Multiple sequence alignment - TraesCS5D01G300400

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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 TraesCS5D01G300400 chr5D 100.000 4317 0 0 1 4317 397928086 397932402 0.000000e+00 7973.0
1 TraesCS5D01G300400 chr5D 77.902 1611 291 48 1711 3293 46067418 46068991 0.000000e+00 942.0
2 TraesCS5D01G300400 chr5D 78.815 675 126 14 1700 2363 415629615 415630283 5.130000e-119 438.0
3 TraesCS5D01G300400 chr5A 89.996 2639 180 45 1726 4317 503050094 503052695 0.000000e+00 3334.0
4 TraesCS5D01G300400 chr5A 88.700 1000 67 23 11 977 503048969 503049955 0.000000e+00 1179.0
5 TraesCS5D01G300400 chr5A 77.118 1617 295 52 1712 3293 37081201 37082777 0.000000e+00 867.0
6 TraesCS5D01G300400 chr5A 78.502 1135 205 29 1700 2831 528269224 528270322 0.000000e+00 708.0
7 TraesCS5D01G300400 chr5A 76.562 704 134 20 2595 3285 502500118 502499433 1.480000e-94 357.0
8 TraesCS5D01G300400 chr5B 93.568 1508 91 2 1593 3094 477965058 477966565 0.000000e+00 2242.0
9 TraesCS5D01G300400 chr5B 85.878 1048 73 31 11 1009 477963167 477964188 0.000000e+00 1046.0
10 TraesCS5D01G300400 chr5B 77.531 1620 289 47 1711 3293 47122480 47124061 0.000000e+00 905.0
11 TraesCS5D01G300400 chr5B 77.267 1610 312 44 1707 3293 476917796 476916218 0.000000e+00 896.0
12 TraesCS5D01G300400 chr5B 78.565 1129 197 29 2188 3305 502021497 502022591 0.000000e+00 702.0
13 TraesCS5D01G300400 chr5B 88.931 524 51 6 3139 3657 477966563 477967084 1.310000e-179 640.0
14 TraesCS5D01G300400 chr5B 84.241 698 51 29 3649 4316 477967105 477967773 3.670000e-175 625.0
15 TraesCS5D01G300400 chr5B 78.030 924 148 38 2011 2892 477984388 477985298 8.220000e-147 531.0
16 TraesCS5D01G300400 chr5B 84.424 321 25 14 1011 1316 477964349 477964659 4.220000e-75 292.0
17 TraesCS5D01G300400 chr5B 91.912 136 9 1 1314 1449 477964719 477964852 5.700000e-44 189.0
18 TraesCS5D01G300400 chr5B 88.732 71 5 3 1442 1511 477964880 477964948 2.770000e-12 84.2
19 TraesCS5D01G300400 chr5B 100.000 35 0 0 1354 1388 477964858 477964892 1.000000e-06 65.8


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 TraesCS5D01G300400 chr5D 397928086 397932402 4316 False 7973.0 7973 100.00000 1 4317 1 chr5D.!!$F2 4316
1 TraesCS5D01G300400 chr5D 46067418 46068991 1573 False 942.0 942 77.90200 1711 3293 1 chr5D.!!$F1 1582
2 TraesCS5D01G300400 chr5D 415629615 415630283 668 False 438.0 438 78.81500 1700 2363 1 chr5D.!!$F3 663
3 TraesCS5D01G300400 chr5A 503048969 503052695 3726 False 2256.5 3334 89.34800 11 4317 2 chr5A.!!$F3 4306
4 TraesCS5D01G300400 chr5A 37081201 37082777 1576 False 867.0 867 77.11800 1712 3293 1 chr5A.!!$F1 1581
5 TraesCS5D01G300400 chr5A 528269224 528270322 1098 False 708.0 708 78.50200 1700 2831 1 chr5A.!!$F2 1131
6 TraesCS5D01G300400 chr5A 502499433 502500118 685 True 357.0 357 76.56200 2595 3285 1 chr5A.!!$R1 690
7 TraesCS5D01G300400 chr5B 47122480 47124061 1581 False 905.0 905 77.53100 1711 3293 1 chr5B.!!$F1 1582
8 TraesCS5D01G300400 chr5B 476916218 476917796 1578 True 896.0 896 77.26700 1707 3293 1 chr5B.!!$R1 1586
9 TraesCS5D01G300400 chr5B 502021497 502022591 1094 False 702.0 702 78.56500 2188 3305 1 chr5B.!!$F3 1117
10 TraesCS5D01G300400 chr5B 477963167 477967773 4606 False 648.0 2242 89.71075 11 4316 8 chr5B.!!$F4 4305
11 TraesCS5D01G300400 chr5B 477984388 477985298 910 False 531.0 531 78.03000 2011 2892 1 chr5B.!!$F2 881

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
494 506 0.457851 CCAGAGCTTCCAGAGGTACG 59.542 60.0 0.00 0.0 35.91 3.67 F
1578 1979 0.108186 ACATCTTCCGCGCATCTTGA 60.108 50.0 8.75 0.0 0.00 3.02 F
2222 2646 0.533951 ACAGTGCTGCATCTCGATCA 59.466 50.0 5.27 0.0 0.00 2.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2222 2646 0.549469 GTCCCCCGTAATTCCCACAT 59.451 55.0 0.00 0.0 0.00 3.21 R
3274 3761 0.172578 CTGCATGGCTCCACAACATG 59.827 55.0 0.00 0.0 43.58 3.21 R
4058 4619 0.039978 CTCCGCGGTGCTACTAGATG 60.040 60.0 27.15 0.0 0.00 2.90 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
198 200 2.721167 CCCGAAGCCCAGATCGACA 61.721 63.158 0.00 0.00 41.43 4.35
371 376 9.523168 TTGCCTGTAGTAACCATAACTATTTTT 57.477 29.630 0.00 0.00 32.34 1.94
455 467 4.285517 AGAGGATAATTCTCGTGATGGCAT 59.714 41.667 0.00 0.00 36.45 4.40
468 480 2.912956 TGATGGCATAGGAGGGGAATAC 59.087 50.000 0.00 0.00 0.00 1.89
494 506 0.457851 CCAGAGCTTCCAGAGGTACG 59.542 60.000 0.00 0.00 35.91 3.67
523 535 1.135257 CGCGAGTCATCAAAGACCTCT 60.135 52.381 0.00 0.00 39.34 3.69
638 680 2.233305 ACTACCATCTCTGTTCCCGT 57.767 50.000 0.00 0.00 0.00 5.28
647 689 1.546029 CTCTGTTCCCGTCAGACATCA 59.454 52.381 0.41 0.00 37.07 3.07
649 691 2.029020 TCTGTTCCCGTCAGACATCAAG 60.029 50.000 0.41 0.00 37.07 3.02
650 692 1.691976 TGTTCCCGTCAGACATCAAGT 59.308 47.619 0.41 0.00 0.00 3.16
700 743 4.415881 ACATAGGCGATTGTCAATACCA 57.584 40.909 15.94 6.05 0.00 3.25
701 744 4.127171 ACATAGGCGATTGTCAATACCAC 58.873 43.478 15.94 1.83 0.00 4.16
702 745 1.651987 AGGCGATTGTCAATACCACG 58.348 50.000 15.94 9.14 0.00 4.94
703 746 0.655733 GGCGATTGTCAATACCACGG 59.344 55.000 10.81 0.00 0.00 4.94
705 748 0.655733 CGATTGTCAATACCACGGCC 59.344 55.000 0.00 0.00 0.00 6.13
707 750 1.670811 GATTGTCAATACCACGGCCTG 59.329 52.381 0.00 0.00 0.00 4.85
708 751 0.958382 TTGTCAATACCACGGCCTGC 60.958 55.000 0.00 0.00 0.00 4.85
733 776 2.957680 TCACCTTCTTTTGCAAGCATGA 59.042 40.909 0.00 0.00 0.00 3.07
734 777 3.384146 TCACCTTCTTTTGCAAGCATGAA 59.616 39.130 0.00 0.00 0.00 2.57
735 778 4.039488 TCACCTTCTTTTGCAAGCATGAAT 59.961 37.500 0.00 0.00 0.00 2.57
736 779 4.151689 CACCTTCTTTTGCAAGCATGAATG 59.848 41.667 0.00 0.57 0.00 2.67
737 780 4.202284 ACCTTCTTTTGCAAGCATGAATGT 60.202 37.500 0.00 1.17 0.00 2.71
751 794 7.322938 CAAGCATGAATGTATCATAAAGCTTCG 59.677 37.037 0.00 0.00 45.16 3.79
755 798 6.661669 TGAATGTATCATAAAGCTTCGCATG 58.338 36.000 0.00 4.39 31.50 4.06
892 941 4.537135 TGACCTTTGCCTCAGTAAGTAG 57.463 45.455 0.00 0.00 0.00 2.57
927 977 4.194640 ACTTGACATCATGATTCCCTTCG 58.805 43.478 5.16 0.00 0.00 3.79
984 1048 4.324874 CCTCCCTTCTCTGTGATCCATTTT 60.325 45.833 0.00 0.00 0.00 1.82
987 1051 3.760151 CCTTCTCTGTGATCCATTTTGCA 59.240 43.478 0.00 0.00 0.00 4.08
1014 1254 7.390718 ACAGGTTCTTCTATGTGTATTGGAAAC 59.609 37.037 0.00 0.00 0.00 2.78
1100 1348 5.683859 CAAGCTCAGAACAATGTCAAGTAC 58.316 41.667 0.00 0.00 0.00 2.73
1101 1349 5.220710 AGCTCAGAACAATGTCAAGTACT 57.779 39.130 0.00 0.00 0.00 2.73
1102 1350 6.346477 AGCTCAGAACAATGTCAAGTACTA 57.654 37.500 0.00 0.00 0.00 1.82
1130 1387 3.074412 ACCAGATTGGCGAAGTGTTTAG 58.926 45.455 0.00 0.00 42.67 1.85
1159 1416 4.608948 AACCTTGGAGTAAGTGAGAGTG 57.391 45.455 0.00 0.00 34.45 3.51
1161 1418 4.737578 ACCTTGGAGTAAGTGAGAGTGTA 58.262 43.478 0.00 0.00 34.45 2.90
1163 1420 5.780793 ACCTTGGAGTAAGTGAGAGTGTAAT 59.219 40.000 0.00 0.00 34.45 1.89
1164 1421 6.952358 ACCTTGGAGTAAGTGAGAGTGTAATA 59.048 38.462 0.00 0.00 34.45 0.98
1165 1422 7.093858 ACCTTGGAGTAAGTGAGAGTGTAATAC 60.094 40.741 0.00 0.00 34.45 1.89
1166 1423 6.432607 TGGAGTAAGTGAGAGTGTAATACG 57.567 41.667 0.00 0.00 0.00 3.06
1177 1434 6.313658 TGAGAGTGTAATACGTACTTCGCTAA 59.686 38.462 0.00 0.00 44.19 3.09
1178 1435 6.713520 AGAGTGTAATACGTACTTCGCTAAG 58.286 40.000 0.00 0.00 44.19 2.18
1213 1470 7.114247 GCTATTTTCGTTGCATTAGTTTTGTGA 59.886 33.333 0.00 0.00 0.00 3.58
1219 1476 1.068610 GCATTAGTTTTGTGAGGCGCA 60.069 47.619 10.83 0.00 0.00 6.09
1231 1488 1.810151 TGAGGCGCATAACCAAGTTTC 59.190 47.619 10.83 0.00 0.00 2.78
1233 1490 0.172578 GGCGCATAACCAAGTTTCCC 59.827 55.000 10.83 0.00 0.00 3.97
1234 1491 0.885196 GCGCATAACCAAGTTTCCCA 59.115 50.000 0.30 0.00 0.00 4.37
1240 1497 5.124776 CGCATAACCAAGTTTCCCATAAAGA 59.875 40.000 0.00 0.00 0.00 2.52
1241 1498 6.349777 CGCATAACCAAGTTTCCCATAAAGAA 60.350 38.462 0.00 0.00 0.00 2.52
1244 1501 9.369904 CATAACCAAGTTTCCCATAAAGAATTG 57.630 33.333 0.00 0.00 0.00 2.32
1245 1502 6.994421 ACCAAGTTTCCCATAAAGAATTGT 57.006 33.333 0.00 0.00 0.00 2.71
1249 1506 8.773645 CCAAGTTTCCCATAAAGAATTGTTTTC 58.226 33.333 5.83 0.00 0.00 2.29
1250 1507 9.546428 CAAGTTTCCCATAAAGAATTGTTTTCT 57.454 29.630 5.83 0.00 0.00 2.52
1280 1537 1.678101 AGTGCCTCTTCACTGTTTTGC 59.322 47.619 0.00 0.00 44.88 3.68
1282 1539 2.098614 TGCCTCTTCACTGTTTTGCAA 58.901 42.857 0.00 0.00 0.00 4.08
1286 1543 4.681483 GCCTCTTCACTGTTTTGCAATAAC 59.319 41.667 0.00 8.60 0.00 1.89
1324 1644 4.413495 TGGTTCGTTTGTATTAAGCTGC 57.587 40.909 0.00 0.00 0.00 5.25
1342 1662 6.425210 AGCTGCATATTCTTATAGTCACCA 57.575 37.500 1.02 0.00 0.00 4.17
1348 1668 9.851686 TGCATATTCTTATAGTCACCATTCTTT 57.148 29.630 0.00 0.00 0.00 2.52
1404 1724 7.819900 ACTCTGATCTTAGTTGACCACATTTAC 59.180 37.037 0.00 0.00 0.00 2.01
1410 1730 7.208777 TCTTAGTTGACCACATTTACAACGTA 58.791 34.615 0.00 0.00 44.55 3.57
1425 1745 1.616159 ACGTAGCCAGCAAAATTGGT 58.384 45.000 0.00 0.00 39.91 3.67
1449 1769 9.057089 GGTTGGATTTGGATTTAGTATCTACTG 57.943 37.037 0.06 0.00 37.10 2.74
1450 1770 9.832445 GTTGGATTTGGATTTAGTATCTACTGA 57.168 33.333 0.06 0.00 37.10 3.41
1495 1850 6.377996 TCTGGCAGTTGTTTTAGATGCATTAT 59.622 34.615 15.27 0.00 38.63 1.28
1498 1853 7.877097 TGGCAGTTGTTTTAGATGCATTATTTT 59.123 29.630 0.00 0.00 38.63 1.82
1499 1854 8.170553 GGCAGTTGTTTTAGATGCATTATTTTG 58.829 33.333 0.00 0.00 38.63 2.44
1500 1855 8.711457 GCAGTTGTTTTAGATGCATTATTTTGT 58.289 29.630 0.00 0.00 36.88 2.83
1503 1858 7.593875 TGTTTTAGATGCATTATTTTGTGCC 57.406 32.000 0.00 0.00 40.56 5.01
1506 1861 8.720562 GTTTTAGATGCATTATTTTGTGCCTTT 58.279 29.630 0.00 0.00 40.56 3.11
1507 1862 7.830940 TTAGATGCATTATTTTGTGCCTTTG 57.169 32.000 0.00 0.00 40.56 2.77
1508 1863 4.632688 AGATGCATTATTTTGTGCCTTTGC 59.367 37.500 0.00 0.00 40.56 3.68
1538 1935 9.645059 TTGATTTGTTTCTTTGTTACATTGACA 57.355 25.926 0.00 0.00 0.00 3.58
1566 1967 9.956720 ATTATAGCATGCTGTTAAAACATCTTC 57.043 29.630 30.42 0.00 38.41 2.87
1567 1968 5.064441 AGCATGCTGTTAAAACATCTTCC 57.936 39.130 21.98 0.00 38.41 3.46
1568 1969 3.853671 GCATGCTGTTAAAACATCTTCCG 59.146 43.478 11.37 0.00 38.41 4.30
1569 1970 3.552604 TGCTGTTAAAACATCTTCCGC 57.447 42.857 0.00 0.00 38.41 5.54
1570 1971 2.095969 TGCTGTTAAAACATCTTCCGCG 60.096 45.455 0.00 0.00 38.41 6.46
1571 1972 2.505866 CTGTTAAAACATCTTCCGCGC 58.494 47.619 0.00 0.00 38.41 6.86
1572 1973 1.874231 TGTTAAAACATCTTCCGCGCA 59.126 42.857 8.75 0.00 33.17 6.09
1573 1974 2.486203 TGTTAAAACATCTTCCGCGCAT 59.514 40.909 8.75 0.00 33.17 4.73
1574 1975 3.098636 GTTAAAACATCTTCCGCGCATC 58.901 45.455 8.75 0.00 0.00 3.91
1575 1976 1.453155 AAAACATCTTCCGCGCATCT 58.547 45.000 8.75 0.00 0.00 2.90
1576 1977 1.453155 AAACATCTTCCGCGCATCTT 58.547 45.000 8.75 0.00 0.00 2.40
1577 1978 0.729116 AACATCTTCCGCGCATCTTG 59.271 50.000 8.75 0.00 0.00 3.02
1578 1979 0.108186 ACATCTTCCGCGCATCTTGA 60.108 50.000 8.75 0.00 0.00 3.02
1579 1980 1.224075 CATCTTCCGCGCATCTTGAT 58.776 50.000 8.75 0.89 0.00 2.57
1580 1981 1.600957 CATCTTCCGCGCATCTTGATT 59.399 47.619 8.75 0.00 0.00 2.57
1581 1982 1.737838 TCTTCCGCGCATCTTGATTT 58.262 45.000 8.75 0.00 0.00 2.17
1582 1983 2.899976 TCTTCCGCGCATCTTGATTTA 58.100 42.857 8.75 0.00 0.00 1.40
1583 1984 3.466836 TCTTCCGCGCATCTTGATTTAT 58.533 40.909 8.75 0.00 0.00 1.40
1584 1985 4.627058 TCTTCCGCGCATCTTGATTTATA 58.373 39.130 8.75 0.00 0.00 0.98
1585 1986 4.447724 TCTTCCGCGCATCTTGATTTATAC 59.552 41.667 8.75 0.00 0.00 1.47
1586 1987 3.723260 TCCGCGCATCTTGATTTATACA 58.277 40.909 8.75 0.00 0.00 2.29
1587 1988 4.123506 TCCGCGCATCTTGATTTATACAA 58.876 39.130 8.75 0.00 0.00 2.41
1588 1989 4.025229 TCCGCGCATCTTGATTTATACAAC 60.025 41.667 8.75 0.00 0.00 3.32
1589 1990 4.024893 CCGCGCATCTTGATTTATACAACT 60.025 41.667 8.75 0.00 0.00 3.16
1590 1991 4.900182 CGCGCATCTTGATTTATACAACTG 59.100 41.667 8.75 0.00 0.00 3.16
1591 1992 4.672413 GCGCATCTTGATTTATACAACTGC 59.328 41.667 0.30 0.00 32.43 4.40
1607 2008 1.556451 ACTGCATATCAGCACACTCCA 59.444 47.619 0.00 0.00 46.76 3.86
1627 2029 3.209410 CACCAGAAAAACTGTCTCTGCT 58.791 45.455 8.30 0.00 44.40 4.24
1629 2031 2.031333 CCAGAAAAACTGTCTCTGCTGC 60.031 50.000 8.30 0.00 44.40 5.25
1630 2032 2.615447 CAGAAAAACTGTCTCTGCTGCA 59.385 45.455 0.88 0.88 41.30 4.41
1635 2037 2.096220 ACTGTCTCTGCTGCATTCAG 57.904 50.000 1.31 11.53 43.16 3.02
1656 2058 4.330074 CAGTTTTACCTGAATGCTACTCCG 59.670 45.833 0.00 0.00 34.23 4.63
1672 2074 5.277058 GCTACTCCGTATTCTTCAATTGCAG 60.277 44.000 0.00 0.00 0.00 4.41
1695 2097 2.125552 TGTCATCTTGCTCCGCGG 60.126 61.111 22.12 22.12 0.00 6.46
1697 2099 4.081185 TCATCTTGCTCCGCGGCA 62.081 61.111 23.51 13.97 40.74 5.69
1905 2310 4.811557 GGAATACTATGCCAGTTGAGACAC 59.188 45.833 0.00 0.00 38.80 3.67
1962 2373 1.523154 GCTCGGGCATTGGTGTGAAA 61.523 55.000 0.00 0.00 38.54 2.69
2182 2606 2.419297 GGCTTCCATCCTACAGTCAGTG 60.419 54.545 0.00 0.00 0.00 3.66
2222 2646 0.533951 ACAGTGCTGCATCTCGATCA 59.466 50.000 5.27 0.00 0.00 2.92
2408 2832 7.539712 TGATAAAGAACGAAGCTCCAAATAG 57.460 36.000 0.00 0.00 0.00 1.73
2425 2849 9.665264 CTCCAAATAGTTGTAGTTTTGACTTTC 57.335 33.333 1.80 0.00 32.17 2.62
2549 2977 1.069296 CAGTGCGCCGAATCTTGAAAA 60.069 47.619 4.18 0.00 0.00 2.29
2550 2978 1.069227 AGTGCGCCGAATCTTGAAAAC 60.069 47.619 4.18 0.00 0.00 2.43
2593 3055 8.601476 GTCACGAGGTATATTCTAAAACCTTTG 58.399 37.037 0.00 0.00 42.40 2.77
2633 3099 7.279536 AGCATTGTTCATACTTCATAGACAGTG 59.720 37.037 0.00 0.00 0.00 3.66
2906 3387 8.969267 CATAAATAGTCTCTATGGTTGAACGAC 58.031 37.037 0.00 0.00 0.00 4.34
2991 3478 8.383619 CACAGATAAACTACTTTTGGAAGATCG 58.616 37.037 0.00 0.00 36.69 3.69
3019 3506 2.289320 GCTTCGGCAGATGTCAGGATAT 60.289 50.000 1.95 0.00 41.33 1.63
3120 3607 4.686091 TCTTGAAAACTCAGTATCACTGCG 59.314 41.667 1.34 0.00 45.54 5.18
3163 3650 2.052782 ACTGTGGTTTCAGGTGTTCC 57.947 50.000 0.00 0.00 39.48 3.62
3210 3697 2.266279 CTTGGTTAGACCCTGGGAAGA 58.734 52.381 22.23 0.00 37.50 2.87
3215 3702 1.776662 TAGACCCTGGGAAGACGATG 58.223 55.000 22.23 0.00 0.00 3.84
3229 3716 1.728971 GACGATGAAGCAGTCTTGGTG 59.271 52.381 0.00 0.00 34.72 4.17
3250 3737 5.357032 GGTGATCGAAAAATACATCAAGGGT 59.643 40.000 0.00 0.00 0.00 4.34
3274 3761 0.687354 TTCCCTCCACAGTCAAGCTC 59.313 55.000 0.00 0.00 0.00 4.09
3296 3784 3.510559 TTGTGGAGCCATGCAGCCA 62.511 57.895 0.00 0.00 34.02 4.75
3305 3793 1.138883 CATGCAGCCAGTGTCATGC 59.861 57.895 0.00 4.89 35.39 4.06
3307 3795 3.807538 GCAGCCAGTGTCATGCCG 61.808 66.667 0.00 0.00 32.49 5.69
3312 3800 0.391130 GCCAGTGTCATGCCGTTCTA 60.391 55.000 0.00 0.00 0.00 2.10
3349 3837 5.278957 GGATGGATCAGAGCTTAGTCTCTTC 60.279 48.000 0.00 1.86 41.22 2.87
3350 3838 3.629855 TGGATCAGAGCTTAGTCTCTTCG 59.370 47.826 0.00 0.00 41.22 3.79
3402 3892 5.752036 TCAGATCCAAACATCTTGAGAGT 57.248 39.130 0.00 0.00 30.07 3.24
3406 3896 5.704515 AGATCCAAACATCTTGAGAGTGTTG 59.295 40.000 8.52 3.13 36.31 3.33
3409 3899 4.534168 CAAACATCTTGAGAGTGTTGCTG 58.466 43.478 8.52 3.56 36.31 4.41
3488 3978 0.618458 GGTGAGGGAGTGGCATGTTA 59.382 55.000 0.00 0.00 0.00 2.41
3512 4002 3.371965 TCCTTATAGCTTTCCACTCCGT 58.628 45.455 0.00 0.00 0.00 4.69
3531 4021 3.231160 CGTCCCGTCAATTTTTACTTGC 58.769 45.455 0.00 0.00 0.00 4.01
3543 4033 8.029522 TCAATTTTTACTTGCACTGTTGTACAA 58.970 29.630 3.59 3.59 0.00 2.41
3549 4039 1.325037 TGCACTGTTGTACAACGAACG 59.675 47.619 28.58 19.88 43.94 3.95
3550 4040 1.325338 GCACTGTTGTACAACGAACGT 59.675 47.619 28.58 20.41 43.94 3.99
3557 4047 4.094590 TGTTGTACAACGAACGTCCATTTT 59.905 37.500 28.58 0.00 43.94 1.82
3561 4051 2.289547 ACAACGAACGTCCATTTTGAGG 59.710 45.455 0.00 0.00 0.00 3.86
3564 4054 1.871039 CGAACGTCCATTTTGAGGTGT 59.129 47.619 0.00 0.00 33.91 4.16
3568 4058 1.196808 CGTCCATTTTGAGGTGTTCGG 59.803 52.381 0.00 0.00 0.00 4.30
3586 4076 5.873712 TGTTCGGTGTACAAGTAAAAAGTGA 59.126 36.000 0.00 0.00 0.00 3.41
3588 4078 5.417811 TCGGTGTACAAGTAAAAAGTGACA 58.582 37.500 0.00 0.00 0.00 3.58
3595 4085 6.190954 ACAAGTAAAAAGTGACAGGTGTTC 57.809 37.500 0.00 0.00 0.00 3.18
3597 4087 3.875134 AGTAAAAAGTGACAGGTGTTCGG 59.125 43.478 0.00 0.00 0.00 4.30
3601 4091 1.700955 AGTGACAGGTGTTCGGTAGT 58.299 50.000 0.00 0.00 0.00 2.73
3626 4118 5.855395 GTCACTTGCTCATTGTTTCATCTTC 59.145 40.000 0.00 0.00 0.00 2.87
3645 4137 5.164233 TCTTCAGAAACAAGATCTGTAGCG 58.836 41.667 0.00 0.00 43.77 4.26
3646 4138 4.783764 TCAGAAACAAGATCTGTAGCGA 57.216 40.909 0.00 0.00 43.77 4.93
3656 4177 1.154016 CTGTAGCGACCTCGTGTGG 60.154 63.158 0.00 0.00 42.22 4.17
3766 4287 4.202440 TGTCCGTTACAATGGGTTTTCCTA 60.202 41.667 0.43 0.00 36.12 2.94
3930 4487 3.726291 AAATTCGGGTTCTTGTTGTGG 57.274 42.857 0.00 0.00 0.00 4.17
4006 4567 3.845860 TCTGCCGATTCTATCCCTAGTT 58.154 45.455 0.00 0.00 0.00 2.24
4009 4570 3.071023 TGCCGATTCTATCCCTAGTTTGG 59.929 47.826 0.00 0.00 0.00 3.28
4033 4594 3.902881 TTTTGCTCCAGAAAAAGGCAA 57.097 38.095 0.00 0.00 40.43 4.52
4035 4596 2.071778 TGCTCCAGAAAAAGGCAAGT 57.928 45.000 0.00 0.00 0.00 3.16
4036 4597 1.682854 TGCTCCAGAAAAAGGCAAGTG 59.317 47.619 0.00 0.00 0.00 3.16
4037 4598 1.956477 GCTCCAGAAAAAGGCAAGTGA 59.044 47.619 0.00 0.00 0.00 3.41
4038 4599 2.362077 GCTCCAGAAAAAGGCAAGTGAA 59.638 45.455 0.00 0.00 0.00 3.18
4039 4600 3.181476 GCTCCAGAAAAAGGCAAGTGAAA 60.181 43.478 0.00 0.00 0.00 2.69
4040 4601 4.363138 CTCCAGAAAAAGGCAAGTGAAAC 58.637 43.478 0.00 0.00 0.00 2.78
4044 4605 5.411053 CCAGAAAAAGGCAAGTGAAACAAAA 59.589 36.000 0.00 0.00 41.43 2.44
4058 4619 1.660264 CAAAACAAACCCGCGCTCC 60.660 57.895 5.56 0.00 0.00 4.70
4064 4625 1.144057 AAACCCGCGCTCCATCTAG 59.856 57.895 5.56 0.00 0.00 2.43
4065 4626 1.614241 AAACCCGCGCTCCATCTAGT 61.614 55.000 5.56 0.00 0.00 2.57
4066 4627 0.754217 AACCCGCGCTCCATCTAGTA 60.754 55.000 5.56 0.00 0.00 1.82
4067 4628 1.173444 ACCCGCGCTCCATCTAGTAG 61.173 60.000 5.56 0.00 0.00 2.57
4068 4629 1.081108 CCGCGCTCCATCTAGTAGC 60.081 63.158 5.56 0.00 0.00 3.58
4237 4799 1.502640 GACAGAGAGGTGTCGACGG 59.497 63.158 11.62 0.00 37.69 4.79
4239 4801 1.235948 ACAGAGAGGTGTCGACGGTC 61.236 60.000 11.62 7.27 0.00 4.79
4241 4803 3.036783 GAGAGGTGTCGACGGTCGG 62.037 68.421 28.07 11.53 40.88 4.79
4242 4804 3.052082 GAGGTGTCGACGGTCGGA 61.052 66.667 28.07 13.94 40.88 4.55
4243 4805 3.319926 GAGGTGTCGACGGTCGGAC 62.320 68.421 28.07 22.95 40.88 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 2.288579 GGGGACGGGTTTGATGTTTTTC 60.289 50.000 0.00 0.00 0.00 2.29
114 115 2.354188 TTGTCTGTCCGTCGCGTG 60.354 61.111 5.77 0.00 0.00 5.34
175 177 1.753368 GATCTGGGCTTCGGGGAGAG 61.753 65.000 0.00 0.00 0.00 3.20
371 376 3.195610 AGCAGACGATCCATCTGTAACAA 59.804 43.478 18.32 0.00 44.60 2.83
388 393 3.323115 CCTATAGCCAGTGATGAAGCAGA 59.677 47.826 0.00 0.00 0.00 4.26
455 467 1.132817 GCCCTGAGTATTCCCCTCCTA 60.133 57.143 0.00 0.00 0.00 2.94
468 480 2.254737 CTGGAAGCTCTGGCCCTGAG 62.255 65.000 12.96 12.96 39.73 3.35
494 506 0.026803 GATGACTCGCGTTTGATGCC 59.973 55.000 5.77 0.00 0.00 4.40
513 525 3.667497 TCTGTGCAGTAGAGGTCTTTG 57.333 47.619 0.00 0.00 0.00 2.77
523 535 6.427853 GCATATATCAACCAATCTGTGCAGTA 59.572 38.462 0.00 0.00 0.00 2.74
678 721 5.294356 GTGGTATTGACAATCGCCTATGTA 58.706 41.667 17.40 1.15 0.00 2.29
680 723 3.184379 CGTGGTATTGACAATCGCCTATG 59.816 47.826 17.40 9.32 0.00 2.23
682 725 2.482316 CCGTGGTATTGACAATCGCCTA 60.482 50.000 17.40 6.54 0.00 3.93
688 731 1.750193 CAGGCCGTGGTATTGACAAT 58.250 50.000 5.87 5.87 0.00 2.71
705 748 0.593128 CAAAAGAAGGTGACCCGCAG 59.407 55.000 0.00 0.00 35.12 5.18
707 750 1.285950 GCAAAAGAAGGTGACCCGC 59.714 57.895 0.00 0.00 35.12 6.13
708 751 1.001378 CTTGCAAAAGAAGGTGACCCG 60.001 52.381 0.00 0.00 35.12 5.28
892 941 1.401552 TGTCAAGTTGTCAACTGCAGC 59.598 47.619 18.84 10.11 41.91 5.25
984 1048 4.085357 ACACATAGAAGAACCTGTTGCA 57.915 40.909 0.00 0.00 0.00 4.08
987 1051 7.016153 TCCAATACACATAGAAGAACCTGTT 57.984 36.000 0.00 0.00 0.00 3.16
1022 1262 8.429641 AGTCCCGTGATATATTTATTGTCAAGT 58.570 33.333 0.00 0.00 0.00 3.16
1033 1277 3.964688 TGGTGACAGTCCCGTGATATATT 59.035 43.478 0.00 0.00 35.01 1.28
1100 1348 3.402110 TCGCCAATCTGGTTATGCATAG 58.598 45.455 6.50 0.00 40.46 2.23
1101 1349 3.483808 TCGCCAATCTGGTTATGCATA 57.516 42.857 1.16 1.16 40.46 3.14
1102 1350 2.346766 TCGCCAATCTGGTTATGCAT 57.653 45.000 3.79 3.79 40.46 3.96
1150 1407 5.447010 GCGAAGTACGTATTACACTCTCACT 60.447 44.000 0.00 0.00 44.60 3.41
1159 1416 6.963805 AGTGAACTTAGCGAAGTACGTATTAC 59.036 38.462 12.87 4.20 45.50 1.89
1161 1418 5.947443 AGTGAACTTAGCGAAGTACGTATT 58.053 37.500 12.87 0.00 45.50 1.89
1163 1420 6.481134 CATAGTGAACTTAGCGAAGTACGTA 58.519 40.000 12.87 3.56 45.50 3.57
1164 1421 3.911661 AGTGAACTTAGCGAAGTACGT 57.088 42.857 12.87 0.00 45.50 3.57
1165 1422 4.204573 GCATAGTGAACTTAGCGAAGTACG 59.795 45.833 12.87 0.00 45.50 3.67
1166 1423 5.341617 AGCATAGTGAACTTAGCGAAGTAC 58.658 41.667 12.87 8.41 45.50 2.73
1177 1434 5.411361 TGCAACGAAAATAGCATAGTGAACT 59.589 36.000 0.00 0.00 31.05 3.01
1178 1435 5.627172 TGCAACGAAAATAGCATAGTGAAC 58.373 37.500 0.00 0.00 31.05 3.18
1213 1470 1.173913 GGAAACTTGGTTATGCGCCT 58.826 50.000 4.18 0.00 0.00 5.52
1219 1476 9.100197 ACAATTCTTTATGGGAAACTTGGTTAT 57.900 29.630 0.00 0.00 0.00 1.89
1240 1497 7.986889 AGGCACTGATACAAAAAGAAAACAATT 59.013 29.630 0.00 0.00 37.18 2.32
1241 1498 7.500141 AGGCACTGATACAAAAAGAAAACAAT 58.500 30.769 0.00 0.00 37.18 2.71
1244 1501 6.739112 AGAGGCACTGATACAAAAAGAAAAC 58.261 36.000 0.00 0.00 41.55 2.43
1245 1502 6.959639 AGAGGCACTGATACAAAAAGAAAA 57.040 33.333 0.00 0.00 41.55 2.29
1249 1506 5.471456 AGTGAAGAGGCACTGATACAAAAAG 59.529 40.000 0.00 0.00 46.72 2.27
1250 1507 5.376625 AGTGAAGAGGCACTGATACAAAAA 58.623 37.500 0.00 0.00 46.72 1.94
1262 1519 1.761449 TGCAAAACAGTGAAGAGGCA 58.239 45.000 0.00 0.00 0.00 4.75
1280 1537 8.772705 ACCATTTGTACTGCAATTTTGTTATTG 58.227 29.630 0.00 0.00 36.89 1.90
1282 1539 8.900983 AACCATTTGTACTGCAATTTTGTTAT 57.099 26.923 0.00 0.00 36.89 1.89
1286 1543 5.461737 ACGAACCATTTGTACTGCAATTTTG 59.538 36.000 0.00 0.00 36.89 2.44
1334 1654 5.544176 ACCAGAAGAGAAAGAATGGTGACTA 59.456 40.000 0.00 0.00 39.51 2.59
1339 1659 5.649831 GCAATACCAGAAGAGAAAGAATGGT 59.350 40.000 0.00 0.00 43.26 3.55
1342 1662 6.479884 ACAGCAATACCAGAAGAGAAAGAAT 58.520 36.000 0.00 0.00 0.00 2.40
1348 1668 7.063593 AGTAGATACAGCAATACCAGAAGAGA 58.936 38.462 0.00 0.00 0.00 3.10
1349 1669 7.283625 AGTAGATACAGCAATACCAGAAGAG 57.716 40.000 0.00 0.00 0.00 2.85
1381 1701 7.905604 TGTAAATGTGGTCAACTAAGATCAG 57.094 36.000 0.00 0.00 0.00 2.90
1398 1718 3.822594 TTGCTGGCTACGTTGTAAATG 57.177 42.857 0.00 0.00 39.23 2.32
1404 1724 2.288152 ACCAATTTTGCTGGCTACGTTG 60.288 45.455 0.00 0.00 37.48 4.10
1410 1730 1.422531 TCCAACCAATTTTGCTGGCT 58.577 45.000 5.29 0.00 37.48 4.75
1449 1769 3.710209 AGGCCCATGCAATAGTAGATC 57.290 47.619 0.00 0.00 40.13 2.75
1450 1770 3.654806 AGAAGGCCCATGCAATAGTAGAT 59.345 43.478 0.00 0.00 40.13 1.98
1451 1771 3.048600 AGAAGGCCCATGCAATAGTAGA 58.951 45.455 0.00 0.00 40.13 2.59
1452 1772 3.144506 CAGAAGGCCCATGCAATAGTAG 58.855 50.000 0.00 0.00 40.13 2.57
1453 1773 2.158623 CCAGAAGGCCCATGCAATAGTA 60.159 50.000 0.00 0.00 40.13 1.82
1454 1774 1.410648 CCAGAAGGCCCATGCAATAGT 60.411 52.381 0.00 0.00 40.13 2.12
1501 1856 6.063640 AGAAACAAATCAAATTGCAAAGGC 57.936 33.333 1.71 0.00 41.68 4.35
1503 1858 8.898983 ACAAAGAAACAAATCAAATTGCAAAG 57.101 26.923 1.71 0.00 33.52 2.77
1506 1861 8.939929 TGTAACAAAGAAACAAATCAAATTGCA 58.060 25.926 0.00 0.00 33.52 4.08
1507 1862 9.934190 ATGTAACAAAGAAACAAATCAAATTGC 57.066 25.926 0.00 0.00 33.52 3.56
1566 1967 4.024893 AGTTGTATAAATCAAGATGCGCGG 60.025 41.667 8.83 0.00 0.00 6.46
1567 1968 4.900182 CAGTTGTATAAATCAAGATGCGCG 59.100 41.667 0.00 0.00 0.00 6.86
1568 1969 4.672413 GCAGTTGTATAAATCAAGATGCGC 59.328 41.667 0.00 0.00 32.85 6.09
1569 1970 5.809464 TGCAGTTGTATAAATCAAGATGCG 58.191 37.500 0.00 0.00 39.46 4.73
1570 1971 9.552114 GATATGCAGTTGTATAAATCAAGATGC 57.448 33.333 0.00 0.00 38.27 3.91
1573 1974 8.777413 GCTGATATGCAGTTGTATAAATCAAGA 58.223 33.333 0.00 0.00 46.62 3.02
1574 1975 8.562052 TGCTGATATGCAGTTGTATAAATCAAG 58.438 33.333 0.00 0.00 46.62 3.02
1575 1976 8.344831 GTGCTGATATGCAGTTGTATAAATCAA 58.655 33.333 0.00 0.00 46.62 2.57
1576 1977 7.498570 TGTGCTGATATGCAGTTGTATAAATCA 59.501 33.333 0.00 0.00 46.62 2.57
1577 1978 7.800380 GTGTGCTGATATGCAGTTGTATAAATC 59.200 37.037 0.00 0.00 46.62 2.17
1578 1979 7.500227 AGTGTGCTGATATGCAGTTGTATAAAT 59.500 33.333 0.00 0.00 46.62 1.40
1579 1980 6.823182 AGTGTGCTGATATGCAGTTGTATAAA 59.177 34.615 0.00 0.00 46.62 1.40
1580 1981 6.348498 AGTGTGCTGATATGCAGTTGTATAA 58.652 36.000 0.00 0.00 46.62 0.98
1581 1982 5.917462 AGTGTGCTGATATGCAGTTGTATA 58.083 37.500 0.00 0.00 46.62 1.47
1582 1983 4.774124 AGTGTGCTGATATGCAGTTGTAT 58.226 39.130 0.00 0.00 46.62 2.29
1583 1984 4.183865 GAGTGTGCTGATATGCAGTTGTA 58.816 43.478 0.00 0.00 46.62 2.41
1584 1985 3.005554 GAGTGTGCTGATATGCAGTTGT 58.994 45.455 0.00 0.00 46.62 3.32
1585 1986 2.353889 GGAGTGTGCTGATATGCAGTTG 59.646 50.000 0.00 0.00 46.62 3.16
1586 1987 2.026915 TGGAGTGTGCTGATATGCAGTT 60.027 45.455 0.00 0.00 46.62 3.16
1587 1988 1.556451 TGGAGTGTGCTGATATGCAGT 59.444 47.619 0.00 0.00 46.62 4.40
1589 1990 1.407299 GGTGGAGTGTGCTGATATGCA 60.407 52.381 0.00 0.00 41.05 3.96
1590 1991 1.303309 GGTGGAGTGTGCTGATATGC 58.697 55.000 0.00 0.00 0.00 3.14
1591 1992 2.169144 TCTGGTGGAGTGTGCTGATATG 59.831 50.000 0.00 0.00 0.00 1.78
1635 2037 4.251268 ACGGAGTAGCATTCAGGTAAAAC 58.749 43.478 0.00 0.00 41.94 2.43
1656 2058 2.101415 GGGGGCTGCAATTGAAGAATAC 59.899 50.000 18.26 3.70 0.00 1.89
1672 2074 1.452833 GAGCAAGATGACAGGGGGC 60.453 63.158 0.00 0.00 0.00 5.80
1695 2097 8.213518 TGAAATCAAATACCTATCTTCACTGC 57.786 34.615 0.00 0.00 0.00 4.40
1697 2099 8.049117 TGCTGAAATCAAATACCTATCTTCACT 58.951 33.333 0.00 0.00 0.00 3.41
1781 2183 2.213499 GGAGCGTCATTAGGGAATGTG 58.787 52.381 0.00 0.00 42.71 3.21
1905 2310 4.363990 ACTGTGCTGGCGAGGTCG 62.364 66.667 0.00 0.00 43.27 4.79
1962 2373 6.831976 ACAGGAGAAATCTAGTTTGAGTGTT 58.168 36.000 0.00 0.00 0.00 3.32
2182 2606 1.068055 CAGGCTCCTCATGCAAACAAC 60.068 52.381 0.00 0.00 0.00 3.32
2222 2646 0.549469 GTCCCCCGTAATTCCCACAT 59.451 55.000 0.00 0.00 0.00 3.21
2408 2832 7.254692 GGTCACCTAGAAAGTCAAAACTACAAC 60.255 40.741 0.00 0.00 33.48 3.32
2425 2849 5.640357 GTGAGATCTCTATACGGTCACCTAG 59.360 48.000 22.95 0.00 0.00 3.02
2549 2977 4.328983 CGTGACGTGAAAATATGCTAAGGT 59.671 41.667 0.00 0.00 0.00 3.50
2550 2978 4.565166 TCGTGACGTGAAAATATGCTAAGG 59.435 41.667 4.40 0.00 0.00 2.69
2593 3055 7.320443 TGAACAATGCTACTGAATAATCACC 57.680 36.000 0.00 0.00 0.00 4.02
2633 3099 7.094118 TGCTAATTAACATTTCAAGGTACCACC 60.094 37.037 15.94 0.00 38.99 4.61
2701 3167 0.324943 GGAGGAACTTGCTAGGCACA 59.675 55.000 0.00 0.00 41.55 4.57
2703 3169 0.324943 GTGGAGGAACTTGCTAGGCA 59.675 55.000 0.00 0.00 41.55 4.75
2972 3459 5.179555 GTGAGCGATCTTCCAAAAGTAGTTT 59.820 40.000 0.90 0.00 33.95 2.66
2991 3478 1.449246 ATCTGCCGAAGCTGTGAGC 60.449 57.895 0.00 0.00 42.84 4.26
3019 3506 0.401356 TCTGGAGCTTGTGATGGCAA 59.599 50.000 0.00 0.00 0.00 4.52
3120 3607 1.173913 GGTGTCCAATGTAAGGCACC 58.826 55.000 0.00 0.00 42.09 5.01
3163 3650 0.955178 ATCTGGTAGATCTGTCGCCG 59.045 55.000 5.18 0.47 25.75 6.46
3210 3697 1.344438 TCACCAAGACTGCTTCATCGT 59.656 47.619 0.00 0.00 30.14 3.73
3215 3702 2.370281 TCGATCACCAAGACTGCTTC 57.630 50.000 0.00 0.00 30.14 3.86
3229 3716 8.674607 ACTTTACCCTTGATGTATTTTTCGATC 58.325 33.333 0.00 0.00 0.00 3.69
3250 3737 3.496160 GCTTGACTGTGGAGGGAACTTTA 60.496 47.826 0.00 0.00 44.43 1.85
3274 3761 0.172578 CTGCATGGCTCCACAACATG 59.827 55.000 0.00 0.00 43.58 3.21
3288 3776 2.050350 GGCATGACACTGGCTGCAT 61.050 57.895 0.50 0.00 38.58 3.96
3296 3784 3.353557 TCTAGTAGAACGGCATGACACT 58.646 45.455 0.00 0.00 0.00 3.55
3305 3793 0.318784 GCCGCCATCTAGTAGAACGG 60.319 60.000 24.53 24.53 40.21 4.44
3307 3795 0.318784 CCGCCGCCATCTAGTAGAAC 60.319 60.000 3.45 0.00 0.00 3.01
3312 3800 2.737180 CATCCGCCGCCATCTAGT 59.263 61.111 0.00 0.00 0.00 2.57
3402 3892 0.325933 ACCAGCTAGCATCAGCAACA 59.674 50.000 18.83 0.00 44.35 3.33
3406 3896 1.131883 CAAACACCAGCTAGCATCAGC 59.868 52.381 18.83 0.00 42.12 4.26
3409 3899 2.417933 CAGTCAAACACCAGCTAGCATC 59.582 50.000 18.83 0.00 0.00 3.91
3488 3978 5.104485 ACGGAGTGGAAAGCTATAAGGAAAT 60.104 40.000 0.00 0.00 42.51 2.17
3512 4002 3.886505 AGTGCAAGTAAAAATTGACGGGA 59.113 39.130 0.00 0.00 0.00 5.14
3531 4021 2.034339 GGACGTTCGTTGTACAACAGTG 60.034 50.000 32.07 21.86 41.20 3.66
3543 4033 1.871039 CACCTCAAAATGGACGTTCGT 59.129 47.619 0.00 0.00 0.00 3.85
3549 4039 2.031157 CACCGAACACCTCAAAATGGAC 60.031 50.000 0.00 0.00 0.00 4.02
3550 4040 2.226330 CACCGAACACCTCAAAATGGA 58.774 47.619 0.00 0.00 0.00 3.41
3557 4047 1.758280 ACTTGTACACCGAACACCTCA 59.242 47.619 0.00 0.00 0.00 3.86
3561 4051 5.961263 CACTTTTTACTTGTACACCGAACAC 59.039 40.000 0.00 0.00 0.00 3.32
3564 4054 5.873712 TGTCACTTTTTACTTGTACACCGAA 59.126 36.000 0.00 0.00 0.00 4.30
3568 4058 6.093082 ACACCTGTCACTTTTTACTTGTACAC 59.907 38.462 0.00 0.00 0.00 2.90
3586 4076 1.068127 GTGACACTACCGAACACCTGT 59.932 52.381 0.00 0.00 0.00 4.00
3588 4078 1.700955 AGTGACACTACCGAACACCT 58.299 50.000 6.24 0.00 32.76 4.00
3595 4085 2.370281 ATGAGCAAGTGACACTACCG 57.630 50.000 8.91 1.92 0.00 4.02
3597 4087 5.007626 TGAAACAATGAGCAAGTGACACTAC 59.992 40.000 8.91 4.46 0.00 2.73
3601 4091 4.823442 AGATGAAACAATGAGCAAGTGACA 59.177 37.500 0.00 0.00 0.00 3.58
3626 4118 3.614616 GGTCGCTACAGATCTTGTTTCTG 59.385 47.826 0.00 0.00 44.95 3.02
3640 4132 2.506438 GCCACACGAGGTCGCTAC 60.506 66.667 0.00 0.00 44.43 3.58
3645 4137 0.530744 TCTATGTGCCACACGAGGTC 59.469 55.000 0.00 0.00 37.14 3.85
3646 4138 0.246635 GTCTATGTGCCACACGAGGT 59.753 55.000 0.00 0.00 37.14 3.85
3656 4177 2.452813 CGCCGGTGTGTCTATGTGC 61.453 63.158 6.91 0.00 0.00 4.57
3720 4241 8.962884 ACAAAATTGCTTCCAACTTATTTTCT 57.037 26.923 0.00 0.00 32.95 2.52
3766 4287 9.453572 TCAACAGTCTTTGCATCTATTAGAATT 57.546 29.630 0.00 0.00 0.00 2.17
3787 4310 5.298276 GGGGAAATTGCTCGTATATTCAACA 59.702 40.000 0.00 0.00 0.00 3.33
3878 4404 9.186323 CTTGGTTCAACTATCATCTCTATTACG 57.814 37.037 0.00 0.00 0.00 3.18
3930 4487 2.508526 CCTAATGGAGGCCTTGTATGC 58.491 52.381 6.77 0.00 38.96 3.14
3946 4507 0.682855 CCCCGAAAATGCCTGCCTAA 60.683 55.000 0.00 0.00 0.00 2.69
3967 4528 1.209747 AGATGAAACCTACGGGCCTTC 59.790 52.381 0.84 0.00 35.63 3.46
3974 4535 2.225068 ATCGGCAGATGAAACCTACG 57.775 50.000 0.00 0.00 35.40 3.51
4006 4567 3.834489 TTTCTGGAGCAAAAATGCCAA 57.166 38.095 0.00 0.00 34.90 4.52
4009 4570 3.058708 GCCTTTTTCTGGAGCAAAAATGC 60.059 43.478 4.35 4.35 37.26 3.56
4033 4594 2.612604 GCGGGTTTGTTTTGTTTCACT 58.387 42.857 0.00 0.00 0.00 3.41
4035 4596 1.630148 CGCGGGTTTGTTTTGTTTCA 58.370 45.000 0.00 0.00 0.00 2.69
4036 4597 0.299300 GCGCGGGTTTGTTTTGTTTC 59.701 50.000 8.83 0.00 0.00 2.78
4037 4598 0.108567 AGCGCGGGTTTGTTTTGTTT 60.109 45.000 8.83 0.00 0.00 2.83
4038 4599 0.526739 GAGCGCGGGTTTGTTTTGTT 60.527 50.000 8.83 0.00 0.00 2.83
4039 4600 1.065109 GAGCGCGGGTTTGTTTTGT 59.935 52.632 8.83 0.00 0.00 2.83
4040 4601 1.660264 GGAGCGCGGGTTTGTTTTG 60.660 57.895 8.83 0.00 0.00 2.44
4044 4605 1.895020 TAGATGGAGCGCGGGTTTGT 61.895 55.000 8.83 0.00 0.00 2.83
4058 4619 0.039978 CTCCGCGGTGCTACTAGATG 60.040 60.000 27.15 0.00 0.00 2.90
4147 4708 1.798813 AGTTTCGCTTTAACGCAGAGG 59.201 47.619 4.70 0.00 0.00 3.69
4237 4799 2.202756 GCTCCATGGACGTCCGAC 60.203 66.667 28.70 10.85 39.43 4.79
4239 4801 4.873129 CCGCTCCATGGACGTCCG 62.873 72.222 28.70 15.78 39.43 4.79


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

AutoCloner maintained by Alex Coulton.