Multiple sequence alignment - TraesCS5A01G477000

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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 TraesCS5A01G477000 chr5A 100.000 2537 0 0 1 2537 651541701 651539165 0.000000e+00 4686.0
1 TraesCS5A01G477000 chr5A 85.694 1405 130 44 272 1650 651529109 651527750 0.000000e+00 1415.0
2 TraesCS5A01G477000 chr5A 84.946 465 59 7 1690 2151 651527643 651527187 6.390000e-126 460.0
3 TraesCS5A01G477000 chr5B 91.130 1567 88 23 115 1650 659550387 659548841 0.000000e+00 2076.0
4 TraesCS5A01G477000 chr5B 90.476 777 53 7 775 1537 659523444 659522675 0.000000e+00 1005.0
5 TraesCS5A01G477000 chr5B 87.565 764 77 11 828 1580 659506330 659505574 0.000000e+00 869.0
6 TraesCS5A01G477000 chr5B 81.692 650 53 34 146 755 659532471 659531848 4.910000e-132 481.0
7 TraesCS5A01G477000 chr5B 91.255 263 11 7 549 807 659506888 659506634 5.190000e-92 348.0
8 TraesCS5A01G477000 chr5B 81.663 409 51 15 1133 1538 659471595 659471208 4.070000e-83 318.0
9 TraesCS5A01G477000 chr5B 88.506 261 15 8 269 521 659507140 659506887 4.100000e-78 302.0
10 TraesCS5A01G477000 chr5B 79.905 423 65 13 999 1417 659704429 659704835 2.470000e-75 292.0
11 TraesCS5A01G477000 chr5B 85.128 195 23 4 2344 2537 659490087 659489898 7.160000e-46 195.0
12 TraesCS5A01G477000 chr5B 80.505 277 22 21 2290 2537 659521845 659521572 1.550000e-42 183.0
13 TraesCS5A01G477000 chr5B 84.821 112 8 6 2240 2343 659548280 659548170 1.240000e-18 104.0
14 TraesCS5A01G477000 chr5D 90.726 1294 75 18 289 1565 525127278 525126013 0.000000e+00 1683.0
15 TraesCS5A01G477000 chr5D 86.146 1292 93 34 269 1544 525178211 525176990 0.000000e+00 1315.0
16 TraesCS5A01G477000 chr5D 81.951 410 48 15 1133 1538 525086310 525085923 8.750000e-85 324.0
17 TraesCS5A01G477000 chr5D 90.909 132 9 3 2407 2537 525176498 525176369 9.330000e-40 174.0
18 TraesCS5A01G477000 chr5D 84.393 173 18 6 2173 2342 525123521 525123355 7.260000e-36 161.0
19 TraesCS5A01G477000 chr5D 91.463 82 6 1 1512 1593 525124937 525124857 7.420000e-21 111.0
20 TraesCS5A01G477000 chr6A 81.048 248 36 5 1904 2151 542205958 542206194 1.200000e-43 187.0
21 TraesCS5A01G477000 chr6A 97.333 75 2 0 1 75 21622799 21622725 7.370000e-26 128.0
22 TraesCS5A01G477000 chr1A 100.000 75 0 0 1 75 57217095 57217021 3.400000e-29 139.0
23 TraesCS5A01G477000 chr6B 81.897 116 18 3 1656 1770 682552626 682552739 7.470000e-16 95.3
24 TraesCS5A01G477000 chr6B 100.000 28 0 0 1654 1681 7761050 7761023 5.000000e-03 52.8
25 TraesCS5A01G477000 chr2A 97.619 42 1 0 1649 1690 2409664 2409705 3.500000e-09 73.1
26 TraesCS5A01G477000 chr3B 83.333 72 9 3 1712 1782 18828258 18828327 2.110000e-06 63.9
27 TraesCS5A01G477000 chr1B 88.679 53 1 4 1732 1781 561252764 561252714 2.730000e-05 60.2
28 TraesCS5A01G477000 chr1B 100.000 28 0 0 1654 1681 632776482 632776509 5.000000e-03 52.8
29 TraesCS5A01G477000 chr4B 94.595 37 2 0 1654 1690 398776674 398776710 9.800000e-05 58.4


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 TraesCS5A01G477000 chr5A 651539165 651541701 2536 True 4686.000000 4686 100.000000 1 2537 1 chr5A.!!$R1 2536
1 TraesCS5A01G477000 chr5A 651527187 651529109 1922 True 937.500000 1415 85.320000 272 2151 2 chr5A.!!$R2 1879
2 TraesCS5A01G477000 chr5B 659548170 659550387 2217 True 1090.000000 2076 87.975500 115 2343 2 chr5B.!!$R6 2228
3 TraesCS5A01G477000 chr5B 659521572 659523444 1872 True 594.000000 1005 85.490500 775 2537 2 chr5B.!!$R5 1762
4 TraesCS5A01G477000 chr5B 659505574 659507140 1566 True 506.333333 869 89.108667 269 1580 3 chr5B.!!$R4 1311
5 TraesCS5A01G477000 chr5B 659531848 659532471 623 True 481.000000 481 81.692000 146 755 1 chr5B.!!$R3 609
6 TraesCS5A01G477000 chr5D 525176369 525178211 1842 True 744.500000 1315 88.527500 269 2537 2 chr5D.!!$R3 2268
7 TraesCS5A01G477000 chr5D 525123355 525127278 3923 True 651.666667 1683 88.860667 289 2342 3 chr5D.!!$R2 2053

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
74 75 0.096976 CAAGTAATGACCAAGCGCGG 59.903 55.0 8.83 0.0 0.0 6.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2060 3774 1.198713 ACTGTAGTGATCCCCTGCAG 58.801 55.0 19.31 19.31 44.97 4.41 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
28 29 8.443160 TGACTTGCTTCAATTAGAAAATAGACG 58.557 33.333 0.00 0.00 35.40 4.18
29 30 8.547967 ACTTGCTTCAATTAGAAAATAGACGA 57.452 30.769 0.00 0.00 35.40 4.20
30 31 9.167311 ACTTGCTTCAATTAGAAAATAGACGAT 57.833 29.630 0.00 0.00 35.40 3.73
31 32 9.994432 CTTGCTTCAATTAGAAAATAGACGATT 57.006 29.630 0.00 0.00 35.40 3.34
41 42 9.554395 TTAGAAAATAGACGATTATGCAATGGA 57.446 29.630 0.00 0.00 0.00 3.41
42 43 7.865707 AGAAAATAGACGATTATGCAATGGAC 58.134 34.615 0.00 0.00 0.00 4.02
43 44 7.716998 AGAAAATAGACGATTATGCAATGGACT 59.283 33.333 0.00 0.00 31.91 3.85
44 45 8.902540 AAAATAGACGATTATGCAATGGACTA 57.097 30.769 0.00 0.00 33.96 2.59
45 46 7.891183 AATAGACGATTATGCAATGGACTAC 57.109 36.000 0.00 0.00 32.94 2.73
46 47 5.276461 AGACGATTATGCAATGGACTACA 57.724 39.130 0.00 0.00 0.00 2.74
47 48 5.858381 AGACGATTATGCAATGGACTACAT 58.142 37.500 0.00 0.00 43.07 2.29
48 49 6.993079 AGACGATTATGCAATGGACTACATA 58.007 36.000 0.00 0.00 39.40 2.29
49 50 6.868864 AGACGATTATGCAATGGACTACATAC 59.131 38.462 0.00 0.00 39.40 2.39
50 51 6.521162 ACGATTATGCAATGGACTACATACA 58.479 36.000 0.00 0.00 39.40 2.29
51 52 7.161404 ACGATTATGCAATGGACTACATACAT 58.839 34.615 0.00 0.00 39.40 2.29
52 53 7.661437 ACGATTATGCAATGGACTACATACATT 59.339 33.333 0.00 0.00 39.40 2.71
53 54 8.171196 CGATTATGCAATGGACTACATACATTC 58.829 37.037 0.00 0.00 39.40 2.67
54 55 5.929697 ATGCAATGGACTACATACATTCG 57.070 39.130 0.00 0.00 39.40 3.34
55 56 3.559655 TGCAATGGACTACATACATTCGC 59.440 43.478 0.00 0.00 39.40 4.70
56 57 3.559655 GCAATGGACTACATACATTCGCA 59.440 43.478 0.00 0.00 39.40 5.10
57 58 4.035091 GCAATGGACTACATACATTCGCAA 59.965 41.667 0.00 0.00 39.40 4.85
58 59 5.741425 CAATGGACTACATACATTCGCAAG 58.259 41.667 0.00 0.00 39.40 4.01
59 60 4.465632 TGGACTACATACATTCGCAAGT 57.534 40.909 0.00 0.00 39.48 3.16
60 61 5.585820 TGGACTACATACATTCGCAAGTA 57.414 39.130 0.00 0.00 39.48 2.24
61 62 5.968254 TGGACTACATACATTCGCAAGTAA 58.032 37.500 0.00 0.00 39.48 2.24
62 63 6.578944 TGGACTACATACATTCGCAAGTAAT 58.421 36.000 0.00 0.00 39.48 1.89
63 64 6.478673 TGGACTACATACATTCGCAAGTAATG 59.521 38.462 0.00 0.00 39.29 1.90
64 65 6.700081 GGACTACATACATTCGCAAGTAATGA 59.300 38.462 3.01 0.00 37.88 2.57
65 66 7.306632 GGACTACATACATTCGCAAGTAATGAC 60.307 40.741 3.01 0.00 37.88 3.06
66 67 5.734855 ACATACATTCGCAAGTAATGACC 57.265 39.130 3.01 0.00 37.88 4.02
67 68 5.182487 ACATACATTCGCAAGTAATGACCA 58.818 37.500 3.01 0.00 37.88 4.02
68 69 5.645929 ACATACATTCGCAAGTAATGACCAA 59.354 36.000 3.01 0.00 37.88 3.67
69 70 4.685169 ACATTCGCAAGTAATGACCAAG 57.315 40.909 3.01 0.00 37.88 3.61
70 71 3.119849 ACATTCGCAAGTAATGACCAAGC 60.120 43.478 3.01 0.00 37.88 4.01
71 72 1.075542 TCGCAAGTAATGACCAAGCG 58.924 50.000 5.43 5.43 40.11 4.68
72 73 0.521242 CGCAAGTAATGACCAAGCGC 60.521 55.000 0.00 0.00 35.04 5.92
73 74 0.521242 GCAAGTAATGACCAAGCGCG 60.521 55.000 0.00 0.00 0.00 6.86
74 75 0.096976 CAAGTAATGACCAAGCGCGG 59.903 55.000 8.83 0.00 0.00 6.46
75 76 0.321298 AAGTAATGACCAAGCGCGGT 60.321 50.000 4.23 4.23 43.91 5.68
76 77 1.019278 AGTAATGACCAAGCGCGGTG 61.019 55.000 13.41 9.39 40.22 4.94
77 78 1.743623 TAATGACCAAGCGCGGTGG 60.744 57.895 25.93 25.93 40.22 4.61
83 84 4.688419 CAAGCGCGGTGGCACAAG 62.688 66.667 20.82 13.69 44.16 3.16
111 112 4.760047 CACTGCGCGGGTTAGGCT 62.760 66.667 22.44 0.00 0.00 4.58
112 113 3.072468 ACTGCGCGGGTTAGGCTA 61.072 61.111 22.44 0.00 0.00 3.93
113 114 2.279517 CTGCGCGGGTTAGGCTAG 60.280 66.667 8.83 0.00 0.00 3.42
121 122 3.711086 GCGGGTTAGGCTAGTAGTTTAC 58.289 50.000 0.00 0.00 0.00 2.01
125 126 6.239148 GCGGGTTAGGCTAGTAGTTTACTTAT 60.239 42.308 0.00 0.00 40.14 1.73
127 128 7.650903 CGGGTTAGGCTAGTAGTTTACTTATTG 59.349 40.741 0.00 0.00 40.14 1.90
128 129 8.481314 GGGTTAGGCTAGTAGTTTACTTATTGT 58.519 37.037 0.00 0.00 40.14 2.71
144 145 0.392706 TTGTTGAGCGCTCTGGAAGA 59.607 50.000 35.27 18.89 43.69 2.87
170 171 4.100084 CATCCCCCTCGCAGCACA 62.100 66.667 0.00 0.00 0.00 4.57
185 186 0.386731 GCACAACTTGCCGCGTTAAT 60.387 50.000 4.92 0.00 46.63 1.40
240 241 4.973168 TGCAAGCCCGAATAGATTAGATT 58.027 39.130 0.00 0.00 0.00 2.40
521 584 4.340950 TCCAACCTGATGAAAAAGACCAAC 59.659 41.667 0.00 0.00 0.00 3.77
544 607 4.753610 CAGTACATCTTCACCCATGCATAG 59.246 45.833 0.00 0.00 0.00 2.23
581 657 8.834749 AGTTTTGGACTGATTAGTACTCTTTC 57.165 34.615 0.00 0.00 38.66 2.62
715 803 2.680913 CCAAGCTGCGCACTGGTAC 61.681 63.158 5.66 0.00 31.80 3.34
732 820 2.032636 GGTACATAAATTACGCGGTGCC 60.033 50.000 12.47 5.06 0.00 5.01
755 843 6.072064 GCCGTACCATCATCAGTAAGTAGTAT 60.072 42.308 0.00 0.00 0.00 2.12
756 844 7.120285 GCCGTACCATCATCAGTAAGTAGTATA 59.880 40.741 0.00 0.00 0.00 1.47
856 1261 1.175983 CGTTTAGTTTGCCAGCCCCA 61.176 55.000 0.00 0.00 0.00 4.96
881 1286 1.192428 CTCCACACCCACCTACCTAC 58.808 60.000 0.00 0.00 0.00 3.18
915 1334 3.765381 CCACCCATATGCCATATCAACA 58.235 45.455 0.00 0.00 0.00 3.33
917 1336 3.507233 CACCCATATGCCATATCAACACC 59.493 47.826 0.00 0.00 0.00 4.16
938 1362 4.782156 ACCTTCATTCTCCATTCTCTCACT 59.218 41.667 0.00 0.00 0.00 3.41
940 1364 5.105023 CCTTCATTCTCCATTCTCTCACTCA 60.105 44.000 0.00 0.00 0.00 3.41
941 1365 5.336150 TCATTCTCCATTCTCTCACTCAC 57.664 43.478 0.00 0.00 0.00 3.51
955 1379 0.107897 ACTCACACGACAACCAAGCA 60.108 50.000 0.00 0.00 0.00 3.91
968 1394 0.795085 CCAAGCAAGCTCGAAGTCTG 59.205 55.000 0.00 0.00 0.00 3.51
985 1414 1.066143 TCTGCGAAGGACAGGAAATCC 60.066 52.381 0.00 0.00 35.78 3.01
997 1429 2.945668 CAGGAAATCCGAGGATCAAACC 59.054 50.000 4.94 6.85 42.08 3.27
1023 1455 4.838152 GCGGGGATGAAGCGAGCA 62.838 66.667 0.00 0.00 0.00 4.26
1129 1561 2.668212 CGGCCAAGAAAGCACGGA 60.668 61.111 2.24 0.00 0.00 4.69
1296 1728 4.575973 ATCGCCAGGGCCATCAGC 62.576 66.667 6.18 1.05 42.60 4.26
1358 1790 2.505982 CGGCATGGGGTTCGAGAT 59.494 61.111 0.00 0.00 0.00 2.75
1365 1797 2.674754 GGGTTCGAGATGGGCCAA 59.325 61.111 11.89 0.00 0.00 4.52
1439 1874 1.009222 GTGACGACGACGACCAGTT 60.009 57.895 15.32 0.00 42.66 3.16
1556 3128 3.714144 AGGTAGCTAGCTGGAAAGAAGA 58.286 45.455 27.68 0.01 31.96 2.87
1582 3160 7.181143 AGACGATACGCTTTTGTTTCTTTAA 57.819 32.000 0.00 0.00 0.00 1.52
1622 3233 9.874205 ACTTATAAATGTGTTTGATTGGAATGG 57.126 29.630 0.00 0.00 0.00 3.16
1646 3257 7.234782 TGGGATATATAGGTTCACTGTTCGATT 59.765 37.037 0.00 0.00 0.00 3.34
1652 3340 3.564225 AGGTTCACTGTTCGATTTTGACC 59.436 43.478 0.00 0.00 0.00 4.02
1655 3343 5.449999 GGTTCACTGTTCGATTTTGACCTTT 60.450 40.000 0.00 0.00 0.00 3.11
1708 3411 5.842907 TGTATGTAGATTCACTCATTCCGG 58.157 41.667 0.00 0.00 0.00 5.14
1716 3419 4.987408 TTCACTCATTCCGGTTCGTATA 57.013 40.909 0.00 0.00 0.00 1.47
1723 3426 4.154737 TCATTCCGGTTCGTATATAGTCCG 59.845 45.833 0.00 0.00 38.05 4.79
1730 3433 4.986659 GGTTCGTATATAGTCCGCATTTGT 59.013 41.667 0.00 0.00 0.00 2.83
1744 3447 5.523916 TCCGCATTTGTAATCTCTAAAGAGC 59.476 40.000 1.92 0.00 41.80 4.09
1809 3512 3.000727 AGATTGTTAGCGTTTCGGAAGG 58.999 45.455 0.00 0.00 0.00 3.46
1822 3526 6.092748 CGTTTCGGAAGGATTGATGAATTTT 58.907 36.000 0.00 0.00 0.00 1.82
1885 3589 4.711355 ACGGGATTCATCAATTTCATTGGT 59.289 37.500 0.00 0.00 40.61 3.67
1901 3605 4.523943 TCATTGGTGACTTGGAGGAAAATG 59.476 41.667 0.00 0.00 0.00 2.32
1940 3644 6.013842 CAGGTACCTGAAATTTTTCCTCAC 57.986 41.667 34.54 0.00 46.30 3.51
1947 3651 5.168526 TGAAATTTTTCCTCACGTCAGTG 57.831 39.130 0.00 0.00 41.69 3.66
1969 3673 4.412199 TGACCTCTTTTCTTCCTTCCTTCA 59.588 41.667 0.00 0.00 0.00 3.02
1990 3694 4.052229 CTTCACGCCGGACCTCGT 62.052 66.667 5.05 1.11 39.79 4.18
1991 3695 3.569049 CTTCACGCCGGACCTCGTT 62.569 63.158 5.05 0.00 36.73 3.85
2022 3726 6.335850 AGAGAACCCCACTATCTATCTTAGGA 59.664 42.308 0.00 0.00 0.00 2.94
2041 3755 4.828296 GGAGCCATGGCCCCACTG 62.828 72.222 31.04 0.00 38.97 3.66
2050 3764 1.204146 TGGCCCCACTGTCTATCTTC 58.796 55.000 0.00 0.00 0.00 2.87
2052 3766 1.112113 GCCCCACTGTCTATCTTCGA 58.888 55.000 0.00 0.00 0.00 3.71
2059 3773 2.291670 ACTGTCTATCTTCGAGGGTGGT 60.292 50.000 0.00 0.00 0.00 4.16
2060 3774 2.359531 CTGTCTATCTTCGAGGGTGGTC 59.640 54.545 0.00 0.00 0.00 4.02
2072 3787 2.300967 GGTGGTCTGCAGGGGATCA 61.301 63.158 15.13 0.00 0.00 2.92
2075 3790 0.042581 TGGTCTGCAGGGGATCACTA 59.957 55.000 15.13 0.00 0.00 2.74
2076 3791 0.466124 GGTCTGCAGGGGATCACTAC 59.534 60.000 15.13 0.45 0.00 2.73
2086 3801 4.216257 CAGGGGATCACTACAGTTGTTTTG 59.784 45.833 0.00 0.00 0.00 2.44
2096 3811 1.944024 CAGTTGTTTTGCGGTGAGGTA 59.056 47.619 0.00 0.00 0.00 3.08
2099 3814 2.614983 GTTGTTTTGCGGTGAGGTAGAA 59.385 45.455 0.00 0.00 0.00 2.10
2100 3815 3.134574 TGTTTTGCGGTGAGGTAGAAT 57.865 42.857 0.00 0.00 0.00 2.40
2118 3833 0.401395 ATTTAGAGGGATGGCCGGGA 60.401 55.000 2.18 0.00 33.83 5.14
2135 3850 1.374252 GACGGCGACCAACATGACT 60.374 57.895 16.62 0.00 0.00 3.41
2151 3866 1.646447 TGACTGTGGGGAGAGGTAGAT 59.354 52.381 0.00 0.00 0.00 1.98
2152 3867 2.044492 TGACTGTGGGGAGAGGTAGATT 59.956 50.000 0.00 0.00 0.00 2.40
2154 3869 2.044492 ACTGTGGGGAGAGGTAGATTGA 59.956 50.000 0.00 0.00 0.00 2.57
2156 3871 2.838202 TGTGGGGAGAGGTAGATTGAAC 59.162 50.000 0.00 0.00 0.00 3.18
2157 3872 2.108168 TGGGGAGAGGTAGATTGAACG 58.892 52.381 0.00 0.00 0.00 3.95
2158 3873 1.202545 GGGGAGAGGTAGATTGAACGC 60.203 57.143 0.00 0.00 0.00 4.84
2159 3874 1.757699 GGGAGAGGTAGATTGAACGCT 59.242 52.381 0.00 0.00 0.00 5.07
2161 3876 2.482142 GGAGAGGTAGATTGAACGCTGG 60.482 54.545 0.00 0.00 0.00 4.85
2163 3878 0.541863 AGGTAGATTGAACGCTGGGG 59.458 55.000 0.00 0.00 0.00 4.96
2164 3879 1.095807 GGTAGATTGAACGCTGGGGC 61.096 60.000 0.00 0.00 0.00 5.80
2166 3881 2.587322 TAGATTGAACGCTGGGGCCG 62.587 60.000 0.00 0.00 34.44 6.13
2215 4906 7.060633 CACAATACTTAAATTGAACGCTGAACC 59.939 37.037 6.84 0.00 38.84 3.62
2230 4930 1.211212 TGAACCTGAGATGAGCCCATG 59.789 52.381 0.00 0.00 32.09 3.66
2233 4933 0.535328 CCTGAGATGAGCCCATGCAG 60.535 60.000 0.00 0.00 41.13 4.41
2234 4934 0.180642 CTGAGATGAGCCCATGCAGT 59.819 55.000 0.00 0.00 41.13 4.40
2235 4935 1.415289 CTGAGATGAGCCCATGCAGTA 59.585 52.381 0.00 0.00 41.13 2.74
2236 4936 1.139654 TGAGATGAGCCCATGCAGTAC 59.860 52.381 0.00 0.00 41.13 2.73
2253 4964 4.366586 CAGTACTAGTGATGTCATGGCAG 58.633 47.826 6.04 0.00 0.00 4.85
2260 4971 1.171308 GATGTCATGGCAGCAACACT 58.829 50.000 11.36 0.00 0.00 3.55
2274 4985 0.473755 AACACTGCATGTCACCTGGA 59.526 50.000 0.00 0.00 42.31 3.86
2275 4986 0.035881 ACACTGCATGTCACCTGGAG 59.964 55.000 0.00 0.00 36.54 3.86
2276 4987 0.035881 CACTGCATGTCACCTGGAGT 59.964 55.000 1.20 1.20 44.85 3.85
2278 4989 1.276421 ACTGCATGTCACCTGGAGTAC 59.724 52.381 5.41 0.00 42.58 2.73
2279 4990 1.276138 CTGCATGTCACCTGGAGTACA 59.724 52.381 0.00 1.65 0.00 2.90
2283 4994 4.898861 TGCATGTCACCTGGAGTACATATA 59.101 41.667 0.00 0.00 31.55 0.86
2285 4996 5.871524 GCATGTCACCTGGAGTACATATATG 59.128 44.000 11.29 11.29 31.55 1.78
2287 4998 7.445121 CATGTCACCTGGAGTACATATATGTT 58.555 38.462 22.90 6.72 41.97 2.71
2288 4999 8.585018 CATGTCACCTGGAGTACATATATGTTA 58.415 37.037 22.90 7.21 41.97 2.41
2347 5093 2.674852 CGCGTGTACTACTAGTTCAGGA 59.325 50.000 15.73 0.00 34.66 3.86
2352 5098 5.121811 GTGTACTACTAGTTCAGGATCGGA 58.878 45.833 0.00 0.00 0.00 4.55
2356 5102 5.202004 ACTACTAGTTCAGGATCGGACAAT 58.798 41.667 0.00 0.00 0.00 2.71
2360 5106 5.643777 ACTAGTTCAGGATCGGACAATTTTG 59.356 40.000 0.00 0.00 0.00 2.44
2369 5115 1.068610 CGGACAATTTTGGTGCGTGAT 60.069 47.619 0.00 0.00 43.73 3.06
2374 5120 1.750193 ATTTTGGTGCGTGATCGGAT 58.250 45.000 0.00 0.00 39.88 4.18
2377 5123 1.864565 TTGGTGCGTGATCGGATATG 58.135 50.000 0.00 0.00 39.88 1.78
2383 5129 3.799963 GTGCGTGATCGGATATGTACAAA 59.200 43.478 0.00 0.00 39.88 2.83
2415 5161 5.128991 TCTCTGTCCAACTATCTCTCGAGTA 59.871 44.000 13.13 2.27 0.00 2.59
2442 5189 2.033194 GGACACTAGTTGGCACGGC 61.033 63.158 0.00 0.00 32.99 5.68
2446 5193 1.071071 ACACTAGTTGGCACGGCTAAA 59.929 47.619 0.00 0.00 29.49 1.85
2501 5248 1.454479 GCATGTCCATGTCCTGGGG 60.454 63.158 8.91 0.00 45.98 4.96
2502 5249 1.454479 CATGTCCATGTCCTGGGGC 60.454 63.158 0.00 0.00 45.98 5.80
2503 5250 1.930133 ATGTCCATGTCCTGGGGCA 60.930 57.895 0.00 0.00 45.98 5.36
2504 5251 1.291459 ATGTCCATGTCCTGGGGCAT 61.291 55.000 0.28 0.28 45.98 4.40
2506 5253 2.196776 CCATGTCCTGGGGCATCC 59.803 66.667 3.48 0.00 41.82 3.51
2507 5254 2.692824 CCATGTCCTGGGGCATCCA 61.693 63.158 3.48 0.00 44.79 3.41
2514 5261 1.077265 CTGGGGCATCCAAACCTGT 59.923 57.895 0.00 0.00 46.51 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 8.443160 CGTCTATTTTCTAATTGAAGCAAGTCA 58.557 33.333 0.00 0.00 35.89 3.41
3 4 8.656849 TCGTCTATTTTCTAATTGAAGCAAGTC 58.343 33.333 0.00 0.00 35.89 3.01
4 5 8.547967 TCGTCTATTTTCTAATTGAAGCAAGT 57.452 30.769 0.00 0.00 35.89 3.16
5 6 9.994432 AATCGTCTATTTTCTAATTGAAGCAAG 57.006 29.630 0.00 0.00 35.89 4.01
15 16 9.554395 TCCATTGCATAATCGTCTATTTTCTAA 57.446 29.630 0.00 0.00 0.00 2.10
16 17 8.988934 GTCCATTGCATAATCGTCTATTTTCTA 58.011 33.333 0.00 0.00 0.00 2.10
17 18 7.716998 AGTCCATTGCATAATCGTCTATTTTCT 59.283 33.333 0.00 0.00 0.00 2.52
18 19 7.865707 AGTCCATTGCATAATCGTCTATTTTC 58.134 34.615 0.00 0.00 0.00 2.29
19 20 7.807977 AGTCCATTGCATAATCGTCTATTTT 57.192 32.000 0.00 0.00 0.00 1.82
20 21 7.931407 TGTAGTCCATTGCATAATCGTCTATTT 59.069 33.333 0.00 0.00 0.00 1.40
21 22 7.441836 TGTAGTCCATTGCATAATCGTCTATT 58.558 34.615 0.00 0.00 0.00 1.73
22 23 6.993079 TGTAGTCCATTGCATAATCGTCTAT 58.007 36.000 0.00 0.00 0.00 1.98
23 24 6.399639 TGTAGTCCATTGCATAATCGTCTA 57.600 37.500 0.00 0.00 0.00 2.59
24 25 5.276461 TGTAGTCCATTGCATAATCGTCT 57.724 39.130 0.00 0.00 0.00 4.18
25 26 6.645003 TGTATGTAGTCCATTGCATAATCGTC 59.355 38.462 0.00 0.00 34.86 4.20
26 27 6.521162 TGTATGTAGTCCATTGCATAATCGT 58.479 36.000 0.00 0.00 34.86 3.73
27 28 7.601073 ATGTATGTAGTCCATTGCATAATCG 57.399 36.000 0.00 0.00 34.86 3.34
28 29 8.171196 CGAATGTATGTAGTCCATTGCATAATC 58.829 37.037 0.00 0.00 34.86 1.75
29 30 7.361201 GCGAATGTATGTAGTCCATTGCATAAT 60.361 37.037 0.00 0.00 34.86 1.28
30 31 6.073276 GCGAATGTATGTAGTCCATTGCATAA 60.073 38.462 0.00 0.00 34.86 1.90
31 32 5.408299 GCGAATGTATGTAGTCCATTGCATA 59.592 40.000 0.00 0.00 34.86 3.14
32 33 4.214119 GCGAATGTATGTAGTCCATTGCAT 59.786 41.667 0.00 0.00 34.86 3.96
33 34 3.559655 GCGAATGTATGTAGTCCATTGCA 59.440 43.478 0.00 0.00 34.86 4.08
34 35 3.559655 TGCGAATGTATGTAGTCCATTGC 59.440 43.478 0.00 0.00 34.86 3.56
35 36 5.294306 ACTTGCGAATGTATGTAGTCCATTG 59.706 40.000 0.00 0.00 34.86 2.82
36 37 5.428253 ACTTGCGAATGTATGTAGTCCATT 58.572 37.500 0.00 0.00 34.86 3.16
37 38 5.023533 ACTTGCGAATGTATGTAGTCCAT 57.976 39.130 0.00 0.00 37.58 3.41
38 39 4.465632 ACTTGCGAATGTATGTAGTCCA 57.534 40.909 0.00 0.00 0.00 4.02
39 40 6.700081 TCATTACTTGCGAATGTATGTAGTCC 59.300 38.462 0.00 0.00 36.02 3.85
40 41 7.306632 GGTCATTACTTGCGAATGTATGTAGTC 60.307 40.741 0.00 0.00 36.02 2.59
41 42 6.479001 GGTCATTACTTGCGAATGTATGTAGT 59.521 38.462 0.00 0.00 36.02 2.73
42 43 6.478673 TGGTCATTACTTGCGAATGTATGTAG 59.521 38.462 0.00 0.00 36.02 2.74
43 44 6.342111 TGGTCATTACTTGCGAATGTATGTA 58.658 36.000 0.00 0.00 36.02 2.29
44 45 5.182487 TGGTCATTACTTGCGAATGTATGT 58.818 37.500 0.00 0.00 36.02 2.29
45 46 5.733226 TGGTCATTACTTGCGAATGTATG 57.267 39.130 0.00 0.00 36.02 2.39
46 47 5.220854 GCTTGGTCATTACTTGCGAATGTAT 60.221 40.000 0.00 0.00 36.02 2.29
47 48 4.094294 GCTTGGTCATTACTTGCGAATGTA 59.906 41.667 0.00 0.00 36.02 2.29
48 49 3.119849 GCTTGGTCATTACTTGCGAATGT 60.120 43.478 0.00 0.00 36.02 2.71
49 50 3.429085 GCTTGGTCATTACTTGCGAATG 58.571 45.455 0.00 0.00 35.92 2.67
50 51 2.095853 CGCTTGGTCATTACTTGCGAAT 59.904 45.455 0.00 0.00 39.18 3.34
51 52 1.463056 CGCTTGGTCATTACTTGCGAA 59.537 47.619 0.00 0.00 39.18 4.70
52 53 1.075542 CGCTTGGTCATTACTTGCGA 58.924 50.000 0.00 0.00 39.18 5.10
53 54 0.521242 GCGCTTGGTCATTACTTGCG 60.521 55.000 0.00 0.00 39.52 4.85
54 55 0.521242 CGCGCTTGGTCATTACTTGC 60.521 55.000 5.56 0.00 0.00 4.01
55 56 0.096976 CCGCGCTTGGTCATTACTTG 59.903 55.000 5.56 0.00 0.00 3.16
56 57 0.321298 ACCGCGCTTGGTCATTACTT 60.321 50.000 5.56 0.00 37.91 2.24
57 58 1.019278 CACCGCGCTTGGTCATTACT 61.019 55.000 5.56 0.00 41.38 2.24
58 59 1.423845 CACCGCGCTTGGTCATTAC 59.576 57.895 5.56 0.00 41.38 1.89
59 60 1.743623 CCACCGCGCTTGGTCATTA 60.744 57.895 15.09 0.00 41.38 1.90
60 61 3.055719 CCACCGCGCTTGGTCATT 61.056 61.111 15.09 0.00 41.38 2.57
66 67 4.688419 CTTGTGCCACCGCGCTTG 62.688 66.667 5.56 1.77 46.08 4.01
94 95 3.365291 TAGCCTAACCCGCGCAGTG 62.365 63.158 8.75 0.00 38.04 3.66
95 96 3.072468 TAGCCTAACCCGCGCAGT 61.072 61.111 8.75 0.00 0.00 4.40
96 97 1.731433 TACTAGCCTAACCCGCGCAG 61.731 60.000 8.75 0.00 0.00 5.18
97 98 1.731433 CTACTAGCCTAACCCGCGCA 61.731 60.000 8.75 0.00 0.00 6.09
98 99 1.007618 CTACTAGCCTAACCCGCGC 60.008 63.158 0.00 0.00 0.00 6.86
99 100 0.743097 AACTACTAGCCTAACCCGCG 59.257 55.000 0.00 0.00 0.00 6.46
100 101 2.975732 AAACTACTAGCCTAACCCGC 57.024 50.000 0.00 0.00 0.00 6.13
101 102 5.588958 AAGTAAACTACTAGCCTAACCCG 57.411 43.478 0.00 0.00 38.26 5.28
102 103 8.481314 ACAATAAGTAAACTACTAGCCTAACCC 58.519 37.037 0.00 0.00 38.26 4.11
103 104 9.881649 AACAATAAGTAAACTACTAGCCTAACC 57.118 33.333 0.00 0.00 38.26 2.85
107 108 7.764901 GCTCAACAATAAGTAAACTACTAGCCT 59.235 37.037 0.00 0.00 38.26 4.58
108 109 7.254017 CGCTCAACAATAAGTAAACTACTAGCC 60.254 40.741 0.00 0.00 38.26 3.93
109 110 7.610509 CGCTCAACAATAAGTAAACTACTAGC 58.389 38.462 0.00 0.00 38.26 3.42
110 111 7.488471 AGCGCTCAACAATAAGTAAACTACTAG 59.512 37.037 2.64 0.00 38.26 2.57
111 112 7.318141 AGCGCTCAACAATAAGTAAACTACTA 58.682 34.615 2.64 0.00 38.26 1.82
112 113 6.164176 AGCGCTCAACAATAAGTAAACTACT 58.836 36.000 2.64 0.00 41.73 2.57
113 114 6.310711 AGAGCGCTCAACAATAAGTAAACTAC 59.689 38.462 36.87 5.71 0.00 2.73
121 122 2.621338 TCCAGAGCGCTCAACAATAAG 58.379 47.619 36.87 16.39 0.00 1.73
125 126 0.392706 TCTTCCAGAGCGCTCAACAA 59.607 50.000 36.87 23.52 0.00 2.83
127 128 1.347817 CGTCTTCCAGAGCGCTCAAC 61.348 60.000 36.87 21.90 0.00 3.18
128 129 1.080501 CGTCTTCCAGAGCGCTCAA 60.081 57.895 36.87 22.21 0.00 3.02
130 131 2.202676 CCGTCTTCCAGAGCGCTC 60.203 66.667 30.01 30.01 0.00 5.03
155 156 4.329545 GTTGTGCTGCGAGGGGGA 62.330 66.667 0.00 0.00 0.00 4.81
156 157 3.850098 AAGTTGTGCTGCGAGGGGG 62.850 63.158 0.00 0.00 0.00 5.40
170 171 4.248058 AGTAGTAATTAACGCGGCAAGTT 58.752 39.130 12.47 0.00 35.75 2.66
185 186 8.105829 AGCTAGTTGAAGTGGTAGTAGTAGTAA 58.894 37.037 0.00 0.00 0.00 2.24
240 241 4.512961 ATCACCGCGCGCTCATGA 62.513 61.111 30.48 26.98 0.00 3.07
367 401 1.914700 GAGACATCGTCTTCGTGCTTC 59.085 52.381 0.00 0.00 43.53 3.86
464 526 6.275494 TGGACATGTCGATAACTGACTTAA 57.725 37.500 19.33 0.00 37.26 1.85
465 527 5.907866 TGGACATGTCGATAACTGACTTA 57.092 39.130 19.33 0.00 37.26 2.24
466 528 4.801330 TGGACATGTCGATAACTGACTT 57.199 40.909 19.33 0.00 37.26 3.01
467 529 6.656632 ATATGGACATGTCGATAACTGACT 57.343 37.500 27.56 12.41 34.71 3.41
468 530 8.864024 CAATATATGGACATGTCGATAACTGAC 58.136 37.037 27.56 9.68 34.71 3.51
469 531 8.986477 CAATATATGGACATGTCGATAACTGA 57.014 34.615 27.56 16.58 34.71 3.41
521 584 2.989909 TGCATGGGTGAAGATGTACTG 58.010 47.619 0.00 0.00 0.00 2.74
575 651 1.871772 CGCACTTGCCAGGAAAGAG 59.128 57.895 15.06 7.26 37.91 2.85
581 657 1.514678 TACTTTGCGCACTTGCCAGG 61.515 55.000 11.12 0.00 37.91 4.45
715 803 0.653636 ACGGCACCGCGTAATTTATG 59.346 50.000 9.43 0.00 44.19 1.90
732 820 9.217278 AGTATACTACTTACTGATGATGGTACG 57.783 37.037 2.75 0.00 34.86 3.67
856 1261 1.152756 GGTGGGTGTGGAGTTGCTT 60.153 57.895 0.00 0.00 0.00 3.91
881 1286 2.613026 TGGGTGGCTCACGTTATATG 57.387 50.000 0.00 0.00 34.83 1.78
915 1334 4.782156 AGTGAGAGAATGGAGAATGAAGGT 59.218 41.667 0.00 0.00 0.00 3.50
917 1336 5.811613 GTGAGTGAGAGAATGGAGAATGAAG 59.188 44.000 0.00 0.00 0.00 3.02
938 1362 1.013596 CTTGCTTGGTTGTCGTGTGA 58.986 50.000 0.00 0.00 0.00 3.58
940 1364 0.748005 AGCTTGCTTGGTTGTCGTGT 60.748 50.000 0.00 0.00 0.00 4.49
941 1365 0.040958 GAGCTTGCTTGGTTGTCGTG 60.041 55.000 0.00 0.00 0.00 4.35
955 1379 0.389166 CCTTCGCAGACTTCGAGCTT 60.389 55.000 0.00 0.00 37.26 3.74
968 1394 0.108329 TCGGATTTCCTGTCCTTCGC 60.108 55.000 0.00 0.00 33.46 4.70
985 1414 0.466189 CCCATGGGGTTTGATCCTCG 60.466 60.000 24.53 0.00 38.25 4.63
997 1429 4.275508 CATCCCCGCTCCCATGGG 62.276 72.222 26.30 26.30 45.58 4.00
1023 1455 3.846360 CGACAATACCTCTTCGTTCCTT 58.154 45.455 0.00 0.00 0.00 3.36
1061 1493 1.868251 GACGTCGATGAGTCCGTGC 60.868 63.158 12.58 0.00 33.03 5.34
1150 1582 4.778415 CTCACCCGACGTCGCCAG 62.778 72.222 31.73 22.98 38.18 4.85
1296 1728 3.114647 CTCCCGTCTTCTCCGCTCG 62.115 68.421 0.00 0.00 0.00 5.03
1424 1859 2.333938 CCAACTGGTCGTCGTCGT 59.666 61.111 1.33 0.00 38.33 4.34
1556 3128 5.668558 AGAAACAAAAGCGTATCGTCTTT 57.331 34.783 0.00 0.00 35.84 2.52
1600 3211 7.493499 TCCCATTCCAATCAAACACATTTAT 57.507 32.000 0.00 0.00 0.00 1.40
1622 3233 9.490379 AAAATCGAACAGTGAACCTATATATCC 57.510 33.333 0.00 0.00 0.00 2.59
1683 3372 6.587990 CCGGAATGAGTGAATCTACATACATC 59.412 42.308 0.00 0.00 0.00 3.06
1688 3377 5.359194 AACCGGAATGAGTGAATCTACAT 57.641 39.130 9.46 0.00 0.00 2.29
1705 3408 1.536766 TGCGGACTATATACGAACCGG 59.463 52.381 0.00 0.00 40.55 5.28
1708 3411 7.627585 TTACAAATGCGGACTATATACGAAC 57.372 36.000 0.00 0.00 0.00 3.95
1716 3419 8.421784 TCTTTAGAGATTACAAATGCGGACTAT 58.578 33.333 0.00 0.00 0.00 2.12
1723 3426 6.934048 AGGCTCTTTAGAGATTACAAATGC 57.066 37.500 10.87 0.00 44.74 3.56
1755 3458 8.405418 TGCATAGTATATACTCTCTCCGTTTT 57.595 34.615 18.68 0.00 37.73 2.43
1756 3459 7.997773 TGCATAGTATATACTCTCTCCGTTT 57.002 36.000 18.68 0.00 37.73 3.60
1777 3480 5.902681 ACGCTAACAATCTCTACTTATGCA 58.097 37.500 0.00 0.00 0.00 3.96
1837 3541 6.885376 TCCAAAGGCTTATACGGTTCAAATAA 59.115 34.615 0.00 0.00 0.00 1.40
1839 3543 5.124936 GTCCAAAGGCTTATACGGTTCAAAT 59.875 40.000 0.00 0.00 0.00 2.32
1885 3589 5.659463 CAAAACACATTTTCCTCCAAGTCA 58.341 37.500 0.00 0.00 35.79 3.41
1890 3594 6.418057 AATAGCAAAACACATTTTCCTCCA 57.582 33.333 0.00 0.00 35.79 3.86
1901 3605 5.240844 AGGTACCTGACAAATAGCAAAACAC 59.759 40.000 15.42 0.00 0.00 3.32
1939 3643 3.492829 GGAAGAAAAGAGGTCACTGACGT 60.493 47.826 4.02 4.02 32.65 4.34
1940 3644 3.060602 GGAAGAAAAGAGGTCACTGACG 58.939 50.000 3.04 0.00 32.65 4.35
1947 3651 4.974399 TGAAGGAAGGAAGAAAAGAGGTC 58.026 43.478 0.00 0.00 0.00 3.85
1956 3660 4.563580 CGTGAAGGAATGAAGGAAGGAAGA 60.564 45.833 0.00 0.00 0.00 2.87
1969 3673 2.240162 GAGGTCCGGCGTGAAGGAAT 62.240 60.000 6.01 0.00 38.41 3.01
1990 3694 2.118403 AGTGGGGTTCTCTTCTCCAA 57.882 50.000 0.00 0.00 0.00 3.53
1991 3695 3.012959 AGATAGTGGGGTTCTCTTCTCCA 59.987 47.826 0.00 0.00 0.00 3.86
2039 3753 2.359531 GACCACCCTCGAAGATAGACAG 59.640 54.545 0.00 0.00 33.89 3.51
2041 3755 2.359531 CAGACCACCCTCGAAGATAGAC 59.640 54.545 0.00 0.00 33.89 2.59
2050 3764 4.087892 CCCTGCAGACCACCCTCG 62.088 72.222 17.39 0.00 0.00 4.63
2052 3766 3.586225 ATCCCCTGCAGACCACCCT 62.586 63.158 17.39 0.00 0.00 4.34
2059 3773 1.273267 ACTGTAGTGATCCCCTGCAGA 60.273 52.381 24.52 0.00 42.98 4.26
2060 3774 1.198713 ACTGTAGTGATCCCCTGCAG 58.801 55.000 19.31 19.31 44.97 4.41
2072 3787 2.612212 CTCACCGCAAAACAACTGTAGT 59.388 45.455 0.00 0.00 0.00 2.73
2075 3790 0.738389 CCTCACCGCAAAACAACTGT 59.262 50.000 0.00 0.00 0.00 3.55
2076 3791 0.738389 ACCTCACCGCAAAACAACTG 59.262 50.000 0.00 0.00 0.00 3.16
2086 3801 3.492829 CCCTCTAAATTCTACCTCACCGC 60.493 52.174 0.00 0.00 0.00 5.68
2096 3811 1.421646 CCGGCCATCCCTCTAAATTCT 59.578 52.381 2.24 0.00 0.00 2.40
2099 3814 0.401395 TCCCGGCCATCCCTCTAAAT 60.401 55.000 2.24 0.00 0.00 1.40
2100 3815 1.003704 TCCCGGCCATCCCTCTAAA 59.996 57.895 2.24 0.00 0.00 1.85
2118 3833 1.667830 CAGTCATGTTGGTCGCCGT 60.668 57.895 0.00 0.00 0.00 5.68
2124 3839 0.401738 CTCCCCACAGTCATGTTGGT 59.598 55.000 0.00 0.00 39.99 3.67
2135 3850 2.838202 GTTCAATCTACCTCTCCCCACA 59.162 50.000 0.00 0.00 0.00 4.17
2142 3857 1.482593 CCCAGCGTTCAATCTACCTCT 59.517 52.381 0.00 0.00 0.00 3.69
2157 3872 3.168528 TAGATTCCCGGCCCCAGC 61.169 66.667 0.00 0.00 38.76 4.85
2158 3873 3.151906 CTAGATTCCCGGCCCCAG 58.848 66.667 0.00 0.00 0.00 4.45
2159 3874 2.320830 TAGCTAGATTCCCGGCCCCA 62.321 60.000 0.00 0.00 0.00 4.96
2161 3876 1.976112 CTAGCTAGATTCCCGGCCC 59.024 63.158 16.15 0.00 0.00 5.80
2163 3878 1.293818 GGCTAGCTAGATTCCCGGC 59.706 63.158 25.15 6.87 0.00 6.13
2164 3879 1.976112 GGGCTAGCTAGATTCCCGG 59.024 63.158 25.15 0.00 0.00 5.73
2166 3881 1.976112 CCGGGCTAGCTAGATTCCC 59.024 63.158 25.15 22.08 0.00 3.97
2167 3882 1.293818 GCCGGGCTAGCTAGATTCC 59.706 63.158 25.15 18.80 0.00 3.01
2215 4906 0.180642 ACTGCATGGGCTCATCTCAG 59.819 55.000 18.91 18.91 41.91 3.35
2230 4930 3.126831 GCCATGACATCACTAGTACTGC 58.873 50.000 5.39 0.00 0.00 4.40
2233 4933 3.126831 GCTGCCATGACATCACTAGTAC 58.873 50.000 0.00 0.00 0.00 2.73
2234 4934 2.765699 TGCTGCCATGACATCACTAGTA 59.234 45.455 0.00 0.00 0.00 1.82
2235 4935 1.556451 TGCTGCCATGACATCACTAGT 59.444 47.619 0.00 0.00 0.00 2.57
2236 4936 2.320745 TGCTGCCATGACATCACTAG 57.679 50.000 0.00 0.00 0.00 2.57
2260 4971 1.347062 TGTACTCCAGGTGACATGCA 58.653 50.000 0.00 0.00 0.00 3.96
2283 4994 6.040878 GGCACAAGTAGATTACTCGTAACAT 58.959 40.000 0.00 0.00 38.26 2.71
2285 4996 4.802563 GGGCACAAGTAGATTACTCGTAAC 59.197 45.833 0.00 0.00 38.26 2.50
2287 4998 3.382546 GGGGCACAAGTAGATTACTCGTA 59.617 47.826 0.00 0.00 38.26 3.43
2288 4999 2.167900 GGGGCACAAGTAGATTACTCGT 59.832 50.000 0.00 0.00 38.26 4.18
2347 5093 1.068610 CACGCACCAAAATTGTCCGAT 60.069 47.619 0.00 0.00 0.00 4.18
2352 5098 1.068610 CCGATCACGCACCAAAATTGT 60.069 47.619 0.00 0.00 38.29 2.71
2356 5102 2.388310 TATCCGATCACGCACCAAAA 57.612 45.000 0.00 0.00 38.29 2.44
2360 5106 2.287970 TGTACATATCCGATCACGCACC 60.288 50.000 0.00 0.00 38.29 5.01
2365 5111 7.226720 ACATCCTTTTTGTACATATCCGATCAC 59.773 37.037 0.00 0.00 0.00 3.06
2369 5115 6.884832 AGACATCCTTTTTGTACATATCCGA 58.115 36.000 0.00 0.00 0.00 4.55
2374 5120 7.103641 GGACAGAGACATCCTTTTTGTACATA 58.896 38.462 0.00 0.00 31.75 2.29
2377 5123 5.305585 TGGACAGAGACATCCTTTTTGTAC 58.694 41.667 0.00 0.00 35.86 2.90
2383 5129 5.723887 AGATAGTTGGACAGAGACATCCTTT 59.276 40.000 0.00 0.00 35.86 3.11
2415 5161 2.303022 CCAACTAGTGTCCACTGTCCAT 59.697 50.000 10.15 0.00 42.52 3.41
2442 5189 3.253432 GCTCCCAGTTTGGACAAGTTTAG 59.747 47.826 0.00 0.00 40.96 1.85
2446 5193 0.535102 CGCTCCCAGTTTGGACAAGT 60.535 55.000 0.00 0.00 40.96 3.16
2501 5248 0.240945 CGACCAACAGGTTTGGATGC 59.759 55.000 10.02 0.00 42.06 3.91
2502 5249 1.890876 TCGACCAACAGGTTTGGATG 58.109 50.000 10.02 2.15 42.06 3.51
2503 5250 2.105821 TCTTCGACCAACAGGTTTGGAT 59.894 45.455 10.02 0.00 42.06 3.41
2504 5251 1.487142 TCTTCGACCAACAGGTTTGGA 59.513 47.619 10.02 0.00 42.06 3.53
2506 5253 1.260561 CGTCTTCGACCAACAGGTTTG 59.739 52.381 0.00 0.00 39.71 2.93
2507 5254 1.137479 TCGTCTTCGACCAACAGGTTT 59.863 47.619 0.00 0.00 41.35 3.27
2514 5261 2.228059 AGTCTCTTCGTCTTCGACCAA 58.772 47.619 0.00 0.00 46.03 3.67


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

AutoCloner maintained by Alex Coulton.