-31 145.0
30 TraesCS1A01G186300 chr3B 74.324 296 68 7 1522 1813 720182900 720182609 5.070000e-23 119.0


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 TraesCS1A01G186300 chr1A 337653251 337656149 2898 True 5354 5354 100.000 1 2899 1 chr1A.!!$R1 2898
1 TraesCS1A01G186300 chr1D 262310429 262311869 1440 False 1919 1919 90.718 835 2294 1 chr1D.!!$F2 1459
2 TraesCS1A01G186300 chr1D 262303055 262303857 802 False 909 909 87.008 3 838 1 chr1D.!!$F1 835
3 TraesCS1A01G186300 chr1B 349511123 349512355 1232 True 1663 1663 91.070 835 2067 1 chr1B.!!$R1 1232
4 TraesCS1A01G186300 chr1B 349539827 349541900 2073 True 524 780 91.653 3 838 2 chr1B.!!$R2 835
5 TraesCS1A01G186300 chr3A 481066652 481067158 506 True 521 521 85.577 2392 2899 1 chr3A.!!$R1 507
6 TraesCS1A01G186300 chr7A 157417474 157417978 504 False 518 518 85.465 2392 2897 1 chr7A.!!$F1 505
7 TraesCS1A01G186300 chr7B 698214907 698215414 507 True 496 496 84.586 2392 2899 1 chr7B.!!$R2 507

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
601 1904 0.24746 GGAAATGGGAAGTTGCAGGC 59.753 55.0 0.0 0.0 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2386 3707 0.11734 CTCGGGGAGGGAGGGATAAT 59.883 60.0 0.0 0.0 0.0 1.28 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
36 37 4.421033 CGACATAAGCGGAGAATAGCTA 57.579 45.455 0.00 0.00 43.78 3.32
48 49 4.500035 GGAGAATAGCTACAAGGAAGACCG 60.500 50.000 0.00 0.00 41.83 4.79
61 62 2.616842 GGAAGACCGTGTGACAATTTGT 59.383 45.455 0.63 0.63 0.00 2.83
98 99 1.257155 GACACAAACCTTGTCGTCGAC 59.743 52.381 18.51 18.51 43.23 4.20
106 107 1.061711 CCTTGTCGTCGACGTAGGTAG 59.938 57.143 34.40 23.37 40.80 3.18
110 111 3.002791 TGTCGTCGACGTAGGTAGAATT 58.997 45.455 34.40 0.00 40.80 2.17
111 112 3.181517 TGTCGTCGACGTAGGTAGAATTG 60.182 47.826 34.40 4.90 40.80 2.32
133 135 4.405680 TGAGAAGACAAGGAAGACTGAACA 59.594 41.667 0.00 0.00 0.00 3.18
146 148 5.652994 AGACTGAACAGAGGTATGAGAAC 57.347 43.478 8.87 0.00 0.00 3.01
149 152 4.169508 CTGAACAGAGGTATGAGAACACG 58.830 47.826 0.00 0.00 0.00 4.49
155 158 3.006967 AGAGGTATGAGAACACGCAAACT 59.993 43.478 0.00 0.00 0.00 2.66
183 186 4.530857 CGTAGGCGGCCCAGAAGG 62.531 72.222 17.02 0.99 39.47 3.46
267 270 1.531058 CGTCGATGTACTGCACGATGA 60.531 52.381 8.25 0.00 38.58 2.92
269 272 1.200483 CGATGTACTGCACGATGACC 58.800 55.000 0.00 0.00 0.00 4.02
272 275 0.599060 TGTACTGCACGATGACCGAA 59.401 50.000 0.00 0.00 41.76 4.30
307 310 2.700371 TCTTGCCATCGTGGATGAGTAT 59.300 45.455 7.16 0.00 42.09 2.12
469 472 2.557920 AGCAACTTCAGGTCTCCTTG 57.442 50.000 0.00 0.00 0.00 3.61
506 509 1.166129 TCCGTCTCTCTGTTCTTCCG 58.834 55.000 0.00 0.00 0.00 4.30
539 542 3.252944 TGCTGAAATCAATGCGAGAACAA 59.747 39.130 0.00 0.00 0.00 2.83
565 1868 8.422080 CATCGTTTTTGGATGTTTATATAGCG 57.578 34.615 0.00 0.00 37.18 4.26
596 1899 5.179452 TCCTAGAAGGAAATGGGAAGTTG 57.821 43.478 0.00 0.00 42.51 3.16
597 1900 3.696548 CCTAGAAGGAAATGGGAAGTTGC 59.303 47.826 0.00 0.00 37.67 4.17
598 1901 3.243359 AGAAGGAAATGGGAAGTTGCA 57.757 42.857 0.00 0.00 0.00 4.08
599 1902 3.160269 AGAAGGAAATGGGAAGTTGCAG 58.840 45.455 0.00 0.00 0.00 4.41
600 1903 1.928868 AGGAAATGGGAAGTTGCAGG 58.071 50.000 0.00 0.00 0.00 4.85
601 1904 0.247460 GGAAATGGGAAGTTGCAGGC 59.753 55.000 0.00 0.00 0.00 4.85
623 1926 1.221840 CAGCCATGGGAAGCGTACT 59.778 57.895 15.13 0.00 0.00 2.73
626 1929 0.392461 GCCATGGGAAGCGTACTTGA 60.392 55.000 15.13 0.00 35.82 3.02
627 1930 1.747206 GCCATGGGAAGCGTACTTGAT 60.747 52.381 15.13 0.00 35.82 2.57
629 1932 3.804036 CCATGGGAAGCGTACTTGATTA 58.196 45.455 2.85 0.00 35.82 1.75
630 1933 3.560068 CCATGGGAAGCGTACTTGATTAC 59.440 47.826 2.85 0.00 35.82 1.89
631 1934 4.442706 CATGGGAAGCGTACTTGATTACT 58.557 43.478 0.00 0.00 35.82 2.24
632 1935 4.546829 TGGGAAGCGTACTTGATTACTT 57.453 40.909 0.00 0.00 35.82 2.24
633 1936 4.250464 TGGGAAGCGTACTTGATTACTTG 58.750 43.478 0.00 0.00 35.82 3.16
634 1937 4.251268 GGGAAGCGTACTTGATTACTTGT 58.749 43.478 0.00 0.00 35.82 3.16
635 1938 4.092968 GGGAAGCGTACTTGATTACTTGTG 59.907 45.833 0.00 0.00 35.82 3.33
636 1939 4.689345 GGAAGCGTACTTGATTACTTGTGT 59.311 41.667 0.00 0.00 35.82 3.72
637 1940 5.389516 GGAAGCGTACTTGATTACTTGTGTG 60.390 44.000 0.00 0.00 35.82 3.82
638 1941 4.628074 AGCGTACTTGATTACTTGTGTGT 58.372 39.130 0.00 0.00 0.00 3.72
639 1942 4.684703 AGCGTACTTGATTACTTGTGTGTC 59.315 41.667 0.00 0.00 0.00 3.67
640 1943 4.684703 GCGTACTTGATTACTTGTGTGTCT 59.315 41.667 0.00 0.00 0.00 3.41
641 1944 5.860182 GCGTACTTGATTACTTGTGTGTCTA 59.140 40.000 0.00 0.00 0.00 2.59
678 1981 4.342772 GGTGACGTATCATGCATTTGAAC 58.657 43.478 0.00 0.00 37.14 3.18
710 2014 3.139077 GTCAACACTTCTCCACGGAATT 58.861 45.455 0.00 0.00 0.00 2.17
742 2046 4.019792 AGTTGGTGATTGCATGTCACTA 57.980 40.909 23.73 18.57 44.15 2.74
760 2064 7.414436 TGTCACTAATTTTCACTTTTCTTCCG 58.586 34.615 0.00 0.00 0.00 4.30
785 2089 2.282674 ACTCACCACCCGTCGCTA 60.283 61.111 0.00 0.00 0.00 4.26
797 2101 0.666274 CGTCGCTAACCAGCTTCACA 60.666 55.000 0.00 0.00 46.26 3.58
910 2214 1.205893 AGAAGAATCTCGAGGTGCACC 59.794 52.381 29.22 29.22 0.00 5.01
928 2232 1.463444 ACCGAAATGCTGAGCGTAAAC 59.537 47.619 0.00 0.00 0.00 2.01
1000 2305 4.228567 TGCCAACCGCGTCACTGA 62.229 61.111 4.92 0.00 42.08 3.41
1010 2315 3.463505 GTCACTGATGACGCACGG 58.536 61.111 0.00 0.00 45.66 4.94
1023 2328 1.273048 ACGCACGGAGGTATACAAACA 59.727 47.619 5.01 0.00 0.00 2.83
1024 2329 2.288948 ACGCACGGAGGTATACAAACAA 60.289 45.455 5.01 0.00 0.00 2.83
1025 2330 2.737783 CGCACGGAGGTATACAAACAAA 59.262 45.455 5.01 0.00 0.00 2.83
1026 2331 3.372822 CGCACGGAGGTATACAAACAAAT 59.627 43.478 5.01 0.00 0.00 2.32
1045 2350 6.460781 ACAAATGTGAAGAATACGGTGTCTA 58.539 36.000 0.00 0.00 0.00 2.59
1058 2363 2.610479 CGGTGTCTATCAGTGTTGCACT 60.610 50.000 0.00 0.00 46.51 4.40
1068 2373 2.969990 AGTGTTGCACTGATAGAGCAG 58.030 47.619 0.53 0.00 43.63 4.24
1071 2376 0.543277 TTGCACTGATAGAGCAGGGG 59.457 55.000 0.00 0.00 42.43 4.79
1072 2377 0.325577 TGCACTGATAGAGCAGGGGA 60.326 55.000 0.00 0.00 39.70 4.81
1075 2380 2.392662 CACTGATAGAGCAGGGGAGAA 58.607 52.381 0.00 0.00 40.20 2.87
1186 2491 2.402388 CGCTGCAGATGAAAGGCG 59.598 61.111 20.43 8.27 36.89 5.52
1467 2772 0.395173 AACTTTTCCTGCCGTGGTGT 60.395 50.000 0.00 0.00 0.00 4.16
1474 2779 1.008538 CTGCCGTGGTGTTTTGAGC 60.009 57.895 0.00 0.00 0.00 4.26
1497 2802 3.439540 CCGGGTTTCATGGCCGTG 61.440 66.667 19.62 19.62 0.00 4.94
1546 2851 2.069430 TAGGCATCATGTGGGCGGA 61.069 57.895 0.00 0.00 34.32 5.54
1619 2924 3.702048 TTGGAGGAGGCGTTCGGG 61.702 66.667 0.00 0.00 0.00 5.14
1621 2926 4.144703 GGAGGAGGCGTTCGGGAC 62.145 72.222 0.00 0.00 0.00 4.46
1708 3013 0.034059 CAGTTGCTCTGGTTCGAGGT 59.966 55.000 2.37 0.00 40.23 3.85
1756 3061 4.704103 TGAGGTCGGCAGGGCTCT 62.704 66.667 0.00 0.00 0.00 4.09
1862 3167 1.991965 CTCAAGAAGCTTCAGTCTCGC 59.008 52.381 27.57 0.00 0.00 5.03
1887 3192 3.670377 GTTCCACGGTTGCCCAGC 61.670 66.667 0.00 0.00 0.00 4.85
1904 3209 1.265095 CAGCTGCTGTCGTGACAAAAT 59.735 47.619 21.21 0.00 41.33 1.82
1910 3215 4.782156 TGCTGTCGTGACAAAATTACATG 58.218 39.130 4.03 0.00 41.33 3.21
1923 3237 7.940850 ACAAAATTACATGTCAGTTAGCAAGT 58.059 30.769 0.00 0.00 0.00 3.16
1960 3274 5.950544 TTCTGTTTAGGCCAGCTCTATAA 57.049 39.130 5.01 0.00 0.00 0.98
1978 3292 7.174599 GCTCTATAATCATGTCTTGCAAGGATT 59.825 37.037 25.73 24.29 38.17 3.01
2016 3330 0.611062 CCCTCCTGACACCACGTAGA 60.611 60.000 0.00 0.00 0.00 2.59
2104 3418 6.909909 TGCATATAGTCCTGACAATACTACG 58.090 40.000 0.00 0.00 0.00 3.51
2108 3422 1.117150 TCCTGACAATACTACGGGGC 58.883 55.000 0.00 0.00 0.00 5.80
2110 3424 2.091720 TCCTGACAATACTACGGGGCTA 60.092 50.000 0.00 0.00 0.00 3.93
2165 3481 2.287668 CGGATAAGAGTACGCTCAAGGG 60.288 54.545 0.00 0.00 44.00 3.95
2168 3484 4.321378 GGATAAGAGTACGCTCAAGGGATC 60.321 50.000 0.00 0.00 44.00 3.36
2172 3488 3.570550 AGAGTACGCTCAAGGGATCATAC 59.429 47.826 0.00 0.00 44.00 2.39
2174 3490 2.898729 ACGCTCAAGGGATCATACAG 57.101 50.000 0.59 0.00 0.00 2.74
2175 3491 1.414181 ACGCTCAAGGGATCATACAGG 59.586 52.381 0.59 0.00 0.00 4.00
2182 3498 4.137543 CAAGGGATCATACAGGTTTAGGC 58.862 47.826 0.00 0.00 0.00 3.93
2187 3503 2.840511 TCATACAGGTTTAGGCCCTCA 58.159 47.619 0.00 0.00 0.00 3.86
2188 3504 2.771943 TCATACAGGTTTAGGCCCTCAG 59.228 50.000 0.00 0.00 0.00 3.35
2189 3505 0.909623 TACAGGTTTAGGCCCTCAGC 59.090 55.000 0.00 0.00 42.60 4.26
2254 3575 7.217200 TGGCATAGGTTACAATATGAGAGTTC 58.783 38.462 9.90 0.00 32.21 3.01
2257 3578 8.552034 GCATAGGTTACAATATGAGAGTTCAAC 58.448 37.037 9.90 0.00 36.78 3.18
2258 3579 9.046296 CATAGGTTACAATATGAGAGTTCAACC 57.954 37.037 1.98 0.00 36.78 3.77
2264 3585 5.249393 ACAATATGAGAGTTCAACCCTCAGT 59.751 40.000 7.89 0.00 39.89 3.41
2266 3587 1.971357 TGAGAGTTCAACCCTCAGTCC 59.029 52.381 0.00 0.00 33.50 3.85
2267 3588 1.971357 GAGAGTTCAACCCTCAGTCCA 59.029 52.381 0.00 0.00 0.00 4.02
2279 3600 0.824109 TCAGTCCATTGCCCTACTCG 59.176 55.000 0.00 0.00 0.00 4.18
2280 3601 0.824109 CAGTCCATTGCCCTACTCGA 59.176 55.000 0.00 0.00 0.00 4.04
2281 3602 0.824759 AGTCCATTGCCCTACTCGAC 59.175 55.000 0.00 0.00 0.00 4.20
2282 3603 0.824759 GTCCATTGCCCTACTCGACT 59.175 55.000 0.00 0.00 0.00 4.18
2283 3604 1.207329 GTCCATTGCCCTACTCGACTT 59.793 52.381 0.00 0.00 0.00 3.01
2284 3605 2.429610 GTCCATTGCCCTACTCGACTTA 59.570 50.000 0.00 0.00 0.00 2.24
2287 3608 4.897076 TCCATTGCCCTACTCGACTTATAA 59.103 41.667 0.00 0.00 0.00 0.98
2289 3610 5.465724 CCATTGCCCTACTCGACTTATAAAC 59.534 44.000 0.00 0.00 0.00 2.01
2291 3612 5.258456 TGCCCTACTCGACTTATAAACAG 57.742 43.478 0.00 0.00 0.00 3.16
2292 3613 4.708421 TGCCCTACTCGACTTATAAACAGT 59.292 41.667 0.00 0.00 0.00 3.55
2294 3615 5.041940 CCCTACTCGACTTATAAACAGTGC 58.958 45.833 0.00 0.00 0.00 4.40
2295 3616 5.393787 CCCTACTCGACTTATAAACAGTGCA 60.394 44.000 0.00 0.00 0.00 4.57
2296 3617 5.515626 CCTACTCGACTTATAAACAGTGCAC 59.484 44.000 9.40 9.40 0.00 4.57
2297 3618 4.243270 ACTCGACTTATAAACAGTGCACC 58.757 43.478 14.63 0.00 0.00 5.01
2298 3619 4.242475 CTCGACTTATAAACAGTGCACCA 58.758 43.478 14.63 0.00 0.00 4.17
2299 3620 4.242475 TCGACTTATAAACAGTGCACCAG 58.758 43.478 14.63 9.45 0.00 4.00
2300 3621 4.021807 TCGACTTATAAACAGTGCACCAGA 60.022 41.667 14.63 0.00 0.00 3.86
2301 3622 4.688879 CGACTTATAAACAGTGCACCAGAA 59.311 41.667 14.63 0.00 0.00 3.02
2302 3623 5.178623 CGACTTATAAACAGTGCACCAGAAA 59.821 40.000 14.63 0.00 0.00 2.52
2303 3624 6.560253 ACTTATAAACAGTGCACCAGAAAG 57.440 37.500 14.63 10.67 0.00 2.62
2304 3625 5.473504 ACTTATAAACAGTGCACCAGAAAGG 59.526 40.000 14.63 0.00 45.67 3.11
2305 3626 1.402787 AAACAGTGCACCAGAAAGGG 58.597 50.000 14.63 0.00 43.89 3.95
2306 3627 0.468029 AACAGTGCACCAGAAAGGGG 60.468 55.000 14.63 0.00 46.82 4.79
2307 3628 1.151450 CAGTGCACCAGAAAGGGGT 59.849 57.895 14.63 0.00 45.35 4.95
2308 3629 0.400213 CAGTGCACCAGAAAGGGGTA 59.600 55.000 14.63 0.00 45.35 3.69
2309 3630 1.004745 CAGTGCACCAGAAAGGGGTAT 59.995 52.381 14.63 0.00 45.35 2.73
2310 3631 1.710809 AGTGCACCAGAAAGGGGTATT 59.289 47.619 14.63 0.00 45.35 1.89
2311 3632 1.818674 GTGCACCAGAAAGGGGTATTG 59.181 52.381 5.22 0.00 45.35 1.90
2312 3633 1.427368 TGCACCAGAAAGGGGTATTGT 59.573 47.619 0.00 0.00 45.35 2.71
2313 3634 2.645297 TGCACCAGAAAGGGGTATTGTA 59.355 45.455 0.00 0.00 45.35 2.41
2314 3635 3.074687 TGCACCAGAAAGGGGTATTGTAA 59.925 43.478 0.00 0.00 45.35 2.41
2315 3636 3.442625 GCACCAGAAAGGGGTATTGTAAC 59.557 47.826 0.00 0.00 45.35 2.50
2316 3637 3.687698 CACCAGAAAGGGGTATTGTAACG 59.312 47.826 0.00 0.00 43.89 3.18
2317 3638 3.275999 CCAGAAAGGGGTATTGTAACGG 58.724 50.000 0.00 0.00 0.00 4.44
2318 3639 3.275999 CAGAAAGGGGTATTGTAACGGG 58.724 50.000 0.00 0.00 0.00 5.28
2319 3640 2.019249 GAAAGGGGTATTGTAACGGGC 58.981 52.381 0.00 0.00 0.00 6.13
2320 3641 1.292085 AAGGGGTATTGTAACGGGCT 58.708 50.000 0.00 0.00 0.00 5.19
2321 3642 0.544697 AGGGGTATTGTAACGGGCTG 59.455 55.000 0.00 0.00 0.00 4.85
2322 3643 0.542805 GGGGTATTGTAACGGGCTGA 59.457 55.000 0.00 0.00 0.00 4.26
2323 3644 1.142262 GGGGTATTGTAACGGGCTGAT 59.858 52.381 0.00 0.00 0.00 2.90
2324 3645 2.369532 GGGGTATTGTAACGGGCTGATA 59.630 50.000 0.00 0.00 0.00 2.15
2325 3646 3.008704 GGGGTATTGTAACGGGCTGATAT 59.991 47.826 0.00 0.00 0.00 1.63
2326 3647 4.223477 GGGGTATTGTAACGGGCTGATATA 59.777 45.833 0.00 0.00 0.00 0.86
2327 3648 5.280113 GGGGTATTGTAACGGGCTGATATAA 60.280 44.000 0.00 0.00 0.00 0.98
2328 3649 6.232692 GGGTATTGTAACGGGCTGATATAAA 58.767 40.000 0.00 0.00 0.00 1.40
2329 3650 6.882678 GGGTATTGTAACGGGCTGATATAAAT 59.117 38.462 0.00 0.41 0.00 1.40
2330 3651 7.148306 GGGTATTGTAACGGGCTGATATAAATG 60.148 40.741 0.00 0.00 0.00 2.32
2331 3652 7.389607 GGTATTGTAACGGGCTGATATAAATGT 59.610 37.037 0.00 0.00 0.00 2.71
2332 3653 7.817418 ATTGTAACGGGCTGATATAAATGTT 57.183 32.000 0.00 0.00 0.00 2.71
2333 3654 8.911918 ATTGTAACGGGCTGATATAAATGTTA 57.088 30.769 0.00 0.00 0.00 2.41
2334 3655 8.911918 TTGTAACGGGCTGATATAAATGTTAT 57.088 30.769 0.00 0.00 0.00 1.89
2335 3656 8.911918 TGTAACGGGCTGATATAAATGTTATT 57.088 30.769 0.00 0.00 0.00 1.40
2336 3657 9.999660 TGTAACGGGCTGATATAAATGTTATTA 57.000 29.630 0.00 0.00 0.00 0.98
2340 3661 9.733556 ACGGGCTGATATAAATGTTATTAATGA 57.266 29.630 0.00 0.00 0.00 2.57
2352 3673 7.967890 ATGTTATTAATGATCGTCTGCATGA 57.032 32.000 0.00 0.00 0.00 3.07
2353 3674 7.177498 TGTTATTAATGATCGTCTGCATGAC 57.823 36.000 0.00 6.31 42.06 3.06
2354 3675 6.202762 TGTTATTAATGATCGTCTGCATGACC 59.797 38.462 0.00 0.00 42.49 4.02
2355 3676 1.575244 AATGATCGTCTGCATGACCG 58.425 50.000 0.00 0.00 42.49 4.79
2356 3677 0.746659 ATGATCGTCTGCATGACCGA 59.253 50.000 0.00 0.00 42.49 4.69
2357 3678 0.179137 TGATCGTCTGCATGACCGAC 60.179 55.000 0.00 0.00 42.49 4.79
2358 3679 0.101399 GATCGTCTGCATGACCGACT 59.899 55.000 0.00 0.00 42.49 4.18
2359 3680 0.179127 ATCGTCTGCATGACCGACTG 60.179 55.000 0.00 0.00 42.49 3.51
2360 3681 1.080501 CGTCTGCATGACCGACTGT 60.081 57.895 0.00 0.00 42.49 3.55
2361 3682 0.667487 CGTCTGCATGACCGACTGTT 60.667 55.000 0.00 0.00 42.49 3.16
2362 3683 1.071605 GTCTGCATGACCGACTGTTC 58.928 55.000 0.00 0.00 39.69 3.18
2363 3684 0.388520 TCTGCATGACCGACTGTTCG 60.389 55.000 0.00 0.00 45.44 3.95
2364 3685 0.667487 CTGCATGACCGACTGTTCGT 60.667 55.000 0.00 0.00 44.28 3.85
2365 3686 0.943835 TGCATGACCGACTGTTCGTG 60.944 55.000 0.00 0.00 44.28 4.35
2366 3687 1.626654 GCATGACCGACTGTTCGTGG 61.627 60.000 0.00 0.00 44.28 4.94
2367 3688 1.374252 ATGACCGACTGTTCGTGGC 60.374 57.895 0.00 0.00 44.28 5.01
2368 3689 1.816863 ATGACCGACTGTTCGTGGCT 61.817 55.000 0.00 0.00 44.28 4.75
2369 3690 1.174078 TGACCGACTGTTCGTGGCTA 61.174 55.000 0.00 0.00 44.28 3.93
2370 3691 0.172803 GACCGACTGTTCGTGGCTAT 59.827 55.000 0.00 0.00 44.28 2.97
2371 3692 0.606604 ACCGACTGTTCGTGGCTATT 59.393 50.000 0.00 0.00 44.28 1.73
2372 3693 1.820519 ACCGACTGTTCGTGGCTATTA 59.179 47.619 0.00 0.00 44.28 0.98
2373 3694 2.429610 ACCGACTGTTCGTGGCTATTAT 59.570 45.455 0.00 0.00 44.28 1.28
2374 3695 3.118884 ACCGACTGTTCGTGGCTATTATT 60.119 43.478 0.00 0.00 44.28 1.40
2375 3696 3.245284 CCGACTGTTCGTGGCTATTATTG 59.755 47.826 0.00 0.00 44.28 1.90
2376 3697 3.863424 CGACTGTTCGTGGCTATTATTGT 59.137 43.478 0.00 0.00 40.61 2.71
2377 3698 4.328983 CGACTGTTCGTGGCTATTATTGTT 59.671 41.667 0.00 0.00 40.61 2.83
2378 3699 5.545658 ACTGTTCGTGGCTATTATTGTTG 57.454 39.130 0.00 0.00 0.00 3.33
2379 3700 5.242434 ACTGTTCGTGGCTATTATTGTTGA 58.758 37.500 0.00 0.00 0.00 3.18
2380 3701 5.121768 ACTGTTCGTGGCTATTATTGTTGAC 59.878 40.000 0.00 0.00 0.00 3.18
2381 3702 4.998033 TGTTCGTGGCTATTATTGTTGACA 59.002 37.500 0.00 0.00 0.00 3.58
2382 3703 5.121611 TGTTCGTGGCTATTATTGTTGACAG 59.878 40.000 0.00 0.00 0.00 3.51
2383 3704 5.079689 TCGTGGCTATTATTGTTGACAGA 57.920 39.130 0.00 0.00 0.00 3.41
2384 3705 4.868171 TCGTGGCTATTATTGTTGACAGAC 59.132 41.667 0.00 0.00 0.00 3.51
2385 3706 4.870426 CGTGGCTATTATTGTTGACAGACT 59.130 41.667 0.00 0.00 0.00 3.24
2386 3707 6.040247 CGTGGCTATTATTGTTGACAGACTA 58.960 40.000 0.00 0.00 0.00 2.59
2387 3708 6.701841 CGTGGCTATTATTGTTGACAGACTAT 59.298 38.462 0.00 0.00 0.00 2.12
2388 3709 7.224753 CGTGGCTATTATTGTTGACAGACTATT 59.775 37.037 0.00 0.00 0.00 1.73
2389 3710 9.542462 GTGGCTATTATTGTTGACAGACTATTA 57.458 33.333 0.00 0.00 0.00 0.98
2435 3756 4.360405 GCGCCCCCTGGAGGAAAA 62.360 66.667 0.00 0.00 38.24 2.29
2473 3803 3.009115 CCCCTTTCGCCTCCCTCA 61.009 66.667 0.00 0.00 0.00 3.86
2560 3890 2.891580 GACTCTCTCCCACACACAGTTA 59.108 50.000 0.00 0.00 0.00 2.24
2562 3892 3.157881 CTCTCTCCCACACACAGTTAGA 58.842 50.000 0.00 0.00 0.00 2.10
2568 3898 2.894126 CCCACACACAGTTAGAGACTCT 59.106 50.000 10.47 10.47 36.10 3.24
2569 3899 3.057174 CCCACACACAGTTAGAGACTCTC 60.057 52.174 8.64 0.00 36.10 3.20
2571 3901 3.570125 CACACACAGTTAGAGACTCTCCA 59.430 47.826 8.64 0.00 36.10 3.86
2595 3925 3.210012 TTCCCCTCTGCTTGGTGGC 62.210 63.158 0.00 0.00 0.00 5.01
2639 3969 2.370633 GGCTCCTTCTCCCCCTCT 59.629 66.667 0.00 0.00 0.00 3.69
2644 3974 2.364317 CTTCTCCCCCTCTCGGCA 60.364 66.667 0.00 0.00 0.00 5.69
2711 4042 1.739750 GGATGTGGATCTGGGATCCT 58.260 55.000 22.16 7.17 38.95 3.24
2713 4044 2.444766 GGATGTGGATCTGGGATCCTTT 59.555 50.000 22.16 10.57 38.95 3.11
2754 4085 4.645921 GTTGGTGTTGGCAGCGGC 62.646 66.667 0.00 0.00 45.36 6.53
2799 4130 2.101233 CGAGTCTCGCGGTCTCTGA 61.101 63.158 9.74 0.00 31.14 3.27
2889 4220 3.133003 GGATTCCTTCGAACAGATCTGGA 59.867 47.826 26.08 11.50 34.19 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 5.220510 CGCTTATGTCGGTGTTAATAAAGCA 60.221 40.000 0.00 0.00 0.00 3.91
36 37 0.828022 TGTCACACGGTCTTCCTTGT 59.172 50.000 0.00 0.00 45.20 3.16
61 62 2.497675 GTGTCTTCCTCACCTATGCTGA 59.502 50.000 0.00 0.00 0.00 4.26
66 67 3.910627 AGGTTTGTGTCTTCCTCACCTAT 59.089 43.478 0.00 0.00 35.25 2.57
71 72 3.541632 GACAAGGTTTGTGTCTTCCTCA 58.458 45.455 0.00 0.00 45.52 3.86
73 74 2.093128 ACGACAAGGTTTGTGTCTTCCT 60.093 45.455 0.00 0.00 45.52 3.36
98 99 6.037098 CCTTGTCTTCTCAATTCTACCTACG 58.963 44.000 0.00 0.00 0.00 3.51
106 107 6.226787 TCAGTCTTCCTTGTCTTCTCAATTC 58.773 40.000 0.00 0.00 0.00 2.17
110 111 4.405680 TGTTCAGTCTTCCTTGTCTTCTCA 59.594 41.667 0.00 0.00 0.00 3.27
111 112 4.950050 TGTTCAGTCTTCCTTGTCTTCTC 58.050 43.478 0.00 0.00 0.00 2.87
133 135 3.006967 AGTTTGCGTGTTCTCATACCTCT 59.993 43.478 0.00 0.00 0.00 3.69
146 148 0.299300 TCGACGACAAAGTTTGCGTG 59.701 50.000 29.45 22.87 41.13 5.34
149 152 0.299597 ACGTCGACGACAAAGTTTGC 59.700 50.000 41.52 7.61 43.02 3.68
155 158 1.440850 CGCCTACGTCGACGACAAA 60.441 57.895 41.52 22.35 43.02 2.83
267 270 1.457346 ACCGTACTCGATTCTTCGGT 58.543 50.000 11.57 11.57 45.53 4.69
269 272 3.099362 CAAGACCGTACTCGATTCTTCG 58.901 50.000 0.00 0.00 46.87 3.79
272 275 1.134560 GGCAAGACCGTACTCGATTCT 59.865 52.381 0.00 0.00 39.71 2.40
283 286 1.153369 ATCCACGATGGCAAGACCG 60.153 57.895 0.00 0.00 43.94 4.79
307 310 1.761174 GTGGAGAAGAAGGTGCCCA 59.239 57.895 0.00 0.00 0.00 5.36
369 372 5.115773 GCTTGAGCTACGAGTATATCAAACG 59.884 44.000 0.00 0.00 38.21 3.60
469 472 1.200948 GGAAGACAACAATGGCAGCTC 59.799 52.381 0.00 0.00 36.86 4.09
506 509 4.241590 TGATTTCAGCACATTGAACCAC 57.758 40.909 0.00 0.00 36.84 4.16
601 1904 2.890371 GCTTCCCATGGCTGCAAG 59.110 61.111 6.09 6.43 0.00 4.01
623 1926 8.717821 GCAAATAGTAGACACACAAGTAATCAA 58.282 33.333 0.00 0.00 0.00 2.57
626 1929 8.792830 ATGCAAATAGTAGACACACAAGTAAT 57.207 30.769 0.00 0.00 0.00 1.89
627 1930 7.875554 TGATGCAAATAGTAGACACACAAGTAA 59.124 33.333 0.00 0.00 0.00 2.24
629 1932 6.147821 GTGATGCAAATAGTAGACACACAAGT 59.852 38.462 0.00 0.00 0.00 3.16
630 1933 6.402550 GGTGATGCAAATAGTAGACACACAAG 60.403 42.308 0.00 0.00 0.00 3.16
631 1934 5.411361 GGTGATGCAAATAGTAGACACACAA 59.589 40.000 0.00 0.00 0.00 3.33
632 1935 4.935205 GGTGATGCAAATAGTAGACACACA 59.065 41.667 0.00 0.00 0.00 3.72
633 1936 4.032900 CGGTGATGCAAATAGTAGACACAC 59.967 45.833 0.00 0.00 0.00 3.82
634 1937 4.180817 CGGTGATGCAAATAGTAGACACA 58.819 43.478 0.00 0.00 0.00 3.72
635 1938 3.555956 CCGGTGATGCAAATAGTAGACAC 59.444 47.826 0.00 0.00 0.00 3.67
636 1939 3.196901 ACCGGTGATGCAAATAGTAGACA 59.803 43.478 6.12 0.00 0.00 3.41
637 1940 3.555956 CACCGGTGATGCAAATAGTAGAC 59.444 47.826 31.31 0.00 0.00 2.59
638 1941 3.449377 TCACCGGTGATGCAAATAGTAGA 59.551 43.478 33.23 5.93 34.14 2.59
639 1942 3.555956 GTCACCGGTGATGCAAATAGTAG 59.444 47.826 38.11 6.51 42.18 2.57
640 1943 3.527533 GTCACCGGTGATGCAAATAGTA 58.472 45.455 38.11 10.43 42.18 1.82
641 1944 2.356135 GTCACCGGTGATGCAAATAGT 58.644 47.619 38.11 0.00 42.18 2.12
675 1978 3.250040 AGTGTTGACCAATTGCTACGTTC 59.750 43.478 0.00 0.00 0.00 3.95
678 1981 3.498397 AGAAGTGTTGACCAATTGCTACG 59.502 43.478 0.00 0.00 30.08 3.51
710 2014 4.129380 CAATCACCAACTTCTCTCACACA 58.871 43.478 0.00 0.00 0.00 3.72
742 2046 4.561735 TCGCGGAAGAAAAGTGAAAATT 57.438 36.364 6.13 0.00 0.00 1.82
760 2064 2.737376 GGTGGTGAGTCCGTTCGC 60.737 66.667 0.00 0.00 39.52 4.70
768 2072 1.904865 TTAGCGACGGGTGGTGAGT 60.905 57.895 0.00 0.00 0.00 3.41
785 2089 0.035317 TCGCAGATGTGAAGCTGGTT 59.965 50.000 0.00 0.00 32.83 3.67
797 2101 3.812053 GAGAACAATGGCTAATCGCAGAT 59.188 43.478 0.00 0.00 45.12 2.90
862 2166 2.119655 GGATGGCTTGGCTCTGCAG 61.120 63.158 7.63 7.63 0.00 4.41
910 2214 2.873170 TGTTTACGCTCAGCATTTCG 57.127 45.000 0.00 0.00 0.00 3.46
928 2232 4.450080 CCATGAGATGACGGTGACATATTG 59.550 45.833 0.00 0.00 0.00 1.90
971 2276 1.263217 CGGTTGGCAGTCAAAGTACAC 59.737 52.381 0.00 0.00 37.08 2.90
1000 2305 1.395635 TGTATACCTCCGTGCGTCAT 58.604 50.000 0.00 0.00 0.00 3.06
1023 2328 7.327975 TGATAGACACCGTATTCTTCACATTT 58.672 34.615 0.00 0.00 0.00 2.32
1024 2329 6.873997 TGATAGACACCGTATTCTTCACATT 58.126 36.000 0.00 0.00 0.00 2.71
1025 2330 6.096987 ACTGATAGACACCGTATTCTTCACAT 59.903 38.462 0.00 0.00 0.00 3.21
1026 2331 5.417894 ACTGATAGACACCGTATTCTTCACA 59.582 40.000 0.00 0.00 0.00 3.58
1081 2386 1.070175 CATTGTTTCGTTCGCCGTCTT 60.070 47.619 0.00 0.00 37.94 3.01
1088 2393 0.729140 GGCTGCCATTGTTTCGTTCG 60.729 55.000 15.17 0.00 0.00 3.95
1201 2506 0.603975 GTGAACAGGTCCTGCTCCAC 60.604 60.000 19.40 18.31 34.37 4.02
1467 2772 0.467290 AACCCGGCTCAAGCTCAAAA 60.467 50.000 0.00 0.00 41.70 2.44
1474 2779 1.937546 GCCATGAAACCCGGCTCAAG 61.938 60.000 0.00 0.00 42.78 3.02
1493 2798 2.203139 TGCAAGACACCACCACGG 60.203 61.111 0.00 0.00 42.50 4.94
1495 2800 1.510480 GAGCTGCAAGACACCACCAC 61.510 60.000 1.02 0.00 34.07 4.16
1496 2801 1.227943 GAGCTGCAAGACACCACCA 60.228 57.895 1.02 0.00 34.07 4.17
1497 2802 0.536006 AAGAGCTGCAAGACACCACC 60.536 55.000 1.02 0.00 34.07 4.61
1546 2851 3.011885 CCCTCTCCTCCTCCGTCT 58.988 66.667 0.00 0.00 0.00 4.18
1619 2924 1.069378 CCTTACCGTTCGAGCACGTC 61.069 60.000 8.68 0.00 38.57 4.34
1621 2926 2.442188 GCCTTACCGTTCGAGCACG 61.442 63.158 2.65 2.65 40.02 5.34
1631 2936 3.795638 GCGAAGAAGGCCTTACCG 58.204 61.111 20.54 21.50 46.52 4.02
1655 2960 1.072015 AGATCTAGGTACCCGACGGAG 59.928 57.143 17.49 8.21 0.00 4.63
1670 2975 2.526993 CGAGCCGACGACGAGATCT 61.527 63.158 9.28 0.00 42.66 2.75
1708 3013 1.741401 CCGAACATCTTCCGCAGCA 60.741 57.895 0.00 0.00 0.00 4.41
1844 3149 1.074752 GGCGAGACTGAAGCTTCTTG 58.925 55.000 26.09 20.00 0.00 3.02
1887 3192 4.466567 TGTAATTTTGTCACGACAGCAG 57.533 40.909 0.00 0.00 42.94 4.24
1910 3215 6.436261 TCGCTGTATATACTTGCTAACTGAC 58.564 40.000 20.64 0.00 0.00 3.51
1914 3219 9.582223 GAAAAATCGCTGTATATACTTGCTAAC 57.418 33.333 20.64 0.00 0.00 2.34
1923 3237 8.770828 GCCTAAACAGAAAAATCGCTGTATATA 58.229 33.333 0.00 0.00 44.06 0.86
1925 3239 6.037830 GGCCTAAACAGAAAAATCGCTGTATA 59.962 38.462 0.00 0.00 44.06 1.47
1926 3240 5.163652 GGCCTAAACAGAAAAATCGCTGTAT 60.164 40.000 0.00 0.00 44.06 2.29
1960 3274 5.713389 TCTTTGAATCCTTGCAAGACATGAT 59.287 36.000 28.05 17.61 0.00 2.45
2067 3381 9.445878 CAGGACTATATGCATGACAAAGAATAT 57.554 33.333 10.16 0.00 0.00 1.28
2079 3393 7.363007 CCGTAGTATTGTCAGGACTATATGCAT 60.363 40.741 3.79 3.79 33.14 3.96
2082 3396 6.127703 CCCCGTAGTATTGTCAGGACTATATG 60.128 46.154 6.81 0.33 33.14 1.78
2088 3402 1.202498 GCCCCGTAGTATTGTCAGGAC 60.202 57.143 0.00 0.00 0.00 3.85
2140 3455 2.882793 GCGTACTCTTATCCGCACC 58.117 57.895 0.00 0.00 45.12 5.01
2144 3459 2.287668 CCCTTGAGCGTACTCTTATCCG 60.288 54.545 0.00 0.00 43.85 4.18
2165 3481 3.391296 TGAGGGCCTAAACCTGTATGATC 59.609 47.826 5.73 0.00 38.79 2.92
2168 3484 2.746472 GCTGAGGGCCTAAACCTGTATG 60.746 54.545 5.73 0.00 38.79 2.39
2172 3488 1.450312 CGCTGAGGGCCTAAACCTG 60.450 63.158 5.73 0.00 38.79 4.00
2174 3490 2.124695 CCGCTGAGGGCCTAAACC 60.125 66.667 5.73 0.00 37.74 3.27
2202 3520 7.489113 AGAGCAAAAACACAACATTGAAGTAAG 59.511 33.333 0.00 0.00 0.00 2.34
2208 3526 4.869297 CCAAGAGCAAAAACACAACATTGA 59.131 37.500 0.00 0.00 0.00 2.57
2209 3527 4.494526 GCCAAGAGCAAAAACACAACATTG 60.495 41.667 0.00 0.00 42.97 2.82
2210 3528 3.622612 GCCAAGAGCAAAAACACAACATT 59.377 39.130 0.00 0.00 42.97 2.71
2211 3529 3.197265 GCCAAGAGCAAAAACACAACAT 58.803 40.909 0.00 0.00 42.97 2.71
2233 3552 8.211629 GGGTTGAACTCTCATATTGTAACCTAT 58.788 37.037 0.00 0.00 36.27 2.57
2254 3575 0.967380 GGGCAATGGACTGAGGGTTG 60.967 60.000 0.00 0.00 0.00 3.77
2257 3578 0.181350 GTAGGGCAATGGACTGAGGG 59.819 60.000 0.00 0.00 0.00 4.30
2258 3579 1.139853 GAGTAGGGCAATGGACTGAGG 59.860 57.143 0.00 0.00 0.00 3.86
2264 3585 1.568504 AAGTCGAGTAGGGCAATGGA 58.431 50.000 0.00 0.00 0.00 3.41
2266 3587 6.046593 TGTTTATAAGTCGAGTAGGGCAATG 58.953 40.000 0.00 0.00 0.00 2.82
2267 3588 6.127140 ACTGTTTATAAGTCGAGTAGGGCAAT 60.127 38.462 0.00 0.00 0.00 3.56
2279 3600 6.348540 CCTTTCTGGTGCACTGTTTATAAGTC 60.349 42.308 17.98 0.00 0.00 3.01
2280 3601 5.473504 CCTTTCTGGTGCACTGTTTATAAGT 59.526 40.000 17.98 0.00 0.00 2.24
2281 3602 5.106157 CCCTTTCTGGTGCACTGTTTATAAG 60.106 44.000 17.98 10.74 0.00 1.73
2282 3603 4.764823 CCCTTTCTGGTGCACTGTTTATAA 59.235 41.667 17.98 1.95 0.00 0.98
2283 3604 4.331968 CCCTTTCTGGTGCACTGTTTATA 58.668 43.478 17.98 0.00 0.00 0.98
2284 3605 3.157087 CCCTTTCTGGTGCACTGTTTAT 58.843 45.455 17.98 0.00 0.00 1.40
2287 3608 0.468029 CCCCTTTCTGGTGCACTGTT 60.468 55.000 17.98 0.00 0.00 3.16
2289 3610 0.400213 TACCCCTTTCTGGTGCACTG 59.600 55.000 17.98 10.30 36.57 3.66
2291 3612 1.818674 CAATACCCCTTTCTGGTGCAC 59.181 52.381 8.80 8.80 36.57 4.57
2292 3613 1.427368 ACAATACCCCTTTCTGGTGCA 59.573 47.619 0.00 0.00 36.57 4.57
2294 3615 3.687698 CGTTACAATACCCCTTTCTGGTG 59.312 47.826 0.00 0.00 36.57 4.17
2295 3616 3.307904 CCGTTACAATACCCCTTTCTGGT 60.308 47.826 0.00 0.00 39.97 4.00
2296 3617 3.275999 CCGTTACAATACCCCTTTCTGG 58.724 50.000 0.00 0.00 0.00 3.86
2297 3618 3.275999 CCCGTTACAATACCCCTTTCTG 58.724 50.000 0.00 0.00 0.00 3.02
2298 3619 2.356432 GCCCGTTACAATACCCCTTTCT 60.356 50.000 0.00 0.00 0.00 2.52
2299 3620 2.019249 GCCCGTTACAATACCCCTTTC 58.981 52.381 0.00 0.00 0.00 2.62
2300 3621 1.637035 AGCCCGTTACAATACCCCTTT 59.363 47.619 0.00 0.00 0.00 3.11
2301 3622 1.064979 CAGCCCGTTACAATACCCCTT 60.065 52.381 0.00 0.00 0.00 3.95
2302 3623 0.544697 CAGCCCGTTACAATACCCCT 59.455 55.000 0.00 0.00 0.00 4.79
2303 3624 0.542805 TCAGCCCGTTACAATACCCC 59.457 55.000 0.00 0.00 0.00 4.95
2304 3625 2.632987 ATCAGCCCGTTACAATACCC 57.367 50.000 0.00 0.00 0.00 3.69
2305 3626 7.389607 ACATTTATATCAGCCCGTTACAATACC 59.610 37.037 0.00 0.00 0.00 2.73
2306 3627 8.319143 ACATTTATATCAGCCCGTTACAATAC 57.681 34.615 0.00 0.00 0.00 1.89
2307 3628 8.911918 AACATTTATATCAGCCCGTTACAATA 57.088 30.769 0.00 0.00 0.00 1.90
2308 3629 7.817418 AACATTTATATCAGCCCGTTACAAT 57.183 32.000 0.00 0.00 0.00 2.71
2309 3630 8.911918 ATAACATTTATATCAGCCCGTTACAA 57.088 30.769 0.00 0.00 0.00 2.41
2310 3631 8.911918 AATAACATTTATATCAGCCCGTTACA 57.088 30.769 0.00 0.00 0.00 2.41
2314 3635 9.733556 TCATTAATAACATTTATATCAGCCCGT 57.266 29.630 0.00 0.00 0.00 5.28
2326 3647 8.839343 TCATGCAGACGATCATTAATAACATTT 58.161 29.630 0.00 0.00 0.00 2.32
2327 3648 8.285394 GTCATGCAGACGATCATTAATAACATT 58.715 33.333 0.00 0.00 37.53 2.71
2328 3649 7.800767 GTCATGCAGACGATCATTAATAACAT 58.199 34.615 0.00 0.00 37.53 2.71
2329 3650 7.177498 GTCATGCAGACGATCATTAATAACA 57.823 36.000 0.00 0.00 37.53 2.41
2343 3664 1.071605 GAACAGTCGGTCATGCAGAC 58.928 55.000 10.69 10.69 46.83 3.51
2344 3665 0.388520 CGAACAGTCGGTCATGCAGA 60.389 55.000 0.00 0.00 43.81 4.26
2345 3666 2.073307 CGAACAGTCGGTCATGCAG 58.927 57.895 0.00 0.00 43.81 4.41
2346 3667 4.260194 CGAACAGTCGGTCATGCA 57.740 55.556 0.00 0.00 43.81 3.96
2355 3676 5.350365 TCAACAATAATAGCCACGAACAGTC 59.650 40.000 0.00 0.00 0.00 3.51
2356 3677 5.121768 GTCAACAATAATAGCCACGAACAGT 59.878 40.000 0.00 0.00 0.00 3.55
2357 3678 5.121611 TGTCAACAATAATAGCCACGAACAG 59.878 40.000 0.00 0.00 0.00 3.16
2358 3679 4.998033 TGTCAACAATAATAGCCACGAACA 59.002 37.500 0.00 0.00 0.00 3.18
2359 3680 5.350365 TCTGTCAACAATAATAGCCACGAAC 59.650 40.000 0.00 0.00 0.00 3.95
2360 3681 5.350365 GTCTGTCAACAATAATAGCCACGAA 59.650 40.000 0.00 0.00 0.00 3.85
2361 3682 4.868171 GTCTGTCAACAATAATAGCCACGA 59.132 41.667 0.00 0.00 0.00 4.35
2362 3683 4.870426 AGTCTGTCAACAATAATAGCCACG 59.130 41.667 0.00 0.00 0.00 4.94
2363 3684 8.438676 AATAGTCTGTCAACAATAATAGCCAC 57.561 34.615 0.00 0.00 0.00 5.01
2370 3691 8.429641 GGAGGGATAATAGTCTGTCAACAATAA 58.570 37.037 0.00 0.00 0.00 1.40
2371 3692 7.016268 GGGAGGGATAATAGTCTGTCAACAATA 59.984 40.741 0.00 0.00 0.00 1.90
2372 3693 6.183361 GGGAGGGATAATAGTCTGTCAACAAT 60.183 42.308 0.00 0.00 0.00 2.71
2373 3694 5.130477 GGGAGGGATAATAGTCTGTCAACAA 59.870 44.000 0.00 0.00 0.00 2.83
2374 3695 4.654262 GGGAGGGATAATAGTCTGTCAACA 59.346 45.833 0.00 0.00 0.00 3.33
2375 3696 4.902448 AGGGAGGGATAATAGTCTGTCAAC 59.098 45.833 0.00 0.00 0.00 3.18
2376 3697 5.148502 GAGGGAGGGATAATAGTCTGTCAA 58.851 45.833 0.00 0.00 0.00 3.18
2377 3698 4.449376 GGAGGGAGGGATAATAGTCTGTCA 60.449 50.000 0.00 0.00 0.00 3.58
2378 3699 4.090819 GGAGGGAGGGATAATAGTCTGTC 58.909 52.174 0.00 0.00 0.00 3.51
2379 3700 3.181405 GGGAGGGAGGGATAATAGTCTGT 60.181 52.174 0.00 0.00 0.00 3.41
2380 3701 3.445987 GGGAGGGAGGGATAATAGTCTG 58.554 54.545 0.00 0.00 0.00 3.51
2381 3702 2.387510 GGGGAGGGAGGGATAATAGTCT 59.612 54.545 0.00 0.00 0.00 3.24
2382 3703 2.835389 GGGGAGGGAGGGATAATAGTC 58.165 57.143 0.00 0.00 0.00 2.59
2383 3704 1.078989 CGGGGAGGGAGGGATAATAGT 59.921 57.143 0.00 0.00 0.00 2.12
2384 3705 1.361543 TCGGGGAGGGAGGGATAATAG 59.638 57.143 0.00 0.00 0.00 1.73
2385 3706 1.361543 CTCGGGGAGGGAGGGATAATA 59.638 57.143 0.00 0.00 0.00 0.98
2386 3707 0.117340 CTCGGGGAGGGAGGGATAAT 59.883 60.000 0.00 0.00 0.00 1.28
2387 3708 1.547248 CTCGGGGAGGGAGGGATAA 59.453 63.158 0.00 0.00 0.00 1.75
2388 3709 2.479713 CCTCGGGGAGGGAGGGATA 61.480 68.421 0.00 0.00 45.43 2.59
2389 3710 3.851184 CCTCGGGGAGGGAGGGAT 61.851 72.222 0.00 0.00 45.43 3.85
2426 3747 1.681076 GCGGTAGGGTTTTCCTCCA 59.319 57.895 0.00 0.00 44.06 3.86
2460 3781 4.388499 GCGGTGAGGGAGGCGAAA 62.388 66.667 0.00 0.00 0.00 3.46
2530 3860 2.365768 GAGAGAGTCCCCACCCCC 60.366 72.222 0.00 0.00 0.00 5.40
2531 3861 2.365768 GGAGAGAGTCCCCACCCC 60.366 72.222 0.00 0.00 39.88 4.95
2538 3868 0.605589 CTGTGTGTGGGAGAGAGTCC 59.394 60.000 0.00 0.00 46.10 3.85
2540 3870 1.794714 AACTGTGTGTGGGAGAGAGT 58.205 50.000 0.00 0.00 0.00 3.24
2550 3880 3.823873 CTGGAGAGTCTCTAACTGTGTGT 59.176 47.826 19.45 0.00 38.74 3.72
2554 3884 2.886391 GCCCTGGAGAGTCTCTAACTGT 60.886 54.545 19.45 0.00 38.74 3.55
2560 3890 0.968393 GAACGCCCTGGAGAGTCTCT 60.968 60.000 19.45 0.70 0.00 3.10
2562 3892 1.985116 GGAACGCCCTGGAGAGTCT 60.985 63.158 0.00 0.00 0.00 3.24
2613 3943 3.077556 GAAGGAGCCGAGGCAGGA 61.078 66.667 17.18 0.00 44.88 3.86
2639 3969 4.838152 GCCAGCGAAGGATGCCGA 62.838 66.667 0.00 0.00 0.00 5.54
2711 4042 0.546122 CATCCACCGGATCTGGGAAA 59.454 55.000 24.68 9.32 40.98 3.13
2713 4044 1.766059 CCATCCACCGGATCTGGGA 60.766 63.158 24.68 13.30 40.98 4.37
2793 4124 1.761198 CACCTCCATGATGCTCAGAGA 59.239 52.381 0.00 0.00 0.00 3.10
2799 4130 1.226542 CTGGCACCTCCATGATGCT 59.773 57.895 0.00 0.00 45.50 3.79
2825 4156 1.538876 ACCACCAGGCTAAGCTCCA 60.539 57.895 0.00 0.00 39.06 3.86
2826 4157 1.078143 CACCACCAGGCTAAGCTCC 60.078 63.158 0.00 0.00 39.06 4.70
2828 4159 3.081554 CCACCACCAGGCTAAGCT 58.918 61.111 0.00 0.00 39.06 3.74
2855 4186 0.108615 AGGAATCCAACTCTCGTGCG 60.109 55.000 0.61 0.00 0.00 5.34
2861 4192 3.578716 TCTGTTCGAAGGAATCCAACTCT 59.421 43.478 0.61 0.00 34.05 3.24


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

AutoCloner maintained by Alex Coulton.