Multiple sequence alignment - TraesCS4B01G014300

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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 TraesCS4B01G014300 chr4B 100.000 2694 0 0 1 2694 10435726 10438419 0.000000e+00 4975
1 TraesCS4B01G014300 chr4B 79.126 1442 182 71 1342 2692 10467910 10469323 0.000000e+00 885
2 TraesCS4B01G014300 chr4B 80.604 1026 119 40 1711 2685 10450946 10451942 0.000000e+00 719
3 TraesCS4B01G014300 chr4B 81.925 426 55 8 1 416 10407448 10407861 9.240000e-90 340
4 TraesCS4B01G014300 chr4B 81.046 306 45 10 2233 2531 10482866 10483165 5.800000e-57 231
5 TraesCS4B01G014300 chr4B 75.597 586 63 40 1096 1657 10450300 10450829 1.620000e-52 217
6 TraesCS4B01G014300 chr4A 91.004 956 49 20 552 1485 597755123 597754183 0.000000e+00 1254
7 TraesCS4B01G014300 chr4A 78.874 1581 179 61 1210 2692 597742450 597740927 0.000000e+00 926
8 TraesCS4B01G014300 chr4A 90.619 565 45 7 1 563 597756359 597755801 0.000000e+00 743
9 TraesCS4B01G014300 chr4A 84.742 426 52 8 1 416 597763777 597763355 5.370000e-112 414
10 TraesCS4B01G014300 chr4A 90.476 126 9 1 1097 1222 597742524 597742402 2.150000e-36 163
11 TraesCS4B01G014300 chr4A 86.957 115 4 5 1604 1707 597754022 597753908 4.710000e-23 119
12 TraesCS4B01G014300 chr4D 93.237 695 25 14 808 1485 5784390 5785079 0.000000e+00 1003
13 TraesCS4B01G014300 chr4D 79.689 1349 163 48 1428 2692 5788205 5789526 0.000000e+00 870
14 TraesCS4B01G014300 chr4D 79.305 633 94 19 1838 2464 5785501 5786102 2.500000e-110 409
15 TraesCS4B01G014300 chr4D 82.394 426 44 10 1 416 5721150 5721554 2.570000e-90 342
16 TraesCS4B01G014300 chr4D 88.333 120 3 5 1604 1712 5785239 5785358 1.680000e-27 134


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 TraesCS4B01G014300 chr4B 10435726 10438419 2693 False 4975.000000 4975 100.000000 1 2694 1 chr4B.!!$F2 2693
1 TraesCS4B01G014300 chr4B 10467910 10469323 1413 False 885.000000 885 79.126000 1342 2692 1 chr4B.!!$F3 1350
2 TraesCS4B01G014300 chr4B 10450300 10451942 1642 False 468.000000 719 78.100500 1096 2685 2 chr4B.!!$F5 1589
3 TraesCS4B01G014300 chr4A 597753908 597756359 2451 True 705.333333 1254 89.526667 1 1707 3 chr4A.!!$R3 1706
4 TraesCS4B01G014300 chr4A 597740927 597742524 1597 True 544.500000 926 84.675000 1097 2692 2 chr4A.!!$R2 1595
5 TraesCS4B01G014300 chr4D 5784390 5789526 5136 False 604.000000 1003 85.141000 808 2692 4 chr4D.!!$F2 1884

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
186 188 0.250038 CACATGCCCGAGACCTATGG 60.25 60.0 0.0 0.0 0.0 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2159 6266 0.033228 GCACCTCGAGCTAGCATCAT 59.967 55.0 18.83 0.0 0.0 2.45 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 9.832445 ATGTAGGTTTTCAGACAATATATTCGT 57.168 29.630 0.00 0.00 0.00 3.85
112 114 3.793559 AGCTAACAATCCGCGAGTTATT 58.206 40.909 8.23 0.00 0.00 1.40
129 131 6.128902 CGAGTTATTGAGTTGTCCACAAGTAC 60.129 42.308 0.00 0.00 39.43 2.73
130 132 6.827727 AGTTATTGAGTTGTCCACAAGTACT 58.172 36.000 0.00 0.00 39.43 2.73
160 162 3.304525 GGACATCCGACACCTACTATTCG 60.305 52.174 0.00 0.00 0.00 3.34
186 188 0.250038 CACATGCCCGAGACCTATGG 60.250 60.000 0.00 0.00 0.00 2.74
191 193 1.075525 CCCGAGACCTATGGACCCA 60.076 63.158 0.00 0.00 0.00 4.51
220 222 5.163581 GGGGTGATTCAGATTGTTGATCAAG 60.164 44.000 8.80 0.00 39.55 3.02
229 231 5.450376 GATTGTTGATCAAGCTTTGCATG 57.550 39.130 8.80 0.00 39.10 4.06
236 238 2.241160 TCAAGCTTTGCATGTGGACAT 58.759 42.857 0.00 0.00 36.96 3.06
239 241 4.463539 TCAAGCTTTGCATGTGGACATATT 59.536 37.500 0.00 0.00 34.26 1.28
247 249 3.067180 GCATGTGGACATATTGGGTTCAG 59.933 47.826 0.00 0.00 34.26 3.02
256 258 4.336433 ACATATTGGGTTCAGCAATCTTCG 59.664 41.667 0.00 0.00 0.00 3.79
265 267 3.002791 TCAGCAATCTTCGAACACATCC 58.997 45.455 0.00 0.00 0.00 3.51
266 268 3.005554 CAGCAATCTTCGAACACATCCT 58.994 45.455 0.00 0.00 0.00 3.24
304 306 6.191657 TGAACATCTGGCTATACATCCAAT 57.808 37.500 0.00 0.00 30.98 3.16
328 330 6.151691 TGTTGAATTTCAAGCAAGTGATAGC 58.848 36.000 12.02 0.00 37.00 2.97
408 410 3.003173 CAGGAGACGAAGGGGCCA 61.003 66.667 4.39 0.00 0.00 5.36
414 416 1.966451 GACGAAGGGGCCACACTTG 60.966 63.158 8.31 0.00 0.00 3.16
474 476 5.455392 CACTCTTGTGTTCTTGCTTAATGG 58.545 41.667 0.00 0.00 39.24 3.16
477 479 2.591923 TGTGTTCTTGCTTAATGGCCA 58.408 42.857 8.56 8.56 0.00 5.36
499 501 2.203972 TAGGACGCCGTGTAGTGTGC 62.204 60.000 0.00 0.00 38.71 4.57
500 502 2.355363 GACGCCGTGTAGTGTGCA 60.355 61.111 0.00 0.00 0.00 4.57
501 503 1.736645 GACGCCGTGTAGTGTGCAT 60.737 57.895 0.00 0.00 0.00 3.96
502 504 1.289109 GACGCCGTGTAGTGTGCATT 61.289 55.000 0.00 0.00 0.00 3.56
507 509 0.442310 CGTGTAGTGTGCATTTCCCG 59.558 55.000 0.00 0.00 0.00 5.14
508 510 1.803334 GTGTAGTGTGCATTTCCCGA 58.197 50.000 0.00 0.00 0.00 5.14
530 532 3.468770 TGCATTGTTTTTGCATTGCTCT 58.531 36.364 10.49 0.00 44.73 4.09
531 533 3.495377 TGCATTGTTTTTGCATTGCTCTC 59.505 39.130 10.49 0.00 44.73 3.20
535 537 6.073657 GCATTGTTTTTGCATTGCTCTCTTTA 60.074 34.615 10.49 0.00 40.50 1.85
543 545 6.187125 TGCATTGCTCTCTTTATTTGTCTC 57.813 37.500 10.49 0.00 0.00 3.36
590 1283 6.187727 TGTAAGAAGATTTCCTCAACACCT 57.812 37.500 0.00 0.00 0.00 4.00
602 1295 3.120199 CCTCAACACCTTTGTATTGCTCG 60.120 47.826 0.00 0.00 33.55 5.03
609 1302 4.154015 CACCTTTGTATTGCTCGATTGTCA 59.846 41.667 0.00 0.00 0.00 3.58
615 1308 1.896220 TTGCTCGATTGTCAGGCTTT 58.104 45.000 0.00 0.00 0.00 3.51
627 1320 9.318041 CGATTGTCAGGCTTTATTTATAAATCG 57.682 33.333 13.95 4.18 32.36 3.34
629 1322 7.504924 TGTCAGGCTTTATTTATAAATCGGG 57.495 36.000 13.95 6.85 32.36 5.14
634 1327 4.320641 GCTTTATTTATAAATCGGGGCGCA 60.321 41.667 13.95 0.00 32.36 6.09
664 1357 9.289782 CTATTTTGGGGATAAATGGTTAGAGAG 57.710 37.037 0.00 0.00 0.00 3.20
669 1362 4.505742 GGGATAAATGGTTAGAGAGGGCAG 60.506 50.000 0.00 0.00 0.00 4.85
687 1380 8.557450 AGAGGGCAGTAAGGAAATAAGAAAATA 58.443 33.333 0.00 0.00 0.00 1.40
699 1392 1.161843 AGAAAATAACCCACGCACGG 58.838 50.000 0.00 0.00 0.00 4.94
704 1397 1.729284 ATAACCCACGCACGGTAAAG 58.271 50.000 0.00 0.00 31.69 1.85
705 1398 0.392336 TAACCCACGCACGGTAAAGT 59.608 50.000 0.00 0.00 31.69 2.66
770 1468 9.859427 TTTCAAGCATAAATGGTTAGAGAAATG 57.141 29.630 7.05 0.00 45.69 2.32
771 1469 7.483307 TCAAGCATAAATGGTTAGAGAAATGC 58.517 34.615 7.05 0.00 45.69 3.56
773 1471 7.269477 AGCATAAATGGTTAGAGAAATGCTC 57.731 36.000 0.00 0.00 43.89 4.26
791 1490 5.220710 TGCTCTTAGGATTCAGGAATAGC 57.779 43.478 5.63 5.63 0.00 2.97
805 1504 4.512944 CAGGAATAGCATAGACGCATTTGT 59.487 41.667 0.00 0.00 0.00 2.83
854 1554 1.905354 GCACAAAGCTTGCCTCCCT 60.905 57.895 0.00 0.00 41.15 4.20
897 1597 5.285651 CCAACGCTTTCCTTGTTTGATTAA 58.714 37.500 0.00 0.00 0.00 1.40
898 1598 5.402270 CCAACGCTTTCCTTGTTTGATTAAG 59.598 40.000 0.00 0.00 0.00 1.85
899 1599 4.546570 ACGCTTTCCTTGTTTGATTAAGC 58.453 39.130 0.00 0.00 34.67 3.09
900 1600 4.037446 ACGCTTTCCTTGTTTGATTAAGCA 59.963 37.500 0.00 0.00 37.07 3.91
906 1606 3.305539 CCTTGTTTGATTAAGCAGCAGCA 60.306 43.478 3.17 0.00 45.49 4.41
907 1607 3.287312 TGTTTGATTAAGCAGCAGCAC 57.713 42.857 3.17 0.00 45.49 4.40
912 1612 1.262683 GATTAAGCAGCAGCACGATCC 59.737 52.381 3.17 0.00 45.49 3.36
967 1667 2.484770 CGTTTCTTCAGACACCCTCCAA 60.485 50.000 0.00 0.00 0.00 3.53
1076 1778 1.162698 CATCCCATTAGCATCGCCAG 58.837 55.000 0.00 0.00 0.00 4.85
1228 1977 2.357034 GCACAAGAAGGACGGCGA 60.357 61.111 16.62 0.00 0.00 5.54
1229 1978 2.383527 GCACAAGAAGGACGGCGAG 61.384 63.158 16.62 0.00 0.00 5.03
1230 1979 2.048127 ACAAGAAGGACGGCGAGC 60.048 61.111 16.62 4.71 0.00 5.03
1231 1980 2.048222 CAAGAAGGACGGCGAGCA 60.048 61.111 16.62 0.00 0.00 4.26
1232 1981 2.048127 AAGAAGGACGGCGAGCAC 60.048 61.111 16.62 0.00 0.00 4.40
1233 1982 2.867855 AAGAAGGACGGCGAGCACA 61.868 57.895 16.62 0.00 0.00 4.57
1234 1983 2.357034 GAAGGACGGCGAGCACAA 60.357 61.111 16.62 0.00 0.00 3.33
1235 1984 2.357517 AAGGACGGCGAGCACAAG 60.358 61.111 16.62 0.00 0.00 3.16
1236 1985 2.765250 GAAGGACGGCGAGCACAAGA 62.765 60.000 16.62 0.00 0.00 3.02
1237 1986 2.357034 GGACGGCGAGCACAAGAA 60.357 61.111 16.62 0.00 0.00 2.52
1238 1987 2.383527 GGACGGCGAGCACAAGAAG 61.384 63.158 16.62 0.00 0.00 2.85
1239 1988 2.357517 ACGGCGAGCACAAGAAGG 60.358 61.111 16.62 0.00 0.00 3.46
1240 1989 2.048222 CGGCGAGCACAAGAAGGA 60.048 61.111 0.00 0.00 0.00 3.36
1241 1990 2.383527 CGGCGAGCACAAGAAGGAC 61.384 63.158 0.00 0.00 0.00 3.85
1242 1991 2.383527 GGCGAGCACAAGAAGGACG 61.384 63.158 0.00 0.00 0.00 4.79
1243 1992 2.383527 GCGAGCACAAGAAGGACGG 61.384 63.158 0.00 0.00 0.00 4.79
1244 1993 1.738099 CGAGCACAAGAAGGACGGG 60.738 63.158 0.00 0.00 0.00 5.28
1245 1994 1.376037 GAGCACAAGAAGGACGGGG 60.376 63.158 0.00 0.00 0.00 5.73
1325 2074 2.815647 GGCAAGAAGGACGGCGAG 60.816 66.667 16.62 0.00 0.00 5.03
1463 2234 2.126773 CGCGTGCAGGTACGTACA 60.127 61.111 26.02 3.72 45.36 2.90
1485 2256 2.264794 GTGGTCGCCGTCTCCATT 59.735 61.111 2.57 0.00 33.68 3.16
1487 2258 2.279810 TGGTCGCCGTCTCCATTCA 61.280 57.895 0.00 0.00 0.00 2.57
1490 2261 1.521457 TCGCCGTCTCCATTCATGC 60.521 57.895 0.00 0.00 0.00 4.06
1493 2264 1.766143 GCCGTCTCCATTCATGCGTC 61.766 60.000 0.00 0.00 0.00 5.19
1494 2265 0.460109 CCGTCTCCATTCATGCGTCA 60.460 55.000 0.00 0.00 0.00 4.35
1495 2266 1.358877 CGTCTCCATTCATGCGTCAA 58.641 50.000 0.00 0.00 0.00 3.18
1496 2267 1.061131 CGTCTCCATTCATGCGTCAAC 59.939 52.381 0.00 0.00 0.00 3.18
1497 2268 2.350522 GTCTCCATTCATGCGTCAACT 58.649 47.619 0.00 0.00 0.00 3.16
1498 2269 2.349886 GTCTCCATTCATGCGTCAACTC 59.650 50.000 0.00 0.00 0.00 3.01
1499 2270 1.667724 CTCCATTCATGCGTCAACTCC 59.332 52.381 0.00 0.00 0.00 3.85
1501 2272 1.667724 CCATTCATGCGTCAACTCCTC 59.332 52.381 0.00 0.00 0.00 3.71
1502 2273 2.349590 CATTCATGCGTCAACTCCTCA 58.650 47.619 0.00 0.00 0.00 3.86
1503 2274 1.795768 TTCATGCGTCAACTCCTCAC 58.204 50.000 0.00 0.00 0.00 3.51
1504 2275 0.037326 TCATGCGTCAACTCCTCACC 60.037 55.000 0.00 0.00 0.00 4.02
1505 2276 0.036952 CATGCGTCAACTCCTCACCT 60.037 55.000 0.00 0.00 0.00 4.00
1506 2277 0.687354 ATGCGTCAACTCCTCACCTT 59.313 50.000 0.00 0.00 0.00 3.50
1507 2278 0.468226 TGCGTCAACTCCTCACCTTT 59.532 50.000 0.00 0.00 0.00 3.11
1508 2279 1.134220 TGCGTCAACTCCTCACCTTTT 60.134 47.619 0.00 0.00 0.00 2.27
1509 2280 1.531578 GCGTCAACTCCTCACCTTTTC 59.468 52.381 0.00 0.00 0.00 2.29
1510 2281 2.143925 CGTCAACTCCTCACCTTTTCC 58.856 52.381 0.00 0.00 0.00 3.13
1511 2282 2.224305 CGTCAACTCCTCACCTTTTCCT 60.224 50.000 0.00 0.00 0.00 3.36
1512 2283 3.744530 CGTCAACTCCTCACCTTTTCCTT 60.745 47.826 0.00 0.00 0.00 3.36
1513 2284 3.815962 GTCAACTCCTCACCTTTTCCTTC 59.184 47.826 0.00 0.00 0.00 3.46
1518 2289 2.907042 TCCTCACCTTTTCCTTCTCCTC 59.093 50.000 0.00 0.00 0.00 3.71
1529 2300 1.541233 CCTTCTCCTCTGTGTTTGCGT 60.541 52.381 0.00 0.00 0.00 5.24
1534 2305 0.868406 CCTCTGTGTTTGCGTTCTCC 59.132 55.000 0.00 0.00 0.00 3.71
1535 2306 0.508641 CTCTGTGTTTGCGTTCTCCG 59.491 55.000 0.00 0.00 40.40 4.63
1551 2322 3.437213 TCTCCGGTTCTTGTTGGATCTA 58.563 45.455 0.00 0.00 0.00 1.98
1582 5585 2.529780 TTTGATTTTGCAGTGCAGGG 57.470 45.000 18.81 0.00 40.61 4.45
1591 5595 1.028868 GCAGTGCAGGGGAGATGAAC 61.029 60.000 11.09 0.00 0.00 3.18
1594 5598 2.892425 GCAGGGGAGATGAACGCG 60.892 66.667 3.53 3.53 0.00 6.01
1659 5699 5.937975 TGACATGTCTCATGGATCTTGTA 57.062 39.130 25.55 0.00 0.00 2.41
1804 5885 3.218453 GTTCATCTCTGGATCTCTCCGA 58.782 50.000 0.00 0.00 45.37 4.55
1849 5930 5.278315 GGGATCGTTTAGGAATGGTTATTGC 60.278 44.000 0.00 0.00 35.12 3.56
1854 5935 6.207810 TCGTTTAGGAATGGTTATTGCTGTTT 59.792 34.615 4.58 0.00 43.68 2.83
1856 5937 8.024285 CGTTTAGGAATGGTTATTGCTGTTTTA 58.976 33.333 4.58 0.00 43.68 1.52
1859 5941 6.924111 AGGAATGGTTATTGCTGTTTTACTG 58.076 36.000 0.00 0.00 42.50 2.74
1884 5966 6.494666 TCCTCTTTTCAGTTTCAGAACCTA 57.505 37.500 0.00 0.00 36.39 3.08
1906 5988 2.687935 TGTGGTGCTCTGTTTTCTTTCC 59.312 45.455 0.00 0.00 0.00 3.13
1914 6001 4.735338 GCTCTGTTTTCTTTCCGAGTTTTG 59.265 41.667 0.00 0.00 0.00 2.44
1915 6002 4.668289 TCTGTTTTCTTTCCGAGTTTTGC 58.332 39.130 0.00 0.00 0.00 3.68
1916 6003 4.398044 TCTGTTTTCTTTCCGAGTTTTGCT 59.602 37.500 0.00 0.00 0.00 3.91
1920 6007 3.691049 TCTTTCCGAGTTTTGCTTGTG 57.309 42.857 0.00 0.00 0.00 3.33
1925 6012 1.469917 CGAGTTTTGCTTGTGTGCAG 58.530 50.000 0.00 0.00 44.27 4.41
1955 6042 4.035278 TGTTTTTCGCTTTCGGATTTGT 57.965 36.364 0.00 0.00 36.13 2.83
1958 6045 0.947960 TTCGCTTTCGGATTTGTGCA 59.052 45.000 0.00 0.00 36.13 4.57
1959 6046 0.516877 TCGCTTTCGGATTTGTGCAG 59.483 50.000 0.00 0.00 36.13 4.41
1960 6047 0.238289 CGCTTTCGGATTTGTGCAGT 59.762 50.000 0.00 0.00 0.00 4.40
1961 6048 1.334960 CGCTTTCGGATTTGTGCAGTT 60.335 47.619 0.00 0.00 0.00 3.16
1962 6049 2.053627 GCTTTCGGATTTGTGCAGTTG 58.946 47.619 0.00 0.00 0.00 3.16
1963 6050 2.543653 GCTTTCGGATTTGTGCAGTTGT 60.544 45.455 0.00 0.00 0.00 3.32
1964 6051 2.772568 TTCGGATTTGTGCAGTTGTG 57.227 45.000 0.00 0.00 0.00 3.33
1979 6066 4.096682 GCAGTTGTGCCCGGTATTAATTTA 59.903 41.667 0.00 0.00 44.72 1.40
1980 6067 5.732247 GCAGTTGTGCCCGGTATTAATTTAG 60.732 44.000 0.00 0.00 44.72 1.85
1983 6070 3.151554 GTGCCCGGTATTAATTTAGGGG 58.848 50.000 17.88 13.38 39.24 4.79
1984 6071 2.108601 TGCCCGGTATTAATTTAGGGGG 59.891 50.000 17.88 12.06 39.24 5.40
2025 6120 3.245016 TGTTCCTCACAAGAGCCAATCAT 60.245 43.478 0.00 0.00 40.68 2.45
2034 6129 9.022761 CTCACAAGAGCCAATCATCACATGATT 62.023 40.741 0.00 5.99 45.91 2.57
2059 6166 9.891828 TTTACCAAAAATATATCGCATCACATC 57.108 29.630 0.00 0.00 0.00 3.06
2071 6178 3.739810 CGCATCACATCTAGAATGGTCAG 59.260 47.826 0.00 0.00 0.00 3.51
2091 6198 7.013559 TGGTCAGCCATGTTATATCATCAAAAG 59.986 37.037 0.00 0.00 40.46 2.27
2100 6207 8.072238 TGTTATATCATCAAAAGGACGATTCG 57.928 34.615 4.14 4.14 29.87 3.34
2107 6214 2.814913 AAAGGACGATTCGGCACCCC 62.815 60.000 14.90 5.11 36.10 4.95
2142 6249 5.871524 GCTATACGTACTAAATTTAGCCCCC 59.128 44.000 22.45 8.90 34.09 5.40
2158 6265 1.149174 CCCTGTCATTGCGGGCTAT 59.851 57.895 0.00 0.00 33.60 2.97
2159 6266 0.396435 CCCTGTCATTGCGGGCTATA 59.604 55.000 0.00 0.00 33.60 1.31
2167 6285 3.197549 TCATTGCGGGCTATATGATGCTA 59.802 43.478 0.00 0.00 0.00 3.49
2168 6286 2.967599 TGCGGGCTATATGATGCTAG 57.032 50.000 0.00 0.00 0.00 3.42
2170 6288 1.137872 GCGGGCTATATGATGCTAGCT 59.862 52.381 17.23 0.83 40.17 3.32
2171 6289 2.801342 GCGGGCTATATGATGCTAGCTC 60.801 54.545 17.23 11.33 40.17 4.09
2181 6299 1.406065 ATGCTAGCTCGAGGTGCCAT 61.406 55.000 26.70 22.51 0.00 4.40
2189 6307 0.689412 TCGAGGTGCCATGTATCCCA 60.689 55.000 0.00 0.00 0.00 4.37
2191 6309 1.811558 CGAGGTGCCATGTATCCCAAG 60.812 57.143 0.00 0.00 0.00 3.61
2209 6327 4.577283 CCCAAGTGTTCTCCGAAACTAAAA 59.423 41.667 0.00 0.00 0.00 1.52
2210 6328 5.240844 CCCAAGTGTTCTCCGAAACTAAAAT 59.759 40.000 0.00 0.00 0.00 1.82
2234 6352 5.465532 TCATGATACTTGATCTCTCTGCC 57.534 43.478 0.00 0.00 35.37 4.85
2242 6360 2.362329 GATCTCTCTGCCGGAGCACC 62.362 65.000 5.05 0.00 46.52 5.01
2263 6381 4.264623 ACCTCATCCTCTCCTAACTGAACT 60.265 45.833 0.00 0.00 0.00 3.01
2271 6389 5.188751 CCTCTCCTAACTGAACTTCTTCCAT 59.811 44.000 0.00 0.00 0.00 3.41
2272 6390 6.296145 CCTCTCCTAACTGAACTTCTTCCATT 60.296 42.308 0.00 0.00 0.00 3.16
2274 6392 5.003804 TCCTAACTGAACTTCTTCCATTGC 58.996 41.667 0.00 0.00 0.00 3.56
2277 6395 5.382618 AACTGAACTTCTTCCATTGCATC 57.617 39.130 0.00 0.00 0.00 3.91
2287 6405 2.083774 TCCATTGCATCGTCTTGAACC 58.916 47.619 0.00 0.00 0.00 3.62
2318 6436 8.721133 ACACATAAGAAAAGGGTTAATTCCTT 57.279 30.769 7.11 7.11 45.73 3.36
2327 6445 4.119918 AGGGTTAATTCCTTAGGCCTCTT 58.880 43.478 9.68 0.00 0.00 2.85
2335 6454 6.582929 ATTCCTTAGGCCTCTTGTTTCTAT 57.417 37.500 9.68 0.00 0.00 1.98
2339 6458 8.974292 TCCTTAGGCCTCTTGTTTCTATATAT 57.026 34.615 9.68 0.00 0.00 0.86
2413 6532 5.992217 AGTATCCCATTCGATTCAAAGCTAC 59.008 40.000 0.00 0.00 0.00 3.58
2443 6565 4.946772 CAGTAGTGACAGATCAAGGAGAGA 59.053 45.833 0.00 0.00 36.31 3.10
2445 6567 3.096092 AGTGACAGATCAAGGAGAGACC 58.904 50.000 0.00 0.00 36.31 3.85
2502 6624 9.539825 CTGCTTTTGTGAAGATATCTAGTGTAT 57.460 33.333 5.46 0.00 0.00 2.29
2528 6662 2.053747 AGGTGGTGGGTGGAATTCTA 57.946 50.000 5.23 0.00 0.00 2.10
2551 6685 2.346766 TAGCTGCATAACCCATGTGG 57.653 50.000 1.02 0.00 36.95 4.17
2590 6724 7.707624 ATGGCTCAAGACAAATGAAAGATAA 57.292 32.000 0.00 0.00 36.16 1.75
2596 6730 6.708502 TCAAGACAAATGAAAGATAACCACGA 59.291 34.615 0.00 0.00 0.00 4.35
2609 6744 1.003112 CCACGATTGGGACCGGAAA 60.003 57.895 9.46 0.00 39.57 3.13
2610 6745 0.393808 CCACGATTGGGACCGGAAAT 60.394 55.000 9.46 1.88 39.57 2.17
2613 6760 1.014352 CGATTGGGACCGGAAATGTC 58.986 55.000 9.46 0.00 0.00 3.06
2625 6772 4.022329 ACCGGAAATGTCACCTTGATTTTC 60.022 41.667 9.46 6.22 33.93 2.29
2630 6779 7.865385 CGGAAATGTCACCTTGATTTTCTAAAA 59.135 33.333 11.31 0.00 34.54 1.52
2631 6780 9.196552 GGAAATGTCACCTTGATTTTCTAAAAG 57.803 33.333 11.31 0.00 34.54 2.27
2632 6781 9.965824 GAAATGTCACCTTGATTTTCTAAAAGA 57.034 29.630 0.00 0.00 32.93 2.52
2634 6783 9.918630 AATGTCACCTTGATTTTCTAAAAGATG 57.081 29.630 0.00 0.00 0.00 2.90
2635 6784 7.370383 TGTCACCTTGATTTTCTAAAAGATGC 58.630 34.615 0.00 0.00 0.00 3.91
2636 6785 7.014134 TGTCACCTTGATTTTCTAAAAGATGCA 59.986 33.333 0.00 0.00 0.00 3.96
2637 6786 7.327032 GTCACCTTGATTTTCTAAAAGATGCAC 59.673 37.037 0.00 0.00 0.00 4.57
2638 6787 6.587608 CACCTTGATTTTCTAAAAGATGCACC 59.412 38.462 0.00 0.00 0.00 5.01
2656 6805 2.359531 CACCTAGTCACGGGAAGAGATC 59.640 54.545 0.00 0.00 0.00 2.75
2659 6808 1.038130 AGTCACGGGAAGAGATCGGG 61.038 60.000 0.00 0.00 0.00 5.14
2692 6843 8.598041 AGATGAGCTCTTTTTAAAGAACCTCTA 58.402 33.333 16.19 13.80 43.84 2.43
2693 6844 8.785329 ATGAGCTCTTTTTAAAGAACCTCTAG 57.215 34.615 16.19 7.22 43.84 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
94 96 4.751060 ACTCAATAACTCGCGGATTGTTA 58.249 39.130 6.13 11.30 33.27 2.41
136 138 1.765230 AGTAGGTGTCGGATGTCCTC 58.235 55.000 0.00 0.00 0.00 3.71
191 193 4.598036 ACAATCTGAATCACCCCAAGAT 57.402 40.909 0.00 0.00 0.00 2.40
220 222 3.450578 CCAATATGTCCACATGCAAAGC 58.549 45.455 2.26 0.00 37.15 3.51
223 225 3.098774 ACCCAATATGTCCACATGCAA 57.901 42.857 2.26 0.00 37.15 4.08
229 231 2.722094 TGCTGAACCCAATATGTCCAC 58.278 47.619 0.00 0.00 0.00 4.02
236 238 4.214986 TCGAAGATTGCTGAACCCAATA 57.785 40.909 0.00 0.00 33.34 1.90
239 241 2.151202 GTTCGAAGATTGCTGAACCCA 58.849 47.619 0.00 0.00 35.77 4.51
247 249 3.265791 AGAGGATGTGTTCGAAGATTGC 58.734 45.455 0.00 0.00 35.04 3.56
256 258 3.181491 CGGAAGAGAGAGAGGATGTGTTC 60.181 52.174 0.00 0.00 0.00 3.18
265 267 3.020274 TGTTCATCCGGAAGAGAGAGAG 58.980 50.000 9.01 0.00 35.82 3.20
266 268 3.087370 TGTTCATCCGGAAGAGAGAGA 57.913 47.619 9.01 0.00 35.82 3.10
304 306 6.151691 GCTATCACTTGCTTGAAATTCAACA 58.848 36.000 4.03 5.73 32.21 3.33
408 410 1.227853 GCGGAGGTTGACCAAGTGT 60.228 57.895 2.56 0.00 38.89 3.55
414 416 2.109126 GCATCTGCGGAGGTTGACC 61.109 63.158 9.26 0.00 0.00 4.02
474 476 1.731433 TACACGGCGTCCTATCTGGC 61.731 60.000 10.85 0.00 35.26 4.85
477 479 1.022735 CACTACACGGCGTCCTATCT 58.977 55.000 10.85 0.00 0.00 1.98
487 489 0.802494 GGGAAATGCACACTACACGG 59.198 55.000 0.00 0.00 0.00 4.94
499 501 4.669708 GCAAAAACAATGCATCGGGAAATG 60.670 41.667 0.00 0.00 43.29 2.32
500 502 3.436359 GCAAAAACAATGCATCGGGAAAT 59.564 39.130 0.00 0.00 43.29 2.17
501 503 2.805099 GCAAAAACAATGCATCGGGAAA 59.195 40.909 0.00 0.00 43.29 3.13
502 504 2.411904 GCAAAAACAATGCATCGGGAA 58.588 42.857 0.00 0.00 43.29 3.97
561 1252 7.231317 TGTTGAGGAAATCTTCTTACAAAGCAT 59.769 33.333 0.00 0.00 0.00 3.79
564 1255 7.229506 AGGTGTTGAGGAAATCTTCTTACAAAG 59.770 37.037 0.00 0.00 0.00 2.77
581 1274 3.745975 TCGAGCAATACAAAGGTGTTGAG 59.254 43.478 8.25 0.39 45.73 3.02
590 1283 3.126858 GCCTGACAATCGAGCAATACAAA 59.873 43.478 0.00 0.00 0.00 2.83
602 1295 9.612620 CCGATTTATAAATAAAGCCTGACAATC 57.387 33.333 10.68 0.00 35.78 2.67
609 1302 4.457949 CGCCCCGATTTATAAATAAAGCCT 59.542 41.667 10.68 0.00 35.78 4.58
615 1308 4.453136 GTCTTGCGCCCCGATTTATAAATA 59.547 41.667 10.68 0.00 0.00 1.40
627 1320 0.455815 CCAAAATAGTCTTGCGCCCC 59.544 55.000 4.18 0.00 0.00 5.80
629 1322 0.455815 CCCCAAAATAGTCTTGCGCC 59.544 55.000 4.18 0.00 0.00 6.53
634 1327 9.421399 CTAACCATTTATCCCCAAAATAGTCTT 57.579 33.333 0.00 0.00 0.00 3.01
646 1339 3.394606 TGCCCTCTCTAACCATTTATCCC 59.605 47.826 0.00 0.00 0.00 3.85
648 1341 5.297569 ACTGCCCTCTCTAACCATTTATC 57.702 43.478 0.00 0.00 0.00 1.75
664 1357 8.195436 GGTTATTTTCTTATTTCCTTACTGCCC 58.805 37.037 0.00 0.00 0.00 5.36
669 1362 7.699391 GCGTGGGTTATTTTCTTATTTCCTTAC 59.301 37.037 0.00 0.00 0.00 2.34
687 1380 1.146707 ACTTTACCGTGCGTGGGTT 59.853 52.632 0.00 0.00 38.99 4.11
732 1425 8.872845 CATTTATGCTTGAAATAGGTTTTCACC 58.127 33.333 0.49 0.00 44.67 4.02
747 1443 7.486647 AGCATTTCTCTAACCATTTATGCTTG 58.513 34.615 0.00 0.00 43.37 4.01
769 1467 4.655649 TGCTATTCCTGAATCCTAAGAGCA 59.344 41.667 8.09 8.09 34.45 4.26
770 1468 5.220710 TGCTATTCCTGAATCCTAAGAGC 57.779 43.478 0.00 0.07 32.50 4.09
771 1469 8.250332 GTCTATGCTATTCCTGAATCCTAAGAG 58.750 40.741 0.00 0.00 32.50 2.85
772 1470 7.094162 CGTCTATGCTATTCCTGAATCCTAAGA 60.094 40.741 0.00 0.00 32.50 2.10
773 1471 7.032580 CGTCTATGCTATTCCTGAATCCTAAG 58.967 42.308 0.00 0.00 32.50 2.18
791 1490 4.363138 TCTGCTCTACAAATGCGTCTATG 58.637 43.478 0.00 0.00 0.00 2.23
805 1504 1.200716 CGTACCAACCGTTCTGCTCTA 59.799 52.381 0.00 0.00 0.00 2.43
854 1554 1.835121 CGACCGACAGCGATTATTGA 58.165 50.000 0.00 0.00 40.82 2.57
897 1597 2.967929 GATCGGATCGTGCTGCTGCT 62.968 60.000 17.00 0.00 40.48 4.24
898 1598 2.587194 ATCGGATCGTGCTGCTGC 60.587 61.111 8.89 8.89 40.20 5.25
899 1599 0.938637 GAGATCGGATCGTGCTGCTG 60.939 60.000 12.08 0.00 0.00 4.41
900 1600 1.106351 AGAGATCGGATCGTGCTGCT 61.106 55.000 12.08 2.45 0.00 4.24
906 1606 1.144093 AGGAGGAAGAGATCGGATCGT 59.856 52.381 12.08 1.51 0.00 3.73
907 1607 1.810151 GAGGAGGAAGAGATCGGATCG 59.190 57.143 12.08 0.00 0.00 3.69
912 1612 3.761752 GGATAAGGAGGAGGAAGAGATCG 59.238 52.174 0.00 0.00 0.00 3.69
987 1687 3.761690 TTATAGGCCGGCGAGGGGT 62.762 63.158 22.54 5.47 41.48 4.95
1076 1778 3.008049 TGGCTACTTCTCTCCAAGGAAAC 59.992 47.826 0.00 0.00 0.00 2.78
1228 1977 1.831652 CTCCCCGTCCTTCTTGTGCT 61.832 60.000 0.00 0.00 0.00 4.40
1229 1978 1.376037 CTCCCCGTCCTTCTTGTGC 60.376 63.158 0.00 0.00 0.00 4.57
1230 1979 1.376037 GCTCCCCGTCCTTCTTGTG 60.376 63.158 0.00 0.00 0.00 3.33
1231 1980 1.841556 TGCTCCCCGTCCTTCTTGT 60.842 57.895 0.00 0.00 0.00 3.16
1232 1981 1.376037 GTGCTCCCCGTCCTTCTTG 60.376 63.158 0.00 0.00 0.00 3.02
1233 1982 1.415672 TTGTGCTCCCCGTCCTTCTT 61.416 55.000 0.00 0.00 0.00 2.52
1234 1983 1.831652 CTTGTGCTCCCCGTCCTTCT 61.832 60.000 0.00 0.00 0.00 2.85
1235 1984 1.376037 CTTGTGCTCCCCGTCCTTC 60.376 63.158 0.00 0.00 0.00 3.46
1236 1985 2.750350 CTTGTGCTCCCCGTCCTT 59.250 61.111 0.00 0.00 0.00 3.36
1237 1986 3.322466 CCTTGTGCTCCCCGTCCT 61.322 66.667 0.00 0.00 0.00 3.85
1238 1987 3.316573 CTCCTTGTGCTCCCCGTCC 62.317 68.421 0.00 0.00 0.00 4.79
1239 1988 2.266055 CTCCTTGTGCTCCCCGTC 59.734 66.667 0.00 0.00 0.00 4.79
1240 1989 3.322466 CCTCCTTGTGCTCCCCGT 61.322 66.667 0.00 0.00 0.00 5.28
1241 1990 4.101448 CCCTCCTTGTGCTCCCCG 62.101 72.222 0.00 0.00 0.00 5.73
1242 1991 4.432741 GCCCTCCTTGTGCTCCCC 62.433 72.222 0.00 0.00 0.00 4.81
1243 1992 2.988839 ATGCCCTCCTTGTGCTCCC 61.989 63.158 0.00 0.00 0.00 4.30
1244 1993 1.751927 CATGCCCTCCTTGTGCTCC 60.752 63.158 0.00 0.00 0.00 4.70
1245 1994 0.106819 ATCATGCCCTCCTTGTGCTC 60.107 55.000 0.00 0.00 0.00 4.26
1325 2074 2.550830 TGTCCTTCTTCTCCTTGTGC 57.449 50.000 0.00 0.00 0.00 4.57
1463 2234 1.375523 GAGACGGCGACCACCATTT 60.376 57.895 16.62 0.00 0.00 2.32
1485 2256 0.037326 GGTGAGGAGTTGACGCATGA 60.037 55.000 0.00 0.00 0.00 3.07
1487 2258 0.687354 AAGGTGAGGAGTTGACGCAT 59.313 50.000 0.00 0.00 0.00 4.73
1490 2261 2.143925 GGAAAAGGTGAGGAGTTGACG 58.856 52.381 0.00 0.00 0.00 4.35
1493 2264 4.068599 GAGAAGGAAAAGGTGAGGAGTTG 58.931 47.826 0.00 0.00 0.00 3.16
1494 2265 3.073209 GGAGAAGGAAAAGGTGAGGAGTT 59.927 47.826 0.00 0.00 0.00 3.01
1495 2266 2.640332 GGAGAAGGAAAAGGTGAGGAGT 59.360 50.000 0.00 0.00 0.00 3.85
1496 2267 2.909662 AGGAGAAGGAAAAGGTGAGGAG 59.090 50.000 0.00 0.00 0.00 3.69
1497 2268 2.907042 GAGGAGAAGGAAAAGGTGAGGA 59.093 50.000 0.00 0.00 0.00 3.71
1498 2269 2.909662 AGAGGAGAAGGAAAAGGTGAGG 59.090 50.000 0.00 0.00 0.00 3.86
1499 2270 3.326297 ACAGAGGAGAAGGAAAAGGTGAG 59.674 47.826 0.00 0.00 0.00 3.51
1501 2272 3.181450 ACACAGAGGAGAAGGAAAAGGTG 60.181 47.826 0.00 0.00 0.00 4.00
1502 2273 3.049344 ACACAGAGGAGAAGGAAAAGGT 58.951 45.455 0.00 0.00 0.00 3.50
1503 2274 3.778954 ACACAGAGGAGAAGGAAAAGG 57.221 47.619 0.00 0.00 0.00 3.11
1504 2275 4.261363 GCAAACACAGAGGAGAAGGAAAAG 60.261 45.833 0.00 0.00 0.00 2.27
1505 2276 3.632145 GCAAACACAGAGGAGAAGGAAAA 59.368 43.478 0.00 0.00 0.00 2.29
1506 2277 3.214328 GCAAACACAGAGGAGAAGGAAA 58.786 45.455 0.00 0.00 0.00 3.13
1507 2278 2.806745 CGCAAACACAGAGGAGAAGGAA 60.807 50.000 0.00 0.00 0.00 3.36
1508 2279 1.270305 CGCAAACACAGAGGAGAAGGA 60.270 52.381 0.00 0.00 0.00 3.36
1509 2280 1.151668 CGCAAACACAGAGGAGAAGG 58.848 55.000 0.00 0.00 0.00 3.46
1510 2281 1.871080 ACGCAAACACAGAGGAGAAG 58.129 50.000 0.00 0.00 0.00 2.85
1511 2282 2.158957 AGAACGCAAACACAGAGGAGAA 60.159 45.455 0.00 0.00 0.00 2.87
1512 2283 1.412710 AGAACGCAAACACAGAGGAGA 59.587 47.619 0.00 0.00 0.00 3.71
1513 2284 1.795286 GAGAACGCAAACACAGAGGAG 59.205 52.381 0.00 0.00 0.00 3.69
1518 2289 1.157870 ACCGGAGAACGCAAACACAG 61.158 55.000 9.46 0.00 42.52 3.66
1529 2300 2.637872 AGATCCAACAAGAACCGGAGAA 59.362 45.455 9.46 0.00 0.00 2.87
1534 2305 5.238583 AGAAGTTAGATCCAACAAGAACCG 58.761 41.667 6.79 0.00 0.00 4.44
1535 2306 7.511959 AAAGAAGTTAGATCCAACAAGAACC 57.488 36.000 6.79 0.00 0.00 3.62
1567 5570 0.112995 TCTCCCCTGCACTGCAAAAT 59.887 50.000 4.99 0.00 38.41 1.82
1582 5585 0.108520 TAACCCACGCGTTCATCTCC 60.109 55.000 10.22 0.00 0.00 3.71
1591 5595 0.179174 GCTCCAAATTAACCCACGCG 60.179 55.000 3.53 3.53 0.00 6.01
1594 5598 1.883926 ACACGCTCCAAATTAACCCAC 59.116 47.619 0.00 0.00 0.00 4.61
1636 5640 5.169992 ACAAGATCCATGAGACATGTCAA 57.830 39.130 27.02 15.38 0.00 3.18
1659 5699 2.682856 CAGTGCAGCCGGTTATTACATT 59.317 45.455 1.90 0.00 0.00 2.71
1738 5819 9.039870 CATACATACACAAAAAGCTTGGAAAAA 57.960 29.630 0.00 0.00 0.00 1.94
1849 5930 5.529060 ACTGAAAAGAGGAGCAGTAAAACAG 59.471 40.000 0.00 0.00 39.61 3.16
1854 5935 5.680619 TGAAACTGAAAAGAGGAGCAGTAA 58.319 37.500 0.00 0.00 40.43 2.24
1856 5937 4.133078 CTGAAACTGAAAAGAGGAGCAGT 58.867 43.478 0.00 0.00 42.91 4.40
1859 5941 4.023622 GGTTCTGAAACTGAAAAGAGGAGC 60.024 45.833 0.00 0.00 35.61 4.70
1884 5966 3.319122 GGAAAGAAAACAGAGCACCACAT 59.681 43.478 0.00 0.00 0.00 3.21
1906 5988 1.469917 CTGCACACAAGCAAAACTCG 58.530 50.000 0.00 0.00 45.13 4.18
1914 6001 0.039708 GAGGAAAGCTGCACACAAGC 60.040 55.000 1.02 0.00 0.00 4.01
1915 6002 1.266175 CAGAGGAAAGCTGCACACAAG 59.734 52.381 1.02 0.00 0.00 3.16
1916 6003 1.311859 CAGAGGAAAGCTGCACACAA 58.688 50.000 1.02 0.00 0.00 3.33
1920 6007 3.375642 GAAAAACAGAGGAAAGCTGCAC 58.624 45.455 1.02 0.00 36.86 4.57
1925 6012 3.355626 AAGCGAAAAACAGAGGAAAGC 57.644 42.857 0.00 0.00 0.00 3.51
1955 6042 0.325272 TAATACCGGGCACAACTGCA 59.675 50.000 6.32 0.00 46.28 4.41
1958 6045 4.885325 CCTAAATTAATACCGGGCACAACT 59.115 41.667 6.32 0.00 0.00 3.16
1959 6046 4.037089 CCCTAAATTAATACCGGGCACAAC 59.963 45.833 6.32 0.00 0.00 3.32
1960 6047 4.208746 CCCTAAATTAATACCGGGCACAA 58.791 43.478 6.32 0.00 0.00 3.33
1961 6048 3.435313 CCCCTAAATTAATACCGGGCACA 60.435 47.826 6.32 0.00 0.00 4.57
1962 6049 3.151554 CCCCTAAATTAATACCGGGCAC 58.848 50.000 6.32 0.00 0.00 5.01
1963 6050 2.108601 CCCCCTAAATTAATACCGGGCA 59.891 50.000 6.32 0.00 0.00 5.36
1964 6051 2.799017 CCCCCTAAATTAATACCGGGC 58.201 52.381 6.32 0.00 0.00 6.13
1983 6070 3.689649 ACAACTTCGATTTCTGCATACCC 59.310 43.478 0.00 0.00 0.00 3.69
1984 6071 4.946784 ACAACTTCGATTTCTGCATACC 57.053 40.909 0.00 0.00 0.00 2.73
1985 6072 5.122396 AGGAACAACTTCGATTTCTGCATAC 59.878 40.000 0.00 0.00 0.00 2.39
1986 6073 5.245531 AGGAACAACTTCGATTTCTGCATA 58.754 37.500 0.00 0.00 0.00 3.14
1987 6074 4.074970 AGGAACAACTTCGATTTCTGCAT 58.925 39.130 0.00 0.00 0.00 3.96
1988 6075 3.476552 AGGAACAACTTCGATTTCTGCA 58.523 40.909 0.00 0.00 0.00 4.41
1989 6076 3.498397 TGAGGAACAACTTCGATTTCTGC 59.502 43.478 0.00 0.00 0.00 4.26
1990 6077 4.511454 TGTGAGGAACAACTTCGATTTCTG 59.489 41.667 0.00 0.00 35.24 3.02
1991 6078 4.703897 TGTGAGGAACAACTTCGATTTCT 58.296 39.130 0.00 0.00 35.24 2.52
1992 6079 5.236478 TCTTGTGAGGAACAACTTCGATTTC 59.764 40.000 0.00 0.00 43.96 2.17
1998 6085 2.550180 GGCTCTTGTGAGGAACAACTTC 59.450 50.000 0.00 0.00 43.96 3.01
2025 6120 9.891828 GCGATATATTTTTGGTAAATCATGTGA 57.108 29.630 0.00 0.00 0.00 3.58
2034 6129 9.283768 AGATGTGATGCGATATATTTTTGGTAA 57.716 29.630 0.00 0.00 0.00 2.85
2036 6131 7.750229 AGATGTGATGCGATATATTTTTGGT 57.250 32.000 0.00 0.00 0.00 3.67
2042 6149 8.481314 ACCATTCTAGATGTGATGCGATATATT 58.519 33.333 0.00 0.00 0.00 1.28
2044 6151 7.122650 TGACCATTCTAGATGTGATGCGATATA 59.877 37.037 0.00 0.00 0.00 0.86
2071 6178 6.204688 TCGTCCTTTTGATGATATAACATGGC 59.795 38.462 0.00 0.00 34.00 4.40
2078 6185 5.637810 GCCGAATCGTCCTTTTGATGATATA 59.362 40.000 0.82 0.00 46.76 0.86
2079 6186 4.452455 GCCGAATCGTCCTTTTGATGATAT 59.548 41.667 0.82 0.00 46.76 1.63
2091 6198 3.782443 AGGGGTGCCGAATCGTCC 61.782 66.667 0.82 1.17 0.00 4.79
2125 6232 5.106876 TGACAGGGGGCTAAATTTAGTAC 57.893 43.478 22.94 16.73 33.32 2.73
2126 6233 5.987019 ATGACAGGGGGCTAAATTTAGTA 57.013 39.130 22.94 0.00 33.32 1.82
2128 6235 4.202151 GCAATGACAGGGGGCTAAATTTAG 60.202 45.833 19.08 19.08 0.00 1.85
2142 6249 3.044235 TCATATAGCCCGCAATGACAG 57.956 47.619 0.00 0.00 0.00 3.51
2158 6265 1.270826 GCACCTCGAGCTAGCATCATA 59.729 52.381 18.83 2.40 0.00 2.15
2159 6266 0.033228 GCACCTCGAGCTAGCATCAT 59.967 55.000 18.83 0.00 0.00 2.45
2167 6285 0.390860 GATACATGGCACCTCGAGCT 59.609 55.000 6.99 0.00 0.00 4.09
2168 6286 0.601311 GGATACATGGCACCTCGAGC 60.601 60.000 6.99 0.00 0.00 5.03
2170 6288 0.689412 TGGGATACATGGCACCTCGA 60.689 55.000 0.00 0.00 39.74 4.04
2171 6289 0.180171 TTGGGATACATGGCACCTCG 59.820 55.000 0.00 0.00 39.74 4.63
2181 6299 2.531771 TCGGAGAACACTTGGGATACA 58.468 47.619 0.00 0.00 39.74 2.29
2189 6307 7.992008 TGAAATTTTAGTTTCGGAGAACACTT 58.008 30.769 0.00 0.00 45.90 3.16
2191 6309 8.073768 TCATGAAATTTTAGTTTCGGAGAACAC 58.926 33.333 0.00 0.00 45.90 3.32
2209 6327 6.935771 GGCAGAGAGATCAAGTATCATGAAAT 59.064 38.462 0.00 0.00 37.03 2.17
2210 6328 6.286758 GGCAGAGAGATCAAGTATCATGAAA 58.713 40.000 0.00 0.00 37.03 2.69
2220 6338 0.249405 GCTCCGGCAGAGAGATCAAG 60.249 60.000 0.90 0.00 46.50 3.02
2234 6352 1.739049 GAGAGGATGAGGTGCTCCG 59.261 63.158 0.00 0.00 45.65 4.63
2242 6360 5.656416 AGAAGTTCAGTTAGGAGAGGATGAG 59.344 44.000 5.50 0.00 0.00 2.90
2263 6381 3.673902 TCAAGACGATGCAATGGAAGAA 58.326 40.909 0.00 0.00 0.00 2.52
2271 6389 1.588674 AACGGTTCAAGACGATGCAA 58.411 45.000 0.00 0.00 0.00 4.08
2272 6390 1.588674 AAACGGTTCAAGACGATGCA 58.411 45.000 0.00 0.00 0.00 3.96
2274 6392 4.025563 TGTGTAAAACGGTTCAAGACGATG 60.026 41.667 0.00 0.00 0.00 3.84
2277 6395 3.929417 TGTGTAAAACGGTTCAAGACG 57.071 42.857 0.00 0.00 0.00 4.18
2287 6405 9.902196 ATTAACCCTTTTCTTATGTGTAAAACG 57.098 29.630 0.00 0.00 0.00 3.60
2353 6472 9.257428 TCTATCATCTTCTGATCTAATGCTCAT 57.743 33.333 0.00 0.00 43.70 2.90
2413 6532 4.527944 TGATCTGTCACTACTGGACTAGG 58.472 47.826 0.00 0.00 36.26 3.02
2443 6565 9.567776 CTCTCATGTCTATATAATATCCTCGGT 57.432 37.037 0.00 0.00 0.00 4.69
2445 6567 9.785982 TCCTCTCATGTCTATATAATATCCTCG 57.214 37.037 0.00 0.00 0.00 4.63
2502 6624 0.768622 CCACCCACCACCTTCAGTTA 59.231 55.000 0.00 0.00 0.00 2.24
2510 6632 2.241176 TGATAGAATTCCACCCACCACC 59.759 50.000 0.65 0.00 0.00 4.61
2528 6662 4.077108 CACATGGGTTATGCAGCTATGAT 58.923 43.478 5.30 0.00 42.90 2.45
2563 6697 5.649395 TCTTTCATTTGTCTTGAGCCATAGG 59.351 40.000 0.00 0.00 0.00 2.57
2590 6724 1.770749 TTTCCGGTCCCAATCGTGGT 61.771 55.000 0.00 0.00 44.30 4.16
2596 6730 1.615919 GGTGACATTTCCGGTCCCAAT 60.616 52.381 0.00 0.00 34.36 3.16
2605 6739 9.196552 CTTTTAGAAAATCAAGGTGACATTTCC 57.803 33.333 11.69 0.00 36.76 3.13
2609 6744 8.031277 GCATCTTTTAGAAAATCAAGGTGACAT 58.969 33.333 0.00 0.00 30.12 3.06
2610 6745 7.014134 TGCATCTTTTAGAAAATCAAGGTGACA 59.986 33.333 0.00 0.00 30.12 3.58
2613 6760 6.587608 GGTGCATCTTTTAGAAAATCAAGGTG 59.412 38.462 0.00 0.00 31.57 4.00
2625 6772 3.865745 CCGTGACTAGGTGCATCTTTTAG 59.134 47.826 3.93 0.00 0.00 1.85
2630 6779 0.324368 TCCCGTGACTAGGTGCATCT 60.324 55.000 4.13 4.13 0.00 2.90
2631 6780 0.535335 TTCCCGTGACTAGGTGCATC 59.465 55.000 0.00 0.00 0.00 3.91
2632 6781 0.537188 CTTCCCGTGACTAGGTGCAT 59.463 55.000 0.00 0.00 0.00 3.96
2633 6782 0.541063 TCTTCCCGTGACTAGGTGCA 60.541 55.000 0.00 0.00 0.00 4.57
2634 6783 0.173708 CTCTTCCCGTGACTAGGTGC 59.826 60.000 0.00 0.00 0.00 5.01
2635 6784 1.835494 TCTCTTCCCGTGACTAGGTG 58.165 55.000 0.00 0.00 0.00 4.00
2636 6785 2.657143 GATCTCTTCCCGTGACTAGGT 58.343 52.381 0.00 0.00 0.00 3.08
2637 6786 1.604755 CGATCTCTTCCCGTGACTAGG 59.395 57.143 0.00 0.00 0.00 3.02
2638 6787 1.604755 CCGATCTCTTCCCGTGACTAG 59.395 57.143 0.00 0.00 0.00 2.57
2656 6805 1.962807 AGAGCTCATCTCATCTTCCCG 59.037 52.381 17.77 0.00 44.35 5.14
2659 6808 9.160496 TCTTTAAAAAGAGCTCATCTCATCTTC 57.840 33.333 17.77 0.00 44.35 2.87


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

AutoCloner maintained by Alex Coulton.