Multiple sequence alignment - TraesCS3B01G463700

Loading Multiple Alignment...

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 TraesCS3B01G463700 chr3B 100.000 2810 0 0 857 3666 706754516 706757325 0.000000e+00 5190.0
1 TraesCS3B01G463700 chr3B 94.088 1573 71 7 1531 3097 706185586 706187142 0.000000e+00 2370.0
2 TraesCS3B01G463700 chr3B 88.378 1609 140 21 1026 2619 706028906 706027330 0.000000e+00 1892.0
3 TraesCS3B01G463700 chr3B 87.968 1604 136 24 1026 2619 706182883 706184439 0.000000e+00 1840.0
4 TraesCS3B01G463700 chr3B 100.000 611 0 0 1 611 706753660 706754270 0.000000e+00 1129.0
5 TraesCS3B01G463700 chr3B 90.283 247 18 3 3085 3328 706187086 706187329 5.910000e-83 318.0
6 TraesCS3B01G463700 chr3B 82.508 303 51 2 2310 2611 706560941 706561242 7.810000e-67 265.0
7 TraesCS3B01G463700 chr3B 80.707 311 58 2 2310 2619 706603936 706604245 1.320000e-59 241.0
8 TraesCS3B01G463700 chr3B 79.389 262 29 16 309 562 706029185 706028941 1.050000e-35 161.0
9 TraesCS3B01G463700 chr3B 93.396 106 6 1 3562 3666 706189183 706189288 4.900000e-34 156.0
10 TraesCS3B01G463700 chr3B 75.174 431 51 21 3107 3509 706187499 706187901 6.340000e-33 152.0
11 TraesCS3B01G463700 chr3B 94.505 91 5 0 3576 3666 706181489 706181579 1.370000e-29 141.0
12 TraesCS3B01G463700 chr3B 83.200 125 18 3 3129 3251 706027017 706026894 1.080000e-20 111.0
13 TraesCS3B01G463700 chr3B 89.773 88 4 3 3576 3663 706727031 706727113 1.390000e-19 108.0
14 TraesCS3B01G463700 chr3B 79.167 144 23 5 3079 3219 706756693 706756832 3.900000e-15 93.5
15 TraesCS3B01G463700 chr3B 79.167 144 23 5 3034 3173 706756738 706756878 3.900000e-15 93.5
16 TraesCS3B01G463700 chr3B 80.620 129 7 7 2797 2925 706184679 706184789 2.350000e-12 84.2
17 TraesCS3B01G463700 chr3D 95.128 2114 83 6 988 3097 535399919 535402016 0.000000e+00 3315.0
18 TraesCS3B01G463700 chr3D 89.375 1600 128 20 1026 2614 533960104 533958536 0.000000e+00 1975.0
19 TraesCS3B01G463700 chr3D 87.656 1604 158 23 1026 2619 534115611 534117184 0.000000e+00 1829.0
20 TraesCS3B01G463700 chr3D 85.481 551 43 24 3146 3663 535402469 535403015 1.160000e-149 540.0
21 TraesCS3B01G463700 chr3D 93.231 325 16 4 245 569 535399608 535399926 1.190000e-129 473.0
22 TraesCS3B01G463700 chr3D 92.771 166 8 3 3169 3333 535401997 535402159 1.700000e-58 237.0
23 TraesCS3B01G463700 chr3D 95.333 150 3 4 1 146 535382969 535383118 6.120000e-58 235.0
24 TraesCS3B01G463700 chr3D 79.211 279 32 15 290 562 533960397 533960139 1.750000e-38 171.0
25 TraesCS3B01G463700 chr3D 93.407 91 5 1 3576 3666 534108654 534108743 2.300000e-27 134.0
26 TraesCS3B01G463700 chr3D 84.000 125 17 3 3129 3251 533958190 533958067 2.310000e-22 117.0
27 TraesCS3B01G463700 chr3D 85.981 107 9 4 146 252 535398494 535398594 3.870000e-20 110.0
28 TraesCS3B01G463700 chr3D 97.297 37 1 0 3613 3649 534766145 534766181 3.060000e-06 63.9
29 TraesCS3B01G463700 chr3A 93.659 1577 69 9 1515 3089 670545601 670547148 0.000000e+00 2329.0
30 TraesCS3B01G463700 chr3A 89.608 510 30 15 76 569 670535242 670535744 8.640000e-176 627.0
31 TraesCS3B01G463700 chr3A 90.688 247 18 4 3087 3333 670547101 670547342 1.270000e-84 324.0
32 TraesCS3B01G463700 chr3A 91.589 214 16 2 3326 3539 670548059 670548270 9.960000e-76 294.0
33 TraesCS3B01G463700 chr3A 100.000 44 0 0 568 611 219342059 219342102 8.440000e-12 82.4
34 TraesCS3B01G463700 chr3A 100.000 43 0 0 569 611 219340490 219340532 3.030000e-11 80.5
35 TraesCS3B01G463700 chr4D 81.418 1523 233 30 1026 2525 98015617 98014122 0.000000e+00 1199.0
36 TraesCS3B01G463700 chr4D 79.531 1578 256 37 1055 2614 435198925 435197397 0.000000e+00 1062.0
37 TraesCS3B01G463700 chr4D 78.321 1453 235 52 1026 2451 505358889 505357490 0.000000e+00 865.0
38 TraesCS3B01G463700 chr4D 79.023 1249 199 40 1225 2447 97962020 97960809 0.000000e+00 797.0
39 TraesCS3B01G463700 chr4D 97.872 47 1 0 565 611 506936029 506936075 8.440000e-12 82.4
40 TraesCS3B01G463700 chr4A 81.448 1450 220 33 1026 2451 478191212 478192636 0.000000e+00 1142.0
41 TraesCS3B01G463700 chr4A 100.000 43 0 0 569 611 304782564 304782522 3.030000e-11 80.5
42 TraesCS3B01G463700 chr7D 79.092 1454 232 46 1026 2451 63462346 63463755 0.000000e+00 935.0
43 TraesCS3B01G463700 chr4B 78.766 1248 205 38 1225 2447 139548785 139547573 0.000000e+00 782.0
44 TraesCS3B01G463700 chr4B 97.059 136 4 0 857 992 455976668 455976803 2.850000e-56 230.0
45 TraesCS3B01G463700 chr5B 98.473 131 2 0 857 987 604227752 604227882 7.920000e-57 231.0
46 TraesCS3B01G463700 chr5B 97.727 132 3 0 857 988 528367858 528367989 1.020000e-55 228.0
47 TraesCS3B01G463700 chr5A 97.080 137 3 1 857 993 525451136 525451001 2.850000e-56 230.0
48 TraesCS3B01G463700 chr6A 97.037 135 4 0 857 991 72967818 72967952 1.020000e-55 228.0
49 TraesCS3B01G463700 chr6A 97.710 131 3 0 857 987 201453136 201453006 3.680000e-55 226.0
50 TraesCS3B01G463700 chr6A 97.710 131 3 0 857 987 404480049 404479919 3.680000e-55 226.0
51 TraesCS3B01G463700 chr1B 97.037 135 3 1 857 991 524162401 524162268 3.680000e-55 226.0
52 TraesCS3B01G463700 chr2B 96.350 137 4 1 857 993 702727771 702727636 1.320000e-54 224.0
53 TraesCS3B01G463700 chr2B 100.000 43 0 0 569 611 702728458 702728416 3.030000e-11 80.5
54 TraesCS3B01G463700 chr2B 97.826 46 1 0 566 611 703972405 703972360 3.030000e-11 80.5
55 TraesCS3B01G463700 chr6B 86.207 203 28 0 2246 2448 134839615 134839817 1.710000e-53 220.0
56 TraesCS3B01G463700 chr1A 100.000 42 0 0 570 611 243143687 243143646 1.090000e-10 78.7
57 TraesCS3B01G463700 chr2D 91.071 56 4 1 556 611 614868124 614868178 1.410000e-09 75.0
58 TraesCS3B01G463700 chr7B 90.566 53 2 3 554 605 355749951 355750001 2.360000e-07 67.6


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 TraesCS3B01G463700 chr3B 706753660 706757325 3665 False 1626.500000 5190 89.583500 1 3666 4 chr3B.!!$F5 3665
1 TraesCS3B01G463700 chr3B 706181489 706189288 7799 False 723.028571 2370 88.004857 1026 3666 7 chr3B.!!$F4 2640
2 TraesCS3B01G463700 chr3B 706026894 706029185 2291 True 721.333333 1892 83.655667 309 3251 3 chr3B.!!$R1 2942
3 TraesCS3B01G463700 chr3D 534115611 534117184 1573 False 1829.000000 1829 87.656000 1026 2619 1 chr3D.!!$F2 1593
4 TraesCS3B01G463700 chr3D 535398494 535403015 4521 False 935.000000 3315 90.518400 146 3663 5 chr3D.!!$F5 3517
5 TraesCS3B01G463700 chr3D 533958067 533960397 2330 True 754.333333 1975 84.195333 290 3251 3 chr3D.!!$R1 2961
6 TraesCS3B01G463700 chr3A 670545601 670548270 2669 False 982.333333 2329 91.978667 1515 3539 3 chr3A.!!$F3 2024
7 TraesCS3B01G463700 chr3A 670535242 670535744 502 False 627.000000 627 89.608000 76 569 1 chr3A.!!$F1 493
8 TraesCS3B01G463700 chr4D 98014122 98015617 1495 True 1199.000000 1199 81.418000 1026 2525 1 chr4D.!!$R2 1499
9 TraesCS3B01G463700 chr4D 435197397 435198925 1528 True 1062.000000 1062 79.531000 1055 2614 1 chr4D.!!$R3 1559
10 TraesCS3B01G463700 chr4D 505357490 505358889 1399 True 865.000000 865 78.321000 1026 2451 1 chr4D.!!$R4 1425
11 TraesCS3B01G463700 chr4D 97960809 97962020 1211 True 797.000000 797 79.023000 1225 2447 1 chr4D.!!$R1 1222
12 TraesCS3B01G463700 chr4A 478191212 478192636 1424 False 1142.000000 1142 81.448000 1026 2451 1 chr4A.!!$F1 1425
13 TraesCS3B01G463700 chr7D 63462346 63463755 1409 False 935.000000 935 79.092000 1026 2451 1 chr7D.!!$F1 1425
14 TraesCS3B01G463700 chr4B 139547573 139548785 1212 True 782.000000 782 78.766000 1225 2447 1 chr4B.!!$R1 1222

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
40 41 0.106819 AGATGGTGGGATGCTGCTTC 60.107 55.0 6.97 6.97 0.0 3.86 F
577 1619 0.254178 CCCCACTCAATCAGACCTGG 59.746 60.0 0.00 0.00 0.0 4.45 F
580 1622 0.325933 CACTCAATCAGACCTGGCCA 59.674 55.0 4.71 4.71 0.0 5.36 F
585 1627 0.609131 AATCAGACCTGGCCAAACGG 60.609 55.0 7.01 7.56 0.0 4.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1850 2917 0.255890 ACCAGGCGCCTTAATGATGT 59.744 50.000 30.6 12.3 0.00 3.06 R
1857 2924 1.298667 GGAGAAACCAGGCGCCTTA 59.701 57.895 30.6 0.0 38.79 2.69 R
2126 5421 1.888391 GCCAAAAGAAGAGTCAGGGGG 60.888 57.143 0.0 0.0 0.00 5.40 R
2677 6161 3.300667 CTGCCAACTTCGACGCTGC 62.301 63.158 0.0 0.0 0.00 5.25 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
19 20 2.384899 GAGTTTTGCACTGGACGAAC 57.615 50.000 0.00 0.00 35.01 3.95
20 21 1.668751 GAGTTTTGCACTGGACGAACA 59.331 47.619 0.00 0.00 35.01 3.18
21 22 2.088423 AGTTTTGCACTGGACGAACAA 58.912 42.857 0.00 0.00 32.83 2.83
22 23 2.097466 AGTTTTGCACTGGACGAACAAG 59.903 45.455 0.00 0.00 32.83 3.16
25 26 1.511850 TGCACTGGACGAACAAGATG 58.488 50.000 0.00 0.00 0.00 2.90
28 29 1.800586 CACTGGACGAACAAGATGGTG 59.199 52.381 0.00 0.00 0.00 4.17
29 30 1.270839 ACTGGACGAACAAGATGGTGG 60.271 52.381 0.00 0.00 0.00 4.61
31 32 0.323629 GGACGAACAAGATGGTGGGA 59.676 55.000 0.00 0.00 0.00 4.37
32 33 1.065418 GGACGAACAAGATGGTGGGAT 60.065 52.381 0.00 0.00 0.00 3.85
33 34 2.009774 GACGAACAAGATGGTGGGATG 58.990 52.381 0.00 0.00 0.00 3.51
35 36 1.679944 CGAACAAGATGGTGGGATGCT 60.680 52.381 0.00 0.00 0.00 3.79
36 37 1.747355 GAACAAGATGGTGGGATGCTG 59.253 52.381 0.00 0.00 0.00 4.41
37 38 0.682209 ACAAGATGGTGGGATGCTGC 60.682 55.000 0.00 0.00 0.00 5.25
39 40 0.333993 AAGATGGTGGGATGCTGCTT 59.666 50.000 0.00 0.00 0.00 3.91
40 41 0.106819 AGATGGTGGGATGCTGCTTC 60.107 55.000 6.97 6.97 0.00 3.86
41 42 0.106819 GATGGTGGGATGCTGCTTCT 60.107 55.000 14.20 0.00 0.00 2.85
42 43 0.395311 ATGGTGGGATGCTGCTTCTG 60.395 55.000 14.20 0.00 0.00 3.02
69 70 1.863880 GCAGAGTGCGTCGACGTAG 60.864 63.158 35.48 21.62 42.22 3.51
70 71 1.863880 CAGAGTGCGTCGACGTAGC 60.864 63.158 35.48 25.60 42.22 3.58
71 72 2.033755 AGAGTGCGTCGACGTAGCT 61.034 57.895 35.48 28.38 42.22 3.32
73 74 0.304098 GAGTGCGTCGACGTAGCTAT 59.696 55.000 35.48 19.04 42.22 2.97
74 75 0.731417 AGTGCGTCGACGTAGCTATT 59.269 50.000 35.48 14.03 42.22 1.73
178 184 7.540474 AGATTCTACTTAGTTGGACAGACAA 57.460 36.000 0.00 0.00 0.00 3.18
179 185 7.963532 AGATTCTACTTAGTTGGACAGACAAA 58.036 34.615 0.00 0.00 31.17 2.83
180 186 7.873505 AGATTCTACTTAGTTGGACAGACAAAC 59.126 37.037 0.00 0.00 31.17 2.93
181 187 5.526115 TCTACTTAGTTGGACAGACAAACG 58.474 41.667 0.00 0.00 31.17 3.60
182 188 4.395959 ACTTAGTTGGACAGACAAACGA 57.604 40.909 0.00 0.00 31.17 3.85
198 204 4.511826 ACAAACGAACCTCTGAATTGTCTC 59.488 41.667 0.00 0.00 0.00 3.36
202 208 3.611766 CGAACCTCTGAATTGTCTCGTCA 60.612 47.826 0.00 0.00 0.00 4.35
240 256 9.554724 GACGATGTAATGCTCTTTTGATTTTAA 57.445 29.630 0.00 0.00 0.00 1.52
256 1293 5.239306 TGATTTTAATGAAGCTAGCCATCCG 59.761 40.000 12.13 0.00 0.00 4.18
258 1295 1.131638 AATGAAGCTAGCCATCCGGA 58.868 50.000 12.13 6.61 0.00 5.14
262 1299 1.943340 GAAGCTAGCCATCCGGAAAAG 59.057 52.381 9.01 0.37 0.00 2.27
397 1439 4.176752 GTCGGCTCATCCCCACCC 62.177 72.222 0.00 0.00 0.00 4.61
564 1606 2.113139 CGCTTGTTCCACCCCACT 59.887 61.111 0.00 0.00 0.00 4.00
569 1611 2.162681 CTTGTTCCACCCCACTCAATC 58.837 52.381 0.00 0.00 0.00 2.67
570 1612 1.144691 TGTTCCACCCCACTCAATCA 58.855 50.000 0.00 0.00 0.00 2.57
572 1614 1.351017 GTTCCACCCCACTCAATCAGA 59.649 52.381 0.00 0.00 0.00 3.27
576 1618 0.987294 ACCCCACTCAATCAGACCTG 59.013 55.000 0.00 0.00 0.00 4.00
577 1619 0.254178 CCCCACTCAATCAGACCTGG 59.746 60.000 0.00 0.00 0.00 4.45
580 1622 0.325933 CACTCAATCAGACCTGGCCA 59.674 55.000 4.71 4.71 0.00 5.36
581 1623 1.067295 ACTCAATCAGACCTGGCCAA 58.933 50.000 7.01 0.00 0.00 4.52
582 1624 1.425066 ACTCAATCAGACCTGGCCAAA 59.575 47.619 7.01 0.00 0.00 3.28
585 1627 0.609131 AATCAGACCTGGCCAAACGG 60.609 55.000 7.01 7.56 0.00 4.44
586 1628 2.484287 ATCAGACCTGGCCAAACGGG 62.484 60.000 7.01 7.12 42.81 5.28
913 1955 3.784412 CGTTTAGCCCGTGCCGTG 61.784 66.667 0.00 0.00 38.69 4.94
914 1956 4.097863 GTTTAGCCCGTGCCGTGC 62.098 66.667 0.00 0.00 38.69 5.34
973 2015 4.404098 CTGTTTAGCCCGGCCCGT 62.404 66.667 5.55 0.00 0.00 5.28
974 2016 3.912745 CTGTTTAGCCCGGCCCGTT 62.913 63.158 5.55 0.00 0.00 4.44
975 2017 2.674033 GTTTAGCCCGGCCCGTTT 60.674 61.111 5.55 0.00 0.00 3.60
976 2018 2.673687 TTTAGCCCGGCCCGTTTG 60.674 61.111 5.55 0.00 0.00 2.93
977 2019 4.726304 TTAGCCCGGCCCGTTTGG 62.726 66.667 5.55 0.00 37.09 3.28
988 2030 2.116827 CCCGTTTGGCCAGTTATACA 57.883 50.000 5.11 0.00 0.00 2.29
989 2031 1.741145 CCCGTTTGGCCAGTTATACAC 59.259 52.381 5.11 0.00 0.00 2.90
990 2032 1.741145 CCGTTTGGCCAGTTATACACC 59.259 52.381 5.11 0.00 0.00 4.16
991 2033 1.741145 CGTTTGGCCAGTTATACACCC 59.259 52.381 5.11 0.00 0.00 4.61
992 2034 2.797786 GTTTGGCCAGTTATACACCCA 58.202 47.619 5.11 0.00 0.00 4.51
993 2035 3.158676 GTTTGGCCAGTTATACACCCAA 58.841 45.455 5.11 0.00 0.00 4.12
994 2036 3.748645 TTGGCCAGTTATACACCCAAT 57.251 42.857 5.11 0.00 0.00 3.16
1850 2917 1.621317 TGTCCTAGATGTCGGCAACAA 59.379 47.619 0.00 0.00 42.37 2.83
1857 2924 3.084039 AGATGTCGGCAACAACATCATT 58.916 40.909 15.53 0.00 42.37 2.57
1862 2929 2.163412 TCGGCAACAACATCATTAAGGC 59.837 45.455 0.00 0.00 0.00 4.35
1890 2963 4.082026 GGTTTCTCCATTGGTTCAATCCTG 60.082 45.833 1.86 0.00 31.05 3.86
1963 3062 5.463286 TGTGAATCTGTGATTGATTGCAAC 58.537 37.500 0.00 0.00 36.72 4.17
1964 3063 5.242171 TGTGAATCTGTGATTGATTGCAACT 59.758 36.000 0.00 0.00 36.72 3.16
1965 3064 5.571741 GTGAATCTGTGATTGATTGCAACTG 59.428 40.000 0.00 0.00 36.72 3.16
1966 3065 3.564235 TCTGTGATTGATTGCAACTGC 57.436 42.857 0.00 0.00 36.72 4.40
1977 3076 3.060615 CAACTGCAGGCTGGGAGC 61.061 66.667 19.93 1.54 41.46 4.70
2418 5747 1.237285 TTCTTTGAGAGCGCCTTGGC 61.237 55.000 2.29 0.75 0.00 4.52
2677 6161 2.481854 CTGTGCTAGCCTGATTAGCTG 58.518 52.381 13.29 0.00 43.07 4.24
2744 6256 0.110678 TTGGCAATTACGGACCACCA 59.889 50.000 0.00 0.00 35.59 4.17
2745 6257 0.329931 TGGCAATTACGGACCACCAT 59.670 50.000 0.00 0.00 35.59 3.55
2746 6258 1.021968 GGCAATTACGGACCACCATC 58.978 55.000 0.00 0.00 35.59 3.51
2747 6259 1.021968 GCAATTACGGACCACCATCC 58.978 55.000 0.00 0.00 35.59 3.51
2748 6260 1.680555 GCAATTACGGACCACCATCCA 60.681 52.381 0.00 0.00 38.87 3.41
2749 6261 2.930950 CAATTACGGACCACCATCCAT 58.069 47.619 0.00 0.00 38.87 3.41
2750 6262 2.878406 CAATTACGGACCACCATCCATC 59.122 50.000 0.00 0.00 38.87 3.51
2773 6285 6.964908 TCGTGTATGTGTTTCATGTGATTTT 58.035 32.000 0.00 0.00 37.91 1.82
2777 6289 8.268052 GTGTATGTGTTTCATGTGATTTTGTTG 58.732 33.333 0.00 0.00 37.91 3.33
2975 6488 2.230992 TGCTTTGCTTTGTGTCTTGTGT 59.769 40.909 0.00 0.00 0.00 3.72
2987 6501 1.737236 GTCTTGTGTGTTGTGCTGTGA 59.263 47.619 0.00 0.00 0.00 3.58
3026 6540 2.896044 TCATGCTGGTTGGCAATTACAA 59.104 40.909 1.92 0.00 45.68 2.41
3054 6568 5.559608 GCCATATCTGTGTTTCATGTGATCG 60.560 44.000 0.00 0.00 0.00 3.69
3065 6579 5.774498 TTCATGTGATCGCACTATCTAGT 57.226 39.130 11.96 0.00 45.36 2.57
3079 6593 7.362487 CGCACTATCTAGTTGTGATAGGATGAT 60.362 40.741 13.21 0.00 44.46 2.45
3080 6594 8.961634 GCACTATCTAGTTGTGATAGGATGATA 58.038 37.037 13.21 0.00 44.46 2.15
3083 6597 9.995957 CTATCTAGTTGTGATAGGATGATAACG 57.004 37.037 0.00 0.00 39.54 3.18
3084 6598 7.215719 TCTAGTTGTGATAGGATGATAACGG 57.784 40.000 0.00 0.00 0.00 4.44
3085 6599 5.871396 AGTTGTGATAGGATGATAACGGT 57.129 39.130 0.00 0.00 0.00 4.83
3086 6600 5.601662 AGTTGTGATAGGATGATAACGGTG 58.398 41.667 0.00 0.00 0.00 4.94
3087 6601 5.128827 AGTTGTGATAGGATGATAACGGTGT 59.871 40.000 0.00 0.00 0.00 4.16
3088 6602 5.607939 TGTGATAGGATGATAACGGTGTT 57.392 39.130 0.00 0.00 0.00 3.32
3089 6603 5.597806 TGTGATAGGATGATAACGGTGTTC 58.402 41.667 0.00 0.00 0.00 3.18
3090 6604 4.989168 GTGATAGGATGATAACGGTGTTCC 59.011 45.833 0.00 0.00 0.00 3.62
3091 6605 4.651962 TGATAGGATGATAACGGTGTTCCA 59.348 41.667 0.00 0.00 0.00 3.53
3092 6606 5.306937 TGATAGGATGATAACGGTGTTCCAT 59.693 40.000 0.00 0.00 0.00 3.41
3093 6607 3.808728 AGGATGATAACGGTGTTCCATG 58.191 45.455 0.00 0.00 0.00 3.66
3094 6608 3.199946 AGGATGATAACGGTGTTCCATGT 59.800 43.478 0.00 0.00 0.00 3.21
3095 6609 3.312421 GGATGATAACGGTGTTCCATGTG 59.688 47.826 0.00 0.00 0.00 3.21
3096 6610 3.686916 TGATAACGGTGTTCCATGTGA 57.313 42.857 0.00 0.00 0.00 3.58
3097 6611 4.214986 TGATAACGGTGTTCCATGTGAT 57.785 40.909 0.00 0.00 0.00 3.06
3098 6612 4.188462 TGATAACGGTGTTCCATGTGATC 58.812 43.478 0.00 0.00 0.00 2.92
3099 6613 1.438651 AACGGTGTTCCATGTGATCG 58.561 50.000 0.00 0.00 0.00 3.69
3100 6614 1.019278 ACGGTGTTCCATGTGATCGC 61.019 55.000 0.00 0.00 0.00 4.58
3101 6615 1.018752 CGGTGTTCCATGTGATCGCA 61.019 55.000 12.12 12.12 0.00 5.10
3102 6616 0.447801 GGTGTTCCATGTGATCGCAC 59.552 55.000 11.96 0.00 45.35 5.34
3103 6617 1.442769 GTGTTCCATGTGATCGCACT 58.557 50.000 11.96 0.00 45.36 4.40
3104 6618 2.616960 GTGTTCCATGTGATCGCACTA 58.383 47.619 11.96 0.00 45.36 2.74
3105 6619 3.198068 GTGTTCCATGTGATCGCACTAT 58.802 45.455 11.96 0.00 45.36 2.12
3106 6620 3.246226 GTGTTCCATGTGATCGCACTATC 59.754 47.826 11.96 2.60 45.36 2.08
3107 6621 3.132824 TGTTCCATGTGATCGCACTATCT 59.867 43.478 11.96 0.00 45.36 1.98
3108 6622 4.340950 TGTTCCATGTGATCGCACTATCTA 59.659 41.667 11.96 0.00 45.36 1.98
3109 6623 4.773323 TCCATGTGATCGCACTATCTAG 57.227 45.455 11.96 0.00 45.36 2.43
3110 6624 4.145052 TCCATGTGATCGCACTATCTAGT 58.855 43.478 11.96 0.00 45.36 2.57
3111 6625 4.584743 TCCATGTGATCGCACTATCTAGTT 59.415 41.667 11.96 0.00 45.36 2.24
3112 6626 4.683320 CCATGTGATCGCACTATCTAGTTG 59.317 45.833 11.96 2.45 45.36 3.16
3113 6627 4.983671 TGTGATCGCACTATCTAGTTGT 57.016 40.909 4.45 0.00 45.36 3.32
3114 6628 4.672409 TGTGATCGCACTATCTAGTTGTG 58.328 43.478 4.45 7.71 45.36 3.33
3115 6629 4.398044 TGTGATCGCACTATCTAGTTGTGA 59.602 41.667 4.45 8.58 45.36 3.58
3116 6630 5.067805 TGTGATCGCACTATCTAGTTGTGAT 59.932 40.000 4.45 11.88 45.36 3.06
3117 6631 6.262273 TGTGATCGCACTATCTAGTTGTGATA 59.738 38.462 4.45 0.00 45.36 2.15
3118 6632 6.799441 GTGATCGCACTATCTAGTTGTGATAG 59.201 42.308 0.16 8.64 45.21 2.08
3119 6633 5.690997 TCGCACTATCTAGTTGTGATAGG 57.309 43.478 13.21 5.71 44.46 2.57
3120 6634 5.374071 TCGCACTATCTAGTTGTGATAGGA 58.626 41.667 13.21 1.72 44.46 2.94
3121 6635 6.004574 TCGCACTATCTAGTTGTGATAGGAT 58.995 40.000 13.21 0.00 44.46 3.24
3122 6636 6.072452 TCGCACTATCTAGTTGTGATAGGATG 60.072 42.308 13.21 6.43 44.46 3.51
3123 6637 6.072452 CGCACTATCTAGTTGTGATAGGATGA 60.072 42.308 13.21 0.00 44.46 2.92
3124 6638 7.362487 CGCACTATCTAGTTGTGATAGGATGAT 60.362 40.741 13.21 0.00 44.46 2.45
3153 6667 2.818130 ACATTGCGTGATTTTGGCTT 57.182 40.000 0.00 0.00 0.00 4.35
3157 6671 5.053145 ACATTGCGTGATTTTGGCTTAAAA 58.947 33.333 2.73 2.73 42.10 1.52
3158 6672 5.177327 ACATTGCGTGATTTTGGCTTAAAAG 59.823 36.000 5.82 0.00 41.26 2.27
3159 6673 4.314740 TGCGTGATTTTGGCTTAAAAGT 57.685 36.364 5.82 0.00 41.26 2.66
3160 6674 4.047822 TGCGTGATTTTGGCTTAAAAGTG 58.952 39.130 5.82 0.00 41.26 3.16
3161 6675 4.048504 GCGTGATTTTGGCTTAAAAGTGT 58.951 39.130 5.82 0.00 41.26 3.55
3162 6676 4.506288 GCGTGATTTTGGCTTAAAAGTGTT 59.494 37.500 5.82 0.00 41.26 3.32
3163 6677 5.006261 GCGTGATTTTGGCTTAAAAGTGTTT 59.994 36.000 5.82 0.00 41.26 2.83
3164 6678 6.199342 GCGTGATTTTGGCTTAAAAGTGTTTA 59.801 34.615 5.82 0.00 41.26 2.01
3165 6679 7.095816 GCGTGATTTTGGCTTAAAAGTGTTTAT 60.096 33.333 5.82 0.00 41.26 1.40
3166 6680 8.760569 CGTGATTTTGGCTTAAAAGTGTTTATT 58.239 29.630 5.82 0.00 41.26 1.40
3167 6681 9.862585 GTGATTTTGGCTTAAAAGTGTTTATTG 57.137 29.630 5.82 0.00 41.26 1.90
3168 6682 9.606631 TGATTTTGGCTTAAAAGTGTTTATTGT 57.393 25.926 5.82 0.00 41.26 2.71
3169 6683 9.862585 GATTTTGGCTTAAAAGTGTTTATTGTG 57.137 29.630 5.82 0.00 41.26 3.33
3170 6684 9.606631 ATTTTGGCTTAAAAGTGTTTATTGTGA 57.393 25.926 5.82 0.00 41.26 3.58
3171 6685 7.995463 TTGGCTTAAAAGTGTTTATTGTGAC 57.005 32.000 0.00 0.00 0.00 3.67
3172 6686 7.101652 TGGCTTAAAAGTGTTTATTGTGACA 57.898 32.000 0.00 0.00 0.00 3.58
3173 6687 7.548097 TGGCTTAAAAGTGTTTATTGTGACAA 58.452 30.769 0.00 0.00 0.00 3.18
3174 6688 8.200792 TGGCTTAAAAGTGTTTATTGTGACAAT 58.799 29.630 15.80 15.80 0.00 2.71
3175 6689 8.487176 GGCTTAAAAGTGTTTATTGTGACAATG 58.513 33.333 20.29 0.56 0.00 2.82
3176 6690 8.487176 GCTTAAAAGTGTTTATTGTGACAATGG 58.513 33.333 20.29 0.00 0.00 3.16
3177 6691 9.528018 CTTAAAAGTGTTTATTGTGACAATGGT 57.472 29.630 20.29 0.00 0.00 3.55
3178 6692 7.769272 AAAAGTGTTTATTGTGACAATGGTG 57.231 32.000 20.29 0.00 0.00 4.17
3179 6693 6.463995 AAGTGTTTATTGTGACAATGGTGT 57.536 33.333 20.29 0.00 42.10 4.16
3180 6694 6.463995 AGTGTTTATTGTGACAATGGTGTT 57.536 33.333 20.29 0.00 38.41 3.32
3181 6695 7.575414 AGTGTTTATTGTGACAATGGTGTTA 57.425 32.000 20.29 0.00 38.41 2.41
3182 6696 7.422399 AGTGTTTATTGTGACAATGGTGTTAC 58.578 34.615 20.29 11.25 42.96 2.50
3196 6710 5.776173 TGGTGTTACATTGGTACTTTTGG 57.224 39.130 0.00 0.00 0.00 3.28
3197 6711 4.038162 TGGTGTTACATTGGTACTTTTGGC 59.962 41.667 0.00 0.00 0.00 4.52
3198 6712 4.279922 GGTGTTACATTGGTACTTTTGGCT 59.720 41.667 0.00 0.00 0.00 4.75
3199 6713 5.474189 GGTGTTACATTGGTACTTTTGGCTA 59.526 40.000 0.00 0.00 0.00 3.93
3200 6714 6.016108 GGTGTTACATTGGTACTTTTGGCTAA 60.016 38.462 0.00 0.00 0.00 3.09
3201 6715 7.427214 GTGTTACATTGGTACTTTTGGCTAAA 58.573 34.615 0.00 0.00 0.00 1.85
3202 6716 7.921745 GTGTTACATTGGTACTTTTGGCTAAAA 59.078 33.333 7.80 7.80 34.75 1.52
3283 6846 4.717233 TGATTTGCTTTGTGACTTGTGT 57.283 36.364 0.00 0.00 0.00 3.72
3284 6847 5.070770 TGATTTGCTTTGTGACTTGTGTT 57.929 34.783 0.00 0.00 0.00 3.32
3285 6848 4.863689 TGATTTGCTTTGTGACTTGTGTTG 59.136 37.500 0.00 0.00 0.00 3.33
3286 6849 4.511617 TTTGCTTTGTGACTTGTGTTGA 57.488 36.364 0.00 0.00 0.00 3.18
3335 6920 2.928116 CCCGTTCACGAGTATTTCTTCC 59.072 50.000 0.00 0.00 43.02 3.46
3361 7757 4.953579 GCAAAATGGAAAGATGGGGTACTA 59.046 41.667 0.00 0.00 0.00 1.82
3441 7837 8.204886 CGGAATCGAAGCAGATTTGATATGCA 62.205 42.308 9.81 0.00 43.55 3.96
3450 7846 4.034858 CAGATTTGATATGCACACTTCGCT 59.965 41.667 0.00 0.00 0.00 4.93
3523 9031 4.810191 TGTGTTTGGCAGGTTAACTTTT 57.190 36.364 5.42 0.00 0.00 2.27
3570 9196 8.544622 TCAAGTCCCAGTTGAAACATACATATA 58.455 33.333 0.00 0.00 34.83 0.86
3616 9242 2.565834 GGCATAAATAGGCCCGAGTCTA 59.434 50.000 0.00 0.00 46.75 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 2.096819 TCTTGTTCGTCCAGTGCAAAAC 59.903 45.455 0.00 0.00 0.00 2.43
3 4 2.360844 TCTTGTTCGTCCAGTGCAAAA 58.639 42.857 0.00 0.00 0.00 2.44
4 5 2.031258 TCTTGTTCGTCCAGTGCAAA 57.969 45.000 0.00 0.00 0.00 3.68
5 6 1.872952 CATCTTGTTCGTCCAGTGCAA 59.127 47.619 0.00 0.00 0.00 4.08
7 8 0.798776 CCATCTTGTTCGTCCAGTGC 59.201 55.000 0.00 0.00 0.00 4.40
8 9 1.800586 CACCATCTTGTTCGTCCAGTG 59.199 52.381 0.00 0.00 0.00 3.66
10 11 1.442769 CCACCATCTTGTTCGTCCAG 58.557 55.000 0.00 0.00 0.00 3.86
11 12 0.036164 CCCACCATCTTGTTCGTCCA 59.964 55.000 0.00 0.00 0.00 4.02
13 14 2.009774 CATCCCACCATCTTGTTCGTC 58.990 52.381 0.00 0.00 0.00 4.20
14 15 1.950484 GCATCCCACCATCTTGTTCGT 60.950 52.381 0.00 0.00 0.00 3.85
15 16 0.734889 GCATCCCACCATCTTGTTCG 59.265 55.000 0.00 0.00 0.00 3.95
16 17 1.747355 CAGCATCCCACCATCTTGTTC 59.253 52.381 0.00 0.00 0.00 3.18
17 18 1.843368 CAGCATCCCACCATCTTGTT 58.157 50.000 0.00 0.00 0.00 2.83
18 19 0.682209 GCAGCATCCCACCATCTTGT 60.682 55.000 0.00 0.00 0.00 3.16
19 20 0.395311 AGCAGCATCCCACCATCTTG 60.395 55.000 0.00 0.00 0.00 3.02
20 21 0.333993 AAGCAGCATCCCACCATCTT 59.666 50.000 0.00 0.00 0.00 2.40
21 22 0.106819 GAAGCAGCATCCCACCATCT 60.107 55.000 0.00 0.00 0.00 2.90
22 23 0.106819 AGAAGCAGCATCCCACCATC 60.107 55.000 0.00 0.00 0.00 3.51
25 26 2.413142 GCAGAAGCAGCATCCCACC 61.413 63.158 0.00 0.00 41.58 4.61
44 45 0.792640 CGACGCACTCTGCAAAGATT 59.207 50.000 0.00 0.00 45.36 2.40
45 46 0.038251 TCGACGCACTCTGCAAAGAT 60.038 50.000 0.00 0.00 45.36 2.40
46 47 0.939577 GTCGACGCACTCTGCAAAGA 60.940 55.000 0.00 0.00 45.36 2.52
47 48 1.488957 GTCGACGCACTCTGCAAAG 59.511 57.895 0.00 0.00 45.36 2.77
49 50 2.120355 TACGTCGACGCACTCTGCAA 62.120 55.000 35.92 8.88 45.36 4.08
51 52 1.863880 CTACGTCGACGCACTCTGC 60.864 63.158 35.92 0.00 44.43 4.26
52 53 1.863880 GCTACGTCGACGCACTCTG 60.864 63.158 35.92 19.81 44.43 3.35
53 54 0.738762 TAGCTACGTCGACGCACTCT 60.739 55.000 35.92 26.83 44.43 3.24
54 55 0.304098 ATAGCTACGTCGACGCACTC 59.696 55.000 35.92 21.97 44.43 3.51
55 56 0.731417 AATAGCTACGTCGACGCACT 59.269 50.000 35.92 29.52 44.43 4.40
56 57 1.542544 AAATAGCTACGTCGACGCAC 58.457 50.000 35.92 24.75 44.43 5.34
57 58 2.267188 AAAATAGCTACGTCGACGCA 57.733 45.000 35.92 24.21 44.43 5.24
58 59 4.943508 ATTAAAATAGCTACGTCGACGC 57.056 40.909 35.92 20.85 44.43 5.19
60 61 6.817270 TCCAATTAAAATAGCTACGTCGAC 57.183 37.500 5.18 5.18 0.00 4.20
61 62 7.760794 TCTTTCCAATTAAAATAGCTACGTCGA 59.239 33.333 0.00 0.00 0.00 4.20
63 64 9.865484 GATCTTTCCAATTAAAATAGCTACGTC 57.135 33.333 0.00 0.00 0.00 4.34
92 93 7.766738 TGATTAGCGGAACTATCACAATGTTAA 59.233 33.333 0.00 0.00 0.00 2.01
178 184 3.243771 ACGAGACAATTCAGAGGTTCGTT 60.244 43.478 0.00 0.00 36.76 3.85
179 185 2.296471 ACGAGACAATTCAGAGGTTCGT 59.704 45.455 0.00 0.00 35.48 3.85
180 186 2.917971 GACGAGACAATTCAGAGGTTCG 59.082 50.000 0.00 0.00 0.00 3.95
181 187 3.675698 GTGACGAGACAATTCAGAGGTTC 59.324 47.826 0.00 0.00 0.00 3.62
182 188 3.322254 AGTGACGAGACAATTCAGAGGTT 59.678 43.478 0.00 0.00 0.00 3.50
198 204 0.793478 CGTCCACGAGCTTAGTGACG 60.793 60.000 20.47 20.71 41.83 4.35
240 256 1.131638 TTCCGGATGGCTAGCTTCAT 58.868 50.000 15.72 10.49 34.14 2.57
242 1279 1.943340 CTTTTCCGGATGGCTAGCTTC 59.057 52.381 15.72 11.78 34.14 3.86
564 1606 1.881925 CGTTTGGCCAGGTCTGATTGA 60.882 52.381 5.11 0.00 0.00 2.57
569 1611 2.672996 CCCGTTTGGCCAGGTCTG 60.673 66.667 5.11 0.00 0.00 3.51
956 1998 3.912745 AACGGGCCGGGCTAAACAG 62.913 63.158 31.78 14.11 0.00 3.16
957 1999 3.494736 AAACGGGCCGGGCTAAACA 62.495 57.895 31.78 0.00 0.00 2.83
958 2000 2.674033 AAACGGGCCGGGCTAAAC 60.674 61.111 31.78 10.12 0.00 2.01
959 2001 2.673687 CAAACGGGCCGGGCTAAA 60.674 61.111 31.78 0.00 0.00 1.85
960 2002 4.726304 CCAAACGGGCCGGGCTAA 62.726 66.667 31.78 0.00 0.00 3.09
969 2011 1.741145 GTGTATAACTGGCCAAACGGG 59.259 52.381 7.01 0.00 40.85 5.28
970 2012 1.741145 GGTGTATAACTGGCCAAACGG 59.259 52.381 7.01 0.00 0.00 4.44
971 2013 1.741145 GGGTGTATAACTGGCCAAACG 59.259 52.381 7.01 0.00 0.00 3.60
972 2014 2.797786 TGGGTGTATAACTGGCCAAAC 58.202 47.619 7.01 0.69 0.00 2.93
973 2015 3.527507 TTGGGTGTATAACTGGCCAAA 57.472 42.857 7.01 0.00 28.22 3.28
974 2016 3.748645 ATTGGGTGTATAACTGGCCAA 57.251 42.857 7.01 0.00 33.71 4.52
975 2017 3.432467 CGTATTGGGTGTATAACTGGCCA 60.432 47.826 4.71 4.71 0.00 5.36
976 2018 3.135994 CGTATTGGGTGTATAACTGGCC 58.864 50.000 0.00 0.00 0.00 5.36
977 2019 3.805971 GTCGTATTGGGTGTATAACTGGC 59.194 47.826 0.00 0.00 0.00 4.85
978 2020 5.013568 TGTCGTATTGGGTGTATAACTGG 57.986 43.478 0.00 0.00 0.00 4.00
979 2021 5.050363 GCATGTCGTATTGGGTGTATAACTG 60.050 44.000 0.00 0.00 0.00 3.16
980 2022 5.054477 GCATGTCGTATTGGGTGTATAACT 58.946 41.667 0.00 0.00 0.00 2.24
981 2023 4.212636 GGCATGTCGTATTGGGTGTATAAC 59.787 45.833 0.00 0.00 0.00 1.89
982 2024 4.382291 GGCATGTCGTATTGGGTGTATAA 58.618 43.478 0.00 0.00 0.00 0.98
983 2025 3.244284 GGGCATGTCGTATTGGGTGTATA 60.244 47.826 0.00 0.00 0.00 1.47
984 2026 2.486548 GGGCATGTCGTATTGGGTGTAT 60.487 50.000 0.00 0.00 0.00 2.29
985 2027 1.134340 GGGCATGTCGTATTGGGTGTA 60.134 52.381 0.00 0.00 0.00 2.90
986 2028 0.393808 GGGCATGTCGTATTGGGTGT 60.394 55.000 0.00 0.00 0.00 4.16
987 2029 1.436195 CGGGCATGTCGTATTGGGTG 61.436 60.000 0.00 0.00 0.00 4.61
988 2030 1.153249 CGGGCATGTCGTATTGGGT 60.153 57.895 0.00 0.00 0.00 4.51
989 2031 1.153249 ACGGGCATGTCGTATTGGG 60.153 57.895 13.05 0.00 39.22 4.12
990 2032 0.461163 TGACGGGCATGTCGTATTGG 60.461 55.000 14.30 0.00 41.87 3.16
991 2033 1.062002 GTTGACGGGCATGTCGTATTG 59.938 52.381 14.30 0.00 41.87 1.90
992 2034 1.365699 GTTGACGGGCATGTCGTATT 58.634 50.000 14.30 0.00 41.87 1.89
993 2035 0.461339 GGTTGACGGGCATGTCGTAT 60.461 55.000 14.30 0.00 41.87 3.06
994 2036 1.079681 GGTTGACGGGCATGTCGTA 60.080 57.895 14.30 0.48 41.87 3.43
1441 2502 0.824109 CTCCACATGCCGAGGTAGAA 59.176 55.000 0.00 0.00 0.00 2.10
1850 2917 0.255890 ACCAGGCGCCTTAATGATGT 59.744 50.000 30.60 12.30 0.00 3.06
1857 2924 1.298667 GGAGAAACCAGGCGCCTTA 59.701 57.895 30.60 0.00 38.79 2.69
1969 3068 4.106925 CTGTCCCAGGCTCCCAGC 62.107 72.222 0.00 0.00 41.46 4.85
1970 3069 3.406200 CCTGTCCCAGGCTCCCAG 61.406 72.222 0.00 0.00 45.13 4.45
2126 5421 1.888391 GCCAAAAGAAGAGTCAGGGGG 60.888 57.143 0.00 0.00 0.00 5.40
2677 6161 3.300667 CTGCCAACTTCGACGCTGC 62.301 63.158 0.00 0.00 0.00 5.25
2744 6256 5.065090 CACATGAAACACATACACGATGGAT 59.935 40.000 0.00 0.00 40.18 3.41
2745 6257 4.391523 CACATGAAACACATACACGATGGA 59.608 41.667 0.00 0.00 40.18 3.41
2746 6258 4.391523 TCACATGAAACACATACACGATGG 59.608 41.667 0.00 0.00 40.18 3.51
2747 6259 5.529014 TCACATGAAACACATACACGATG 57.471 39.130 0.00 0.00 41.79 3.84
2748 6260 6.741992 AATCACATGAAACACATACACGAT 57.258 33.333 0.00 0.00 37.46 3.73
2749 6261 6.552859 AAATCACATGAAACACATACACGA 57.447 33.333 0.00 0.00 37.46 4.35
2750 6262 6.636447 ACAAAATCACATGAAACACATACACG 59.364 34.615 0.00 0.00 37.46 4.49
2773 6285 1.279496 AGATCACAGCCTAGCCAACA 58.721 50.000 0.00 0.00 0.00 3.33
2777 6289 2.103771 TCATCAAGATCACAGCCTAGCC 59.896 50.000 0.00 0.00 0.00 3.93
2975 6488 1.202279 GCACACAATCACAGCACAACA 60.202 47.619 0.00 0.00 0.00 3.33
2987 6501 5.353938 GCATGAAGGAAATATGCACACAAT 58.646 37.500 0.00 0.00 44.88 2.71
3026 6540 3.066291 TGAAACACAGATATGGCGGTT 57.934 42.857 0.00 0.00 0.00 4.44
3033 6547 5.007039 GTGCGATCACATGAAACACAGATAT 59.993 40.000 0.00 0.00 42.66 1.63
3035 6549 3.125829 GTGCGATCACATGAAACACAGAT 59.874 43.478 0.00 0.00 42.66 2.90
3054 6568 7.220741 TCATCCTATCACAACTAGATAGTGC 57.779 40.000 0.00 0.00 42.06 4.40
3065 6579 5.607939 ACACCGTTATCATCCTATCACAA 57.392 39.130 0.00 0.00 0.00 3.33
3082 6596 3.176821 GTGCGATCACATGGAACACCG 62.177 57.143 0.00 0.00 42.66 4.94
3083 6597 0.447801 GTGCGATCACATGGAACACC 59.552 55.000 0.00 0.00 42.66 4.16
3084 6598 1.442769 AGTGCGATCACATGGAACAC 58.557 50.000 0.00 3.11 45.49 3.32
3085 6599 3.132824 AGATAGTGCGATCACATGGAACA 59.867 43.478 0.00 0.00 45.49 3.18
3086 6600 3.722147 AGATAGTGCGATCACATGGAAC 58.278 45.455 0.00 0.00 45.49 3.62
3087 6601 4.584743 ACTAGATAGTGCGATCACATGGAA 59.415 41.667 0.00 0.00 45.49 3.53
3088 6602 4.145052 ACTAGATAGTGCGATCACATGGA 58.855 43.478 0.00 0.00 45.49 3.41
3089 6603 4.511617 ACTAGATAGTGCGATCACATGG 57.488 45.455 0.00 0.00 45.49 3.66
3090 6604 5.174579 CACAACTAGATAGTGCGATCACATG 59.825 44.000 0.00 0.00 45.49 3.21
3091 6605 5.067805 TCACAACTAGATAGTGCGATCACAT 59.932 40.000 0.00 0.00 45.49 3.21
3092 6606 4.398044 TCACAACTAGATAGTGCGATCACA 59.602 41.667 0.00 0.00 45.49 3.58
3093 6607 4.921547 TCACAACTAGATAGTGCGATCAC 58.078 43.478 0.00 0.00 43.44 3.06
3094 6608 5.774498 ATCACAACTAGATAGTGCGATCA 57.226 39.130 0.00 0.00 36.50 2.92
3095 6609 6.149640 TCCTATCACAACTAGATAGTGCGATC 59.850 42.308 0.00 0.00 42.06 3.69
3096 6610 6.004574 TCCTATCACAACTAGATAGTGCGAT 58.995 40.000 0.00 0.05 42.06 4.58
3097 6611 5.374071 TCCTATCACAACTAGATAGTGCGA 58.626 41.667 0.00 0.00 42.06 5.10
3098 6612 5.690997 TCCTATCACAACTAGATAGTGCG 57.309 43.478 0.00 0.00 42.06 5.34
3099 6613 7.220741 TCATCCTATCACAACTAGATAGTGC 57.779 40.000 0.00 0.00 42.06 4.40
3102 6616 9.995957 CGTTATCATCCTATCACAACTAGATAG 57.004 37.037 0.00 0.00 42.84 2.08
3103 6617 8.957466 CCGTTATCATCCTATCACAACTAGATA 58.043 37.037 0.00 0.00 0.00 1.98
3104 6618 7.451877 ACCGTTATCATCCTATCACAACTAGAT 59.548 37.037 0.00 0.00 0.00 1.98
3105 6619 6.776116 ACCGTTATCATCCTATCACAACTAGA 59.224 38.462 0.00 0.00 0.00 2.43
3106 6620 6.863645 CACCGTTATCATCCTATCACAACTAG 59.136 42.308 0.00 0.00 0.00 2.57
3107 6621 6.322969 ACACCGTTATCATCCTATCACAACTA 59.677 38.462 0.00 0.00 0.00 2.24
3108 6622 5.128827 ACACCGTTATCATCCTATCACAACT 59.871 40.000 0.00 0.00 0.00 3.16
3109 6623 5.357257 ACACCGTTATCATCCTATCACAAC 58.643 41.667 0.00 0.00 0.00 3.32
3110 6624 5.607939 ACACCGTTATCATCCTATCACAA 57.392 39.130 0.00 0.00 0.00 3.33
3111 6625 5.607939 AACACCGTTATCATCCTATCACA 57.392 39.130 0.00 0.00 0.00 3.58
3112 6626 6.509656 TGTAACACCGTTATCATCCTATCAC 58.490 40.000 0.00 0.00 0.00 3.06
3113 6627 6.718522 TGTAACACCGTTATCATCCTATCA 57.281 37.500 0.00 0.00 0.00 2.15
3114 6628 7.360101 GCAATGTAACACCGTTATCATCCTATC 60.360 40.741 0.00 0.00 0.00 2.08
3115 6629 6.426937 GCAATGTAACACCGTTATCATCCTAT 59.573 38.462 0.00 0.00 0.00 2.57
3116 6630 5.756347 GCAATGTAACACCGTTATCATCCTA 59.244 40.000 0.00 0.00 0.00 2.94
3117 6631 4.574828 GCAATGTAACACCGTTATCATCCT 59.425 41.667 0.00 0.00 0.00 3.24
3118 6632 4.551990 CGCAATGTAACACCGTTATCATCC 60.552 45.833 0.00 0.00 0.00 3.51
3119 6633 4.033587 ACGCAATGTAACACCGTTATCATC 59.966 41.667 0.00 0.00 0.00 2.92
3120 6634 3.936453 ACGCAATGTAACACCGTTATCAT 59.064 39.130 0.00 0.00 0.00 2.45
3121 6635 3.123790 CACGCAATGTAACACCGTTATCA 59.876 43.478 0.00 0.00 0.00 2.15
3122 6636 3.368539 TCACGCAATGTAACACCGTTATC 59.631 43.478 0.00 0.00 0.00 1.75
3123 6637 3.327626 TCACGCAATGTAACACCGTTAT 58.672 40.909 0.00 0.00 0.00 1.89
3124 6638 2.752121 TCACGCAATGTAACACCGTTA 58.248 42.857 0.00 0.00 0.00 3.18
3153 6667 8.470805 ACACCATTGTCACAATAAACACTTTTA 58.529 29.630 1.72 0.00 0.00 1.52
3157 6671 6.463995 AACACCATTGTCACAATAAACACT 57.536 33.333 1.72 0.00 33.55 3.55
3158 6672 7.197017 TGTAACACCATTGTCACAATAAACAC 58.803 34.615 1.72 0.00 33.55 3.32
3159 6673 7.334844 TGTAACACCATTGTCACAATAAACA 57.665 32.000 1.72 0.00 33.55 2.83
3160 6674 8.698854 CAATGTAACACCATTGTCACAATAAAC 58.301 33.333 1.72 0.00 44.24 2.01
3161 6675 7.869937 CCAATGTAACACCATTGTCACAATAAA 59.130 33.333 1.72 0.00 46.61 1.40
3162 6676 7.014711 ACCAATGTAACACCATTGTCACAATAA 59.985 33.333 1.72 0.00 46.61 1.40
3163 6677 6.491745 ACCAATGTAACACCATTGTCACAATA 59.508 34.615 1.72 0.00 46.61 1.90
3164 6678 5.304101 ACCAATGTAACACCATTGTCACAAT 59.696 36.000 0.00 0.00 46.61 2.71
3165 6679 4.646945 ACCAATGTAACACCATTGTCACAA 59.353 37.500 11.62 0.00 46.61 3.33
3166 6680 4.211125 ACCAATGTAACACCATTGTCACA 58.789 39.130 11.62 0.00 46.61 3.58
3167 6681 4.846779 ACCAATGTAACACCATTGTCAC 57.153 40.909 11.62 0.00 46.61 3.67
3168 6682 5.626142 AGTACCAATGTAACACCATTGTCA 58.374 37.500 11.62 0.00 46.61 3.58
3169 6683 6.569179 AAGTACCAATGTAACACCATTGTC 57.431 37.500 11.62 4.07 46.61 3.18
3170 6684 6.969993 AAAGTACCAATGTAACACCATTGT 57.030 33.333 11.62 4.52 46.61 2.71
3172 6686 6.740122 GCCAAAAGTACCAATGTAACACCATT 60.740 38.462 0.00 0.00 35.45 3.16
3173 6687 5.279256 GCCAAAAGTACCAATGTAACACCAT 60.279 40.000 0.00 0.00 0.00 3.55
3174 6688 4.038162 GCCAAAAGTACCAATGTAACACCA 59.962 41.667 0.00 0.00 0.00 4.17
3175 6689 4.279922 AGCCAAAAGTACCAATGTAACACC 59.720 41.667 0.00 0.00 0.00 4.16
3176 6690 5.447624 AGCCAAAAGTACCAATGTAACAC 57.552 39.130 0.00 0.00 0.00 3.32
3177 6691 7.584122 TTTAGCCAAAAGTACCAATGTAACA 57.416 32.000 0.00 0.00 0.00 2.41
3178 6692 8.874744 TTTTTAGCCAAAAGTACCAATGTAAC 57.125 30.769 0.00 0.00 35.15 2.50
3200 6714 6.930731 AGGCGGTGTCATAATAAACATTTTT 58.069 32.000 0.00 0.00 0.00 1.94
3201 6715 6.524101 AGGCGGTGTCATAATAAACATTTT 57.476 33.333 0.00 0.00 0.00 1.82
3202 6716 6.524101 AAGGCGGTGTCATAATAAACATTT 57.476 33.333 0.00 0.00 0.00 2.32
3335 6920 2.093341 CCCCATCTTTCCATTTTGCAGG 60.093 50.000 0.00 0.00 0.00 4.85
3361 7757 1.206849 CAAACAGCAAACCACCCAAGT 59.793 47.619 0.00 0.00 0.00 3.16
3441 7837 0.593128 GTCAATTGCCAGCGAAGTGT 59.407 50.000 0.00 0.00 0.00 3.55
3450 7846 3.526931 TTTCAAAACCGTCAATTGCCA 57.473 38.095 0.00 0.00 0.00 4.92
3523 9031 5.875224 TGATGAATCAAACTAACCCTGACA 58.125 37.500 0.00 0.00 33.08 3.58
3570 9196 3.494048 GGAGTCCATTGATCGCTCATCTT 60.494 47.826 3.60 0.00 31.92 2.40
3616 9242 6.990349 CGTTGTTGATGGTCCTATAATAAGGT 59.010 38.462 0.00 0.00 37.91 3.50


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

AutoCloner maintained by Alex Coulton.