Multiple sequence alignment - TraesCS1D01G173700

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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 TraesCS1D01G173700 chr1D 100.000 3620 0 0 1 3620 247310820 247307201 0.000000e+00 6685.0
1 TraesCS1D01G173700 chr1D 98.851 87 1 0 3241 3327 247307494 247307580 4.840000e-34 156.0
2 TraesCS1D01G173700 chr1D 91.176 102 7 2 3228 3328 5075810 5075910 1.750000e-28 137.0
3 TraesCS1D01G173700 chr1A 90.707 1442 64 21 681 2072 300100487 300101908 0.000000e+00 1857.0
4 TraesCS1D01G173700 chr1A 88.567 1207 60 31 2073 3259 300101943 300103091 0.000000e+00 1393.0
5 TraesCS1D01G173700 chr1A 90.566 636 46 8 66 695 300099842 300100469 0.000000e+00 830.0
6 TraesCS1D01G173700 chr1A 92.632 285 7 5 3309 3592 300103200 300103471 7.280000e-107 398.0
7 TraesCS1D01G173700 chr1B 90.890 1427 55 35 697 2085 330498746 330500135 0.000000e+00 1845.0
8 TraesCS1D01G173700 chr1B 91.924 1003 42 17 2073 3057 330500155 330501136 0.000000e+00 1367.0
9 TraesCS1D01G173700 chr1B 90.206 388 30 6 177 557 330497634 330498020 1.940000e-137 499.0
10 TraesCS1D01G173700 chr1B 89.163 203 12 6 3407 3605 330501335 330501531 1.000000e-60 244.0
11 TraesCS1D01G173700 chr1B 93.506 154 10 0 16 169 330480183 330480336 2.810000e-56 230.0
12 TraesCS1D01G173700 chr1B 88.028 142 11 2 552 693 330498457 330498592 2.890000e-36 163.0
13 TraesCS1D01G173700 chr1B 95.918 49 1 1 3359 3407 330501252 330501299 1.080000e-10 78.7
14 TraesCS1D01G173700 chr7D 78.313 249 46 7 1 247 101742592 101742834 1.740000e-33 154.0
15 TraesCS1D01G173700 chr4D 91.589 107 7 2 3240 3345 5081662 5081557 2.910000e-31 147.0
16 TraesCS1D01G173700 chr4D 92.157 102 7 1 3228 3328 65559653 65559754 3.770000e-30 143.0
17 TraesCS1D01G173700 chr4D 91.176 102 7 2 3228 3328 494781687 494781787 1.750000e-28 137.0
18 TraesCS1D01G173700 chr5D 92.157 102 6 2 3228 3328 184636579 184636679 3.770000e-30 143.0
19 TraesCS1D01G173700 chr5D 87.097 62 2 3 2941 3000 278272976 278272919 8.390000e-07 65.8
20 TraesCS1D01G173700 chr2A 91.262 103 7 2 3241 3342 385904615 385904514 4.870000e-29 139.0
21 TraesCS1D01G173700 chr2A 97.222 36 1 0 2965 3000 18322518 18322483 1.090000e-05 62.1
22 TraesCS1D01G173700 chr6D 91.176 102 7 2 3228 3328 246109258 246109158 1.750000e-28 137.0
23 TraesCS1D01G173700 chr6D 91.176 102 7 2 3228 3328 333950618 333950518 1.750000e-28 137.0
24 TraesCS1D01G173700 chr4A 87.500 64 3 2 2939 3001 514080010 514080069 6.490000e-08 69.4
25 TraesCS1D01G173700 chr2D 87.500 64 3 2 2940 3002 410600672 410600731 6.490000e-08 69.4
26 TraesCS1D01G173700 chr2D 97.143 35 1 0 2965 2999 293659708 293659742 3.900000e-05 60.2
27 TraesCS1D01G173700 chr2D 85.246 61 3 3 2941 3000 443243841 443243896 1.400000e-04 58.4
28 TraesCS1D01G173700 chr7A 85.938 64 4 2 2938 3000 421785161 421785102 3.020000e-06 63.9
29 TraesCS1D01G173700 chr2B 94.737 38 2 0 2965 3002 660464154 660464191 3.900000e-05 60.2
30 TraesCS1D01G173700 chr6A 90.698 43 4 0 2968 3010 135405907 135405865 1.400000e-04 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 TraesCS1D01G173700 chr1D 247307201 247310820 3619 True 6685.00 6685 100.0000 1 3620 1 chr1D.!!$R1 3619
1 TraesCS1D01G173700 chr1A 300099842 300103471 3629 False 1119.50 1857 90.6180 66 3592 4 chr1A.!!$F1 3526
2 TraesCS1D01G173700 chr1B 330497634 330501531 3897 False 699.45 1845 91.0215 177 3605 6 chr1B.!!$F2 3428

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
478 486 1.241165 GTTTACCCCCAGGAAACGTG 58.759 55.0 0.00 0.0 36.73 4.49 F
1216 1851 0.326264 GGGGTCAGTTGCTGATCTGT 59.674 55.0 8.98 0.0 42.73 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1307 1942 0.460284 CGAGGAAATCTCCCACCGTG 60.460 60.0 0.0 0.00 43.64 4.94 R
3107 3833 0.243365 CGCTATCTAGAGCCAGGCAG 59.757 60.0 15.8 1.96 39.43 4.85 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
18 19 4.717313 GTTCGGCCCTCACACCCC 62.717 72.222 0.00 0.00 0.00 4.95
19 20 4.974438 TTCGGCCCTCACACCCCT 62.974 66.667 0.00 0.00 0.00 4.79
24 25 3.077556 CCCTCACACCCCTCCGAG 61.078 72.222 0.00 0.00 0.00 4.63
25 26 3.775654 CCTCACACCCCTCCGAGC 61.776 72.222 0.00 0.00 0.00 5.03
26 27 4.135153 CTCACACCCCTCCGAGCG 62.135 72.222 0.00 0.00 0.00 5.03
27 28 4.671590 TCACACCCCTCCGAGCGA 62.672 66.667 0.00 0.00 0.00 4.93
28 29 3.691342 CACACCCCTCCGAGCGAA 61.691 66.667 0.00 0.00 0.00 4.70
29 30 3.692406 ACACCCCTCCGAGCGAAC 61.692 66.667 0.00 0.00 0.00 3.95
30 31 3.382832 CACCCCTCCGAGCGAACT 61.383 66.667 0.00 0.00 0.00 3.01
31 32 2.050350 CACCCCTCCGAGCGAACTA 61.050 63.158 0.00 0.00 0.00 2.24
32 33 2.050934 ACCCCTCCGAGCGAACTAC 61.051 63.158 0.00 0.00 0.00 2.73
33 34 2.408022 CCCTCCGAGCGAACTACG 59.592 66.667 0.00 0.00 45.66 3.51
34 35 2.110967 CCCTCCGAGCGAACTACGA 61.111 63.158 0.00 0.00 45.77 3.43
35 36 1.352404 CCTCCGAGCGAACTACGAG 59.648 63.158 0.00 0.00 45.77 4.18
36 37 1.297745 CTCCGAGCGAACTACGAGC 60.298 63.158 0.00 0.00 45.77 5.03
37 38 2.278013 CCGAGCGAACTACGAGCC 60.278 66.667 0.00 0.00 45.77 4.70
38 39 2.648102 CGAGCGAACTACGAGCCG 60.648 66.667 0.00 0.00 45.77 5.52
39 40 2.789917 GAGCGAACTACGAGCCGA 59.210 61.111 1.50 0.00 45.77 5.54
40 41 1.583194 GAGCGAACTACGAGCCGAC 60.583 63.158 1.50 0.00 45.77 4.79
41 42 2.943034 GCGAACTACGAGCCGACG 60.943 66.667 1.50 0.00 45.77 5.12
42 43 2.277120 CGAACTACGAGCCGACGG 60.277 66.667 10.29 10.29 45.77 4.79
87 88 2.476854 GGCAATCTCAGCGAACACATTC 60.477 50.000 0.00 0.00 0.00 2.67
121 123 8.694394 CAATTTCTGTTTTTAGAGCTTGCTAAC 58.306 33.333 0.00 0.00 30.53 2.34
125 127 7.639945 TCTGTTTTTAGAGCTTGCTAACTTTC 58.360 34.615 0.00 0.00 30.53 2.62
126 128 7.282224 TCTGTTTTTAGAGCTTGCTAACTTTCA 59.718 33.333 0.00 0.00 30.53 2.69
127 129 7.193595 TGTTTTTAGAGCTTGCTAACTTTCAC 58.806 34.615 0.00 0.00 30.53 3.18
133 137 6.499172 AGAGCTTGCTAACTTTCACTTTTTC 58.501 36.000 0.00 0.00 0.00 2.29
136 140 4.929819 TGCTAACTTTCACTTTTTCCCC 57.070 40.909 0.00 0.00 0.00 4.81
146 150 4.462133 TCACTTTTTCCCCGTTGATGTAA 58.538 39.130 0.00 0.00 0.00 2.41
150 154 4.775058 TTTTCCCCGTTGATGTAACATG 57.225 40.909 0.00 0.00 39.30 3.21
168 172 5.130292 ACATGACAATTTCCTTCAGCAAG 57.870 39.130 0.00 0.00 0.00 4.01
169 173 3.648339 TGACAATTTCCTTCAGCAAGC 57.352 42.857 0.00 0.00 0.00 4.01
170 174 2.957680 TGACAATTTCCTTCAGCAAGCA 59.042 40.909 0.00 0.00 0.00 3.91
171 175 3.384146 TGACAATTTCCTTCAGCAAGCAA 59.616 39.130 0.00 0.00 0.00 3.91
258 262 9.726232 CATGTTGTAATTATGACAAATCTCTGG 57.274 33.333 0.00 0.00 38.48 3.86
342 349 9.474313 ACATGGTAAATCCTTATACAACAACAT 57.526 29.630 0.00 0.00 37.07 2.71
343 350 9.734620 CATGGTAAATCCTTATACAACAACATG 57.265 33.333 0.00 0.00 37.07 3.21
344 351 8.287439 TGGTAAATCCTTATACAACAACATGG 57.713 34.615 0.00 0.00 37.07 3.66
361 368 8.916628 ACAACATGGCAAATTAACCTATTTTT 57.083 26.923 0.00 0.00 0.00 1.94
370 377 7.619161 GCAAATTAACCTATTTTTGCGTGACAG 60.619 37.037 6.27 0.00 42.89 3.51
378 385 4.948608 TTTTTGCGTGACAGTTCTGTAA 57.051 36.364 5.40 0.00 0.00 2.41
433 441 4.841443 AACAATTTGTTCGTTCCTACCC 57.159 40.909 8.97 0.00 35.27 3.69
478 486 1.241165 GTTTACCCCCAGGAAACGTG 58.759 55.000 0.00 0.00 36.73 4.49
505 513 9.454585 GTATGTGTATTGACATCCATCATTTTG 57.545 33.333 0.00 0.00 38.04 2.44
506 514 6.331845 TGTGTATTGACATCCATCATTTTGC 58.668 36.000 0.00 0.00 38.04 3.68
512 524 6.151663 TGACATCCATCATTTTGCTAATGG 57.848 37.500 10.78 2.90 40.05 3.16
515 527 7.341512 TGACATCCATCATTTTGCTAATGGTAA 59.658 33.333 10.78 0.00 39.73 2.85
525 537 9.868277 CATTTTGCTAATGGTAAAAAGGATACA 57.132 29.630 0.00 0.00 41.38 2.29
573 1027 7.419711 TCCTATAAGTAGTTGGAGGACTTTG 57.580 40.000 9.78 0.00 35.17 2.77
654 1108 5.028802 TCCAAAGCCATAATGATTGGGAAA 58.971 37.500 3.28 0.00 40.69 3.13
655 1109 5.486775 TCCAAAGCCATAATGATTGGGAAAA 59.513 36.000 3.28 0.00 40.69 2.29
656 1110 6.013032 TCCAAAGCCATAATGATTGGGAAAAA 60.013 34.615 3.28 0.00 40.69 1.94
695 1149 7.529158 TCAATTCATTGTGCTACACATTACTG 58.471 34.615 0.57 0.00 44.16 2.74
706 1310 7.119262 GTGCTACACATTACTGGTGAATACTTT 59.881 37.037 0.00 0.00 39.53 2.66
793 1398 5.668558 TTAGTTTCGCTCCAAGAAAACTC 57.331 39.130 2.88 0.00 39.03 3.01
795 1400 3.561725 AGTTTCGCTCCAAGAAAACTCAG 59.438 43.478 0.00 0.00 39.03 3.35
800 1405 2.880890 GCTCCAAGAAAACTCAGCTTCA 59.119 45.455 0.00 0.00 0.00 3.02
870 1498 2.187163 GCCAGAGGTAGCCCGAAC 59.813 66.667 0.00 0.00 35.12 3.95
871 1499 2.656069 GCCAGAGGTAGCCCGAACA 61.656 63.158 0.00 0.00 35.12 3.18
872 1500 1.517832 CCAGAGGTAGCCCGAACAG 59.482 63.158 0.00 0.00 35.12 3.16
874 1502 2.202756 GAGGTAGCCCGAACAGCG 60.203 66.667 0.00 0.00 40.47 5.18
875 1503 2.678934 AGGTAGCCCGAACAGCGA 60.679 61.111 0.00 0.00 44.57 4.93
876 1504 2.202756 GGTAGCCCGAACAGCGAG 60.203 66.667 0.00 0.00 44.57 5.03
877 1505 2.202756 GTAGCCCGAACAGCGAGG 60.203 66.667 0.00 0.00 44.57 4.63
878 1506 2.361992 TAGCCCGAACAGCGAGGA 60.362 61.111 0.00 0.00 44.57 3.71
879 1507 2.707849 TAGCCCGAACAGCGAGGAC 61.708 63.158 0.00 0.00 44.57 3.85
937 1568 3.673594 CGTCGAGTCAGATTAACCAAGCT 60.674 47.826 0.00 0.00 0.00 3.74
1011 1642 1.729470 GAGAAGCGATGGCGAGGAGA 61.729 60.000 0.00 0.00 46.35 3.71
1091 1722 0.683504 GTCGGTAAGCTCCTCCCTCA 60.684 60.000 0.00 0.00 0.00 3.86
1155 1790 1.447140 CCGGTCCGATTTCGCTTCA 60.447 57.895 14.39 0.00 38.18 3.02
1158 1793 1.722011 GGTCCGATTTCGCTTCAAGA 58.278 50.000 0.00 0.00 38.18 3.02
1159 1794 1.661112 GGTCCGATTTCGCTTCAAGAG 59.339 52.381 0.00 0.00 38.18 2.85
1170 1805 3.882888 TCGCTTCAAGAGTTTGGTCAAAT 59.117 39.130 0.00 0.00 34.97 2.32
1180 1815 4.359706 AGTTTGGTCAAATTTCGTTCAGC 58.640 39.130 0.00 0.00 32.36 4.26
1181 1816 4.109050 GTTTGGTCAAATTTCGTTCAGCA 58.891 39.130 0.00 0.00 32.36 4.41
1185 1820 3.042887 GTCAAATTTCGTTCAGCACCAC 58.957 45.455 0.00 0.00 0.00 4.16
1188 1823 1.808411 ATTTCGTTCAGCACCACGAT 58.192 45.000 5.28 0.00 44.52 3.73
1216 1851 0.326264 GGGGTCAGTTGCTGATCTGT 59.674 55.000 8.98 0.00 42.73 3.41
1220 1855 2.289320 GGTCAGTTGCTGATCTGTGACT 60.289 50.000 15.76 10.67 42.73 3.41
1262 1897 2.827190 ATGTGGGCGCATGAGCTG 60.827 61.111 21.06 0.00 39.10 4.24
1263 1898 3.633609 ATGTGGGCGCATGAGCTGT 62.634 57.895 21.06 0.55 39.10 4.40
1264 1899 3.807538 GTGGGCGCATGAGCTGTG 61.808 66.667 21.06 0.00 39.10 3.66
1283 1918 2.080693 TGCTCATTATTCGGTTGCGTT 58.919 42.857 0.00 0.00 0.00 4.84
1307 1942 4.947388 TGGTAGGAAATCTTGTTGTATGCC 59.053 41.667 0.00 0.00 0.00 4.40
1309 1944 5.163652 GGTAGGAAATCTTGTTGTATGCCAC 60.164 44.000 0.00 0.00 0.00 5.01
1310 1945 3.440173 AGGAAATCTTGTTGTATGCCACG 59.560 43.478 0.00 0.00 0.00 4.94
1313 1948 1.518325 TCTTGTTGTATGCCACGGTG 58.482 50.000 0.00 0.00 0.00 4.94
1456 2091 0.254747 TGGTTAGGAATTCGGGCCAG 59.745 55.000 4.39 0.00 0.00 4.85
1457 2092 0.255033 GGTTAGGAATTCGGGCCAGT 59.745 55.000 4.39 0.00 0.00 4.00
1458 2093 1.379527 GTTAGGAATTCGGGCCAGTG 58.620 55.000 4.39 0.00 0.00 3.66
1513 2165 7.955864 GGTTACTTTTTGACGAGTAATGCTAAG 59.044 37.037 0.00 0.00 39.67 2.18
1534 2186 4.517285 AGGTGAAATGCGTGACAGATTAT 58.483 39.130 0.00 0.00 0.00 1.28
1769 2424 4.557296 GCTGTTTCTGCTGAACAATTAGCA 60.557 41.667 5.41 0.93 46.79 3.49
1788 2443 3.647113 AGCACTCTTATGGATGCTCTCAT 59.353 43.478 0.00 0.00 45.11 2.90
1790 2445 4.820716 GCACTCTTATGGATGCTCTCATTT 59.179 41.667 0.00 0.00 35.16 2.32
1949 2604 6.149308 TGCTGGCGTAGGATATGAAATTAATG 59.851 38.462 0.00 0.00 0.00 1.90
1972 2627 5.189342 TGTCATGGAATTAATGGGCATGTTT 59.811 36.000 0.00 0.00 0.00 2.83
2102 2796 9.559958 CCATACTTGATGTGTTAATTCAGAAAC 57.440 33.333 0.00 0.00 33.19 2.78
2130 2824 8.893727 ACTAGTTTATATGGTGCTCAAAATCAC 58.106 33.333 0.00 0.00 0.00 3.06
2139 2833 7.759489 TGGTGCTCAAAATCACTAAATTAGT 57.241 32.000 0.00 0.00 40.28 2.24
2205 2900 0.042431 ATCTCTCCACCTCAGCCACT 59.958 55.000 0.00 0.00 0.00 4.00
2206 2901 0.613292 TCTCTCCACCTCAGCCACTC 60.613 60.000 0.00 0.00 0.00 3.51
2268 2964 7.298122 CGCAAGTCAACAGTTAGTATTTGAAT 58.702 34.615 0.00 0.00 30.00 2.57
2441 3142 9.749490 CTGCATTGTTTTAGCTGATTTAATTTG 57.251 29.630 0.00 0.00 0.00 2.32
2498 3199 2.972625 TCACCGGTGTGATCTGATTTC 58.027 47.619 32.74 0.00 46.40 2.17
2541 3242 3.258123 TGAAGATCAGACACATCGGACAA 59.742 43.478 0.00 0.00 31.41 3.18
2578 3279 0.035820 TGCGGTATTCGGGCTTTTCT 60.036 50.000 0.00 0.00 39.69 2.52
2592 3293 1.074566 CTTTTCTTGGGAGCTGGGAGT 59.925 52.381 0.00 0.00 0.00 3.85
2604 3305 1.740025 GCTGGGAGTTTGATACACTGC 59.260 52.381 0.00 0.00 32.04 4.40
2620 3321 4.648651 ACACTGCGGGAAAAATTACTAGT 58.351 39.130 0.00 0.00 0.00 2.57
2623 3324 5.411669 CACTGCGGGAAAAATTACTAGTTCT 59.588 40.000 0.00 0.00 0.00 3.01
2867 3568 8.332464 TGTATTAAAGTCACTTTGTCGTTCTTG 58.668 33.333 13.39 0.00 35.21 3.02
2868 3569 6.971527 TTAAAGTCACTTTGTCGTTCTTGA 57.028 33.333 13.39 0.00 35.21 3.02
2895 3606 6.581171 AAGATTTTCTCCTGACATTGAACC 57.419 37.500 0.00 0.00 0.00 3.62
3033 3745 8.519799 AAACACTAAAACATGTATATGGAGGG 57.480 34.615 0.00 0.00 38.66 4.30
3034 3746 7.446106 ACACTAAAACATGTATATGGAGGGA 57.554 36.000 0.00 0.00 38.66 4.20
3035 3747 7.509546 ACACTAAAACATGTATATGGAGGGAG 58.490 38.462 0.00 0.00 38.66 4.30
3036 3748 7.127339 ACACTAAAACATGTATATGGAGGGAGT 59.873 37.037 0.00 0.00 38.66 3.85
3037 3749 8.647796 CACTAAAACATGTATATGGAGGGAGTA 58.352 37.037 0.00 0.00 38.66 2.59
3038 3750 8.648693 ACTAAAACATGTATATGGAGGGAGTAC 58.351 37.037 0.00 0.00 38.66 2.73
3077 3803 5.893824 AGTTTTGGAAAGAGACCAGTTGAAT 59.106 36.000 0.00 0.00 38.70 2.57
3089 3815 3.701040 ACCAGTTGAATGTGCAAGTTCTT 59.299 39.130 12.06 0.00 29.28 2.52
3090 3816 4.160252 ACCAGTTGAATGTGCAAGTTCTTT 59.840 37.500 12.06 0.00 29.28 2.52
3091 3817 4.505191 CCAGTTGAATGTGCAAGTTCTTTG 59.495 41.667 12.06 8.23 39.88 2.77
3092 3818 5.104374 CAGTTGAATGTGCAAGTTCTTTGT 58.896 37.500 12.06 0.00 39.08 2.83
3093 3819 5.577945 CAGTTGAATGTGCAAGTTCTTTGTT 59.422 36.000 12.06 0.00 39.08 2.83
3094 3820 5.807011 AGTTGAATGTGCAAGTTCTTTGTTC 59.193 36.000 12.06 0.00 39.08 3.18
3095 3821 5.321959 TGAATGTGCAAGTTCTTTGTTCA 57.678 34.783 12.06 0.00 39.08 3.18
3096 3822 5.342433 TGAATGTGCAAGTTCTTTGTTCAG 58.658 37.500 12.06 0.00 39.08 3.02
3097 3823 3.149436 TGTGCAAGTTCTTTGTTCAGC 57.851 42.857 0.00 0.00 39.08 4.26
3098 3824 2.159254 TGTGCAAGTTCTTTGTTCAGCC 60.159 45.455 0.00 0.00 39.08 4.85
3099 3825 2.099756 GTGCAAGTTCTTTGTTCAGCCT 59.900 45.455 0.00 0.00 39.08 4.58
3100 3826 2.760092 TGCAAGTTCTTTGTTCAGCCTT 59.240 40.909 0.00 0.00 39.08 4.35
3101 3827 3.181487 TGCAAGTTCTTTGTTCAGCCTTC 60.181 43.478 0.00 0.00 39.08 3.46
3102 3828 3.181487 GCAAGTTCTTTGTTCAGCCTTCA 60.181 43.478 0.00 0.00 39.08 3.02
3103 3829 4.604976 CAAGTTCTTTGTTCAGCCTTCAG 58.395 43.478 0.00 0.00 31.92 3.02
3104 3830 2.620585 AGTTCTTTGTTCAGCCTTCAGC 59.379 45.455 0.00 0.00 44.25 4.26
3178 3904 3.554692 CCGCGCGCCTTGTTCTAG 61.555 66.667 27.36 7.77 0.00 2.43
3179 3905 2.506217 CGCGCGCCTTGTTCTAGA 60.506 61.111 27.72 0.00 0.00 2.43
3180 3906 2.508891 CGCGCGCCTTGTTCTAGAG 61.509 63.158 27.72 2.11 0.00 2.43
3181 3907 2.167861 GCGCGCCTTGTTCTAGAGG 61.168 63.158 23.24 0.00 36.09 3.69
3187 3913 1.280457 CCTTGTTCTAGAGGCCTGGT 58.720 55.000 12.00 0.00 0.00 4.00
3188 3914 1.630878 CCTTGTTCTAGAGGCCTGGTT 59.369 52.381 12.00 0.00 0.00 3.67
3189 3915 2.355209 CCTTGTTCTAGAGGCCTGGTTC 60.355 54.545 12.00 0.00 0.00 3.62
3190 3916 2.327325 TGTTCTAGAGGCCTGGTTCT 57.673 50.000 12.00 3.03 0.00 3.01
3197 3923 2.868899 AGAGGCCTGGTTCTTCTTTTG 58.131 47.619 12.00 0.00 0.00 2.44
3218 3944 9.620660 CTTTTGAACTTTGGCGTTTACTTATAT 57.379 29.630 0.00 0.00 0.00 0.86
3258 3986 3.071167 GCTATACTCCCTCCGTTCCAAAT 59.929 47.826 0.00 0.00 0.00 2.32
3261 3989 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
3263 3991 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
3267 3995 3.581755 CTCCGTTCCAAATTACTCGTCA 58.418 45.455 0.00 0.00 0.00 4.35
3270 3998 4.390603 TCCGTTCCAAATTACTCGTCATTG 59.609 41.667 0.00 0.00 0.00 2.82
3274 4002 6.635239 CGTTCCAAATTACTCGTCATTGTTTT 59.365 34.615 0.00 0.00 0.00 2.43
3276 4004 9.113876 GTTCCAAATTACTCGTCATTGTTTTAG 57.886 33.333 0.00 0.00 0.00 1.85
3286 4014 9.581099 ACTCGTCATTGTTTTAGTTCAAAATTT 57.419 25.926 0.00 0.00 38.36 1.82
3287 4015 9.833894 CTCGTCATTGTTTTAGTTCAAAATTTG 57.166 29.630 0.00 0.00 38.36 2.32
3288 4016 9.574458 TCGTCATTGTTTTAGTTCAAAATTTGA 57.426 25.926 4.03 4.03 38.36 2.69
3305 4094 9.833894 CAAAATTTGAACTAAAACAATGACGAG 57.166 29.630 0.00 0.00 0.00 4.18
3330 4119 1.263356 TGGAACGGAGGGAGTACAAG 58.737 55.000 0.00 0.00 0.00 3.16
3338 4127 0.790993 AGGGAGTACAAGACAGGGGA 59.209 55.000 0.00 0.00 0.00 4.81
3403 4192 1.247567 CTTCCGGGACACAATGCTTT 58.752 50.000 0.00 0.00 0.00 3.51
3410 4234 2.228822 GGGACACAATGCTTTGATCGTT 59.771 45.455 18.35 0.00 36.64 3.85
3461 4285 2.496899 TCTGAGGGGTTCAAGATTGC 57.503 50.000 0.00 0.00 34.81 3.56
3526 4350 3.752412 TTTCAGATCATTCGCAAGCTG 57.248 42.857 0.00 0.00 37.18 4.24
3598 4425 3.585862 TGTTCCACATAGAAGTTCGAGC 58.414 45.455 0.00 0.00 0.00 5.03
3605 4432 2.558554 TAGAAGTTCGAGCCCGCAGC 62.559 60.000 0.00 0.00 44.25 5.25
3617 4444 3.115892 CGCAGCGAACGCCCTTTA 61.116 61.111 9.98 0.00 43.17 1.85
3618 4445 2.673114 CGCAGCGAACGCCCTTTAA 61.673 57.895 9.98 0.00 43.17 1.52
3619 4446 1.134694 GCAGCGAACGCCCTTTAAG 59.865 57.895 15.44 0.00 43.17 1.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 4.717313 GGGGTGTGAGGGCCGAAC 62.717 72.222 0.00 0.52 0.00 3.95
2 3 4.974438 AGGGGTGTGAGGGCCGAA 62.974 66.667 0.00 0.00 0.00 4.30
7 8 3.077556 CTCGGAGGGGTGTGAGGG 61.078 72.222 0.00 0.00 0.00 4.30
8 9 3.775654 GCTCGGAGGGGTGTGAGG 61.776 72.222 7.20 0.00 0.00 3.86
9 10 4.135153 CGCTCGGAGGGGTGTGAG 62.135 72.222 13.81 0.00 0.00 3.51
10 11 4.671590 TCGCTCGGAGGGGTGTGA 62.672 66.667 20.27 0.00 0.00 3.58
11 12 3.691342 TTCGCTCGGAGGGGTGTG 61.691 66.667 20.27 0.00 0.00 3.82
12 13 2.776370 TAGTTCGCTCGGAGGGGTGT 62.776 60.000 20.27 8.71 0.00 4.16
13 14 2.050350 TAGTTCGCTCGGAGGGGTG 61.050 63.158 20.27 0.00 0.00 4.61
14 15 2.050934 GTAGTTCGCTCGGAGGGGT 61.051 63.158 20.27 9.33 0.00 4.95
15 16 2.806237 GTAGTTCGCTCGGAGGGG 59.194 66.667 20.27 4.08 0.00 4.79
16 17 2.049475 CTCGTAGTTCGCTCGGAGGG 62.049 65.000 15.31 15.31 39.67 4.30
17 18 1.352404 CTCGTAGTTCGCTCGGAGG 59.648 63.158 7.20 0.00 39.67 4.30
18 19 1.297745 GCTCGTAGTTCGCTCGGAG 60.298 63.158 0.00 0.00 39.67 4.63
19 20 2.758089 GGCTCGTAGTTCGCTCGGA 61.758 63.158 0.00 0.00 39.67 4.55
20 21 2.278013 GGCTCGTAGTTCGCTCGG 60.278 66.667 0.00 0.00 39.67 4.63
21 22 2.648102 CGGCTCGTAGTTCGCTCG 60.648 66.667 0.00 0.00 39.67 5.03
22 23 1.583194 GTCGGCTCGTAGTTCGCTC 60.583 63.158 0.00 0.00 39.67 5.03
23 24 2.484203 GTCGGCTCGTAGTTCGCT 59.516 61.111 0.00 0.00 39.67 4.93
24 25 2.943034 CGTCGGCTCGTAGTTCGC 60.943 66.667 0.00 0.00 39.67 4.70
25 26 2.277120 CCGTCGGCTCGTAGTTCG 60.277 66.667 0.00 0.00 41.41 3.95
26 27 2.578981 GCCGTCGGCTCGTAGTTC 60.579 66.667 28.98 0.00 46.69 3.01
43 44 5.507482 CCATCCTGAGCAAAGCATTCTTATG 60.507 44.000 0.00 0.00 34.76 1.90
44 45 4.583489 CCATCCTGAGCAAAGCATTCTTAT 59.417 41.667 0.00 0.00 31.02 1.73
45 46 3.949754 CCATCCTGAGCAAAGCATTCTTA 59.050 43.478 0.00 0.00 31.02 2.10
46 47 2.758979 CCATCCTGAGCAAAGCATTCTT 59.241 45.455 0.00 0.00 0.00 2.52
47 48 2.376109 CCATCCTGAGCAAAGCATTCT 58.624 47.619 0.00 0.00 0.00 2.40
48 49 1.202382 GCCATCCTGAGCAAAGCATTC 60.202 52.381 0.00 0.00 0.00 2.67
49 50 0.822164 GCCATCCTGAGCAAAGCATT 59.178 50.000 0.00 0.00 0.00 3.56
50 51 0.323999 TGCCATCCTGAGCAAAGCAT 60.324 50.000 0.00 0.00 35.69 3.79
51 52 0.540133 TTGCCATCCTGAGCAAAGCA 60.540 50.000 0.00 0.00 45.51 3.91
52 53 2.269978 TTGCCATCCTGAGCAAAGC 58.730 52.632 0.00 0.00 45.51 3.51
56 57 0.913924 TGAGATTGCCATCCTGAGCA 59.086 50.000 0.00 0.00 37.18 4.26
57 58 1.595466 CTGAGATTGCCATCCTGAGC 58.405 55.000 0.00 0.00 0.00 4.26
58 59 1.595466 GCTGAGATTGCCATCCTGAG 58.405 55.000 0.00 0.00 0.00 3.35
59 60 0.179065 CGCTGAGATTGCCATCCTGA 60.179 55.000 0.00 0.00 0.00 3.86
60 61 0.179065 TCGCTGAGATTGCCATCCTG 60.179 55.000 0.00 0.00 0.00 3.86
61 62 0.543277 TTCGCTGAGATTGCCATCCT 59.457 50.000 0.00 0.00 0.00 3.24
62 63 0.659957 GTTCGCTGAGATTGCCATCC 59.340 55.000 0.00 0.00 0.00 3.51
63 64 1.063174 GTGTTCGCTGAGATTGCCATC 59.937 52.381 0.00 0.00 0.00 3.51
64 65 1.089920 GTGTTCGCTGAGATTGCCAT 58.910 50.000 0.00 0.00 0.00 4.40
87 88 6.908825 TCTAAAAACAGAAATTGTCATCCCG 58.091 36.000 0.00 0.00 39.73 5.14
88 89 6.808704 GCTCTAAAAACAGAAATTGTCATCCC 59.191 38.462 0.00 0.00 39.73 3.85
89 90 7.597386 AGCTCTAAAAACAGAAATTGTCATCC 58.403 34.615 0.00 0.00 39.73 3.51
121 123 4.202111 ACATCAACGGGGAAAAAGTGAAAG 60.202 41.667 0.00 0.00 0.00 2.62
125 127 4.036971 TGTTACATCAACGGGGAAAAAGTG 59.963 41.667 0.00 0.00 40.26 3.16
126 128 4.208746 TGTTACATCAACGGGGAAAAAGT 58.791 39.130 0.00 0.00 40.26 2.66
127 129 4.839668 TGTTACATCAACGGGGAAAAAG 57.160 40.909 0.00 0.00 40.26 2.27
133 137 2.705730 TGTCATGTTACATCAACGGGG 58.294 47.619 0.00 0.00 40.26 5.73
136 140 6.611381 AGGAAATTGTCATGTTACATCAACG 58.389 36.000 0.00 0.00 40.26 4.10
146 150 4.560108 GCTTGCTGAAGGAAATTGTCATGT 60.560 41.667 0.00 0.00 0.00 3.21
150 154 3.648339 TGCTTGCTGAAGGAAATTGTC 57.352 42.857 0.00 0.00 0.00 3.18
168 172 4.582869 TGATCAGGATATGCCATACTTGC 58.417 43.478 0.00 0.00 40.02 4.01
169 173 6.315642 GTCATGATCAGGATATGCCATACTTG 59.684 42.308 13.94 0.00 40.02 3.16
170 174 6.013119 TGTCATGATCAGGATATGCCATACTT 60.013 38.462 13.94 0.00 40.02 2.24
171 175 5.486419 TGTCATGATCAGGATATGCCATACT 59.514 40.000 13.94 0.00 40.02 2.12
220 224 0.527565 ACAACATGGAGAATTGCCGC 59.472 50.000 0.00 0.00 0.00 6.53
258 262 4.619973 TGTCACAAAACTGCCATCATTTC 58.380 39.130 0.00 0.00 0.00 2.17
321 328 7.767261 TGCCATGTTGTTGTATAAGGATTTAC 58.233 34.615 0.00 0.00 0.00 2.01
361 368 2.588027 TGTTACAGAACTGTCACGCA 57.412 45.000 10.81 4.20 43.74 5.24
364 371 3.493129 TGCGAATGTTACAGAACTGTCAC 59.507 43.478 10.81 10.92 43.74 3.67
370 377 4.090642 CACTCTCTGCGAATGTTACAGAAC 59.909 45.833 0.00 0.00 39.79 3.01
433 441 4.722700 CTGTGGTTCCCCCAGCCG 62.723 72.222 0.00 0.00 46.45 5.52
446 454 1.265905 GGGTAAACCAAGCGAACTGTG 59.734 52.381 0.81 0.00 39.85 3.66
449 457 0.251033 GGGGGTAAACCAAGCGAACT 60.251 55.000 0.81 0.00 42.91 3.01
478 486 7.750229 AATGATGGATGTCAATACACATACC 57.250 36.000 0.00 0.00 36.85 2.73
512 524 8.915654 CAGACTGCATTTTTGTATCCTTTTTAC 58.084 33.333 0.00 0.00 0.00 2.01
515 527 7.054491 ACAGACTGCATTTTTGTATCCTTTT 57.946 32.000 1.25 0.00 0.00 2.27
525 537 7.977853 GGATTTCATATGACAGACTGCATTTTT 59.022 33.333 4.48 2.58 0.00 1.94
625 1079 8.814931 CCCAATCATTATGGCTTTGGATTTATA 58.185 33.333 17.62 0.00 39.33 0.98
655 1109 9.603921 ACAATGAATTGAAACTTGTCTCATTTT 57.396 25.926 9.94 0.00 40.14 1.82
656 1110 9.037737 CACAATGAATTGAAACTTGTCTCATTT 57.962 29.630 9.94 0.00 40.14 2.32
657 1111 7.170320 GCACAATGAATTGAAACTTGTCTCATT 59.830 33.333 9.94 0.00 40.14 2.57
658 1112 6.643770 GCACAATGAATTGAAACTTGTCTCAT 59.356 34.615 9.94 0.00 40.14 2.90
660 1114 6.211515 AGCACAATGAATTGAAACTTGTCTC 58.788 36.000 9.94 0.00 40.14 3.36
695 1149 8.360390 AGTTTTCTTGGAATCAAAGTATTCACC 58.640 33.333 0.00 0.00 37.56 4.02
706 1310 9.231297 CTTGGAGTATAAGTTTTCTTGGAATCA 57.769 33.333 0.00 0.00 40.70 2.57
793 1398 2.432628 GGACCGTCCGTGAAGCTG 60.433 66.667 0.65 0.00 0.00 4.24
817 1443 0.322997 TAGGATTGGGCCCGTGTTTG 60.323 55.000 19.37 0.00 0.00 2.93
877 1505 4.430423 CTTGCCTTGCGCGTCGTC 62.430 66.667 8.43 0.00 42.08 4.20
918 1546 5.250235 TCTAGCTTGGTTAATCTGACTCG 57.750 43.478 0.00 0.00 0.00 4.18
937 1568 0.323629 CACGGCCCCTTCTGTTTCTA 59.676 55.000 0.00 0.00 0.00 2.10
1091 1722 4.018688 CCAGCTAGGGTTTAGGGTTTTAGT 60.019 45.833 0.00 0.00 0.00 2.24
1138 1773 0.370273 CTTGAAGCGAAATCGGACCG 59.630 55.000 7.84 7.84 40.23 4.79
1155 1790 6.202516 TGAACGAAATTTGACCAAACTCTT 57.797 33.333 0.00 0.00 32.51 2.85
1158 1793 4.142271 TGCTGAACGAAATTTGACCAAACT 60.142 37.500 0.00 0.00 32.51 2.66
1159 1794 4.026886 GTGCTGAACGAAATTTGACCAAAC 60.027 41.667 0.00 0.00 32.51 2.93
1170 1805 4.838046 TCGTGGTGCTGAACGAAA 57.162 50.000 5.97 0.00 45.14 3.46
1180 1815 1.095228 CCCCCGAATCAATCGTGGTG 61.095 60.000 0.00 0.00 46.35 4.17
1181 1816 1.223487 CCCCCGAATCAATCGTGGT 59.777 57.895 0.00 0.00 46.35 4.16
1196 1831 0.393537 CAGATCAGCAACTGACCCCC 60.394 60.000 0.00 0.00 43.63 5.40
1202 1837 2.740981 GGAAGTCACAGATCAGCAACTG 59.259 50.000 0.00 0.00 39.65 3.16
1216 1851 2.097825 GAACCTACTAGGCGGAAGTCA 58.902 52.381 1.55 0.00 39.63 3.41
1220 1855 1.039233 CCCGAACCTACTAGGCGGAA 61.039 60.000 18.16 0.00 41.65 4.30
1262 1897 1.396996 ACGCAACCGAATAATGAGCAC 59.603 47.619 0.00 0.00 38.29 4.40
1263 1898 1.732941 ACGCAACCGAATAATGAGCA 58.267 45.000 0.00 0.00 38.29 4.26
1264 1899 2.825086 AACGCAACCGAATAATGAGC 57.175 45.000 0.00 0.00 38.29 4.26
1265 1900 3.119990 ACCAAACGCAACCGAATAATGAG 60.120 43.478 0.00 0.00 38.29 2.90
1266 1901 2.814919 ACCAAACGCAACCGAATAATGA 59.185 40.909 0.00 0.00 38.29 2.57
1267 1902 3.210358 ACCAAACGCAACCGAATAATG 57.790 42.857 0.00 0.00 38.29 1.90
1268 1903 3.375922 CCTACCAAACGCAACCGAATAAT 59.624 43.478 0.00 0.00 38.29 1.28
1269 1904 2.743126 CCTACCAAACGCAACCGAATAA 59.257 45.455 0.00 0.00 38.29 1.40
1270 1905 2.028294 TCCTACCAAACGCAACCGAATA 60.028 45.455 0.00 0.00 38.29 1.75
1271 1906 1.161843 CCTACCAAACGCAACCGAAT 58.838 50.000 0.00 0.00 38.29 3.34
1272 1907 0.106335 TCCTACCAAACGCAACCGAA 59.894 50.000 0.00 0.00 38.29 4.30
1273 1908 0.106335 TTCCTACCAAACGCAACCGA 59.894 50.000 0.00 0.00 38.29 4.69
1274 1909 0.945813 TTTCCTACCAAACGCAACCG 59.054 50.000 0.00 0.00 41.14 4.44
1275 1910 2.817844 AGATTTCCTACCAAACGCAACC 59.182 45.455 0.00 0.00 0.00 3.77
1283 1918 5.417580 GGCATACAACAAGATTTCCTACCAA 59.582 40.000 0.00 0.00 0.00 3.67
1307 1942 0.460284 CGAGGAAATCTCCCACCGTG 60.460 60.000 0.00 0.00 43.64 4.94
1309 1944 1.521681 GCGAGGAAATCTCCCACCG 60.522 63.158 0.00 0.00 43.64 4.94
1310 1945 1.521681 CGCGAGGAAATCTCCCACC 60.522 63.158 0.00 0.00 43.64 4.61
1456 2091 3.951775 AGTCATCTTCTCTCACCACAC 57.048 47.619 0.00 0.00 0.00 3.82
1457 2092 4.923415 TCTAGTCATCTTCTCTCACCACA 58.077 43.478 0.00 0.00 0.00 4.17
1458 2093 5.827797 AGATCTAGTCATCTTCTCTCACCAC 59.172 44.000 0.00 0.00 27.71 4.16
1513 2165 4.882671 ATAATCTGTCACGCATTTCACC 57.117 40.909 0.00 0.00 0.00 4.02
1534 2186 9.609346 GTAACTAAGGCCAGAAACTGAATATTA 57.391 33.333 5.01 0.00 32.44 0.98
1769 2424 7.344913 AGAAAAATGAGAGCATCCATAAGAGT 58.655 34.615 0.00 0.00 33.66 3.24
1949 2604 4.942761 ACATGCCCATTAATTCCATGAC 57.057 40.909 19.05 0.00 37.36 3.06
2130 2824 9.570488 AGAACAGTCGCTAAACTACTAATTTAG 57.430 33.333 1.79 1.79 40.92 1.85
2139 2833 3.506455 AGAGCAGAACAGTCGCTAAACTA 59.494 43.478 0.00 0.00 34.97 2.24
2190 2884 1.270414 ATGGAGTGGCTGAGGTGGAG 61.270 60.000 0.00 0.00 0.00 3.86
2409 3105 4.523943 TCAGCTAAAACAATGCAGGTGAAT 59.476 37.500 7.15 0.00 41.21 2.57
2410 3106 3.888323 TCAGCTAAAACAATGCAGGTGAA 59.112 39.130 7.15 0.00 41.21 3.18
2441 3142 6.845302 TCAATGACACATTTGCTTGTAGATC 58.155 36.000 0.00 0.00 0.00 2.75
2457 3158 4.579753 TGAGCACTCACAAATTCAATGACA 59.420 37.500 0.00 0.00 34.14 3.58
2498 3199 2.359975 GCCCAGGGACCTGAAACG 60.360 66.667 19.65 2.84 46.30 3.60
2578 3279 1.075601 ATCAAACTCCCAGCTCCCAA 58.924 50.000 0.00 0.00 0.00 4.12
2592 3293 5.461032 AATTTTTCCCGCAGTGTATCAAA 57.539 34.783 0.00 0.00 0.00 2.69
2604 3305 5.865552 TGACGAGAACTAGTAATTTTTCCCG 59.134 40.000 0.00 0.00 0.00 5.14
2691 3392 3.477210 ACTCCACTGTTCCTTCAAGAC 57.523 47.619 0.00 0.00 0.00 3.01
2912 3623 6.799441 TGATATACACAACATCAACAAAACGC 59.201 34.615 0.00 0.00 0.00 4.84
3024 3736 6.726764 GTCTGGATTTAGTACTCCCTCCATAT 59.273 42.308 16.36 0.00 32.66 1.78
3027 3739 4.264668 TGTCTGGATTTAGTACTCCCTCCA 60.265 45.833 15.57 15.57 0.00 3.86
3028 3740 4.287552 TGTCTGGATTTAGTACTCCCTCC 58.712 47.826 0.00 4.62 0.00 4.30
3029 3741 5.187186 TGTTGTCTGGATTTAGTACTCCCTC 59.813 44.000 0.00 0.00 0.00 4.30
3030 3742 5.091552 TGTTGTCTGGATTTAGTACTCCCT 58.908 41.667 0.00 0.00 0.00 4.20
3031 3743 5.046520 ACTGTTGTCTGGATTTAGTACTCCC 60.047 44.000 0.00 0.00 0.00 4.30
3032 3744 6.038997 ACTGTTGTCTGGATTTAGTACTCC 57.961 41.667 0.00 0.00 0.00 3.85
3033 3745 7.964604 AAACTGTTGTCTGGATTTAGTACTC 57.035 36.000 0.00 0.00 0.00 2.59
3034 3746 7.228706 CCAAAACTGTTGTCTGGATTTAGTACT 59.771 37.037 0.00 0.00 0.00 2.73
3035 3747 7.227910 TCCAAAACTGTTGTCTGGATTTAGTAC 59.772 37.037 12.66 0.00 31.19 2.73
3036 3748 7.284074 TCCAAAACTGTTGTCTGGATTTAGTA 58.716 34.615 12.66 0.00 31.19 1.82
3037 3749 6.126409 TCCAAAACTGTTGTCTGGATTTAGT 58.874 36.000 12.66 0.00 31.19 2.24
3038 3750 6.633500 TCCAAAACTGTTGTCTGGATTTAG 57.367 37.500 12.66 0.00 31.19 1.85
3077 3803 2.159254 GGCTGAACAAAGAACTTGCACA 60.159 45.455 0.00 0.00 38.75 4.57
3089 3815 2.260869 GGCGCTGAAGGCTGAACAA 61.261 57.895 7.64 0.00 39.13 2.83
3090 3816 2.669569 GGCGCTGAAGGCTGAACA 60.670 61.111 7.64 0.00 39.13 3.18
3091 3817 2.359230 AGGCGCTGAAGGCTGAAC 60.359 61.111 7.64 0.00 45.75 3.18
3106 3832 0.607620 GCTATCTAGAGCCAGGCAGG 59.392 60.000 15.80 0.14 36.38 4.85
3107 3833 0.243365 CGCTATCTAGAGCCAGGCAG 59.757 60.000 15.80 1.96 39.43 4.85
3114 3840 6.291164 CGTTCTGTAAAAACGCTATCTAGAGC 60.291 42.308 0.00 0.00 42.40 4.09
3141 3867 4.496507 GCGGCTAAGGATGAGTGAAATTTC 60.497 45.833 11.41 11.41 0.00 2.17
3177 3903 2.443255 TCAAAAGAAGAACCAGGCCTCT 59.557 45.455 0.00 0.00 0.00 3.69
3178 3904 2.863809 TCAAAAGAAGAACCAGGCCTC 58.136 47.619 0.00 0.00 0.00 4.70
3179 3905 2.959030 GTTCAAAAGAAGAACCAGGCCT 59.041 45.455 0.00 0.00 39.48 5.19
3180 3906 2.959030 AGTTCAAAAGAAGAACCAGGCC 59.041 45.455 0.00 0.00 44.91 5.19
3181 3907 4.655762 AAGTTCAAAAGAAGAACCAGGC 57.344 40.909 0.00 0.00 44.91 4.85
3182 3908 5.351458 CCAAAGTTCAAAAGAAGAACCAGG 58.649 41.667 0.00 0.00 44.91 4.45
3183 3909 4.805719 GCCAAAGTTCAAAAGAAGAACCAG 59.194 41.667 0.00 0.00 44.91 4.00
3184 3910 4.676723 CGCCAAAGTTCAAAAGAAGAACCA 60.677 41.667 0.00 0.00 44.91 3.67
3185 3911 3.796717 CGCCAAAGTTCAAAAGAAGAACC 59.203 43.478 0.00 0.00 44.91 3.62
3186 3912 4.421058 ACGCCAAAGTTCAAAAGAAGAAC 58.579 39.130 0.00 0.00 44.32 3.01
3187 3913 4.712122 ACGCCAAAGTTCAAAAGAAGAA 57.288 36.364 0.00 0.00 0.00 2.52
3188 3914 4.712122 AACGCCAAAGTTCAAAAGAAGA 57.288 36.364 0.00 0.00 0.00 2.87
3189 3915 6.033966 AGTAAACGCCAAAGTTCAAAAGAAG 58.966 36.000 0.00 0.00 32.43 2.85
3190 3916 5.956642 AGTAAACGCCAAAGTTCAAAAGAA 58.043 33.333 0.00 0.00 32.43 2.52
3237 3963 4.957684 ATTTGGAACGGAGGGAGTATAG 57.042 45.455 0.00 0.00 0.00 1.31
3261 3989 9.833894 CAAATTTTGAACTAAAACAATGACGAG 57.166 29.630 2.88 0.00 40.80 4.18
3286 4014 9.658475 CAAATTACTCGTCATTGTTTTAGTTCA 57.342 29.630 0.00 0.00 0.00 3.18
3287 4015 9.113876 CCAAATTACTCGTCATTGTTTTAGTTC 57.886 33.333 0.00 0.00 0.00 3.01
3288 4016 8.842280 TCCAAATTACTCGTCATTGTTTTAGTT 58.158 29.630 0.00 0.00 0.00 2.24
3291 4019 7.799447 CGTTCCAAATTACTCGTCATTGTTTTA 59.201 33.333 0.00 0.00 0.00 1.52
3293 4021 6.140110 CGTTCCAAATTACTCGTCATTGTTT 58.860 36.000 0.00 0.00 0.00 2.83
3295 4023 4.153475 CCGTTCCAAATTACTCGTCATTGT 59.847 41.667 0.00 0.00 0.00 2.71
3296 4024 4.390603 TCCGTTCCAAATTACTCGTCATTG 59.609 41.667 0.00 0.00 0.00 2.82
3297 4025 4.571919 TCCGTTCCAAATTACTCGTCATT 58.428 39.130 0.00 0.00 0.00 2.57
3298 4026 4.181578 CTCCGTTCCAAATTACTCGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
3299 4027 3.581755 CTCCGTTCCAAATTACTCGTCA 58.418 45.455 0.00 0.00 0.00 4.35
3303 4092 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
3305 4094 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
3308 4097 2.262637 TGTACTCCCTCCGTTCCAAAT 58.737 47.619 0.00 0.00 0.00 2.32
3311 4100 1.203087 TCTTGTACTCCCTCCGTTCCA 60.203 52.381 0.00 0.00 0.00 3.53
3330 4119 3.511540 CCTGATTTCCTTTTTCCCCTGTC 59.488 47.826 0.00 0.00 0.00 3.51
3338 4127 5.592795 TGATCCCATCCTGATTTCCTTTTT 58.407 37.500 0.00 0.00 0.00 1.94
3403 4192 1.346395 AGCTGTGGTTACCAACGATCA 59.654 47.619 5.33 0.00 34.18 2.92
3410 4234 0.178903 AGGAGGAGCTGTGGTTACCA 60.179 55.000 0.00 0.00 0.00 3.25
3461 4285 4.614284 GTGATTCAACAGAAATCGTGCAAG 59.386 41.667 0.00 0.00 36.18 4.01


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

AutoCloner maintained by Alex Coulton.