Multiple sequence alignment - TraesCS7B01G192300

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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 TraesCS7B01G192300 chr7B 100.000 2557 0 0 1 2557 329926792 329924236 0.000000e+00 4723.0
1 TraesCS7B01G192300 chr7B 97.143 35 1 0 1981 2015 63558070 63558104 2.750000e-05 60.2
2 TraesCS7B01G192300 chr7D 92.965 1919 84 23 1 1900 187113759 187111873 0.000000e+00 2748.0
3 TraesCS7B01G192300 chr7D 93.182 308 18 2 1979 2286 187111878 187111574 1.400000e-122 449.0
4 TraesCS7B01G192300 chr7D 84.615 182 28 0 2297 2478 112603265 112603446 5.620000e-42 182.0
5 TraesCS7B01G192300 chr7A 92.642 1930 90 30 1 1900 197989922 197991829 0.000000e+00 2730.0
6 TraesCS7B01G192300 chr7A 94.071 253 14 1 2034 2286 197991866 197992117 1.440000e-102 383.0
7 TraesCS7B01G192300 chr4A 85.246 183 25 2 2297 2478 687149711 687149892 1.210000e-43 187.0
8 TraesCS7B01G192300 chr4A 88.660 97 11 0 1886 1982 92728967 92729063 4.470000e-23 119.0
9 TraesCS7B01G192300 chr2B 84.615 182 27 1 2297 2478 159253124 159252944 2.020000e-41 180.0
10 TraesCS7B01G192300 chr2B 90.909 88 8 0 1895 1982 140886210 140886297 4.470000e-23 119.0
11 TraesCS7B01G192300 chr1B 82.249 169 28 2 2297 2464 431358565 431358398 7.370000e-31 145.0
12 TraesCS7B01G192300 chr3B 91.304 92 6 2 1891 1981 13813697 13813787 9.610000e-25 124.0
13 TraesCS7B01G192300 chr3B 91.954 87 7 0 1895 1981 611175844 611175758 3.450000e-24 122.0
14 TraesCS7B01G192300 chr3B 88.889 99 9 2 1883 1980 118309517 118309420 1.240000e-23 121.0
15 TraesCS7B01G192300 chr3B 91.860 86 7 0 1895 1980 493167297 493167212 1.240000e-23 121.0
16 TraesCS7B01G192300 chr4B 90.426 94 8 1 1892 1984 600659490 600659583 3.450000e-24 122.0
17 TraesCS7B01G192300 chr6B 91.111 90 7 1 1892 1980 472233682 472233593 1.240000e-23 121.0
18 TraesCS7B01G192300 chr6B 84.146 82 8 3 1981 2057 711879446 711879527 9.810000e-10 75.0
19 TraesCS7B01G192300 chr3D 89.247 93 10 0 1888 1980 491624272 491624180 1.610000e-22 117.0
20 TraesCS7B01G192300 chr5A 77.660 188 39 3 2292 2478 635413338 635413153 7.480000e-21 111.0
21 TraesCS7B01G192300 chr6D 83.133 83 8 3 1981 2057 466624112 466624194 1.270000e-08 71.3


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 TraesCS7B01G192300 chr7B 329924236 329926792 2556 True 4723.0 4723 100.0000 1 2557 1 chr7B.!!$R1 2556
1 TraesCS7B01G192300 chr7D 187111574 187113759 2185 True 1598.5 2748 93.0735 1 2286 2 chr7D.!!$R1 2285
2 TraesCS7B01G192300 chr7A 197989922 197992117 2195 False 1556.5 2730 93.3565 1 2286 2 chr7A.!!$F1 2285

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
564 584 0.396139 AATGGGATGCGGTGCAAGAT 60.396 50.0 0.0 0.0 43.62 2.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2318 2368 0.036765 TGTTACCCTAGCGCCAAGTG 60.037 55.0 2.29 0.0 0.0 3.16 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
378 396 2.046604 CACTGCCTGCTGCTGCTA 60.047 61.111 17.00 2.62 42.24 3.49
497 517 3.141398 GAGATCGCTGCCAATCCATTTA 58.859 45.455 6.16 0.00 0.00 1.40
498 518 3.755378 GAGATCGCTGCCAATCCATTTAT 59.245 43.478 6.16 0.00 0.00 1.40
499 519 4.147321 AGATCGCTGCCAATCCATTTATT 58.853 39.130 6.16 0.00 0.00 1.40
500 520 4.586001 AGATCGCTGCCAATCCATTTATTT 59.414 37.500 6.16 0.00 0.00 1.40
506 526 5.220719 GCTGCCAATCCATTTATTTGCTTTC 60.221 40.000 0.00 0.00 30.81 2.62
507 527 5.184711 TGCCAATCCATTTATTTGCTTTCC 58.815 37.500 0.00 0.00 30.81 3.13
509 529 5.295045 GCCAATCCATTTATTTGCTTTCCTG 59.705 40.000 0.00 0.00 0.00 3.86
530 550 4.821589 CCGGCGCTCTTCACCTCC 62.822 72.222 7.64 0.00 0.00 4.30
534 554 3.064987 GCGCTCTTCACCTCCGCTA 62.065 63.158 0.00 0.00 41.28 4.26
564 584 0.396139 AATGGGATGCGGTGCAAGAT 60.396 50.000 0.00 0.00 43.62 2.40
566 586 0.473755 TGGGATGCGGTGCAAGATAT 59.526 50.000 0.00 0.00 43.62 1.63
606 626 2.430465 TCTTTGATGCAAGGTCAGCTC 58.570 47.619 0.00 0.00 0.00 4.09
608 628 0.694771 TTGATGCAAGGTCAGCTCCT 59.305 50.000 0.00 0.00 39.84 3.69
627 654 2.534990 CTCCATCCTCCCTCCTGTATC 58.465 57.143 0.00 0.00 0.00 2.24
628 655 1.866269 TCCATCCTCCCTCCTGTATCA 59.134 52.381 0.00 0.00 0.00 2.15
690 717 5.607119 TTCCTTCTTTTGCGTGTTCTATC 57.393 39.130 0.00 0.00 0.00 2.08
692 719 6.032956 TCCTTCTTTTGCGTGTTCTATCTA 57.967 37.500 0.00 0.00 0.00 1.98
694 721 6.757010 TCCTTCTTTTGCGTGTTCTATCTATC 59.243 38.462 0.00 0.00 0.00 2.08
696 723 7.254252 CCTTCTTTTGCGTGTTCTATCTATCTG 60.254 40.741 0.00 0.00 0.00 2.90
697 724 6.631016 TCTTTTGCGTGTTCTATCTATCTGT 58.369 36.000 0.00 0.00 0.00 3.41
698 725 6.531594 TCTTTTGCGTGTTCTATCTATCTGTG 59.468 38.462 0.00 0.00 0.00 3.66
775 802 4.873746 TGATTCCTACGGATCTCATTCC 57.126 45.455 0.00 0.00 0.00 3.01
798 828 6.072838 TCCGACACCGAGATACTGATTATTAC 60.073 42.308 0.00 0.00 38.22 1.89
910 942 8.103305 TCTAGATCAAGGTTTTAGCAGTCAAAT 58.897 33.333 0.00 0.00 0.00 2.32
978 1011 2.999355 AGCAGTTGAGCTTCGATTTCTC 59.001 45.455 0.00 0.00 43.70 2.87
1011 1045 9.774742 GTAATTTCCAAATACAGCTACAGAAAG 57.225 33.333 0.00 0.00 0.00 2.62
1013 1047 5.755409 TCCAAATACAGCTACAGAAAGGA 57.245 39.130 0.00 0.00 0.00 3.36
1095 1129 2.502295 GCAGGAGCCATGAAGATAAGG 58.498 52.381 0.00 0.00 33.58 2.69
1106 1140 0.905357 AAGATAAGGTGAGCAGCGGT 59.095 50.000 0.00 0.00 0.00 5.68
1115 1149 1.004440 GAGCAGCGGTGAAGAGGTT 60.004 57.895 20.69 0.00 0.00 3.50
1205 1242 3.626924 AAGAACTCGGCAGCGGGT 61.627 61.111 0.00 0.00 0.00 5.28
1219 1256 1.745115 CGGGTGTTCATGGCGATGT 60.745 57.895 8.66 0.00 0.00 3.06
1322 1359 0.108804 GCTCGAACCTCGACATGGAA 60.109 55.000 0.00 0.00 44.82 3.53
1361 1398 1.007734 GTCCAGCAACGACGAGTCA 60.008 57.895 0.00 0.00 0.00 3.41
1510 1550 4.897509 TGGATGGATATCTGTTAGGCAG 57.102 45.455 2.05 0.00 46.34 4.85
1511 1551 3.008375 TGGATGGATATCTGTTAGGCAGC 59.992 47.826 2.05 0.00 44.66 5.25
1512 1552 3.262915 GGATGGATATCTGTTAGGCAGCT 59.737 47.826 2.05 0.00 44.66 4.24
1542 1583 9.730420 GCTCTTCAGTTTTGTCAACTTTATAAA 57.270 29.630 0.00 0.00 0.00 1.40
1673 1718 2.497628 GCGCGCTTGAAGTTCACG 60.498 61.111 26.67 8.27 0.00 4.35
1682 1727 3.433615 GCTTGAAGTTCACGATTAGCTGT 59.566 43.478 15.98 0.00 0.00 4.40
1694 1739 4.036971 ACGATTAGCTGTTCTAGGCTACTG 59.963 45.833 0.00 0.00 40.21 2.74
1695 1740 4.036971 CGATTAGCTGTTCTAGGCTACTGT 59.963 45.833 0.00 0.00 40.21 3.55
1697 1742 5.740290 TTAGCTGTTCTAGGCTACTGTTT 57.260 39.130 0.00 0.00 40.21 2.83
1699 1744 5.740290 AGCTGTTCTAGGCTACTGTTTTA 57.260 39.130 0.00 0.00 37.00 1.52
1700 1745 5.480205 AGCTGTTCTAGGCTACTGTTTTAC 58.520 41.667 0.00 0.00 37.00 2.01
1701 1746 5.246429 AGCTGTTCTAGGCTACTGTTTTACT 59.754 40.000 0.00 0.00 37.00 2.24
1702 1747 6.436532 AGCTGTTCTAGGCTACTGTTTTACTA 59.563 38.462 0.00 0.00 37.00 1.82
1703 1748 6.530887 GCTGTTCTAGGCTACTGTTTTACTAC 59.469 42.308 0.00 0.00 0.00 2.73
1784 1834 3.955771 TTTAGTCCGTCTTTTGCACAC 57.044 42.857 0.00 0.00 0.00 3.82
1822 1872 6.753913 ATTCATCACAGCTAATCCTCCTTA 57.246 37.500 0.00 0.00 0.00 2.69
1838 1888 3.941483 CTCCTTAGTGGTATTGGCAAGTG 59.059 47.826 5.96 0.00 37.07 3.16
1956 2006 8.983702 ACTAACTTTAATACAAAGTTGGGTCA 57.016 30.769 21.95 6.46 46.38 4.02
1957 2007 9.582648 ACTAACTTTAATACAAAGTTGGGTCAT 57.417 29.630 21.95 6.17 46.38 3.06
1959 2009 8.706322 AACTTTAATACAAAGTTGGGTCATCT 57.294 30.769 12.88 0.00 45.58 2.90
1960 2010 8.336801 ACTTTAATACAAAGTTGGGTCATCTC 57.663 34.615 0.00 0.00 37.18 2.75
1961 2011 8.164070 ACTTTAATACAAAGTTGGGTCATCTCT 58.836 33.333 0.00 0.00 37.18 3.10
1962 2012 8.934023 TTTAATACAAAGTTGGGTCATCTCTT 57.066 30.769 0.00 0.00 0.00 2.85
1963 2013 8.934023 TTAATACAAAGTTGGGTCATCTCTTT 57.066 30.769 0.00 0.00 0.00 2.52
1964 2014 7.839680 AATACAAAGTTGGGTCATCTCTTTT 57.160 32.000 0.00 0.00 0.00 2.27
1965 2015 5.520376 ACAAAGTTGGGTCATCTCTTTTG 57.480 39.130 0.00 0.00 0.00 2.44
1966 2016 4.342092 ACAAAGTTGGGTCATCTCTTTTGG 59.658 41.667 0.00 0.00 0.00 3.28
1967 2017 4.453480 AAGTTGGGTCATCTCTTTTGGA 57.547 40.909 0.00 0.00 0.00 3.53
1968 2018 4.453480 AGTTGGGTCATCTCTTTTGGAA 57.547 40.909 0.00 0.00 0.00 3.53
1969 2019 4.145052 AGTTGGGTCATCTCTTTTGGAAC 58.855 43.478 0.00 0.00 0.00 3.62
1970 2020 2.778299 TGGGTCATCTCTTTTGGAACG 58.222 47.619 0.00 0.00 0.00 3.95
1971 2021 2.084546 GGGTCATCTCTTTTGGAACGG 58.915 52.381 0.00 0.00 0.00 4.44
1972 2022 2.290071 GGGTCATCTCTTTTGGAACGGA 60.290 50.000 0.00 0.00 0.00 4.69
1973 2023 3.003480 GGTCATCTCTTTTGGAACGGAG 58.997 50.000 0.00 0.00 0.00 4.63
1974 2024 3.003480 GTCATCTCTTTTGGAACGGAGG 58.997 50.000 0.00 0.00 0.00 4.30
1975 2025 2.027192 TCATCTCTTTTGGAACGGAGGG 60.027 50.000 0.00 0.00 0.00 4.30
1976 2026 1.724545 TCTCTTTTGGAACGGAGGGA 58.275 50.000 0.00 0.00 0.00 4.20
1977 2027 1.623811 TCTCTTTTGGAACGGAGGGAG 59.376 52.381 0.00 0.00 0.00 4.30
1978 2028 1.348036 CTCTTTTGGAACGGAGGGAGT 59.652 52.381 0.00 0.00 0.00 3.85
1979 2029 2.565834 CTCTTTTGGAACGGAGGGAGTA 59.434 50.000 0.00 0.00 0.00 2.59
1980 2030 2.301009 TCTTTTGGAACGGAGGGAGTAC 59.699 50.000 0.00 0.00 0.00 2.73
1981 2031 0.978907 TTTGGAACGGAGGGAGTACC 59.021 55.000 0.00 0.00 40.67 3.34
2032 2082 4.969484 AGTTCGAACTAAAACCACTCCAT 58.031 39.130 28.80 0.00 37.52 3.41
2047 2097 3.064820 CACTCCATTTATTTCCGAACGGG 59.935 47.826 13.29 0.00 35.59 5.28
2121 2171 7.402071 ACCCAAGTTTATTCTACTCATAGGTGA 59.598 37.037 0.00 0.00 0.00 4.02
2239 2289 4.467769 CAAGATACTCCCTCCATTGCATT 58.532 43.478 0.00 0.00 0.00 3.56
2240 2290 5.624159 CAAGATACTCCCTCCATTGCATTA 58.376 41.667 0.00 0.00 0.00 1.90
2248 2298 6.013466 ACTCCCTCCATTGCATTATTTTTGTT 60.013 34.615 0.00 0.00 0.00 2.83
2281 2331 9.014297 AGTTCAAAACGAGAAAATCTATGGAAT 57.986 29.630 0.00 0.00 36.23 3.01
2286 2336 6.240549 ACGAGAAAATCTATGGAATGGAGT 57.759 37.500 0.00 0.00 37.20 3.85
2287 2337 7.361457 ACGAGAAAATCTATGGAATGGAGTA 57.639 36.000 0.00 0.00 37.20 2.59
2288 2338 7.967908 ACGAGAAAATCTATGGAATGGAGTAT 58.032 34.615 0.00 0.00 37.20 2.12
2289 2339 8.091449 ACGAGAAAATCTATGGAATGGAGTATC 58.909 37.037 0.00 0.00 37.20 2.24
2290 2340 8.310382 CGAGAAAATCTATGGAATGGAGTATCT 58.690 37.037 0.00 0.00 37.20 1.98
2307 2357 9.472361 TGGAGTATCTATTCAAGTTATTTACGC 57.528 33.333 0.00 0.00 33.73 4.42
2308 2358 9.472361 GGAGTATCTATTCAAGTTATTTACGCA 57.528 33.333 0.00 0.00 33.73 5.24
2316 2366 7.861176 TTCAAGTTATTTACGCAAAATCACC 57.139 32.000 0.00 0.00 38.71 4.02
2317 2367 6.081049 TCAAGTTATTTACGCAAAATCACCG 58.919 36.000 0.00 0.00 38.71 4.94
2318 2368 4.408694 AGTTATTTACGCAAAATCACCGC 58.591 39.130 0.00 0.00 38.71 5.68
2319 2369 2.999507 ATTTACGCAAAATCACCGCA 57.000 40.000 0.00 0.00 32.00 5.69
2320 2370 2.039327 TTTACGCAAAATCACCGCAC 57.961 45.000 0.00 0.00 0.00 5.34
2321 2371 1.231221 TTACGCAAAATCACCGCACT 58.769 45.000 0.00 0.00 0.00 4.40
2322 2372 1.231221 TACGCAAAATCACCGCACTT 58.769 45.000 0.00 0.00 0.00 3.16
2323 2373 0.317770 ACGCAAAATCACCGCACTTG 60.318 50.000 0.00 0.00 0.00 3.16
2324 2374 1.003262 CGCAAAATCACCGCACTTGG 61.003 55.000 0.00 0.00 0.00 3.61
2325 2375 1.284297 GCAAAATCACCGCACTTGGC 61.284 55.000 0.00 0.00 39.90 4.52
2334 2384 2.582436 GCACTTGGCGCTAGGGTA 59.418 61.111 7.64 0.00 0.00 3.69
2335 2385 1.078708 GCACTTGGCGCTAGGGTAA 60.079 57.895 7.64 3.90 0.00 2.85
2336 2386 1.366854 GCACTTGGCGCTAGGGTAAC 61.367 60.000 7.64 0.45 0.00 2.50
2337 2387 0.036765 CACTTGGCGCTAGGGTAACA 60.037 55.000 7.64 3.07 39.74 2.41
2338 2388 0.688487 ACTTGGCGCTAGGGTAACAA 59.312 50.000 7.64 10.24 39.74 2.83
2339 2389 1.280998 ACTTGGCGCTAGGGTAACAAT 59.719 47.619 7.64 1.17 39.74 2.71
2340 2390 2.290705 ACTTGGCGCTAGGGTAACAATT 60.291 45.455 7.64 3.92 39.74 2.32
2341 2391 2.500392 TGGCGCTAGGGTAACAATTT 57.500 45.000 7.64 0.00 39.74 1.82
2342 2392 3.630892 TGGCGCTAGGGTAACAATTTA 57.369 42.857 7.64 0.00 39.74 1.40
2343 2393 3.952931 TGGCGCTAGGGTAACAATTTAA 58.047 40.909 7.64 0.00 39.74 1.52
2344 2394 4.528920 TGGCGCTAGGGTAACAATTTAAT 58.471 39.130 7.64 0.00 39.74 1.40
2345 2395 5.682659 TGGCGCTAGGGTAACAATTTAATA 58.317 37.500 7.64 0.00 39.74 0.98
2346 2396 6.300703 TGGCGCTAGGGTAACAATTTAATAT 58.699 36.000 7.64 0.00 39.74 1.28
2347 2397 6.428771 TGGCGCTAGGGTAACAATTTAATATC 59.571 38.462 7.64 0.00 39.74 1.63
2348 2398 6.428771 GGCGCTAGGGTAACAATTTAATATCA 59.571 38.462 7.64 0.00 39.74 2.15
2349 2399 7.295930 GCGCTAGGGTAACAATTTAATATCAC 58.704 38.462 8.77 0.00 39.74 3.06
2350 2400 7.041644 GCGCTAGGGTAACAATTTAATATCACA 60.042 37.037 8.77 0.00 39.74 3.58
2351 2401 8.999431 CGCTAGGGTAACAATTTAATATCACAT 58.001 33.333 0.00 0.00 39.74 3.21
2366 2416 9.952030 TTAATATCACATTTAAGACAGGACACA 57.048 29.630 0.00 0.00 0.00 3.72
2367 2417 8.862325 AATATCACATTTAAGACAGGACACAA 57.138 30.769 0.00 0.00 0.00 3.33
2368 2418 8.862325 ATATCACATTTAAGACAGGACACAAA 57.138 30.769 0.00 0.00 0.00 2.83
2369 2419 7.765695 ATCACATTTAAGACAGGACACAAAT 57.234 32.000 0.00 0.00 0.00 2.32
2370 2420 8.862325 ATCACATTTAAGACAGGACACAAATA 57.138 30.769 0.00 0.00 0.00 1.40
2371 2421 8.684386 TCACATTTAAGACAGGACACAAATAA 57.316 30.769 0.00 0.00 0.00 1.40
2372 2422 8.564574 TCACATTTAAGACAGGACACAAATAAC 58.435 33.333 0.00 0.00 0.00 1.89
2373 2423 8.567948 CACATTTAAGACAGGACACAAATAACT 58.432 33.333 0.00 0.00 0.00 2.24
2374 2424 9.787435 ACATTTAAGACAGGACACAAATAACTA 57.213 29.630 0.00 0.00 0.00 2.24
2376 2426 8.611654 TTTAAGACAGGACACAAATAACTACC 57.388 34.615 0.00 0.00 0.00 3.18
2377 2427 4.817517 AGACAGGACACAAATAACTACCG 58.182 43.478 0.00 0.00 0.00 4.02
2378 2428 3.332034 ACAGGACACAAATAACTACCGC 58.668 45.455 0.00 0.00 0.00 5.68
2379 2429 3.244284 ACAGGACACAAATAACTACCGCA 60.244 43.478 0.00 0.00 0.00 5.69
2380 2430 3.749088 CAGGACACAAATAACTACCGCAA 59.251 43.478 0.00 0.00 0.00 4.85
2381 2431 4.394920 CAGGACACAAATAACTACCGCAAT 59.605 41.667 0.00 0.00 0.00 3.56
2382 2432 5.007682 AGGACACAAATAACTACCGCAATT 58.992 37.500 0.00 0.00 0.00 2.32
2383 2433 5.092781 GGACACAAATAACTACCGCAATTG 58.907 41.667 0.00 0.00 0.00 2.32
2384 2434 4.481463 ACACAAATAACTACCGCAATTGC 58.519 39.130 20.76 20.76 37.78 3.56
2395 2445 3.792716 GCAATTGCGCCTAAACTGT 57.207 47.368 15.87 0.00 0.00 3.55
2396 2446 2.911819 GCAATTGCGCCTAAACTGTA 57.088 45.000 15.87 0.00 0.00 2.74
2397 2447 3.210358 GCAATTGCGCCTAAACTGTAA 57.790 42.857 15.87 0.00 0.00 2.41
2398 2448 2.914838 GCAATTGCGCCTAAACTGTAAC 59.085 45.455 15.87 0.00 0.00 2.50
2399 2449 3.610585 GCAATTGCGCCTAAACTGTAACA 60.611 43.478 15.87 0.00 0.00 2.41
2400 2450 3.824414 ATTGCGCCTAAACTGTAACAC 57.176 42.857 4.18 0.00 0.00 3.32
2401 2451 1.141645 TGCGCCTAAACTGTAACACG 58.858 50.000 4.18 0.00 0.00 4.49
2402 2452 0.441145 GCGCCTAAACTGTAACACGG 59.559 55.000 0.00 0.00 0.00 4.94
2403 2453 1.936203 GCGCCTAAACTGTAACACGGA 60.936 52.381 0.00 0.00 0.00 4.69
2404 2454 1.990563 CGCCTAAACTGTAACACGGAG 59.009 52.381 0.00 0.00 0.00 4.63
2405 2455 1.730612 GCCTAAACTGTAACACGGAGC 59.269 52.381 0.00 0.00 0.00 4.70
2406 2456 2.868839 GCCTAAACTGTAACACGGAGCA 60.869 50.000 0.00 0.00 0.00 4.26
2407 2457 3.596214 CCTAAACTGTAACACGGAGCAT 58.404 45.455 0.00 0.00 0.00 3.79
2408 2458 4.000988 CCTAAACTGTAACACGGAGCATT 58.999 43.478 0.00 0.00 0.00 3.56
2409 2459 3.896648 AAACTGTAACACGGAGCATTG 57.103 42.857 0.00 0.00 0.00 2.82
2410 2460 2.831685 ACTGTAACACGGAGCATTGA 57.168 45.000 0.00 0.00 0.00 2.57
2411 2461 3.334583 ACTGTAACACGGAGCATTGAT 57.665 42.857 0.00 0.00 0.00 2.57
2412 2462 3.002791 ACTGTAACACGGAGCATTGATG 58.997 45.455 0.00 0.00 0.00 3.07
2427 2477 4.365723 CATTGATGCTAGGATTTGGTTGC 58.634 43.478 0.00 0.00 0.00 4.17
2428 2478 2.016318 TGATGCTAGGATTTGGTTGCG 58.984 47.619 0.00 0.00 0.00 4.85
2429 2479 2.288666 GATGCTAGGATTTGGTTGCGA 58.711 47.619 0.00 0.00 0.00 5.10
2430 2480 2.192664 TGCTAGGATTTGGTTGCGAA 57.807 45.000 0.00 0.00 0.00 4.70
2431 2481 2.509569 TGCTAGGATTTGGTTGCGAAA 58.490 42.857 0.00 0.00 0.00 3.46
2432 2482 2.887783 TGCTAGGATTTGGTTGCGAAAA 59.112 40.909 0.00 0.00 0.00 2.29
2433 2483 3.242518 GCTAGGATTTGGTTGCGAAAAC 58.757 45.455 0.00 0.00 0.00 2.43
2434 2484 3.305064 GCTAGGATTTGGTTGCGAAAACA 60.305 43.478 0.00 0.00 0.00 2.83
2435 2485 3.369546 AGGATTTGGTTGCGAAAACAG 57.630 42.857 0.00 0.00 0.00 3.16
2436 2486 1.792367 GGATTTGGTTGCGAAAACAGC 59.208 47.619 0.00 0.00 0.00 4.40
2437 2487 1.792367 GATTTGGTTGCGAAAACAGCC 59.208 47.619 0.00 0.00 41.03 4.85
2439 2489 2.193532 TGGTTGCGAAAACAGCCAA 58.806 47.368 0.00 0.00 46.46 4.52
2440 2490 0.532573 TGGTTGCGAAAACAGCCAAA 59.467 45.000 0.00 0.00 46.46 3.28
2441 2491 0.927537 GGTTGCGAAAACAGCCAAAC 59.072 50.000 0.00 0.00 40.41 2.93
2442 2492 0.927537 GTTGCGAAAACAGCCAAACC 59.072 50.000 0.00 0.00 0.00 3.27
2443 2493 0.526524 TTGCGAAAACAGCCAAACCG 60.527 50.000 0.00 0.00 0.00 4.44
2444 2494 1.357334 GCGAAAACAGCCAAACCGA 59.643 52.632 0.00 0.00 0.00 4.69
2445 2495 0.933047 GCGAAAACAGCCAAACCGAC 60.933 55.000 0.00 0.00 0.00 4.79
2446 2496 0.378962 CGAAAACAGCCAAACCGACA 59.621 50.000 0.00 0.00 0.00 4.35
2447 2497 1.596954 CGAAAACAGCCAAACCGACAG 60.597 52.381 0.00 0.00 0.00 3.51
2448 2498 0.744281 AAAACAGCCAAACCGACAGG 59.256 50.000 0.00 0.00 45.13 4.00
2471 2521 2.822399 CCCACCTATCGGGCTGAC 59.178 66.667 0.00 0.00 36.72 3.51
2472 2522 2.417516 CCACCTATCGGGCTGACG 59.582 66.667 0.00 0.00 39.10 4.35
2473 2523 2.423898 CCACCTATCGGGCTGACGT 61.424 63.158 0.00 0.00 39.10 4.34
2474 2524 1.226974 CACCTATCGGGCTGACGTG 60.227 63.158 0.00 1.71 39.10 4.49
2475 2525 2.417516 CCTATCGGGCTGACGTGG 59.582 66.667 0.00 0.00 34.94 4.94
2476 2526 2.279517 CTATCGGGCTGACGTGGC 60.280 66.667 0.00 0.00 34.94 5.01
2477 2527 4.201679 TATCGGGCTGACGTGGCG 62.202 66.667 0.00 0.00 34.94 5.69
2481 2531 4.373116 GGGCTGACGTGGCGAAGA 62.373 66.667 0.00 0.00 0.00 2.87
2482 2532 3.112709 GGCTGACGTGGCGAAGAC 61.113 66.667 0.00 0.00 0.00 3.01
2483 2533 2.049063 GCTGACGTGGCGAAGACT 60.049 61.111 0.00 0.00 34.59 3.24
2484 2534 1.211969 GCTGACGTGGCGAAGACTA 59.788 57.895 0.00 0.00 34.59 2.59
2485 2535 0.179134 GCTGACGTGGCGAAGACTAT 60.179 55.000 0.00 0.00 34.59 2.12
2486 2536 1.065102 GCTGACGTGGCGAAGACTATA 59.935 52.381 0.00 0.00 34.59 1.31
2487 2537 2.479049 GCTGACGTGGCGAAGACTATAA 60.479 50.000 0.00 0.00 34.59 0.98
2488 2538 3.766151 CTGACGTGGCGAAGACTATAAA 58.234 45.455 0.00 0.00 34.59 1.40
2489 2539 3.504863 TGACGTGGCGAAGACTATAAAC 58.495 45.455 0.00 0.00 34.59 2.01
2490 2540 3.192001 TGACGTGGCGAAGACTATAAACT 59.808 43.478 0.00 0.00 34.59 2.66
2491 2541 4.171754 GACGTGGCGAAGACTATAAACTT 58.828 43.478 0.00 0.00 34.59 2.66
2492 2542 4.563061 ACGTGGCGAAGACTATAAACTTT 58.437 39.130 0.00 0.00 34.59 2.66
2493 2543 4.387862 ACGTGGCGAAGACTATAAACTTTG 59.612 41.667 0.00 0.00 34.59 2.77
2494 2544 4.624024 CGTGGCGAAGACTATAAACTTTGA 59.376 41.667 0.00 0.00 34.59 2.69
2495 2545 5.444218 CGTGGCGAAGACTATAAACTTTGAC 60.444 44.000 0.00 0.00 34.59 3.18
2496 2546 4.933400 TGGCGAAGACTATAAACTTTGACC 59.067 41.667 0.00 0.00 35.35 4.02
2497 2547 4.331992 GGCGAAGACTATAAACTTTGACCC 59.668 45.833 0.00 0.00 31.38 4.46
2498 2548 4.933400 GCGAAGACTATAAACTTTGACCCA 59.067 41.667 0.00 0.00 31.37 4.51
2499 2549 5.163884 GCGAAGACTATAAACTTTGACCCAC 60.164 44.000 0.00 0.00 31.37 4.61
2500 2550 6.164176 CGAAGACTATAAACTTTGACCCACT 58.836 40.000 0.00 0.00 31.37 4.00
2501 2551 6.090898 CGAAGACTATAAACTTTGACCCACTG 59.909 42.308 0.00 0.00 31.37 3.66
2502 2552 6.681729 AGACTATAAACTTTGACCCACTGA 57.318 37.500 0.00 0.00 0.00 3.41
2503 2553 7.259088 AGACTATAAACTTTGACCCACTGAT 57.741 36.000 0.00 0.00 0.00 2.90
2504 2554 7.106239 AGACTATAAACTTTGACCCACTGATG 58.894 38.462 0.00 0.00 0.00 3.07
2505 2555 6.779860 ACTATAAACTTTGACCCACTGATGT 58.220 36.000 0.00 0.00 0.00 3.06
2506 2556 5.964958 ATAAACTTTGACCCACTGATGTG 57.035 39.130 0.00 0.00 43.45 3.21
2517 2567 3.492421 CACTGATGTGGCAAATGGTAC 57.508 47.619 0.00 0.00 40.33 3.34
2518 2568 2.819019 CACTGATGTGGCAAATGGTACA 59.181 45.455 0.00 0.00 41.32 2.90
2519 2569 3.444742 CACTGATGTGGCAAATGGTACAT 59.555 43.478 0.00 0.00 41.35 2.29
2520 2570 4.675933 CACTGATGTGGCAAATGGTACATG 60.676 45.833 0.00 0.00 41.35 3.21
2521 2571 7.621712 CACTGATGTGGCAAATGGTACATGG 62.622 48.000 0.00 0.00 41.35 3.66
2529 2579 2.760477 TGGTACATGGGCCACACC 59.240 61.111 21.32 21.32 37.93 4.16
2530 2580 1.850289 TGGTACATGGGCCACACCT 60.850 57.895 25.73 3.60 39.10 4.00
2531 2581 1.378514 GGTACATGGGCCACACCTG 60.379 63.158 20.99 13.56 39.10 4.00
2532 2582 1.378762 GTACATGGGCCACACCTGT 59.621 57.895 9.28 12.57 39.10 4.00
2533 2583 0.676782 GTACATGGGCCACACCTGTC 60.677 60.000 9.28 0.09 39.10 3.51
2534 2584 1.130678 TACATGGGCCACACCTGTCA 61.131 55.000 9.28 0.00 39.10 3.58
2535 2585 1.228521 CATGGGCCACACCTGTCAA 60.229 57.895 9.28 0.00 39.10 3.18
2536 2586 0.612732 CATGGGCCACACCTGTCAAT 60.613 55.000 9.28 0.00 39.10 2.57
2537 2587 0.114954 ATGGGCCACACCTGTCAATT 59.885 50.000 9.28 0.00 39.10 2.32
2538 2588 0.774276 TGGGCCACACCTGTCAATTA 59.226 50.000 0.00 0.00 39.10 1.40
2539 2589 1.173913 GGGCCACACCTGTCAATTAC 58.826 55.000 4.39 0.00 39.10 1.89
2540 2590 1.271926 GGGCCACACCTGTCAATTACT 60.272 52.381 4.39 0.00 39.10 2.24
2541 2591 2.026636 GGGCCACACCTGTCAATTACTA 60.027 50.000 4.39 0.00 39.10 1.82
2542 2592 3.270877 GGCCACACCTGTCAATTACTAG 58.729 50.000 0.00 0.00 34.51 2.57
2543 2593 3.055385 GGCCACACCTGTCAATTACTAGA 60.055 47.826 0.00 0.00 34.51 2.43
2544 2594 3.933332 GCCACACCTGTCAATTACTAGAC 59.067 47.826 0.00 0.00 35.37 2.59
2545 2595 4.562757 GCCACACCTGTCAATTACTAGACA 60.563 45.833 0.00 0.00 42.06 3.41
2546 2596 5.547465 CCACACCTGTCAATTACTAGACAA 58.453 41.667 0.00 0.00 43.48 3.18
2547 2597 6.173339 CCACACCTGTCAATTACTAGACAAT 58.827 40.000 0.00 0.00 43.48 2.71
2548 2598 6.313905 CCACACCTGTCAATTACTAGACAATC 59.686 42.308 0.00 0.00 43.48 2.67
2549 2599 6.873605 CACACCTGTCAATTACTAGACAATCA 59.126 38.462 0.00 0.00 43.48 2.57
2550 2600 7.550551 CACACCTGTCAATTACTAGACAATCAT 59.449 37.037 0.00 0.00 43.48 2.45
2551 2601 7.766278 ACACCTGTCAATTACTAGACAATCATC 59.234 37.037 0.00 0.00 43.48 2.92
2552 2602 7.984050 CACCTGTCAATTACTAGACAATCATCT 59.016 37.037 0.00 0.00 43.48 2.90
2553 2603 9.201989 ACCTGTCAATTACTAGACAATCATCTA 57.798 33.333 0.00 0.00 43.48 1.98
2554 2604 9.469807 CCTGTCAATTACTAGACAATCATCTAC 57.530 37.037 0.00 0.00 43.48 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 2.209273 GTTTCATTGGTGTTTGGTGCC 58.791 47.619 0.00 0.00 0.00 5.01
75 76 2.813226 TTTATTGGCGCGGGCAGAGT 62.813 55.000 26.61 11.00 42.47 3.24
76 77 2.112198 TTTATTGGCGCGGGCAGAG 61.112 57.895 26.61 0.00 42.47 3.35
77 78 2.045829 TTTATTGGCGCGGGCAGA 60.046 55.556 26.61 13.91 42.47 4.26
378 396 0.981943 GCCTGTAGGTGGTAGTGGTT 59.018 55.000 0.00 0.00 37.57 3.67
506 526 4.845580 AAGAGCGCCGGATGCAGG 62.846 66.667 19.58 0.00 41.33 4.85
507 527 3.267860 GAAGAGCGCCGGATGCAG 61.268 66.667 19.58 0.00 41.33 4.41
509 529 3.567797 GTGAAGAGCGCCGGATGC 61.568 66.667 5.05 8.67 0.00 3.91
530 550 1.303309 CCATTTCTCCAAGCCTAGCG 58.697 55.000 0.00 0.00 0.00 4.26
534 554 1.687368 GCATCCCATTTCTCCAAGCCT 60.687 52.381 0.00 0.00 0.00 4.58
538 558 0.331278 ACCGCATCCCATTTCTCCAA 59.669 50.000 0.00 0.00 0.00 3.53
564 584 4.750021 AGCATCTGTCTCAAGAAGCATA 57.250 40.909 4.49 0.00 42.06 3.14
566 586 3.007723 AGAAGCATCTGTCTCAAGAAGCA 59.992 43.478 4.49 0.00 42.06 3.91
577 597 3.192844 CCTTGCATCAAAGAAGCATCTGT 59.807 43.478 0.00 0.00 36.19 3.41
606 626 0.563173 TACAGGAGGGAGGATGGAGG 59.437 60.000 0.00 0.00 0.00 4.30
608 628 1.866269 TGATACAGGAGGGAGGATGGA 59.134 52.381 0.00 0.00 0.00 3.41
690 717 6.348498 TGAAACACATCCATACCACAGATAG 58.652 40.000 0.00 0.00 0.00 2.08
692 719 5.178096 TGAAACACATCCATACCACAGAT 57.822 39.130 0.00 0.00 0.00 2.90
694 721 5.649395 AGATTGAAACACATCCATACCACAG 59.351 40.000 0.00 0.00 0.00 3.66
696 723 5.647658 TCAGATTGAAACACATCCATACCAC 59.352 40.000 0.00 0.00 0.00 4.16
697 724 5.814481 TCAGATTGAAACACATCCATACCA 58.186 37.500 0.00 0.00 0.00 3.25
698 725 6.115446 TCTCAGATTGAAACACATCCATACC 58.885 40.000 0.00 0.00 0.00 2.73
775 802 6.900189 AGTAATAATCAGTATCTCGGTGTCG 58.100 40.000 0.00 0.00 37.82 4.35
825 857 2.645797 TCCGGGGTTGGATTTAAGAACT 59.354 45.455 0.00 0.00 31.53 3.01
910 942 6.013725 TCTGGTTACTTCTTGGAAGCAAGATA 60.014 38.462 7.14 0.00 40.43 1.98
983 1017 8.492673 TCTGTAGCTGTATTTGGAAATTACTG 57.507 34.615 0.00 0.00 34.63 2.74
994 1028 5.934625 CAGTGTCCTTTCTGTAGCTGTATTT 59.065 40.000 0.00 0.00 0.00 1.40
1011 1045 1.065199 TGATCCAATCCAGCAGTGTCC 60.065 52.381 0.00 0.00 0.00 4.02
1013 1047 2.885135 TTGATCCAATCCAGCAGTGT 57.115 45.000 0.00 0.00 0.00 3.55
1091 1125 0.037326 CTTCACCGCTGCTCACCTTA 60.037 55.000 0.00 0.00 0.00 2.69
1095 1129 1.739562 CCTCTTCACCGCTGCTCAC 60.740 63.158 0.00 0.00 0.00 3.51
1115 1149 1.073722 CCTCTTCCTTGCAGGCACA 59.926 57.895 0.00 0.00 34.61 4.57
1124 1158 1.578897 GCCTTCCTCTCCTCTTCCTT 58.421 55.000 0.00 0.00 0.00 3.36
1205 1242 2.499693 TCCTTCTACATCGCCATGAACA 59.500 45.455 0.00 0.00 33.72 3.18
1219 1256 1.402456 GCTTTGCGTCGTCTCCTTCTA 60.402 52.381 0.00 0.00 0.00 2.10
1322 1359 1.589113 GGTGCTCGAGCTGTTCTCT 59.411 57.895 35.27 0.00 42.66 3.10
1361 1398 2.641559 GACCTGGTCGTCGTCGTT 59.358 61.111 11.71 0.00 38.33 3.85
1451 1488 1.239347 GCTCCATTAATTCCTCCGGC 58.761 55.000 0.00 0.00 0.00 6.13
1452 1489 1.512926 CGCTCCATTAATTCCTCCGG 58.487 55.000 0.00 0.00 0.00 5.14
1453 1490 1.512926 CCGCTCCATTAATTCCTCCG 58.487 55.000 0.00 0.00 0.00 4.63
1542 1583 6.253727 CACGAAGACGAAGATTGCTACTAAAT 59.746 38.462 0.00 0.00 42.66 1.40
1554 1595 3.985279 CCATGTAAACACGAAGACGAAGA 59.015 43.478 0.00 0.00 42.66 2.87
1673 1718 5.523438 ACAGTAGCCTAGAACAGCTAATC 57.477 43.478 0.65 0.00 42.92 1.75
1682 1727 8.868522 TGTAGTAGTAAAACAGTAGCCTAGAA 57.131 34.615 0.00 0.00 0.00 2.10
1694 1739 9.419297 TCAACTGATGTGATGTAGTAGTAAAAC 57.581 33.333 0.00 0.00 0.00 2.43
1699 1744 8.363390 CCATATCAACTGATGTGATGTAGTAGT 58.637 37.037 15.65 0.00 43.58 2.73
1700 1745 8.363390 ACCATATCAACTGATGTGATGTAGTAG 58.637 37.037 15.65 2.19 43.58 2.57
1701 1746 8.143835 CACCATATCAACTGATGTGATGTAGTA 58.856 37.037 15.65 0.00 43.58 1.82
1702 1747 6.988580 CACCATATCAACTGATGTGATGTAGT 59.011 38.462 15.65 4.42 43.58 2.73
1703 1748 6.988580 ACACCATATCAACTGATGTGATGTAG 59.011 38.462 13.18 2.57 45.04 2.74
1763 1813 3.942748 AGTGTGCAAAAGACGGACTAAAA 59.057 39.130 0.00 0.00 0.00 1.52
1784 1834 7.221452 GCTGTGATGAATATAGGCAAACAAAAG 59.779 37.037 0.00 0.00 0.00 2.27
1796 1846 8.441311 AAGGAGGATTAGCTGTGATGAATATA 57.559 34.615 0.00 0.00 0.00 0.86
1797 1847 6.949117 AGGAGGATTAGCTGTGATGAATAT 57.051 37.500 0.00 0.00 0.00 1.28
1822 1872 3.719268 TGATCACTTGCCAATACCACT 57.281 42.857 0.00 0.00 0.00 4.00
1931 1981 8.983702 TGACCCAACTTTGTATTAAAGTTAGT 57.016 30.769 15.03 14.80 45.57 2.24
1933 1983 9.802039 AGATGACCCAACTTTGTATTAAAGTTA 57.198 29.630 15.03 3.25 45.57 2.24
1935 1985 8.164070 AGAGATGACCCAACTTTGTATTAAAGT 58.836 33.333 0.00 0.00 41.82 2.66
1936 1986 8.567285 AGAGATGACCCAACTTTGTATTAAAG 57.433 34.615 0.00 0.00 0.00 1.85
1937 1987 8.934023 AAGAGATGACCCAACTTTGTATTAAA 57.066 30.769 0.00 0.00 0.00 1.52
1938 1988 8.934023 AAAGAGATGACCCAACTTTGTATTAA 57.066 30.769 0.00 0.00 31.11 1.40
1939 1989 8.792633 CAAAAGAGATGACCCAACTTTGTATTA 58.207 33.333 0.00 0.00 32.36 0.98
1940 1990 7.255942 CCAAAAGAGATGACCCAACTTTGTATT 60.256 37.037 0.00 0.00 32.36 1.89
1941 1991 6.209391 CCAAAAGAGATGACCCAACTTTGTAT 59.791 38.462 0.00 0.00 32.36 2.29
1942 1992 5.534654 CCAAAAGAGATGACCCAACTTTGTA 59.465 40.000 0.00 0.00 32.36 2.41
1943 1993 4.342092 CCAAAAGAGATGACCCAACTTTGT 59.658 41.667 0.00 0.00 32.36 2.83
1944 1994 4.584325 TCCAAAAGAGATGACCCAACTTTG 59.416 41.667 0.00 0.00 32.36 2.77
1945 1995 4.803452 TCCAAAAGAGATGACCCAACTTT 58.197 39.130 0.00 0.00 33.18 2.66
1946 1996 4.453480 TCCAAAAGAGATGACCCAACTT 57.547 40.909 0.00 0.00 0.00 2.66
1947 1997 4.145052 GTTCCAAAAGAGATGACCCAACT 58.855 43.478 0.00 0.00 0.00 3.16
1948 1998 3.058224 CGTTCCAAAAGAGATGACCCAAC 60.058 47.826 0.00 0.00 0.00 3.77
1949 1999 3.146066 CGTTCCAAAAGAGATGACCCAA 58.854 45.455 0.00 0.00 0.00 4.12
1950 2000 2.552155 CCGTTCCAAAAGAGATGACCCA 60.552 50.000 0.00 0.00 0.00 4.51
1951 2001 2.084546 CCGTTCCAAAAGAGATGACCC 58.915 52.381 0.00 0.00 0.00 4.46
1952 2002 3.003480 CTCCGTTCCAAAAGAGATGACC 58.997 50.000 0.00 0.00 0.00 4.02
1953 2003 3.003480 CCTCCGTTCCAAAAGAGATGAC 58.997 50.000 0.00 0.00 0.00 3.06
1954 2004 2.027192 CCCTCCGTTCCAAAAGAGATGA 60.027 50.000 0.00 0.00 0.00 2.92
1955 2005 2.027192 TCCCTCCGTTCCAAAAGAGATG 60.027 50.000 0.00 0.00 0.00 2.90
1956 2006 2.237392 CTCCCTCCGTTCCAAAAGAGAT 59.763 50.000 0.00 0.00 0.00 2.75
1957 2007 1.623811 CTCCCTCCGTTCCAAAAGAGA 59.376 52.381 0.00 0.00 0.00 3.10
1958 2008 1.348036 ACTCCCTCCGTTCCAAAAGAG 59.652 52.381 0.00 0.00 0.00 2.85
1959 2009 1.430992 ACTCCCTCCGTTCCAAAAGA 58.569 50.000 0.00 0.00 0.00 2.52
1960 2010 2.614734 GGTACTCCCTCCGTTCCAAAAG 60.615 54.545 0.00 0.00 0.00 2.27
1961 2011 1.348696 GGTACTCCCTCCGTTCCAAAA 59.651 52.381 0.00 0.00 0.00 2.44
1962 2012 0.978907 GGTACTCCCTCCGTTCCAAA 59.021 55.000 0.00 0.00 0.00 3.28
1963 2013 0.115745 AGGTACTCCCTCCGTTCCAA 59.884 55.000 0.00 0.00 40.71 3.53
1964 2014 1.778981 AGGTACTCCCTCCGTTCCA 59.221 57.895 0.00 0.00 40.71 3.53
1965 2015 4.781264 AGGTACTCCCTCCGTTCC 57.219 61.111 0.00 0.00 40.71 3.62
1982 2032 2.285083 CGCCACTTATTTCCGAATGGA 58.715 47.619 2.44 0.00 44.61 3.41
1983 2033 2.014128 ACGCCACTTATTTCCGAATGG 58.986 47.619 0.00 0.00 0.00 3.16
1988 2038 1.161843 AACCACGCCACTTATTTCCG 58.838 50.000 0.00 0.00 0.00 4.30
2047 2097 2.498885 ACACCAGACGTAAATACTCCCC 59.501 50.000 0.00 0.00 0.00 4.81
2104 2154 9.358406 TCCGTATTTTCACCTATGAGTAGAATA 57.642 33.333 0.00 0.00 35.83 1.75
2112 2162 7.207383 CAGTATGTCCGTATTTTCACCTATGA 58.793 38.462 0.00 0.00 0.00 2.15
2116 2166 4.468510 TCCAGTATGTCCGTATTTTCACCT 59.531 41.667 0.00 0.00 0.00 4.00
2121 2171 6.884832 TCTGAATCCAGTATGTCCGTATTTT 58.115 36.000 0.00 0.00 41.16 1.82
2281 2331 9.472361 GCGTAAATAACTTGAATAGATACTCCA 57.528 33.333 0.00 0.00 0.00 3.86
2290 2340 9.562583 GGTGATTTTGCGTAAATAACTTGAATA 57.437 29.630 0.00 0.00 37.62 1.75
2291 2341 7.272515 CGGTGATTTTGCGTAAATAACTTGAAT 59.727 33.333 0.00 0.00 37.62 2.57
2292 2342 6.579292 CGGTGATTTTGCGTAAATAACTTGAA 59.421 34.615 0.00 0.00 37.62 2.69
2293 2343 6.081049 CGGTGATTTTGCGTAAATAACTTGA 58.919 36.000 0.00 0.00 37.62 3.02
2294 2344 5.219951 GCGGTGATTTTGCGTAAATAACTTG 60.220 40.000 0.00 1.67 37.62 3.16
2295 2345 4.854839 GCGGTGATTTTGCGTAAATAACTT 59.145 37.500 0.00 0.00 37.62 2.66
2296 2346 4.083217 TGCGGTGATTTTGCGTAAATAACT 60.083 37.500 0.00 0.00 37.62 2.24
2297 2347 4.029750 GTGCGGTGATTTTGCGTAAATAAC 59.970 41.667 0.00 2.24 37.00 1.89
2298 2348 4.083217 AGTGCGGTGATTTTGCGTAAATAA 60.083 37.500 0.00 0.00 36.59 1.40
2299 2349 3.437395 AGTGCGGTGATTTTGCGTAAATA 59.563 39.130 0.00 0.00 36.59 1.40
2300 2350 2.227865 AGTGCGGTGATTTTGCGTAAAT 59.772 40.909 0.00 0.00 39.15 1.40
2301 2351 1.604755 AGTGCGGTGATTTTGCGTAAA 59.395 42.857 0.00 0.00 0.00 2.01
2302 2352 1.231221 AGTGCGGTGATTTTGCGTAA 58.769 45.000 0.00 0.00 0.00 3.18
2303 2353 1.069568 CAAGTGCGGTGATTTTGCGTA 60.070 47.619 0.00 0.00 0.00 4.42
2304 2354 0.317770 CAAGTGCGGTGATTTTGCGT 60.318 50.000 0.00 0.00 0.00 5.24
2305 2355 1.003262 CCAAGTGCGGTGATTTTGCG 61.003 55.000 0.00 0.00 0.00 4.85
2306 2356 1.284297 GCCAAGTGCGGTGATTTTGC 61.284 55.000 0.00 0.00 0.00 3.68
2307 2357 2.813100 GCCAAGTGCGGTGATTTTG 58.187 52.632 0.00 0.00 0.00 2.44
2317 2367 1.078708 TTACCCTAGCGCCAAGTGC 60.079 57.895 2.29 0.00 39.59 4.40
2318 2368 0.036765 TGTTACCCTAGCGCCAAGTG 60.037 55.000 2.29 0.00 0.00 3.16
2319 2369 0.688487 TTGTTACCCTAGCGCCAAGT 59.312 50.000 2.29 0.00 0.00 3.16
2320 2370 2.038387 ATTGTTACCCTAGCGCCAAG 57.962 50.000 2.29 1.15 0.00 3.61
2321 2371 2.500392 AATTGTTACCCTAGCGCCAA 57.500 45.000 2.29 0.00 0.00 4.52
2322 2372 2.500392 AAATTGTTACCCTAGCGCCA 57.500 45.000 2.29 0.00 0.00 5.69
2323 2373 6.428771 TGATATTAAATTGTTACCCTAGCGCC 59.571 38.462 2.29 0.00 0.00 6.53
2324 2374 7.041644 TGTGATATTAAATTGTTACCCTAGCGC 60.042 37.037 0.00 0.00 0.00 5.92
2325 2375 8.373048 TGTGATATTAAATTGTTACCCTAGCG 57.627 34.615 0.00 0.00 0.00 4.26
2340 2390 9.952030 TGTGTCCTGTCTTAAATGTGATATTAA 57.048 29.630 0.00 0.00 0.00 1.40
2341 2391 9.952030 TTGTGTCCTGTCTTAAATGTGATATTA 57.048 29.630 0.00 0.00 0.00 0.98
2342 2392 8.862325 TTGTGTCCTGTCTTAAATGTGATATT 57.138 30.769 0.00 0.00 0.00 1.28
2343 2393 8.862325 TTTGTGTCCTGTCTTAAATGTGATAT 57.138 30.769 0.00 0.00 0.00 1.63
2344 2394 8.862325 ATTTGTGTCCTGTCTTAAATGTGATA 57.138 30.769 0.00 0.00 0.00 2.15
2345 2395 7.765695 ATTTGTGTCCTGTCTTAAATGTGAT 57.234 32.000 0.00 0.00 0.00 3.06
2346 2396 8.564574 GTTATTTGTGTCCTGTCTTAAATGTGA 58.435 33.333 0.00 0.00 0.00 3.58
2347 2397 8.567948 AGTTATTTGTGTCCTGTCTTAAATGTG 58.432 33.333 0.00 0.00 0.00 3.21
2348 2398 8.691661 AGTTATTTGTGTCCTGTCTTAAATGT 57.308 30.769 0.00 0.00 0.00 2.71
2350 2400 9.227777 GGTAGTTATTTGTGTCCTGTCTTAAAT 57.772 33.333 0.00 0.00 0.00 1.40
2351 2401 7.385752 CGGTAGTTATTTGTGTCCTGTCTTAAA 59.614 37.037 0.00 0.00 0.00 1.52
2352 2402 6.869913 CGGTAGTTATTTGTGTCCTGTCTTAA 59.130 38.462 0.00 0.00 0.00 1.85
2353 2403 6.392354 CGGTAGTTATTTGTGTCCTGTCTTA 58.608 40.000 0.00 0.00 0.00 2.10
2354 2404 5.235516 CGGTAGTTATTTGTGTCCTGTCTT 58.764 41.667 0.00 0.00 0.00 3.01
2355 2405 4.817517 CGGTAGTTATTTGTGTCCTGTCT 58.182 43.478 0.00 0.00 0.00 3.41
2356 2406 3.370061 GCGGTAGTTATTTGTGTCCTGTC 59.630 47.826 0.00 0.00 0.00 3.51
2357 2407 3.244284 TGCGGTAGTTATTTGTGTCCTGT 60.244 43.478 0.00 0.00 0.00 4.00
2358 2408 3.331150 TGCGGTAGTTATTTGTGTCCTG 58.669 45.455 0.00 0.00 0.00 3.86
2359 2409 3.688694 TGCGGTAGTTATTTGTGTCCT 57.311 42.857 0.00 0.00 0.00 3.85
2360 2410 4.957759 ATTGCGGTAGTTATTTGTGTCC 57.042 40.909 0.00 0.00 0.00 4.02
2361 2411 4.557301 GCAATTGCGGTAGTTATTTGTGTC 59.443 41.667 15.87 0.00 0.00 3.67
2362 2412 4.481463 GCAATTGCGGTAGTTATTTGTGT 58.519 39.130 15.87 0.00 0.00 3.72
2377 2427 2.911819 TACAGTTTAGGCGCAATTGC 57.088 45.000 20.76 20.76 37.78 3.56
2378 2428 3.911964 GTGTTACAGTTTAGGCGCAATTG 59.088 43.478 10.83 4.71 0.00 2.32
2379 2429 3.364565 CGTGTTACAGTTTAGGCGCAATT 60.365 43.478 10.83 0.00 0.00 2.32
2380 2430 2.158841 CGTGTTACAGTTTAGGCGCAAT 59.841 45.455 10.83 0.00 0.00 3.56
2381 2431 1.527736 CGTGTTACAGTTTAGGCGCAA 59.472 47.619 10.83 0.00 0.00 4.85
2382 2432 1.141645 CGTGTTACAGTTTAGGCGCA 58.858 50.000 10.83 0.00 0.00 6.09
2383 2433 0.441145 CCGTGTTACAGTTTAGGCGC 59.559 55.000 0.00 0.00 0.00 6.53
2384 2434 1.990563 CTCCGTGTTACAGTTTAGGCG 59.009 52.381 0.00 0.00 0.00 5.52
2385 2435 1.730612 GCTCCGTGTTACAGTTTAGGC 59.269 52.381 0.00 0.00 0.00 3.93
2386 2436 3.034721 TGCTCCGTGTTACAGTTTAGG 57.965 47.619 0.00 0.00 0.00 2.69
2387 2437 4.688879 TCAATGCTCCGTGTTACAGTTTAG 59.311 41.667 0.00 0.00 0.00 1.85
2388 2438 4.633175 TCAATGCTCCGTGTTACAGTTTA 58.367 39.130 0.00 0.00 0.00 2.01
2389 2439 3.472652 TCAATGCTCCGTGTTACAGTTT 58.527 40.909 0.00 0.00 0.00 2.66
2390 2440 3.120321 TCAATGCTCCGTGTTACAGTT 57.880 42.857 0.00 0.00 0.00 3.16
2391 2441 2.831685 TCAATGCTCCGTGTTACAGT 57.168 45.000 0.00 0.00 0.00 3.55
2392 2442 3.663464 CATCAATGCTCCGTGTTACAG 57.337 47.619 0.00 0.00 0.00 2.74
2405 2455 4.365723 GCAACCAAATCCTAGCATCAATG 58.634 43.478 0.00 0.00 0.00 2.82
2406 2456 3.067180 CGCAACCAAATCCTAGCATCAAT 59.933 43.478 0.00 0.00 0.00 2.57
2407 2457 2.423185 CGCAACCAAATCCTAGCATCAA 59.577 45.455 0.00 0.00 0.00 2.57
2408 2458 2.016318 CGCAACCAAATCCTAGCATCA 58.984 47.619 0.00 0.00 0.00 3.07
2409 2459 2.288666 TCGCAACCAAATCCTAGCATC 58.711 47.619 0.00 0.00 0.00 3.91
2410 2460 2.418368 TCGCAACCAAATCCTAGCAT 57.582 45.000 0.00 0.00 0.00 3.79
2411 2461 2.192664 TTCGCAACCAAATCCTAGCA 57.807 45.000 0.00 0.00 0.00 3.49
2412 2462 3.242518 GTTTTCGCAACCAAATCCTAGC 58.757 45.455 0.00 0.00 0.00 3.42
2413 2463 4.475944 CTGTTTTCGCAACCAAATCCTAG 58.524 43.478 0.00 0.00 0.00 3.02
2414 2464 3.305064 GCTGTTTTCGCAACCAAATCCTA 60.305 43.478 0.00 0.00 0.00 2.94
2415 2465 2.545742 GCTGTTTTCGCAACCAAATCCT 60.546 45.455 0.00 0.00 0.00 3.24
2416 2466 1.792367 GCTGTTTTCGCAACCAAATCC 59.208 47.619 0.00 0.00 0.00 3.01
2417 2467 1.792367 GGCTGTTTTCGCAACCAAATC 59.208 47.619 0.00 0.00 0.00 2.17
2418 2468 1.137872 TGGCTGTTTTCGCAACCAAAT 59.862 42.857 0.00 0.00 32.32 2.32
2419 2469 0.532573 TGGCTGTTTTCGCAACCAAA 59.467 45.000 0.00 0.00 32.32 3.28
2420 2470 0.532573 TTGGCTGTTTTCGCAACCAA 59.467 45.000 0.00 0.00 40.88 3.67
2421 2471 0.532573 TTTGGCTGTTTTCGCAACCA 59.467 45.000 0.00 0.00 33.29 3.67
2422 2472 0.927537 GTTTGGCTGTTTTCGCAACC 59.072 50.000 0.00 0.00 0.00 3.77
2423 2473 0.927537 GGTTTGGCTGTTTTCGCAAC 59.072 50.000 0.00 0.00 0.00 4.17
2424 2474 0.526524 CGGTTTGGCTGTTTTCGCAA 60.527 50.000 0.00 0.00 0.00 4.85
2425 2475 1.064946 CGGTTTGGCTGTTTTCGCA 59.935 52.632 0.00 0.00 0.00 5.10
2426 2476 0.933047 GTCGGTTTGGCTGTTTTCGC 60.933 55.000 0.00 0.00 0.00 4.70
2427 2477 0.378962 TGTCGGTTTGGCTGTTTTCG 59.621 50.000 0.00 0.00 0.00 3.46
2428 2478 1.269051 CCTGTCGGTTTGGCTGTTTTC 60.269 52.381 0.00 0.00 0.00 2.29
2429 2479 0.744281 CCTGTCGGTTTGGCTGTTTT 59.256 50.000 0.00 0.00 0.00 2.43
2430 2480 0.395173 ACCTGTCGGTTTGGCTGTTT 60.395 50.000 0.00 0.00 42.13 2.83
2431 2481 1.101049 CACCTGTCGGTTTGGCTGTT 61.101 55.000 0.00 0.00 42.13 3.16
2432 2482 1.525995 CACCTGTCGGTTTGGCTGT 60.526 57.895 0.00 0.00 42.13 4.40
2433 2483 2.260869 CCACCTGTCGGTTTGGCTG 61.261 63.158 0.00 0.00 42.13 4.85
2434 2484 2.113139 CCACCTGTCGGTTTGGCT 59.887 61.111 0.00 0.00 42.13 4.75
2435 2485 2.983592 CCCACCTGTCGGTTTGGC 60.984 66.667 0.00 0.00 42.13 4.52
2436 2486 2.282180 CCCCACCTGTCGGTTTGG 60.282 66.667 0.00 0.00 42.13 3.28
2437 2487 2.983592 GCCCCACCTGTCGGTTTG 60.984 66.667 0.00 0.00 42.13 2.93
2438 2488 4.280019 GGCCCCACCTGTCGGTTT 62.280 66.667 0.00 0.00 42.13 3.27
2459 2509 2.279517 GCCACGTCAGCCCGATAG 60.280 66.667 0.00 0.00 0.00 2.08
2460 2510 4.201679 CGCCACGTCAGCCCGATA 62.202 66.667 1.66 0.00 0.00 2.92
2464 2514 4.373116 TCTTCGCCACGTCAGCCC 62.373 66.667 1.66 0.00 0.00 5.19
2465 2515 2.209064 TAGTCTTCGCCACGTCAGCC 62.209 60.000 1.66 0.00 0.00 4.85
2466 2516 0.179134 ATAGTCTTCGCCACGTCAGC 60.179 55.000 0.00 0.00 0.00 4.26
2467 2517 3.416119 TTATAGTCTTCGCCACGTCAG 57.584 47.619 0.00 0.00 0.00 3.51
2468 2518 3.192001 AGTTTATAGTCTTCGCCACGTCA 59.808 43.478 0.00 0.00 0.00 4.35
2469 2519 3.767278 AGTTTATAGTCTTCGCCACGTC 58.233 45.455 0.00 0.00 0.00 4.34
2470 2520 3.863142 AGTTTATAGTCTTCGCCACGT 57.137 42.857 0.00 0.00 0.00 4.49
2471 2521 4.624024 TCAAAGTTTATAGTCTTCGCCACG 59.376 41.667 0.00 0.00 0.00 4.94
2472 2522 5.163884 GGTCAAAGTTTATAGTCTTCGCCAC 60.164 44.000 0.00 0.00 0.00 5.01
2473 2523 4.933400 GGTCAAAGTTTATAGTCTTCGCCA 59.067 41.667 0.00 0.00 0.00 5.69
2474 2524 4.331992 GGGTCAAAGTTTATAGTCTTCGCC 59.668 45.833 0.00 0.00 0.00 5.54
2475 2525 4.933400 TGGGTCAAAGTTTATAGTCTTCGC 59.067 41.667 0.00 0.00 0.00 4.70
2476 2526 6.090898 CAGTGGGTCAAAGTTTATAGTCTTCG 59.909 42.308 0.00 0.00 0.00 3.79
2477 2527 7.159372 TCAGTGGGTCAAAGTTTATAGTCTTC 58.841 38.462 0.00 0.00 0.00 2.87
2478 2528 7.074653 TCAGTGGGTCAAAGTTTATAGTCTT 57.925 36.000 0.00 0.00 0.00 3.01
2479 2529 6.681729 TCAGTGGGTCAAAGTTTATAGTCT 57.318 37.500 0.00 0.00 0.00 3.24
2480 2530 6.879458 ACATCAGTGGGTCAAAGTTTATAGTC 59.121 38.462 0.00 0.00 0.00 2.59
2481 2531 6.655003 CACATCAGTGGGTCAAAGTTTATAGT 59.345 38.462 0.00 0.00 42.13 2.12
2482 2532 7.076842 CACATCAGTGGGTCAAAGTTTATAG 57.923 40.000 0.00 0.00 42.13 1.31
2484 2534 5.964958 CACATCAGTGGGTCAAAGTTTAT 57.035 39.130 0.00 0.00 42.13 1.40
2497 2547 2.819019 TGTACCATTTGCCACATCAGTG 59.181 45.455 0.00 0.00 45.47 3.66
2498 2548 3.153369 TGTACCATTTGCCACATCAGT 57.847 42.857 0.00 0.00 0.00 3.41
2499 2549 3.181484 CCATGTACCATTTGCCACATCAG 60.181 47.826 0.00 0.00 29.31 2.90
2500 2550 2.759535 CCATGTACCATTTGCCACATCA 59.240 45.455 0.00 0.00 29.31 3.07
2501 2551 2.101249 CCCATGTACCATTTGCCACATC 59.899 50.000 0.00 0.00 29.31 3.06
2502 2552 2.109774 CCCATGTACCATTTGCCACAT 58.890 47.619 0.00 0.00 31.91 3.21
2503 2553 1.554836 CCCATGTACCATTTGCCACA 58.445 50.000 0.00 0.00 0.00 4.17
2504 2554 0.175531 GCCCATGTACCATTTGCCAC 59.824 55.000 0.00 0.00 0.00 5.01
2505 2555 0.975040 GGCCCATGTACCATTTGCCA 60.975 55.000 0.00 0.00 37.36 4.92
2506 2556 0.975040 TGGCCCATGTACCATTTGCC 60.975 55.000 0.00 6.76 37.90 4.52
2507 2557 0.175531 GTGGCCCATGTACCATTTGC 59.824 55.000 0.00 0.00 38.46 3.68
2508 2558 1.204467 GTGTGGCCCATGTACCATTTG 59.796 52.381 0.00 0.00 38.46 2.32
2509 2559 1.555967 GTGTGGCCCATGTACCATTT 58.444 50.000 0.00 0.00 38.46 2.32
2510 2560 0.324275 GGTGTGGCCCATGTACCATT 60.324 55.000 0.00 0.00 38.46 3.16
2511 2561 1.214305 AGGTGTGGCCCATGTACCAT 61.214 55.000 14.65 1.21 38.46 3.55
2512 2562 1.850289 AGGTGTGGCCCATGTACCA 60.850 57.895 14.65 0.00 38.26 3.25
2513 2563 1.378514 CAGGTGTGGCCCATGTACC 60.379 63.158 0.00 6.66 38.26 3.34
2514 2564 0.676782 GACAGGTGTGGCCCATGTAC 60.677 60.000 0.00 0.00 38.26 2.90
2515 2565 1.130678 TGACAGGTGTGGCCCATGTA 61.131 55.000 0.00 0.00 38.26 2.29
2516 2566 2.005606 TTGACAGGTGTGGCCCATGT 62.006 55.000 0.00 0.00 38.26 3.21
2517 2567 0.612732 ATTGACAGGTGTGGCCCATG 60.613 55.000 0.00 0.00 38.26 3.66
2518 2568 0.114954 AATTGACAGGTGTGGCCCAT 59.885 50.000 0.00 0.00 38.26 4.00
2519 2569 0.774276 TAATTGACAGGTGTGGCCCA 59.226 50.000 0.00 0.00 38.26 5.36
2520 2570 1.173913 GTAATTGACAGGTGTGGCCC 58.826 55.000 0.00 0.00 38.26 5.80
2521 2571 2.200373 AGTAATTGACAGGTGTGGCC 57.800 50.000 0.00 0.00 37.58 5.36
2522 2572 3.933332 GTCTAGTAATTGACAGGTGTGGC 59.067 47.826 0.00 0.00 33.75 5.01
2523 2573 5.147330 TGTCTAGTAATTGACAGGTGTGG 57.853 43.478 3.35 0.00 38.15 4.17
2524 2574 6.873605 TGATTGTCTAGTAATTGACAGGTGTG 59.126 38.462 7.46 0.00 42.98 3.82
2525 2575 7.004555 TGATTGTCTAGTAATTGACAGGTGT 57.995 36.000 7.46 0.00 42.98 4.16
2526 2576 7.984050 AGATGATTGTCTAGTAATTGACAGGTG 59.016 37.037 7.46 0.00 42.98 4.00
2527 2577 8.083828 AGATGATTGTCTAGTAATTGACAGGT 57.916 34.615 7.46 1.89 42.98 4.00
2528 2578 9.469807 GTAGATGATTGTCTAGTAATTGACAGG 57.530 37.037 7.46 0.00 42.98 4.00


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

AutoCloner maintained by Alex Coulton.