Multiple sequence alignment - TraesCS2B01G031100

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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 TraesCS2B01G031100 chr2B 100.000 4515 0 0 1 4515 14408229 14403715 0.000000e+00 8338.0
1 TraesCS2B01G031100 chr2B 95.704 3026 98 11 947 3966 14214294 14211295 0.000000e+00 4839.0
2 TraesCS2B01G031100 chr2B 86.960 1250 150 10 2274 3521 14618477 14617239 0.000000e+00 1393.0
3 TraesCS2B01G031100 chr2B 83.718 1388 161 30 211 1559 14620527 14619166 0.000000e+00 1251.0
4 TraesCS2B01G031100 chr2B 84.760 1273 156 22 2274 3516 15463203 15464467 0.000000e+00 1242.0
5 TraesCS2B01G031100 chr2B 83.269 1291 171 26 902 2172 14506390 14505125 0.000000e+00 1146.0
6 TraesCS2B01G031100 chr2B 88.777 891 85 11 2642 3520 14477558 14476671 0.000000e+00 1077.0
7 TraesCS2B01G031100 chr2B 88.777 891 85 11 2642 3520 14504792 14503905 0.000000e+00 1077.0
8 TraesCS2B01G031100 chr2B 83.220 1174 137 21 390 1559 15461429 15462546 0.000000e+00 1022.0
9 TraesCS2B01G031100 chr2B 95.645 620 20 1 3903 4515 14211317 14210698 0.000000e+00 989.0
10 TraesCS2B01G031100 chr2B 85.870 920 84 29 2645 3531 14349944 14349038 0.000000e+00 937.0
11 TraesCS2B01G031100 chr2B 91.850 638 37 7 211 837 13905411 13906044 0.000000e+00 876.0
12 TraesCS2B01G031100 chr2B 84.891 920 81 30 2645 3531 14488433 14487539 0.000000e+00 876.0
13 TraesCS2B01G031100 chr2B 84.783 920 82 30 2645 3531 14459637 14458743 0.000000e+00 870.0
14 TraesCS2B01G031100 chr2B 84.674 920 83 30 2645 3531 14434044 14433150 0.000000e+00 865.0
15 TraesCS2B01G031100 chr2B 81.122 1123 172 34 1711 2813 14343966 14342864 0.000000e+00 863.0
16 TraesCS2B01G031100 chr2B 91.053 570 49 1 992 1559 14344709 14344140 0.000000e+00 769.0
17 TraesCS2B01G031100 chr2B 82.497 737 93 23 222 943 14462719 14462004 8.300000e-172 614.0
18 TraesCS2B01G031100 chr2B 82.497 737 93 23 222 943 14491516 14490801 8.300000e-172 614.0
19 TraesCS2B01G031100 chr2B 88.958 480 38 8 300 770 13907568 13908041 3.030000e-161 579.0
20 TraesCS2B01G031100 chr2B 85.270 482 60 10 1693 2170 15462715 15463189 1.890000e-133 486.0
21 TraesCS2B01G031100 chr2B 85.194 439 50 9 3098 3523 13912273 13912709 1.930000e-118 436.0
22 TraesCS2B01G031100 chr2B 82.157 510 75 10 211 709 14345337 14344833 1.500000e-114 424.0
23 TraesCS2B01G031100 chr2B 81.223 458 77 6 1717 2173 14618937 14618488 1.190000e-95 361.0
24 TraesCS2B01G031100 chr2B 87.197 289 37 0 2277 2565 14505111 14504823 3.370000e-86 329.0
25 TraesCS2B01G031100 chr2B 86.301 292 39 1 2274 2565 13911518 13911808 2.620000e-82 316.0
26 TraesCS2B01G031100 chr2B 92.105 152 10 1 780 931 13908090 13908239 3.540000e-51 213.0
27 TraesCS2B01G031100 chr2B 92.969 128 7 1 825 952 14344836 14344711 7.710000e-43 185.0
28 TraesCS2B01G031100 chr2D 82.886 2010 254 47 211 2173 10532279 10530313 0.000000e+00 1724.0
29 TraesCS2B01G031100 chr2D 85.142 1272 156 23 2274 3522 10433887 10432626 0.000000e+00 1271.0
30 TraesCS2B01G031100 chr2D 84.760 1273 160 24 2274 3522 10530303 10529041 0.000000e+00 1245.0
31 TraesCS2B01G031100 chr2D 84.304 1185 157 23 997 2173 10435060 10433897 0.000000e+00 1131.0
32 TraesCS2B01G031100 chr2D 79.842 253 41 7 1788 2035 10714865 10715112 4.640000e-40 176.0
33 TraesCS2B01G031100 chr2D 84.884 86 12 1 3954 4039 507219629 507219545 8.050000e-13 86.1
34 TraesCS2B01G031100 chr2A 82.296 1446 197 38 756 2173 10846158 10844744 0.000000e+00 1197.0
35 TraesCS2B01G031100 chr2A 86.704 895 99 13 2642 3522 10844400 10843512 0.000000e+00 976.0
36 TraesCS2B01G031100 chr2A 85.181 938 121 15 2274 3208 10735665 10734743 0.000000e+00 946.0
37 TraesCS2B01G031100 chr2A 82.652 1003 100 30 211 1198 10737479 10736536 0.000000e+00 821.0
38 TraesCS2B01G031100 chr2A 78.495 744 138 18 1794 2522 10748572 10747836 6.840000e-128 468.0
39 TraesCS2B01G031100 chr2A 85.142 424 57 5 1709 2129 10736106 10735686 3.230000e-116 429.0
40 TraesCS2B01G031100 chr2A 80.000 260 44 6 1792 2047 10981642 10981897 7.710000e-43 185.0
41 TraesCS2B01G031100 chrUn 83.269 1291 171 26 902 2172 353663478 353662213 0.000000e+00 1146.0
42 TraesCS2B01G031100 chrUn 82.881 958 122 24 902 1840 349801010 349801944 0.000000e+00 822.0
43 TraesCS2B01G031100 chrUn 88.837 645 60 5 902 1540 365097041 365097679 0.000000e+00 782.0
44 TraesCS2B01G031100 chrUn 88.837 645 60 5 902 1540 465721964 465721326 0.000000e+00 782.0
45 TraesCS2B01G031100 chrUn 87.992 533 51 8 2999 3520 461723465 461722935 6.420000e-173 617.0
46 TraesCS2B01G031100 chrUn 82.225 737 95 22 222 943 345005819 345006534 1.800000e-168 603.0
47 TraesCS2B01G031100 chrUn 81.304 460 62 15 491 943 329540639 329540197 7.190000e-93 351.0
48 TraesCS2B01G031100 chrUn 87.197 289 37 0 2277 2565 353662199 353661911 3.370000e-86 329.0
49 TraesCS2B01G031100 chrUn 92.558 215 15 1 1 214 42047115 42047329 1.580000e-79 307.0
50 TraesCS2B01G031100 chrUn 92.558 215 15 1 1 214 473481660 473481446 1.580000e-79 307.0
51 TraesCS2B01G031100 chr5B 85.079 382 33 18 3726 4106 15364835 15364477 7.140000e-98 368.0
52 TraesCS2B01G031100 chr5D 84.286 350 29 16 3759 4106 21974327 21974652 7.290000e-83 318.0
53 TraesCS2B01G031100 chr5D 92.166 217 15 2 1 215 49700153 49699937 5.670000e-79 305.0
54 TraesCS2B01G031100 chr7D 93.396 212 12 2 2 212 8028653 8028863 3.390000e-81 313.0
55 TraesCS2B01G031100 chr6B 93.396 212 13 1 2 212 599990522 599990311 3.390000e-81 313.0
56 TraesCS2B01G031100 chr4B 92.958 213 14 1 1 212 405338240 405338452 4.390000e-80 309.0
57 TraesCS2B01G031100 chr3D 92.237 219 15 2 2 219 15843506 15843723 4.390000e-80 309.0
58 TraesCS2B01G031100 chr3B 92.593 216 15 1 2 216 387157195 387156980 4.390000e-80 309.0
59 TraesCS2B01G031100 chr1B 92.523 214 15 1 1 213 558391923 558391710 5.670000e-79 305.0
60 TraesCS2B01G031100 chr7A 80.569 211 32 7 3718 3926 110523886 110524089 2.180000e-33 154.0
61 TraesCS2B01G031100 chr7A 80.097 206 33 6 3724 3926 582381492 582381692 3.640000e-31 147.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2B01G031100 chr2B 14403715 14408229 4514 True 8338.000000 8338 100.000000 1 4515 1 chr2B.!!$R1 4514
1 TraesCS2B01G031100 chr2B 14210698 14214294 3596 True 2914.000000 4839 95.674500 947 4515 2 chr2B.!!$R4 3568
2 TraesCS2B01G031100 chr2B 14476671 14477558 887 True 1077.000000 1077 88.777000 2642 3520 1 chr2B.!!$R3 878
3 TraesCS2B01G031100 chr2B 14617239 14620527 3288 True 1001.666667 1393 83.967000 211 3521 3 chr2B.!!$R9 3310
4 TraesCS2B01G031100 chr2B 15461429 15464467 3038 False 916.666667 1242 84.416667 390 3516 3 chr2B.!!$F2 3126
5 TraesCS2B01G031100 chr2B 14433150 14434044 894 True 865.000000 865 84.674000 2645 3531 1 chr2B.!!$R2 886
6 TraesCS2B01G031100 chr2B 14503905 14506390 2485 True 850.666667 1146 86.414333 902 3520 3 chr2B.!!$R8 2618
7 TraesCS2B01G031100 chr2B 14487539 14491516 3977 True 745.000000 876 83.694000 222 3531 2 chr2B.!!$R7 3309
8 TraesCS2B01G031100 chr2B 14458743 14462719 3976 True 742.000000 870 83.640000 222 3531 2 chr2B.!!$R6 3309
9 TraesCS2B01G031100 chr2B 14342864 14349944 7080 True 635.600000 937 86.634200 211 3531 5 chr2B.!!$R5 3320
10 TraesCS2B01G031100 chr2B 13905411 13912709 7298 False 484.000000 876 88.881600 211 3523 5 chr2B.!!$F1 3312
11 TraesCS2B01G031100 chr2D 10529041 10532279 3238 True 1484.500000 1724 83.823000 211 3522 2 chr2D.!!$R3 3311
12 TraesCS2B01G031100 chr2D 10432626 10435060 2434 True 1201.000000 1271 84.723000 997 3522 2 chr2D.!!$R2 2525
13 TraesCS2B01G031100 chr2A 10843512 10846158 2646 True 1086.500000 1197 84.500000 756 3522 2 chr2A.!!$R3 2766
14 TraesCS2B01G031100 chr2A 10734743 10737479 2736 True 732.000000 946 84.325000 211 3208 3 chr2A.!!$R2 2997
15 TraesCS2B01G031100 chr2A 10747836 10748572 736 True 468.000000 468 78.495000 1794 2522 1 chr2A.!!$R1 728
16 TraesCS2B01G031100 chrUn 349801010 349801944 934 False 822.000000 822 82.881000 902 1840 1 chrUn.!!$F3 938
17 TraesCS2B01G031100 chrUn 365097041 365097679 638 False 782.000000 782 88.837000 902 1540 1 chrUn.!!$F4 638
18 TraesCS2B01G031100 chrUn 465721326 465721964 638 True 782.000000 782 88.837000 902 1540 1 chrUn.!!$R3 638
19 TraesCS2B01G031100 chrUn 353661911 353663478 1567 True 737.500000 1146 85.233000 902 2565 2 chrUn.!!$R5 1663
20 TraesCS2B01G031100 chrUn 461722935 461723465 530 True 617.000000 617 87.992000 2999 3520 1 chrUn.!!$R2 521
21 TraesCS2B01G031100 chrUn 345005819 345006534 715 False 603.000000 603 82.225000 222 943 1 chrUn.!!$F2 721

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
188 189 0.034863 TGGGCTTTATGAACCGGGAC 60.035 55.000 6.32 0.0 0.00 4.46 F
196 197 0.324275 ATGAACCGGGACAAATGGGG 60.324 55.000 6.32 0.0 0.00 4.96 F
303 4709 1.135603 GCCGGTCCGTTGGATTTTAAC 60.136 52.381 11.06 0.0 32.73 2.01 F
822 7396 1.198094 TGCTGGGTGCCTTGTAGCTA 61.198 55.000 0.00 0.0 42.00 3.32 F
878 7452 2.017049 ACCACAAACAGCAGTCAGTTC 58.983 47.619 0.00 0.0 0.00 3.01 F
2429 12170 1.197036 GTCGGGAAGTGCTTGCTAAAC 59.803 52.381 3.62 0.0 0.00 2.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1092 7668 0.179134 GAGCGTAGTTGGCAGATCGT 60.179 55.000 0.00 0.0 0.00 3.73 R
1402 9947 0.310543 CAGCGATCTCCTCCTCGAAG 59.689 60.000 0.00 0.0 37.05 3.79 R
1684 10414 5.090083 TCTGTGTCAAACGCAAAAAGTTAC 58.910 37.500 0.00 0.0 38.24 2.50 R
1685 10415 5.298197 TCTGTGTCAAACGCAAAAAGTTA 57.702 34.783 0.00 0.0 38.24 2.24 R
2855 12656 3.064207 TGTCTCGCCACTACAAAATCAC 58.936 45.455 0.00 0.0 0.00 3.06 R
3881 13711 0.988145 TATGCCCTGGGTGGAGGAAG 60.988 60.000 15.56 0.0 38.35 3.46 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 2.156920 AGCCTTTTGGTCCCGGTTA 58.843 52.632 0.00 0.00 42.99 2.85
19 20 0.037734 AGCCTTTTGGTCCCGGTTAG 59.962 55.000 0.00 0.00 42.99 2.34
20 21 0.251033 GCCTTTTGGTCCCGGTTAGT 60.251 55.000 0.00 0.00 42.99 2.24
21 22 1.530323 CCTTTTGGTCCCGGTTAGTG 58.470 55.000 0.00 0.00 34.07 2.74
23 24 0.537828 TTTTGGTCCCGGTTAGTGGC 60.538 55.000 0.00 0.00 0.00 5.01
24 25 1.706995 TTTGGTCCCGGTTAGTGGCA 61.707 55.000 0.00 0.00 0.00 4.92
25 26 2.046604 GGTCCCGGTTAGTGGCAC 60.047 66.667 10.29 10.29 0.00 5.01
27 28 2.527123 TCCCGGTTAGTGGCACCA 60.527 61.111 15.27 0.00 33.36 4.17
28 29 2.148052 TCCCGGTTAGTGGCACCAA 61.148 57.895 15.27 3.68 33.36 3.67
30 31 1.969589 CCGGTTAGTGGCACCAACC 60.970 63.158 30.41 30.41 38.68 3.77
32 33 1.234615 CGGTTAGTGGCACCAACCAG 61.235 60.000 35.60 26.85 41.46 4.00
33 34 0.893727 GGTTAGTGGCACCAACCAGG 60.894 60.000 33.56 0.00 41.46 4.45
37 38 1.454847 GTGGCACCAACCAGGACAA 60.455 57.895 6.29 0.00 41.46 3.18
38 39 1.040339 GTGGCACCAACCAGGACAAA 61.040 55.000 6.29 0.00 41.46 2.83
39 40 0.324738 TGGCACCAACCAGGACAAAA 60.325 50.000 0.00 0.00 41.22 2.44
40 41 0.389025 GGCACCAACCAGGACAAAAG 59.611 55.000 0.00 0.00 41.22 2.27
42 43 1.067060 GCACCAACCAGGACAAAAGAC 59.933 52.381 0.00 0.00 41.22 3.01
44 45 1.328279 CCAACCAGGACAAAAGACCC 58.672 55.000 0.00 0.00 41.22 4.46
45 46 1.133482 CCAACCAGGACAAAAGACCCT 60.133 52.381 0.00 0.00 41.22 4.34
49 50 2.158608 ACCAGGACAAAAGACCCTTCTG 60.159 50.000 0.00 0.00 29.98 3.02
50 51 1.882623 CAGGACAAAAGACCCTTCTGC 59.117 52.381 0.00 0.00 29.98 4.26
51 52 1.202940 AGGACAAAAGACCCTTCTGCC 60.203 52.381 0.00 0.00 29.98 4.85
52 53 1.202940 GGACAAAAGACCCTTCTGCCT 60.203 52.381 0.00 0.00 29.98 4.75
53 54 1.882623 GACAAAAGACCCTTCTGCCTG 59.117 52.381 0.00 0.00 29.98 4.85
55 56 0.540597 AAAAGACCCTTCTGCCTGGC 60.541 55.000 12.87 12.87 29.98 4.85
56 57 1.719063 AAAGACCCTTCTGCCTGGCA 61.719 55.000 21.96 21.96 36.92 4.92
58 59 1.676967 GACCCTTCTGCCTGGCAAG 60.677 63.158 23.51 17.48 38.41 4.01
59 60 3.066814 CCCTTCTGCCTGGCAAGC 61.067 66.667 23.51 0.00 38.41 4.01
60 61 3.066814 CCTTCTGCCTGGCAAGCC 61.067 66.667 23.51 3.61 38.41 4.35
61 62 3.437795 CTTCTGCCTGGCAAGCCG 61.438 66.667 23.51 11.10 38.41 5.52
85 86 3.402681 CCACGTGGAGCCCCATCT 61.403 66.667 31.31 0.00 45.68 2.90
86 87 2.124983 CACGTGGAGCCCCATCTG 60.125 66.667 7.95 0.00 45.68 2.90
87 88 2.607750 ACGTGGAGCCCCATCTGT 60.608 61.111 0.00 0.00 45.68 3.41
88 89 2.187946 CGTGGAGCCCCATCTGTC 59.812 66.667 0.00 0.00 45.68 3.51
89 90 2.592308 GTGGAGCCCCATCTGTCC 59.408 66.667 0.00 0.00 45.68 4.02
90 91 1.997874 GTGGAGCCCCATCTGTCCT 60.998 63.158 0.00 0.00 45.68 3.85
91 92 1.997311 TGGAGCCCCATCTGTCCTG 60.997 63.158 0.00 0.00 37.58 3.86
95 96 1.077429 GCCCCATCTGTCCTGGTTC 60.077 63.158 0.00 0.00 31.44 3.62
97 98 1.553690 CCCCATCTGTCCTGGTTCGT 61.554 60.000 0.00 0.00 31.44 3.85
98 99 0.391661 CCCATCTGTCCTGGTTCGTG 60.392 60.000 0.00 0.00 31.44 4.35
99 100 0.391661 CCATCTGTCCTGGTTCGTGG 60.392 60.000 0.00 0.00 0.00 4.94
100 101 0.391661 CATCTGTCCTGGTTCGTGGG 60.392 60.000 0.00 0.00 0.00 4.61
101 102 2.185310 ATCTGTCCTGGTTCGTGGGC 62.185 60.000 0.00 0.00 0.00 5.36
102 103 4.308458 TGTCCTGGTTCGTGGGCG 62.308 66.667 0.00 0.00 39.92 6.13
111 112 4.047059 TCGTGGGCGAACCGAGAC 62.047 66.667 0.00 0.00 44.92 3.36
112 113 4.052229 CGTGGGCGAACCGAGACT 62.052 66.667 0.00 0.00 44.64 3.24
113 114 2.693762 CGTGGGCGAACCGAGACTA 61.694 63.158 0.00 0.00 44.64 2.59
114 115 1.588082 GTGGGCGAACCGAGACTAA 59.412 57.895 0.00 0.00 44.64 2.24
115 116 0.037975 GTGGGCGAACCGAGACTAAA 60.038 55.000 0.00 0.00 44.64 1.85
116 117 0.245539 TGGGCGAACCGAGACTAAAG 59.754 55.000 0.00 0.00 44.64 1.85
117 118 0.459759 GGGCGAACCGAGACTAAAGG 60.460 60.000 0.00 0.00 36.48 3.11
118 119 0.245813 GGCGAACCGAGACTAAAGGT 59.754 55.000 0.00 0.00 40.50 3.50
119 120 1.347320 GCGAACCGAGACTAAAGGTG 58.653 55.000 0.00 0.00 38.44 4.00
120 121 1.336609 GCGAACCGAGACTAAAGGTGT 60.337 52.381 0.00 0.00 38.44 4.16
121 122 2.865276 GCGAACCGAGACTAAAGGTGTT 60.865 50.000 0.00 0.00 38.44 3.32
122 123 2.729882 CGAACCGAGACTAAAGGTGTTG 59.270 50.000 0.00 0.00 38.44 3.33
124 125 1.346722 ACCGAGACTAAAGGTGTTGGG 59.653 52.381 4.59 0.00 44.52 4.12
126 127 2.224450 CCGAGACTAAAGGTGTTGGGTT 60.224 50.000 0.00 0.00 38.65 4.11
129 130 5.058490 CGAGACTAAAGGTGTTGGGTTTTA 58.942 41.667 0.00 0.00 0.00 1.52
130 131 5.178809 CGAGACTAAAGGTGTTGGGTTTTAG 59.821 44.000 0.00 0.00 38.46 1.85
131 132 6.009908 AGACTAAAGGTGTTGGGTTTTAGT 57.990 37.500 7.88 7.88 44.56 2.24
133 134 6.994496 AGACTAAAGGTGTTGGGTTTTAGTAC 59.006 38.462 8.08 0.00 42.94 2.73
134 135 6.064060 ACTAAAGGTGTTGGGTTTTAGTACC 58.936 40.000 6.68 0.00 41.81 3.34
136 137 2.705127 AGGTGTTGGGTTTTAGTACCGA 59.295 45.455 0.00 0.00 39.18 4.69
137 138 2.807967 GGTGTTGGGTTTTAGTACCGAC 59.192 50.000 0.00 0.00 39.18 4.79
138 139 3.465871 GTGTTGGGTTTTAGTACCGACA 58.534 45.455 0.00 0.00 44.34 4.35
139 140 3.465871 TGTTGGGTTTTAGTACCGACAC 58.534 45.455 0.00 0.00 42.30 3.67
140 141 3.134442 TGTTGGGTTTTAGTACCGACACT 59.866 43.478 0.00 0.00 42.30 3.55
141 142 4.129380 GTTGGGTTTTAGTACCGACACTT 58.871 43.478 0.00 0.00 39.18 3.16
142 143 4.420522 TGGGTTTTAGTACCGACACTTT 57.579 40.909 0.00 0.00 39.18 2.66
143 144 5.543507 TGGGTTTTAGTACCGACACTTTA 57.456 39.130 0.00 0.00 39.18 1.85
144 145 5.540911 TGGGTTTTAGTACCGACACTTTAG 58.459 41.667 0.00 0.00 39.18 1.85
145 146 5.070313 TGGGTTTTAGTACCGACACTTTAGT 59.930 40.000 0.00 0.00 39.18 2.24
146 147 5.635280 GGGTTTTAGTACCGACACTTTAGTC 59.365 44.000 0.00 0.00 39.18 2.59
147 148 5.635280 GGTTTTAGTACCGACACTTTAGTCC 59.365 44.000 0.00 0.00 35.07 3.85
148 149 5.391312 TTTAGTACCGACACTTTAGTCCC 57.609 43.478 0.00 0.00 35.07 4.46
149 150 1.815003 AGTACCGACACTTTAGTCCCG 59.185 52.381 0.00 0.00 35.07 5.14
150 151 1.135286 GTACCGACACTTTAGTCCCGG 60.135 57.143 14.31 14.31 42.25 5.73
151 152 0.829182 ACCGACACTTTAGTCCCGGT 60.829 55.000 15.28 15.28 43.62 5.28
153 154 1.670967 CCGACACTTTAGTCCCGGTTC 60.671 57.143 0.00 0.00 36.16 3.62
154 155 1.706443 GACACTTTAGTCCCGGTTCG 58.294 55.000 0.00 0.00 32.36 3.95
158 159 0.739813 CTTTAGTCCCGGTTCGGCAG 60.740 60.000 0.00 0.00 46.86 4.85
159 160 2.791501 TTTAGTCCCGGTTCGGCAGC 62.792 60.000 0.00 0.00 46.86 5.25
170 171 3.814268 CGGCAGCCGGGACAAATG 61.814 66.667 27.32 0.00 44.15 2.32
172 173 3.451894 GCAGCCGGGACAAATGGG 61.452 66.667 2.18 0.00 0.00 4.00
173 174 3.451894 CAGCCGGGACAAATGGGC 61.452 66.667 2.18 0.00 45.91 5.36
176 177 2.282783 GCCGGGACAAATGGGCTTT 61.283 57.895 2.18 0.00 42.29 3.51
178 179 1.775385 CCGGGACAAATGGGCTTTAT 58.225 50.000 0.00 0.00 0.00 1.40
179 180 1.408702 CCGGGACAAATGGGCTTTATG 59.591 52.381 0.00 0.00 0.00 1.90
181 182 2.757868 CGGGACAAATGGGCTTTATGAA 59.242 45.455 0.00 0.00 0.00 2.57
182 183 3.428862 CGGGACAAATGGGCTTTATGAAC 60.429 47.826 0.00 0.00 0.00 3.18
183 184 3.118775 GGGACAAATGGGCTTTATGAACC 60.119 47.826 0.00 0.00 0.00 3.62
184 185 3.428862 GGACAAATGGGCTTTATGAACCG 60.429 47.826 0.00 0.00 0.00 4.44
185 186 2.495669 ACAAATGGGCTTTATGAACCGG 59.504 45.455 0.00 0.00 0.00 5.28
186 187 1.775385 AATGGGCTTTATGAACCGGG 58.225 50.000 6.32 0.00 0.00 5.73
187 188 0.923358 ATGGGCTTTATGAACCGGGA 59.077 50.000 6.32 0.00 0.00 5.14
188 189 0.034863 TGGGCTTTATGAACCGGGAC 60.035 55.000 6.32 0.00 0.00 4.46
192 193 2.758423 GGCTTTATGAACCGGGACAAAT 59.242 45.455 6.32 0.00 0.00 2.32
193 194 3.428862 GGCTTTATGAACCGGGACAAATG 60.429 47.826 6.32 6.52 0.00 2.32
194 195 3.428862 GCTTTATGAACCGGGACAAATGG 60.429 47.826 6.32 0.10 0.00 3.16
195 196 2.428544 TATGAACCGGGACAAATGGG 57.571 50.000 6.32 0.00 0.00 4.00
196 197 0.324275 ATGAACCGGGACAAATGGGG 60.324 55.000 6.32 0.00 0.00 4.96
199 200 2.037208 CCGGGACAAATGGGGCTT 59.963 61.111 0.00 0.00 0.00 4.35
200 201 1.609210 CCGGGACAAATGGGGCTTT 60.609 57.895 0.00 0.00 0.00 3.51
201 202 1.191489 CCGGGACAAATGGGGCTTTT 61.191 55.000 0.00 0.00 0.00 2.27
203 204 1.337728 CGGGACAAATGGGGCTTTTTC 60.338 52.381 0.00 0.00 0.00 2.29
204 205 1.977854 GGGACAAATGGGGCTTTTTCT 59.022 47.619 0.00 0.00 0.00 2.52
205 206 3.169908 GGGACAAATGGGGCTTTTTCTA 58.830 45.455 0.00 0.00 0.00 2.10
206 207 3.056107 GGGACAAATGGGGCTTTTTCTAC 60.056 47.826 0.00 0.00 0.00 2.59
208 209 5.014202 GGACAAATGGGGCTTTTTCTACTA 58.986 41.667 0.00 0.00 0.00 1.82
263 4668 5.337009 GGCAAGTTGAAGAACAATCCATCAT 60.337 40.000 7.16 0.00 40.76 2.45
303 4709 1.135603 GCCGGTCCGTTGGATTTTAAC 60.136 52.381 11.06 0.00 32.73 2.01
355 4765 7.283580 CCCTTTATGTATTTTCCACCGTGATTA 59.716 37.037 0.00 0.00 0.00 1.75
458 4873 5.292589 GTCAGATTTTTAGCCATGGCAAATG 59.707 40.000 37.18 24.93 44.88 2.32
464 4879 1.255882 AGCCATGGCAAATGAAACGA 58.744 45.000 37.18 0.00 44.88 3.85
534 4949 5.388371 GCAAACACGAATATTTTCTGGCAAC 60.388 40.000 0.00 0.00 0.00 4.17
549 4965 3.042871 GGCAACAAATGAAATGAGGCA 57.957 42.857 0.00 0.00 0.00 4.75
575 4991 1.268352 GCCATGTTCGCCAACTAAACA 59.732 47.619 0.00 0.00 37.32 2.83
577 4993 3.613910 GCCATGTTCGCCAACTAAACATT 60.614 43.478 0.00 0.00 40.63 2.71
580 4996 3.879427 TGTTCGCCAACTAAACATTTCG 58.121 40.909 0.00 0.00 33.17 3.46
582 4998 4.510711 TGTTCGCCAACTAAACATTTCGTA 59.489 37.500 0.00 0.00 33.17 3.43
623 5045 7.114882 TGCCATGAAAAATGTTATTTTGTCG 57.885 32.000 0.00 0.00 32.85 4.35
624 5046 6.014898 GCCATGAAAAATGTTATTTTGTCGC 58.985 36.000 0.00 0.00 32.85 5.19
635 5057 7.493743 TGTTATTTTGTCGCACCTAAAAGTA 57.506 32.000 0.00 0.00 0.00 2.24
640 5062 6.484818 TTTGTCGCACCTAAAAGTATTACC 57.515 37.500 0.00 0.00 0.00 2.85
649 5071 7.048512 CACCTAAAAGTATTACCTTCTCTGGG 58.951 42.308 0.00 0.00 0.00 4.45
653 5075 9.765795 CTAAAAGTATTACCTTCTCTGGGTATG 57.234 37.037 0.00 0.00 38.85 2.39
822 7396 1.198094 TGCTGGGTGCCTTGTAGCTA 61.198 55.000 0.00 0.00 42.00 3.32
860 7434 5.599999 TCTATTCTGGCTACTCTCAAACC 57.400 43.478 0.00 0.00 0.00 3.27
873 7447 2.682856 TCTCAAACCACAAACAGCAGTC 59.317 45.455 0.00 0.00 0.00 3.51
878 7452 2.017049 ACCACAAACAGCAGTCAGTTC 58.983 47.619 0.00 0.00 0.00 3.01
882 7456 4.440525 CCACAAACAGCAGTCAGTTCATTT 60.441 41.667 0.00 0.00 0.00 2.32
952 7526 2.069273 CAAGTGCCAAGAAGTACTCCG 58.931 52.381 0.00 0.00 0.00 4.63
1028 7604 3.002102 GGCAATTACAGCAAACAATGGG 58.998 45.455 0.00 0.00 0.00 4.00
1167 7746 2.569354 GCCCAACAATGGCGGACAA 61.569 57.895 0.00 0.00 46.09 3.18
1560 10228 5.075344 TCCCTCCAGGTACCTTGTTAAATTT 59.925 40.000 13.15 0.00 36.75 1.82
1598 10311 4.434330 CGGACACTTGAACGATTTAAGAGC 60.434 45.833 0.00 0.00 0.00 4.09
1603 10316 4.753107 ACTTGAACGATTTAAGAGCGGAAA 59.247 37.500 0.00 0.00 0.00 3.13
1698 10428 9.323963 CTTTGAAAAATTGTAACTTTTTGCGTT 57.676 25.926 0.00 0.00 36.28 4.84
1876 11436 4.347607 ACAAGGCTAGAGCATTTTCCAAT 58.652 39.130 3.54 0.00 42.92 3.16
1925 11485 1.280710 TGGATCACCACTTACGCCAAT 59.719 47.619 0.00 0.00 41.77 3.16
2429 12170 1.197036 GTCGGGAAGTGCTTGCTAAAC 59.803 52.381 3.62 0.00 0.00 2.01
2438 12179 5.712152 AGTGCTTGCTAAACTTGCTAATT 57.288 34.783 0.00 0.00 0.00 1.40
2547 12321 7.709182 ACCATATGAAACATTGCATTTCTCATG 59.291 33.333 3.65 12.52 37.05 3.07
2556 12330 6.811665 ACATTGCATTTCTCATGATTCAAGTG 59.188 34.615 0.00 0.00 0.00 3.16
2560 12334 8.283699 TGCATTTCTCATGATTCAAGTGATAA 57.716 30.769 0.00 0.00 0.00 1.75
2793 12589 5.810587 TCTTCAGAAAGCGGTATGTTCATAC 59.189 40.000 12.80 12.80 32.18 2.39
3249 13078 3.446161 GGGGATGCACCATCATCAATATG 59.554 47.826 7.43 0.00 43.44 1.78
3531 13361 4.881850 ACATTAAACGATGGAGCCCTAAAG 59.118 41.667 0.00 0.00 0.00 1.85
3790 13620 9.036980 TCTAGATAGATATAAAAGTTCTGGGGC 57.963 37.037 0.00 0.00 0.00 5.80
3866 13696 4.046103 AGTGGACCCCAACCCAATTATTTA 59.954 41.667 0.00 0.00 34.18 1.40
3881 13711 7.223387 CCCAATTATTTACTCTGCATTTGCTTC 59.777 37.037 3.94 0.00 42.66 3.86
3888 13718 2.422832 CTCTGCATTTGCTTCTTCCTCC 59.577 50.000 3.94 0.00 42.66 4.30
4116 13999 3.897239 CCATGCCCTTATGTAACCTTGA 58.103 45.455 0.00 0.00 0.00 3.02
4125 14008 7.545615 GCCCTTATGTAACCTTGATTCAAAAAG 59.454 37.037 0.01 0.00 0.00 2.27
4132 14015 8.626526 TGTAACCTTGATTCAAAAAGAAGGTAC 58.373 33.333 6.01 6.04 44.53 3.34
4177 14060 8.319143 AGTGGTGTGTAATTTGTCTTGTATAC 57.681 34.615 0.00 0.00 0.00 1.47
4179 14062 8.726988 GTGGTGTGTAATTTGTCTTGTATACAT 58.273 33.333 6.36 0.00 0.00 2.29
4186 14069 9.046296 GTAATTTGTCTTGTATACATCCTCCTG 57.954 37.037 6.36 0.00 0.00 3.86
4255 14138 0.539051 ATGGTTCGGCAAGAGAGAGG 59.461 55.000 0.00 0.00 0.00 3.69
4373 14256 6.758886 GCTGTTAGAATACTTGAGCTACACAT 59.241 38.462 0.00 0.00 0.00 3.21
4393 14276 4.202503 ACATGTCAATCCTTGAGTTGAGGT 60.203 41.667 0.00 0.00 41.01 3.85
4402 14285 3.443681 CCTTGAGTTGAGGTTTGTTGTGT 59.556 43.478 0.00 0.00 0.00 3.72
4434 14317 3.837213 ATTTGAACAGAAGCGTCCATG 57.163 42.857 0.00 0.00 0.00 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.037734 CTAACCGGGACCAAAAGGCT 59.962 55.000 6.32 0.00 0.00 4.58
2 3 1.530323 CACTAACCGGGACCAAAAGG 58.470 55.000 6.32 0.00 0.00 3.11
3 4 1.530323 CCACTAACCGGGACCAAAAG 58.470 55.000 6.32 0.00 0.00 2.27
4 5 0.537828 GCCACTAACCGGGACCAAAA 60.538 55.000 6.32 0.00 0.00 2.44
5 6 1.073548 GCCACTAACCGGGACCAAA 59.926 57.895 6.32 0.00 0.00 3.28
6 7 2.148052 TGCCACTAACCGGGACCAA 61.148 57.895 6.32 0.00 0.00 3.67
7 8 2.527123 TGCCACTAACCGGGACCA 60.527 61.111 6.32 0.00 0.00 4.02
8 9 2.046604 GTGCCACTAACCGGGACC 60.047 66.667 6.32 0.00 38.84 4.46
9 10 2.046604 GGTGCCACTAACCGGGAC 60.047 66.667 6.32 0.00 43.66 4.46
10 11 2.148052 TTGGTGCCACTAACCGGGA 61.148 57.895 6.32 0.00 40.86 5.14
11 12 1.969589 GTTGGTGCCACTAACCGGG 60.970 63.158 12.58 0.00 40.86 5.73
15 16 0.109723 TCCTGGTTGGTGCCACTAAC 59.890 55.000 14.96 14.96 38.63 2.34
16 17 0.109723 GTCCTGGTTGGTGCCACTAA 59.890 55.000 0.00 0.00 37.07 2.24
18 19 1.932156 TTGTCCTGGTTGGTGCCACT 61.932 55.000 0.00 0.00 37.07 4.00
19 20 1.040339 TTTGTCCTGGTTGGTGCCAC 61.040 55.000 0.00 0.00 37.07 5.01
20 21 0.324738 TTTTGTCCTGGTTGGTGCCA 60.325 50.000 0.00 0.00 37.07 4.92
21 22 0.389025 CTTTTGTCCTGGTTGGTGCC 59.611 55.000 0.00 0.00 37.07 5.01
23 24 1.681264 GGTCTTTTGTCCTGGTTGGTG 59.319 52.381 0.00 0.00 37.07 4.17
24 25 1.411074 GGGTCTTTTGTCCTGGTTGGT 60.411 52.381 0.00 0.00 37.07 3.67
25 26 1.133482 AGGGTCTTTTGTCCTGGTTGG 60.133 52.381 0.00 0.00 37.10 3.77
27 28 2.514160 AGAAGGGTCTTTTGTCCTGGTT 59.486 45.455 0.00 0.00 0.00 3.67
28 29 2.136026 AGAAGGGTCTTTTGTCCTGGT 58.864 47.619 0.00 0.00 0.00 4.00
30 31 1.882623 GCAGAAGGGTCTTTTGTCCTG 59.117 52.381 0.00 0.00 28.78 3.86
32 33 1.202940 AGGCAGAAGGGTCTTTTGTCC 60.203 52.381 0.21 2.77 28.78 4.02
33 34 1.882623 CAGGCAGAAGGGTCTTTTGTC 59.117 52.381 0.00 0.00 28.78 3.18
37 38 1.075659 GCCAGGCAGAAGGGTCTTT 59.924 57.895 6.55 0.00 28.78 2.52
38 39 1.719063 TTGCCAGGCAGAAGGGTCTT 61.719 55.000 15.50 0.00 40.61 3.01
39 40 2.134630 CTTGCCAGGCAGAAGGGTCT 62.135 60.000 15.50 0.00 40.61 3.85
40 41 1.676967 CTTGCCAGGCAGAAGGGTC 60.677 63.158 15.50 0.00 40.61 4.46
42 43 3.066814 GCTTGCCAGGCAGAAGGG 61.067 66.667 15.50 5.26 40.61 3.95
44 45 3.437795 CGGCTTGCCAGGCAGAAG 61.438 66.667 15.50 11.68 46.30 2.85
74 75 2.750657 CCAGGACAGATGGGGCTCC 61.751 68.421 0.00 0.00 33.94 4.70
77 78 1.077429 GAACCAGGACAGATGGGGC 60.077 63.158 0.00 0.00 42.48 5.80
78 79 1.221840 CGAACCAGGACAGATGGGG 59.778 63.158 0.00 0.00 42.48 4.96
79 80 0.391661 CACGAACCAGGACAGATGGG 60.392 60.000 0.00 0.00 42.48 4.00
80 81 0.391661 CCACGAACCAGGACAGATGG 60.392 60.000 0.00 0.00 43.87 3.51
81 82 0.391661 CCCACGAACCAGGACAGATG 60.392 60.000 0.00 0.00 0.00 2.90
82 83 1.983224 CCCACGAACCAGGACAGAT 59.017 57.895 0.00 0.00 0.00 2.90
84 85 2.358737 GCCCACGAACCAGGACAG 60.359 66.667 0.00 0.00 0.00 3.51
85 86 4.308458 CGCCCACGAACCAGGACA 62.308 66.667 0.00 0.00 43.93 4.02
95 96 2.203972 TTAGTCTCGGTTCGCCCACG 62.204 60.000 0.00 0.00 42.01 4.94
97 98 0.245539 CTTTAGTCTCGGTTCGCCCA 59.754 55.000 0.00 0.00 0.00 5.36
98 99 0.459759 CCTTTAGTCTCGGTTCGCCC 60.460 60.000 0.00 0.00 0.00 6.13
99 100 0.245813 ACCTTTAGTCTCGGTTCGCC 59.754 55.000 0.00 0.00 0.00 5.54
100 101 1.336609 ACACCTTTAGTCTCGGTTCGC 60.337 52.381 0.00 0.00 0.00 4.70
101 102 2.719426 ACACCTTTAGTCTCGGTTCG 57.281 50.000 0.00 0.00 0.00 3.95
102 103 3.064931 CCAACACCTTTAGTCTCGGTTC 58.935 50.000 0.00 0.00 0.00 3.62
104 105 1.346722 CCCAACACCTTTAGTCTCGGT 59.653 52.381 0.00 0.00 0.00 4.69
105 106 1.346722 ACCCAACACCTTTAGTCTCGG 59.653 52.381 0.00 0.00 0.00 4.63
106 107 2.833631 ACCCAACACCTTTAGTCTCG 57.166 50.000 0.00 0.00 0.00 4.04
107 108 6.060136 ACTAAAACCCAACACCTTTAGTCTC 58.940 40.000 0.00 0.00 39.30 3.36
108 109 6.009908 ACTAAAACCCAACACCTTTAGTCT 57.990 37.500 0.00 0.00 39.30 3.24
110 111 6.064060 GGTACTAAAACCCAACACCTTTAGT 58.936 40.000 10.07 10.07 43.50 2.24
111 112 5.179929 CGGTACTAAAACCCAACACCTTTAG 59.820 44.000 0.00 0.00 37.38 1.85
112 113 5.062528 CGGTACTAAAACCCAACACCTTTA 58.937 41.667 0.00 0.00 36.03 1.85
113 114 3.884693 CGGTACTAAAACCCAACACCTTT 59.115 43.478 0.00 0.00 36.03 3.11
114 115 3.136260 TCGGTACTAAAACCCAACACCTT 59.864 43.478 0.00 0.00 36.03 3.50
115 116 2.705127 TCGGTACTAAAACCCAACACCT 59.295 45.455 0.00 0.00 36.03 4.00
116 117 2.807967 GTCGGTACTAAAACCCAACACC 59.192 50.000 0.00 0.00 36.03 4.16
117 118 3.248363 GTGTCGGTACTAAAACCCAACAC 59.752 47.826 9.32 9.32 41.57 3.32
118 119 3.134442 AGTGTCGGTACTAAAACCCAACA 59.866 43.478 0.00 0.00 36.03 3.33
119 120 3.732212 AGTGTCGGTACTAAAACCCAAC 58.268 45.455 0.00 0.00 36.03 3.77
120 121 4.420522 AAGTGTCGGTACTAAAACCCAA 57.579 40.909 0.00 0.00 36.03 4.12
121 122 4.420522 AAAGTGTCGGTACTAAAACCCA 57.579 40.909 0.00 0.00 36.03 4.51
122 123 5.541845 ACTAAAGTGTCGGTACTAAAACCC 58.458 41.667 0.00 0.00 36.03 4.11
124 125 5.635280 GGGACTAAAGTGTCGGTACTAAAAC 59.365 44.000 0.00 0.00 37.81 2.43
126 127 4.082787 CGGGACTAAAGTGTCGGTACTAAA 60.083 45.833 0.00 0.00 37.81 1.85
129 130 1.815003 CGGGACTAAAGTGTCGGTACT 59.185 52.381 0.00 0.00 37.81 2.73
130 131 1.135286 CCGGGACTAAAGTGTCGGTAC 60.135 57.143 0.00 0.00 37.81 3.34
131 132 1.176527 CCGGGACTAAAGTGTCGGTA 58.823 55.000 0.00 0.00 37.81 4.02
133 134 0.319405 AACCGGGACTAAAGTGTCGG 59.681 55.000 6.32 15.12 42.22 4.79
134 135 1.706443 GAACCGGGACTAAAGTGTCG 58.294 55.000 6.32 0.00 37.81 4.35
136 137 0.319405 CCGAACCGGGACTAAAGTGT 59.681 55.000 6.32 0.00 44.15 3.55
137 138 3.132863 CCGAACCGGGACTAAAGTG 57.867 57.895 6.32 0.00 44.15 3.16
154 155 3.451894 CCATTTGTCCCGGCTGCC 61.452 66.667 9.11 9.11 0.00 4.85
155 156 3.451894 CCCATTTGTCCCGGCTGC 61.452 66.667 0.00 0.00 0.00 5.25
158 159 0.968393 TAAAGCCCATTTGTCCCGGC 60.968 55.000 0.00 0.00 41.96 6.13
159 160 1.408702 CATAAAGCCCATTTGTCCCGG 59.591 52.381 0.00 0.00 32.01 5.73
160 161 2.374184 TCATAAAGCCCATTTGTCCCG 58.626 47.619 0.00 0.00 32.01 5.14
162 163 3.428862 CGGTTCATAAAGCCCATTTGTCC 60.429 47.826 0.00 0.00 32.01 4.02
163 164 3.428862 CCGGTTCATAAAGCCCATTTGTC 60.429 47.826 0.00 0.00 32.01 3.18
165 166 2.159114 CCCGGTTCATAAAGCCCATTTG 60.159 50.000 0.00 0.00 32.01 2.32
170 171 0.034863 TGTCCCGGTTCATAAAGCCC 60.035 55.000 0.00 0.00 0.00 5.19
172 173 3.428862 CCATTTGTCCCGGTTCATAAAGC 60.429 47.826 0.00 0.00 0.00 3.51
173 174 3.130340 CCCATTTGTCCCGGTTCATAAAG 59.870 47.826 0.00 0.00 0.00 1.85
176 177 1.064314 CCCCATTTGTCCCGGTTCATA 60.064 52.381 0.00 0.00 0.00 2.15
178 179 1.075836 CCCCATTTGTCCCGGTTCA 59.924 57.895 0.00 0.00 0.00 3.18
179 180 2.348104 GCCCCATTTGTCCCGGTTC 61.348 63.158 0.00 0.00 0.00 3.62
181 182 2.380571 AAAGCCCCATTTGTCCCGGT 62.381 55.000 0.00 0.00 0.00 5.28
182 183 1.191489 AAAAGCCCCATTTGTCCCGG 61.191 55.000 0.00 0.00 0.00 5.73
183 184 0.684535 AAAAAGCCCCATTTGTCCCG 59.315 50.000 0.00 0.00 0.00 5.14
184 185 1.977854 AGAAAAAGCCCCATTTGTCCC 59.022 47.619 0.00 0.00 28.13 4.46
185 186 3.832490 AGTAGAAAAAGCCCCATTTGTCC 59.168 43.478 0.00 0.00 28.13 4.02
186 187 5.710567 ACTAGTAGAAAAAGCCCCATTTGTC 59.289 40.000 3.59 0.00 0.00 3.18
187 188 5.476945 CACTAGTAGAAAAAGCCCCATTTGT 59.523 40.000 3.59 0.00 0.00 2.83
188 189 5.710099 TCACTAGTAGAAAAAGCCCCATTTG 59.290 40.000 3.59 0.00 0.00 2.32
192 193 3.263425 CCTCACTAGTAGAAAAAGCCCCA 59.737 47.826 3.59 0.00 0.00 4.96
193 194 3.370633 CCCTCACTAGTAGAAAAAGCCCC 60.371 52.174 3.59 0.00 0.00 5.80
194 195 3.518303 TCCCTCACTAGTAGAAAAAGCCC 59.482 47.826 3.59 0.00 0.00 5.19
195 196 4.383226 CCTCCCTCACTAGTAGAAAAAGCC 60.383 50.000 3.59 0.00 0.00 4.35
196 197 4.383226 CCCTCCCTCACTAGTAGAAAAAGC 60.383 50.000 3.59 0.00 0.00 3.51
199 200 4.572223 CCTCCCTCCCTCACTAGTAGAAAA 60.572 50.000 3.59 0.00 0.00 2.29
200 201 3.052793 CCTCCCTCCCTCACTAGTAGAAA 60.053 52.174 3.59 0.00 0.00 2.52
201 202 2.514582 CCTCCCTCCCTCACTAGTAGAA 59.485 54.545 3.59 0.00 0.00 2.10
203 204 2.136863 TCCTCCCTCCCTCACTAGTAG 58.863 57.143 0.00 0.00 0.00 2.57
204 205 2.298619 TCCTCCCTCCCTCACTAGTA 57.701 55.000 0.00 0.00 0.00 1.82
205 206 1.394532 TTCCTCCCTCCCTCACTAGT 58.605 55.000 0.00 0.00 0.00 2.57
206 207 2.785357 ATTCCTCCCTCCCTCACTAG 57.215 55.000 0.00 0.00 0.00 2.57
208 209 3.718956 CAATTATTCCTCCCTCCCTCACT 59.281 47.826 0.00 0.00 0.00 3.41
263 4668 2.416747 CGTGCTCCATCTTCAACTTCA 58.583 47.619 0.00 0.00 0.00 3.02
324 4733 5.717654 GGTGGAAAATACATAAAGGGACCAA 59.282 40.000 0.00 0.00 0.00 3.67
464 4879 7.308770 CGCACCAGTATGAATTATGATGGAAAT 60.309 37.037 0.00 0.00 39.69 2.17
534 4949 5.464965 GCAAATCTGCCTCATTTCATTTG 57.535 39.130 0.00 0.00 43.26 2.32
549 4965 2.959967 TGGCGAACATGGCAAATCT 58.040 47.368 0.00 0.00 41.96 2.40
564 4980 4.386652 TCGAGTACGAAATGTTTAGTTGGC 59.613 41.667 0.00 0.00 45.74 4.52
580 4996 2.097541 GCAAGTTGTGTTCGTCGAGTAC 60.098 50.000 4.48 0.00 0.00 2.73
582 4998 0.928229 GCAAGTTGTGTTCGTCGAGT 59.072 50.000 4.48 0.00 0.00 4.18
623 5045 6.539103 CCAGAGAAGGTAATACTTTTAGGTGC 59.461 42.308 0.00 0.00 0.00 5.01
624 5046 7.048512 CCCAGAGAAGGTAATACTTTTAGGTG 58.951 42.308 0.00 0.00 0.00 4.00
635 5057 2.368875 CCGCATACCCAGAGAAGGTAAT 59.631 50.000 0.00 0.00 42.99 1.89
640 5062 1.410004 TACCCGCATACCCAGAGAAG 58.590 55.000 0.00 0.00 0.00 2.85
666 5091 4.646945 TGGTGATACTTCTTCTAGAGGCTG 59.353 45.833 0.00 0.00 0.00 4.85
838 7412 5.023452 TGGTTTGAGAGTAGCCAGAATAGA 58.977 41.667 0.00 0.00 0.00 1.98
860 7434 3.976793 ATGAACTGACTGCTGTTTGTG 57.023 42.857 0.00 0.00 36.47 3.33
895 7469 5.887598 TGGCAACGAGGTTAGTACTTCTATA 59.112 40.000 0.00 0.00 42.51 1.31
896 7470 4.708421 TGGCAACGAGGTTAGTACTTCTAT 59.292 41.667 0.00 0.00 42.51 1.98
952 7526 3.120165 GCTTTTGCTTGGTGAGTACTAGC 60.120 47.826 7.51 7.51 43.35 3.42
1088 7664 1.466866 CGTAGTTGGCAGATCGTCGAA 60.467 52.381 0.00 0.00 0.00 3.71
1092 7668 0.179134 GAGCGTAGTTGGCAGATCGT 60.179 55.000 0.00 0.00 0.00 3.73
1167 7746 6.482641 CAGCTGATAAATGTACTTGATCTGCT 59.517 38.462 8.42 19.62 46.42 4.24
1242 7828 6.046593 TGCACGGAGTAATTTCCATAAGTAG 58.953 40.000 0.00 0.00 41.61 2.57
1402 9947 0.310543 CAGCGATCTCCTCCTCGAAG 59.689 60.000 0.00 0.00 37.05 3.79
1560 10228 5.317733 AGTGTCCGTTTTTCACATTTCAA 57.682 34.783 0.00 0.00 34.94 2.69
1598 10311 8.742554 ATAAAAATCTGTTGCTTTAGTTTCCG 57.257 30.769 0.00 0.00 0.00 4.30
1684 10414 5.090083 TCTGTGTCAAACGCAAAAAGTTAC 58.910 37.500 0.00 0.00 38.24 2.50
1685 10415 5.298197 TCTGTGTCAAACGCAAAAAGTTA 57.702 34.783 0.00 0.00 38.24 2.24
1698 10428 7.443879 TCAGTTAAGCATACAAATCTGTGTCAA 59.556 33.333 0.00 0.00 36.96 3.18
2142 11864 5.677567 ACTATGTGAAGTAATTAACGGGGG 58.322 41.667 0.00 0.00 0.00 5.40
2143 11865 6.819649 TCAACTATGTGAAGTAATTAACGGGG 59.180 38.462 0.00 0.00 0.00 5.73
2556 12330 9.138062 CACATGCTACTCTATCACAAGATTATC 57.862 37.037 0.00 0.00 35.67 1.75
2560 12334 6.477053 ACACATGCTACTCTATCACAAGAT 57.523 37.500 0.00 0.00 38.29 2.40
2855 12656 3.064207 TGTCTCGCCACTACAAAATCAC 58.936 45.455 0.00 0.00 0.00 3.06
3249 13078 5.174395 AGCTGTTCTCTGACATGTGAATAC 58.826 41.667 1.15 0.00 0.00 1.89
3302 13131 4.952335 CCAAGCTTCCATGGTAAGATCTTT 59.048 41.667 14.36 10.48 31.84 2.52
3580 13410 9.606631 ACCTACAGATAACATCTTTCAAAGATC 57.393 33.333 9.87 0.00 46.20 2.75
3790 13620 6.985645 TGGGTGAAGAAAAATGAAAATGACAG 59.014 34.615 0.00 0.00 0.00 3.51
3866 13696 3.080319 GAGGAAGAAGCAAATGCAGAGT 58.920 45.455 8.28 0.00 45.16 3.24
3881 13711 0.988145 TATGCCCTGGGTGGAGGAAG 60.988 60.000 15.56 0.00 38.35 3.46
3888 13718 2.757124 GGGAGGTATGCCCTGGGTG 61.757 68.421 15.56 0.00 46.51 4.61
3905 13735 4.222336 AGAGAGAGAGAGAGAGAGAGAGG 58.778 52.174 0.00 0.00 0.00 3.69
4023 13906 2.356741 CCATGGTGGAGTTAAATCGGGT 60.357 50.000 2.57 0.00 40.96 5.28
4105 13988 8.250143 ACCTTCTTTTTGAATCAAGGTTACAT 57.750 30.769 0.00 0.00 43.59 2.29
4116 13999 8.211629 ACTAGTCACAGTACCTTCTTTTTGAAT 58.788 33.333 0.00 0.00 33.71 2.57
4177 14060 3.583806 GCTCGTATTGATCAGGAGGATG 58.416 50.000 13.53 5.93 36.00 3.51
4179 14062 1.964223 GGCTCGTATTGATCAGGAGGA 59.036 52.381 13.53 8.42 0.00 3.71
4255 14138 7.542477 GGCCTCAACTCTAAAAAGCTTTTATTC 59.458 37.037 24.11 4.40 0.00 1.75
4321 14204 4.883585 TGATGTAAAATCCCATGCTCTGAC 59.116 41.667 0.00 0.00 0.00 3.51
4393 14276 7.915923 TCAAATTTATACGCAAGACACAACAAA 59.084 29.630 0.00 0.00 43.62 2.83
4402 14285 7.021196 GCTTCTGTTCAAATTTATACGCAAGA 58.979 34.615 12.26 3.46 43.62 3.02
4434 14317 3.877508 ACACTGCCAGTTTAAGTTCAGTC 59.122 43.478 0.00 0.00 33.08 3.51


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

AutoCloner maintained by Alex Coulton.