Multiple sequence alignment - TraesCS7D01G043700

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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 TraesCS7D01G043700 chr7D 100.000 5138 0 0 1 5138 22532175 22527038 0.000000e+00 9489.0
1 TraesCS7D01G043700 chr7D 90.625 96 4 4 4994 5085 536314598 536314692 6.990000e-24 122.0
2 TraesCS7D01G043700 chr4A 91.683 2621 183 25 1977 4587 705180497 705177902 0.000000e+00 3600.0
3 TraesCS7D01G043700 chr4A 89.758 537 34 5 987 1507 705181413 705180882 0.000000e+00 667.0
4 TraesCS7D01G043700 chr4A 88.194 288 24 4 1547 1826 705180802 705180517 8.240000e-88 335.0
5 TraesCS7D01G043700 chr4A 78.272 382 52 15 996 1354 705227669 705227296 3.120000e-52 217.0
6 TraesCS7D01G043700 chr7A 89.121 2868 206 48 1547 4384 22920497 22917706 0.000000e+00 3470.0
7 TraesCS7D01G043700 chr7A 99.594 986 4 0 1 986 275272783 275273768 0.000000e+00 1799.0
8 TraesCS7D01G043700 chr7A 82.175 561 36 26 987 1525 22921074 22920556 1.710000e-114 424.0
9 TraesCS7D01G043700 chr7A 89.333 150 8 4 4994 5135 80542375 80542524 1.140000e-41 182.0
10 TraesCS7D01G043700 chr7A 93.684 95 5 1 4873 4967 80541907 80542000 1.930000e-29 141.0
11 TraesCS7D01G043700 chr7A 100.000 28 0 0 4967 4994 46960745 46960772 9.000000e-03 52.8
12 TraesCS7D01G043700 chr7A 100.000 28 0 0 4967 4994 47496734 47496707 9.000000e-03 52.8
13 TraesCS7D01G043700 chr2A 100.000 986 0 0 1 986 277143627 277142642 0.000000e+00 1821.0
14 TraesCS7D01G043700 chr6A 99.493 987 5 0 1 987 70917705 70918691 0.000000e+00 1796.0
15 TraesCS7D01G043700 chr6A 94.615 260 11 3 733 991 70916247 70915990 2.880000e-107 399.0
16 TraesCS7D01G043700 chr4B 99.291 987 7 0 1 987 53488749 53487763 0.000000e+00 1784.0
17 TraesCS7D01G043700 chr4B 88.816 152 7 6 4994 5135 653948641 653948792 1.470000e-40 178.0
18 TraesCS7D01G043700 chr6D 98.783 986 2 2 1 986 29737637 29736662 0.000000e+00 1746.0
19 TraesCS7D01G043700 chr6D 91.289 551 46 2 1887 2437 288466461 288467009 0.000000e+00 750.0
20 TraesCS7D01G043700 chr6D 88.144 388 35 7 2490 2876 288467007 288467384 7.850000e-123 451.0
21 TraesCS7D01G043700 chr2B 92.922 989 56 7 1 985 748143901 748144879 0.000000e+00 1426.0
22 TraesCS7D01G043700 chr2B 87.500 992 109 11 1887 2876 645134002 645133024 0.000000e+00 1131.0
23 TraesCS7D01G043700 chr2B 95.745 141 6 0 157 297 37643070 37643210 1.440000e-55 228.0
24 TraesCS7D01G043700 chr2B 97.436 39 1 0 138 176 37643078 37643116 3.320000e-07 67.6
25 TraesCS7D01G043700 chr5D 89.909 991 87 9 1887 2876 462796512 462795534 0.000000e+00 1264.0
26 TraesCS7D01G043700 chr5D 83.203 1024 118 26 1 984 479790558 479789549 0.000000e+00 889.0
27 TraesCS7D01G043700 chrUn 98.693 612 1 1 375 986 244517334 244516730 0.000000e+00 1079.0
28 TraesCS7D01G043700 chr5A 94.158 582 33 1 405 986 421252040 421252620 0.000000e+00 885.0
29 TraesCS7D01G043700 chr5A 89.474 152 5 8 4994 5135 670189077 670188927 1.140000e-41 182.0
30 TraesCS7D01G043700 chr5A 100.000 28 0 0 4445 4472 276637578 276637605 9.000000e-03 52.8
31 TraesCS7D01G043700 chr3D 90.877 559 49 2 1887 2445 283966779 283966223 0.000000e+00 749.0
32 TraesCS7D01G043700 chr3D 94.041 386 15 5 4589 4969 603305278 603304896 3.450000e-161 579.0
33 TraesCS7D01G043700 chr3D 88.462 286 22 7 2507 2791 283966214 283965939 8.240000e-88 335.0
34 TraesCS7D01G043700 chr3D 93.377 151 4 2 4994 5138 603304459 603304309 8.660000e-53 219.0
35 TraesCS7D01G043700 chr2D 93.005 386 19 5 4589 4969 294540915 294541297 1.620000e-154 556.0
36 TraesCS7D01G043700 chr2D 93.919 148 3 2 4994 5135 294541734 294541881 8.660000e-53 219.0
37 TraesCS7D01G043700 chr2D 82.558 86 12 3 4491 4575 630044571 630044654 7.140000e-09 73.1
38 TraesCS7D01G043700 chr2D 81.176 85 13 3 4491 4574 629976833 629976915 1.190000e-06 65.8
39 TraesCS7D01G043700 chr3A 91.799 378 27 4 4589 4965 187274279 187274653 1.640000e-144 523.0
40 TraesCS7D01G043700 chr3A 93.243 148 4 2 4994 5135 187287509 187287656 4.030000e-51 213.0
41 TraesCS7D01G043700 chr3A 81.081 148 15 7 4994 5135 340909603 340909463 7.040000e-19 106.0
42 TraesCS7D01G043700 chr7B 91.078 269 22 2 4589 4857 22835371 22835637 3.780000e-96 363.0
43 TraesCS7D01G043700 chr7B 90.476 273 24 2 4589 4861 22899273 22899543 4.890000e-95 359.0
44 TraesCS7D01G043700 chr7B 90.110 273 25 2 4589 4861 22711686 22711956 2.280000e-93 353.0
45 TraesCS7D01G043700 chr7B 90.262 267 23 3 4589 4855 22714739 22715002 3.810000e-91 346.0
46 TraesCS7D01G043700 chr7B 89.744 273 25 3 4589 4861 22791375 22791644 3.810000e-91 346.0
47 TraesCS7D01G043700 chr7B 89.377 273 27 2 4589 4861 22968624 22968894 4.930000e-90 342.0
48 TraesCS7D01G043700 chr7B 94.737 95 4 1 4873 4967 22670310 22670403 4.150000e-31 147.0
49 TraesCS7D01G043700 chr7B 93.684 95 5 1 4873 4967 22674256 22674349 1.930000e-29 141.0
50 TraesCS7D01G043700 chr7B 94.565 92 4 1 4876 4967 22791737 22791827 1.930000e-29 141.0
51 TraesCS7D01G043700 chr7B 93.684 95 5 1 4873 4967 22895048 22895141 1.930000e-29 141.0
52 TraesCS7D01G043700 chr7B 92.632 95 6 1 4873 4967 22713578 22713671 8.970000e-28 135.0
53 TraesCS7D01G043700 chr4D 92.000 150 6 5 4994 5138 362702222 362702074 6.740000e-49 206.0
54 TraesCS7D01G043700 chr4D 90.789 152 3 9 4994 5135 488423903 488424053 5.250000e-45 193.0
55 TraesCS7D01G043700 chr4D 82.308 130 18 3 4447 4575 64357323 64357198 1.960000e-19 108.0
56 TraesCS7D01G043700 chr4D 100.000 30 0 0 4542 4571 47990528 47990557 7.190000e-04 56.5
57 TraesCS7D01G043700 chr1A 91.429 105 9 0 165 269 440923549 440923445 1.490000e-30 145.0
58 TraesCS7D01G043700 chr1A 93.617 47 2 1 4530 4575 267144016 267143970 9.230000e-08 69.4
59 TraesCS7D01G043700 chr1D 86.154 130 13 3 4447 4575 211684202 211684077 8.970000e-28 135.0
60 TraesCS7D01G043700 chr5B 90.323 93 9 0 166 258 587477594 587477502 6.990000e-24 122.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G043700 chr7D 22527038 22532175 5137 True 9489.0 9489 100.000000 1 5138 1 chr7D.!!$R1 5137
1 TraesCS7D01G043700 chr4A 705177902 705181413 3511 True 1534.0 3600 89.878333 987 4587 3 chr4A.!!$R2 3600
2 TraesCS7D01G043700 chr7A 22917706 22921074 3368 True 1947.0 3470 85.648000 987 4384 2 chr7A.!!$R2 3397
3 TraesCS7D01G043700 chr7A 275272783 275273768 985 False 1799.0 1799 99.594000 1 986 1 chr7A.!!$F2 985
4 TraesCS7D01G043700 chr2A 277142642 277143627 985 True 1821.0 1821 100.000000 1 986 1 chr2A.!!$R1 985
5 TraesCS7D01G043700 chr6A 70917705 70918691 986 False 1796.0 1796 99.493000 1 987 1 chr6A.!!$F1 986
6 TraesCS7D01G043700 chr4B 53487763 53488749 986 True 1784.0 1784 99.291000 1 987 1 chr4B.!!$R1 986
7 TraesCS7D01G043700 chr6D 29736662 29737637 975 True 1746.0 1746 98.783000 1 986 1 chr6D.!!$R1 985
8 TraesCS7D01G043700 chr6D 288466461 288467384 923 False 600.5 750 89.716500 1887 2876 2 chr6D.!!$F1 989
9 TraesCS7D01G043700 chr2B 748143901 748144879 978 False 1426.0 1426 92.922000 1 985 1 chr2B.!!$F1 984
10 TraesCS7D01G043700 chr2B 645133024 645134002 978 True 1131.0 1131 87.500000 1887 2876 1 chr2B.!!$R1 989
11 TraesCS7D01G043700 chr5D 462795534 462796512 978 True 1264.0 1264 89.909000 1887 2876 1 chr5D.!!$R1 989
12 TraesCS7D01G043700 chr5D 479789549 479790558 1009 True 889.0 889 83.203000 1 984 1 chr5D.!!$R2 983
13 TraesCS7D01G043700 chrUn 244516730 244517334 604 True 1079.0 1079 98.693000 375 986 1 chrUn.!!$R1 611
14 TraesCS7D01G043700 chr5A 421252040 421252620 580 False 885.0 885 94.158000 405 986 1 chr5A.!!$F2 581
15 TraesCS7D01G043700 chr3D 283965939 283966779 840 True 542.0 749 89.669500 1887 2791 2 chr3D.!!$R1 904
16 TraesCS7D01G043700 chr3D 603304309 603305278 969 True 399.0 579 93.709000 4589 5138 2 chr3D.!!$R2 549
17 TraesCS7D01G043700 chr2D 294540915 294541881 966 False 387.5 556 93.462000 4589 5135 2 chr2D.!!$F3 546
18 TraesCS7D01G043700 chr7B 22711686 22715002 3316 False 278.0 353 91.001333 4589 4967 3 chr7B.!!$F6 378

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
1093 1180 2.180017 GCGACTCGGCGAGGTAAA 59.820 61.111 36.81 2.29 33.35 2.01 F
1538 1647 0.031616 GTCTGGGGACTCCTCCATCT 60.032 60.000 5.91 0.00 38.52 2.90 F
1539 1648 0.263172 TCTGGGGACTCCTCCATCTC 59.737 60.000 5.91 0.00 38.52 2.75 F
1729 1875 0.592637 CGTTGCTGTCTGGCATGAAA 59.407 50.000 0.00 0.00 42.09 2.69 F
3273 3522 0.031616 AAAAAGGAGGCAACCCACCA 60.032 50.000 0.00 0.00 43.67 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2693 2915 0.606401 TTGCAGGCCAGTTAGACAGC 60.606 55.000 5.01 0.0 0.00 4.40 R
2916 3160 0.888619 CTTGCGGTACAGAGGAGACA 59.111 55.000 0.00 0.0 0.00 3.41 R
3273 3522 1.153086 GCTCATTGCCTCGTGGGAT 60.153 57.895 5.54 0.0 37.23 3.85 R
3330 3579 1.339631 CCACTCATTGCCCGGTAAGAA 60.340 52.381 0.00 0.0 0.00 2.52 R
4363 4621 0.108396 TGCACACACTGCCTGTACAT 59.892 50.000 0.00 0.0 46.51 2.29 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
1093 1180 2.180017 GCGACTCGGCGAGGTAAA 59.820 61.111 36.81 2.29 33.35 2.01
1106 1193 1.131928 AGGTAAACCTTCCCACCGCT 61.132 55.000 0.00 0.00 46.09 5.52
1123 1210 4.332543 TGCCTCCTCCCTTCCGGT 62.333 66.667 0.00 0.00 0.00 5.28
1134 1221 2.441532 TTCCGGTAGCCCTCTCCG 60.442 66.667 0.00 0.00 43.30 4.63
1139 1226 4.273257 GTAGCCCTCTCCGCGAGC 62.273 72.222 8.23 0.00 38.49 5.03
1316 1404 1.598130 GCCCTCGGATCCAATTCGG 60.598 63.158 13.41 4.32 0.00 4.30
1318 1406 0.249911 CCCTCGGATCCAATTCGGTC 60.250 60.000 13.41 0.00 35.57 4.79
1384 1473 4.290622 CCAGTTGCTGGCAGGGGT 62.291 66.667 17.64 0.00 45.13 4.95
1509 1618 1.080569 GGGGTGCTGCACGATTTTG 60.081 57.895 24.86 0.00 34.83 2.44
1526 1635 2.141011 TTGTCATGCCTGGTCTGGGG 62.141 60.000 0.00 0.00 0.00 4.96
1527 1636 2.124768 TCATGCCTGGTCTGGGGA 59.875 61.111 0.00 0.00 0.00 4.81
1528 1637 2.273449 CATGCCTGGTCTGGGGAC 59.727 66.667 0.00 0.00 41.43 4.46
1529 1638 2.125912 ATGCCTGGTCTGGGGACT 59.874 61.111 0.00 0.00 41.82 3.85
1532 1641 2.452114 CCTGGTCTGGGGACTCCT 59.548 66.667 0.00 0.00 41.82 3.69
1533 1642 1.687493 CCTGGTCTGGGGACTCCTC 60.687 68.421 0.00 0.00 41.82 3.71
1535 1644 2.450243 GGTCTGGGGACTCCTCCA 59.550 66.667 0.00 0.00 41.82 3.86
1536 1645 1.003573 GGTCTGGGGACTCCTCCAT 59.996 63.158 5.91 0.00 41.82 3.41
1537 1646 1.051556 GGTCTGGGGACTCCTCCATC 61.052 65.000 5.91 3.82 41.82 3.51
1538 1647 0.031616 GTCTGGGGACTCCTCCATCT 60.032 60.000 5.91 0.00 38.52 2.90
1539 1648 0.263172 TCTGGGGACTCCTCCATCTC 59.737 60.000 5.91 0.00 38.52 2.75
1540 1649 1.075970 TGGGGACTCCTCCATCTCG 60.076 63.158 0.00 0.00 38.52 4.04
1541 1650 1.834822 GGGGACTCCTCCATCTCGG 60.835 68.421 0.00 0.00 38.52 4.63
1542 1651 2.503382 GGGACTCCTCCATCTCGGC 61.503 68.421 0.00 0.00 38.52 5.54
1543 1652 2.503382 GGACTCCTCCATCTCGGCC 61.503 68.421 0.00 0.00 36.42 6.13
1544 1653 2.835431 ACTCCTCCATCTCGGCCG 60.835 66.667 22.12 22.12 33.14 6.13
1545 1654 4.292178 CTCCTCCATCTCGGCCGC 62.292 72.222 23.51 0.00 33.14 6.53
1571 1717 8.509690 CGAGCAATGGACATTCTGATATATTTT 58.490 33.333 0.00 0.00 0.00 1.82
1600 1746 7.147966 TGCTGTAGGTGTATTTCGAGAAGAATA 60.148 37.037 0.00 0.00 38.86 1.75
1644 1790 5.121105 TGATCTTGTATGCAACTCTCATGG 58.879 41.667 0.00 0.00 0.00 3.66
1680 1826 6.070767 AGCCACTGAAATACTAGCAAACTCTA 60.071 38.462 0.00 0.00 0.00 2.43
1705 1851 7.298507 TGCGTGGTAAGAAACTGATAATAAC 57.701 36.000 0.00 0.00 0.00 1.89
1707 1853 6.314400 GCGTGGTAAGAAACTGATAATAACCA 59.686 38.462 0.00 0.00 32.30 3.67
1729 1875 0.592637 CGTTGCTGTCTGGCATGAAA 59.407 50.000 0.00 0.00 42.09 2.69
1731 1877 0.592637 TTGCTGTCTGGCATGAAACG 59.407 50.000 0.00 0.00 42.09 3.60
1742 1888 2.222953 GGCATGAAACGTACCTAAAGCG 60.223 50.000 0.00 0.00 0.00 4.68
1750 1896 1.126113 CGTACCTAAAGCGCACAACAG 59.874 52.381 11.47 0.00 0.00 3.16
1778 1924 1.400494 GCCCAGCCTTGTATGTTAACG 59.600 52.381 0.26 0.00 0.00 3.18
1779 1925 2.706890 CCCAGCCTTGTATGTTAACGT 58.293 47.619 5.50 5.50 0.00 3.99
1780 1926 2.676342 CCCAGCCTTGTATGTTAACGTC 59.324 50.000 2.93 0.00 0.00 4.34
1781 1927 3.596214 CCAGCCTTGTATGTTAACGTCT 58.404 45.455 2.93 0.00 0.00 4.18
1782 1928 4.382254 CCCAGCCTTGTATGTTAACGTCTA 60.382 45.833 2.93 0.00 0.00 2.59
1783 1929 4.565564 CCAGCCTTGTATGTTAACGTCTAC 59.434 45.833 2.93 4.92 0.00 2.59
1784 1930 5.408356 CAGCCTTGTATGTTAACGTCTACT 58.592 41.667 2.93 0.00 0.00 2.57
1785 1931 5.515626 CAGCCTTGTATGTTAACGTCTACTC 59.484 44.000 2.93 0.00 0.00 2.59
1786 1932 5.418209 AGCCTTGTATGTTAACGTCTACTCT 59.582 40.000 2.93 0.00 0.00 3.24
1787 1933 5.515626 GCCTTGTATGTTAACGTCTACTCTG 59.484 44.000 2.93 0.00 0.00 3.35
1826 1990 4.537135 TTGATAATAGATCGTCCTGCCC 57.463 45.455 0.00 0.00 0.00 5.36
1828 1992 2.696526 TAATAGATCGTCCTGCCCCT 57.303 50.000 0.00 0.00 0.00 4.79
1829 1993 1.343069 AATAGATCGTCCTGCCCCTC 58.657 55.000 0.00 0.00 0.00 4.30
1831 1995 0.755698 TAGATCGTCCTGCCCCTCAC 60.756 60.000 0.00 0.00 0.00 3.51
1832 1996 2.284625 ATCGTCCTGCCCCTCACA 60.285 61.111 0.00 0.00 0.00 3.58
1833 1997 1.690219 GATCGTCCTGCCCCTCACAT 61.690 60.000 0.00 0.00 0.00 3.21
1834 1998 1.274703 ATCGTCCTGCCCCTCACATT 61.275 55.000 0.00 0.00 0.00 2.71
1835 1999 1.450312 CGTCCTGCCCCTCACATTC 60.450 63.158 0.00 0.00 0.00 2.67
1836 2000 1.685224 GTCCTGCCCCTCACATTCA 59.315 57.895 0.00 0.00 0.00 2.57
1837 2001 0.678048 GTCCTGCCCCTCACATTCAC 60.678 60.000 0.00 0.00 0.00 3.18
1843 2007 1.216977 CCCTCACATTCACGCGGTA 59.783 57.895 12.47 0.00 0.00 4.02
1845 2009 1.209128 CCTCACATTCACGCGGTATC 58.791 55.000 12.47 0.00 0.00 2.24
1897 2061 6.054860 ACCCTGGTGATAGATAATATGTGC 57.945 41.667 0.00 0.00 0.00 4.57
1946 2113 2.243957 CGCGTGTGAGTTTCCTGCA 61.244 57.895 0.00 0.00 0.00 4.41
1973 2140 5.480422 TCAGTTATGCTTCTCTGGAACTACA 59.520 40.000 0.00 0.00 0.00 2.74
2029 2196 1.252175 ACCTCATCCTGGATCGATCG 58.748 55.000 18.81 9.36 0.00 3.69
2046 2213 3.302092 CGATCGCATTTCTGTTCTGTAGC 60.302 47.826 0.26 0.00 0.00 3.58
2160 2327 1.811266 CGGTGTTGAGAGATGCCCG 60.811 63.158 0.00 0.00 0.00 6.13
2313 2480 4.785453 GTTCTGCAGGCCCGAGGG 62.785 72.222 15.13 3.22 38.57 4.30
2642 2864 2.452600 TCCATGAAAGTAATGCCCCC 57.547 50.000 0.00 0.00 0.00 5.40
2666 2888 3.110705 TCCCTTCTCATTCTCCCTCTTG 58.889 50.000 0.00 0.00 0.00 3.02
2677 2899 6.891361 TCATTCTCCCTCTTGATTTGCAATTA 59.109 34.615 0.00 0.00 35.59 1.40
2685 2907 6.258230 TCTTGATTTGCAATTACTGAGTGG 57.742 37.500 0.00 0.00 35.59 4.00
2686 2908 5.183713 TCTTGATTTGCAATTACTGAGTGGG 59.816 40.000 0.00 0.00 35.59 4.61
2693 2915 4.278170 TGCAATTACTGAGTGGGTTTCTTG 59.722 41.667 0.00 0.00 0.00 3.02
2705 2927 2.814336 GGGTTTCTTGCTGTCTAACTGG 59.186 50.000 0.00 0.00 0.00 4.00
2747 2969 1.067516 GCCACATGACACACAGCTTTT 59.932 47.619 0.00 0.00 0.00 2.27
2748 2970 2.481795 GCCACATGACACACAGCTTTTT 60.482 45.455 0.00 0.00 0.00 1.94
2749 2971 3.243367 GCCACATGACACACAGCTTTTTA 60.243 43.478 0.00 0.00 0.00 1.52
2750 2972 4.290155 CCACATGACACACAGCTTTTTAC 58.710 43.478 0.00 0.00 0.00 2.01
2751 2973 4.036734 CCACATGACACACAGCTTTTTACT 59.963 41.667 0.00 0.00 0.00 2.24
2752 2974 4.971830 CACATGACACACAGCTTTTTACTG 59.028 41.667 0.00 0.00 41.08 2.74
2754 2976 5.820423 ACATGACACACAGCTTTTTACTGTA 59.180 36.000 0.00 0.00 46.44 2.74
2762 2984 7.850982 CACACAGCTTTTTACTGTAACTGTAAG 59.149 37.037 16.40 10.67 46.44 2.34
2851 3095 4.235360 AGTCGTGATTGGTTAAGTCTTCG 58.765 43.478 0.00 0.00 0.00 3.79
2857 3101 4.927425 TGATTGGTTAAGTCTTCGCTACAC 59.073 41.667 0.00 0.00 0.00 2.90
2859 3103 4.595762 TGGTTAAGTCTTCGCTACACTT 57.404 40.909 0.00 0.00 34.68 3.16
2867 3111 3.612860 GTCTTCGCTACACTTACCACATG 59.387 47.826 0.00 0.00 0.00 3.21
2870 3114 2.073056 CGCTACACTTACCACATGCAA 58.927 47.619 0.00 0.00 0.00 4.08
2881 3125 9.716507 CACTTACCACATGCAAATAGTATTAAC 57.283 33.333 0.00 0.00 0.00 2.01
2916 3160 8.306313 ACAAAGGAAAAACTACCTCTCATTTT 57.694 30.769 0.00 0.00 35.25 1.82
2919 3163 7.511959 AGGAAAAACTACCTCTCATTTTGTC 57.488 36.000 0.00 0.00 0.00 3.18
2921 3165 7.445707 AGGAAAAACTACCTCTCATTTTGTCTC 59.554 37.037 0.00 0.00 0.00 3.36
2925 3169 5.337788 ACTACCTCTCATTTTGTCTCCTCT 58.662 41.667 0.00 0.00 0.00 3.69
2926 3170 4.550076 ACCTCTCATTTTGTCTCCTCTG 57.450 45.455 0.00 0.00 0.00 3.35
2929 3173 5.046950 ACCTCTCATTTTGTCTCCTCTGTAC 60.047 44.000 0.00 0.00 0.00 2.90
2939 3183 1.546476 CTCCTCTGTACCGCAAGACTT 59.454 52.381 0.00 0.00 43.02 3.01
2977 3221 6.234177 AGTTAAGCTCTGCATATGTTATCCC 58.766 40.000 4.29 0.00 0.00 3.85
2995 3239 2.009774 CCCTTGTGCTCCATTACTTCG 58.990 52.381 0.00 0.00 0.00 3.79
3009 3254 5.753921 CCATTACTTCGACTTCCATCTAACC 59.246 44.000 0.00 0.00 0.00 2.85
3059 3304 6.211184 ACAATGCATCATTTTCTCCCAAGTTA 59.789 34.615 0.00 0.00 31.05 2.24
3130 3377 9.076781 TCTTTGAAGTGAATAATTGTGATTCCA 57.923 29.630 0.00 0.00 33.18 3.53
3151 3398 7.775053 TCCATTACCATGTTTAGCTTCTTTT 57.225 32.000 0.00 0.00 0.00 2.27
3234 3483 4.973168 TCCAACTAGTTTGCTCATGTTCT 58.027 39.130 5.07 0.00 33.34 3.01
3248 3497 6.381133 TGCTCATGTTCTCCTCTGTATTCTTA 59.619 38.462 0.00 0.00 0.00 2.10
3273 3522 0.031616 AAAAAGGAGGCAACCCACCA 60.032 50.000 0.00 0.00 43.67 4.17
3291 3540 1.153086 ATCCCACGAGGCAATGAGC 60.153 57.895 0.00 0.00 44.65 4.26
3312 3561 3.304928 GCGATGAATGGCTAGAAAATGGG 60.305 47.826 0.00 0.00 0.00 4.00
3330 3579 4.954970 CAGTGCCCACTTGCCCGT 62.955 66.667 0.00 0.00 40.20 5.28
3516 3765 2.026945 TAGCCATCGCAATGCTCGGA 62.027 55.000 2.94 0.00 37.52 4.55
3787 4036 4.081476 TCACTGTCATGTATCCAGACAAGG 60.081 45.833 10.04 0.00 41.27 3.61
3834 4083 2.268920 GCGTGGGATCCTCTTGCA 59.731 61.111 12.58 0.00 0.00 4.08
3908 4158 1.467342 GTGCTTCTAACCGCGGAATTT 59.533 47.619 35.90 19.04 0.00 1.82
3963 4213 1.204704 GTAATTGCCTTGCCTGTTCCC 59.795 52.381 0.00 0.00 0.00 3.97
3986 4236 4.453478 CAGAAAGCAGAGCTGTTTGTGATA 59.547 41.667 0.00 0.00 39.62 2.15
4024 4274 5.073691 AGGCAAGTGGAATAAGGTGCTATAT 59.926 40.000 0.00 0.00 32.61 0.86
4037 4287 4.003648 GGTGCTATATTACCATGTCCTGC 58.996 47.826 0.00 0.00 36.94 4.85
4052 4302 1.421268 TCCTGCTGTGAACCTGTCATT 59.579 47.619 0.00 0.00 38.90 2.57
4143 4393 3.915437 ATTGTGGTTGTCCTTAAAGCG 57.085 42.857 0.00 0.00 34.23 4.68
4185 4435 8.836413 TCTGAAACTTTGGTTGTTACAGAATAG 58.164 33.333 0.00 0.00 35.63 1.73
4333 4591 8.635877 AGTAATTCGCTATCACAAGAAAGTAG 57.364 34.615 0.00 0.00 0.00 2.57
4337 4595 7.724305 TTCGCTATCACAAGAAAGTAGTTTT 57.276 32.000 0.00 0.00 0.00 2.43
4341 4599 8.230486 CGCTATCACAAGAAAGTAGTTTTGAAT 58.770 33.333 0.00 0.00 0.00 2.57
4403 4661 5.107133 GCATTTTTGGTCAGAGATTGGATG 58.893 41.667 0.00 0.00 0.00 3.51
4404 4662 4.789012 TTTTTGGTCAGAGATTGGATGC 57.211 40.909 0.00 0.00 0.00 3.91
4415 4673 0.107508 ATTGGATGCCGACAGTCCAG 60.108 55.000 0.00 0.00 42.54 3.86
4419 4677 0.818296 GATGCCGACAGTCCAGTAGT 59.182 55.000 0.00 0.00 0.00 2.73
4420 4678 2.022195 GATGCCGACAGTCCAGTAGTA 58.978 52.381 0.00 0.00 0.00 1.82
4421 4679 2.139323 TGCCGACAGTCCAGTAGTAT 57.861 50.000 0.00 0.00 0.00 2.12
4422 4680 2.022195 TGCCGACAGTCCAGTAGTATC 58.978 52.381 0.00 0.00 0.00 2.24
4423 4681 1.337387 GCCGACAGTCCAGTAGTATCC 59.663 57.143 0.00 0.00 0.00 2.59
4429 4687 5.477291 CGACAGTCCAGTAGTATCCCATATT 59.523 44.000 0.00 0.00 0.00 1.28
4433 4691 9.476928 ACAGTCCAGTAGTATCCCATATTATAC 57.523 37.037 0.00 0.00 0.00 1.47
4505 4763 7.099764 TCAAATTGTGGTGCTTTGAGTAAAAA 58.900 30.769 0.00 0.00 34.80 1.94
4513 4771 8.487176 GTGGTGCTTTGAGTAAAAATTTACATG 58.513 33.333 16.08 0.00 44.14 3.21
4514 4772 7.655328 TGGTGCTTTGAGTAAAAATTTACATGG 59.345 33.333 16.08 5.13 44.14 3.66
4520 4778 9.566432 TTTGAGTAAAAATTTACATGGCCAAAT 57.434 25.926 10.96 0.96 44.14 2.32
4525 4783 9.404348 GTAAAAATTTACATGGCCAAATTTTGG 57.596 29.630 27.39 21.56 46.13 3.28
4551 4809 7.425224 TTTTTACCTCATCAAAAACCTCCAA 57.575 32.000 0.00 0.00 30.72 3.53
4554 4812 4.145052 ACCTCATCAAAAACCTCCAACTC 58.855 43.478 0.00 0.00 0.00 3.01
4561 4819 3.662759 AAAACCTCCAACTCCAACAGA 57.337 42.857 0.00 0.00 0.00 3.41
4573 4832 7.770433 TCCAACTCCAACAGATGATGTAAATAG 59.230 37.037 0.00 0.00 43.00 1.73
4667 4926 3.555168 GCTATAGGGATTTGCGCTAGTGT 60.555 47.826 9.73 0.00 44.11 3.55
4721 4980 1.009222 GTCGACTGGCGGTATACGG 60.009 63.158 8.70 6.09 44.51 4.02
4726 4985 0.112995 ACTGGCGGTATACGGGGATA 59.887 55.000 11.90 0.00 44.51 2.59
4857 5117 3.627218 GTAATCGCGCCGTCTGCC 61.627 66.667 0.00 0.00 36.24 4.85
4881 5220 1.129326 CGTAGCCGAGCCGAATTTAG 58.871 55.000 0.00 0.00 35.63 1.85
4969 5312 0.251653 TACAGCTCCGTGGAAGAGGT 60.252 55.000 0.00 0.00 42.62 3.85
4970 5313 1.216710 CAGCTCCGTGGAAGAGGTC 59.783 63.158 0.00 0.00 39.99 3.85
4985 5328 7.468141 GGAAGAGGTCCAAAATAGACAAAAT 57.532 36.000 0.00 0.00 46.97 1.82
4986 5329 7.896811 GGAAGAGGTCCAAAATAGACAAAATT 58.103 34.615 0.00 0.00 46.97 1.82
4988 5331 9.411801 GAAGAGGTCCAAAATAGACAAAATTTC 57.588 33.333 0.00 0.00 35.89 2.17
4991 5334 7.154656 AGGTCCAAAATAGACAAAATTTCAGC 58.845 34.615 0.00 0.00 35.89 4.26
4992 5335 6.928492 GGTCCAAAATAGACAAAATTTCAGCA 59.072 34.615 0.00 0.00 35.89 4.41
5005 7236 0.730840 TTCAGCAAGCTCGATGCATG 59.269 50.000 2.46 9.38 46.22 4.06
5116 7756 5.812642 ACTGAAATTGGAAGTATACGAGCTG 59.187 40.000 0.00 0.00 0.00 4.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1075 1162 2.338015 TTTACCTCGCCGAGTCGCT 61.338 57.895 13.83 0.00 0.00 4.93
1384 1473 1.386772 GGATACCCATCCCACCCCA 60.387 63.158 0.00 0.00 44.55 4.96
1393 1482 1.426598 CATGCCTTCCTGGATACCCAT 59.573 52.381 0.00 0.00 42.59 4.00
1464 1553 2.486982 CCCAGATCAAAACACTGAGCAG 59.513 50.000 0.00 0.00 34.10 4.24
1469 1558 3.620374 CGAGATCCCAGATCAAAACACTG 59.380 47.826 7.30 0.00 0.00 3.66
1509 1618 2.273449 CCCCAGACCAGGCATGAC 59.727 66.667 0.00 0.00 0.00 3.06
1526 1635 2.851071 CGGCCGAGATGGAGGAGTC 61.851 68.421 24.07 0.00 42.00 3.36
1527 1636 2.835431 CGGCCGAGATGGAGGAGT 60.835 66.667 24.07 0.00 42.00 3.85
1528 1637 4.292178 GCGGCCGAGATGGAGGAG 62.292 72.222 33.48 0.00 42.00 3.69
1541 1650 2.652893 GAATGTCCATTGCTCGCGGC 62.653 60.000 6.13 9.69 42.22 6.53
1542 1651 1.091771 AGAATGTCCATTGCTCGCGG 61.092 55.000 6.13 0.00 0.00 6.46
1543 1652 0.027194 CAGAATGTCCATTGCTCGCG 59.973 55.000 0.00 0.00 0.00 5.87
1544 1653 1.372582 TCAGAATGTCCATTGCTCGC 58.627 50.000 0.00 0.00 37.40 5.03
1545 1654 7.606858 AATATATCAGAATGTCCATTGCTCG 57.393 36.000 0.00 0.00 37.40 5.03
1571 1717 4.945543 TCTCGAAATACACCTACAGCACTA 59.054 41.667 0.00 0.00 0.00 2.74
1572 1718 3.762288 TCTCGAAATACACCTACAGCACT 59.238 43.478 0.00 0.00 0.00 4.40
1600 1746 9.139734 AGATCATAAGCCAATTACATTTGTCAT 57.860 29.630 0.00 0.00 0.00 3.06
1611 1757 6.964807 TGCATACAAGATCATAAGCCAATT 57.035 33.333 0.00 0.00 0.00 2.32
1644 1790 3.895232 TTCAGTGGCTACTCAATCCTC 57.105 47.619 0.00 0.00 34.07 3.71
1680 1826 7.012044 GGTTATTATCAGTTTCTTACCACGCAT 59.988 37.037 0.00 0.00 0.00 4.73
1684 1830 7.201705 GGCTGGTTATTATCAGTTTCTTACCAC 60.202 40.741 0.00 0.00 33.81 4.16
1686 1832 6.018180 CGGCTGGTTATTATCAGTTTCTTACC 60.018 42.308 0.00 0.00 33.81 2.85
1729 1875 1.142474 GTTGTGCGCTTTAGGTACGT 58.858 50.000 9.73 0.00 0.00 3.57
1731 1877 1.136057 GCTGTTGTGCGCTTTAGGTAC 60.136 52.381 9.73 0.00 0.00 3.34
1759 1905 2.676342 GACGTTAACATACAAGGCTGGG 59.324 50.000 6.39 0.00 0.00 4.45
1778 1924 2.494073 CAGTCCAAGGACCAGAGTAGAC 59.506 54.545 15.36 0.00 45.59 2.59
1779 1925 2.378886 TCAGTCCAAGGACCAGAGTAGA 59.621 50.000 15.36 0.98 45.59 2.59
1780 1926 2.808919 TCAGTCCAAGGACCAGAGTAG 58.191 52.381 15.36 0.00 45.59 2.57
1781 1927 2.897969 GTTCAGTCCAAGGACCAGAGTA 59.102 50.000 15.36 0.00 45.59 2.59
1782 1928 1.694696 GTTCAGTCCAAGGACCAGAGT 59.305 52.381 15.36 0.00 45.59 3.24
1783 1929 1.002544 GGTTCAGTCCAAGGACCAGAG 59.997 57.143 15.36 4.28 45.59 3.35
1784 1930 1.056660 GGTTCAGTCCAAGGACCAGA 58.943 55.000 15.36 11.11 45.59 3.86
1785 1931 0.764890 TGGTTCAGTCCAAGGACCAG 59.235 55.000 15.36 9.00 45.59 4.00
1786 1932 1.444933 ATGGTTCAGTCCAAGGACCA 58.555 50.000 15.36 7.30 45.59 4.02
1787 1933 2.162681 CAATGGTTCAGTCCAAGGACC 58.837 52.381 15.36 1.43 45.59 4.46
1826 1990 1.202417 AGATACCGCGTGAATGTGAGG 60.202 52.381 4.92 0.00 0.00 3.86
1828 1992 2.665649 AAGATACCGCGTGAATGTGA 57.334 45.000 4.92 0.00 0.00 3.58
1829 1993 2.223021 CCAAAGATACCGCGTGAATGTG 60.223 50.000 4.92 0.00 0.00 3.21
1831 1995 1.330521 CCCAAAGATACCGCGTGAATG 59.669 52.381 4.92 0.00 0.00 2.67
1832 1996 1.065709 ACCCAAAGATACCGCGTGAAT 60.066 47.619 4.92 0.00 0.00 2.57
1833 1997 0.322322 ACCCAAAGATACCGCGTGAA 59.678 50.000 4.92 0.00 0.00 3.18
1834 1998 1.135527 CTACCCAAAGATACCGCGTGA 59.864 52.381 4.92 0.00 0.00 4.35
1835 1999 1.567504 CTACCCAAAGATACCGCGTG 58.432 55.000 4.92 0.00 0.00 5.34
1836 2000 0.462789 CCTACCCAAAGATACCGCGT 59.537 55.000 4.92 0.00 0.00 6.01
1837 2001 0.462789 ACCTACCCAAAGATACCGCG 59.537 55.000 0.00 0.00 0.00 6.46
1843 2007 2.269940 ACTCAGCACCTACCCAAAGAT 58.730 47.619 0.00 0.00 0.00 2.40
1845 2009 2.568623 AACTCAGCACCTACCCAAAG 57.431 50.000 0.00 0.00 0.00 2.77
1921 2088 0.928229 AAACTCACACGCGTGTCTTC 59.072 50.000 39.88 0.00 42.83 2.87
1922 2089 0.928229 GAAACTCACACGCGTGTCTT 59.072 50.000 39.88 28.16 42.83 3.01
1930 2097 1.195448 GATGTGCAGGAAACTCACACG 59.805 52.381 0.00 0.00 44.97 4.49
1946 2113 5.046014 AGTTCCAGAGAAGCATAACTGATGT 60.046 40.000 0.00 0.00 37.90 3.06
2029 2196 6.428385 ACATTAGCTACAGAACAGAAATGC 57.572 37.500 0.00 0.00 0.00 3.56
2313 2480 0.811281 CAAAGATCGGACCTTTGCCC 59.189 55.000 11.73 0.00 42.41 5.36
2319 2486 1.765314 CCATCCTCAAAGATCGGACCT 59.235 52.381 0.00 0.00 0.00 3.85
2642 2864 1.834263 AGGGAGAATGAGAAGGGAACG 59.166 52.381 0.00 0.00 0.00 3.95
2666 2888 5.391312 AACCCACTCAGTAATTGCAAATC 57.609 39.130 1.71 0.00 0.00 2.17
2677 2899 1.212935 ACAGCAAGAAACCCACTCAGT 59.787 47.619 0.00 0.00 0.00 3.41
2685 2907 2.226674 GCCAGTTAGACAGCAAGAAACC 59.773 50.000 0.00 0.00 0.00 3.27
2686 2908 2.226674 GGCCAGTTAGACAGCAAGAAAC 59.773 50.000 0.00 0.00 0.00 2.78
2693 2915 0.606401 TTGCAGGCCAGTTAGACAGC 60.606 55.000 5.01 0.00 0.00 4.40
2705 2927 4.427312 CTCATGGTTTCTTATTTGCAGGC 58.573 43.478 0.00 0.00 0.00 4.85
2827 3071 4.866508 AGACTTAACCAATCACGACTCA 57.133 40.909 0.00 0.00 0.00 3.41
2828 3072 4.323868 CGAAGACTTAACCAATCACGACTC 59.676 45.833 0.00 0.00 0.00 3.36
2832 3076 2.993899 AGCGAAGACTTAACCAATCACG 59.006 45.455 0.00 0.00 0.00 4.35
2833 3077 4.927425 TGTAGCGAAGACTTAACCAATCAC 59.073 41.667 0.00 0.00 0.00 3.06
2851 3095 4.701956 ATTTGCATGTGGTAAGTGTAGC 57.298 40.909 0.00 0.00 0.00 3.58
2916 3160 0.888619 CTTGCGGTACAGAGGAGACA 59.111 55.000 0.00 0.00 0.00 3.41
2919 3163 1.178276 AGTCTTGCGGTACAGAGGAG 58.822 55.000 0.00 0.00 0.00 3.69
2921 3165 1.714794 CAAGTCTTGCGGTACAGAGG 58.285 55.000 0.00 0.00 0.00 3.69
2939 3183 7.224753 GCAGAGCTTAACTAACATTACATAGCA 59.775 37.037 0.00 0.00 0.00 3.49
2941 3185 8.648557 TGCAGAGCTTAACTAACATTACATAG 57.351 34.615 0.00 0.00 0.00 2.23
2958 3202 4.103785 ACAAGGGATAACATATGCAGAGCT 59.896 41.667 1.58 0.00 0.00 4.09
2977 3221 3.589988 AGTCGAAGTAATGGAGCACAAG 58.410 45.455 0.00 0.00 0.00 3.16
2995 3239 4.120589 GGAATCACGGTTAGATGGAAGTC 58.879 47.826 0.00 0.00 0.00 3.01
3009 3254 1.390123 CACAGTTAGCACGGAATCACG 59.610 52.381 0.00 0.00 40.31 4.35
3122 3368 6.699575 AGCTAAACATGGTAATGGAATCAC 57.300 37.500 0.00 0.00 38.19 3.06
3124 3370 7.573968 AGAAGCTAAACATGGTAATGGAATC 57.426 36.000 0.00 0.00 38.19 2.52
3133 3380 7.665559 TGACTATCAAAAGAAGCTAAACATGGT 59.334 33.333 0.00 0.00 0.00 3.55
3151 3398 5.722021 TCAACACTAGCACTTGACTATCA 57.278 39.130 0.00 0.00 0.00 2.15
3234 3483 7.554118 CCTTTTTGCTGATAAGAATACAGAGGA 59.446 37.037 0.00 0.00 34.07 3.71
3248 3497 1.620323 GGTTGCCTCCTTTTTGCTGAT 59.380 47.619 0.00 0.00 0.00 2.90
3273 3522 1.153086 GCTCATTGCCTCGTGGGAT 60.153 57.895 5.54 0.00 37.23 3.85
3291 3540 3.304928 GCCCATTTTCTAGCCATTCATCG 60.305 47.826 0.00 0.00 0.00 3.84
3330 3579 1.339631 CCACTCATTGCCCGGTAAGAA 60.340 52.381 0.00 0.00 0.00 2.52
3351 3600 3.423154 GCGACAAGGGGCAGAACG 61.423 66.667 0.00 0.00 0.00 3.95
3516 3765 2.746277 GGGACGTTCGCTGCCATT 60.746 61.111 0.00 0.00 0.00 3.16
3834 4083 0.252479 CAGAGCCAGGCATCTTCAGT 59.748 55.000 15.80 0.00 0.00 3.41
3963 4213 2.615447 TCACAAACAGCTCTGCTTTCTG 59.385 45.455 0.00 0.00 36.40 3.02
3986 4236 4.015084 CACTTGCCTCATCCTCAGAAAAT 58.985 43.478 0.00 0.00 0.00 1.82
4024 4274 2.552155 GGTTCACAGCAGGACATGGTAA 60.552 50.000 0.00 0.00 37.60 2.85
4037 4287 2.945008 ACACACAATGACAGGTTCACAG 59.055 45.455 0.00 0.00 36.92 3.66
4052 4302 0.599991 GCATGGACTGACGACACACA 60.600 55.000 0.00 0.00 0.00 3.72
4103 4353 8.912988 CCACAATATAATTGTTTCTGGGTACAT 58.087 33.333 2.59 0.00 0.00 2.29
4104 4354 7.891183 ACCACAATATAATTGTTTCTGGGTACA 59.109 33.333 8.96 0.00 0.00 2.90
4138 4388 4.216257 AGACACAGCATAACAAATCGCTTT 59.784 37.500 0.00 0.00 30.72 3.51
4143 4393 6.672147 AGTTTCAGACACAGCATAACAAATC 58.328 36.000 0.00 0.00 0.00 2.17
4363 4621 0.108396 TGCACACACTGCCTGTACAT 59.892 50.000 0.00 0.00 46.51 2.29
4403 4661 1.337387 GGATACTACTGGACTGTCGGC 59.663 57.143 1.07 0.00 0.00 5.54
4404 4662 1.955080 GGGATACTACTGGACTGTCGG 59.045 57.143 1.07 0.02 0.00 4.79
4433 4691 7.517614 TGGAGATGCTCTAATAGTTCAGTAG 57.482 40.000 0.00 0.00 0.00 2.57
4464 4722 8.658609 CCACAATTTGATGATGAATTTTACACC 58.341 33.333 2.79 0.00 0.00 4.16
4465 4723 9.206870 ACCACAATTTGATGATGAATTTTACAC 57.793 29.630 2.79 0.00 0.00 2.90
4474 4732 5.010820 TCAAAGCACCACAATTTGATGATGA 59.989 36.000 2.79 2.74 37.86 2.92
4484 4742 9.040939 GTAAATTTTTACTCAAAGCACCACAAT 57.959 29.630 0.00 0.00 39.82 2.71
4527 4785 7.125053 AGTTGGAGGTTTTTGATGAGGTAAAAA 59.875 33.333 0.00 0.00 34.45 1.94
4534 4792 4.144297 TGGAGTTGGAGGTTTTTGATGAG 58.856 43.478 0.00 0.00 0.00 2.90
4551 4809 7.050377 CACCTATTTACATCATCTGTTGGAGT 58.950 38.462 0.00 0.00 39.39 3.85
4554 4812 7.475015 CAACACCTATTTACATCATCTGTTGG 58.525 38.462 0.00 0.00 39.39 3.77
4573 4832 4.354587 GCTGCTCTATATTTTGCAACACC 58.645 43.478 0.00 0.00 34.90 4.16
4587 4846 2.359214 CCATCTCAGTAACGCTGCTCTA 59.641 50.000 0.00 0.00 44.66 2.43
4667 4926 0.390603 CGTATTTCCTGCCACGGACA 60.391 55.000 0.00 0.00 31.44 4.02
4721 4980 2.870411 GGCGTACATCACTGTTTATCCC 59.130 50.000 0.00 0.00 36.79 3.85
4726 4985 1.156736 GCTGGCGTACATCACTGTTT 58.843 50.000 0.00 0.00 36.79 2.83
4805 5065 2.969628 GTCAGGTTCTCATGACGGAT 57.030 50.000 0.00 0.00 43.55 4.18
4969 5312 7.171337 GCTTGCTGAAATTTTGTCTATTTTGGA 59.829 33.333 0.00 0.00 0.00 3.53
4970 5313 7.172019 AGCTTGCTGAAATTTTGTCTATTTTGG 59.828 33.333 0.00 0.00 0.00 3.28
4971 5314 8.080083 AGCTTGCTGAAATTTTGTCTATTTTG 57.920 30.769 0.00 0.00 0.00 2.44
4972 5315 7.115378 CGAGCTTGCTGAAATTTTGTCTATTTT 59.885 33.333 0.00 0.00 0.00 1.82
4973 5316 6.583806 CGAGCTTGCTGAAATTTTGTCTATTT 59.416 34.615 0.00 0.00 0.00 1.40
4974 5317 6.072508 TCGAGCTTGCTGAAATTTTGTCTATT 60.073 34.615 0.00 0.00 0.00 1.73
4976 5319 4.754618 TCGAGCTTGCTGAAATTTTGTCTA 59.245 37.500 0.00 0.00 0.00 2.59
4977 5320 3.565482 TCGAGCTTGCTGAAATTTTGTCT 59.435 39.130 0.00 0.00 0.00 3.41
4978 5321 3.888934 TCGAGCTTGCTGAAATTTTGTC 58.111 40.909 0.00 0.00 0.00 3.18
4979 5322 3.988379 TCGAGCTTGCTGAAATTTTGT 57.012 38.095 0.00 0.00 0.00 2.83
4980 5323 3.060363 GCATCGAGCTTGCTGAAATTTTG 59.940 43.478 9.04 0.00 41.15 2.44
4982 5325 2.229543 TGCATCGAGCTTGCTGAAATTT 59.770 40.909 9.04 0.00 45.94 1.82
4983 5326 1.814394 TGCATCGAGCTTGCTGAAATT 59.186 42.857 9.04 0.00 45.94 1.82
4985 5328 1.131693 CATGCATCGAGCTTGCTGAAA 59.868 47.619 9.04 0.00 45.94 2.69
4986 5329 0.730840 CATGCATCGAGCTTGCTGAA 59.269 50.000 9.04 0.00 45.94 3.02
4988 5331 4.998294 CATGCATCGAGCTTGCTG 57.002 55.556 10.10 5.45 45.94 4.41
4992 5335 1.736126 CTGTTGACATGCATCGAGCTT 59.264 47.619 0.00 0.22 45.94 3.74
5005 7236 2.887152 AGAATCACCTTTGCCTGTTGAC 59.113 45.455 0.00 0.00 0.00 3.18
5116 7756 4.946478 AGGTGTATAGATGAAGCTGGAC 57.054 45.455 0.00 0.00 0.00 4.02


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

AutoCloner maintained by Alex Coulton.