Multiple sequence alignment - TraesCS1D01G306900

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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 TraesCS1D01G306900 chr1D 100.000 2526 0 0 1 2526 403662880 403665405 0.000000e+00 4665.0
1 TraesCS1D01G306900 chr1D 100.000 30 0 0 856 885 403663680 403663709 3.510000e-04 56.5
2 TraesCS1D01G306900 chr1D 100.000 30 0 0 801 830 403663735 403663764 3.510000e-04 56.5
3 TraesCS1D01G306900 chr1B 91.266 1580 84 18 6 1539 542956842 542958413 0.000000e+00 2104.0
4 TraesCS1D01G306900 chr1B 76.324 321 66 8 1647 1963 52757382 52757068 2.010000e-36 163.0
5 TraesCS1D01G306900 chr1B 100.000 30 0 0 801 830 542957732 542957761 3.510000e-04 56.5
6 TraesCS1D01G306900 chr1A 91.582 1188 85 12 1153 2335 499176082 499177259 0.000000e+00 1626.0
7 TraesCS1D01G306900 chr1A 91.366 1135 65 18 6 1123 499174644 499175762 0.000000e+00 1522.0
8 TraesCS1D01G306900 chr1A 78.892 379 71 9 1666 2041 556086507 556086135 5.400000e-62 248.0
9 TraesCS1D01G306900 chr1A 79.412 272 52 4 1746 2015 437226282 437226551 3.320000e-44 189.0
10 TraesCS1D01G306900 chr6D 84.686 542 65 12 6 535 105815293 105815828 2.230000e-145 525.0
11 TraesCS1D01G306900 chr6B 83.640 544 70 13 6 541 205359195 205359727 6.280000e-136 494.0
12 TraesCS1D01G306900 chr6B 82.967 546 68 17 6 535 192343227 192343763 1.060000e-128 470.0
13 TraesCS1D01G306900 chr2D 79.081 631 90 25 6 620 90311554 90310950 1.820000e-106 396.0
14 TraesCS1D01G306900 chr2D 76.423 246 38 12 1286 1520 47006686 47006450 5.710000e-22 115.0
15 TraesCS1D01G306900 chr7D 78.519 540 71 19 14 542 595029501 595030006 1.890000e-81 313.0
16 TraesCS1D01G306900 chr7D 77.891 294 55 8 1680 1971 619009291 619009576 9.290000e-40 174.0
17 TraesCS1D01G306900 chr7D 82.249 169 21 4 6 169 602267823 602267659 1.220000e-28 137.0
18 TraesCS1D01G306900 chr5D 76.766 637 94 26 6 618 536156721 536157327 8.780000e-80 307.0
19 TraesCS1D01G306900 chr2B 83.587 329 42 5 300 618 142947425 142947099 5.280000e-77 298.0
20 TraesCS1D01G306900 chr2B 75.683 366 63 13 1680 2028 794000336 793999980 2.600000e-35 159.0
21 TraesCS1D01G306900 chr4B 79.228 337 57 13 1699 2028 29705697 29706027 3.270000e-54 222.0
22 TraesCS1D01G306900 chr5B 77.904 353 68 10 1680 2028 696488703 696489049 7.080000e-51 211.0
23 TraesCS1D01G306900 chr5B 86.364 88 10 1 450 535 344283004 344283091 7.440000e-16 95.3
24 TraesCS1D01G306900 chr3D 79.866 298 40 13 256 535 387559011 387558716 1.530000e-47 200.0
25 TraesCS1D01G306900 chr3A 79.931 289 41 10 256 529 509014696 509014982 1.980000e-46 196.0
26 TraesCS1D01G306900 chr3A 79.730 296 36 9 335 609 500968510 500968218 2.560000e-45 193.0
27 TraesCS1D01G306900 chr4A 80.228 263 44 4 6 265 634878222 634878479 9.220000e-45 191.0
28 TraesCS1D01G306900 chr7B 78.261 253 48 7 1717 1966 57867201 57866953 3.360000e-34 156.0
29 TraesCS1D01G306900 chr7A 75.145 346 71 13 1680 2022 192621263 192620930 5.630000e-32 148.0


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 TraesCS1D01G306900 chr1D 403662880 403665405 2525 False 1592.666667 4665 100.000 1 2526 3 chr1D.!!$F1 2525
1 TraesCS1D01G306900 chr1B 542956842 542958413 1571 False 1080.250000 2104 95.633 6 1539 2 chr1B.!!$F1 1533
2 TraesCS1D01G306900 chr1A 499174644 499177259 2615 False 1574.000000 1626 91.474 6 2335 2 chr1A.!!$F2 2329
3 TraesCS1D01G306900 chr6D 105815293 105815828 535 False 525.000000 525 84.686 6 535 1 chr6D.!!$F1 529
4 TraesCS1D01G306900 chr6B 205359195 205359727 532 False 494.000000 494 83.640 6 541 1 chr6B.!!$F2 535
5 TraesCS1D01G306900 chr6B 192343227 192343763 536 False 470.000000 470 82.967 6 535 1 chr6B.!!$F1 529
6 TraesCS1D01G306900 chr2D 90310950 90311554 604 True 396.000000 396 79.081 6 620 1 chr2D.!!$R2 614
7 TraesCS1D01G306900 chr7D 595029501 595030006 505 False 313.000000 313 78.519 14 542 1 chr7D.!!$F1 528
8 TraesCS1D01G306900 chr5D 536156721 536157327 606 False 307.000000 307 76.766 6 618 1 chr5D.!!$F1 612

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
995 1076 0.111266 CGTGCGCACAACTTAGTGAC 60.111 55.0 37.03 8.73 42.05 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2166 2547 0.108186 TCGATGCTCTTGTTCGCCAT 60.108 50.0 0.0 0.0 33.08 4.4 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
65 67 8.915654 GTTTGAATGGACACACTTGATTTATTC 58.084 33.333 0.00 0.00 0.00 1.75
204 217 3.308530 CAAGGAAGAAAAACCATCGTGC 58.691 45.455 0.00 0.00 0.00 5.34
643 691 1.202879 TGTGAGGTGAGGCGGAAAAAT 60.203 47.619 0.00 0.00 0.00 1.82
644 692 1.886542 GTGAGGTGAGGCGGAAAAATT 59.113 47.619 0.00 0.00 0.00 1.82
645 693 2.095212 GTGAGGTGAGGCGGAAAAATTC 60.095 50.000 0.00 0.00 0.00 2.17
646 694 2.159382 GAGGTGAGGCGGAAAAATTCA 58.841 47.619 0.00 0.00 0.00 2.57
647 695 2.162408 GAGGTGAGGCGGAAAAATTCAG 59.838 50.000 0.00 0.00 0.00 3.02
648 696 2.159382 GGTGAGGCGGAAAAATTCAGA 58.841 47.619 0.00 0.00 0.00 3.27
659 708 8.935844 GGCGGAAAAATTCAGAAGAAAATAAAT 58.064 29.630 0.00 0.00 37.29 1.40
681 730 3.449018 TCAGTGAGGAGAAGCTATCAACC 59.551 47.826 0.00 0.00 0.00 3.77
682 731 3.450457 CAGTGAGGAGAAGCTATCAACCT 59.550 47.826 11.29 11.29 38.96 3.50
752 803 2.098117 GGACCCTCAAATGCATTCTTCG 59.902 50.000 13.38 2.19 0.00 3.79
784 835 3.983044 AAGAAGGTTGAATCCTAGCGT 57.017 42.857 0.00 0.00 36.74 5.07
798 849 3.199508 TCCTAGCGTGGAGAGTTAGTACT 59.800 47.826 0.00 0.00 37.31 2.73
799 850 4.406972 TCCTAGCGTGGAGAGTTAGTACTA 59.593 45.833 0.00 0.00 33.84 1.82
892 973 7.472334 AAATTAATGCATCACTTCCTCAAGT 57.528 32.000 0.00 0.00 44.26 3.16
995 1076 0.111266 CGTGCGCACAACTTAGTGAC 60.111 55.000 37.03 8.73 42.05 3.67
1128 1350 5.574055 CACATCGCTACTTTGCATTGAAAAT 59.426 36.000 0.00 0.00 0.00 1.82
1132 1354 7.139896 TCGCTACTTTGCATTGAAAATCTTA 57.860 32.000 0.00 0.00 0.00 2.10
1133 1355 7.761409 TCGCTACTTTGCATTGAAAATCTTAT 58.239 30.769 0.00 0.00 0.00 1.73
1134 1356 8.243426 TCGCTACTTTGCATTGAAAATCTTATT 58.757 29.630 0.00 0.00 0.00 1.40
1240 1617 4.736896 GTCGTCGCCCAGACCACC 62.737 72.222 0.00 0.00 46.92 4.61
1276 1653 0.179169 GAGAGACGTACCCGAAGCAC 60.179 60.000 0.00 0.00 37.88 4.40
1351 1728 3.069318 GCGGGGTTCGACTCCTCT 61.069 66.667 4.50 0.00 36.29 3.69
1543 1920 7.702348 GCACCATAATGTTTAAGGACTCATTTC 59.298 37.037 0.00 0.00 33.48 2.17
1544 1921 7.910162 CACCATAATGTTTAAGGACTCATTTCG 59.090 37.037 0.00 0.00 33.48 3.46
1546 1923 5.957842 AATGTTTAAGGACTCATTTCGCA 57.042 34.783 0.00 0.00 0.00 5.10
1547 1924 5.957842 ATGTTTAAGGACTCATTTCGCAA 57.042 34.783 0.00 0.00 0.00 4.85
1548 1925 5.759506 TGTTTAAGGACTCATTTCGCAAA 57.240 34.783 0.00 0.00 0.00 3.68
1585 1962 6.836527 TGAGGACTCTAAAAACCATGGAAAAA 59.163 34.615 21.47 0.00 0.00 1.94
1598 1975 5.360714 ACCATGGAAAAATATACAGCTGGTG 59.639 40.000 21.47 5.12 32.33 4.17
1609 1986 1.242076 CAGCTGGTGGTGGAAAGAAG 58.758 55.000 5.57 0.00 37.97 2.85
1616 1993 0.472471 TGGTGGAAAGAAGGAAGCGT 59.528 50.000 0.00 0.00 0.00 5.07
1617 1994 0.875059 GGTGGAAAGAAGGAAGCGTG 59.125 55.000 0.00 0.00 0.00 5.34
1623 2000 1.897560 AAGAAGGAAGCGTGGGAAAG 58.102 50.000 0.00 0.00 0.00 2.62
1675 2054 9.646427 TTATTTATTTTGTGGGGAAATCTTTCG 57.354 29.630 0.00 0.00 38.06 3.46
1690 2069 8.244113 GGAAATCTTTCGGTTTATTCATCAACT 58.756 33.333 0.00 0.00 38.06 3.16
1757 2137 1.001597 GATTCGTAGACCACCTAGCGG 60.002 57.143 0.00 0.00 34.32 5.52
1777 2157 1.739562 GAGGACAAGCACTGGAGCG 60.740 63.158 0.00 0.00 40.15 5.03
1786 2166 2.676822 ACTGGAGCGAGCCGAAGA 60.677 61.111 0.00 0.00 0.00 2.87
1813 2194 3.443037 CACATCATCGTCTCTTCCTCAC 58.557 50.000 0.00 0.00 0.00 3.51
1814 2195 2.428890 ACATCATCGTCTCTTCCTCACC 59.571 50.000 0.00 0.00 0.00 4.02
1818 2199 1.535833 TCGTCTCTTCCTCACCAGAC 58.464 55.000 0.00 0.00 33.29 3.51
1860 2241 0.872881 ACACAACCGGAAAGTCGTCG 60.873 55.000 9.46 0.00 0.00 5.12
1863 2244 1.952635 AACCGGAAAGTCGTCGTGC 60.953 57.895 9.46 0.00 0.00 5.34
1865 2246 1.210931 CCGGAAAGTCGTCGTGCTA 59.789 57.895 0.00 0.00 0.00 3.49
1868 2249 0.714439 GGAAAGTCGTCGTGCTAAGC 59.286 55.000 0.00 0.00 0.00 3.09
1870 2251 0.317479 AAAGTCGTCGTGCTAAGCCT 59.683 50.000 0.00 0.00 0.00 4.58
1871 2252 0.109226 AAGTCGTCGTGCTAAGCCTC 60.109 55.000 0.00 0.00 0.00 4.70
1872 2253 1.516603 GTCGTCGTGCTAAGCCTCC 60.517 63.158 0.00 0.00 0.00 4.30
1915 2296 6.683974 AAATTAACCATCACCGATGAAGAG 57.316 37.500 5.54 0.00 42.09 2.85
1928 2309 5.046529 CCGATGAAGAGAAGTGTAGATTGG 58.953 45.833 0.00 0.00 0.00 3.16
1933 2314 6.467677 TGAAGAGAAGTGTAGATTGGAAAGG 58.532 40.000 0.00 0.00 0.00 3.11
1971 2352 4.272504 ACACAAACATGAACGAACGAAGAT 59.727 37.500 0.00 0.00 0.00 2.40
1980 2361 3.328382 ACGAACGAAGATTGGATCCAA 57.672 42.857 28.92 28.92 40.47 3.53
1987 2368 5.989477 ACGAAGATTGGATCCAAACAGATA 58.011 37.500 30.28 6.90 39.55 1.98
1990 2371 6.238211 CGAAGATTGGATCCAAACAGATACAC 60.238 42.308 30.28 13.35 36.81 2.90
2005 2386 1.493772 TACACTGAAGACAAACGCCG 58.506 50.000 0.00 0.00 0.00 6.46
2016 2397 1.740296 AAACGCCGACCGAATCCAG 60.740 57.895 0.00 0.00 41.02 3.86
2024 2405 0.671251 GACCGAATCCAGCGAGATCT 59.329 55.000 0.00 0.00 0.00 2.75
2025 2406 0.387202 ACCGAATCCAGCGAGATCTG 59.613 55.000 0.00 0.00 0.00 2.90
2048 2429 3.307691 CCAGTAACAAATCTCTGCCTCCA 60.308 47.826 0.00 0.00 0.00 3.86
2111 2492 2.057316 CGCATCTCATCCTTGATCGAC 58.943 52.381 0.00 0.00 0.00 4.20
2246 2627 1.963515 ACTTTCCAGTCCCATTGTTGC 59.036 47.619 0.00 0.00 0.00 4.17
2247 2628 1.962807 CTTTCCAGTCCCATTGTTGCA 59.037 47.619 0.00 0.00 0.00 4.08
2251 2632 0.827089 CAGTCCCATTGTTGCACCCA 60.827 55.000 0.00 0.00 0.00 4.51
2253 2634 1.907807 TCCCATTGTTGCACCCAGC 60.908 57.895 0.00 0.00 45.96 4.85
2273 2654 3.578272 GCACCGGTGTTGCGTCAA 61.578 61.111 33.92 0.00 0.00 3.18
2296 2677 1.070914 GCTGGGCTAGATAACAGGGAC 59.929 57.143 0.43 0.00 0.00 4.46
2300 2681 1.755380 GGCTAGATAACAGGGACGTGT 59.245 52.381 0.00 0.00 0.00 4.49
2335 2716 2.842208 TTTTTCACCAAGCGACACAG 57.158 45.000 0.00 0.00 0.00 3.66
2336 2717 2.031258 TTTTCACCAAGCGACACAGA 57.969 45.000 0.00 0.00 0.00 3.41
2337 2718 2.254546 TTTCACCAAGCGACACAGAT 57.745 45.000 0.00 0.00 0.00 2.90
2338 2719 1.511850 TTCACCAAGCGACACAGATG 58.488 50.000 0.00 0.00 0.00 2.90
2339 2720 0.950555 TCACCAAGCGACACAGATGC 60.951 55.000 0.00 0.00 0.00 3.91
2340 2721 0.952497 CACCAAGCGACACAGATGCT 60.952 55.000 0.00 0.00 41.60 3.79
2341 2722 0.608130 ACCAAGCGACACAGATGCTA 59.392 50.000 0.00 0.00 38.17 3.49
2342 2723 1.002366 CCAAGCGACACAGATGCTAC 58.998 55.000 0.00 0.00 38.17 3.58
2343 2724 1.672737 CCAAGCGACACAGATGCTACA 60.673 52.381 0.00 0.00 38.17 2.74
2344 2725 2.068519 CAAGCGACACAGATGCTACAA 58.931 47.619 0.00 0.00 38.17 2.41
2345 2726 1.714794 AGCGACACAGATGCTACAAC 58.285 50.000 0.00 0.00 37.15 3.32
2346 2727 0.721718 GCGACACAGATGCTACAACC 59.278 55.000 0.00 0.00 0.00 3.77
2347 2728 1.939381 GCGACACAGATGCTACAACCA 60.939 52.381 0.00 0.00 0.00 3.67
2348 2729 1.995484 CGACACAGATGCTACAACCAG 59.005 52.381 0.00 0.00 0.00 4.00
2349 2730 2.610479 CGACACAGATGCTACAACCAGT 60.610 50.000 0.00 0.00 0.00 4.00
2350 2731 2.738846 GACACAGATGCTACAACCAGTG 59.261 50.000 0.00 0.00 0.00 3.66
2351 2732 2.368548 ACACAGATGCTACAACCAGTGA 59.631 45.455 0.00 0.00 0.00 3.41
2352 2733 3.008375 ACACAGATGCTACAACCAGTGAT 59.992 43.478 0.00 0.00 0.00 3.06
2353 2734 4.005650 CACAGATGCTACAACCAGTGATT 58.994 43.478 0.00 0.00 0.00 2.57
2354 2735 4.456911 CACAGATGCTACAACCAGTGATTT 59.543 41.667 0.00 0.00 0.00 2.17
2355 2736 4.456911 ACAGATGCTACAACCAGTGATTTG 59.543 41.667 0.00 0.00 0.00 2.32
2356 2737 4.456911 CAGATGCTACAACCAGTGATTTGT 59.543 41.667 12.88 12.88 39.31 2.83
2357 2738 5.048504 CAGATGCTACAACCAGTGATTTGTT 60.049 40.000 13.37 0.00 37.19 2.83
2358 2739 4.829064 TGCTACAACCAGTGATTTGTTC 57.171 40.909 13.37 8.20 37.19 3.18
2359 2740 4.460263 TGCTACAACCAGTGATTTGTTCT 58.540 39.130 13.37 0.00 37.19 3.01
2360 2741 4.275689 TGCTACAACCAGTGATTTGTTCTG 59.724 41.667 13.37 7.51 37.19 3.02
2361 2742 3.715628 ACAACCAGTGATTTGTTCTGC 57.284 42.857 4.69 0.00 31.78 4.26
2362 2743 3.290710 ACAACCAGTGATTTGTTCTGCT 58.709 40.909 4.69 0.00 31.78 4.24
2363 2744 3.067180 ACAACCAGTGATTTGTTCTGCTG 59.933 43.478 4.69 0.00 31.78 4.41
2364 2745 2.233271 ACCAGTGATTTGTTCTGCTGG 58.767 47.619 6.83 6.83 45.45 4.85
2365 2746 1.068055 CCAGTGATTTGTTCTGCTGGC 60.068 52.381 0.00 0.00 39.50 4.85
2366 2747 1.610038 CAGTGATTTGTTCTGCTGGCA 59.390 47.619 0.00 0.00 0.00 4.92
2367 2748 1.610522 AGTGATTTGTTCTGCTGGCAC 59.389 47.619 0.00 0.00 0.00 5.01
2368 2749 0.592637 TGATTTGTTCTGCTGGCACG 59.407 50.000 0.00 0.00 0.00 5.34
2369 2750 0.109597 GATTTGTTCTGCTGGCACGG 60.110 55.000 0.00 0.00 38.10 4.94
2370 2751 1.526575 ATTTGTTCTGCTGGCACGGG 61.527 55.000 0.00 0.00 33.56 5.28
2381 2762 3.131478 GCACGGGCGGCAATAGTT 61.131 61.111 12.47 0.00 0.00 2.24
2382 2763 2.791256 CACGGGCGGCAATAGTTG 59.209 61.111 12.47 0.00 0.00 3.16
2396 2777 5.088141 CAATAGTTGCTGGAATCGATGAC 57.912 43.478 0.00 0.00 0.00 3.06
2397 2778 2.029838 AGTTGCTGGAATCGATGACC 57.970 50.000 13.02 13.02 0.00 4.02
2398 2779 1.556911 AGTTGCTGGAATCGATGACCT 59.443 47.619 18.41 0.00 0.00 3.85
2399 2780 2.026822 AGTTGCTGGAATCGATGACCTT 60.027 45.455 18.41 0.00 0.00 3.50
2400 2781 2.749621 GTTGCTGGAATCGATGACCTTT 59.250 45.455 18.41 0.00 0.00 3.11
2401 2782 3.071874 TGCTGGAATCGATGACCTTTT 57.928 42.857 18.41 0.00 0.00 2.27
2402 2783 3.420893 TGCTGGAATCGATGACCTTTTT 58.579 40.909 18.41 0.00 0.00 1.94
2421 2802 4.524316 TTTTGCTGAGATCCACAATTGG 57.476 40.909 10.83 0.00 45.56 3.16
2422 2803 2.133281 TGCTGAGATCCACAATTGGG 57.867 50.000 10.83 5.34 44.11 4.12
2423 2804 1.634973 TGCTGAGATCCACAATTGGGA 59.365 47.619 9.95 13.32 44.11 4.37
2424 2805 2.295885 GCTGAGATCCACAATTGGGAG 58.704 52.381 9.95 0.00 44.11 4.30
2425 2806 2.356535 GCTGAGATCCACAATTGGGAGT 60.357 50.000 9.95 4.98 44.11 3.85
2426 2807 3.276857 CTGAGATCCACAATTGGGAGTG 58.723 50.000 9.95 0.00 44.11 3.51
2427 2808 2.644299 TGAGATCCACAATTGGGAGTGT 59.356 45.455 9.95 0.00 44.11 3.55
2428 2809 3.074390 TGAGATCCACAATTGGGAGTGTT 59.926 43.478 9.95 0.00 44.11 3.32
2429 2810 4.082125 GAGATCCACAATTGGGAGTGTTT 58.918 43.478 9.95 0.00 44.11 2.83
2430 2811 4.482990 AGATCCACAATTGGGAGTGTTTT 58.517 39.130 9.95 0.00 44.11 2.43
2431 2812 4.901250 AGATCCACAATTGGGAGTGTTTTT 59.099 37.500 9.95 0.00 44.11 1.94
2432 2813 4.399004 TCCACAATTGGGAGTGTTTTTG 57.601 40.909 9.95 0.00 44.11 2.44
2433 2814 2.871633 CCACAATTGGGAGTGTTTTTGC 59.128 45.455 9.95 0.00 39.57 3.68
2434 2815 3.432046 CCACAATTGGGAGTGTTTTTGCT 60.432 43.478 9.95 0.00 39.57 3.91
2435 2816 3.556775 CACAATTGGGAGTGTTTTTGCTG 59.443 43.478 10.83 0.00 30.48 4.41
2436 2817 2.531522 ATTGGGAGTGTTTTTGCTGC 57.468 45.000 0.00 0.00 0.00 5.25
2437 2818 1.189752 TTGGGAGTGTTTTTGCTGCA 58.810 45.000 0.00 0.00 0.00 4.41
2438 2819 1.412079 TGGGAGTGTTTTTGCTGCAT 58.588 45.000 1.84 0.00 0.00 3.96
2439 2820 1.761784 TGGGAGTGTTTTTGCTGCATT 59.238 42.857 1.84 0.00 0.00 3.56
2440 2821 2.224018 TGGGAGTGTTTTTGCTGCATTC 60.224 45.455 1.84 0.00 0.00 2.67
2441 2822 2.224018 GGGAGTGTTTTTGCTGCATTCA 60.224 45.455 1.84 0.00 0.00 2.57
2442 2823 3.054878 GGAGTGTTTTTGCTGCATTCAG 58.945 45.455 1.84 0.00 43.16 3.02
2455 2836 3.959609 GCATTCAGCGTCAAATTTCAC 57.040 42.857 0.00 0.00 0.00 3.18
2456 2837 3.568538 GCATTCAGCGTCAAATTTCACT 58.431 40.909 0.00 0.00 0.00 3.41
2457 2838 4.722194 GCATTCAGCGTCAAATTTCACTA 58.278 39.130 0.00 0.00 0.00 2.74
2458 2839 4.554973 GCATTCAGCGTCAAATTTCACTAC 59.445 41.667 0.00 0.00 0.00 2.73
2459 2840 4.383774 TTCAGCGTCAAATTTCACTACG 57.616 40.909 7.26 7.26 36.67 3.51
2460 2841 3.644823 TCAGCGTCAAATTTCACTACGA 58.355 40.909 13.18 0.00 35.66 3.43
2461 2842 3.427528 TCAGCGTCAAATTTCACTACGAC 59.572 43.478 13.18 5.42 35.66 4.34
2462 2843 3.183574 CAGCGTCAAATTTCACTACGACA 59.816 43.478 13.18 0.00 35.66 4.35
2463 2844 3.428870 AGCGTCAAATTTCACTACGACAG 59.571 43.478 13.18 0.00 35.66 3.51
2464 2845 3.423123 GCGTCAAATTTCACTACGACAGG 60.423 47.826 13.18 0.00 35.66 4.00
2465 2846 3.739300 CGTCAAATTTCACTACGACAGGT 59.261 43.478 0.00 0.00 35.66 4.00
2466 2847 4.376008 CGTCAAATTTCACTACGACAGGTG 60.376 45.833 0.00 0.00 35.66 4.00
2467 2848 4.062293 TCAAATTTCACTACGACAGGTGG 58.938 43.478 0.00 0.00 34.57 4.61
2468 2849 3.764237 AATTTCACTACGACAGGTGGT 57.236 42.857 0.00 0.00 41.58 4.16
2469 2850 4.877378 AATTTCACTACGACAGGTGGTA 57.123 40.909 0.00 0.00 38.42 3.25
2470 2851 4.877378 ATTTCACTACGACAGGTGGTAA 57.123 40.909 0.00 0.00 38.42 2.85
2471 2852 4.669206 TTTCACTACGACAGGTGGTAAA 57.331 40.909 0.00 0.00 38.42 2.01
2472 2853 4.877378 TTCACTACGACAGGTGGTAAAT 57.123 40.909 0.00 0.00 38.42 1.40
2473 2854 4.877378 TCACTACGACAGGTGGTAAATT 57.123 40.909 0.00 0.00 38.42 1.82
2474 2855 5.217978 TCACTACGACAGGTGGTAAATTT 57.782 39.130 0.00 0.00 38.42 1.82
2475 2856 5.613329 TCACTACGACAGGTGGTAAATTTT 58.387 37.500 0.00 0.00 38.42 1.82
2476 2857 5.467399 TCACTACGACAGGTGGTAAATTTTG 59.533 40.000 0.00 0.00 38.42 2.44
2477 2858 5.237779 CACTACGACAGGTGGTAAATTTTGT 59.762 40.000 0.00 0.00 38.42 2.83
2478 2859 5.824097 ACTACGACAGGTGGTAAATTTTGTT 59.176 36.000 0.00 0.00 38.74 2.83
2479 2860 4.927422 ACGACAGGTGGTAAATTTTGTTG 58.073 39.130 0.00 0.08 0.00 3.33
2480 2861 4.202070 ACGACAGGTGGTAAATTTTGTTGG 60.202 41.667 0.00 0.00 0.00 3.77
2481 2862 4.036971 CGACAGGTGGTAAATTTTGTTGGA 59.963 41.667 0.00 0.00 0.00 3.53
2482 2863 5.450688 CGACAGGTGGTAAATTTTGTTGGAA 60.451 40.000 0.00 0.00 0.00 3.53
2483 2864 5.666462 ACAGGTGGTAAATTTTGTTGGAAC 58.334 37.500 0.00 0.00 0.00 3.62
2484 2865 5.053811 CAGGTGGTAAATTTTGTTGGAACC 58.946 41.667 0.00 0.00 0.00 3.62
2485 2866 4.052608 GGTGGTAAATTTTGTTGGAACCG 58.947 43.478 0.00 0.00 0.00 4.44
2486 2867 4.052608 GTGGTAAATTTTGTTGGAACCGG 58.947 43.478 0.00 0.00 0.00 5.28
2487 2868 3.061322 GGTAAATTTTGTTGGAACCGGC 58.939 45.455 0.00 0.00 0.00 6.13
2488 2869 1.859383 AAATTTTGTTGGAACCGGCG 58.141 45.000 0.00 0.00 0.00 6.46
2489 2870 1.033574 AATTTTGTTGGAACCGGCGA 58.966 45.000 9.30 0.00 0.00 5.54
2490 2871 0.596082 ATTTTGTTGGAACCGGCGAG 59.404 50.000 9.30 0.06 0.00 5.03
2491 2872 0.748729 TTTTGTTGGAACCGGCGAGT 60.749 50.000 9.30 0.86 0.00 4.18
2492 2873 1.440938 TTTGTTGGAACCGGCGAGTG 61.441 55.000 9.30 0.00 0.00 3.51
2493 2874 2.280592 GTTGGAACCGGCGAGTGT 60.281 61.111 9.30 0.00 0.00 3.55
2494 2875 1.890510 GTTGGAACCGGCGAGTGTT 60.891 57.895 9.30 3.61 0.00 3.32
2495 2876 1.153127 TTGGAACCGGCGAGTGTTT 60.153 52.632 9.30 0.00 0.00 2.83
2496 2877 0.748729 TTGGAACCGGCGAGTGTTTT 60.749 50.000 9.30 0.00 0.00 2.43
2497 2878 0.748729 TGGAACCGGCGAGTGTTTTT 60.749 50.000 9.30 0.00 0.00 1.94
2518 2899 3.681593 TTTTGCTGGGATCAACAATGG 57.318 42.857 0.00 0.00 30.25 3.16
2519 2900 1.559368 TTGCTGGGATCAACAATGGG 58.441 50.000 0.00 0.00 0.00 4.00
2520 2901 0.703488 TGCTGGGATCAACAATGGGA 59.297 50.000 0.00 0.00 0.00 4.37
2521 2902 1.288633 TGCTGGGATCAACAATGGGAT 59.711 47.619 0.00 0.00 0.00 3.85
2522 2903 2.292389 TGCTGGGATCAACAATGGGATT 60.292 45.455 0.00 0.00 0.00 3.01
2523 2904 3.053019 TGCTGGGATCAACAATGGGATTA 60.053 43.478 0.00 0.00 0.00 1.75
2524 2905 4.154942 GCTGGGATCAACAATGGGATTAT 58.845 43.478 0.00 0.00 0.00 1.28
2525 2906 4.590222 GCTGGGATCAACAATGGGATTATT 59.410 41.667 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.815840 TCAGAAAATGTGTCCTACAAATGAA 57.184 32.000 0.00 0.00 43.77 2.57
1 2 7.815840 TTCAGAAAATGTGTCCTACAAATGA 57.184 32.000 0.00 0.00 43.77 2.57
2 3 8.298854 TCATTCAGAAAATGTGTCCTACAAATG 58.701 33.333 0.00 0.00 43.77 2.32
3 4 8.408043 TCATTCAGAAAATGTGTCCTACAAAT 57.592 30.769 0.00 0.00 43.77 2.32
4 5 7.815840 TCATTCAGAAAATGTGTCCTACAAA 57.184 32.000 0.00 0.00 43.77 2.83
204 217 2.074948 CCTCCCACCATCCTCCCTG 61.075 68.421 0.00 0.00 0.00 4.45
471 499 9.191995 CACCTTCCTGAAAAACAAACATAATAC 57.808 33.333 0.00 0.00 0.00 1.89
484 512 4.705110 TGTGAGATCACCTTCCTGAAAA 57.295 40.909 10.34 0.00 45.88 2.29
488 516 5.541953 TCATATGTGAGATCACCTTCCTG 57.458 43.478 10.34 2.20 45.88 3.86
620 668 3.625897 CCGCCTCACCTCACACCA 61.626 66.667 0.00 0.00 0.00 4.17
643 691 9.224267 CTCCTCACTGATTTATTTTCTTCTGAA 57.776 33.333 0.00 0.00 0.00 3.02
644 692 8.597167 TCTCCTCACTGATTTATTTTCTTCTGA 58.403 33.333 0.00 0.00 0.00 3.27
645 693 8.783833 TCTCCTCACTGATTTATTTTCTTCTG 57.216 34.615 0.00 0.00 0.00 3.02
646 694 9.447157 CTTCTCCTCACTGATTTATTTTCTTCT 57.553 33.333 0.00 0.00 0.00 2.85
647 695 8.180920 GCTTCTCCTCACTGATTTATTTTCTTC 58.819 37.037 0.00 0.00 0.00 2.87
648 696 7.887495 AGCTTCTCCTCACTGATTTATTTTCTT 59.113 33.333 0.00 0.00 0.00 2.52
659 708 3.449018 GGTTGATAGCTTCTCCTCACTGA 59.551 47.826 0.00 0.00 0.00 3.41
735 786 2.925578 TGCGAAGAATGCATTTGAGG 57.074 45.000 14.33 5.35 37.44 3.86
784 835 9.339850 GATAAGTGATGTAGTACTAACTCTCCA 57.660 37.037 3.61 0.00 37.15 3.86
892 973 1.480789 TAGGCCATTGTACGCTGAGA 58.519 50.000 5.01 0.00 0.00 3.27
986 1067 2.432510 GCCTCCATGCTAGTCACTAAGT 59.567 50.000 0.00 0.00 0.00 2.24
995 1076 4.154296 GCTTGGCCTCCATGCTAG 57.846 61.111 3.32 0.00 46.74 3.42
1134 1356 9.299465 TGCATGCTTATGAAATGGAGAATATTA 57.701 29.630 20.33 0.00 0.00 0.98
1155 1377 1.374885 TTCCCGGTGTACGTGCATG 60.375 57.895 10.21 3.82 42.24 4.06
1276 1653 0.528901 TGTTCTTCACCGTCACCACG 60.529 55.000 0.00 0.00 46.29 4.94
1351 1728 0.668535 CAGCAGGGATGACGTCGATA 59.331 55.000 11.62 0.00 0.00 2.92
1561 1938 6.894339 TTTTCCATGGTTTTTAGAGTCCTC 57.106 37.500 12.58 0.00 0.00 3.71
1585 1962 3.780294 TCTTTCCACCACCAGCTGTATAT 59.220 43.478 13.81 0.00 0.00 0.86
1598 1975 0.875059 CACGCTTCCTTCTTTCCACC 59.125 55.000 0.00 0.00 0.00 4.61
1609 1986 1.202348 CCATTTCTTTCCCACGCTTCC 59.798 52.381 0.00 0.00 0.00 3.46
1616 1993 4.079253 GCAAGTACTCCATTTCTTTCCCA 58.921 43.478 0.00 0.00 0.00 4.37
1617 1994 3.444034 GGCAAGTACTCCATTTCTTTCCC 59.556 47.826 0.00 0.00 0.00 3.97
1623 2000 2.930682 GAGTCGGCAAGTACTCCATTTC 59.069 50.000 0.00 0.00 36.86 2.17
1669 2048 7.504924 AACAGTTGATGAATAAACCGAAAGA 57.495 32.000 0.00 0.00 0.00 2.52
1670 2049 9.329913 CTTAACAGTTGATGAATAAACCGAAAG 57.670 33.333 0.00 0.00 0.00 2.62
1675 2054 8.947115 ACTAGCTTAACAGTTGATGAATAAACC 58.053 33.333 0.00 0.00 0.00 3.27
1725 2105 9.570468 GGTGGTCTACGAATCTGGATATATATA 57.430 37.037 0.00 0.00 0.00 0.86
1729 2109 5.888901 AGGTGGTCTACGAATCTGGATATA 58.111 41.667 0.00 0.00 0.00 0.86
1730 2110 4.742012 AGGTGGTCTACGAATCTGGATAT 58.258 43.478 0.00 0.00 0.00 1.63
1731 2111 4.180377 AGGTGGTCTACGAATCTGGATA 57.820 45.455 0.00 0.00 0.00 2.59
1757 2137 1.739562 CTCCAGTGCTTGTCCTCGC 60.740 63.158 0.00 0.00 0.00 5.03
1786 2166 2.885644 GACGATGATGTGGCGCGT 60.886 61.111 8.43 0.00 37.97 6.01
1790 2170 1.137872 AGGAAGAGACGATGATGTGGC 59.862 52.381 0.00 0.00 0.00 5.01
1795 2175 2.692557 CTGGTGAGGAAGAGACGATGAT 59.307 50.000 0.00 0.00 0.00 2.45
1813 2194 0.179001 AAAGGTTTGTCCGGGTCTGG 60.179 55.000 0.00 0.00 41.99 3.86
1814 2195 1.687563 AAAAGGTTTGTCCGGGTCTG 58.312 50.000 0.00 0.00 41.99 3.51
1842 2223 0.872881 ACGACGACTTTCCGGTTGTG 60.873 55.000 0.00 0.00 34.33 3.33
1860 2241 1.070914 GGTCCTATGGAGGCTTAGCAC 59.929 57.143 6.53 0.00 43.40 4.40
1863 2244 1.346068 GCTGGTCCTATGGAGGCTTAG 59.654 57.143 0.00 0.00 43.40 2.18
1865 2246 1.690219 CGCTGGTCCTATGGAGGCTT 61.690 60.000 0.00 0.00 43.40 4.35
1868 2249 2.423446 GCGCTGGTCCTATGGAGG 59.577 66.667 0.00 0.00 45.35 4.30
1870 2251 2.731571 GGTGCGCTGGTCCTATGGA 61.732 63.158 9.73 0.00 0.00 3.41
1871 2252 2.203070 GGTGCGCTGGTCCTATGG 60.203 66.667 9.73 0.00 0.00 2.74
1872 2253 1.522355 CTGGTGCGCTGGTCCTATG 60.522 63.158 9.73 0.00 0.00 2.23
1882 2263 2.715737 TGGTTAATTTTCTGGTGCGC 57.284 45.000 0.00 0.00 0.00 6.09
1933 2314 6.870971 TGTTTGTGTTTCTATAGGTTGGAC 57.129 37.500 0.00 0.00 0.00 4.02
1939 2320 7.359262 TCGTTCATGTTTGTGTTTCTATAGG 57.641 36.000 0.00 0.00 0.00 2.57
1942 2323 6.018588 TCGTTCGTTCATGTTTGTGTTTCTAT 60.019 34.615 0.00 0.00 0.00 1.98
1945 2326 4.336101 TCGTTCGTTCATGTTTGTGTTTC 58.664 39.130 0.00 0.00 0.00 2.78
1950 2331 5.204833 CAATCTTCGTTCGTTCATGTTTGT 58.795 37.500 0.00 0.00 0.00 2.83
1971 2352 5.497464 TCAGTGTATCTGTTTGGATCCAA 57.503 39.130 23.63 23.63 43.97 3.53
1980 2361 4.211374 GCGTTTGTCTTCAGTGTATCTGTT 59.789 41.667 0.00 0.00 43.97 3.16
1987 2368 0.179094 TCGGCGTTTGTCTTCAGTGT 60.179 50.000 6.85 0.00 0.00 3.55
1990 2371 1.860078 GGTCGGCGTTTGTCTTCAG 59.140 57.895 6.85 0.00 0.00 3.02
2003 2384 2.076622 ATCTCGCTGGATTCGGTCGG 62.077 60.000 0.00 0.00 0.00 4.79
2005 2386 0.671251 AGATCTCGCTGGATTCGGTC 59.329 55.000 0.00 0.00 0.00 4.79
2016 2397 2.010145 TTGTTACTGGCAGATCTCGC 57.990 50.000 23.66 0.00 0.00 5.03
2087 2468 2.963854 AAGGATGAGATGCGCGCG 60.964 61.111 28.44 28.44 0.00 6.86
2103 2484 2.488355 GACCTCGCCGTCGATCAA 59.512 61.111 0.00 0.00 44.56 2.57
2162 2543 0.901827 TGCTCTTGTTCGCCATAGGA 59.098 50.000 0.00 0.00 0.00 2.94
2164 2545 1.524355 CGATGCTCTTGTTCGCCATAG 59.476 52.381 0.00 0.00 0.00 2.23
2165 2546 1.136110 TCGATGCTCTTGTTCGCCATA 59.864 47.619 0.00 0.00 33.08 2.74
2166 2547 0.108186 TCGATGCTCTTGTTCGCCAT 60.108 50.000 0.00 0.00 33.08 4.40
2206 2587 1.669115 CCAACACCCTCTGACGCAG 60.669 63.158 1.02 1.02 0.00 5.18
2257 2638 2.631428 CTTGACGCAACACCGGTG 59.369 61.111 32.83 32.83 0.00 4.94
2279 2660 1.068741 CACGTCCCTGTTATCTAGCCC 59.931 57.143 0.00 0.00 0.00 5.19
2284 2665 1.278127 CCCAACACGTCCCTGTTATCT 59.722 52.381 0.00 0.00 32.90 1.98
2287 2668 0.838608 AACCCAACACGTCCCTGTTA 59.161 50.000 0.00 0.00 32.90 2.41
2291 2672 1.826487 GCAAACCCAACACGTCCCT 60.826 57.895 0.00 0.00 0.00 4.20
2335 2716 5.182001 AGAACAAATCACTGGTTGTAGCATC 59.818 40.000 0.00 0.00 36.97 3.91
2336 2717 5.048504 CAGAACAAATCACTGGTTGTAGCAT 60.049 40.000 0.00 0.00 36.97 3.79
2337 2718 4.275689 CAGAACAAATCACTGGTTGTAGCA 59.724 41.667 0.00 0.00 36.97 3.49
2338 2719 4.787598 CAGAACAAATCACTGGTTGTAGC 58.212 43.478 0.00 0.00 36.97 3.58
2339 2720 4.516698 AGCAGAACAAATCACTGGTTGTAG 59.483 41.667 0.00 0.00 38.88 2.74
2340 2721 4.275689 CAGCAGAACAAATCACTGGTTGTA 59.724 41.667 0.00 0.00 39.74 2.41
2341 2722 3.067180 CAGCAGAACAAATCACTGGTTGT 59.933 43.478 0.00 0.00 39.74 3.32
2342 2723 3.551454 CCAGCAGAACAAATCACTGGTTG 60.551 47.826 0.00 0.00 44.05 3.77
2343 2724 2.624838 CCAGCAGAACAAATCACTGGTT 59.375 45.455 0.00 0.00 44.05 3.67
2344 2725 2.233271 CCAGCAGAACAAATCACTGGT 58.767 47.619 0.00 0.00 44.05 4.00
2346 2727 1.610038 TGCCAGCAGAACAAATCACTG 59.390 47.619 0.00 0.00 35.41 3.66
2347 2728 1.610522 GTGCCAGCAGAACAAATCACT 59.389 47.619 0.00 0.00 0.00 3.41
2348 2729 1.664016 CGTGCCAGCAGAACAAATCAC 60.664 52.381 0.00 0.00 0.00 3.06
2349 2730 0.592637 CGTGCCAGCAGAACAAATCA 59.407 50.000 0.00 0.00 0.00 2.57
2350 2731 0.109597 CCGTGCCAGCAGAACAAATC 60.110 55.000 0.00 0.00 0.00 2.17
2351 2732 1.526575 CCCGTGCCAGCAGAACAAAT 61.527 55.000 0.00 0.00 0.00 2.32
2352 2733 2.192861 CCCGTGCCAGCAGAACAAA 61.193 57.895 0.00 0.00 0.00 2.83
2353 2734 2.594303 CCCGTGCCAGCAGAACAA 60.594 61.111 0.00 0.00 0.00 2.83
2364 2745 3.131478 AACTATTGCCGCCCGTGC 61.131 61.111 0.00 0.00 0.00 5.34
2365 2746 2.791256 CAACTATTGCCGCCCGTG 59.209 61.111 0.00 0.00 0.00 4.94
2374 2755 4.024556 GGTCATCGATTCCAGCAACTATTG 60.025 45.833 0.00 0.00 0.00 1.90
2375 2756 4.130118 GGTCATCGATTCCAGCAACTATT 58.870 43.478 0.00 0.00 0.00 1.73
2376 2757 3.389329 AGGTCATCGATTCCAGCAACTAT 59.611 43.478 15.86 0.00 0.00 2.12
2377 2758 2.766263 AGGTCATCGATTCCAGCAACTA 59.234 45.455 15.86 0.00 0.00 2.24
2378 2759 1.556911 AGGTCATCGATTCCAGCAACT 59.443 47.619 15.86 0.00 0.00 3.16
2379 2760 2.029838 AGGTCATCGATTCCAGCAAC 57.970 50.000 15.86 0.00 0.00 4.17
2380 2761 2.787473 AAGGTCATCGATTCCAGCAA 57.213 45.000 15.86 0.00 0.00 3.91
2381 2762 2.787473 AAAGGTCATCGATTCCAGCA 57.213 45.000 15.86 0.00 0.00 4.41
2412 2793 2.871633 GCAAAAACACTCCCAATTGTGG 59.128 45.455 4.43 5.70 45.53 4.17
2413 2794 3.556775 CAGCAAAAACACTCCCAATTGTG 59.443 43.478 4.43 0.00 39.80 3.33
2414 2795 3.795877 CAGCAAAAACACTCCCAATTGT 58.204 40.909 4.43 0.00 0.00 2.71
2415 2796 2.545106 GCAGCAAAAACACTCCCAATTG 59.455 45.455 0.00 0.00 0.00 2.32
2416 2797 2.170187 TGCAGCAAAAACACTCCCAATT 59.830 40.909 0.00 0.00 0.00 2.32
2417 2798 1.761784 TGCAGCAAAAACACTCCCAAT 59.238 42.857 0.00 0.00 0.00 3.16
2418 2799 1.189752 TGCAGCAAAAACACTCCCAA 58.810 45.000 0.00 0.00 0.00 4.12
2419 2800 1.412079 ATGCAGCAAAAACACTCCCA 58.588 45.000 0.00 0.00 0.00 4.37
2420 2801 2.224018 TGAATGCAGCAAAAACACTCCC 60.224 45.455 0.00 0.00 0.00 4.30
2421 2802 3.054878 CTGAATGCAGCAAAAACACTCC 58.945 45.455 0.00 0.00 34.95 3.85
2433 2814 3.362831 GTGAAATTTGACGCTGAATGCAG 59.637 43.478 0.00 0.00 45.13 4.41
2434 2815 3.004629 AGTGAAATTTGACGCTGAATGCA 59.995 39.130 1.98 0.00 43.06 3.96
2435 2816 3.568538 AGTGAAATTTGACGCTGAATGC 58.431 40.909 1.98 0.00 38.57 3.56
2436 2817 4.783036 CGTAGTGAAATTTGACGCTGAATG 59.217 41.667 1.98 0.00 0.00 2.67
2437 2818 4.688879 TCGTAGTGAAATTTGACGCTGAAT 59.311 37.500 1.98 0.00 33.64 2.57
2438 2819 4.052608 TCGTAGTGAAATTTGACGCTGAA 58.947 39.130 1.98 0.00 33.64 3.02
2439 2820 3.427528 GTCGTAGTGAAATTTGACGCTGA 59.572 43.478 1.98 0.00 33.64 4.26
2440 2821 3.183574 TGTCGTAGTGAAATTTGACGCTG 59.816 43.478 1.98 0.00 33.64 5.18
2441 2822 3.386486 TGTCGTAGTGAAATTTGACGCT 58.614 40.909 1.98 0.61 33.64 5.07
2442 2823 3.423123 CCTGTCGTAGTGAAATTTGACGC 60.423 47.826 1.98 0.00 33.64 5.19
2443 2824 3.739300 ACCTGTCGTAGTGAAATTTGACG 59.261 43.478 1.98 4.10 34.90 4.35
2444 2825 4.084013 CCACCTGTCGTAGTGAAATTTGAC 60.084 45.833 0.00 0.00 36.01 3.18
2445 2826 4.062293 CCACCTGTCGTAGTGAAATTTGA 58.938 43.478 0.00 0.00 36.01 2.69
2446 2827 3.813166 ACCACCTGTCGTAGTGAAATTTG 59.187 43.478 0.00 0.00 36.01 2.32
2447 2828 4.081322 ACCACCTGTCGTAGTGAAATTT 57.919 40.909 0.00 0.00 36.01 1.82
2448 2829 3.764237 ACCACCTGTCGTAGTGAAATT 57.236 42.857 0.00 0.00 36.01 1.82
2449 2830 4.877378 TTACCACCTGTCGTAGTGAAAT 57.123 40.909 0.00 0.00 36.01 2.17
2450 2831 4.669206 TTTACCACCTGTCGTAGTGAAA 57.331 40.909 0.00 0.00 36.01 2.69
2451 2832 4.877378 ATTTACCACCTGTCGTAGTGAA 57.123 40.909 0.00 0.00 36.01 3.18
2452 2833 4.877378 AATTTACCACCTGTCGTAGTGA 57.123 40.909 0.00 0.00 36.01 3.41
2453 2834 5.237779 ACAAAATTTACCACCTGTCGTAGTG 59.762 40.000 0.00 0.00 0.00 2.74
2454 2835 5.370679 ACAAAATTTACCACCTGTCGTAGT 58.629 37.500 0.00 0.00 0.00 2.73
2455 2836 5.934935 ACAAAATTTACCACCTGTCGTAG 57.065 39.130 0.00 0.00 0.00 3.51
2456 2837 5.008811 CCAACAAAATTTACCACCTGTCGTA 59.991 40.000 0.00 0.00 0.00 3.43
2457 2838 4.202070 CCAACAAAATTTACCACCTGTCGT 60.202 41.667 0.00 0.00 0.00 4.34
2458 2839 4.036971 TCCAACAAAATTTACCACCTGTCG 59.963 41.667 0.00 0.00 0.00 4.35
2459 2840 5.523438 TCCAACAAAATTTACCACCTGTC 57.477 39.130 0.00 0.00 0.00 3.51
2460 2841 5.395879 GGTTCCAACAAAATTTACCACCTGT 60.396 40.000 0.00 0.00 0.00 4.00
2461 2842 5.053811 GGTTCCAACAAAATTTACCACCTG 58.946 41.667 0.00 0.00 0.00 4.00
2462 2843 4.202172 CGGTTCCAACAAAATTTACCACCT 60.202 41.667 5.21 0.00 0.00 4.00
2463 2844 4.052608 CGGTTCCAACAAAATTTACCACC 58.947 43.478 5.21 0.00 0.00 4.61
2464 2845 4.052608 CCGGTTCCAACAAAATTTACCAC 58.947 43.478 0.00 0.00 0.00 4.16
2465 2846 3.492829 GCCGGTTCCAACAAAATTTACCA 60.493 43.478 1.90 0.00 0.00 3.25
2466 2847 3.061322 GCCGGTTCCAACAAAATTTACC 58.939 45.455 1.90 0.00 0.00 2.85
2467 2848 2.727278 CGCCGGTTCCAACAAAATTTAC 59.273 45.455 1.90 0.00 0.00 2.01
2468 2849 2.621998 TCGCCGGTTCCAACAAAATTTA 59.378 40.909 1.90 0.00 0.00 1.40
2469 2850 1.409427 TCGCCGGTTCCAACAAAATTT 59.591 42.857 1.90 0.00 0.00 1.82
2470 2851 1.000717 CTCGCCGGTTCCAACAAAATT 60.001 47.619 1.90 0.00 0.00 1.82
2471 2852 0.596082 CTCGCCGGTTCCAACAAAAT 59.404 50.000 1.90 0.00 0.00 1.82
2472 2853 0.748729 ACTCGCCGGTTCCAACAAAA 60.749 50.000 1.90 0.00 0.00 2.44
2473 2854 1.153127 ACTCGCCGGTTCCAACAAA 60.153 52.632 1.90 0.00 0.00 2.83
2474 2855 1.890041 CACTCGCCGGTTCCAACAA 60.890 57.895 1.90 0.00 0.00 2.83
2475 2856 2.280524 CACTCGCCGGTTCCAACA 60.281 61.111 1.90 0.00 0.00 3.33
2476 2857 1.441732 AAACACTCGCCGGTTCCAAC 61.442 55.000 1.90 0.00 0.00 3.77
2477 2858 0.748729 AAAACACTCGCCGGTTCCAA 60.749 50.000 1.90 0.00 0.00 3.53
2478 2859 0.748729 AAAAACACTCGCCGGTTCCA 60.749 50.000 1.90 0.00 0.00 3.53
2479 2860 2.027325 AAAAACACTCGCCGGTTCC 58.973 52.632 1.90 0.00 0.00 3.62
2497 2878 3.244491 CCCATTGTTGATCCCAGCAAAAA 60.244 43.478 0.00 0.00 44.57 1.94
2498 2879 2.302445 CCCATTGTTGATCCCAGCAAAA 59.698 45.455 0.00 0.00 44.57 2.44
2499 2880 1.901159 CCCATTGTTGATCCCAGCAAA 59.099 47.619 0.00 0.00 44.57 3.68
2500 2881 1.076841 TCCCATTGTTGATCCCAGCAA 59.923 47.619 0.00 0.00 45.27 3.91
2501 2882 0.703488 TCCCATTGTTGATCCCAGCA 59.297 50.000 0.00 0.00 0.00 4.41
2502 2883 2.077687 ATCCCATTGTTGATCCCAGC 57.922 50.000 0.00 0.00 0.00 4.85


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

AutoCloner maintained by Alex Coulton.