Multiple sequence alignment - TraesCS6D01G391000

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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 TraesCS6D01G391000 chr6D 100.000 3410 0 0 1 3410 466132198 466128789 0.000000e+00 6298.0
1 TraesCS6D01G391000 chr6D 86.553 1346 154 14 1199 2536 462839724 462841050 0.000000e+00 1458.0
2 TraesCS6D01G391000 chr6D 96.693 756 25 0 2655 3410 466071706 466070951 0.000000e+00 1258.0
3 TraesCS6D01G391000 chr6D 84.455 431 34 12 72 480 465968368 465967949 8.870000e-106 394.0
4 TraesCS6D01G391000 chr6D 83.554 377 25 15 72 424 465746342 465745979 5.490000e-83 318.0
5 TraesCS6D01G391000 chr6D 81.271 299 38 10 644 933 465967739 465967450 3.420000e-55 226.0
6 TraesCS6D01G391000 chr6D 88.202 178 17 2 644 820 465745778 465745604 3.450000e-50 209.0
7 TraesCS6D01G391000 chr6D 90.476 147 8 2 516 658 465967946 465967802 4.490000e-44 189.0
8 TraesCS6D01G391000 chr6D 99.029 103 1 0 2564 2666 466129735 466129633 5.810000e-43 185.0
9 TraesCS6D01G391000 chr6D 90.977 133 9 2 526 658 465745970 465745841 3.500000e-40 176.0
10 TraesCS6D01G391000 chr6D 93.056 72 5 0 1 72 465747865 465747794 4.650000e-19 106.0
11 TraesCS6D01G391000 chr6D 96.296 54 1 1 653 705 465745702 465745649 1.690000e-13 87.9
12 TraesCS6D01G391000 chr6D 96.296 54 1 1 653 705 465967663 465967610 1.690000e-13 87.9
13 TraesCS6D01G391000 chr6D 97.727 44 1 0 653 696 466131480 466131437 3.650000e-10 76.8
14 TraesCS6D01G391000 chr6D 97.727 44 1 0 719 762 466131546 466131503 3.650000e-10 76.8
15 TraesCS6D01G391000 chr6A 89.875 2074 122 21 486 2515 612126288 612124259 0.000000e+00 2586.0
16 TraesCS6D01G391000 chr6A 87.985 1315 150 7 1228 2536 609566395 609565083 0.000000e+00 1546.0
17 TraesCS6D01G391000 chr6A 94.841 756 32 2 2655 3410 519491318 519492066 0.000000e+00 1173.0
18 TraesCS6D01G391000 chr6A 88.175 389 25 10 72 441 612126688 612126302 8.680000e-121 444.0
19 TraesCS6D01G391000 chr6A 84.065 433 39 13 72 480 612111056 612110630 1.150000e-104 390.0
20 TraesCS6D01G391000 chr6A 87.019 208 22 4 109 314 579837268 579837064 2.650000e-56 230.0
21 TraesCS6D01G391000 chr6A 87.719 171 17 2 651 820 612110274 612110107 2.680000e-46 196.0
22 TraesCS6D01G391000 chr6A 88.356 146 12 2 516 658 612110627 612110484 1.630000e-38 171.0
23 TraesCS6D01G391000 chr6A 96.296 54 1 1 653 705 612110205 612110152 1.690000e-13 87.9
24 TraesCS6D01G391000 chr6A 87.500 72 7 2 2566 2636 609565153 609565083 7.840000e-12 82.4
25 TraesCS6D01G391000 chr6A 97.727 44 1 0 653 696 612126042 612125999 3.650000e-10 76.8
26 TraesCS6D01G391000 chr6A 90.566 53 4 1 719 770 612126109 612126057 6.110000e-08 69.4
27 TraesCS6D01G391000 chr6B 93.883 1177 65 4 1386 2555 710658600 710657424 0.000000e+00 1768.0
28 TraesCS6D01G391000 chr6B 93.608 1142 66 4 1421 2555 711236831 711235690 0.000000e+00 1698.0
29 TraesCS6D01G391000 chr6B 85.083 1267 174 12 1299 2555 710202048 710200787 0.000000e+00 1279.0
30 TraesCS6D01G391000 chr6B 82.609 713 98 16 1108 1812 705520995 705520301 1.050000e-169 606.0
31 TraesCS6D01G391000 chr6B 83.397 524 51 20 72 568 710644170 710643656 1.440000e-123 453.0
32 TraesCS6D01G391000 chr6B 90.972 144 11 2 515 658 711238348 711238207 3.470000e-45 193.0
33 TraesCS6D01G391000 chr6B 94.624 93 4 1 2564 2655 710657516 710657424 3.550000e-30 143.0
34 TraesCS6D01G391000 chr6B 94.624 93 4 1 2564 2655 711235782 711235690 3.550000e-30 143.0
35 TraesCS6D01G391000 chr6B 95.588 68 3 0 1 68 710645101 710645034 3.600000e-20 110.0
36 TraesCS6D01G391000 chr6B 95.588 68 3 0 1 68 711239680 711239613 3.600000e-20 110.0
37 TraesCS6D01G391000 chr6B 88.000 75 9 0 845 919 711723469 711723543 4.690000e-14 89.8
38 TraesCS6D01G391000 chr1D 87.135 1337 148 16 1232 2555 52681667 52682992 0.000000e+00 1495.0
39 TraesCS6D01G391000 chr1D 95.238 756 32 1 2655 3410 423771654 423770903 0.000000e+00 1194.0
40 TraesCS6D01G391000 chr1D 94.444 756 38 1 2655 3410 423798890 423798139 0.000000e+00 1160.0
41 TraesCS6D01G391000 chr5D 95.370 756 31 1 2655 3410 74486071 74486822 0.000000e+00 1199.0
42 TraesCS6D01G391000 chr5D 95.106 756 33 3 2655 3410 346046940 346046189 0.000000e+00 1188.0
43 TraesCS6D01G391000 chr5D 94.709 756 31 3 2655 3410 152806291 152807037 0.000000e+00 1166.0
44 TraesCS6D01G391000 chr5B 94.459 758 38 1 2653 3410 386911172 386911925 0.000000e+00 1164.0
45 TraesCS6D01G391000 chr3D 94.444 756 38 1 2655 3410 450112380 450111629 0.000000e+00 1160.0
46 TraesCS6D01G391000 chr3D 86.512 215 21 6 101 314 382744707 382744914 2.650000e-56 230.0
47 TraesCS6D01G391000 chr1A 87.411 985 103 13 1581 2555 52481899 52482872 0.000000e+00 1112.0
48 TraesCS6D01G391000 chr1B 87.726 831 99 3 1362 2191 84127245 84128073 0.000000e+00 966.0
49 TraesCS6D01G391000 chr1B 82.181 376 41 16 2189 2555 84159304 84159662 1.990000e-77 300.0
50 TraesCS6D01G391000 chr2B 88.832 197 19 3 109 303 417074798 417074993 4.400000e-59 239.0
51 TraesCS6D01G391000 chr2D 87.019 208 22 4 109 314 2244364 2244568 2.650000e-56 230.0


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 TraesCS6D01G391000 chr6D 466128789 466132198 3409 True 1659.150 6298 98.62075 1 3410 4 chr6D.!!$R4 3409
1 TraesCS6D01G391000 chr6D 462839724 462841050 1326 False 1458.000 1458 86.55300 1199 2536 1 chr6D.!!$F1 1337
2 TraesCS6D01G391000 chr6D 466070951 466071706 755 True 1258.000 1258 96.69300 2655 3410 1 chr6D.!!$R1 755
3 TraesCS6D01G391000 chr6D 465967450 465968368 918 True 224.225 394 88.12450 72 933 4 chr6D.!!$R3 861
4 TraesCS6D01G391000 chr6A 519491318 519492066 748 False 1173.000 1173 94.84100 2655 3410 1 chr6A.!!$F1 755
5 TraesCS6D01G391000 chr6A 609565083 609566395 1312 True 814.200 1546 87.74250 1228 2636 2 chr6A.!!$R2 1408
6 TraesCS6D01G391000 chr6A 612124259 612126688 2429 True 794.050 2586 91.58575 72 2515 4 chr6A.!!$R4 2443
7 TraesCS6D01G391000 chr6A 612110107 612111056 949 True 211.225 390 89.10900 72 820 4 chr6A.!!$R3 748
8 TraesCS6D01G391000 chr6B 710200787 710202048 1261 True 1279.000 1279 85.08300 1299 2555 1 chr6B.!!$R2 1256
9 TraesCS6D01G391000 chr6B 710657424 710658600 1176 True 955.500 1768 94.25350 1386 2655 2 chr6B.!!$R4 1269
10 TraesCS6D01G391000 chr6B 705520301 705520995 694 True 606.000 606 82.60900 1108 1812 1 chr6B.!!$R1 704
11 TraesCS6D01G391000 chr6B 711235690 711239680 3990 True 536.000 1698 93.69800 1 2655 4 chr6B.!!$R5 2654
12 TraesCS6D01G391000 chr6B 710643656 710645101 1445 True 281.500 453 89.49250 1 568 2 chr6B.!!$R3 567
13 TraesCS6D01G391000 chr1D 52681667 52682992 1325 False 1495.000 1495 87.13500 1232 2555 1 chr1D.!!$F1 1323
14 TraesCS6D01G391000 chr1D 423770903 423771654 751 True 1194.000 1194 95.23800 2655 3410 1 chr1D.!!$R1 755
15 TraesCS6D01G391000 chr1D 423798139 423798890 751 True 1160.000 1160 94.44400 2655 3410 1 chr1D.!!$R2 755
16 TraesCS6D01G391000 chr5D 74486071 74486822 751 False 1199.000 1199 95.37000 2655 3410 1 chr5D.!!$F1 755
17 TraesCS6D01G391000 chr5D 346046189 346046940 751 True 1188.000 1188 95.10600 2655 3410 1 chr5D.!!$R1 755
18 TraesCS6D01G391000 chr5D 152806291 152807037 746 False 1166.000 1166 94.70900 2655 3410 1 chr5D.!!$F2 755
19 TraesCS6D01G391000 chr5B 386911172 386911925 753 False 1164.000 1164 94.45900 2653 3410 1 chr5B.!!$F1 757
20 TraesCS6D01G391000 chr3D 450111629 450112380 751 True 1160.000 1160 94.44400 2655 3410 1 chr3D.!!$R1 755
21 TraesCS6D01G391000 chr1A 52481899 52482872 973 False 1112.000 1112 87.41100 1581 2555 1 chr1A.!!$F1 974
22 TraesCS6D01G391000 chr1B 84127245 84128073 828 False 966.000 966 87.72600 1362 2191 1 chr1B.!!$F1 829

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
158 1087 0.028374 ACGCGTGTAAAGTTTGGTGC 59.972 50.0 12.93 0.0 0.00 5.01 F
841 2079 0.109342 CGCCTTAGCCCATCATTCCT 59.891 55.0 0.00 0.0 34.57 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1491 3435 1.349026 CTTTGGCAGGAAGTCCAGAGA 59.651 52.381 0.0 0.0 36.89 3.1 R
2644 4605 0.694771 TGTCCTTTCAGCAGCCATCT 59.305 50.000 0.0 0.0 0.00 2.9 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
31 32 0.034863 TTGTAAGGTGGGATTCGGCC 60.035 55.000 0.00 0.00 0.00 6.13
58 59 3.055819 GCCTTGAAGATAGTGTCAGTGGA 60.056 47.826 0.00 0.00 0.00 4.02
61 62 6.463614 GCCTTGAAGATAGTGTCAGTGGATAT 60.464 42.308 0.00 0.00 0.00 1.63
68 69 7.946207 AGATAGTGTCAGTGGATATACTTGTG 58.054 38.462 0.00 0.00 0.00 3.33
69 70 5.344743 AGTGTCAGTGGATATACTTGTGG 57.655 43.478 0.00 0.00 0.00 4.17
70 71 5.023452 AGTGTCAGTGGATATACTTGTGGA 58.977 41.667 0.00 0.00 0.00 4.02
158 1087 0.028374 ACGCGTGTAAAGTTTGGTGC 59.972 50.000 12.93 0.00 0.00 5.01
160 1089 1.659211 CGCGTGTAAAGTTTGGTGCTC 60.659 52.381 0.00 0.00 0.00 4.26
332 1276 9.716507 GTACACATCCATATAAACATGTTGAAC 57.283 33.333 12.82 0.00 0.00 3.18
378 1334 6.687604 ACCATTTTGGCACTACTCAAAATAC 58.312 36.000 11.90 0.00 45.88 1.89
380 1336 7.039082 ACCATTTTGGCACTACTCAAAATACAT 60.039 33.333 11.90 1.68 45.88 2.29
444 1400 5.011090 TGAGTACTGAGCACCATATTGTC 57.989 43.478 0.00 0.00 0.00 3.18
467 1425 1.088306 TTTTGTCGTGTTTCGCTGGT 58.912 45.000 0.00 0.00 39.67 4.00
487 1445 3.879295 GGTGGATCTGTGTCATTACATGG 59.121 47.826 0.00 0.00 38.08 3.66
490 1448 4.019411 TGGATCTGTGTCATTACATGGTGT 60.019 41.667 0.00 0.00 38.08 4.16
491 1449 4.943705 GGATCTGTGTCATTACATGGTGTT 59.056 41.667 0.00 0.00 38.08 3.32
508 1468 3.311596 GGTGTTTATGTCTATGTTCGGGC 59.688 47.826 0.00 0.00 0.00 6.13
549 1513 7.073265 GCTACATTTTTGCGAAGTACTACAAA 58.927 34.615 12.23 12.23 0.00 2.83
568 1532 3.848272 AAAAAGGGATGCACATACACG 57.152 42.857 0.00 0.00 0.00 4.49
663 1705 7.401955 TGCATATGTAAATGGTGATGAACAA 57.598 32.000 4.29 0.00 0.00 2.83
669 1711 1.488390 ATGGTGATGAACAATGGGCC 58.512 50.000 0.00 0.00 0.00 5.80
696 1922 0.399454 ATCATTCCTCCATCGCAGGG 59.601 55.000 0.00 0.00 0.00 4.45
764 1991 2.377810 ATTCCTCCATCGCAGGCCA 61.378 57.895 5.01 0.00 0.00 5.36
767 1994 2.046023 CTCCATCGCAGGCCACAA 60.046 61.111 5.01 0.00 0.00 3.33
771 1998 0.594602 CCATCGCAGGCCACAATATG 59.405 55.000 5.01 1.61 0.00 1.78
774 2001 2.700722 TCGCAGGCCACAATATGTAA 57.299 45.000 5.01 0.00 0.00 2.41
775 2002 3.207265 TCGCAGGCCACAATATGTAAT 57.793 42.857 5.01 0.00 0.00 1.89
776 2003 3.550820 TCGCAGGCCACAATATGTAATT 58.449 40.909 5.01 0.00 0.00 1.40
816 2049 4.900259 CCGCCCCCTCCCACCTAT 62.900 72.222 0.00 0.00 0.00 2.57
820 2058 1.770518 CCCCCTCCCACCTATGGTC 60.771 68.421 0.00 0.00 45.66 4.02
821 2059 1.004230 CCCCTCCCACCTATGGTCA 59.996 63.158 0.00 0.00 45.66 4.02
823 2061 1.686325 CCCTCCCACCTATGGTCACG 61.686 65.000 0.00 0.00 45.66 4.35
826 2064 2.367202 CCCACCTATGGTCACGCCT 61.367 63.158 0.00 0.00 45.66 5.52
827 2065 1.602237 CCACCTATGGTCACGCCTT 59.398 57.895 0.00 0.00 41.64 4.35
830 2068 0.464452 ACCTATGGTCACGCCTTAGC 59.536 55.000 0.00 0.00 41.28 3.09
831 2069 0.249911 CCTATGGTCACGCCTTAGCC 60.250 60.000 0.00 0.00 41.28 3.93
834 2072 1.635817 ATGGTCACGCCTTAGCCCAT 61.636 55.000 0.00 0.00 38.35 4.00
835 2073 1.523938 GGTCACGCCTTAGCCCATC 60.524 63.158 0.00 0.00 34.57 3.51
837 2075 0.179045 GTCACGCCTTAGCCCATCAT 60.179 55.000 0.00 0.00 34.57 2.45
838 2076 0.546122 TCACGCCTTAGCCCATCATT 59.454 50.000 0.00 0.00 34.57 2.57
839 2077 0.947244 CACGCCTTAGCCCATCATTC 59.053 55.000 0.00 0.00 34.57 2.67
840 2078 0.179018 ACGCCTTAGCCCATCATTCC 60.179 55.000 0.00 0.00 34.57 3.01
841 2079 0.109342 CGCCTTAGCCCATCATTCCT 59.891 55.000 0.00 0.00 34.57 3.36
842 2080 1.879796 CGCCTTAGCCCATCATTCCTC 60.880 57.143 0.00 0.00 34.57 3.71
862 2100 0.180171 CATCGGGGGTCAGTTATGCA 59.820 55.000 0.00 0.00 0.00 3.96
897 2138 2.512355 GCCGATCTTCCCCCTCTCC 61.512 68.421 0.00 0.00 0.00 3.71
936 2192 3.376078 CCAGTGCCGCTTGCCAAT 61.376 61.111 0.00 0.00 40.16 3.16
951 2210 2.294233 TGCCAATCTTCAGCTGTCAAAC 59.706 45.455 14.67 0.00 0.00 2.93
1028 2803 5.305585 GGTGAGTACATTGTCCTCTTTTCA 58.694 41.667 10.31 0.00 0.00 2.69
1042 2817 5.412594 TCCTCTTTTCATTGACCGATCTTTG 59.587 40.000 0.00 0.00 0.00 2.77
1106 2886 4.680110 CAGAGCTGAAAATTTGCACTTCTG 59.320 41.667 15.68 15.68 0.00 3.02
1174 2959 6.183360 CGACTGAATCAAAATTGCATCTTTGG 60.183 38.462 16.68 5.94 34.07 3.28
1176 2961 6.993902 ACTGAATCAAAATTGCATCTTTGGTT 59.006 30.769 15.64 15.64 38.30 3.67
1491 3435 4.282195 AGCTGTCTCGGCTTATAATAAGCT 59.718 41.667 0.00 0.00 44.48 3.74
1548 3492 4.939439 CCGGCATATCTGATGATGAATTGA 59.061 41.667 0.00 0.00 34.32 2.57
1659 3603 7.251281 CACAACGTTCTACTTGAGAGATGATA 58.749 38.462 0.00 0.00 34.93 2.15
1741 3685 7.750229 ATGTCAAATTCAGTGTTATGACAGT 57.250 32.000 19.98 0.00 46.97 3.55
1899 3843 2.357952 TCAGACATATCCAACGTCCTCG 59.642 50.000 0.00 0.00 43.34 4.63
1950 3894 5.464057 CGTTTGTACAATTGTGACTCTGGTA 59.536 40.000 21.42 0.00 0.00 3.25
2001 3948 4.279145 TCGTCTCAGGGAGCTTAGTATTT 58.721 43.478 0.00 0.00 0.00 1.40
2054 4001 0.398318 GGCTCCCTCAACTCACAACT 59.602 55.000 0.00 0.00 0.00 3.16
2207 4154 4.465660 AGCGGTACCTCTATACGAGATCTA 59.534 45.833 10.90 0.00 42.62 1.98
2226 4174 8.593945 AGATCTAAAGTTGGCATTTAATTCCA 57.406 30.769 0.00 0.00 0.00 3.53
2257 4206 4.631131 TGTCGAGATTGTCACTTTGTGAT 58.369 39.130 3.65 0.00 44.63 3.06
2272 4229 4.572985 TTGTGATTTGTGGCTTCTTCTG 57.427 40.909 0.00 0.00 0.00 3.02
2273 4230 2.294233 TGTGATTTGTGGCTTCTTCTGC 59.706 45.455 0.00 0.00 0.00 4.26
2317 4274 4.927557 TGCAGATTTGGGTGCAGT 57.072 50.000 0.00 0.00 44.70 4.40
2319 4276 1.236616 TGCAGATTTGGGTGCAGTCG 61.237 55.000 0.00 0.00 44.70 4.18
2324 4281 2.238646 AGATTTGGGTGCAGTCGGAATA 59.761 45.455 0.00 0.00 0.00 1.75
2325 4282 1.816074 TTTGGGTGCAGTCGGAATAC 58.184 50.000 0.00 0.00 0.00 1.89
2355 4312 1.202758 TGTCTGGCATCTGTTTTCCGT 60.203 47.619 0.00 0.00 0.00 4.69
2368 4325 4.706035 TGTTTTCCGTCAGCTAAGGTTTA 58.294 39.130 0.00 0.00 0.00 2.01
2408 4365 4.170053 TCCTGAAGGGTATGATCTCACCTA 59.830 45.833 13.78 1.79 35.04 3.08
2475 4432 9.424319 CTATACATGATGGTATGTGTTTACCTC 57.576 37.037 0.00 0.00 41.90 3.85
2538 4499 5.877012 TGCAAGATTCTTTCACCAGATAGAC 59.123 40.000 0.00 0.00 32.59 2.59
2555 4516 1.884579 AGACACAAAAGATGGCTGCTG 59.115 47.619 0.00 0.00 32.74 4.41
2556 4517 1.881973 GACACAAAAGATGGCTGCTGA 59.118 47.619 0.00 0.00 0.00 4.26
2557 4518 2.294233 GACACAAAAGATGGCTGCTGAA 59.706 45.455 0.00 0.00 0.00 3.02
2558 4519 2.694628 ACACAAAAGATGGCTGCTGAAA 59.305 40.909 0.00 0.00 0.00 2.69
2559 4520 3.243636 ACACAAAAGATGGCTGCTGAAAG 60.244 43.478 0.00 0.00 0.00 2.62
2560 4521 2.298163 ACAAAAGATGGCTGCTGAAAGG 59.702 45.455 0.00 0.00 0.00 3.11
2561 4522 2.559668 CAAAAGATGGCTGCTGAAAGGA 59.440 45.455 0.00 0.00 0.00 3.36
2562 4523 1.831580 AAGATGGCTGCTGAAAGGAC 58.168 50.000 0.00 0.00 0.00 3.85
2563 4524 0.694771 AGATGGCTGCTGAAAGGACA 59.305 50.000 0.00 0.00 0.00 4.02
2564 4525 1.284198 AGATGGCTGCTGAAAGGACAT 59.716 47.619 0.00 0.00 0.00 3.06
2565 4526 1.404391 GATGGCTGCTGAAAGGACATG 59.596 52.381 0.00 0.00 0.00 3.21
2566 4527 0.111061 TGGCTGCTGAAAGGACATGT 59.889 50.000 0.00 0.00 0.00 3.21
2567 4528 0.524862 GGCTGCTGAAAGGACATGTG 59.475 55.000 1.15 0.00 0.00 3.21
2568 4529 1.242076 GCTGCTGAAAGGACATGTGT 58.758 50.000 1.15 0.00 0.00 3.72
2569 4530 1.610522 GCTGCTGAAAGGACATGTGTT 59.389 47.619 1.15 0.00 0.00 3.32
2570 4531 2.035066 GCTGCTGAAAGGACATGTGTTT 59.965 45.455 1.15 2.33 0.00 2.83
2571 4532 3.253188 GCTGCTGAAAGGACATGTGTTTA 59.747 43.478 1.15 0.00 0.00 2.01
2572 4533 4.787598 CTGCTGAAAGGACATGTGTTTAC 58.212 43.478 1.15 0.00 0.00 2.01
2573 4534 3.568007 TGCTGAAAGGACATGTGTTTACC 59.432 43.478 1.15 0.00 0.00 2.85
2574 4535 3.821033 GCTGAAAGGACATGTGTTTACCT 59.179 43.478 1.15 0.00 0.00 3.08
2575 4536 4.083271 GCTGAAAGGACATGTGTTTACCTC 60.083 45.833 1.15 0.00 0.00 3.85
2576 4537 5.042463 TGAAAGGACATGTGTTTACCTCA 57.958 39.130 1.15 0.00 0.00 3.86
2577 4538 5.063204 TGAAAGGACATGTGTTTACCTCAG 58.937 41.667 1.15 0.00 0.00 3.35
2578 4539 4.974645 AAGGACATGTGTTTACCTCAGA 57.025 40.909 1.15 0.00 0.00 3.27
2579 4540 5.505181 AAGGACATGTGTTTACCTCAGAT 57.495 39.130 1.15 0.00 0.00 2.90
2580 4541 5.091261 AGGACATGTGTTTACCTCAGATC 57.909 43.478 1.15 0.00 0.00 2.75
2581 4542 4.780021 AGGACATGTGTTTACCTCAGATCT 59.220 41.667 1.15 0.00 0.00 2.75
2582 4543 5.105146 AGGACATGTGTTTACCTCAGATCTC 60.105 44.000 1.15 0.00 0.00 2.75
2583 4544 5.105146 GGACATGTGTTTACCTCAGATCTCT 60.105 44.000 1.15 0.00 0.00 3.10
2584 4545 6.365970 ACATGTGTTTACCTCAGATCTCTT 57.634 37.500 0.00 0.00 0.00 2.85
2585 4546 6.773638 ACATGTGTTTACCTCAGATCTCTTT 58.226 36.000 0.00 0.00 0.00 2.52
2586 4547 7.227156 ACATGTGTTTACCTCAGATCTCTTTT 58.773 34.615 0.00 0.00 0.00 2.27
2587 4548 7.721399 ACATGTGTTTACCTCAGATCTCTTTTT 59.279 33.333 0.00 0.00 0.00 1.94
2588 4549 9.219603 CATGTGTTTACCTCAGATCTCTTTTTA 57.780 33.333 0.00 0.00 0.00 1.52
2589 4550 8.833231 TGTGTTTACCTCAGATCTCTTTTTAG 57.167 34.615 0.00 0.00 0.00 1.85
2590 4551 8.429641 TGTGTTTACCTCAGATCTCTTTTTAGT 58.570 33.333 0.00 0.00 0.00 2.24
2591 4552 8.927721 GTGTTTACCTCAGATCTCTTTTTAGTC 58.072 37.037 0.00 0.00 0.00 2.59
2592 4553 8.647796 TGTTTACCTCAGATCTCTTTTTAGTCA 58.352 33.333 0.00 0.00 0.00 3.41
2593 4554 8.927721 GTTTACCTCAGATCTCTTTTTAGTCAC 58.072 37.037 0.00 0.00 0.00 3.67
2594 4555 6.672266 ACCTCAGATCTCTTTTTAGTCACA 57.328 37.500 0.00 0.00 0.00 3.58
2595 4556 7.251321 ACCTCAGATCTCTTTTTAGTCACAT 57.749 36.000 0.00 0.00 0.00 3.21
2596 4557 7.102346 ACCTCAGATCTCTTTTTAGTCACATG 58.898 38.462 0.00 0.00 0.00 3.21
2597 4558 6.538021 CCTCAGATCTCTTTTTAGTCACATGG 59.462 42.308 0.00 0.00 0.00 3.66
2598 4559 6.409704 TCAGATCTCTTTTTAGTCACATGGG 58.590 40.000 0.00 0.00 0.00 4.00
2599 4560 5.065731 CAGATCTCTTTTTAGTCACATGGGC 59.934 44.000 0.00 0.00 0.00 5.36
2600 4561 4.640771 TCTCTTTTTAGTCACATGGGCT 57.359 40.909 0.00 0.00 0.00 5.19
2601 4562 4.985538 TCTCTTTTTAGTCACATGGGCTT 58.014 39.130 0.00 0.00 0.00 4.35
2602 4563 6.121776 TCTCTTTTTAGTCACATGGGCTTA 57.878 37.500 0.00 0.00 0.00 3.09
2603 4564 6.539173 TCTCTTTTTAGTCACATGGGCTTAA 58.461 36.000 0.00 0.00 0.00 1.85
2604 4565 7.175104 TCTCTTTTTAGTCACATGGGCTTAAT 58.825 34.615 0.00 0.00 0.00 1.40
2605 4566 7.121168 TCTCTTTTTAGTCACATGGGCTTAATG 59.879 37.037 0.00 0.00 0.00 1.90
2606 4567 6.719370 TCTTTTTAGTCACATGGGCTTAATGT 59.281 34.615 0.00 0.00 38.81 2.71
2607 4568 6.909550 TTTTAGTCACATGGGCTTAATGTT 57.090 33.333 0.00 0.00 36.10 2.71
2608 4569 8.410673 TTTTTAGTCACATGGGCTTAATGTTA 57.589 30.769 0.00 0.00 36.10 2.41
2609 4570 7.624360 TTTAGTCACATGGGCTTAATGTTAG 57.376 36.000 0.00 0.00 36.10 2.34
2610 4571 4.526970 AGTCACATGGGCTTAATGTTAGG 58.473 43.478 0.00 0.00 36.10 2.69
2611 4572 4.018415 AGTCACATGGGCTTAATGTTAGGT 60.018 41.667 0.00 0.00 36.10 3.08
2612 4573 4.705023 GTCACATGGGCTTAATGTTAGGTT 59.295 41.667 0.00 0.00 36.10 3.50
2613 4574 5.185056 GTCACATGGGCTTAATGTTAGGTTT 59.815 40.000 0.00 0.00 36.10 3.27
2614 4575 5.777732 TCACATGGGCTTAATGTTAGGTTTT 59.222 36.000 0.00 0.00 36.10 2.43
2615 4576 5.868801 CACATGGGCTTAATGTTAGGTTTTG 59.131 40.000 0.00 0.00 36.10 2.44
2616 4577 4.529109 TGGGCTTAATGTTAGGTTTTGC 57.471 40.909 0.00 0.00 0.00 3.68
2617 4578 3.898123 TGGGCTTAATGTTAGGTTTTGCA 59.102 39.130 0.00 0.00 0.00 4.08
2618 4579 4.345257 TGGGCTTAATGTTAGGTTTTGCAA 59.655 37.500 0.00 0.00 0.00 4.08
2619 4580 4.929211 GGGCTTAATGTTAGGTTTTGCAAG 59.071 41.667 0.00 0.00 0.00 4.01
2620 4581 5.279256 GGGCTTAATGTTAGGTTTTGCAAGA 60.279 40.000 0.00 0.00 0.00 3.02
2621 4582 6.398095 GGCTTAATGTTAGGTTTTGCAAGAT 58.602 36.000 0.00 0.00 0.00 2.40
2622 4583 6.873605 GGCTTAATGTTAGGTTTTGCAAGATT 59.126 34.615 0.00 0.00 0.00 2.40
2623 4584 7.063426 GGCTTAATGTTAGGTTTTGCAAGATTC 59.937 37.037 0.00 0.00 0.00 2.52
2624 4585 7.814587 GCTTAATGTTAGGTTTTGCAAGATTCT 59.185 33.333 0.00 0.33 0.00 2.40
2625 4586 9.696917 CTTAATGTTAGGTTTTGCAAGATTCTT 57.303 29.630 0.00 0.00 0.00 2.52
2627 4588 8.593492 AATGTTAGGTTTTGCAAGATTCTTTC 57.407 30.769 0.00 0.00 0.00 2.62
2628 4589 7.106439 TGTTAGGTTTTGCAAGATTCTTTCA 57.894 32.000 0.00 0.00 0.00 2.69
2629 4590 6.978080 TGTTAGGTTTTGCAAGATTCTTTCAC 59.022 34.615 0.00 0.00 0.00 3.18
2630 4591 4.948847 AGGTTTTGCAAGATTCTTTCACC 58.051 39.130 0.00 0.00 0.00 4.02
2631 4592 4.405358 AGGTTTTGCAAGATTCTTTCACCA 59.595 37.500 0.00 0.00 0.00 4.17
2632 4593 4.746611 GGTTTTGCAAGATTCTTTCACCAG 59.253 41.667 0.00 0.00 0.00 4.00
2633 4594 5.451798 GGTTTTGCAAGATTCTTTCACCAGA 60.452 40.000 0.00 0.00 0.00 3.86
2634 4595 6.218746 GTTTTGCAAGATTCTTTCACCAGAT 58.781 36.000 0.00 0.00 0.00 2.90
2635 4596 7.370383 GTTTTGCAAGATTCTTTCACCAGATA 58.630 34.615 0.00 0.00 0.00 1.98
2636 4597 6.748333 TTGCAAGATTCTTTCACCAGATAG 57.252 37.500 0.00 0.00 0.00 2.08
2637 4598 6.053632 TGCAAGATTCTTTCACCAGATAGA 57.946 37.500 0.00 0.00 31.23 1.98
2638 4599 5.877012 TGCAAGATTCTTTCACCAGATAGAC 59.123 40.000 0.00 0.00 32.59 2.59
2639 4600 5.877012 GCAAGATTCTTTCACCAGATAGACA 59.123 40.000 0.00 0.00 32.59 3.41
2640 4601 6.183360 GCAAGATTCTTTCACCAGATAGACAC 60.183 42.308 0.00 0.00 32.59 3.67
2641 4602 6.611613 AGATTCTTTCACCAGATAGACACA 57.388 37.500 0.00 0.00 32.59 3.72
2642 4603 7.009179 AGATTCTTTCACCAGATAGACACAA 57.991 36.000 0.00 0.00 32.59 3.33
2643 4604 7.453393 AGATTCTTTCACCAGATAGACACAAA 58.547 34.615 0.00 0.00 32.59 2.83
2644 4605 7.939039 AGATTCTTTCACCAGATAGACACAAAA 59.061 33.333 0.00 0.00 32.59 2.44
2645 4606 7.496529 TTCTTTCACCAGATAGACACAAAAG 57.503 36.000 0.00 0.00 32.59 2.27
2646 4607 6.826668 TCTTTCACCAGATAGACACAAAAGA 58.173 36.000 0.00 0.00 28.60 2.52
2647 4608 7.453393 TCTTTCACCAGATAGACACAAAAGAT 58.547 34.615 0.00 0.00 28.60 2.40
2648 4609 7.388776 TCTTTCACCAGATAGACACAAAAGATG 59.611 37.037 0.00 0.00 28.60 2.90
2649 4610 5.491070 TCACCAGATAGACACAAAAGATGG 58.509 41.667 0.00 0.00 0.00 3.51
2650 4611 4.095483 CACCAGATAGACACAAAAGATGGC 59.905 45.833 0.00 0.00 0.00 4.40
2651 4612 4.018960 ACCAGATAGACACAAAAGATGGCT 60.019 41.667 0.00 0.00 39.39 4.75
2689 4650 1.118356 GCCCCCATGTGTGGTTTTGA 61.118 55.000 0.00 0.00 44.48 2.69
2811 4772 2.489938 TATGAGTTGACCAAGGTGCC 57.510 50.000 0.00 0.00 0.00 5.01
2919 4880 8.408043 TCATTCATGTTTACCTTCAAGACATT 57.592 30.769 0.00 0.00 0.00 2.71
3062 5023 4.320935 GGTTTCGTAAGCATTGTCCATTGT 60.321 41.667 0.00 0.00 37.18 2.71
3070 5031 3.132925 GCATTGTCCATTGTGCTTTGTT 58.867 40.909 0.00 0.00 34.85 2.83
3138 5099 1.898574 CCTTGGGCTTGCGTCAAGT 60.899 57.895 17.05 0.00 42.77 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 1.293924 CACTATCTTCAAGGCCAGCG 58.706 55.000 5.01 0.00 0.00 5.18
118 1047 6.090763 CGCGTGTAATATACATCCATGTGATT 59.909 38.462 0.00 5.05 41.89 2.57
123 1052 4.684242 ACACGCGTGTAATATACATCCATG 59.316 41.667 41.14 11.48 42.90 3.66
141 1070 1.332375 TGAGCACCAAACTTTACACGC 59.668 47.619 0.00 0.00 0.00 5.34
219 1149 6.614160 TGTAAAGATGAACATTGCTCACATG 58.386 36.000 0.00 0.00 0.00 3.21
222 1152 7.928908 TTTTGTAAAGATGAACATTGCTCAC 57.071 32.000 0.00 0.00 0.00 3.51
223 1153 8.358895 TGATTTTGTAAAGATGAACATTGCTCA 58.641 29.630 0.00 0.00 0.00 4.26
306 1239 9.716507 GTTCAACATGTTTATATGGATGTGTAC 57.283 33.333 8.77 0.00 32.32 2.90
307 1240 9.679661 AGTTCAACATGTTTATATGGATGTGTA 57.320 29.630 8.77 0.00 32.32 2.90
308 1241 8.579850 AGTTCAACATGTTTATATGGATGTGT 57.420 30.769 8.77 0.00 32.32 3.72
378 1334 3.253188 GCTCTAGACTCTAGTGAGCCATG 59.747 52.174 16.20 0.00 43.85 3.66
380 1336 2.925724 GCTCTAGACTCTAGTGAGCCA 58.074 52.381 16.20 0.00 43.85 4.75
487 1445 3.936453 TGCCCGAACATAGACATAAACAC 59.064 43.478 0.00 0.00 0.00 3.32
490 1448 3.118408 AGCTGCCCGAACATAGACATAAA 60.118 43.478 0.00 0.00 0.00 1.40
491 1449 2.434336 AGCTGCCCGAACATAGACATAA 59.566 45.455 0.00 0.00 0.00 1.90
508 1468 2.094700 TGTAGCCACTCGACTAAAGCTG 60.095 50.000 0.00 0.00 0.00 4.24
549 1513 2.790433 ACGTGTATGTGCATCCCTTTT 58.210 42.857 0.00 0.00 0.00 2.27
589 1553 3.055719 CATCCCCCGTGTGTGTGC 61.056 66.667 0.00 0.00 0.00 4.57
599 1575 0.396060 TGCAAGCAAAAACATCCCCC 59.604 50.000 0.00 0.00 0.00 5.40
646 1688 4.432712 GCCCATTGTTCATCACCATTTAC 58.567 43.478 0.00 0.00 0.00 2.01
669 1711 3.683802 GATGGAGGAATGATGGGCTAAG 58.316 50.000 0.00 0.00 0.00 2.18
696 1922 7.021196 CACCCTAAAAATATGTGTATATGCGC 58.979 38.462 0.00 0.00 30.00 6.09
764 1991 9.520515 GGAGGATCACCATTAATTACATATTGT 57.479 33.333 0.00 0.00 38.94 2.71
767 1994 8.230848 TGGGAGGATCACCATTAATTACATAT 57.769 34.615 9.76 0.00 38.18 1.78
771 1998 5.535030 GGTTGGGAGGATCACCATTAATTAC 59.465 44.000 9.76 2.57 38.18 1.89
774 2001 3.531397 TGGTTGGGAGGATCACCATTAAT 59.469 43.478 9.76 0.00 38.18 1.40
775 2002 2.922955 TGGTTGGGAGGATCACCATTAA 59.077 45.455 9.76 0.98 38.18 1.40
776 2003 2.241176 GTGGTTGGGAGGATCACCATTA 59.759 50.000 3.87 0.00 38.18 1.90
816 2049 2.252072 GATGGGCTAAGGCGTGACCA 62.252 60.000 4.62 4.62 43.14 4.02
820 2058 0.947244 GAATGATGGGCTAAGGCGTG 59.053 55.000 0.00 0.00 39.81 5.34
821 2059 0.179018 GGAATGATGGGCTAAGGCGT 60.179 55.000 0.00 0.00 39.81 5.68
823 2061 1.546548 GGAGGAATGATGGGCTAAGGC 60.547 57.143 0.00 0.00 37.82 4.35
826 2064 2.038952 CGATGGAGGAATGATGGGCTAA 59.961 50.000 0.00 0.00 0.00 3.09
827 2065 1.625315 CGATGGAGGAATGATGGGCTA 59.375 52.381 0.00 0.00 0.00 3.93
830 2068 0.037303 CCCGATGGAGGAATGATGGG 59.963 60.000 0.00 0.00 0.00 4.00
831 2069 0.037303 CCCCGATGGAGGAATGATGG 59.963 60.000 0.00 0.00 35.39 3.51
834 2072 1.004230 ACCCCCGATGGAGGAATGA 59.996 57.895 0.00 0.00 35.39 2.57
835 2073 1.344953 TGACCCCCGATGGAGGAATG 61.345 60.000 0.00 0.00 35.39 2.67
837 2075 1.689233 CTGACCCCCGATGGAGGAA 60.689 63.158 0.00 0.00 35.39 3.36
838 2076 2.041922 CTGACCCCCGATGGAGGA 60.042 66.667 0.00 0.00 35.39 3.71
839 2077 0.689745 TAACTGACCCCCGATGGAGG 60.690 60.000 0.00 0.00 35.39 4.30
840 2078 1.070758 CATAACTGACCCCCGATGGAG 59.929 57.143 0.00 0.00 35.39 3.86
841 2079 1.128200 CATAACTGACCCCCGATGGA 58.872 55.000 0.00 0.00 35.39 3.41
842 2080 0.535102 GCATAACTGACCCCCGATGG 60.535 60.000 0.00 0.00 0.00 3.51
882 2123 1.839296 CGGGGAGAGGGGGAAGATC 60.839 68.421 0.00 0.00 0.00 2.75
915 2156 2.437359 GCAAGCGGCACTGGATCT 60.437 61.111 1.45 0.00 43.97 2.75
936 2192 2.473816 CGTGAGTTTGACAGCTGAAGA 58.526 47.619 23.35 1.78 0.00 2.87
951 2210 3.487711 CGAGAAGATTAGGTCACCGTGAG 60.488 52.174 0.08 0.00 0.00 3.51
1012 2664 4.216257 CGGTCAATGAAAAGAGGACAATGT 59.784 41.667 0.00 0.00 0.00 2.71
1042 2817 3.836762 GGTTCTCCCTTCGAAGACC 57.163 57.895 26.61 20.09 34.32 3.85
1106 2886 6.161381 AGTCACAAAGATGGAAATTTGATGC 58.839 36.000 0.00 0.00 38.42 3.91
1133 2913 4.118410 TCAGTCGCAAACATGCAATTTTT 58.882 34.783 0.00 0.00 34.41 1.94
1144 2924 4.208873 TGCAATTTTGATTCAGTCGCAAAC 59.791 37.500 0.00 0.00 31.89 2.93
1196 2981 5.063880 ACACCCAGACTTGACATACTTTTC 58.936 41.667 0.00 0.00 0.00 2.29
1342 3286 4.006319 GCTGAGCCTATCAACTTTCTTGT 58.994 43.478 0.00 0.00 37.52 3.16
1491 3435 1.349026 CTTTGGCAGGAAGTCCAGAGA 59.651 52.381 0.00 0.00 36.89 3.10
1741 3685 6.892485 ACCATGTCAATGATCTCATACTTCA 58.108 36.000 0.00 0.00 35.67 3.02
2054 4001 3.806949 AGCCAACCTTCAAAGACCATA 57.193 42.857 0.00 0.00 0.00 2.74
2207 4154 7.559533 ACCTTTTTGGAATTAAATGCCAACTTT 59.440 29.630 3.09 0.00 41.08 2.66
2226 4174 6.231211 AGTGACAATCTCGACATACCTTTTT 58.769 36.000 0.00 0.00 0.00 1.94
2257 4206 1.654220 GCGCAGAAGAAGCCACAAA 59.346 52.632 0.30 0.00 0.00 2.83
2272 4229 1.947013 CACATGATGAGATGGGCGC 59.053 57.895 0.00 0.00 0.00 6.53
2273 4230 1.947013 GCACATGATGAGATGGGCG 59.053 57.895 0.00 0.00 42.69 6.13
2319 4276 0.878961 GACATGGCGTCGGGTATTCC 60.879 60.000 0.00 0.00 34.19 3.01
2355 4312 7.344612 TGAGGTAGATTCATAAACCTTAGCTGA 59.655 37.037 0.00 0.00 42.40 4.26
2368 4325 6.043012 CCTTCAGGAAGATGAGGTAGATTCAT 59.957 42.308 10.52 0.00 40.79 2.57
2408 4365 6.018425 CGCAGCTTCAAGAATATACATTGTCT 60.018 38.462 0.00 0.00 0.00 3.41
2475 4432 4.337555 CCCATGTGGCTAAAAAGAGATCTG 59.662 45.833 0.00 0.00 0.00 2.90
2538 4499 3.314553 CTTTCAGCAGCCATCTTTTGTG 58.685 45.455 0.00 0.00 0.00 3.33
2555 4516 5.305585 TCTGAGGTAAACACATGTCCTTTC 58.694 41.667 4.64 0.00 0.00 2.62
2556 4517 5.304686 TCTGAGGTAAACACATGTCCTTT 57.695 39.130 4.64 4.29 0.00 3.11
2557 4518 4.974645 TCTGAGGTAAACACATGTCCTT 57.025 40.909 4.64 0.00 0.00 3.36
2558 4519 4.780021 AGATCTGAGGTAAACACATGTCCT 59.220 41.667 2.78 2.78 0.00 3.85
2559 4520 5.091261 AGATCTGAGGTAAACACATGTCC 57.909 43.478 0.00 0.00 0.00 4.02
2560 4521 5.971763 AGAGATCTGAGGTAAACACATGTC 58.028 41.667 0.00 0.00 0.00 3.06
2561 4522 6.365970 AAGAGATCTGAGGTAAACACATGT 57.634 37.500 0.00 0.00 0.00 3.21
2562 4523 7.678947 AAAAGAGATCTGAGGTAAACACATG 57.321 36.000 0.00 0.00 0.00 3.21
2563 4524 9.442047 CTAAAAAGAGATCTGAGGTAAACACAT 57.558 33.333 0.00 0.00 0.00 3.21
2564 4525 8.429641 ACTAAAAAGAGATCTGAGGTAAACACA 58.570 33.333 0.00 0.00 0.00 3.72
2565 4526 8.834749 ACTAAAAAGAGATCTGAGGTAAACAC 57.165 34.615 0.00 0.00 0.00 3.32
2566 4527 8.647796 TGACTAAAAAGAGATCTGAGGTAAACA 58.352 33.333 0.00 0.00 0.00 2.83
2567 4528 8.927721 GTGACTAAAAAGAGATCTGAGGTAAAC 58.072 37.037 0.00 0.00 0.00 2.01
2568 4529 8.647796 TGTGACTAAAAAGAGATCTGAGGTAAA 58.352 33.333 0.00 0.00 0.00 2.01
2569 4530 8.190326 TGTGACTAAAAAGAGATCTGAGGTAA 57.810 34.615 0.00 0.00 0.00 2.85
2570 4531 7.776618 TGTGACTAAAAAGAGATCTGAGGTA 57.223 36.000 0.00 0.00 0.00 3.08
2571 4532 6.672266 TGTGACTAAAAAGAGATCTGAGGT 57.328 37.500 0.00 0.00 0.00 3.85
2572 4533 6.538021 CCATGTGACTAAAAAGAGATCTGAGG 59.462 42.308 0.00 0.00 0.00 3.86
2573 4534 6.538021 CCCATGTGACTAAAAAGAGATCTGAG 59.462 42.308 0.00 0.00 0.00 3.35
2574 4535 6.409704 CCCATGTGACTAAAAAGAGATCTGA 58.590 40.000 0.00 0.00 0.00 3.27
2575 4536 5.065731 GCCCATGTGACTAAAAAGAGATCTG 59.934 44.000 0.00 0.00 0.00 2.90
2576 4537 5.045286 AGCCCATGTGACTAAAAAGAGATCT 60.045 40.000 0.00 0.00 0.00 2.75
2577 4538 5.189180 AGCCCATGTGACTAAAAAGAGATC 58.811 41.667 0.00 0.00 0.00 2.75
2578 4539 5.184892 AGCCCATGTGACTAAAAAGAGAT 57.815 39.130 0.00 0.00 0.00 2.75
2579 4540 4.640771 AGCCCATGTGACTAAAAAGAGA 57.359 40.909 0.00 0.00 0.00 3.10
2580 4541 6.817765 TTAAGCCCATGTGACTAAAAAGAG 57.182 37.500 0.00 0.00 0.00 2.85
2581 4542 6.719370 ACATTAAGCCCATGTGACTAAAAAGA 59.281 34.615 0.00 0.00 33.42 2.52
2582 4543 6.924111 ACATTAAGCCCATGTGACTAAAAAG 58.076 36.000 0.00 0.00 33.42 2.27
2583 4544 6.909550 ACATTAAGCCCATGTGACTAAAAA 57.090 33.333 0.00 0.00 33.42 1.94
2584 4545 6.909550 AACATTAAGCCCATGTGACTAAAA 57.090 33.333 0.00 0.00 34.97 1.52
2585 4546 6.601613 CCTAACATTAAGCCCATGTGACTAAA 59.398 38.462 0.00 0.00 34.97 1.85
2586 4547 6.119536 CCTAACATTAAGCCCATGTGACTAA 58.880 40.000 0.00 0.00 34.97 2.24
2587 4548 5.190925 ACCTAACATTAAGCCCATGTGACTA 59.809 40.000 0.00 0.00 34.97 2.59
2588 4549 4.018415 ACCTAACATTAAGCCCATGTGACT 60.018 41.667 0.00 0.00 34.97 3.41
2589 4550 4.270008 ACCTAACATTAAGCCCATGTGAC 58.730 43.478 0.00 0.00 34.97 3.67
2590 4551 4.584638 ACCTAACATTAAGCCCATGTGA 57.415 40.909 0.00 0.00 34.97 3.58
2591 4552 5.659440 AAACCTAACATTAAGCCCATGTG 57.341 39.130 0.00 0.00 34.97 3.21
2592 4553 5.568624 GCAAAACCTAACATTAAGCCCATGT 60.569 40.000 0.00 0.00 36.36 3.21
2593 4554 4.869861 GCAAAACCTAACATTAAGCCCATG 59.130 41.667 0.00 0.00 0.00 3.66
2594 4555 4.530161 TGCAAAACCTAACATTAAGCCCAT 59.470 37.500 0.00 0.00 0.00 4.00
2595 4556 3.898123 TGCAAAACCTAACATTAAGCCCA 59.102 39.130 0.00 0.00 0.00 5.36
2596 4557 4.529109 TGCAAAACCTAACATTAAGCCC 57.471 40.909 0.00 0.00 0.00 5.19
2597 4558 5.778862 TCTTGCAAAACCTAACATTAAGCC 58.221 37.500 0.00 0.00 0.00 4.35
2598 4559 7.814587 AGAATCTTGCAAAACCTAACATTAAGC 59.185 33.333 0.00 0.00 0.00 3.09
2599 4560 9.696917 AAGAATCTTGCAAAACCTAACATTAAG 57.303 29.630 0.00 0.00 0.00 1.85
2601 4562 9.691362 GAAAGAATCTTGCAAAACCTAACATTA 57.309 29.630 0.00 0.00 0.00 1.90
2602 4563 8.203485 TGAAAGAATCTTGCAAAACCTAACATT 58.797 29.630 0.15 0.00 0.00 2.71
2603 4564 7.653311 GTGAAAGAATCTTGCAAAACCTAACAT 59.347 33.333 5.03 0.00 0.00 2.71
2604 4565 6.978080 GTGAAAGAATCTTGCAAAACCTAACA 59.022 34.615 5.03 0.00 0.00 2.41
2605 4566 6.420903 GGTGAAAGAATCTTGCAAAACCTAAC 59.579 38.462 5.03 0.00 0.00 2.34
2606 4567 6.097554 TGGTGAAAGAATCTTGCAAAACCTAA 59.902 34.615 5.03 0.00 0.00 2.69
2607 4568 5.596361 TGGTGAAAGAATCTTGCAAAACCTA 59.404 36.000 5.03 0.00 0.00 3.08
2608 4569 4.405358 TGGTGAAAGAATCTTGCAAAACCT 59.595 37.500 5.03 0.00 0.00 3.50
2609 4570 4.692228 TGGTGAAAGAATCTTGCAAAACC 58.308 39.130 5.03 3.80 0.00 3.27
2610 4571 5.591099 TCTGGTGAAAGAATCTTGCAAAAC 58.409 37.500 5.03 0.32 0.00 2.43
2611 4572 5.850557 TCTGGTGAAAGAATCTTGCAAAA 57.149 34.783 5.03 0.00 0.00 2.44
2612 4573 6.942005 TCTATCTGGTGAAAGAATCTTGCAAA 59.058 34.615 5.03 0.00 0.00 3.68
2613 4574 6.372659 GTCTATCTGGTGAAAGAATCTTGCAA 59.627 38.462 5.03 0.00 0.00 4.08
2614 4575 5.877012 GTCTATCTGGTGAAAGAATCTTGCA 59.123 40.000 0.00 0.00 0.00 4.08
2615 4576 5.877012 TGTCTATCTGGTGAAAGAATCTTGC 59.123 40.000 0.00 0.00 0.00 4.01
2616 4577 6.875726 TGTGTCTATCTGGTGAAAGAATCTTG 59.124 38.462 0.00 0.00 0.00 3.02
2617 4578 7.009179 TGTGTCTATCTGGTGAAAGAATCTT 57.991 36.000 0.00 0.00 0.00 2.40
2618 4579 6.611613 TGTGTCTATCTGGTGAAAGAATCT 57.388 37.500 0.00 0.00 0.00 2.40
2619 4580 7.672983 TTTGTGTCTATCTGGTGAAAGAATC 57.327 36.000 0.00 0.00 0.00 2.52
2620 4581 7.939039 TCTTTTGTGTCTATCTGGTGAAAGAAT 59.061 33.333 0.00 0.00 30.36 2.40
2621 4582 7.279615 TCTTTTGTGTCTATCTGGTGAAAGAA 58.720 34.615 0.00 0.00 30.36 2.52
2622 4583 6.826668 TCTTTTGTGTCTATCTGGTGAAAGA 58.173 36.000 0.00 0.00 0.00 2.52
2623 4584 7.361542 CCATCTTTTGTGTCTATCTGGTGAAAG 60.362 40.741 0.00 0.00 0.00 2.62
2624 4585 6.430925 CCATCTTTTGTGTCTATCTGGTGAAA 59.569 38.462 0.00 0.00 0.00 2.69
2625 4586 5.939883 CCATCTTTTGTGTCTATCTGGTGAA 59.060 40.000 0.00 0.00 0.00 3.18
2626 4587 5.491070 CCATCTTTTGTGTCTATCTGGTGA 58.509 41.667 0.00 0.00 0.00 4.02
2627 4588 4.095483 GCCATCTTTTGTGTCTATCTGGTG 59.905 45.833 0.00 0.00 0.00 4.17
2628 4589 4.018960 AGCCATCTTTTGTGTCTATCTGGT 60.019 41.667 0.00 0.00 0.00 4.00
2629 4590 4.334759 CAGCCATCTTTTGTGTCTATCTGG 59.665 45.833 0.00 0.00 0.00 3.86
2630 4591 4.201891 GCAGCCATCTTTTGTGTCTATCTG 60.202 45.833 0.00 0.00 0.00 2.90
2631 4592 3.944015 GCAGCCATCTTTTGTGTCTATCT 59.056 43.478 0.00 0.00 0.00 1.98
2632 4593 3.944015 AGCAGCCATCTTTTGTGTCTATC 59.056 43.478 0.00 0.00 0.00 2.08
2633 4594 3.693085 CAGCAGCCATCTTTTGTGTCTAT 59.307 43.478 0.00 0.00 0.00 1.98
2634 4595 3.076621 CAGCAGCCATCTTTTGTGTCTA 58.923 45.455 0.00 0.00 0.00 2.59
2635 4596 1.884579 CAGCAGCCATCTTTTGTGTCT 59.115 47.619 0.00 0.00 0.00 3.41
2636 4597 1.881973 TCAGCAGCCATCTTTTGTGTC 59.118 47.619 0.00 0.00 0.00 3.67
2637 4598 1.985473 TCAGCAGCCATCTTTTGTGT 58.015 45.000 0.00 0.00 0.00 3.72
2638 4599 3.314553 CTTTCAGCAGCCATCTTTTGTG 58.685 45.455 0.00 0.00 0.00 3.33
2639 4600 2.298163 CCTTTCAGCAGCCATCTTTTGT 59.702 45.455 0.00 0.00 0.00 2.83
2640 4601 2.559668 TCCTTTCAGCAGCCATCTTTTG 59.440 45.455 0.00 0.00 0.00 2.44
2641 4602 2.560105 GTCCTTTCAGCAGCCATCTTTT 59.440 45.455 0.00 0.00 0.00 2.27
2642 4603 2.165998 GTCCTTTCAGCAGCCATCTTT 58.834 47.619 0.00 0.00 0.00 2.52
2643 4604 1.074405 TGTCCTTTCAGCAGCCATCTT 59.926 47.619 0.00 0.00 0.00 2.40
2644 4605 0.694771 TGTCCTTTCAGCAGCCATCT 59.305 50.000 0.00 0.00 0.00 2.90
2645 4606 1.404391 CATGTCCTTTCAGCAGCCATC 59.596 52.381 0.00 0.00 0.00 3.51
2646 4607 1.471119 CATGTCCTTTCAGCAGCCAT 58.529 50.000 0.00 0.00 0.00 4.40
2647 4608 1.246056 GCATGTCCTTTCAGCAGCCA 61.246 55.000 0.00 0.00 0.00 4.75
2648 4609 1.509923 GCATGTCCTTTCAGCAGCC 59.490 57.895 0.00 0.00 0.00 4.85
2649 4610 1.136147 CGCATGTCCTTTCAGCAGC 59.864 57.895 0.00 0.00 0.00 5.25
2650 4611 0.957395 ACCGCATGTCCTTTCAGCAG 60.957 55.000 0.00 0.00 0.00 4.24
2651 4612 1.073025 ACCGCATGTCCTTTCAGCA 59.927 52.632 0.00 0.00 0.00 4.41
2919 4880 7.689299 TCTTTCCAACTCTCTTCATTTGGATA 58.311 34.615 2.86 0.00 45.40 2.59
3044 5005 2.162208 AGCACAATGGACAATGCTTACG 59.838 45.455 3.99 0.00 46.06 3.18
3062 5023 2.036992 CCATGGGTTAGCAAACAAAGCA 59.963 45.455 2.85 0.00 37.34 3.91
3070 5031 2.890311 CACAAAGACCATGGGTTAGCAA 59.110 45.455 18.09 0.00 35.25 3.91
3138 5099 4.463070 CATGGGTTGTATGTGATCATCCA 58.537 43.478 0.00 0.00 35.70 3.41


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

AutoCloner maintained by Alex Coulton.